Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 110 of 202
Found at i:33821607 original size:21 final size:21
Alignment explanation
Indices: 33821574--33821614 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33821564 TAATTAACTT
*
33821574 ATTTCTTGATTTTTAAATTTA
1 ATTTATTGATTTTTAAATTTA
*
33821595 ATTTATTGGTTTTTAAATTT
1 ATTTATTGATTTTTAAATTT
33821615 TTATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (21 bp):
ATTTATTGATTTTTAAATTTA
Found at i:33823337 original size:56 final size:58
Alignment explanation
Indices: 33823208--33823351 Score: 204
Period size: 56 Copynumber: 2.5 Consensus size: 58
33823198 GTCATCCCAT
* * *
33823208 TTTCTATAATTAATTTTGATTTTTTAAAATTAATTTTATTTAAAACTGTAATTAACTTG
1 TTTCTTTAATTAATTTTGATTTTTTAAAA-TAATATTATTTAAAACTGTAATTAACTTA
* *
33823267 TTTCTTTAATTAATTTTGATTTTTTAAAATAATATT-TTT-AAATTGTAATTAATTTA
1 TTTCTTTAATTAATTTTGATTTTTTAAAATAATATTATTTAAAACTGTAATTAACTTA
*
33823323 TTTCTTTAATTAATTTTGA-ATTTTAAAAT
1 TTTCTTTAATTAATTTTGATTTTTTAAAAT
33823352 TAATTTCATT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
55 9 0.11
56 33 0.42
57 3 0.04
58 6 0.08
59 28 0.35
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.57
Consensus pattern (58 bp):
TTTCTTTAATTAATTTTGATTTTTTAAAATAATATTATTTAAAACTGTAATTAACTTA
Found at i:33824819 original size:31 final size:29
Alignment explanation
Indices: 33824784--33824850 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
33824774 AGTGATCACT
33824784 ACGTAACAAAATAATAACATAAGTGACTAAA
1 ACGTAAC-AAATAA-AACATAAGTGACTAAA
** *
33824815 ACGTAACATTTCAAACATAAGTGACTAAA
1 ACGTAACAAATAAAACATAAGTGACTAAA
*
33824844 ATGTAAC
1 ACGTAAC
33824851 CTGAAACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 22 0.69
30 3 0.09
31 7 0.22
ACGTcount: A:0.52, C:0.15, G:0.10, T:0.22
Consensus pattern (29 bp):
ACGTAACAAATAAAACATAAGTGACTAAA
Found at i:33824919 original size:18 final size:18
Alignment explanation
Indices: 33824896--33824969 Score: 64
Period size: 18 Copynumber: 4.3 Consensus size: 18
33824886 CCCTTTAATT
33824896 TATTTAATTTTACAACAA
1 TATTTAATTTTACAACAA
*
33824914 TATTTAATTTTA-AA-AT
1 TATTTAATTTTACAACAA
** *
33824930 TAAAT-ATTTTACAACCA
1 TATTTAATTTTACAACAA
* * *
33824947 TAATTAATTATACAACCA
1 TATTTAATTTTACAACAA
33824965 TATTT
1 TATTT
33824970 TAAAATTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.13
16 6 0.13
17 6 0.13
18 27 0.60
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTAATTTTACAACAA
Found at i:33829015 original size:33 final size:33
Alignment explanation
Indices: 33828979--33829059 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 33
33828969 AAGTTAAAAA
**
33828979 AAAAATATTTTTCAA-ATGACTACAAATTTTGT
1 AAAAATATTTTAAAAGATGACTACAAATTTTGT
33829011 AAAAATATTTTAAAAGATGACTACAAATTTT-T
1 AAAAATATTTTAAAAGATGACTACAAATTTTGT
*
33829043 GAATCAATATTTTAAAA
1 -AA-AAATATTTTAAAA
33829060 AATATTGATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 14 0.33
33 17 0.40
34 12 0.28
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.38
Consensus pattern (33 bp):
AAAAATATTTTAAAAGATGACTACAAATTTTGT
Found at i:33829043 original size:34 final size:31
Alignment explanation
Indices: 33828979--33829060 Score: 101
Period size: 34 Copynumber: 2.5 Consensus size: 31
33828969 AAGTTAAAAA
**
33828979 AAAAATATTTTTCAAATGACTACAAATTTTG
1 AAAAATATTTTAAAAATGACTACAAATTTTG
33829010 TAAAAATATTTTAAAAGATGACTACAAATTTTTG
1 -AAAAATATTTTAAAA-ATGACTACAAA-TTTTG
*
33829044 AATCAATATTTTAAAAA
1 AA-AAATATTTTAAAAA
33829061 ATATTGATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
32 13 0.30
33 14 0.32
34 17 0.39
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (31 bp):
AAAAATATTTTAAAAATGACTACAAATTTTG
Found at i:33830298 original size:29 final size:29
Alignment explanation
Indices: 33830265--33830333 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
33830255 ATAAAAGTTA
*
33830265 TATATATATATATTATATAAAGAAAT-ATG
1 TATATATATATACTATATAAA-AAATCATG
*
33830294 TATATAAATATACTATATAAAAAATGCATG
1 TATATATATATACTATATAAAAAAT-CATG
*
33830324 TATAAATATA
1 TATATATATA
33830334 GAAATAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.12
29 19 0.56
30 11 0.32
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.38
Consensus pattern (29 bp):
TATATATATATACTATATAAAAAATCATG
Found at i:33833809 original size:19 final size:19
Alignment explanation
Indices: 33833773--33833811 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33833763 CCGAAAAATA
*
33833773 TTAAACATATATATTTTTT
1 TTAAACATATATAGTTTTT
33833792 TTAAA-ATATAATAGTTTTT
1 TTAAACATAT-ATAGTTTTT
33833811 T
1 T
33833812 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTAAACATATATAGTTTTT
Found at i:33833946 original size:59 final size:59
Alignment explanation
Indices: 33833883--33834047 Score: 294
Period size: 59 Copynumber: 2.8 Consensus size: 59
33833873 TCAAGTTTGT
*
33833883 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAAGTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAGTTGATAAA
* *
33833942 TTTACTAATCAAATGTTAGATTTTATTACAAAAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAGTTGATAAA
*
33834001 TTTACTAATCAAATATTAGATTTTATTACAACAATTAATACAATTAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAA
33834048 CAATTAATAA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 101 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAAGTTGATAAA
Found at i:33834086 original size:16 final size:16
Alignment explanation
Indices: 33834067--33834104 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
33834057 ATTTGATAAA
*
33834067 TTTACTAACAATTAAT
1 TTTAATAACAATTAAT
*
33834083 TTTAATAACAATTAGT
1 TTTAATAACAATTAAT
33834099 TTTAAT
1 TTTAAT
33834105 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTAATAACAATTAAT
Found at i:33834105 original size:22 final size:23
Alignment explanation
Indices: 33834078--33834139 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
33834068 TTACTAACAA
* * *
33834078 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
33834100 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
33834123 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
33834140 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:33845505 original size:42 final size:42
Alignment explanation
Indices: 33845448--33845999 Score: 736
Period size: 42 Copynumber: 13.3 Consensus size: 42
33845438 CTTCATATAC
* * *
33845448 AATGCAATGAAAAGTAAATGGACCTCCACACCTGAGACTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
33845490 AATACAATGAAAAGTAAACGAACCTCCACACTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845532 AATGCAATGAAAAGTCAATGGACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845574 AATGCAATGAAAAGTGAATGGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * ** *
33845616 AATGTAATGAAAAGCAAATGGACCTCCACACCTGGGTTTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
33845658 AATACAATAAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
33845700 AATGCAATGAAAAGTGAATGGAACTCCACACCTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845742 AATGCAATAAAAAGTAAATGGACATCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
33845784 AATGCAATGAAAAGTAAATGGAACTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845826 AATGCAATAAAAAGTAAATGGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845868 AATGCAAT-AAAAGTAATTGGACCTCCACACCT----CTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * *
33845905 AATGCAATAAAAATTAAATGGACCTCTACGCTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
33845947 AATGCAATGAAAAGTAAATAGACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
33845989 AATGCAGTGAA
1 AATGCAATGAA
33846000 TGTTTTCCTT
Statistics
Matches: 441, Mismatches: 64, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
37 12 0.03
38 19 0.04
41 23 0.05
42 387 0.88
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:33847706 original size:42 final size:44
Alignment explanation
Indices: 33847647--33847755 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
33847637 TCCCAGACAG
* *
33847647 TGTCCCAGACAGGGTCTTACACGT-AATCATATA-CAACGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAACCAACGCCAA
* * *
33847689 TGTCCCAGACATGGTCTTACACGTAAATCTTAAACCGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAAATCATAAACCAACGCCAA
* *
33847733 CGTCCCAGACGTGGTCTTACACG
1 TGTCCCAGACATGGTCTTACACG
33847756 ATATCACATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 23 0.40
43 7 0.12
44 28 0.48
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.23
Consensus pattern (44 bp):
TGTCCCAGACATGGTCTTACACGTAAATCATAAACCAACGCCAA
