Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 177 of 240
Found at i:54705873 original size:17 final size:17
Alignment explanation
Indices: 54705851--54705884 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54705841 GGAGTTCTAC
54705851 AAATAAAAATAATTATA
1 AAATAAAAATAATTATA
* *
54705868 AAATAAGAATCATTATA
1 AAATAAAAATAATTATA
54705885 TAAAAATATA
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:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATAAAAATAATTATA
Found at i:54711978 original size:21 final size:20
Alignment explanation
Indices: 54711952--54711991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
54711942 ATTTAGTTCA
54711952 ATAAATCAATATATAATTATG
1 ATAAATCAATATAT-ATTATG
*
54711973 ATAAATCAATGTATATTAT
1 ATAAATCAATATATATTAT
54711992 AGTTTGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATCAATATATATTATG
Found at i:54716731 original size:143 final size:143
Alignment explanation
Indices: 54716468--54716737 Score: 351
Period size: 143 Copynumber: 1.9 Consensus size: 143
54716458 ATTTTAAGAA
* * * **
54716468 TCTTTACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTTGTTGATTTACGATCATG
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
** ** * * * *
54716533 TTTTAAGTTCATTGATATATGATCATGAGCAATTCATCTAAAGTTCACTGGTTTACTATCACGAC
66 ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCACGAC
54716598 TCCTCTTGACTCC
131 TCCTCTTGACTCC
* * *
54716611 TCTTAACAGTTTGCTGATTTACGATCGCAACTGGTATCATTAAAGCTCGTTGATTTACAATCGCA
1 TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
* * * **
54716676 ACTTAAGTTCATTGATTTACAACCATGAATAATTCATCTAGAGTTCGTTGATTTACGATCAC
66 ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCAC
54716738 AACTTGTAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
143 106 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (143 bp):
TCTTAACAGTTTGCTGATTTACAATCGCAACTGATATCATTAAAGCTCGTTGATTTACAATCACA
ACTTAAGTTCATTGATATACAACCATGAACAATTCATCTAAAGTTCACTGATTTACGATCACGAC
TCCTCTTGACTCC
Found at i:54720875 original size:43 final size:42
Alignment explanation
Indices: 54720770--54720934 Score: 168
Period size: 43 Copynumber: 3.9 Consensus size: 42
54720760 TACAGTAATA
* * * * *
54720770 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATTG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
* * ** *
54720812 ATGCCAATAGCTCATCCATGGTCTTACACGAAATCACATATCG
1 ATGCC-ATATCCCAGACATGGTCTTACACGAAATCTCATATCG
* *
54720855 ATGCCAATGTCCCAGACATGGGTCTTACACGAACTCTCATATCG
1 ATGCC-ATATCCCAGACAT-GGTCTTACACGAAATCTCATATCG
* * *
54720899 ATGCCATATCCCAAATATGGTCTTACACGTAATCTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTC
54720935 GGTAACCCTA
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 21 0.21
43 51 0.52
44 27 0.27
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
Found at i:54722239 original size:22 final size:22
Alignment explanation
Indices: 54722204--54722260 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
54722194 ATAATCAAAT
* *
54722204 TGGTGTTGCAACATCTAGGGTG
1 TGGTGTTGCGACATCCAGGGTG
*
54722226 TGGTGTCGCGACATCCAGGGTG
1 TGGTGTTGCGACATCCAGGGTG
54722248 TGGTGTTGCGACA
1 TGGTGTTGCGACA
54722261 CTCAAGATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.28
Consensus pattern (22 bp):
TGGTGTTGCGACATCCAGGGTG
Found at i:54725019 original size:23 final size:23
Alignment explanation
Indices: 54724988--54725038 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
54724978 ACCTACTTTC
* *
54724988 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
54725011 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
54725034 TTACA
1 TTACA
54725039 TTTCTCTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:54726637 original size:50 final size:50
Alignment explanation
Indices: 54726584--54726964 Score: 494
Period size: 50 Copynumber: 7.5 Consensus size: 50
54726574 ACTACCAATT
* * * ** * * *
54726584 GCCATATCCCATATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * *
54726634 GCCATGTACCAGACATAGTCTTACA-GGCGACCTCTCATCCCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGGTGCCAAC
*
54726684 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
54726734 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
