Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 39 of 235
Found at i:12835431 original size:19 final size:20
Alignment explanation
Indices: 12835393--12835440 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
12835383 TTTTTGTATT
12835393 CATTTCATATATCGGCATTA
1 CATTTCATATATCGGCATTA
12835413 CATTTCATCATA-C-GCATTA
1 CATTTCAT-ATATCGGCATTA
*
12835432 AATTTCATA
1 CATTTCATA
12835441 AAAAACCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 13 0.50
20 9 0.35
21 3 0.12
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.40
Consensus pattern (20 bp):
CATTTCATATATCGGCATTA
Found at i:12838137 original size:19 final size:19
Alignment explanation
Indices: 12838113--12838149 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
12838103 AAGAAGGGTG
12838113 ATGGGAAGGATTGAGATAT
1 ATGGGAAGGATTGAGATAT
12838132 ATGGGAAGGATTGAGATA
1 ATGGGAAGGATTGAGATA
12838150 CCTCTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.24
Consensus pattern (19 bp):
ATGGGAAGGATTGAGATAT
Found at i:12842256 original size:16 final size:16
Alignment explanation
Indices: 12842237--12842268 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12842227 ACTTGAAAAG
12842237 AAAATATATACATAAA
1 AAAATATATACATAAA
*
12842253 AAAATATTTACATAAA
1 AAAATATATACATAAA
12842269 GTTATATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATATACATAAA
Found at i:12849765 original size:41 final size:43
Alignment explanation
Indices: 12849704--12850134 Score: 153
Period size: 44 Copynumber: 9.6 Consensus size: 43
12849694 TCACCGTAGT
*
12849704 AAATCTTATCTCCTTGAAGTTGCAGTAGAGCAGATTAAA-A-C
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAATAGC
* **
12849745 AAATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AA-ATAGC
* * * * *
12849790 AAATCTTATTTCCCTGAAGTTACAATAGAACAGATTAAAGCTACAATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA--T---A-GC
* * * *
12849839 ATAAATCCTATCTCCCTGAAGTTACAGTGGAGTAGATTAAAGT-G-
1 --AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA-TAGC
* * * * * * *
12849883 -AACCTTATCTCCCTAAAGTTACAGTGGA-CTGGGTTGAAGCTA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGC-AGATT-AA-ATAGC
* ** * * *
12849926 AAATCTTATTTCCCTGAAGTTATAGTGGAGCGGGTTGAAACTA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAA-TAGC
* * * * *
12849970 GAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA--T---AG---C
* * * * *
12850021 AAATCTTATCTCCCTAAAGTTTCAGTGGAGCAGATCGAAGTTA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TAA-ATAGC
* * * * * *
12850065 AAGTCTTATCTCCCTGAATTTTCAGTGGAGCAGATCGAAGTTA-C
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT-TAA-ATAGC
*
12850109 AAGTCTTATCTCCCTGAAGTTGCAGT
1 AAATCTTATCTCCCTGAAGTTGCAGT
12850135 GGATTAGAAC
Statistics
Matches: 308, Mismatches: 52, Indels: 57
0.74 0.12 0.14
Matches are distributed among these distances:
41 60 0.19
42 5 0.02
43 5 0.02
44 135 0.44
45 32 0.10
47 1 0.00
48 2 0.01
49 1 0.00
50 1 0.00
51 64 0.21
52 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAATAGC
Found at i:12849946 original size:44 final size:44
Alignment explanation
Indices: 12849886--12849998 Score: 156
Period size: 44 Copynumber: 2.6 Consensus size: 44
12849876 TAAAGTGAAC
* * *
12849886 CTTATCTCCCTAAAGTTACAGTGGA-CTGGGTTGAAGCTACAAAT
1 CTTATTTCCCTGAAGTTACAGTGGAGC-GGGTTGAAACTACAAAT
* *
12849930 CTTATTTCCCTGAAGTTATAGTGGAGCGGGTTGAAACTACGAAT
1 CTTATTTCCCTGAAGTTACAGTGGAGCGGGTTGAAACTACAAAT
*
12849974 CTTATTTCCCTGAAGTTGCAGTGGA
1 CTTATTTCCCTGAAGTTACAGTGGA
12849999 ACAAATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 60 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
CTTATTTCCCTGAAGTTACAGTGGAGCGGGTTGAAACTACAAAT
Found at i:12850073 original size:139 final size:139
Alignment explanation
Indices: 12849886--12850137 Score: 330
Period size: 139 Copynumber: 1.8 Consensus size: 139
12849876 TAAAGTGAAC
* * * *
12849886 CTTATCTCCCTAAAGTTACAGTGGACTGGGTTGAAGCTACAAATCTTATTTCCCTGAAGTTAT-A
1 CTTATCTCCCTAAAGTTACAGTGGACTAGATCGAAGCTACAAATCTTATCTCCCTGAA-TTATCA
* * * *
12849950 GTGGAGCGGGTTGAAACTACGAA-TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
65 GTGGAGCAGATCGAAACTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTAC
12850014 AAGTTACAAAT
129 AAGTTACAAAT
* * * *
12850025 CTTATCTCCCTAAAGTTTCAGTGGAGC-AGATCGAAGTTACAAGTCTTATCTCCCTGAATTTTCA
1 CTTATCTCCCTAAAGTTACAGTGGA-CTAGATCGAAGCTACAAATCTTATCTCCCTGAATTATCA
**
12850089 GTGGAGCAGATCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
65 GTGGAGCAGATCGAAACTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
12850138 TTAGAACAAG
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 5 0.05
139 90 0.94
140 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (139 bp):
CTTATCTCCCTAAAGTTACAGTGGACTAGATCGAAGCTACAAATCTTATCTCCCTGAATTATCAG
TGGAGCAGATCGAAACTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAAATTAAAGCTACAA
GTTACAAAT
Found at i:12850077 original size:44 final size:44
Alignment explanation
Indices: 12850014--12850137 Score: 212
Period size: 44 Copynumber: 2.8 Consensus size: 44
12850004 TTAAAGCTAC
* *
12850014 AAGTTACAAATCTTATCTCCCTAAAGTTTCAGTGGAGCAGATCG
1 AAGTTACAAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGATCG
*
12850058 AAGTTACAAGTCTTATCTCCCTGAATTTTCAGTGGAGCAGATCG
1 AAGTTACAAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGATCG
*
12850102 AAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 AAGTTACAAGTCTTATCTCCCTGAAGTTTCAGTGGA
12850138 TTAGAACAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
AAGTTACAAGTCTTATCTCCCTGAAGTTTCAGTGGAGCAGATCG
Found at i:12850110 original size:95 final size:95
Alignment explanation
Indices: 12849743--12850112 Score: 221
Period size: 95 Copynumber: 4.0 Consensus size: 95
12849733 GCAGATTAAA
** * * * *
12849743 ACAAATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGA-TAGCAAATCTTATTTCCCTGA
1 ACAAATCTTATCTCCCTAAAGTTATAGTGGAGCAGATCGAA-ACTA-CGAATCTTATCTCCCTGA
* * * * *
12849807 AGTTACAATAGAACAGATTAAAGCTACAA--T
64 AGTTGCAGTGGAACAAATCAAAGCTACAAGTT
* * * * * * * *
12849837 ACATAAATCCTATCTCCCTGAAGTTACAGTGGAGTAGAT-TAAAGT--GAACCTTATCTCCCTAA
1 AC--AAATCTTATCTCCCTAAAGTTATAGTGGAGCAGATCGAAACTACGAATCTTATCTCCCTGA
* * * ** *
12849899 AGTTACAGTGG-AC---T---GGGTTGAAGCT
64 AGTTGCAGTGGAACAAATCAAAGCTACAAGTT
* * * * * *
12849924 ACAAATCTTATTTCCCTGAAGTTATAGTGGAGCGGGTTGAAACTACGAATCTTATTTCCCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTATAGTGGAGCAGATCGAAACTACGAATCTTATCTCCCTGAAG
*
12849989 TTGCAGTGGAACAAATTAAAGCTACAAGTT
66 TTGCAGTGGAACAAATCAAAGCTACAAGTT
**
12850019 ACAAATCTTATCTCCCTAAAGTT-TCAGTGGAGCAGATCGAAGTTAC-AAGTCTTATCTCCCTGA
1 ACAAATCTTATCTCCCTAAAGTTAT-AGTGGAGCAGATCGAAACTACGAA-TCTTATCTCCCTGA
* * * * * *
12850082 ATTTTCAGTGGAGCAGATCGAAGTTACAAGT
64 AGTTGCAGTGGAACAAATCAAAGCTACAAGT
12850113 CTTATCTCCC
Statistics
Matches: 211, Mismatches: 48, Indels: 33
0.72 0.16 0.11
Matches are distributed among these distances:
85 33 0.16
86 4 0.02
87 3 0.01
88 25 0.12
89 2 0.01
91 2 0.01
92 23 0.11
94 6 0.03
95 83 0.39
96 30 0.14
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (95 bp):
ACAAATCTTATCTCCCTAAAGTTATAGTGGAGCAGATCGAAACTACGAATCTTATCTCCCTGAAG
TTGCAGTGGAACAAATCAAAGCTACAAGTT
Found at i:12861288 original size:23 final size:23
Alignment explanation
Indices: 12861260--12861303 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
12861250 TAATACTATT
12861260 TAATAA-TGGTAACAATAGTAAAA
1 TAATAAGTGG-AACAATAGTAAAA
*
12861283 TAATAAGTGGAACATTAGTAA
1 TAATAAGTGGAACAATAGTAA
12861304 TAACCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (23 bp):
TAATAAGTGGAACAATAGTAAAA
Found at i:12863327 original size:39 final size:41
Alignment explanation
Indices: 12863254--12863343 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
12863244 TAAAAAATAT
* * *
12863254 TTATAATAAAAAACACTACTATAAATATAATAAATGTTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
12863295 TTATATTAAAAAACAC-A-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
*
12863334 TTGTATTAAA
1 TTATATTAAA
12863344 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
40 1 0.02
41 15 0.33
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (41 bp):
TTATATTAAAAAACACTACAATAAATATAATAAATATTTTA
Found at i:12877746 original size:15 final size:15
Alignment explanation
Indices: 12877726--12877754 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
12877716 GTTTTGTTTA
12877726 TTGGGCCGAGTGGAT
1 TTGGGCCGAGTGGAT
12877741 TTGGGCCGAGTGGA
1 TTGGGCCGAGTGGA
12877755 CCTTTACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.48, T:0.24
Consensus pattern (15 bp):
TTGGGCCGAGTGGAT
Found at i:12879914 original size:18 final size:19
Alignment explanation
Indices: 12879891--12879934 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
12879881 AAACATAATG
12879891 ATATATAAAAA-TA-ATACT
1 ATATATAAAAAGTATATA-T
12879909 ATATATAAAAAGTATATAT
1 ATATATAAAAAGTATATAT
12879928 ATATATA
1 ATATATA
12879935 TACACGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.46
19 10 0.42
20 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATATAAAAAGTATATAT
Found at i:12880047 original size:32 final size:33
Alignment explanation
Indices: 12880010--12880081 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
12880000 TAACATGTAC
* *
12880010 ATAATA-AGGTATTTAAATATATATATACATA-T
1 ATAATATA-GTATTTAAAAAAATATATACATAGT
*
12880042 ATAATATAGTATTTAAAAAAATGTATACATAGT
1 ATAATATAGTATTTAAAAAAATATATACATAGT
12880075 AT-ATATA
1 ATAATATA
12880082 CTAGGAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (33 bp):
ATAATATAGTATTTAAAAAAATATATACATAGT
Found at i:12880305 original size:24 final size:24
Alignment explanation
Indices: 12880269--12880335 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
12880259 ATTAAATGAT
*
12880269 ATATATACGTAATATATATAAAAA
1 ATATATACATAATATATATAAAAA
* *
12880293 ATGTATACATAATATAATATTAAAA
1 ATATATACATAATAT-ATATAAAAA
* *
12880318 ATATTTACATAGTATATA
1 ATATATACATAATATATA
12880336 CATATTAGAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (24 bp):
ATATATACATAATATATATAAAAA
Found at i:12880318 original size:25 final size:25
Alignment explanation
Indices: 12880251--12880342 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 25
12880241 AACATATAAA
* *
12880251 AATACAATATTAAATGATATATATACGT
1 AATATAATATTAAA--A-ATATATACAT
* *
12880279 AATAT-ATATAAAAAATGTATACAT
1 AATATAATATTAAAAATATATACAT
*
12880303 AATATAATATTAAAAATATTTACAT
1 AATATAATATTAAAAATATATACAT
12880328 AGTATATACATATTA
1 A--ATATA-ATATTA
12880343 GAGATAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
24 13 0.25
25 18 0.34
27 12 0.23
28 10 0.19