Found at i:33848292 original size:28 final size:27
Alignment explanation
Indices: 33848243--33848296 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 27
33848233 ATTTTATTTG
* * **
33848243 TTTCACATTTTATCCCTCAATATCTCAT
1 TTTCACAATTTAACCCAAAATA-CTCAT
33848271 TTTCACAATTTAACCCAAAATACTCA
1 TTTCACAATTTAACCCAAAATACTCA
33848297 AATTCATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (27 bp):
TTTCACAATTTAACCCAAAATACTCAT
Found at i:33848864 original size:13 final size:13
Alignment explanation
Indices: 33848846--33848870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33848836 ACAAACGATA
33848846 AAATTTTCACACG
1 AAATTTTCACACG
33848859 AAATTTTCACAC
1 AAATTTTCACAC
33848871 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:33849295 original size:12 final size:13
Alignment explanation
Indices: 33849279--33849311 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33849269 TTGGTTTCTT
33849279 TTTTTCTTTATTA
1 TTTTTCTTTATTA
*
33849292 TTTTTCTTTCTT-
1 TTTTTCTTTATTA
33849304 TTTTTCTT
1 TTTTTCTT
33849312 AATATAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCTTTATTA
Found at i:33849295 original size:13 final size:12
Alignment explanation
Indices: 33849259--33849311 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
33849249 TCTTGCTTTC
33849259 TCTTTATTTTTT
1 TCTTTATTTTTT
** *
33849271 GGTTTCTTTTTT
1 TCTTTATTTTTT
33849283 TCTTTATTATTTT
1 TCTTTATT-TTTT
*
33849296 TCTTTCTTTTTT
1 TCTTTATTTTTT
33849308 TCTT
1 TCTT
33849312 AATATAAGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (12 bp):
TCTTTATTTTTT
Found at i:33849305 original size:24 final size:24
Alignment explanation
Indices: 33849259--33849311 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
33849249 TCTTGCTTTC
*
33849259 TCTTTATTTTTTGGTTTCTTTTTT
1 TCTTTATTTTTTGCTTTCTTTTTT
*
33849283 TCTTTATTATTTTTCTTTCTTTTTT
1 TCTTTATT-TTTTGCTTTCTTTTTT
33849308 TCTT
1 TCTT
33849312 AATATAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (24 bp):
TCTTTATTTTTTGCTTTCTTTTTT
Found at i:33873536 original size:27 final size:27
Alignment explanation
Indices: 33873505--33873557 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
33873495 TGTACGATGG
33873505 ATGTTAAATGTATATGAATTGACTAAA
1 ATGTTAAATGTATATGAATTGACTAAA
33873532 ATGTTAAATGTATATGAATTGACTAA
1 ATGTTAAATGTATATGAATTGACTAA
33873558 GTAACCAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (27 bp):
ATGTTAAATGTATATGAATTGACTAAA
Found at i:33875061 original size:16 final size:16
Alignment explanation
Indices: 33875040--33875095 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
33875030 CGTTTGGTTC
33875040 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
**
33875056 GCTGTAATTAAATAGA
1 GCTGTAATGGAATAGA
33875072 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
33875088 ACTGTAAT
1 GCTGTAAT
33875096 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:33875128 original size:45 final size:44
Alignment explanation
Indices: 33875077--33875169 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 44
33875067 ATAGAGCTGT
*
33875077 AATGGAATAGAACTGTAATAGTAATTCA-ATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTCATA-TGTTTGATTGAATGG
*
33875122 AATGGAATAGAACTGTAATAGTATTCTTATGTTTGATTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATATGTTTGATTGAATGG
33875166 AATG
1 AATG
33875170 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 22 0.49
45 23 0.51
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATATGTTTGATTGAATGG
Found at i:33875391 original size:55 final size:57
Alignment explanation
Indices: 33875260--33875393 Score: 150
Period size: 55 Copynumber: 2.4 Consensus size: 57
33875250 TATTGTTATT
*
33875260 AAATTTTAATA-AGATTATTAATATAAATAATTTAATAAAAATAATAAATAATTTAACC
1 AAATTTTAATATA-ATTATTAATAT-AATAATTTAATAAAAATAATAAATAATTTAACA
* * * * *
33875318 ATATTTTAACATTTATTATTAA-AT-ATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATA-TAATTATTAATATAATAATTTAATAAAAATAATAAATAATTTAACA
33875373 AAATTCTTAATATAATTATTA
1 AAATT-TTAATATAATTATTA
33875394 TTTTATGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
55 30 0.47
56 15 0.23
58 11 0.17
59 8 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (57 bp):
AAATTTTAATATAATTATTAATATAATAATTTAATAAAAATAATAAATAATTTAACA
Found at i:33875456 original size:23 final size:21
Alignment explanation
Indices: 33875413--33875456 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33875403 TTGAAAAATC
* *
33875413 ATAATATATAATACTATAAAA
1 ATAATATATAATAATAAAAAA
33875434 ATAATATATAATTTAATAAAAAA
1 ATAATATATAA--TAATAAAAAA
33875457 TTCTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATATATAATAATAAAAAA
Found at i:33880734 original size:36 final size:36
Alignment explanation
Indices: 33880694--33880838 Score: 254
Period size: 36 Copynumber: 4.0 Consensus size: 36
33880684 CTAAAGTTAC
*
33880694 CACTTATCAGTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
33880730 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
33880766 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
33880802 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
33880838 C
1 C
33880839 TAAAGCTACC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 106 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:33883547 original size:42 final size:42
Alignment explanation
Indices: 33883464--33883575 Score: 131
Period size: 42 Copynumber: 2.6 Consensus size: 42
33883454 CTACGTCCTT
* *
33883464 GACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCA
1 GACGTGGTCTTACACGTAA-CACATATCGATGCAACTGTCCCA
33883507 GACAG-GGTCTTACACGTAACACA-AGTCGATGTCAAC-GTCCCA
1 GAC-GTGGTCTTACACGTAACACATA-TCGATG-CAACTGTCCCA
*
33883549 GACGTGGTCTTACACGATAACATATAT
1 GACGTGGTCTTACACG-TAACACATAT
33883576 AAAAAATCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
41 2 0.03
42 30 0.50
43 26 0.43
44 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
GACGTGGTCTTACACGTAACACATATCGATGCAACTGTCCCA
Found at i:33892313 original size:10 final size:10
Alignment explanation
Indices: 33892300--33892347 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
33892290 AATATAAAAA
33892300 ATAAAAATTT
1 ATAAAAATTT
33892310 AT-AAAATTT
1 ATAAAAATTT
33892319 ATAAAAA-TT
1 ATAAAAATTT
* *
33892328 ATTAAATTTT
1 ATAAAAATTT
33892338 ATTAAAAATT
1 A-TAAAAATT
33892348 AGAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 16 0.52
10 9 0.29
11 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAAAAATTT
Found at i:33892322 original size:19 final size:20
Alignment explanation
Indices: 33892300--33892347 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
33892290 AATATAAAAA
33892300 ATAAAAATTTA-TAAAATTT
1 ATAAAAATTTATTAAAATTT
*
33892319 ATAAAAA-TTATTAAATTTT
1 ATAAAAATTTATTAAAATTT
33892338 ATTAAAAATT
1 A-TAAAAATT
33892348 AGAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 6 0.24
21 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAAATTTATTAAAATTT
Found at i:33892662 original size:21 final size:21
Alignment explanation
Indices: 33892607--33892670 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
33892597 GATACGATAA
*
33892607 TTTTTATAATTTT-TCTTACAA
1 TTTTTATAATTTTCT-TTACAC
* *
33892628 ATTTTGT-A-TTTCTTTACAC
1 TTTTTATAATTTTCTTTACAC
33892647 TTTTTATAATTTTC-TTACAAC
1 TTTTTATAATTTTCTTTAC-AC
33892668 TTT
1 TTT
33892671 ATAAAATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 13 0.38
20 7 0.21
21 14 0.41
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATAATTTTCTTTACAC
Found at i:33892678 original size:21 final size:21
Alignment explanation
Indices: 33892636--33892678 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
33892626 AAATTTTGTA
* *
33892636 TTTCTTTACACTTTTTATAAT
1 TTTCTTTACACTTTATAAAAT
33892657 TTTC-TTACAACTTTATAAAAT
1 TTTCTTTAC-ACTTTATAAAAT
33892678 T
1 T
33892679 GTATAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTCTTTACACTTTATAAAAT
Found at i:33892715 original size:30 final size:31
Alignment explanation
Indices: 33892680--33892741 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 31
33892670 TATAAAATTG
33892680 TATAATTGTTTTTCTAT-ATTTTT-AT-ATTTT
1 TATAATT-TTTTT-TATGATTTTTAATAATTTT
33892710 TATAATTTTTTTTATGATTTTTAATAATTTT
1 TATAATTTTTTTTATGATTTTTAATAATTTT
33892741 T
1 T
33892742 TATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 3 0.10
29 11 0.38
30 9 0.31
31 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TATAATTTTTTTTATGATTTTTAATAATTTT
Found at i:33892729 original size:21 final size:21
Alignment explanation