54726784 GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * *
54726834 ACCATGTCCAAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* * * *
54726884 GCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAATTTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAAC
54726940 GCCATGTCCCAGACATGGTCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
54726965 CTAGCTCACA
Statistics
Matches: 292, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
49 2 0.01
50 252 0.86
51 2 0.01
53 4 0.01
56 32 0.11
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:54726798 original size:150 final size:150
Alignment explanation
Indices: 54726527--54726922 Score: 512
Period size: 150 Copynumber: 2.6 Consensus size: 150
54726517 GATAATAACA
* * ** * *
54726527 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTC--CT-GTACTACCAATTGCCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-A-TGCCAA-TGCCAT
* * ** * *
54726589 ATCCCATATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTACCAGACATAGTC
63 ATCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTC
54726654 TTACA-GGCGACCTCTCATCCCGG
128 TTACATGG-GACCTCTCATCCCGG
* *
54726677 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
* * * *
54726742 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTCCCAGACATGGTCTTA
66 CCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTCTTA
* *
54726807 CATGGGACCTTTCATCTCGG
131 CATGGGACCTCTCATCCCGG
* * * *
54726827 TGCCAACACCATGTCCAAGACATGGTCTTATATGGGACCTCTCATCTCGGTGCCAATGCCATATC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
54726892 CCAGACATGGTCTTACATGGGACCTCTCATA
66 CCAGACATGGTCTTACATGGGACCTCTCATA
54726923 ATTTCAATGA
Statistics
Matches: 215, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
150 204 0.95
151 7 0.03
152 3 0.01
153 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (150 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAATGCCATATC
CCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTACCAGACATAGTCTTA
CATGGGACCTCTCATCCCGG
Found at i:54727030 original size:48 final size:48
Alignment explanation
Indices: 54726938--54727030 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
54726928 AATGATGCCA
* * * *
54726938 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGTCG
* * *
54726986 ATGCCATGTCCCAGACATGGTCTTATACGAGATCGCACGCCGATG
1 ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATG
54727031 CCATATCTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAGATCACACACCGATGTCG
Found at i:54729670 original size:23 final size:23
Alignment explanation
Indices: 54729629--54729673 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
54729619 TTTCTTACTG
** *
54729629 TAGTAATTTTTGGGGTATTACAC
1 TAGTAATTTTCAGGATATTACAC
54729652 TAGTAATTTTCAGGATATTACA
1 TAGTAATTTTCAGGATATTACA
54729674 ACATAACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (23 bp):
TAGTAATTTTCAGGATATTACAC
Found at i:54731871 original size:22 final size:22
Alignment explanation
Indices: 54731843--54731926 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
54731833 GTGCTTTAAT
*
54731843 AGTAGGCACTAAAGTGCGAATC
1 AGTAGGCACTAAAGTGCAAATC
* * *
54731865 AGTAGGCACCATAGTGCAAAAC
1 AGTAGGCACTAAAGTGCAAATC
*
54731887 AGTAGGCA-TCATAGTG-AAAGTC
1 AGTAGGCACT-AAAGTGCAAA-TC
*
54731909 AGTAGGCACTGAAGTGCA
1 AGTAGGCACTAAAGTGCA
54731927 GAATAATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 3 0.06
22 45 0.90
23 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
AGTAGGCACTAAAGTGCAAATC
Found at i:54734936 original size:39 final size:39
Alignment explanation
Indices: 54734893--54735166 Score: 340
Period size: 39 Copynumber: 7.1 Consensus size: 39
54734883 ATCGAGTATT
* * * *
54734893 CTGAATTATTGCTCAATCAAGCAAGACTTACTAAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* * *
54734932 CTGAA-TGCTGCTCAATTGAGCAAAA-TCTACTGAACATA
1 CTGAATTGTTGCTCAATCGAGCAAAACT-TACTGAATATA
54734970 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* ** * **
54735009 CT-AAATGCAGCTCAATCGAGCAAAA-TCTACTAAACGTA
1 CTGAATTGTTGCTCAATCGAGCAAAACT-TACTGAATATA
* *
54735047 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
* *
54735086 CGGAATTGTTGCTCAATCGAGCAAAATTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
*
54735125 CTGAATTGTTGCTCAATCGAGAAAAACTTACTGAATATA