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.37
Consensus pattern (25 bp):
AATATAATATTAAAAATATATACAT
Found at i:12880584 original size:17 final size:17
Alignment explanation
Indices: 12880564--12880597 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12880554 TAATATTACA
* *
12880564 TAAATATATATATATAT
1 TAAAGATATATACATAT
12880581 TAAAGATATATACATAT
1 TAAAGATATATACATAT
12880598 GTAACAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (17 bp):
TAAAGATATATACATAT
Found at i:12880643 original size:21 final size:21
Alignment explanation
Indices: 12880619--12880658 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12880609 TATACTAATA
*
12880619 TTAATAACAAATATAATAAGG
1 TTAAAAACAAATATAATAAGG
* *
12880640 TTAAAAATAGATATAATAA
1 TTAAAAACAAATATAATAA
12880659 TAATATGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (21 bp):
TTAAAAACAAATATAATAAGG
Found at i:12880886 original size:22 final size:22
Alignment explanation
Indices: 12880848--12880924 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 22
12880838 TACTAATAAT
12880848 AATAATAATAACGATAATGGTAAA
1 AATAATAATAA--ATAATGGTAAA
* **
12880872 TATAATAATAAATAATATTAAA
1 AATAATAATAAATAATGGTAAA
12880894 AATAATAA-AAA-AATGGTAAA
1 AATAATAATAAATAATGGTAAA
12880914 AATAAT-ATAAA
1 AATAATAATAAA
12880925 AACTAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.02
20 16 0.35
21 3 0.07
22 16 0.35
24 10 0.22
ACGTcount: A:0.65, C:0.01, G:0.06, T:0.27
Consensus pattern (22 bp):
AATAATAATAAATAATGGTAAA
Found at i:12880920 original size:3 final size:3
Alignment explanation
Indices: 12880810--12880901 Score: 53
Period size: 3 Copynumber: 30.7 Consensus size: 3
12880800 TGAAACTAAA
** * * *
12880810 AAT AAT AAT TCT AAT AAT AGT AAA AAT -AT ACT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * *
12880857 AAC GAT AAT GGT AA- ATAT AAT AAT AAAT AAT ATT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT AAT AAT AA
12880902 AAAAATGGTA
Statistics
Matches: 63, Mismatches: 22, Indels: 8
0.68 0.24 0.09
Matches are distributed among these distances:
2 3 0.05
3 56 0.89
4 4 0.06
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12880926 original size:22 final size:22
Alignment explanation
Indices: 12880863--12880926 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
12880853 TAATAACGAT
*
12880863 AATGGTAAATATAATAATAAATAA
1 AATGGTAAAAATAAT-ATAAA-AA
*
12880887 TAT--TAAAAAT-A-ATAAAAA
1 AATGGTAAAAATAATATAAAAA
12880905 AATGGTAAAAATAATATAAAAA
1 AATGGTAAAAATAATATAAAAA
12880927 CTAAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
18 4 0.12
19 5 0.15
20 7 0.21
21 2 0.06
22 13 0.39
24 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (22 bp):
AATGGTAAAAATAATATAAAAA
Found at i:12881515 original size:25 final size:26
Alignment explanation
Indices: 12881475--12881529 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
12881465 TTCAAAAAGG
*
12881475 TATAATTTTTTTTTGTATTTTTAATA
1 TATAATTTTTTTTTGTATTTATAATA
12881501 TATAA-TTTTTTTTGTATTTATAATA
1 TATAATTTTTTTTTGTATTTATAATA
12881526 TATA
1 TATA
12881530 TAAGTTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (26 bp):
TATAATTTTTTTTTGTATTTATAATA
Found at i:12882810 original size:85 final size:85
Alignment explanation
Indices: 12882668--12882911 Score: 305
Period size: 85 Copynumber: 2.8 Consensus size: 85
12882658 TTTTTTTTAA
* * *
12882668 AAAAAAGG-AATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCCCGCAATATGAGTT
1 AAAAATGGAAATTGAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
12882732 GATTTTTGA-AACATAAATTG
65 GATTTTTGACAACAGAAATTG
* * *
12882752 AAAAATGGAAATTGAAAATACCTTAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATACGAGTT
1 AAAAATGGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT
12882817 GA-TTTTGACGAACAGAAATTG
65 GATTTTTGAC-AACAGAAATTG
* * * * *
12882838 AAAAATAGAGATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCTCAATATGAG
1 AAAAATGGAAATTGAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAG
12882903 TTGATTTTT
63 TTGATTTTT
12882912 TTGATGAATA
Statistics
Matches: 137, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
84 15 0.11
85 50 0.36
86 34 0.25
88 32 0.23
89 6 0.04
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (85 bp):
AAAAATGGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGACAACAGAAATTG
Found at i:12883050 original size:152 final size:153
Alignment explanation
Indices: 12882774--12883081 Score: 546
Period size: 152 Copynumber: 2.0 Consensus size: 153
12882764 TGAAAATACC
*
12882774 TTAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
1 TTAGCGTGTCCTGAGGCTCAACTCATCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
* * *
12882839 AAAATAGAGATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCTCAATATGAGT
66 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
12882904 TGA-TTTTTTTGATGAATAGAAA
131 TGATTTTTTTTGATGAATAGAAA
* *
12882926 TTAGCGTGTCCTGAGGCTCAACTCATCTATCGCAATATGAGTTGATTTTGACGAACATAAATTGA
1 TTAGCGTGTCCTGAGGCTCAACTCATCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
12882991 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
66 AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
*
12883056 TGATTTTTTTTTATGAATAGAAA
131 TGATTTTTTTTGATGAATAGAAA
12883079 TTA
1 TTA
12883082 AAATTACCTC
Statistics
Matches: 148, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
152 127 0.86
153 21 0.14
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (153 bp):
TTAGCGTGTCCTGAGGCTCAACTCATCTATCGCAATACGAGTTGATTTTGACGAACAGAAATTGA
AAAACAGAGATTGAAAACACCTCAGCATGTGAGCCGAGGCTCAGCTCACCTCTCGCAATATGAGT
TGATTTTTTTTGATGAATAGAAA
Found at i:12883154 original size:76 final size:76
Alignment explanation
Indices: 12882987--12883214 Score: 248
Period size: 76 Copynumber: 3.0 Consensus size: 76
12882977 CGAACATAAA
* * * * *
12882987 TTGAAA-AACAGAGATTGAAAACACCTCAGCATGTGAGCC-GAGGCTCAGCTCACCTCTCGCAAT
1 TTGAAAGAACAGAAATTGAAAATACCTCAACCTGT---CCTGAGGCTCAACTCACCTCTCGCAAT
12883050 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
** * * * * *
12883064 TTTTATGAATAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATAT
1 TTGAAAGAACAGAAATTGAAAA-TACCTCAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
12883128 GAGTTGATTTTT
65 GAGTTGATTTTT
* *
12883140 TTCGAAAG-ACAGAAATTGAAAATACCTCAACCTGTCTTGAGGCTTAACTCACCTCTCGCAATAT
1 TT-GAAAGAACAGAAATTGAAAATACCTCAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
12883204 GAGTTAATTTT
65 GAGTTGATTTT
12883215 GACGAACAGA
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
75 2 0.02
76 93 0.73
77 13 0.10
78 19 0.15
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (76 bp):
TTGAAAGAACAGAAATTGAAAATACCTCAACCTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTT
Found at i:12884306 original size:92 final size:92
Alignment explanation
Indices: 12884145--12884321 Score: 291
Period size: 92 Copynumber: 1.9 Consensus size: 92
12884135 ACTCCTTCCC
**
12884145 ATCCATCTAAGTGAGAATCAAAGCTCCACACGAGAATGTCTTCTTTACGACGTATGGTCATTCCC
1 ATCCATCTAAGTGAGAATCAAAGCTCCACACGAGAATACCTTCTTTACGACGTATGGTCATTCCC
12884210 AATTTGGTGCCCATTTTCCTCGCAGGT
66 AATTTGGTGCCCATTTTCCTCGCAGGT
* * * * *
12884237 ATCCATCTTAGTGAGGATCAAAGCTCCACCCGAGAATACCTTCTTTACGACGTATGGTCCTTCCT
1 ATCCATCTAAGTGAGAATCAAAGCTCCACACGAGAATACCTTCTTTACGACGTATGGTCATTCCC
12884302 AATTTGGTGCCCATTTTCCT
66 AATTTGGTGCCCATTTTCCT
12884322 TGTAGGTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.32
Consensus pattern (92 bp):
ATCCATCTAAGTGAGAATCAAAGCTCCACACGAGAATACCTTCTTTACGACGTATGGTCATTCCC
AATTTGGTGCCCATTTTCCTCGCAGGT
Found at i:12886115 original size:27 final size:24
Alignment explanation
Indices: 12886054--12886099 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
12886044 TAATAACATG
**
12886054 TACATAATACGGTATTTAAAAATA
1 TACATAATATAGTATTTAAAAATA
*
12886078 TATATAATATAGTATTTAAAAA
1 TACATAATATAGTATTTAAAAA
12886100 ATGTATACAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (24 bp):
TACATAATATAGTATTTAAAAATA
Found at i:12886551 original size:26 final size:26
Alignment explanation
Indices: 12886522--12886629 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12886512 TGGTACAAAT
12886522 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12886548 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12886574 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12886600 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12886626 TGAT
1 TGAT
12886630 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12888144 original size:26 final size:26
Alignment explanation
Indices: 12888115--12888167 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
12888105 TTTACAGTTT
12888115 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
12888141 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
12888167 T
1 T
12888168 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:12889417 original size:25 final size:25
Alignment explanation
Indices: 12889352--12889441 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
12889342 AACATATAAA
* **
12889352 AATATAATATTAAATTATATATATGT
1 AATATAATATTAAA-AATATATACAT
* *
12889378 AATAT-ATATAAAAAATGTATACAT
1 AATATAATATTAAAAATATATACAT
*
12889402 AATATAATATTAAAAATATTTACAT
1 AATATAATATTAAAAATATATACAT
12889427 AGTATATACATATTA
1 A--ATATA-ATATTA
12889442 GAGATAATAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.23
25 24 0.46
26 5 0.10
27 5 0.10
28 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
AATATAATATTAAAAATATATACAT
Found at i:12889615 original size:24 final size:24
Alignment explanation
Indices: 12889588--12889647 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
12889578 TAGATATAAT
* *
12889588 AATATGTATACAACGTGGTATTAA
1 AATATGTATACAACATAGTATTAA
* * * *
12889612 AATATGTGTATAATATAGTATTTA
1 AATATGTATACAACATAGTATTAA
12889636 AATATGTATACA
1 AATATGTATACA
12889648 TTTGTTTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.38
Consensus pattern (24 bp):
AATATGTATACAACATAGTATTAA
Found at i:12889827 original size:19 final size:19
Alignment explanation
Indices: 12889803--12889846 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12889793 TGGTAAATAT
* *
12889803 AATAATAAATAATATTAAA
1 AATAATAAAAAATAGTAAA
*
12889822 AATAATAAAAAATGGTAAA
1 AATAATAAAAAATAGTAAA
12889841 AATAAT
1 AATAAT
12889847 GTAAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AATAATAAAAAATAGTAAA
Found at i:12890373 original size:68 final size:69
Alignment explanation
Indices: 12890264--12890391 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 69
12890254 TTGTTTTTCA
*
12890264 AAAACAATTCCAAAGACTCTCTATTCTCTCTCAAGGCCCTCTCCCTCCGGCCAAACTCCGGCTCT