Indices: 33892698--33892742 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
33892688 TTTTTCTATA
33892698 TTTTTATATTTTT-ATAATTT
1 TTTTTATATTTTTAATAATTT
33892718 TTTTTATGATTTTTAATAATTT
1 TTTTTAT-ATTTTTAATAATTT
33892740 TTT
1 TTT
33892743 ATTAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTATATTTTTAATAATTT
Found at i:33892744 original size:20 final size:19
Alignment explanation
Indices: 33892698--33892742 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 19
33892688 TTTTTCTATA
33892698 TTTTTATATTTTTATAATTT
1 TTTTTATATTTTTATAA-TT
33892718 TTTTTATGATTTTTAATAATT
1 TTTTTAT-ATTTTT-ATAATT
33892739 TTTT
1 TTTT
33892743 ATTAAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATATTTTTATAATT
Found at i:33906492 original size:12 final size:11
Alignment explanation
Indices: 33906471--33906497 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
33906461 TTATATAACC
33906471 AAAAACAAAAA
1 AAAAACAAAAA
33906482 AAAAACAAAAA
1 AAAAACAAAAA
33906493 AAAAA
1 AAAAA
33906498 TAGAAATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:33908936 original size:2 final size:2
Alignment explanation
Indices: 33908929--33908959 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33908919 TTCACCACTC
33908929 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33908960 CTAAATCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33924057 original size:30 final size:30
Alignment explanation
Indices: 33924004--33924094 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
33923994 GGACGAGGAA
* *
33924004 CTTGATATAAAT-TTCAACTTGTGTGAGCATC
1 CTTGATAT-AATGTT-AGCTTGTGTGAGCAAC
33924035 CTTGATATAATGTTAGCTTGTGTGAGCAAC
1 CTTGATATAATGTTAGCTTGTGTGAGCAAC
* *
33924065 CCTAATATAATGTTAGCTTGTGTGAGCAAC
1 CTTGATATAATGTTAGCTTGTGTGAGCAAC
33924095 TTAATCACCT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
30 45 0.82
31 10 0.18
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (30 bp):
CTTGATATAATGTTAGCTTGTGTGAGCAAC
Found at i:33937078 original size:40 final size:41
Alignment explanation
Indices: 33937034--33937132 Score: 148
Period size: 40 Copynumber: 2.4 Consensus size: 41
33937024 TATTGATGAT
*
33937034 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGATATCCCCTGAA
*
33937074 TGCACATACGTG-CCCTAGTTTGTACTTCGATATTCCCTGAA
1 TGCACATACGTGCCCCT-GTTTGTACTTCGATATCCCCTGAA
*
33937115 TGCACTTACGTGCCCCTG
1 TGCACATACGTGCCCCTG
33937133 ATTATGCTCT
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
39 4 0.08
40 26 0.49
41 19 0.36
42 4 0.08
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.31
Consensus pattern (41 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGATATCCCCTGAA
Found at i:33938676 original size:82 final size:82
Alignment explanation
Indices: 33938534--33938697 Score: 265
Period size: 82 Copynumber: 2.0 Consensus size: 82
33938524 GGGATAATTG
* ** *
33938534 TTCCAATACAACTATTCCATGTTGCAAAACAACTACCTTGAAATGTAGTGATTTGTATTCTGTTT
1 TTCCAATACAACTATTCCATGTTGCAAAACAACTACCTAGAAATGTAGCAACTTGTATTCTGTTT
33938599 GACTTATTATGATACCT
66 GACTTATTATGATACCT
* *
33938616 TTCCGATACAACTATTCCATGTTGCGAAACAACTACCTAGAAATGTAGCAACTTGTATTCTGTTT
1 TTCCAATACAACTATTCCATGTTGCAAAACAACTACCTAGAAATGTAGCAACTTGTATTCTGTTT
*
33938681 GACTTATTGTGATACCT
66 GACTTATTATGATACCT
33938698 CTAAGGCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (82 bp):
TTCCAATACAACTATTCCATGTTGCAAAACAACTACCTAGAAATGTAGCAACTTGTATTCTGTTT
GACTTATTATGATACCT
Found at i:33945554 original size:39 final size:38
Alignment explanation
Indices: 33945438--33945554 Score: 128
Period size: 39 Copynumber: 3.0 Consensus size: 38
33945428 TTAAAATATG
* * * * *
33945438 TATTAAAGATGTCCTAAACTATGACATAATTAAAACCCT
1 TATTAATGATGTTC-AAATTATGACATAATTAAAACTCA
* *
33945477 TATTAATGTTGCTT-AGATTATGACATAATTAAAAACTCA
1 TATTAATGATG-TTCAAATTATGACATAATT-AAAACTCA
33945516 TATTAATGATGTTCAAATTATGACATAATTAAAGACTCA
1 TATTAATGATGTTCAAATTATGACATAATTAAA-ACTCA
33945555 AACTAAATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
38 19 0.29
39 45 0.69
40 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (38 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAACTCA
Found at i:33949675 original size:14 final size:14
Alignment explanation
Indices: 33949656--33949694 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
33949646 TTAGGAAATT
33949656 AAATCAATTTTTAA
1 AAATCAATTTTTAA
* *
33949670 AAATCAATATTTGA
1 AAATCAATTTTTAA
*
33949684 AAATCAGTTTT
1 AAATCAATTTT
33949695 AAATACCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATCAATTTTTAA
Found at i:33950892 original size:29 final size:29
Alignment explanation
Indices: 33950844--33950903 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
33950834 TGAAAGTACG
*
33950844 TATGTGGATATGCTATTCATGCCATGTGA
1 TATGTGGATATGCTAGTCATGCCATGTGA
* *
33950873 TATGTGGGTATGTTAGTCATGCCATGTGA
1 TATGTGGATATGCTAGTCATGCCATGTGA
33950902 TA
1 TA
33950904 GTGTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (29 bp):
TATGTGGATATGCTAGTCATGCCATGTGA
Found at i:33956026 original size:42 final size:42
Alignment explanation
Indices: 33955917--33956120 Score: 284
Period size: 42 Copynumber: 4.8 Consensus size: 42
33955907 TTTACAAAAC
*
33955917 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTT-AGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
33955958 AAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
1 --AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
* *
33956002 AAAAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTAAGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
* ****
33956044 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
* * *
33956086 ACAAATGCCGCTAAAGAACATGTTATTTAGCGGCG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
33956121 TTTTTTTTTA
Statistics
Matches: 147, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
42 107 0.73
43 37 0.25
44 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGG
Found at i:33956121 original size:42 final size:42
Alignment explanation
Indices: 33955919--33956176 Score: 264
Period size: 42 Copynumber: 6.1 Consensus size: 42
33955909 TACAAAACAA
* ** * *
33955919 AAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTTAGGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTG-TAC
** * *
33955962 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
* * ** * *
33956004 AAACGCCGCTAAAGATCGTGTTCTTTAGCGGCGCTTAAGGAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
* *
33956046 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
* * * *
33956088 AAATGCCGCTAAAGAACATGTTATTTAGCGGCGTTTTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCG--CTTTTGTAC
* * * *
33956132 AAATGCCGCTAAAGAACATATTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
33956174 AAA
1 AAA
33956177 AATGCCACTA
Statistics
Matches: 193, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 117 0.61
43 37 0.19
44 39 0.20
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTGTAC
Found at i:33956544 original size:21 final size:21
Alignment explanation
Indices: 33956474--33956531 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
33956464 TTTTGCTCTG
*
33956474 CTCCGCTTCTCTCGCTGCAGC
1 CTCCGCTTCCCTCGCTGCAGC
33956495 CTCCGCTTCCCTCGCTGCAGC
1 CTCCGCTTCCCTCGCTGCAGC
* *
33956516 CGCTGCTTCCCTCGCT
1 CTCCGCTTCCCTCGCT
33956532 TCTGCCTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.03, C:0.50, G:0.19, T:0.28
Consensus pattern (21 bp):
CTCCGCTTCCCTCGCTGCAGC
Found at i:33962816 original size:9 final size:9
Alignment explanation
Indices: 33962799--33963161 Score: 195
Period size: 9 Copynumber: 41.4 Consensus size: 9
33962789 TATGTATTAA
*
33962799 GTAAATTAT
1 GTAAGTTAT
33962808 GTAAGTTAT
1 GTAAGTTAT
*
33962817 GTACGTGTA-
1 GTAAGT-TAT
*
33962826 -TAAGTTAA
1 GTAAGTTAT
33962834 GTAAGTTAT
1 GTAAGTTAT
*
33962843 GT-A-TTAA
1 GTAAGTTAT
33962850 GTAAGTTAT
1 GTAAGTTAT
33962859 GTAAGTTAT
1 GTAAGTTAT
* *
33962868 GAAAGTAAT
1 GTAAGTTAT
* *
33962877 GTATGTAAT
1 GTAAGTTAT
33962886 GTAAG-T-T
1 GTAAGTTAT
33962893 GTAAGTTAT
1 GTAAGTTAT
*
33962902 -TATGTATTAT
1 GTAAG--TTAT
33962912 GTAAGTTAT
1 GTAAGTTAT
33962921 GTAAGTTAT
1 GTAAGTTAT
33962930 GTAAGTTAAAT
1 GTAAGTT--AT
33962941 GT-A-TTAT
1 GTAAGTTAT
33962948 GTAAG-T-T
1 GTAAGTTAT
33962955 GTAAGTTAAAT
1 GTAAGTT--AT
33962966 GT-A-TTAT
1 GTAAGTTAT
33962973 GTAAG-T-T
1 GTAAGTTAT
33962980 GTAAGTTAAAT
1 GTAAGTT--AT
33962991 GT-A-TTAT
1 GTAAGTTAT
33962998 GTAAGTTAT
1 GTAAGTTAT
*
33963007 -TATGTATTAT
1 GTAAG--TTAT
33963017 GTAAG-T-T
1 GTAAGTTAT
33963024 GTAAGTTAAAT
1 GTAAGTT--AT
*
33963035 GT-A-TTGT
1 GTAAGTTAT
33963042 GTAAG-T-T