1 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
54735164 CTG
1 CTG
54735167 TGTAATACCC
Statistics
Matches: 200, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
37 2 0.01
38 59 0.29
39 137 0.69
40 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (39 bp):
CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATA
Found at i:54734986 original size:77 final size:77
Alignment explanation
Indices: 54734893--54735166 Score: 395
Period size: 77 Copynumber: 3.5 Consensus size: 77
54734883 ATCGAGTATT
* * *
54734893 CTGAATTATTGCTCAATCAAGCAAGACTTACTAAATATACTGAATGCTGCTCAATTGAGCAAAAT
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
54734958 CTACTGAACATA
66 CTACTGAACATA
* * * *
54734970 CTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTAAATGCAGCTCAATCGAGCAAAAT
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
* *
54735035 CTACTAAACGTA
66 CTACTGAACATA
* *
54735047 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACGGAATTGTTGCTCAATCGAGCAAAA
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAA-TGCTGCTCAATCGAGCAAAA
* *
54735112 TTTACTGAATATA
65 TCTACTGAACATA
* * *
54735125 CTGAATTGTTGCTCAATCGAGAAAAACTTACTGAATATACTG
1 CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTG
54735167 TGTAATACCC
Statistics
Matches: 173, Mismatches: 23, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
77 108 0.62
78 65 0.38
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (77 bp):
CTGAATTGTTGCTCAATCAAGCAAAACTTACTAAATATACTGAATGCTGCTCAATCGAGCAAAAT
CTACTGAACATA
Found at i:54735106 original size:116 final size:116
Alignment explanation
Indices: 54734903--54735166 Score: 327
Period size: 116 Copynumber: 2.3 Consensus size: 116
54734893 CTGAATTATT
* * * ** *
54734903 GCTCAATCAAGCAAGACTTACTAAATATACTGAATGCTGCTCAATTGAGCAAAATCTACTGAACA
1 GCTCAATCGAGCAAAACTTACTAAACATACTGAATGCTGCTCAATCAAGCAAAATCTACTAAACA
*
54734968 TACTGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACT-AAATGCA
66 TACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
* *
54735018 GCTCAATCGAGCAAAA-TCTACTAAACGTACTGAATTGTTGCTCAATCAAGCAAAA-CTTACTAA
1 GCTCAATCGAGCAAAACT-TACTAAACATACTGAA-TGCTGCTCAATCAAGCAAAATC-TACTAA
* * * **
54735081 ATATACGGAATTGTTGCTCAATCGAGCAAAATTTACTGAATATACTGAATTGTT
63 ACATACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
* * *
54735135 GCTCAATCGAGAAAAACTTACTGAATATACTG
1 GCTCAATCGAGCAAAACTTACTAAACATACTG
54735167 TGTAATACCC
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
114 1 0.01
115 29 0.23
116 65 0.52
117 30 0.24
118 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (116 bp):
GCTCAATCGAGCAAAACTTACTAAACATACTGAATGCTGCTCAATCAAGCAAAATCTACTAAACA
TACGGAATTGTTGCTCAATCGAGCAAAACTTACTGAATATACTGAAATGCA
Found at i:54735322 original size:19 final size:19
Alignment explanation
Indices: 54735298--54735408 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
54735288 AATCTTCAAG
54735298 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54735317 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
54735336 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54735355 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
** *
54735374 GATATATAATCTTAGATGT
1 GATATGCAATCTTAGATAT
54735393 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
54735409 AGATATAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:54735348 original size:38 final size:38
Alignment explanation
Indices: 54735305--54735408 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
54735295 AAGGATATGC
54735305 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
54735343 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
54735381 AATCTTAGATGTGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
54735409 AGATATAATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:54735778 original size:21 final size:21
Alignment explanation
Indices: 54735734--54735778 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
54735724 ATTAAGTTTT
*
54735734 TTTTATTTTTTTAATTTACCA
1 TTTTATTTTTTTAATTTACAA
*
54735755 TTTTATTTATTTTTATTT-CAA
1 TTTTATTT-TTTTAATTTACAA
54735776 TTT
1 TTT
54735779 GGTCTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTTTAATTTACAA
Found at i:54739630 original size:7 final size:7