1 AAAACAATTCCAAAGACTCTCTATTCTCTCTCAAGGCCCTCTCCCTACGGCCAAACTCCGGCTCT
12890329 GTCC
66 GTCC
*
12890333 AAAA-AATTCCAAAGACTCTTTATTCTCTCTCAAGGCCCTCTCCCTACGGCCAAACTCCG
1 AAAACAATTCCAAAGACTCTCTATTCTCTCTCAAGGCCCTCTCCCTACGGCCAAACTCCG
12890392 ATTCCGTCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
68 53 0.93
69 4 0.07
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.25
Consensus pattern (69 bp):
AAAACAATTCCAAAGACTCTCTATTCTCTCTCAAGGCCCTCTCCCTACGGCCAAACTCCGGCTCT
GTCC
Found at i:12890499 original size:26 final size:27
Alignment explanation
Indices: 12890456--12890512 Score: 98
Period size: 26 Copynumber: 2.1 Consensus size: 27
12890446 TTCAAAAAGG
*
12890456 TATAAATTTTTTTTTGTATTTTTAATA
1 TATAAATTTTTTTTTGTATTTATAATA
12890483 TATAAA-TTTTTTTTGTATTTATAATA
1 TATAAATTTTTTTTTGTATTTATAATA
12890509 TATA
1 TATA
12890513 TATAAGTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 23 0.79
27 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (27 bp):
TATAAATTTTTTTTTGTATTTATAATA
Found at i:12895372 original size:43 final size:42
Alignment explanation
Indices: 12895259--12895381 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
12895249 TAATTATGTT
* * *
12895259 TAAGACCATGTCTGAGAAATTGGAATCATATTGTGATTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCATA-TGTGATTACGTG
* *
12895302 TAAGACCATGTCTGGGACA-TGGACATCATTATATGATTTCGTG
1 TAAGACCATGTCTGGGACATTGG-CATCA-TATGTGATTACGTG
*
12895345 TAAGACCATGTCTGGGACATTAGCATCAATATGTGAT
1 TAAGACCATGTCTGGGACATTGGCATC-ATATGTGAT
12895382 AGCATGCAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 3 0.04
43 61 0.88
44 5 0.07
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCATATGTGATTACGTG
Found at i:12901053 original size:16 final size:16
Alignment explanation
Indices: 12901032--12901063 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12901022 CAAAAACGCC
12901032 GCTAAAAACAGAGCAA
1 GCTAAAAACAGAGCAA
12901048 GCTAAAAACAGAGCAA
1 GCTAAAAACAGAGCAA
12901064 TAGCGGCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.19, G:0.19, T:0.06
Consensus pattern (16 bp):
GCTAAAAACAGAGCAA
Found at i:12901163 original size:27 final size:27
Alignment explanation
Indices: 12901128--12901205 Score: 156
Period size: 27 Copynumber: 2.9 Consensus size: 27
12901118 GGTAAAACGT
12901128 TGCTAAAAACCAGAGCAATAGCGGTGC
1 TGCTAAAAACCAGAGCAATAGCGGTGC
12901155 TGCTAAAAACCAGAGCAATAGCGGTGC
1 TGCTAAAAACCAGAGCAATAGCGGTGC
12901182 TGCTAAAAACCAGAGCAATAGCGG
1 TGCTAAAAACCAGAGCAATAGCGG
12901206 CGTTTGTAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (27 bp):
TGCTAAAAACCAGAGCAATAGCGGTGC
Found at i:12901312 original size:37 final size:39
Alignment explanation
Indices: 12901251--12901332 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 39
12901241 CCCCTAAAAT
*
12901251 CCTAAACCCCTAAAAAATCATAAACAC-TAATCTATAACC
1 CCTAAACCCCTAAAAAATCATAAAC-CTTAAACTATAACC
*
12901290 CCTAAA-CCCT-AAAAATCCTAAACCTTAAACTATAACC
1 CCTAAACCCCTAAAAAATCATAAACCTTAAACTATAACC
12901327 CCTAAA
1 CCTAAA
12901333 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 1 0.03
37 29 0.73
38 4 0.10
39 6 0.15
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.21
Consensus pattern (39 bp):
CCTAAACCCCTAAAAAATCATAAACCTTAAACTATAACC
Found at i:12901852 original size:7 final size:7
Alignment explanation
Indices: 12901819--12901967 Score: 57
Period size: 7 Copynumber: 20.3 Consensus size: 7
12901809 AGGGGTAGAA
12901819 GTTTAGG
1 GTTTAGG
*
12901826 GTTTATG
1 GTTTAGG
* *
12901833 TTTTATG
1 GTTTAGG
*
12901840 GCTTAGG
1 GTTTAGG
12901847 GTTTAGGG
1 GTTTA-GG
* *
12901855 GTTAAGA
1 GTTTAGG
*
12901862 GTTAAGG
1 GTTTAGG
*
12901869 ATTTACGG
1 GTTTA-GG
12901877 GTTATAGG
1 GTT-TAGG
*
12901885 ATTTAGG
1 GTTTAGG
*
12901892 GTTTAGA
1 GTTTAGG
*
12901899 ATTTAGG
1 GTTTAGG
*
12901906 TGTGTAGGG
1 -GTTTA-GG
12901915 GTTTTAGG
1 G-TTTAGG
*
12901923 GTTAAGG
1 GTTTAGG
***
12901930 GGACATGG
1 GTTTA-GG
*
12901938 GTTAAGG
1 GTTTAGG
*
12901945 GTTAAGG
1 GTTTAGG
12901952 G-TTAGGG
1 GTTTA-GG
12901959 GTTTAGG
1 GTTTAGG
12901966 GT
1 GT
12901968 AATTAGTGTA
Statistics
Matches: 105, Mismatches: 28, Indels: 18
0.70 0.19 0.12
Matches are distributed among these distances:
6 2 0.02
7 68 0.65
8 28 0.27
9 7 0.07
ACGTcount: A:0.21, C:0.02, G:0.39, T:0.38
Consensus pattern (7 bp):
GTTTAGG
Found at i:12902771 original size:3 final size:3
Alignment explanation
Indices: 12902763--12902794 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
12902753 CATTTTAGTA
12902763 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12902795 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:12906081 original size:13 final size:13
Alignment explanation
Indices: 12906063--12906095 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
12906053 TTTTAAAGTT
12906063 AAAATTTTAATAG
1 AAAATTTTAATAG
12906076 AAAA-TTTAATAG
1 AAAATTTTAATAG
12906088 AAAATTTT
1 AAAATTTT
12906096 TATATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (13 bp):
AAAATTTTAATAG
Found at i:12910702 original size:28 final size:28
Alignment explanation
Indices: 12910666--12910721 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12910656 GATGAATTAG
12910666 AAAACTGAGTTGAACGCCAATGGAAGAA
1 AAAACTGAGTTGAACGCCAATGGAAGAA
12910694 AAAACTGAGTTGAACGCCAATGGAAGAA
1 AAAACTGAGTTGAACGCCAATGGAAGAA
12910722 TTTTATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.14, G:0.25, T:0.14
Consensus pattern (28 bp):
AAAACTGAGTTGAACGCCAATGGAAGAA
Found at i:12912443 original size:25 final size:25
Alignment explanation
Indices: 12912392--12912458 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
12912382 GATTTGATAC
* *
12912392 AATTTAATACTTGAA-TTTTTTCCT
1 AATTTAGTACTTAAATTTTTTTCCT
*
12912416 AATTTAGTA-TCTAAATTTTTTTCTT
1 AATTTAGTACT-TAAATTTTTTTCCT
12912441 AATTTAGTACTTAAATTT
1 AATTTAGTACTTAAATTT
12912459 GGTATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 11 0.30
25 24 0.65
26 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.55
Consensus pattern (25 bp):
AATTTAGTACTTAAATTTTTTTCCT
Found at i:12919105 original size:137 final size:137
Alignment explanation
Indices: 12918847--12919097 Score: 306
Period size: 137 Copynumber: 1.8 Consensus size: 137
12918837 GATCATTCTT
* * *
12918847 ATCCAGAAAGTTAATCCACTATAGTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAACAAGT
1 ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
* * *
12918912 CTCATATACTCTAAACAACATCACTCTTGCCCAAAAAGTTAGCCCATTACACTTCAATTAAGATT
66 CTCATATACTCTAAACAACATCACGCTTGCCCAAAAAGTTAACCCACTACACTTCAATTAAGATT
12918977 TACTGTC
131 TACTGTC
* * * * * * * * *
12918984 ATCCAAAAAGTTAATTCATTGTACTTCAACTTCATTCTAAACACGATCGCTTTTGCTCAAAAAGT
1 ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
* ** * *
12919049 CTCATATGCTCTAAACAGGATCACGCTTG-TCAAGAAAGTTAATCCACTA
66 CTCATATACTCTAAACAACATCACGCTTGCCCAA-AAAGTTAACCCACTA
12919098 TAGTTCAACC
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
136 3 0.03
137 90 0.97
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (137 bp):
ATCCAAAAAGTTAATCCACTATACTTCAACCTCACTCTAAACAAGACCACTCTTGCTCAAAAAGT
CTCATATACTCTAAACAACATCACGCTTGCCCAAAAAGTTAACCCACTACACTTCAATTAAGATT
TACTGTC
Found at i:12926477 original size:15 final size:15
Alignment explanation
Indices: 12926457--12926492 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12926447 CCCGCTACTT
12926457 CAACTTGCTCCACTG
1 CAACTTGCTCCACTG
* *
12926472 CAACTTGCTTCGCTG
1 CAACTTGCTCCACTG
12926487 CAACTT
1 CAACTT
12926493 CAGAGAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.19, C:0.36, G:0.14, T:0.31
Consensus pattern (15 bp):
CAACTTGCTCCACTG
Found at i:12926687 original size:90 final size:90
Alignment explanation
Indices: 12926567--12927002 Score: 388
Period size: 90 Copynumber: 4.9 Consensus size: 90
12926557 TATAGATTCA
* * * * *
12926567 ATCTATTCCATTGCATCTTTAGGGAGATAAGGTTTGCGTATTTTTATCCTGCTCTACTACAACTT
1 ATCTATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAATTTTATCCTGCTCTACTGCAACTT
** * *
12926632 CAGAGAGATAAGGATCATGGTTTTG
66 CAGAGAGATAAGGATTTTGGCTTCG
* * * *
12926657 ATCTATTCCACTGCAACTTCAGGGAGATAAGATCTGC-T-ATCTTTAGT-CTGCTCGACTGCAAT
1 ATCTATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAAT-TTTA-TCCTGCTCTACTGCAAC
* * **
12926719 TTCAGGGAGATAA-TATTTGCTATCTTC-
64 TTCAGAGAGATAAGGATTT--TGGCTTCG
* * * * *
12926746 AGTCTGCTT-CACTACAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGTAAC
1 A-TCT-ATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAATTTTATCCTGCTCTACTGCAAC
*
12926810 TTCAGAGAGGTAAGGATTTTGGCTTCG
64 TTCAGAGAGATAAGGATTTTGGCTTCG
* * * * *
12926837 ATCTGA-TCCGCTGCAACTTCAGGAAGATAAGGTTTGTGTAATTTTATCCTGCTCTACTGCAACT
1 ATCT-ATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAATTTTATCCTGCTCTACTGCAACT
*
12926901 TCAGAGAGATAAGGATTGTGGCTTCG
65 TCAGAGAGATAAGGATTTTGGCTTCG
** * * * * *
12926927 ATCTGCTCCACTGCAACTTTAGGGAGACAAGAATTGC-T-ATCTTTAGT-CTGCTCCAATGCACC
1 ATCTATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAAT-TTTA-TCCTGCTCTACTGCAAC
*
12926989 TTCAGGGAGATAAG
64 TTCAGAGAGATAAG
12927003 ACTTGCGTAT
Statistics
Matches: 277, Mismatches: 54, Indels: 31
0.77 0.15 0.09
Matches are distributed among these distances:
88 5 0.02
89 61 0.22
90 174 0.63
91 31 0.11
92 6 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (90 bp):
ATCTATTCCACTGCAACTTTAGGGAGATAAGATTTGCGTAATTTTATCCTGCTCTACTGCAACTT
CAGAGAGATAAGGATTTTGGCTTCG
Found at i:12926723 original size:45 final size:45
Alignment explanation
Indices: 12926665--12926778 Score: 151
Period size: 45 Copynumber: 2.5 Consensus size: 45
12926655 TGATCTATTC
* *
12926665 CACTGCAACTTCAGGGAGATAAGATCTGCTATCTTTAGTCTGC-T
1 CACTGCAATTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTT
* *
12926709 CGACTGCAATTTCAGGGAGATAATATTTGCTATCTTCAGTCTGCTT
1 C-ACTGCAATTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTT
*
12926755 CACTACAACTTT-AGGGAGATAAGA
1 CACTGCAA-TTTCAGGGAGATAAGA
12926779 CTTGGGTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
44 1 0.02
45 55 0.90
46 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
CACTGCAATTTCAGGGAGATAAGATCTGCTATCTTCAGTCTGCTT
Found at i:12926946 original size:180 final size:180
Alignment explanation
Indices: 12926573--12926963 Score: 434
Period size: 180 Copynumber: 2.2 Consensus size: 180
12926563 TTCAATCTAT
* * ** *
12926573 TCCATTGCATCTTTAGGGAGATAAGGTTTGCGTATTTTTATCCTGCTCTACTACAACTTCAGAGA
1 TCCACTGCAACTTTAGGGAGATAAGACTTGCGTAATTTTATCCTGCTCTACTACAACTTCAGAGA
* * *
12926638 GATAAGGATCATGGTTTTGATCTATTCCACTGCAACTTCAGGGAGATAAGATCTGCTATCTTTAG
66 GATAAGGATCATGGCTTCGATCTATTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTTAG
* * * *
12926703 TCTGCTCGACTGCAATTTCAGGGAGATAATATTTGCTATCTTCAGTCTGC
131 TCTGCTCGACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAGTCTGC
* * * **
12926753 TTCACTACAACTTTAGGGAGATAAGACTTGGGTAATTTTATCCTGCTCTACTGTAACTTCAGAGA
1 TCCACTGCAACTTTAGGGAGATAAGACTTGCGTAATTTTATCCTGCTCTACTACAACTTCAGAGA
* ** * * * *
12926818 GGTAAGGATTTTGGCTTCGATCTGA-TCCGCTGCAACTTCAGGAAGATAAGGTTTGTGTAAT-TT
66 GATAAGGATCATGGCTTCGATCT-ATTCCACTGCAACTTCAGGAAGATAAGATCTG-CT-ATCTT
* *
12926881 TA-TCCTGCTCTACTGCAACTTCAGAGAGATAAGGA-TTG-TGGCTTC-GATCTGC
128 TAGT-CTGCTCGACTGCAACTTCAGAGAGATAA-GATTTGCTAGCTTCAG-TCTGC
* *
12926933 TCCACTGCAACTTTAGGGAGACAAGAATTGC
1 TCCACTGCAACTTTAGGGAGATAAGACTTGC
12926964 TATCTTTAGT
Statistics
Matches: 174, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
179 1 0.01
180 136 0.78
181 34 0.20
182 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (180 bp):
TCCACTGCAACTTTAGGGAGATAAGACTTGCGTAATTTTATCCTGCTCTACTACAACTTCAGAGA
GATAAGGATCATGGCTTCGATCTATTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTTAG
TCTGCTCGACTGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAGTCTGC
Found at i:12931100 original size:21 final size:21
Alignment explanation
Indices: 12931074--12931120 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
12931064 ATATACTACA
12931074 ATATCGGTGCTCAACCTGGGT
1 ATATCGGTGCTCAACCTGGGT
12931095 ATATCGGTGCTCAACCTGGGT
1 ATATCGGTGCTCAACCTGGGT
12931116 ATATC
1 ATATC
12931121 TTGGTAGGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (21 bp):
ATATCGGTGCTCAACCTGGGT
Found at i:12939173 original size:27 final size:27
Alignment explanation
Indices: 12939140--12939297 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
12939130 ATTACCAAAG
* *
12939140 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
12939167 TATCCTCGATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
12939194 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
12939221 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
12939248 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
12939275 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
12939298 AAAATACCCT
Statistics
Matches: 122, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
26 1 0.01
27 120 0.98
28 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:12939305 original size:27 final size:27
Alignment explanation
Indices: 12939095--12939350 Score: 104
Period size: 27 Copynumber: 9.5 Consensus size: 27
12939085 AATACTTTAG
* * * *
12939095 TTTACCAAATTACTAAAATACCTTCAA
1 TTTACAAAATTACTAAATTACCCTCGA
* ** * *
12939122 ATTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* *** *
12939149 TTTATAAAATTACTGTTTTATCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * *
12939176 TTTATAGAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAATTACCCTCGA
* * *** *
12939203 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAATTACCCTCGA
* *** *
12939230 TTTACAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAATTACCCTCGA
* ***
12939257 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAATTACCCTCGA
* * *
12939284 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAATTACCCTCGA
** * *
12939311 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACTAAATTACCCTC-GA
*
12939338 TTTACAAAGTTAC
1 TTTACAAAATTAC
12939351 AGAAATACCC
Statistics
Matches: 188, Mismatches: 36, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
27 184 0.98
28 1 0.01
29 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.39
Consensus pattern (27 bp):
TTTACAAAATTACTAAATTACCCTCGA
Found at i:12939306 original size:81 final size:81
Alignment explanation
Indices: 12939127--12939323 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 81
12939117 TTCAAATTGT
* * * * * *
12939127 AAAATTACCAAAGTACCCTCGATTTATAAAATTACTGTTTTATCCTCGATTTATAGAATTATCGT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATCGT
*
12939192 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* **** * *
12939208 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTGATTTACAGAATTA-CTG
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATC-G
12939272 TTTTACCCTCGATTTAC
65 TTTTACCCTCGATTTAC
* **
12939289 AAAATTACTAAAATACCCTTGGTTTGTAAAATTAC
1 AAAATTACTAAAATACCCTTGATTTACAAAATTAC
12939324 CAAAATACCC
Statistics
Matches: 93, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTATCGT
TTTACCCTCGATTTAC
Found at i:12939309 original size:54 final size:54
Alignment explanation
Indices: 12939127--12939307 Score: 195
Period size: 54 Copynumber: 3.4 Consensus size: 54
12939117 TTCAAATTGT
* * * * *
12939127 AAAATTACCAAAGTACCCTCGATTTATAAAATTACTGTTTTATCCTCGATTTAT
1 AAAATTACTAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC
* * *
12939181 AGAATTATCGT--TTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTAC
1 AAAATTA-C-TAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC
* *** * *
12939235 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC
*
12939289 AAAATTACTAAAATACCCT
1 AAAATTACTAAATTACCCT
12939308 TGGTTTGTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 104 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.40
Consensus pattern (54 bp):
AAAATTACTAAATTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAC
Found at i:12939356 original size:27 final size:26
Alignment explanation
Indices: 12939277--12939360 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
12939267 TACTGTTTTA
12939277 CCCTCGATTTACAAAATTACTAAAATAC
1 CCCT-GATTTACAAAATTAC-AAAATAC
* * **
12939305 CCTTGGTTTGTAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTA-CAAAATAC
*
12939332 CCCTGATTTACAAAGTTACAGAAATAC
1 CCCTGATTTACAAAATTACA-AAATAC
12939359 CC
1 CC
12939361 TTGACTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
26 2 0.04
27 39 0.87
28 4 0.09
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (26 bp):
CCCTGATTTACAAAATTACAAAATAC
Found at i:12946050 original size:36 final size:35
Alignment explanation
Indices: 12945984--12946068 Score: 82
Period size: 36 Copynumber: 2.4 Consensus size: 35
12945974 GAACTAAAAC
* * *
12945984 TGTGATCATAAATCAGCAAGCTTTAAAAATGTCAGT
1 TGTGATCGTAAATCAACAAACTTTAAAAATG-CAGT
* * *
12946020 TGTGATCGTAAATCAACAAACTATT-TAAATGGATT
1 TGTGATCGTAAATCAACAAACT-TTAAAAATGCAGT
*
12946055 TATGATCGTAAATC
1 TGTGATCGTAAATC
12946069 GATGAACTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
35 15 0.37
36 24 0.59
37 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (35 bp):
TGTGATCGTAAATCAACAAACTTTAAAAATGCAGT
Found at i:12946068 original size:35 final size:34
Alignment explanation
Indices: 12946022--12946188 Score: 99
Period size: 35 Copynumber: 4.7 Consensus size: 34
12946012 ATGTCAGTTG
12946022 TGATCGTAAATCAACAAACTATTTAAATGGATTTA
1 TGATCGTAAATCAACAAACT-TTTAAATGGATTTA
* ** * *
12946057 TGATCGTAAATCGATGAACTCTT-AATGAATTTTTCA
1 TGATCGTAAATCAACAAACTTTTAAATGGA--TTT-A
* * *
12946093 TGATCGTAAACCAA-AGAGTTTTAAAAATGAGAATTT-
1 TGATCGTAAATCAACAAACTTTT--AAATG-G-ATTTA
* *
12946129 TGATCGTAAATCAACGAACTATTTAAATGG-TGTTG
1 TGATCGTAAATCAACAAACT-TTTAAATGGAT-TTA
* * *
12946164 CGATCGTAAATCGACAAACTCTTAA
1 TGATCGTAAATCAACAAACTTTTAA
12946189 TGAATTGTTC
Statistics
Matches: 100, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
33 6 0.06
34 8 0.08
35 42 0.42
36 31 0.31
37 2 0.02
38 10 0.10
40 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (34 bp):
TGATCGTAAATCAACAAACTTTTAAATGGATTTA
Found at i:12946157 original size:36 final size:36
Alignment explanation
Indices: 12946022--12946157 Score: 104
Period size: 36 Copynumber: 3.8 Consensus size: 36
12946012 ATGTCAGTTG
*
12946022 TGATCGTAAATCAACAAACTATTTAAATG-G-ATTTA
1 TGATCGTAAATCAACGAACT-TTTAAATGAGAATTTA
* * * *
12946057 TGATCGTAAATCGATGAACTCTT-AATGA-ATTTTTCA
1 TGATCGTAAATCAACGAACTTTTAAATGAGA-ATTT-A
* * *
12946093 TGATCGTAAACCAAAG-AGTTTTAAAAATGAGAATTT-
1 TGATCGTAAATCAACGAACTTTT--AAATGAGAATTTA
12946129 TGATCGTAAATCAACGAACTATTTAAATG
1 TGATCGTAAATCAACGAACT-TTTAAATG
12946158 GTGTTGCGAT
Statistics
Matches: 77, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
33 4 0.05
34 2 0.03
35 24 0.31
36 33 0.43
37 2 0.03
38 11 0.14
39 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (36 bp):
TGATCGTAAATCAACGAACTTTTAAATGAGAATTTA
Found at i:12946283 original size:134 final size:130
Alignment explanation
Indices: 12946093--12946573 Score: 455
Period size: 134 Copynumber: 3.7 Consensus size: 130
12946083 GAATTTTTCA
* * * * * * *
12946093 TGATCGTAAACCAAAGAGTTTTAAAAATGAGAATTTTGATCGTAAATCAACGAACTATTTAAATG
1 TGATCGTAAATCAACGAGCTTTAAAAATGACAATTGTGATCGTAAATCAGCAAACTATTTAAATG
* *
12946158 GTGTTGCGATCGTAAATCGACAAACTCTTAATGAATTGTTCATGATCATAAATCAATTTTCTAAA
66 GAGTTGCGATCATAAATCGACAAACTCTTAATGAATTGTTCATGATCATAAATCAA--TTCT-AA
12946223 GCTG
128 G-TG
* * *
12946227 TGATCGTAAATCAACGAGCTTTAAAAATGATAACTGTGATCGTAAATCAGCAAACTATTTAAATA
1 TGATCGTAAATCAACGAGCTTTAAAAATGACAATTGTGATCGTAAATCAGCAAACTATTTAAATG
* ** * * * * *
12946292 GAGTTGTGATCATAAATCTG-TGAACTTTTCATGAATTATTCATGAT--T--GT-AA-GC--AGT
66 GAGTTGCGATCATAAATC-GACAAACTCTTAATGAATTGTTCATGATCATAAATCAATTCTAAGT
12946348 -
130 G
* * * * *
12946348 T-ATCATAAATCAACGAGCTTTAAAAATGACAGTTGTAATCGTAAATTAGCAAACTGTTTAAATG
1 TGATCGTAAATCAACGAGCTTTAAAAATGACAATTGTGATCGTAAATCAGCAAACTATTTAAATG
* * *
12946412 GAGTTGTGATCATAAATCAACGAACTCTTAATGAATTGTTCATGATCATAAATCAATGAAT-TGA
66 GAGTTGCGATCATAAATCGACAAACTCTTAATGAATTGTTCATGATCATAAATCAAT---TCT-A
12946476 AGTTG
127 AG-TG
* ** * * *
12946481 TAATCGTAAATCGGCAAGCTTTAAAAATGACAATTATGATCGTAAATCAGCAAACTGTTTAAATG
1 TGATCGTAAATCAACGAGCTTTAAAAATGACAATTGTGATCGTAAATCAGCAAACTATTTAAATG
* * *
12946546 GAGTCGCAATCATAAACCGACAAACTCT
66 GAGTTGCGATCATAAATCGACAAACTCT
12946574 ATCAACTAAA
Statistics
Matches: 282, Mismatches: 48, Indels: 34
0.77 0.13 0.09
Matches are distributed among these distances:
120 95 0.34
121 1 0.00
122 2 0.01
123 2 0.01
124 1 0.00
125 2 0.01
126 1 0.00
129 2 0.01
130 1 0.00
131 2 0.01
132 2 0.01
133 1 0.00
134 169 0.60
135 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (130 bp):
TGATCGTAAATCAACGAGCTTTAAAAATGACAATTGTGATCGTAAATCAGCAAACTATTTAAATG
GAGTTGCGATCATAAATCGACAAACTCTTAATGAATTGTTCATGATCATAAATCAATTCTAAGTG
Found at i:12946328 original size:241 final size:245
Alignment explanation
Indices: 12945938--12946549 Score: 673
Period size: 254 Copynumber: 2.5 Consensus size: 245
12945928 GTCAATCAGG
* ** * *
12945938 AAACTCTTAATGAATTGTTCAGGATTGTAAATCAATGAA-CTAAAACTGTGATCATAAATCAGCA
1 AAACTCTTAATGAATTGTTCATGATCATAAATCAAT-AATCTAAAGCTGTGATCGTAAATCAGCA
* * * *
12946002 AGCTTTAAAAATG-TCAGTTGTGATCGTAAATCAACAAACTATTTAAATGGATTTATGATCGTAA