1 GTAAGTTAT
33963049 GTAAGTTAT
1 GTAAGTTAT
*
33963058 -TATGTATTAT
1 GTAAG--TTAT
33963068 GTAAGTTAT
1 GTAAGTTAT
33963077 GTAAGTTAAAT
1 GTAAGTT--AT
33963088 GT-A-TTAT
1 GTAAGTTAT
*
33963095 GTAGGTTAT
1 GTAAGTTAT
*
33963104 GTAAGTTGT
1 GTAAGTTAT
**
33963113 GTAAGAGAT
1 GTAAGTTAT
*
33963122 TTAAGTTAT
1 GTAAGTTAT
*
33963131 GTAGGTTAT
1 GTAAGTTAT
* *
33963140 TTAGGTTAT
1 GTAAGTTAT
*
33963149 GTAAGTTTT
1 GTAAGTTAT
33963158 GTAA
1 GTAA
33963162 TGTGCAAGTG
Statistics
Matches: 276, Mismatches: 34, Indels: 88
0.69 0.09 0.22
Matches are distributed among these distances:
7 56 0.20
8 28 0.10
9 147 0.53
10 19 0.07
11 26 0.09
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:33962818 original size:25 final size:25
Alignment explanation
Indices: 33962788--33963115 Score: 157
Period size: 25 Copynumber: 13.3 Consensus size: 25
33962778 TGATATATAT
*
33962788 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
33962813 TTATGTACGTGT-A-TAAGTTAAGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
33962839 TTATGTATTAAGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
33962864 TTATG-A--AAGTAA-TGTATGTAA-
1 TTATGTATTAAGTAAGT-TATGTAAG
* *
33962885 TGTAAGT-TGTAAGTTA-TTATGT-A-
1 T-TATGTAT-TAAGTAAGTTATGTAAG
*
33962908 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
*
33962935 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
33962960 TTAAATGTATTATGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
33962985 TTAAATGTATTATGTAAG---T-T-A-
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
33963006 TTATGTATTATGTAAG-T-TGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
**
33963029 TTAAATGTATTGTGTAAG-T-TGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
33963054 TTATTATGTATTATGTAAGTTATGTAAG
1 ---TTATGTATTAAGTAAGTTATGTAAG
* *
33963082 TTAAATGTATTATGTAGGTTATGTAAG
1 TT--ATGTATTAAGTAAGTTATGTAAG
*
33963109 TTGTGTA
1 TTATGTA
33963116 AGAGATTTAA
Statistics
Matches: 259, Mismatches: 12, Indels: 64
0.77 0.04 0.19
Matches are distributed among these distances:
19 14 0.05
20 1 0.00
21 5 0.02
22 22 0.08
23 6 0.02
24 14 0.05
25 112 0.43
26 33 0.13
27 38 0.15
28 10 0.04
29 4 0.02
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:33962916 original size:62 final size:62
Alignment explanation
Indices: 33962839--33963110 Score: 241
Period size: 62 Copynumber: 4.4 Consensus size: 62
33962829 GTTAAGTAAG
*
33962839 TTATGTATTAAGTAAGTTATGTAAGTTATGAAAG-T-AATGTATGTAATGTAAGTTGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTTATGAAAGTTAAATGTAT-T-ATGTAAGTTGTAAGTTA
*
33962901 TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTTATGAAAGTTAAATGTATTATGTAAGTTGTAAGTTA
* * * *
33962963 -AATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTATTATGTATTATGTAAGTTGTA
1 TTATGTATTATGTAAG-T-TATG-T-AA-G--TTATGAAAGTTA-AATGTATTATGTAAGTTGTA
33963027 AGTTA
58 AGTTA
* *
33963032 -AATGTATTGTGTAAG-T-TGTAAG-T-T---A-TT--ATGTATTATGTAAGTTATGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTTATGAAAGTTAAATGTATTATGTAAG-T-TGTAAGTTA
* *
33963085 -AATGTATTATGTAGGTTATGTAAGTT
1 TTATGTATTATGTAAGTTATGTAAGTT
33963111 GTGTAAGAGA
Statistics
Matches: 186, Mismatches: 9, Indels: 36
0.81 0.04 0.16
Matches are distributed among these distances:
51 14 0.08
52 1 0.01
53 22 0.12
54 3 0.02
55 7 0.04
56 1 0.01
58 1 0.01
59 1 0.01
61 14 0.08
62 51 0.27
63 7 0.04
64 9 0.05
65 3 0.02
66 2 0.01
68 12 0.06
69 38 0.20
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (62 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGAAAGTTAAATGTATTATGTAAGTTGTAAGTTA
Found at i:33963052 original size:51 final size:53
Alignment explanation
Indices: 33962906--33963097 Score: 264
Period size: 44 Copynumber: 3.8 Consensus size: 53
33962896 AGTTATTATG
33962906 TATTATGTAAGTTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGT
1 TATTATGT-A-TTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGT
*
33962961 TA-AATGTATTATGTAAG-T-TGTAAGTTAAATG---TAT-T-A--TGTAAGT
1 TATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGT
*
33963004 TATTATGTATTATGTAAG-T-TGTAAGTTAAATGTATTGTGTAAGTTGTAAGT
1 TATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGT
33963055 TATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTA
1 TATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTA
33963098 GGTTATGTAA
Statistics
Matches: 123, Mismatches: 4, Indels: 22
0.83 0.03 0.15
Matches are distributed among these distances:
43 9 0.07
44 28 0.23
45 1 0.01
46 1 0.01
47 5 0.04
48 1 0.01
49 1 0.01
50 13 0.11
51 26 0.21
52 10 0.08
53 22 0.18
54 4 0.03
55 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.46
Consensus pattern (53 bp):
TATTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAAGTTGTAAGT
Found at i:33963059 original size:44 final size:44
Alignment explanation
Indices: 33962873--33963103 Score: 199
Period size: 44 Copynumber: 5.0 Consensus size: 44
33962863 GTTATGAAAG
*
33962873 TAATGTATGTAATGTAAGTTGTAAGTTATTATGTATTATGTAAG-T-
1 TAATGTAT-T-ATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTTA
*
33962918 T-ATGTA--A-GTTA--TGTAAGTTAAATGTATTATGTAAGTTGTAA
1 TAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAG-T-T-A
33962959 GTTAAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTA
1 --T-AATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTA
*
33963006 TTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTA
1 TAATGTATTATGTAAGTTGTAAGTTAAATGTA---T-T-A--TGTAAGTTA
* *
33963057 TTATGTATTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTA
1 TAATGTATTATGTAAG-T-TGTAAGTTAAATGTATTATGTAAGTTA
33963103 T
1 T
33963104 GTAAGTTGTG
Statistics
Matches: 158, Mismatches: 5, Indels: 45
0.76 0.02 0.22
Matches are distributed among these distances:
36 14 0.09
37 9 0.06
39 4 0.03
40 1 0.01
43 1 0.01
44 35 0.22
45 7 0.04
46 9 0.06
47 3 0.02
48 6 0.04
49 3 0.02
50 25 0.16
51 25 0.16
52 1 0.01
53 15 0.09
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (44 bp):
TAATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTA
Found at i:33975869 original size:20 final size:19
Alignment explanation
Indices: 33975846--33975910 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
33975836 AAGCTCAAAC
33975846 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
33975866 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
33975886 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
33975906 GAGCT
1 GAGCT
33975911 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:33976977 original size:20 final size:18
Alignment explanation
Indices: 33976954--33976994 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
33976944 AAAGAGTTTG
33976954 AGAATAAAAAAATGTGAAAA
1 AGAA-AAAAAAAT-TGAAAA
*
33976974 AGAAAAGAAAATTGAAAA
1 AGAAAAAAAAATTGAAAA
33976992 AGA
1 AGA
33976995 GATTGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
AGAAAAAAAAATTGAAAA
Found at i:33979832 original size:26 final size:26
Alignment explanation
Indices: 33979767--33979832 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
33979757 TTGGCCAAAT
33979767 ATACTATT-ACTGGCAGCTTTGCTACG
1 ATACTATTGA-TGGCAGCTTTGCTACG
* **
33979793 ATACTATTGCTGGCAGCTTTGCTGTG
1 ATACTATTGATGGCAGCTTTGCTACG
*
33979819 ATGCTATTGATGGC
1 ATACTATTGATGGC
33979833 TTTGTGCCGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTGATGGCAGCTTTGCTACG
Found at i:33980012 original size:32 final size:32
Alignment explanation
Indices: 33979826--33980025 Score: 222
Period size: 32 Copynumber: 6.3 Consensus size: 32
33979816 GTGATGCTAT
* * * *
33979826 TGATGGCTTTGTGCCGTTCAAATTACCATTAG
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
33979858 TGATGGCTATGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
33979890 TGATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* ** *
33979922 TGATGGCTTTGTGTCGGCCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
33979954 TAATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
33979986 TAATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
33980017 TTATGGCTT
1 TGATGGCTT
33980026 GTAGCCATTC
Statistics
Matches: 144, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 11 0.08
32 133 0.92
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:33980042 original size:22 final size:21
Alignment explanation
Indices: 33980017--33980081 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
33980007 ATTACTGTAC
33980017 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
33980039 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
33980061 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