Alignment explanation
Indices: 54739618--54739662 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
54739608 TCAATCAGAA
*
54739618 AAAAAAC
1 AAAAAAG
54739625 AAAAAA-
1 AAAAAAG
*
54739631 AAGAAA-
1 AAAAAAG
54739637 AAAAAAG
1 AAAAAAG
54739644 AAAAAAG
1 AAAAAAG
54739651 AAAAAAG
1 AAAAAAG
54739658 AAAAA
1 AAAAA
54739663 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 10 0.29
7 25 0.71
ACGTcount: A:0.89, C:0.02, G:0.09, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:54739631 original size:10 final size:10
Alignment explanation
Indices: 54739616--54739663 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
54739606 ATTCAATCAG
*
54739616 AAAAAAAA-C
1 AAAAAAAAGA
54739625 AAAAAAAAGA
1 AAAAAAAAGA
54739635 AAAAAAAAGA
1 AAAAAAAAGA
54739645 AAAAAGAAA-A
1 AAAAA-AAAGA
*
54739655 AAGAAAAAG
1 AAAAAAAAG
54739664 GAGAGGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 11 0.32
10 20 0.59
11 3 0.09
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:54739637 original size:18 final size:17
Alignment explanation
Indices: 54739614--54739662 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
54739604 ATATTCAATC
54739614 AGAAAAAAAACAAAAAAA
1 AGAAAAAAAA-AAAAAAA
*
54739632 AGAAAAAAAAAGAAAAA
1 AGAAAAAAAAAAAAAAA
54739649 AGAAAAAAGAAAAA
1 AGAAAAAA-AAAAA
54739663 GGAGAGGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.88, C:0.02, G:0.10, T:0.00
Consensus pattern (17 bp):
AGAAAAAAAAAAAAAAA
Found at i:54741236 original size:44 final size:45
Alignment explanation
Indices: 54741181--54741507 Score: 130
Period size: 44 Copynumber: 7.4 Consensus size: 45
54741171 CCTGGACAAC
*
54741181 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* ** * * * ** *
54741225 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAG-CAGT
* * **
54741270 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGAA-CAAC
1 AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTGAAGCAGT
* *
54741313 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* * ** * * * ** *
54741357 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAG-CAGT
* * * **
54741402 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGA-CAAC
1 AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTGAAGCAGT
* *
54741445 AGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCT-AAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
* *
54741489 AGTGGAGCAGATCGAAGAT
1 AGTGGAGTAGATTGAAGAT
54741508 GGCGGATTTT
Statistics
Matches: 202, Mismatches: 55, Indels: 52
0.65 0.18 0.17
Matches are distributed among these distances:
42 6 0.03
43 37 0.18
44 115 0.57
45 37 0.18
46 7 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTGAAGCAGT
Found at i:54741569 original size:132 final size:132
Alignment explanation
Indices: 54740961--54741596 Score: 1078
Period size: 132 Copynumber: 4.8 Consensus size: 132
54740951 CTGCATTGAC
* *
54740961 AGTGAAGCAGATCGAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * *
54741026 GTAATTCTACTTCCCTGGAAAATAGTGGAATAGATTGAATATTTAAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
54741091 GT
131 GT
* *
54741093 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
54741158 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
54741223 GT
131 GT
* *
54741225 AGTGGAGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* *
54741290 GTAATTCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
54741355 GT
131 GT
*
54741357 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
54741422 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTTAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
54741487 GT
131 GT
54741489 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
* * * *
54741554 GTAA-TCATA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATT
66 GTAATTC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
54741597 GTAAGTCCTA
Statistics
Matches: 479, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
131 3 0.01
132 476 0.99
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GT
Found at i:54741946 original size:19 final size:19
Alignment explanation
Indices: 54741922--54742032 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
54741912 AATCTTCAGG