65 AGCTTTAAAAATGAT-AATTGTGATCGTAAATCAGCAAACTATTTAAATGGAGTTATGATCATAA
* * *
12946066 ATCGATGAACTCTTAATGAATTTTTCATGA-T-C-G-TAAACCAAAGAGTTTTAAAAATGAGAAT
129 ATCGATGAACTCTTAATGAATTATTCATGATTACAGTTAAACCAAAGAGCTTTAAAAATGACAAT
* * * * * *
12946127 TTTGATCGTAAATCAACGAACTATTTAAATGGTGTTGCGATCGTAAATCGAC
194 TGTAATCGTAAATCAACAAACTATTTAAATGGAGTTGCGATCATAAATCAAC
** * *
12946179 AAACTCTTAATGAATTGTTCATGATCATAAATCAATTTTCTAAAGCTGTGATCGTAAATCAACGA
1 AAACTCTTAATGAATTGTTCATGATCATAAATCAATAATCTAAAGCTGTGATCGTAAATCAGCAA
* * *
12946244 GCTTTAAAAATGATAACTGTGATCGTAAATCAGCAAACTATTTAAATAGAGTTGTGATCATAAAT
66 GCTTTAAAAATGATAATTGTGATCGTAAATCAGCAAACTATTTAAATGGAGTTATGATCATAAAT
* * * *
12946309 CTG-TGAACTTTTCATGAATTATTCATGATTGTAAGCAGTTATCATAAATCAACGAGCTTTAAAA
131 C-GATGAACTCTTAATGAATTATTCATGA-T-T-A-CAG---T--TAAACCAAAGAGCTTTAAAA
* * * * *
12946373 ATGACAGTTGTAATCGTAAATTAGCAAACTGTTTAAATGGAGTTGTGATCATAAATCAAC
186 ATGACAATTGTAATCGTAAATCAACAAACTATTTAAATGGAGTTGCGATCATAAATCAAC
* * * * *
12946433 GAACTCTTAATGAATTGTTCATGATCATAAATCAATGAAT-TGAAGTTGTAATCGTAAATCGGCA
1 AAACTCTTAATGAATTGTTCATGATCATAAATCAAT-AATCTAAAGCTGTGATCGTAAATCAGCA
* * *
12946497 AGCTTTAAAAATGACAATTATGATCGTAAATCAGCAAACTGTTTAAATGGAGT
65 AGCTTTAAAAATGATAATTGTGATCGTAAATCAGCAAACTATTTAAATGGAGT
12946550 CGCAATCATA
Statistics
Matches: 306, Mismatches: 48, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
241 134 0.44
242 2 0.01
244 1 0.00
247 1 0.00
248 1 0.00
254 166 0.54
255 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.33
Consensus pattern (245 bp):
AAACTCTTAATGAATTGTTCATGATCATAAATCAATAATCTAAAGCTGTGATCGTAAATCAGCAA
GCTTTAAAAATGATAATTGTGATCGTAAATCAGCAAACTATTTAAATGGAGTTATGATCATAAAT
CGATGAACTCTTAATGAATTATTCATGATTACAGTTAAACCAAAGAGCTTTAAAAATGACAATTG
TAATCGTAAATCAACAAACTATTTAAATGGAGTTGCGATCATAAATCAAC
Found at i:12946446 original size:120 final size:120
Alignment explanation
Indices: 12946233--12946457 Score: 333
Period size: 120 Copynumber: 1.9 Consensus size: 120
12946223 GCTGTGATCG
* *
12946233 TAAATCAACGAGCTTTAAAAATGATAACTGTGATCGTAAATCAGCAAACTATTTAAATAGAGTTG
1 TAAATCAACGAGCTTTAAAAATGACAACTGTAATCGTAAATCAGCAAACTATTTAAATAGAGTTG
*** * *
12946298 TGATCATAAATCTGTGAACTTTTCATGAATTATTCATGATTGTAAGCAGTTATCA
66 TGATCATAAATCAACGAACTCTTAATGAATTATTCATGATTGTAAGCAGTTATCA
** * * *
12946353 TAAATCAACGAGCTTTAAAAATGACAGTTGTAATCGTAAATTAGCAAACTGTTTAAATGGAGTTG
1 TAAATCAACGAGCTTTAAAAATGACAACTGTAATCGTAAATCAGCAAACTATTTAAATAGAGTTG
*
12946418 TGATCATAAATCAACGAACTCTTAATGAATTGTTCATGAT
66 TGATCATAAATCAACGAACTCTTAATGAATTATTCATGAT
12946458 CATAAATCAA
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 92 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (120 bp):
TAAATCAACGAGCTTTAAAAATGACAACTGTAATCGTAAATCAGCAAACTATTTAAATAGAGTTG
TGATCATAAATCAACGAACTCTTAATGAATTATTCATGATTGTAAGCAGTTATCA
Found at i:12953551 original size:34 final size:33
Alignment explanation
Indices: 12953453--12953551 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
12953443 GTATGAGTTA
*
12953453 GGGCCTTAGCCCATTCAGTAACAATATCAGTGT
1 GGGCCTTAGCCCATTCAGTAACAATATCAATGT
* *
12953486 GGGCCTTAGCCCATTAAGTAACAATACCAATGT
1 GGGCCTTAGCCCATTCAGTAACAATATCAATGT
* *
12953519 GGGCTTTAGCCCAATTCAGTAACAGTATCAATG
1 GGGCCTTAGCCC-ATTCAGTAACAATATCAATG
12953552 CAGAATATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 41 0.71
34 17 0.29
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (33 bp):
GGGCCTTAGCCCATTCAGTAACAATATCAATGT
Found at i:12979676 original size:6 final size:6
Alignment explanation
Indices: 12979652--12979689 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
12979642 TTATATTAGT
12979652 AATAT- AAT-TA AAGTATA AATATA AATATA AATATA AAT
1 AATATA AATATA AA-TATA AATATA AATATA AATATA AAT
12979690 CCTGAACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.03
5 5 0.17
6 20 0.67
7 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:12991158 original size:30 final size:31
Alignment explanation
Indices: 12991124--12991187 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
12991114 ATTTATTTTA
*
12991124 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTATTATTATTTTAGAA-GCAT
12991154 TTGTTAATTTTTATTATTATTTTAGAAGCAT
1 TTGTTAATTTTTATTATTATTTTAGAAGCAT
12991185 TTG
1 TTG
12991188 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAGAAGCAT
Found at i:12991631 original size:32 final size:30
Alignment explanation
Indices: 12991590--12991659 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 30
12991580 TTTATTCTAA
* **
12991590 ATATTATTATTTCTTAGCATGTAAAATTTAT
1 ATATAATTATTTCTTAAAATGTAAAA-TTAT
*
12991621 ATATGAATTATTTTTTAAAATGTAAAATTAT
1 ATAT-AATTATTTCTTAAAATGTAAAATTAT
12991652 ATATAATT
1 ATATAATT
12991660 TATTATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.12
31 12 0.35
32 18 0.53
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (30 bp):
ATATAATTATTTCTTAAAATGTAAAATTAT
Found at i:12991655 original size:31 final size:33
Alignment explanation
Indices: 12991608--12991668 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
12991598 ATTTCTTAGC
12991608 ATGTAAAATTTATATATGAA-TTATT-TTTTAAA
1 ATGTAAAATTTATATAT-AATTTATTATTTTAAA
12991640 ATGTAAAA-TTATATATAATTTATTATTTT
1 ATGTAAAATTTATATATAATTTATTATTTT
12991669 TTTATATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 2 0.07
31 13 0.48
32 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (33 bp):
ATGTAAAATTTATATATAATTTATTATTTTAAA
Found at i:12991954 original size:22 final size:23
Alignment explanation
Indices: 12991923--12991966 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
12991913 TATTTTCTAA
* *
12991923 TATATAAATATTTATTTTATATT
1 TATATAAATATGTAATTTATATT
12991946 TATAT-AATATGTAATTTATAT
1 TATATAAATATGTAATTTATAT
12991967 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TATATAAATATGTAATTTATATT
Found at i:12993628 original size:27 final size:26
Alignment explanation
Indices: 12993584--12993639 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
12993574 AAATAAAAAA
*
12993584 AAACAAAAAAAAATTTTCTTCTAC-T
1 AAACAAAAAAAAAATTTCTTCTACAT
12993609 AAACAAAAATAAAAAATTTCTTCTACAT
1 AAAC-AAAA-AAAAAATTTCTTCTACAT
12993637 AAA
1 AAA
12993640 ATAGATCGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 4 0.15
27 15 0.56
28 4 0.15
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (26 bp):
AAACAAAAAAAAAATTTCTTCTACAT
Found at i:12994146 original size:22 final size:22
Alignment explanation
Indices: 12994103--12994146 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
12994093 TATAGGGCTC
**
12994103 ACACGCCCGTGTGGTCCAAGGA
1 ACACGCCCGTGTGACCCAAGGA
* *
12994125 ACACGCCTGTGTGACCCTAGGA
1 ACACGCCCGTGTGACCCAAGGA
12994147 CATGCCAGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.32, G:0.30, T:0.16
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGA
Found at i:12996833 original size:15 final size:17
Alignment explanation
Indices: 12996796--12996833 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
12996786 ATTATTTTCT
12996796 TTTTCATTTAATTAAAC
1 TTTTCATTTAATTAAAC
12996813 -TTTCATTTAA-T-AAC
1 TTTTCATTTAATTAAAC
12996827 TTTTCAT
1 TTTTCAT
12996834 CTTTCCAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.15
15 7 0.35
16 10 0.50
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTCATTTAATTAAAC
Found at i:13001686 original size:43 final size:43
Alignment explanation
Indices: 13001624--13001951 Score: 253
Period size: 43 Copynumber: 7.7 Consensus size: 43
13001614 TGGTATTGAT
13001624 CTGAATTATCGTGTAAGACCATGTCTGGGACACAGGCATCGATA
1 CTGAATTA-CGTGTAAGACCATGTCTGGGACACAGGCATCGATA
* *
13001668 CTGAATTACGTGTAAGACCATGTCTAGGACATC-GACATCG-TA
1 CTGAATTACGTGTAAGACCATGTCTGGGACA-CAGGCATCGATA
* * ** * * * *
13001710 TCT-ATTTTCGTAAAAAACCCTGTCTGGGACAGAGGCAACGATA
1 -CTGAATTACGTGTAAGACCATGTCTGGGACACAGGCATCGATA
* *
13001753 CTAAATTACGTGTAAGGCCATGTCTGGGACATC-GGCATCG-TA
1 CTGAATTACGTGTAAGACCATGTCTGGGACA-CAGGCATCGATA
* ** * * *
13001795 TCT--ATTTCGTAAAAGACCCTGTCTGGGACAGAGGCAACGATA
1 -CTGAATTACGTGTAAGACCATGTCTGGGACACAGGCATCGATA
* * *
13001837 TTGAATTATGTGTAAGACCATGTCTGGGACATC-GGCATC-ATGT
1 CTGAATTACGTGTAAGACCATGTCTGGGACA-CAGGCATCGAT-A
* * * * *
13001880 CTG-TTTTCGTATAAGACCCTGTCTGGGACAAAGGCATCGATA
1 CTGAATTACGTGTAAGACCATGTCTGGGACACAGGCATCGATA
* * **
13001922 CCGAATTACATGTAAGACCACATCTGGGAC
1 CTGAATTACGTGTAAGACCATGTCTGGGAC
13001952 GTCGACATTA
Statistics
Matches: 215, Mismatches: 53, Indels: 33
0.71 0.18 0.11
Matches are distributed among these distances:
41 29 0.13
42 66 0.31
43 111 0.52
44 9 0.04
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
CTGAATTACGTGTAAGACCATGTCTGGGACACAGGCATCGATA
Found at i:13001792 original size:85 final size:85
Alignment explanation
Indices: 13001638--13001951 Score: 441
Period size: 85 Copynumber: 3.7 Consensus size: 85
13001628 ATTATCGTGT
* * * * *
13001638 AAGACCATGTCTGGGACACAGGCATCGATACTGAATTACGTGTAAGACCATGTCTAGGACATCGA
1 AAGACCCTGTCTGGGACAGAGGCAACGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
13001703 CATCGTATCTATTTTCGTAA
66 CATCGTATCTATTTTCGTAA
* * *
13001723 AAAACCCTGTCTGGGACAGAGGCAACGATACTAAATTACGTGTAAGGCCATGTCTGGGACATCGG
1 AAGACCCTGTCTGGGACAGAGGCAACGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
13001788 CATCGTATCTA-TTTCGTAA
66 CATCGTATCTATTTTCGTAA
* *
13001807 AAGACCCTGTCTGGGACAGAGGCAACGATATTGAATTATGTGTAAGACCATGTCTGGGACATCGG
1 AAGACCCTGTCTGGGACAGAGGCAACGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
* * * *
13001872 CATCATGTCTGTTTTCGTAT
66 CATCGTATCTATTTTCGTAA
* * * * **
13001892 AAGACCCTGTCTGGGACAAAGGCATCGATACCGAATTACATGTAAGACCACATCTGGGAC
1 AAGACCCTGTCTGGGACAGAGGCAACGATACTGAATTACGTGTAAGACCATGTCTGGGAC
13001952 GTCGACATTA
Statistics
Matches: 203, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
84 76 0.37
85 127 0.63
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (85 bp):
AAGACCCTGTCTGGGACAGAGGCAACGATACTGAATTACGTGTAAGACCATGTCTGGGACATCGG
CATCGTATCTATTTTCGTAA
Found at i:13001950 original size:169 final size:169
Alignment explanation
Indices: 13001638--13001951 Score: 448
Period size: 169 Copynumber: 1.9 Consensus size: 169
13001628 ATTATCGTGT
*
13001638 AAGACCATGTCTGGGACACAGGCATCGATACTGAATTACGTGTAAGACCATGTCTAGGACATCGA
1 AAGACCATGTCTGGGACACAGGCAACGATACTGAATTACGTGTAAGACCATGTCTAGGACATCGA
* * * *
13001703 CATCGTATCTATTTTCGTAAAAAACCCTGTCTGGGACAGAGGCAACGATACTAAATTACGTGTAA
66 CATCATATCTATTTTCGTAAAAAACCCTGTCTGGGACAAAGGCAACGATACCAAATTACATGTAA
* **
13001768 GGCCATGTCTGGGACATCGGCATCGTATCTATTTCGTAA
131 GACCACATCTGGGACATCGGCATCGTATCTATTTCGTAA
* * * * * *
13001807 AAGACCCTGTCTGGGACAGAGGCAACGATATTGAATTATGTGTAAGACCATGTCTGGGACATCGG