33980082 GTTACTGGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.86
23 3 0.09
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.46
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:33982998 original size:19 final size:19
Alignment explanation
Indices: 33982971--33983063 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
33982961 TTATTCCAGC
*
33982971 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
33982990 AACTTAATTAACTAAGATTTG
1 AACTTAATTAACTAAGA--TG
* * *
33983011 TAA-TTTATT--C-CAG--C
1 -AACTTAATTAACTAAGATG
33983025 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
33983044 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
33983063 A
1 A
33983064 GTAATTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 2 0.04
14 5 0.09
16 1 0.02
17 2 0.04
18 2 0.04
19 36 0.63
21 7 0.12
22 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:33983043 original size:54 final size:54
Alignment explanation
Indices: 33982961--33983086 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
33982951 CAACAATAAA
* **
33982961 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATTTGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
33983015 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
33983069 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
33983087 ACTTGTTCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:33983190 original size:20 final size:21
Alignment explanation
Indices: 33983161--33983200 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
33983151 AGCTTGAAGA
* *
33983161 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
33983181 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
33983201 TTGCACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:33984623 original size:57 final size:55
Alignment explanation
Indices: 33984554--33984676 Score: 128
Period size: 57 Copynumber: 2.2 Consensus size: 55
33984544 TTTTGTAGAC
33984554 TCTTTCTT-ACTTT-TTATTTCATTTTCAATCT-CTTTTTGCATTCTCTTACTATCT-TTT
1 TCTTT-TTCACTTTCTT-TTTCATTTTCAAT-TGCTTTTT-CATTCT-TTACT-TCTCTTT
* * * *
33984611 TCTTTTTCACTTTCTTTTTCTTTTTCAATTGCTTTTTCTTTCTTTTCTTTTCTTT
1 TCTTTTTCACTTTCTTTTTCATTTTCAATTGCTTTTTCATTCTTTACTTCTCTTT
33984666 TCTTTTTCACT
1 TCTTTTTCACT
33984677 AAATTTCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
54 2 0.03
55 18 0.31
56 8 0.14
57 28 0.48
58 2 0.03
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (55 bp):
TCTTTTTCACTTTCTTTTTCATTTTCAATTGCTTTTTCATTCTTTACTTCTCTTT
Found at i:33984628 original size:18 final size:18
Alignment explanation
Indices: 33984605--33984676 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
33984595 TCTCTTACTA
33984605 TCTTTTTCTTTTTCACTT
1 TCTTTTTCTTTTTCACTT
*
33984623 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCACTT
* **
33984641 GCTTTTTCTTTCTTTTCTT
1 TCTTTTTCTTT-TTCACTT
33984660 T-TCTTTTCTTTTTCACT
1 TCT-TTTTCTTTTTCACT
33984677 AAATTTCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 32 0.73
19 12 0.27
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (18 bp):
TCTTTTTCTTTTTCACTT
Found at i:33984690 original size:6 final size:6
Alignment explanation
Indices: 33984605--33984673 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
33984595 TCTCTTACTA
** ** *
33984605 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCAATT GCTTTT TCTTTCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTT-T
*
33984654 TTTCTTT TC-TTT TCTTTT TC
1 TCT-TTT TCTTTT TCTTTT TC
33984674 ACTAAATTTC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 5 0.10
6 36 0.75
7 5 0.10
8 2 0.04
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:33984690 original size:37 final size:39
Alignment explanation
Indices: 33984605--33984690 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 39
33984595 TCTCTTACTA
***
33984605 TCTTTTTCTTTTTCACTTTCTTTTTCTTTTTCAATTGCTT
1 TCTTTTTC-TTTTCACTTTCTTTTTCTTTTTCAATAAATT
* *
33984645 T-TTCTTTCTTTTC-TTTTC-TTTTCTTTTTCACTAAATT
1 TCTT-TTTCTTTTCACTTTCTTTTTCTTTTTCAATAAATT
33984682 TCTTTTTCT
1 TCTTTTTCT
33984691 CTCTTCCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
37 21 0.54
38 6 0.15
39 7 0.18
40 5 0.13
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.71
Consensus pattern (39 bp):
TCTTTTTCTTTTCACTTTCTTTTTCTTTTTCAATAAATT
Found at i:33989190 original size:17 final size:16
Alignment explanation
Indices: 33989152--33989193 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
33989142 TTTTTCTTTC
33989152 TCTTTTCTTTCAAGCTT
1 TCTTTTCTTTCAA-CTT
33989169 TCTTTTGCTTTCAA-TT
1 TCTTTT-CTTTCAACTT
33989185 TACTTTTCT
1 T-CTTTTCT
33989194 CTCATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (16 bp):
TCTTTTCTTTCAACTT
Found at i:33990432 original size:20 final size:20
Alignment explanation
Indices: 33990409--33990463 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
33990399 AGTTCAATTC
33990409 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
*
33990429 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
*
33990449 AGCTCATTTTTAGCT
1 AGCTCAATTTTAGCT
33990464 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:33998131 original size:12 final size:12
Alignment explanation
Indices: 33998114--33998168 Score: 69
Period size: 12 Copynumber: 4.7 Consensus size: 12
33998104 GAATACATAC
*
33998114 TTTTTTTTTGAA
1 TTTTTTTTTAAA
*
33998126 TTTTTTTTCAAA
1 TTTTTTTTTAAA
33998138 TTTTTTTTTCAAA
1 TTTTTTTTT-AAA
33998151 TTTTTTTTT--A
1 TTTTTTTTTAAA
33998161 TTTTTTTT
1 TTTTTTTT
33998169 ACAATACCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
10 9 0.23
12 18 0.46
13 12 0.31
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTAAA
Found at i:33998132 original size:13 final size:13
Alignment explanation
Indices: 33998114--33998159 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
33998104 GAATACATAC
*
33998114 TTTTTTTTT-GAA
1 TTTTTTTTTCAAA
33998126 -TTTTTTTTCAAA
1 TTTTTTTTTCAAA
33998138 TTTTTTTTTCAAA
1 TTTTTTTTTCAAA
33998151 TTTTTTTTT
1 TTTTTTTTT
33998160 ATTTTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
11 8 0.26
12 2 0.06
13 21 0.68
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTTTTTTCAAA
Found at i:33999823 original size:10 final size:10
Alignment explanation
Indices: 33999799--33999869 Score: 67
Period size: 9 Copynumber: 7.0 Consensus size: 10
33999789 GAGCTAATAA
*
33999799 TGAGCTCAA-
1 TGAGCTGAAT
33999808 TGAGCTGAAT
1 TGAGCTGAAT
33999818 TGAGCTCGAAT
1 TGAGCT-GAAT
*
33999829 AATGAGCTCAA-
1 --TGAGCTGAAT
33999840 TGAGCTGAAT
1 TGAGCTGAAT
33999850 TGAGCTCGAA-
1 TGAGCT-GAAT
33999860 TGAGCTGAAT
1 TGAGCTGAAT
33999870 CAAAAAATGT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
9 19 0.37
10 18 0.35
11 7 0.13
12 2 0.04
13 6 0.12
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.25
Consensus pattern (10 bp):
TGAGCTGAAT
Found at i:33999833 original size:32 final size:32
Alignment explanation
Indices: 33999794--33999860 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
33999784 CTAGTGAGCT
33999794 AATAATGAGCTCAATGAGCTGAATTGAGCTCG
1 AATAATGAGCTCAATGAGCTGAATTGAGCTCG
33999826 AATAATGAGCTCAATGAGCTGAATTGAGCTCG
1 AATAATGAGCTCAATGAGCTGAATTGAGCTCG
33999858 AAT
1 AAT
33999861 GAGCTGAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.25
Consensus pattern (32 bp):
AATAATGAGCTCAATGAGCTGAATTGAGCTCG
Found at i:34001462 original size:21 final size:20
Alignment explanation
Indices: 34001418--34001462 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34001408 CAAATTCTTT
*
34001418 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
* *
34001438 TTTCTTTTTTTCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
34001459 TTTC
1 TTTC
34001463 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:34011606 original size:22 final size:23
Alignment explanation
Indices: 34011558--34011606 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
34011548 TATTGGTATG
34011558 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
34011581 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
34011602 ATTAA
1 ATTAA
34011607 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:34019351 original size:13 final size:13
Alignment explanation
Indices: 34019333--34019362 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34019323 GAACTCTTCA
34019333 AGCTTAAGTAATC
1 AGCTTAAGTAATC
*
34019346 AGCTTAATTAATC
1 AGCTTAAGTAATC
34019359 AGCT
1 AGCT
34019363 GAATTGGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
AGCTTAAGTAATC
Found at i:34020702 original size:20 final size:20
Alignment explanation
Indices: 34020668--34020720 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
34020658 TTGAAAAGAA
34020668 AACTC-AAAGAGAATTTATT
1 AACTCAAAAGAGAATTTATT
*
34020687 AACTCAAAAGATAATTTATT
1 AACTCAAAAGAGAATTTATT
*
34020707 AACTCAAAAAAGAA
1 AACTCAAAAGAGAA
34020721 GTTGAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
AACTCAAAAGAGAATTTATT
Found at i:34022763 original size:96 final size:96
Alignment explanation
Indices: 34022644--34022819 Score: 298
Period size: 96 Copynumber: 1.8 Consensus size: 96
34022634 TCTTTTCTCG
** *
34022644 TTGGATATTTAATTGGACATTGGAAACACTTATGATATTTTGAACTACATTAGTAACATTGCACA
1 TTGGATATTTAATTGGACATTGGAAACACTTATGATATTTTGAACTACACCAATAACATTGCACA
*
34022709 AAAGGTGATAGCTCAATCGTATTCTCTCTTT
66 AAAGGTGATAACTCAATCGTATTCTCTCTTT
* *
34022740 TTGGATATTTAATTGGACATTGGAAACTCTTATGATCTTTTGAACTACACCAATAACATTGCACA
1 TTGGATATTTAATTGGACATTGGAAACACTTATGATATTTTGAACTACACCAATAACATTGCACA
34022805 AAAGGTGATAACTCA
66 AAAGGTGATAACTCA
34022820 TAGTCATTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (96 bp):
TTGGATATTTAATTGGACATTGGAAACACTTATGATATTTTGAACTACACCAATAACATTGCACA
AAAGGTGATAACTCAATCGTATTCTCTCTTT
Found at i:34023110 original size:21 final size:21
Alignment explanation
Indices: 34023084--34023146 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
34023074 TTGGTATTTG
34023084 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
34023105 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
34023126 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
34023147 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:34029066 original size:25 final size:25
Alignment explanation
Indices: 34029037--34029091 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
34029027 GAAATAAACT
*
34029037 TAAGCCAAGCTCAAACGAGCTAAAG
1 TAAGCCAAACTCAAACGAGCTAAAG
* * * *
34029062 TAAGCTAAATTGAAACGAGCTAAAT
1 TAAGCCAAACTCAAACGAGCTAAAG
34029087 TAAGC
1 TAAGC
34029092 TCATGTGAGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (25 bp):
TAAGCCAAACTCAAACGAGCTAAAG
Found at i:34030179 original size:20 final size:18
Alignment explanation
Indices: 34030156--34030196 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
34030146 AAAGAGTTTG
34030156 AGAATAAAAAAATGTGAAAA
1 AGAA-AAAAAAAT-TGAAAA
*
34030176 AGAAAAGAAAATTGAAAA
1 AGAAAAAAAAATTGAAAA
34030194 AGA
1 AGA
34030197 GATTGAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (18 bp):
AGAAAAAAAAATTGAAAA
Found at i:34032910 original size:26 final size:26
Alignment explanation
Indices: 34032845--34032910 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
34032835 TTGGCCAAAT
34032845 ATACTATT-ACTGGCAGCTTTGCTACG
1 ATACTATTGA-TGGCAGCTTTGCTACG
* * **
34032871 ATACTGTTGCTGGCAGCTTTGCTGTG
1 ATACTATTGATGGCAGCTTTGCTACG
*
34032897 ATGCTATTGATGGC
1 ATACTATTGATGGC
34032911 TTTGTGCCGT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (26 bp):
ATACTATTGATGGCAGCTTTGCTACG
Found at i:34033090 original size:32 final size:32
Alignment explanation
Indices: 34032904--34033103 Score: 222
Period size: 32 Copynumber: 6.3 Consensus size: 32
34032894 GTGATGCTAT
* * * *
34032904 TGATGGCTTTGTGCCGTTCAAATTACCATTAG
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
34032936 TGATGGCTATGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
34032968 TGATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* ** *
34033000 TGATGGCTTTGTGTCGGCCATACTACTATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
34033032 TAATGGCTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
34033064 TAATGGCTTTGTGCCAATCATATTACT-GTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
34033095 TTATGGCTT
1 TGATGGCTT
34033104 GTAGCCATTC
Statistics
Matches: 144, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 11 0.08
32 133 0.92
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:34033120 original size:22 final size:21
Alignment explanation
Indices: 34033095--34033159 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
34033085 ATTACTGTAC
34033095 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* *
34033117 TTATAGCTTATAGCTA-TCTTGT
1 TTATGGCTT-TAGCCATTC-TGT
34033139 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
34033160 GTTACTGGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.06
22 30 0.86
23 3 0.09
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.46
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:34036046 original size:19 final size:19
Alignment explanation
Indices: 34036019--34036111 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
34036009 TTATTCCAGC
*
34036019 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
34036038 AACTTAATTAACTAAGATTTG
1 AACTTAATTAACTAAGA--TG
* * *
34036059 TAA-TTTATT--C-CAG--C
1 -AACTTAATTAACTAAGATG
34036073 AACTTAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
34036092 AACTCAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
34036111 A
1 A
34036112 GTAATTTATT
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
13 2 0.04
14 5 0.09
16 1 0.02
17 2 0.04
18 2 0.04
19 36 0.63
21 7 0.12
22 2 0.04
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:34036091 original size:54 final size:54
Alignment explanation
Indices: 34036009--34036134 Score: 216
Period size: 54 Copynumber: 2.3 Consensus size: 54
34035999 CAACAATAAA
* **
34036009 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATTTGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
*
34036063 TTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
34036117 TTATTCCAGCAACTAAAT
1 TTATTCCAGCAACTAAAT
34036135 ACTTGTTCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAAGATGAGTAAT
Found at i:34036238 original size:20 final size:21
Alignment explanation
Indices: 34036209--34036248 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
34036199 AGCTTGAAGA
* *
34036209 AGCTAGAATTGAGC-TCATTG
1 AGCTAAAATTAAGCTTCATTG
34036229 AGCTAAAATTAAGCTTCATT
1 AGCTAAAATTAAGCTTCATT
34036249 TTGCACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
AGCTAAAATTAAGCTTCATTG
Found at i:34037671 original size:57 final size:55
Alignment explanation
Indices: 34037602--34037724 Score: 128
Period size: 57 Copynumber: 2.2 Consensus size: 55
34037592 TTTTGTAGAC
34037602 TCTTTCTT-ACTTT-TTATTTCATTTTCAATCT-CTTTTTGCATTCTCTTACTATCT-TTT
1 TCTTT-TTCACTTTCTT-TTTCATTTTCAAT-TGCTTTTT-CATTCT-TTACT-TCTCTTT
* * * *
34037659 TCTTTTTCACTTTCTTTTTCTTTTTCAATTGCTTTTTCTTTCTTTTCTTTTCTTT
1 TCTTTTTCACTTTCTTTTTCATTTTCAATTGCTTTTTCATTCTTTACTTCTCTTT
34037714 TCTTTTTCACT
1 TCTTTTTCACT
34037725 AAATTTCTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
54 2 0.03
55 18 0.31
56 8 0.14
57 28 0.48
58 2 0.03
ACGTcount: A:0.10, C:0.21, G:0.02, T:0.67
Consensus pattern (55 bp):
TCTTTTTCACTTTCTTTTTCATTTTCAATTGCTTTTTCATTCTTTACTTCTCTTT
Found at i:34037676 original size:18 final size:18
Alignment explanation
Indices: 34037653--34037724 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
34037643 TCTCTTACTA
34037653 TCTTTTTCTTTTTCACTT
1 TCTTTTTCTTTTTCACTT
*
34037671 TCTTTTTCTTTTTCAATT
1 TCTTTTTCTTTTTCACTT
* **
34037689 GCTTTTTCTTTCTTTTCTT
1 TCTTTTTCTTT-TTCACTT
34037708 T-TCTTTTCTTTTTCACT
1 TCT-TTTTCTTTTTCACT
34037725 AAATTTCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
18 32 0.73
19 12 0.27
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (18 bp):
TCTTTTTCTTTTTCACTT
Found at i:34037738 original size:6 final size:6
Alignment explanation
Indices: 34037653--34037721 Score: 59
Period size: 6 Copynumber: 11.3 Consensus size: 6
34037643 TCTCTTACTA
** ** *
34037653 TCTTTT TCTTTT TCACTT TCTTTT TCTTTT TCAATT GCTTTT TCTTTCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTT-T
*
34037702 TTTCTTT TC-TTT TCTTTT TC
1 TCT-TTT TCTTTT TCTTTT TC
34037722 ACTAAATTTC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
5 5 0.10
6 36 0.75
7 5 0.10
8 2 0.04
ACGTcount: A:0.04, C:0.20, G:0.01, T:0.74
Consensus pattern (6 bp):
TCTTTT
Found at i:34037738 original size:37 final size:39
Alignment explanation
Indices: 34037653--34037738 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 39
34037643 TCTCTTACTA
***
34037653 TCTTTTTCTTTTTCACTTTCTTTTTCTTTTTCAATTGCTT
1 TCTTTTTC-TTTTCACTTTCTTTTTCTTTTTCAATAAATT
* *
34037693 T-TTCTTTCTTTTC-TTTTC-TTTTCTTTTTCACTAAATT
1 TCTT-TTTCTTTTCACTTTCTTTTTCTTTTTCAATAAATT
34037730 TCTTTTTCT
1 TCTTTTTCT
34037739 CTCTTCCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
37 21 0.54
38 6 0.15
39 7 0.18
40 5 0.13
ACGTcount: A:0.08, C:0.20, G:0.01, T:0.71
Consensus pattern (39 bp):