1 AAGACCATGTCTGGGACACAGGCAACGATACTGAATTACGTGTAAGACCATGTCTAGGACATCGA
* * * * * *
13001872 CATCATGTCTGTTTTCGTATAAGACCCTGTCTGGGACAAAGGCATCGATACCGAATTACATGTAA
66 CATCATATCTATTTTCGTAAAAAACCCTGTCTGGGACAAAGGCAACGATACCAAATTACATGTAA
13001937 GACCACATCTGGGAC
131 GACCACATCTGGGAC
13001952 GTCGACATTA
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
169 125 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (169 bp):
AAGACCATGTCTGGGACACAGGCAACGATACTGAATTACGTGTAAGACCATGTCTAGGACATCGA
CATCATATCTATTTTCGTAAAAAACCCTGTCTGGGACAAAGGCAACGATACCAAATTACATGTAA
GACCACATCTGGGACATCGGCATCGTATCTATTTCGTAA
Found at i:13009889 original size:27 final size:27
Alignment explanation
Indices: 13009858--13010060 Score: 189
Period size: 27 Copynumber: 7.5 Consensus size: 27
13009848 AAAACCTCGG
* *
13009858 TTTGTAAAATTACCGGAATAACCTCAA
1 TTTGTAAAATTATCGAAATAACCTCAA
* *
13009885 ATTGTAAAATTATCGAAAT-ACTCTCGA
1 TTTGTAAAATTATCGAAATAAC-CTCAA
* *
13009912 TTTGTAAAATTATTGAAATACCCTCAA
1 TTTGTAAAATTATCGAAATAACCTCAA
* * *
13009939 ATTGTAAAATTATC-AATATACCCTCAG
1 TTTGTAAAATTATCGAA-ATAACCTCAA
*
13009966 TTTGTAAAATTATCGAAAT-ACCTTCGA
1 TTTGTAAAATTATCGAAATAACC-TCAA
* * * *
13009993 TTTGTAAAATTACCAAAATACCCTTAA
1 TTTGTAAAATTATCGAAATAACCTCAA
* * *
13010020 ATTATAAAATTA-CTGAAATAACCTCGA
1 TTTGTAAAATTATC-GAAATAACCTCAA
13010047 TTTGTAAAATTATC
1 TTTGTAAAATTATC
13010061 AACGTACCCT
Statistics
Matches: 140, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
26 7 0.05
27 127 0.91
28 6 0.04
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTGTAAAATTATCGAAATAACCTCAA
Found at i:13009994 original size:81 final size:81
Alignment explanation
Indices: 13009874--13010060 Score: 245
Period size: 81 Copynumber: 2.3 Consensus size: 81
13009864 AAATTACCGG
* * ***
13009874 AATAACCTCAAATTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTATTGAAATACCCTCAA
1 AATAACCTCGATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCAAAATACCCTCAA
*
13009939 ATTGTAAAATTA-TCA
66 ATTATAAAATTACTCA
*
13009954 ATATACCCTC-AGTTTGTAAAATTATCGAAATAC-CTTCGATTTGTAAAATTACCAAAATACCCT
1 A-ATAACCTCGA-TTTGTAAAATTATCGAAATACTC-TCGATTTGTAAAATTACCAAAATACCCT
* *
13010017 TAAATTATAAAATTACTGA
63 CAAATTATAAAATTACTCA
13010036 AATAACCTCGATTTGTAAAATTATC
1 AATAACCTCGATTTGTAAAATTATC
13010061 AACGTACCCT
Statistics
Matches: 93, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
80 3 0.03
81 86 0.92
82 4 0.04
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (81 bp):
AATAACCTCGATTTGTAAAATTATCGAAATACTCTCGATTTGTAAAATTACCAAAATACCCTCAA
ATTATAAAATTACTCA
Found at i:13010069 original size:54 final size:53
Alignment explanation
Indices: 13009859--13010093 Score: 213
Period size: 54 Copynumber: 4.4 Consensus size: 53
13009849 AAACCTCGGT
* * * * *
13009859 TTGTAAAATTACCGGAATAACCTCAAATTGTAAAATTATCGAAATACTCTCGAT
1 TTGTAAAATTACTGAAATAACCTCAAATTGTAAAATTATC-AAATACCCTCAAA
* * **
13009913 TTGTAAAATTATTGAAATACCCTCAAATTGTAAAATTATCAATATACCCTCAGT
1 TTGTAAAATTACTGAAATAACCTCAAATTGTAAAATTATCAA-ATACCCTCAAA
* * * *
13009967 TTGTAAAATTA-TCGAAAT-ACCTTCGATTTGTAAAATTACCAAAATACCCTTAAA
1 TTGTAAAATTACT-GAAATAACC-TCAAATTGTAAAATTATC-AAATACCCTCAAA
* * * * * *
13010021 TTATAAAATTACTGAAATAACCTCGATTTGTAAAATTATCAACGTACCCTTATA
1 TTGTAAAATTACTGAAATAACCTCAAATTGTAAAATTATCAA-ATACCCTCAAA
* *
13010075 GTGTAAAATTACTAAAATA
1 TTGTAAAATTACTGAAATA
13010094 CCCCTGTAGG
Statistics
Matches: 153, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
53 7 0.05
54 140 0.92
55 6 0.04
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATAACCTCAAATTGTAAAATTATCAAATACCCTCAAA
Found at i:13010080 original size:81 final size:80
Alignment explanation
Indices: 13009875--13010096 Score: 220
Period size: 81 Copynumber: 2.7 Consensus size: 80
13009865 AATTACCGGA
** * ***
13009875 ATAACCTCAAATTGTAAAATTATCGAAATA-CTCTCGATTTGTAAAATTATTGAAATACCCTCAA
1 ATAACCTCAGTTTGTAAAATTATCGAAATACCT-TC-ATGTGTAAAATTACCAAAATACCCTCAA
*
13009939 ATTGTAAAATTATCAAT
64 ATTATAAAATTATCAAT
* * *
13009956 ATACCCTCAGTTTGTAAAATTATCGAAATACCTTCGATTTGTAAAATTACCAAAATACCCTTAAA
1 ATAACCTCAGTTTGTAAAATTATCGAAATACCTTC-ATGTGTAAAATTACCAAAATACCCTCAAA
*
13010021 TTATAAAATTACTGAA-
65 TTATAAAATTA-TCAAT
* *
13010037 ATAACCTC-GATTTGTAAAATTATC-AACGTACCCTT-ATAGTGTAAAATTACTAAAATACCC
1 ATAACCTCAG-TTTGTAAAATTATCGAA-ATA-CCTTCAT-GTGTAAAATTACCAAAATACCC
13010097 CTGTAGGGTA
Statistics
Matches: 122, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
80 5 0.04
81 108 0.89
82 9 0.07
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (80 bp):
ATAACCTCAGTTTGTAAAATTATCGAAATACCTTCATGTGTAAAATTACCAAAATACCCTCAAAT
TATAAAATTATCAAT
Found at i:13010095 original size:27 final size:27
Alignment explanation
Indices: 13009995--13010115 Score: 84
Period size: 27 Copynumber: 4.5 Consensus size: 27
13009985 ACCTTCGATT
* * *
13009995 TGTAAAATTACCAAAATACCCTTAAAT
1 TGTAAAATTACTAAAATACCCTTATAG
* * * * *
13010022 TATAAAATTACTGAAATAACCTCGAT-T
1 TGTAAAATTACTAAAATACCCT-TATAG
**
13010049 TGTAAAATTA-TCAACGTACCCTTATAG
1 TGTAAAATTACT-AAAATACCCTTATAG
* *
13010076 TGTAAAATTACTAAAATACCCCTGTAG
1 TGTAAAATTACTAAAATACCCTTATAG
* *
13010103 GGTAAAATGACTA
1 TGTAAAATTACTA
13010116 TTTTGCCCTT
Statistics
Matches: 71, Mismatches: 19, Indels: 8
0.72 0.19 0.08
Matches are distributed among these distances:
26 3 0.04
27 66 0.93
28 2 0.03
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTATAG
Found at i:13011623 original size:15 final size:15
Alignment explanation
Indices: 13011605--13011634 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13011595 CATTTAGTGG
*
13011605 TATCAGAGTTAGGTT
1 TATCAGAGCTAGGTT
13011620 TATCAGAGCTAGGTT
1 TATCAGAGCTAGGTT
13011635 GCAAAACTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (15 bp):
TATCAGAGCTAGGTT
Found at i:13012368 original size:22 final size:22
Alignment explanation
Indices: 13012340--13012414 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
13012330 AAGGGATCTA
13012340 GTGGCAAGGTAGCGCTACATGT
1 GTGGCAAGGTAGCGCTACATGT
* * *
13012362 GTGGCAAGGACTAAGGGAT-C-T-A
1 GTGGCAAGG--T-AGCGCTACATGT
*
13012384 GTGGCAAGGTGGCGCTACATGT
1 GTGGCAAGGTAGCGCTACATGT
13012406 GTGGCAAGG
1 GTGGCAAGG
13012415 AGTCTGAGGT
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
19 3 0.08
20 2 0.05
21 1 0.03
22 27 0.68
23 1 0.03
24 2 0.05
25 4 0.10
ACGTcount: A:0.24, C:0.16, G:0.40, T:0.20
Consensus pattern (22 bp):
GTGGCAAGGTAGCGCTACATGT
Found at i:13012393 original size:44 final size:44
Alignment explanation
Indices: 13012330--13012415 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
13012320 ACAAAAAGAG
13012330 AAGGGATCTAGTGGCAAGGTAGCGCTACATGTGTGGCAAGGACT
1 AAGGGATCTAGTGGCAAGGTAGCGCTACATGTGTGGCAAGGACT
*
13012374 AAGGGATCTAGTGGCAAGGTGGCGCTACATGTGTGGCAAGGA
1 AAGGGATCTAGTGGCAAGGTAGCGCTACATGTGTGGCAAGGA
13012416 GTCTGAGGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.38, T:0.20
Consensus pattern (44 bp):
AAGGGATCTAGTGGCAAGGTAGCGCTACATGTGTGGCAAGGACT
Found at i:13014104 original size:27 final size:27
Alignment explanation
Indices: 13014074--13014284 Score: 159
Period size: 27 Copynumber: 7.8 Consensus size: 27
13014064 AGACCTCAAT
* *
13014074 TTGTAAAATTA-CTGAAATACCTTCAGA
1 TTGTAAAATTATC-AAAATACCCTCAGA
*
13014101 TTGTAAAATTA-CTGAAATACCCTCA-A
1 TTGTAAAATTATC-AAAATACCCTCAGA
* * *
13014127 TTTATAAAATTATCAAAATACTCC-CGGT
1 -TTGTAAAATTATCAAAATAC-CCTCAGA
13014155 TTGTAAAATTATCAAAATACCCTC-GA
1 TTGTAAAATTATCAAAATACCCTCAGA
* *
13014181 TTTTTAAAATTA-CTAAAATACCCTCAAA
1 -TTGTAAAATTATC-AAAATACCCTCAGA
* *
13014209 TTGTAAAATTATCGAAATACCCT-TGTA
1 TTGTAAAATTATCAAAATACCCTCAG-A
* * *
13014236 GTGTAAAATTATCGAAATACCCT-TGTA
1 TTGTAAAATTATCAAAATACCCTCAG-A
* *
13014263 GTGTAAAATTATCGAAATACCC
1 TTGTAAAATTATCAAAATACCC
13014285 CTGTAGGGTA
Statistics
Matches: 160, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
26 5 0.03
27 150 0.94
28 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTATCAAAATACCCTCAGA
Found at i:13014159 original size:54 final size:54
Alignment explanation
Indices: 13014067--13014231 Score: 192
Period size: 54 Copynumber: 3.1 Consensus size: 54
13014057 GTCGTTAAGA
* * * *
13014067 CCTCAATTTGTAAAATTACTGAAATACCTTCAGATTGTAAAATTA-CTGAAATAC
1 CCTCAATTTATAAAATTACTAAAATACCCTCAAATTGTAAAATTATC-GAAATAC
*** *
13014121 CCTCAATTTATAAAATTA-TCAAAATACTCC-CGGTTTGTAAAATTATCAAAATAC
1 CCTCAATTTATAAAATTACT-AAAATAC-CCTCAAATTGTAAAATTATCGAAATAC
* *
13014175 CCTCGATTTTTAAAATTACTAAAATACCCTCAAATTGTAAAATTATCGAAATAC
1 CCTCAATTTATAAAATTACTAAAATACCCTCAAATTGTAAAATTATCGAAATAC
13014229 CCT
1 CCT
13014232 TGTAGTGTAA
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
53 3 0.03
54 88 0.94
55 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (54 bp):
CCTCAATTTATAAAATTACTAAAATACCCTCAAATTGTAAAATTATCGAAATAC
Found at i:13014216 original size:81 final size:80
Alignment explanation
Indices: 13014073--13014258 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 80
13014063 AAGACCTCAA
* * *
13014073 TTTGTAAAATTA-CTGAAATACCTTCAGATTGTAAAATTACTGAAATACCCTCAATTTATAAAAT
1 TTTGTAAAATTATC-GAAATACCCTCAGATTGTAAAATTACTAAAATACCCTCAAATTATAAAAT
13014137 TATCAAAATACTCCCGG
65 TATCAAAATAC-CCCGG
* * *
13014154 TTTGTAAAATTATCAAAATACCCTC-GATTTTTAAAATTACTAAAATACCCTCAAATTGTAAAAT
1 TTTGTAAAATTATCGAAATACCCTCAGA-TTGTAAAATTACTAAAATACCCTCAAATTATAAAAT
* **
13014218 TATCGAAATACCCTTG
65 TATCAAAATACCCCGG
*
13014234 TAGTGTAAAATTATCGAAATACCCT
1 T-TTGTAAAATTATCGAAATACCCT
13014259 TGTAGTGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
80 6 0.07
81 84 0.92
82 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (80 bp):
TTTGTAAAATTATCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCTCAAATTATAAAATT
ATCAAAATACCCCGG
Found at i:13014243 original size:54 final size:55
Alignment explanation
Indices: 13014075--13014298 Score: 178
Period size: 54 Copynumber: 4.1 Consensus size: 55
13014065 GACCTCAATT
* * ** *
13014075 TGTAAAATTA-CTGAAATACCTTCAGATTGTAAAATTA-CTGAAATACCC-TCAATT
1 TGTAAAATTATC-AAAATACCCTCAGATTGTAAAATTATC-GAAATACCCTTGTATG
* * * * * *
13014129 TATAAAATTATCAAAATACTCC-CGGTTTGTAAAATTATCAAAATACCCTCG-ATT
1 TGTAAAATTATCAAAATAC-CCTCAGATTGTAAAATTATCGAAATACCCTTGTATG
* *
13014183 TTTAAAATTA-CTAAAATACCCTCAAATTGTAAAATTATCGAAATACCCTTGTA-G
1 TGTAAAATTATC-AAAATACCCTCAGATTGTAAAATTATCGAAATACCCTTGTATG
* * * *
13014237 TGTAAAATTATCGAAATACCCT-TGTAGTGTAAAATTATCGAAATACCCCTGTA-G
1 TGTAAAATTATCAAAATACCCTCAG-ATTGTAAAATTATCGAAATACCCTTGTATG
*
13014291 GGTAAAAT
1 TGTAAAAT
13014299 GATTGCTTTG
Statistics
Matches: 139, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
53 3 0.02
54 131 0.94
55 5 0.04
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (55 bp):