TCTTTTTCTTTTCACTTTCTTTTTCTTTTTCAATAAATT
Found at i:34043242 original size:17 final size:16
Alignment explanation
Indices: 34043204--34043245 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
34043194 TTTTTCTTTC
34043204 TCTTTTCTTTCAAGCTT
1 TCTTTTCTTTCAA-CTT
34043221 TCTTTTGCTTTCAA-TT
1 TCTTTT-CTTTCAACTT
34043237 TACTTTTCT
1 T-CTTTTCT
34043246 CTCATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.12, C:0.21, G:0.05, T:0.62
Consensus pattern (16 bp):
TCTTTTCTTTCAACTT
Found at i:34044486 original size:20 final size:20
Alignment explanation
Indices: 34044463--34044517 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
34044453 AGTTCAATTC
34044463 AGCTCAATTTTAGCTCAATG
1 AGCTCAATTTTAGCTCAATG
*
34044483 AGCTC-GTTCTTAGCTCAATG
1 AGCTCAATT-TTAGCTCAATG
*
34044503 AGCTCATTTTTAGCT
1 AGCTCAATTTTAGCT
34044518 TACTTTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTTAGCTCAATG
Found at i:34047440 original size:11 final size:12
Alignment explanation
Indices: 34047411--34047443 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34047401 TTCAGCTTGG
*
34047411 ATGCTGGTCTGC
1 ATGCTGGTTTGC
34047423 ATGCTGGTTTGC
1 ATGCTGGTTTGC
34047435 -TGCTGGTTT
1 ATGCTGGTTT
34047444 CTTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:34047811 original size:22 final size:23
Alignment explanation
Indices: 34047786--34047829 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
34047776 CAGTAAGGGG
*
34047786 TTTGAAACG-AAATGGTAATGGA
1 TTTGAAACGAAAATGGAAATGGA
**
34047808 TTTGGTACGAAAATGGAAATGG
1 TTTGAAACGAAAATGGAAATGG
34047830 TTCAAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.39, C:0.05, G:0.30, T:0.27
Consensus pattern (23 bp):
TTTGAAACGAAAATGGAAATGGA
Found at i:34053958 original size:12 final size:13
Alignment explanation
Indices: 34053927--34053974 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 13
34053917 TTTACATACC
34053927 ACATTCTATCTTT
1 ACATTCTATCTTT
*
34053940 -CAATCTAT-TTT
1 ACATTCTATCTTT
34053951 ACATTCTATCTTT
1 ACATTCTATCTTT
*
34053964 CCA-TCTATCTT
1 ACATTCTATCTT
34053975 CTTTATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 3 0.10
12 22 0.73
13 5 0.17
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (13 bp):
ACATTCTATCTTT
Found at i:34054033 original size:22 final size:22
Alignment explanation
Indices: 34054008--34054053 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34053998 TAATAATAAA
*
34054008 TTTA-TTATTCTATTTTAATTGT
1 TTTAGTTATT-TATTTTAACTGT
*
34054030 TTTAGTTATTTGTTTTAACTGT
1 TTTAGTTATTTATTTTAACTGT
34054052 TT
1 TT
34054054 ATTCCGACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (22 bp):
TTTAGTTATTTATTTTAACTGT
Found at i:34054486 original size:18 final size:20
Alignment explanation
Indices: 34054441--34054512 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 20
34054431 TCATCCCCAA
* *
34054441 TCTCTATTTCTTTTCTCTCAC
1 TCTCTTTTTCTTTT-TCACAC
*
34054462 ACTCTTTTTCTTTTTCA-A-
1 TCTCTTTTTCTTTTTCACAC
*
34054480 TCTCTTTTTCTTGTTCACAC
1 TCTCTTTTTCTTTTTCACAC
*
34054500 TCACTTTTTCTTT
1 TCTCTTTTTCTTT
34054513 CTTTTTCAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 15 0.36
19 2 0.05
20 13 0.31
21 12 0.29
ACGTcount: A:0.11, C:0.28, G:0.01, T:0.60
Consensus pattern (20 bp):
TCTCTTTTTCTTTTTCACAC
Found at i:34055228 original size:47 final size:47
Alignment explanation
Indices: 34055174--34055268 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
34055164 ATCATCATGT
34055174 AAAAATTCAGCCCAATGAGGCCATTTAATTCCTTTGGACTAATTACC
1 AAAAATTCAGCCCAATGAGGCCATTTAATTCCTTTGGACTAATTACC
34055221 AAAAATTCAGCCCAATGAGGCCATTTAATTCCTTTGGACTAATTACC
1 AAAAATTCAGCCCAATGAGGCCATTTAATTCCTTTGGACTAATTACC
34055268 A
1 A
34055269 TTAAAAGTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (47 bp):
AAAAATTCAGCCCAATGAGGCCATTTAATTCCTTTGGACTAATTACC
Found at i:34056625 original size:96 final size:96
Alignment explanation
Indices: 34056440--34056618 Score: 259
Period size: 96 Copynumber: 1.9 Consensus size: 96
34056430 AGAGGAGTAC
* * *
34056440 GATTGATCTCTCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATGAGGGTTTCCAAT
1 GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
*
34056505 GTCCAATTAAATATCTAAATAGAGAGAATAA
66 GTCCAATTAAATATCCAAATAGAGAGAATAA
* * * *
34056536 GATTGAGCTATCACCTTTTGTGTAATGTTATTGGTGTAGTTCAAAATATCATAAGGGTTTTCAAT
1 GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
** *
34056601 GTGTAATTAAATTTCCAA
66 GTCCAATTAAATATCCAA
34056619 CAAGAGAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (96 bp):
GATTGAGCTATCACCTATTGTGAAATGTTATTGGTGTAGTTCAAAAGATCATAAGGGTTTCCAAT
GTCCAATTAAATATCCAAATAGAGAGAATAA
Found at i:34057655 original size:23 final size:24
Alignment explanation
Indices: 34057629--34057677 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
34057619 TTAAAACACC
34057629 TTCTAAAAG-AAACTC-AAGAGCAA
1 TTCTAAAAGAAAACTCAAAGAG-AA
**
34057652 TTCTTGAAGAAAACTCAAAGAGAA
1 TTCTAAAAGAAAACTCAAAGAGAA
34057676 TT
1 TT
34057678 ATTATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 7 0.32
24 10 0.45
25 5 0.23
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.22
Consensus pattern (24 bp):
TTCTAAAAGAAAACTCAAAGAGAA
Found at i:34058792 original size:22 final size:21
Alignment explanation
Indices: 34058760--34058801 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
34058750 TTGGTATTTA
34058760 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
34058781 GGAATTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
34058802 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:34060859 original size:22 final size:23
Alignment explanation
Indices: 34060811--34060859 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
34060801 TATTGGTATG
34060811 ATTAATGTGTCCTAATAAGTCGT
1 ATTAATGTGTCCTAATAAGTCGT
* *
34060834 -TTAATGTGTCTTAATAGGT-GT
1 ATTAATGTGTCCTAATAAGTCGT
34060855 ATTAA
1 ATTAA
34060860 AGAAGCTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
ATTAATGTGTCCTAATAAGTCGT
Found at i:34068607 original size:13 final size:13
Alignment explanation
Indices: 34068589--34068618 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34068579 GAACTCTTCA
34068589 AGCTTAAGTAATC
1 AGCTTAAGTAATC
*
34068602 AGCTTAATTAATC
1 AGCTTAAGTAATC
34068615 AGCT
1 AGCT
34068619 GAATTGGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
AGCTTAAGTAATC
Found at i:34069889 original size:16 final size:14
Alignment explanation
Indices: 34069845--34069892 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
34069835 CTCGCAAGAC
34069845 TTTTCACTTCTTTT
1 TTTTCACTTCTTTT
* *
34069859 TTTTACTCTTTTTTT
1 TTTT-CACTTCTTTT
34069874 TTTGCTCACTTCTTTT
1 TTT--TCACTTCTTTT
34069890 TTT
1 TTT
34069893 CTTTTTTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 4 0.15
15 11 0.41
16 11 0.41
17 1 0.04
ACGTcount: A:0.06, C:0.19, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTCACTTCTTTT
Found at i:34071998 original size:13 final size:12
Alignment explanation
Indices: 34071979--34072003 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34071969 TCTATAATCG
34071979 ATTTTTTTTCGA
1 ATTTTTTTTCGA
34071991 ATTTTTTTTCGA
1 ATTTTTTTTCGA
34072003 A
1 A
34072004 ACTACAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (12 bp):
ATTTTTTTTCGA
Found at i:34078566 original size:14 final size:14
Alignment explanation
Indices: 34078547--34078573 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34078537 TTTAAGTTTA
34078547 ATTTTCTGTTTTCT
1 ATTTTCTGTTTTCT
34078561 ATTTTCTGTTTTC
1 ATTTTCTGTTTTC
34078574 GTTTCAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.07, T:0.70
Consensus pattern (14 bp):
ATTTTCTGTTTTCT
Found at i:34087367 original size:31 final size:30
Alignment explanation
Indices: 34087323--34087398 Score: 84
Period size: 32 Copynumber: 2.5 Consensus size: 30
34087313 ATTTTGTTCT
**
34087323 ATTATTTAAATTTTATTTT-ATCTATATTATA
1 ATTATTTTTATTTTATTTTGATCTATA-TA-A
*
34087354 ATTATTTTTATTTTTATTTTGATGTATATAA
1 ATTATTTTTA-TTTTATTTTGATCTATATAA
34087385 A-TATTTTTATTTTA
1 ATTATTTTTATTTTA
34087399 AAAAACATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 5 0.12
30 8 0.20
31 10 0.25
32 11 0.28
33 6 0.15
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (30 bp):
ATTATTTTTATTTTATTTTGATCTATATAA
Found at i:34091170 original size:10 final size:10
Alignment explanation
Indices: 34091155--34091198 Score: 65
Period size: 9 Copynumber: 4.6 Consensus size: 10
34091145 CGGCATTGTA
34091155 AAAAAAATCG
1 AAAAAAATCG
34091165 AAAAAAATC-
1 AAAAAAATCG
*
34091174 AAAAAAAT-T
1 AAAAAAATCG
34091183 AAAAAAATCG
1 AAAAAAATCG
34091193 AAAAAA
1 AAAAAA
34091199 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (10 bp):
AAAAAAATCG
Found at i:34091200 original size:18 final size:19
Alignment explanation
Indices: 34091155--34091208 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
34091145 CGGCATTGTA
**
34091155 AAAAAAATCGAAAAAAATC
1 AAAAAAATTTAAAAAAATC
34091174 AAAAAAA-TTAAAAAAATC
1 AAAAAAATTTAAAAAAATC
*
34091192 GAAAAAATTTAAAAAAA
1 AAAAAAATTTAAAAAAA
34091209 GTTTGTATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAAAAATTTAAAAAAATC
Found at i:34091205 original size:9 final size:9
Alignment explanation
Indices: 34091155--34091208 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
34091145 CGGCATTGTA
*
34091155 AAAAAAATCG
1 AAAAAAAT-T
*
34091165 AAAAAAATC
1 AAAAAAATT
34091174 AAAAAAATT
1 AAAAAAATT
*
34091183 AAAAAAATCG
1 AAAAAAAT-T
*
34091193 AAAAAATTT
1 AAAAAAATT
34091202 AAAAAAA
1 AAAAAAA
34091209 GTTTGTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 22 0.59
10 15 0.41
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.15
Consensus pattern (9 bp):
AAAAAAATT
Found at i:34092319 original size:14 final size:14
Alignment explanation
Indices: 34092300--34092331 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34092290 ACTTAAAAAC
*
34092300 AAAAAAAATAAATA
1 AAAAAAAAAAAATA
34092314 AAAAAAAAAAAATA
1 AAAAAAAAAAAATA
34092328 AAAA
1 AAAA
34092332 TCATTAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAAAAAATA
Found at i:34092321 original size:18 final size:19
Alignment explanation
Indices: 34092293--34092329 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
34092283 ATATCTAACT
34092293 TAAAAACAAAAAAAATAAA
1 TAAAAACAAAAAAAATAAA
34092312 TAAAAA-AAAAAAAATAAA
1 TAAAAACAAAAAAAATAAA
34092330 AATCATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (19 bp):
TAAAAACAAAAAAAATAAA
Found at i:34093272 original size:13 final size:13
Alignment explanation
Indices: 34093256--34093290 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
34093246 TTTAAACAAA
*
34093256 TTAATTAACTTAT
1 TTAATTAACTAAT
34093269 TTAATTAACTAAT
1 TTAATTAACTAAT
*
34093282 TTAACTAAC
1 TTAATTAAC
34093291 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:34115131 original size:42 final size:42
Alignment explanation
Indices: 34115079--34115161 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
34115069 AATATGTGTG
*
34115079 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
34115121 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
1 AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCC
34115162 CTTTGAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (42 bp):
AAACATTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
Found at i:34117415 original size:22 final size:22
Alignment explanation
Indices: 34117385--34117428 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34117375 TTTGGTATTT
*
34117385 GGGAATTGGTATGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
34117407 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
34117429 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.02, G:0.36, T:0.27
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:34118620 original size:30 final size:30
Alignment explanation
Indices: 34118562--34118620 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
34118552 TTGAAAATGT
* *
34118562 TTGAGCTGAAGTTGAGCTAATTCGAGCTCA
1 TTGAGCTGAAATGGAGCTAATTCGAGCTCA
*
34118592 TTGAGCTGAAATGGAAGTTAATTC-AGCTC
1 TTGAGCTGAAATGG-AGCTAATTCGAGCTC
34118621 GTATTGAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (30 bp):
TTGAGCTGAAATGGAGCTAATTCGAGCTCA
Found at i:34121139 original size:21 final size:21
Alignment explanation
Indices: 34121094--34121156 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
34121084 TTTGAACCAT
* *
34121094 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
34121116 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
*
34121137 TACGATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
34121157 CAAATACCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 24 0.67
22 12 0.33
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:34127056 original size:28 final size:27
Alignment explanation
Indices: 34127012--34127068 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
34127002 CACCTTTACG
* *
34127012 TTCTTTTTCTTTTTCGTTCCTTTCAAT
1 TTCTTTTTCTTGTTCGTTCCTCTCAAT
*
34127039 TTCTTTTTCATTGTTCGTTTCTCTCAAT
1 TTCTTTTTC-TTGTTCGTTCCTCTCAAT
34127067 TT
1 TT
34127069 TTCCACAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.09, C:0.21, G:0.05, T:0.65
Consensus pattern (27 bp):
TTCTTTTTCTTGTTCGTTCCTCTCAAT
Found at i:34129883 original size:20 final size:20
Alignment explanation
Indices: 34129846--34129883 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34129836 CGCTCATTTC
*
34129846 CAGCTCACTTGAGCTCAAGT
1 CAGCTCACTTGAGATCAAGT
34129866 CAGCTCA-TTCGAGATCAA
1 CAGCTCACTT-GAGATCAA
34129884 TTTAGCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
CAGCTCACTTGAGATCAAGT
Found at i:34132652 original size:20 final size:20
Alignment explanation
Indices: 34132624--34132682 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
34132614 AGAAAAAACG
* *
34132624 AAGACGAGCTGAATGAGCTA
1 AAGATGAGCTGAATGAACTA
*
34132644 AAGATGAGCTCAATGAACTA
1 AAGATGAGCTGAATGAACTA
** *
34132664 TGGTTGAGCTGAATGAACT
1 AAGATGAGCTGAATGAACT
34132683 TGAAGTAGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (20 bp):
AAGATGAGCTGAATGAACTA
Found at i:34136514 original size:15 final size:15
Alignment explanation
Indices: 34136489--34136535 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
34136479 AGAAAAGAAT
34136489 AAAGAAAATGAAAATG
1 AAAG-AAATGAAAATG
*
34136505 AAAGAAATGAAAAAG
1 AAAGAAATGAAAATG
34136520 AAA-AATATGAAAATG
1 AAAGAA-ATGAAAATG
34136535 A
1 A
34136536 GATTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.79
16 4 0.14
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAGAAATGAAAATG
Found at i:34136582 original size:12 final size:12
Alignment explanation
Indices: 34136565--34136640 Score: 59
Period size: 12 Copynumber: 6.3 Consensus size: 12
34136555 AGTGAAAAGC
34136565 AAAAAGAGATTG
1 AAAAAGAGATTG
*
34136577 AAAAAGAAATTG
1 AAAAAGAGATTG
*
34136589 --AAAGAGA-AG
1 AAAAAGAGATTG
34136598 AAAAAGAAAGAGTTG
1 AAAAAG--AGA-TTG
*
34136613 AAAAAGAAATTG
1 AAAAAGAGATTG
* *
34136625 AAAGAGAGCTTG
1 AAAAAGAGATTG
34136637 AAAA
1 AAAA
34136641 GAAATCGAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
9 1 0.02
10 6 0.12
11 4 0.08
12 26 0.53
13 5 0.10
15 7 0.14
ACGTcount: A:0.62, C:0.01, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:34136606 original size:15 final size:15
Alignment explanation
Indices: 34136588--34136621 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34136578 AAAAGAAATT
34136588 GAAAGAGAAGAAAAA
1 GAAAGAGAAGAAAAA
**
34136603 GAAAGAGTTGAAAAA
1 GAAAGAGAAGAAAAA
34136618 GAAA
1 GAAA
34136622 TTGAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
GAAAGAGAAGAAAAA
Found at i:34138532 original size:20 final size:20
Alignment explanation
Indices: 34138507--34138551 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34138497 AGCTCGTTTC
*
34138507 CAGCTCACTT-GAGCTCAATT
1 CAGCTCA-TTCGAGATCAATT
34138527 CAGCTCATTCGAGATCAATT
1 CAGCTCATTCGAGATCAATT
*
34138547 TAGCT
1 CAGCT
34138552 TAATTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
CAGCTCATTCGAGATCAATT
Found at i:34140122 original size:18 final size:16
Alignment explanation
Indices: 34140096--34140143 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 16
34140086 AAAAAAAAAG
34140096 AAAAAAAGAAGTGAGCA
1 AAAAAAAGAAGTGAG-A
34140113 AAATAAAAG-AGT-A-A
1 AAA-AAAAGAAGTGAGA
34140127 AAAAAAAGAAGTGAGA
1 AAAAAAAGAAGTGAGA
34140143 A
1 A
34140144 GTCTTGCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
13 5 0.19
14 7 0.26
15 1 0.04
16 3 0.11
17 6 0.22
18 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.08
Consensus pattern (16 bp):
AAAAAAAGAAGTGAGA
Found at i:34147861 original size:29 final size:31
Alignment explanation
Indices: 34147817--34147886 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
34147807 TTTCAATCAC
***
34147817 TCTTTTTTTTTCAATT-TTGATTTTTTTTCT
1 TCTTTTTTTTTCAATTCCAAATTTTTTTTCT
34147847 TCTTTTTTTTT-AATTCCAAATTTTTTTTCT
1 TCTTTTTTTTTCAATTCCAAATTTTTTTTCT
*
34147877 TATTTTTTTT
1 TCTTTTTTTT
34147887 CTTCAATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 4 0.11
30 31 0.89
ACGTcount: A:0.13, C:0.10, G:0.01, T:0.76
Consensus pattern (31 bp):
TCTTTTTTTTTCAATTCCAAATTTTTTTTCT
Done.