TGTAAAATTATCAAAATACCCTCAGATTGTAAAATTATCGAAATACCCTTGTATG
Found at i:13014281 original size:81 final size:81
Alignment explanation
Indices: 13014075--13014284 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 81
13014065 GACCTCAATT
* * *
13014075 TGTAAAATTA-CTGAAATACCTTCAGAT-TGTAAAATTACTGAAATACCCTCAATTTATAAAATT
1 TGTAAAATTATC-AAAATACCCTC-GATGTGTAAAATTACTGAAATACCCTCAAATTATAAAATT
*
13014138 ATCAAAATACTCCCGGTT
64 ATCAAAATACTCCCGGTG
* * * *
13014156 TGTAAAATTATCAAAATACCCTCGATTTTTAAAATTACTAAAATACCCTCAAATTGTAAAATTAT
1 TGTAAAATTATCAAAATACCCTCGATGTGTAAAATTACTGAAATACCCTCAAATTATAAAATTAT
* **
13014221 CGAAATAC-CCTTGTAG
66 CAAAATACTCCCGGT-G
* *
13014237 TGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATTA-TCGAAATACCC
1 TGTAAAATTATCAAAATACCCTCGAT-GTGTAAAATTACT-GAAATACCC
13014285 CTGTAGGGTA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
80 9 0.08
81 99 0.91
82 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (81 bp):
TGTAAAATTATCAAAATACCCTCGATGTGTAAAATTACTGAAATACCCTCAAATTATAAAATTAT
CAAAATACTCCCGGTG
Found at i:13014289 original size:27 final size:27
Alignment explanation
Indices: 13014210--13014298 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
13014200 ACCCTCAAAT
13014210 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
13014237 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
13014264 TGTAAAATTATCGAAATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
13014291 GGTAAAAT
1 TGTAAAAT
13014299 GATTGCTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:13014706 original size:22 final size:22
Alignment explanation
Indices: 13014658--13014714 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
13014648 GTAATCTGAT
13014658 TATGGCTCTGTGCCAACCTAAA
1 TATGGCTCTGTGCCAACCTAAA
* * * *
13014680 AATGGCTCTGTGCCATCTTAAC
1 TATGGCTCTGTGCCAACCTAAA
*
13014702 TATGGCTTTGTGC
1 TATGGCTCTGTGC
13014715 TAAACTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (22 bp):
TATGGCTCTGTGCCAACCTAAA
Found at i:13018149 original size:10 final size:11
Alignment explanation
Indices: 13018124--13018156 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
13018114 GCAATTTTGG
13018124 AATTAAAGTGA
1 AATTAAAGTGA
13018135 AATTAAAGT-A
1 AATTAAAGTGA
13018145 AATTAAAGTGA
1 AATTAAAGTGA
13018156 A
1 A
13018157 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (11 bp):
AATTAAAGTGA
Found at i:13021168 original size:10 final size:11
Alignment explanation
Indices: 13021143--13021175 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
13021133 ACAATTTTGT
13021143 AATTAAAGTGA
1 AATTAAAGTGA
13021154 AATTAAAGT-A
1 AATTAAAGTGA
13021164 AATTAAAGTGA
1 AATTAAAGTGA
13021175 A
1 A
13021176 TAAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (11 bp):
AATTAAAGTGA
Found at i:13022132 original size:75 final size:75
Alignment explanation
Indices: 13022041--13022318 Score: 398
Period size: 75 Copynumber: 3.7 Consensus size: 75
13022031 CAGCTTGTCT
* *
13022041 GACTAGCAC-GGGTGCAAATACCGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTATC-T
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCAT
13022104 TCGGTTTATCC
66 T-GGTTTATCC
* * * *
13022115 GACTAGCATTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGTTGGGCTCACAATTGTTATCAT
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCAT
13022180 TGGTTTATCC
66 TGGTTTATCC
* *
13022190 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTGTTATCGT
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCAT
13022255 TGGTTTATCC
66 TGGTTTATCC
* * * * * * *
13022265 GACTACCACTAGGTGCAAATATTGTTGGCTTATCCAAGTAGACCTGGGCTCACA
1 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACA
13022319 TTCAATATTG
Statistics
Matches: 185, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
74 8 0.04
75 175 0.95
76 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (75 bp):
GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTATTATCAT
TGGTTTATCC
Found at i:13022155 original size:35 final size:35
Alignment explanation
Indices: 13022106--13022230 Score: 137
Period size: 35 Copynumber: 3.4 Consensus size: 35
13022096 TATTATCTTC
*
13022106 GGTTTATCCGACTAGCATTGGGTGCAAATATCGTT
1 GGTTTATCCAACTAGCATTGGGTGCAAATATCGTT
*
13022141 GGTTTATCCAACTAG-AGTTGGGCT-CACAATTGTTATCATT
1 GGTTTATCCAACTAGCA-TTGGG-TGCA-AA----TATCGTT
* *
13022181 GGTTTATCCGACTAGCACTGGGTGCAAATATCGTT
1 GGTTTATCCAACTAGCATTGGGTGCAAATATCGTT
13022216 GGTTTATCCAACTAG
1 GGTTTATCCAACTAG
13022231 AGCTAGGCTC
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
34 1 0.01
35 41 0.55
36 3 0.04
39 3 0.04
40 26 0.35
41 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (35 bp):
GGTTTATCCAACTAGCATTGGGTGCAAATATCGTT
Found at i:13022195 original size:40 final size:39
Alignment explanation
Indices: 13022062--13022269 Score: 172
Period size: 40 Copynumber: 5.5 Consensus size: 39
13022052 GTGCAAATAC
* *
13022062 CGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTAT
1 CGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT-TTAT
* *
13022102 C-TTCGGTTTATCCGACTAGCA-TTGGG-TGCA-AA---TAT
1 CGTT-GGTTTATCCAACTAG-AGCTGGGCT-CACAATTTTAT
*
13022137 CGTTGGTTTATCCAACTAGAGTTGGGCTCACAATTGTTAT
1 CGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT-TTAT
* *
13022177 CATTGGTTTATCCGACTAGCA-CTGGG-TGCA-AA---TAT
1 CGTTGGTTTATCCAACTAG-AGCTGGGCT-CACAATTTTAT
*
13022212 CGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTGTTAT
1 CGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT-TTAT
*
13022252 CGTTGGTTTATCCGACTA
1 CGTTGGTTTATCCAACTA
13022270 CCACTAGGTG
Statistics
Matches: 136, Mismatches: 12, Indels: 40
0.72 0.06 0.21
Matches are distributed among these distances:
34 2 0.01
35 51 0.38
36 8 0.06
39 8 0.06
40 65 0.48
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (39 bp):
CGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTTTAT
Found at i:13022358 original size:150 final size:150
Alignment explanation
Indices: 13022041--13022358 Score: 403
Period size: 150 Copynumber: 2.1 Consensus size: 150
13022031 CAGCTTGTCT
*
13022041 GACTAGCAC-GGGTGCAAATACCGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTATCTT
1 GACTAGCACTGGGCGCAAATACCGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTATCTT
* * * * **
13022105 CGGTTTATCCGACTAGCATTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGTTGGGCTCACAA
66 CGGTTTATCCGACTACCACTAGGTGCAAATATCGTTGGCTTATCCAACTAGACCTGGGCTCACAA
** *
13022170 TTGTTATCATTGGTTTATCC
131 TTGCAATCATTGGTTAATCC
* * * *
13022190 GACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTAGGCTCACAATTGTTATCGT
1 GACTAGCACTGGGCGCAAATACCGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTATC-T
* *
13022255 T-GGTTTATCCGACTACCACTAGGTGCAAATATTGTTGGCTTATCCAAGTAGACCTGGGCTCAC-
65 TCGGTTTATCCGACTACCACTAGGTGCAAATATCGTTGGCTTATCCAACTAGACCTGGGCTCACA
13022318 ATT-CAAT-ATTGTCAGTTAATCC
130 ATTGCAATCATTG---GTTAATCC
**
13022340 GACTAGCGTTGGGCGCAAA
1 GACTAGCACTGGGCGCAAA
13022359 CTCCTCTGCG
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
147 4 0.03
148 2 0.01
149 12 0.08
150 127 0.86
151 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (150 bp):
GACTAGCACTGGGCGCAAATACCGTTGGTTTATCCAACTACAGCTAGGCTCACAATTATTATCTT
CGGTTTATCCGACTACCACTAGGTGCAAATATCGTTGGCTTATCCAACTAGACCTGGGCTCACAA
TTGCAATCATTGGTTAATCC
Found at i:13025383 original size:37 final size:37
Alignment explanation
Indices: 13025312--13025383 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
13025302 CAAAATATAT
* *
13025312 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
13025349 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
13025384 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:13027013 original size:89 final size:87
Alignment explanation
Indices: 13026855--13027261 Score: 381
Period size: 89 Copynumber: 4.6 Consensus size: 87
13026845 GTGATCCTGA
** * * * ** * **
13026855 GCTCAACTCATTTCTCGCAATATGAATTGACTTTTAAAAACTAGTTATTAAAAACAGAAATTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-AGAAATTGAAAACAGATTTTG-A
* * **
13026920 AAATAGCTCAGCACGTGAGCAAAG
64 AAATACCTCAGCACGTGACCCGAG
* * * *
13026944 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAACAGAATTTGCCAAACAGATTTTGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTG-AAAACAGATTTTGA
** *
13027009 AAATACCTTGGCATGTGACCCGAG
64 AAATACCTCAGCACGTGACCCGAG
* * * * *
13027033 GCTCAACTTACCTCTCGTAATATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTGAAAACAGATT--TTG
13027098 AAAATACCTCAG--CGTG-CCTCGAG
63 AAAATACCTCAGCACGTGACC-CGAG
* **
13027121 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTG-AAAACAGATTTTGA
* * *
13027185 AAAGACCTCAGCATGTGAGCCGAG
64 AAATACCTCAGCACGTGACCCGAG
* *
13027209 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTCGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
13027262 TTACTTCAGC
Statistics
Matches: 261, Mismatches: 45, Indels: 25
0.79 0.14 0.08
Matches are distributed among these distances:
86 14 0.05
87 16 0.06
88 99 0.38
89 101 0.39
90 31 0.12
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAACAGATTTTGAAA
ATACCTCAGCACGTGACCCGAG
Found at i:13027176 original size:14 final size:14
Alignment explanation
Indices: 13027159--13027187 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
13027149 GATTTTGACG
13027159 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13027173 AACAGAAATTGAAA
1 AACAGAAATTGAAA
13027187 A
1 A
13027188 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:13039330 original size:37 final size:37
Alignment explanation
Indices: 13039259--13039330 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
13039249 AAAAATATAT
* *
13039259 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
13039296 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
13039331 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:13039930 original size:11 final size:11
Alignment explanation
Indices: 13039909--13039948 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13039899 AGGTAAGCAG
13039909 AGAACAAAAAGA
1 AGAA-AAAAAGA
13039921 AGAAAAAAAGA
1 AGAAAAAAAGA
*
13039932 AAAAAAAAAGA
1 AGAAAAAAAGA
*
13039943 ACAAAA
1 AGAAAA
13039949 CTAAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAGA
Found at i:13045095 original size:19 final size:20
Alignment explanation
Indices: 13045064--13045103 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
13045054 ATTAGAGGAC
*
13045064 TTTAAATTTAATTAATTAAT
1 TTTAAATTTAATTAACTAAT
13045084 TTTAAA-TTAATTAACTAAT
1 TTTAAATTTAATTAACTAAT
13045103 T
1 T
13045104 AATCAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAAATTTAATTAACTAAT
Found at i:13045317 original size:4 final size:4
Alignment explanation
Indices: 13045296--13045330 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
13045286 AGACCCAAGG
13045296 AAAT AAAAT AAA- AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
13045331 CTAACAGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
3 3 0.10
4 22 0.76
5 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:13047895 original size:18 final size:19
Alignment explanation
Indices: 13047854--13047898 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
13047844 TATTTCAAGG
*
13047854 TAACAAAT-AAATGAATAA
1 TAACAAATAAAAAGAATAA
13047872 -AACAAATAAAAAG-ATAA
1 TAACAAATAAAAAGAATAA
13047889 TAACAAATAA
1 TAACAAATAA
13047899 GCTAGGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.71, C:0.07, G:0.04, T:0.18
Consensus pattern (19 bp):
TAACAAATAAAAAGAATAA
Found at i:13049018 original size:38 final size:39
Alignment explanation
Indices: 13048961--13049076 Score: 189
Period size: 38 Copynumber: 3.0 Consensus size: 39
13048951 AGTTGATTCC
* *
13048961 ACTCCCCCATGCTACTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
13049000 ACT-CCCCATACTATTTTGTTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
*
13049038 ATTCCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 ACTCCCCCATACTATTTTG-TTTTATTATTAATTAAAAC
13049077 CATACTTTAT
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
38 35 0.49
39 18 0.25
40 19 0.26
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
Found at i:13049735 original size:22 final size:23
Alignment explanation
Indices: 13049687--13049736 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
13049677 AACCCCCTCT
**
13049687 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
13049710 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
13049732 AATAC
1 AATAC
13049737 CATCAATCCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.36, C:0.32, G:0.02, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:13052548 original size:40 final size:40
Alignment explanation
Indices: 13052475--13052601 Score: 107
Period size: 40 Copynumber: 3.2 Consensus size: 40
13052465 AACACACCAG
* * **
13052475 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCAACGGATAAGCCGAAGTAATAA
* *
13052515 TTTGACACCCAGTGTCTCAACGGCTAAGCCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCAACGGATAAGCCGAAGTAATAA
* * * * * *
13052553 -TTGGCACCCACTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACACCCAGTGCCTCAACGGA-TAAGCCGAAGTAATAA
*
13052593 ATTGACACC
1 TTTGACACC
13052602 TAATGTCTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
37 17 0.25
38 12 0.18
39 1 0.01
40 31 0.46
41 7 0.10
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCAACGGATAAGCCGAAGTAATAA
Found at i:13053016 original size:23 final size:22
Alignment explanation
Indices: 13052985--13053035 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
13052975 AAAATTTGAA
13052985 TTTCGAGTTAAACGAATCGAGT
1 TTTCGAGTTAAACGAATCGAGT
* * *
13053007 TATTCGAGTTAATCGAGTTGAGT
1 T-TTCGAGTTAAACGAATCGAGT
13053030 TTTCGA
1 TTTCGA
13053036 ATTCGAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (22 bp):
TTTCGAGTTAAACGAATCGAGT
Found at i:13053064 original size:9 final size:9
Alignment explanation
Indices: 13053035--13053071 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
13053025 TGAGTTTTCG
13053035 AATTCGAAT
1 AATTCGAAT
*
13053044 AACTCGAAT
1 AATTCGAAT
13053053 AATTCGAAT
1 AATTCGAAT
*
13053062 AATTTGAAT
1 AATTCGAAT
13053071 A
1 A
13053072 TCAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13054571 original size:10 final size:10
Alignment explanation
Indices: 13054552--13054620 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
13054542 TCTTTCCCTT
13054552 TTTC-TTTTC
1 TTTCTTTTTC
13054561 TTTCTTTTTC
1 TTTCTTTTTC
** *
13054571 TCCCTGTTTCC
1 TTTCT-TTTTC
*
13054582 TTTCTATTTTG
1 TTTCT-TTTTC
* *
13054593 TTTCTTTCTA
1 TTTCTTTTTC
*
13054603 TTTCTTTTTG
1 TTTCTTTTTC
13054613 TTTCTTTT
1 TTTCTTTT
13054621 ATTTATTATA
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
9 4 0.09
10 27 0.59
11 15 0.33
ACGTcount: A:0.03, C:0.20, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:13054599 original size:15 final size:16
Alignment explanation
Indices: 13054575--13054605 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13054565 TTTTTCTCCC
13054575 TGTTTCCTTTCTATTT
1 TGTTTCCTTTCTATTT
13054591 TGTTT-CTTTCTATTT
1 TGTTTCCTTTCTATTT
13054606 CTTTTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.06, C:0.16, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTTTCCTTTCTATTT
Found at i:13054611 original size:20 final size:20
Alignment explanation
Indices: 13054582--13054624 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
13054572 CCCTGTTTCC
13054582 TTTCTATTTTGTTTCTTTCTA
1 TTTCTATTTTGTTTCTTT-TA
13054603 TTTCT-TTTTGTTTCTTTTA
1 TTTCTATTTTGTTTCTTTTA
13054622 TTT
1 TTT
13054625 ATTATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.07, C:0.12, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTCTATTTTGTTTCTTTTA
Found at i:13054615 original size:36 final size:34
Alignment explanation
Indices: 13054557--13054624 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
13054547 CCCTTTTTCT
*
13054557 TTTCTTTCTTTTTCTCCCTGTTTCCTTTCTATTTTG
1 TTTCTTTCTATTTCTCCCTGTTT-CTTT-TATTTTG
***
13054593 TTTCTTTCTATTTCTTTTTGTTTCTTTTATTT
1 TTTCTTTCTATTTCTCCCTGTTTCTTTTATTT
13054625 ATTATATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 5 0.18
35 4 0.14
36 19 0.68
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.72
Consensus pattern (34 bp):
TTTCTTTCTATTTCTCCCTGTTTCTTTTATTTTG
Found at i:13054672 original size:21 final size:22
Alignment explanation
Indices: 13054640--13054703 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 22
13054630 ATTTACTTAT
*
13054640 TATAATAT-ATAATATAATATA
1 TATACTATAATAATATAATATA
13054661 TATACT-TAATAAT-T-ATATA
1 TATACTATAATAATATAATATA
* * *
13054680 T-TATTATAATATTATAATGTA
1 TATACTATAATAATATAATATA
13054701 TAT
1 TAT
13054704 TTTAACTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
18 3 0.09
19 12 0.35
20 3 0.09
21 15 0.44
22 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATACTATAATAATATAATATA
Found at i:13057420 original size:29 final size:29
Alignment explanation
Indices: 13057378--13057436 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
13057368 GACTGGGGGG
13057378 TAAGTATCACTCTTTGTCTAATGAGCTGT
1 TAAGTATCACTCTTTGTCTAATGAGCTGT
13057407 TAAGTATCACTCTTTGTCTAATGAGCTGT
1 TAAGTATCACTCTTTGTCTAATGAGCTGT
13057436 T
1 T
13057437 CAAACTTGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (29 bp):
TAAGTATCACTCTTTGTCTAATGAGCTGT
Found at i:13062182 original size:10 final size:9
Alignment explanation
Indices: 13062169--13062211 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13062159 TTAAAAATCA
13062169 TTAAAATATT
1 TTAAAAT-TT
13062179 TTAAAATTT
1 TTAAAATTT
*
13062188 CTAAAATTT
1 TTAAAATTT
*
13062197 ATAAAATTT
1 TTAAAATTT
*
13062206 ATAAAA
1 TTAAAA
13062212 ATATATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 24 0.77
10 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAAAATTT
Found at i:13062203 original size:18 final size:19
Alignment explanation
Indices: 13062170--13062211 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
13062160 TAAAAATCAT
* *
13062170 TAAAATATTTTAAAATTTC
1 TAAAATATTATAAAATTTA
13062189 TAAAAT-TTATAAAATTTA
1 TAAAATATTATAAAATTTA
13062207 TAAAA
1 TAAAA
13062212 ATATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAATATTATAAAATTTA
Found at i:13063674 original size:9 final size:9
Alignment explanation
Indices: 13063657--13063690 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
13063647 GAATATAAAT
*
13063657 AAATGAAAC
1 AAATAAAAC
13063666 AAATAAAAC
1 AAATAAAAC
13063675 AAATAATAAC
1 AAATAA-AAC
13063685 AAATAA
1 AAATAA
13063691 TATTAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.74, C:0.09, G:0.03, T:0.15
Consensus pattern (9 bp):
AAATAAAAC
Found at i:13063687 original size:10 final size:10
Alignment explanation
Indices: 13063663--13063692 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
13063653 AAATAAATGA
13063663 AACAAATAA-
1 AACAAATAAT
13063672 AACAAATAAT
1 AACAAATAAT
13063682 AACAAATAAT
1 AACAAATAAT
13063692 A
1 A
13063693 TTAATGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (10 bp):
AACAAATAAT
Found at i:13064043 original size:3 final size:3
Alignment explanation
Indices: 13064037--13064062 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13064027 TAAAATTAAT
13064037 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
13064063 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13064067 original size:3 final size:3
Alignment explanation
Indices: 13064061--13064131 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
13064051 CAACAACAAC
13064061 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
13064109 AAT AAT AGT GAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
13064132 GAGGATTAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13065155 original size:14 final size:15
Alignment explanation
Indices: 13065138--13065170 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
13065128 TGGTTCTTTT
13065138 TTTGTTTTTTCTTC-
1 TTTGTTTTTTCTTCA
13065152 TTTGTTTTTTCTTCA
1 TTTGTTTTTTCTTCA
13065167 TTTG
1 TTTG
13065171 CGTGTTGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (15 bp):
TTTGTTTTTTCTTCA
Found at i:13066158 original size:9 final size:9
Alignment explanation
Indices: 13066111--13066165 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
13066101 ACAATTAGTT
13066111 AATT-TTTA
1 AATTATTTA
*
13066119 AATTTTTTA
1 AATTATTTA
* *
13066128 AA-AATTAA
1 AATTATTTA
*
13066136 AATATATATA
1 AAT-TATTTA
13066146 AATTATTTA
1 AATTATTTA
13066155 AATTATTTA
1 AATTATTTA
13066164 AA
1 AA
13066166 AATATATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
8 9 0.24
9 22 0.59
10 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTTA
Found at i:13066164 original size:36 final size:38
Alignment explanation
Indices: 13066111--13066188 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 38
13066101 ACAATTAGTT
* * *
13066111 AATT-TTTAAATTTTTTAAAAAT-TA-AAATATATATA
1 AATTATTTAAATTATTTAAAAATATATAAAAATATAAA
13066146 AATTATTTAAATTATTTAAAAATATATAAAAATATAAA
1 AATTATTTAAATTATTTAAAAATATATAAAAATATAAA
13066184 AATTA
1 AATTA
13066189 ACAATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 4 0.11
36 17 0.46
37 2 0.05
38 14 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (38 bp):
AATTATTTAAATTATTTAAAAATATATAAAAATATAAA
Done.