54741922 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
54741941 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
* **
54741960 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54741979 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
54741998 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
54742017 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
54742033 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:54741972 original size:38 final size:38
Alignment explanation
Indices: 54741929--54742032 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
54741919 AGGGATATGC
*
54741929 AATCTTAGATATGATATGCAATCTTATATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
54741967 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
54742005 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
54742033 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:54742058 original size:22 final size:22
Alignment explanation
Indices: 54741922--54742058 Score: 99
Period size: 19 Copynumber: 6.9 Consensus size: 22
54741912 AATCTTCAGG
54741922 GATATGC-AATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
*
54741941 GATATGC-AATCTT--ATATAT
1 GATATGCTAATCTTAGAGATAT
* *
54741960 AATAT-ATAATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
54741979 GATATGC-AATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
*
54741998 GATAT-ATAATCTT--AGATAT
1 GATATGCTAATCTTAGAGATAT
54742017 GATATGC-AATCTTAGAAGATAT
1 GATATGCTAATCTTAG-AGATAT
* *
54742039 GATTTTCTAATCTTAGAGAT
1 GATATGCTAATCTTAGAGAT
54742059 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
19 77 0.77
22 15 0.15
23 8 0.08
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (22 bp):
GATATGCTAATCTTAGAGATAT
Found at i:54742403 original size:21 final size:21
Alignment explanation
Indices: 54742359--54742403 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
54742349 TTAAGTTTTT
*
54742359 TTTTATTTTTTTAATTTACCA
1 TTTTATTTTTTTAATTTACAA
*
54742380 TTTTATTTATTTTTATTT-CAA
1 TTTTATTT-TTTTAATTTACAA
54742401 TTT
1 TTT
54742404 GGTCTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTTTAATTTACAA
Found at i:54745302 original size:12 final size:12
Alignment explanation
Indices: 54745287--54745320 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54745277 ACGACCACCG
*
54745287 CCACTTGTTGTA
1 CCACCTGTTGTA
*
54745299 CCACCTGATGTA
1 CCACCTGTTGTA
54745311 CCACCTGTTG
1 CCACCTGTTG
54745321 CACCTCCTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (12 bp):
CCACCTGTTGTA
Found at i:54752138 original size:133 final size:136
Alignment explanation
Indices: 54751885--54752272 Score: 476
Period size: 133 Copynumber: 2.8 Consensus size: 136
54751875 CGTTACACTA
* * * ** *
54751885 CTCTCAACAGTTTGCTGATTTATGATCGCAACTGATATCATTAAAGCTTACTAATTTATGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* *
54751950 GGCTTAAGTTCATTGATTTACGATCATGAAAAATTCATCTAGAATTCGTTGATTTACGATC-A-T
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCAACT
54752013 -GACTC
131 CGACTC
* * *
54752018 CTCTTAACAGTTTTTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* * ** *
54752083 AGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTTGAGTTTTTTTATTTACGATCATGA
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCA--A
54752148 CTCCTCTCGACTC
129 -----CTCGACTC
* * *
54752161 CTCTTAGCAGTTTGTTGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATGATCAC
1 CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
* * * * *
54752226 GGTTTGAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTC
66 GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTC
54752273 AAAAATTTAC
Statistics
Matches: 215, Mismatches: 30, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
133 110 0.51
136 1 0.00
142 1 0.00
143 103 0.48
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (136 bp):
CTCTTAACAGTTTGTTGATTTACGATCGCAACTGATATCATTAAAGCTCGCTGATTTATGATCAC
GGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTAGAGTTCGTTGATTTACGATCAACT
CGACTC
Found at i:54752271 original size:143 final size:143
Alignment explanation
Indices: 54752013--54752271 Score: 401
Period size: 143 Copynumber: 1.8 Consensus size: 143
54752003 TTACGATCAT
*
54752013 GACTCCTCTTAACAGTTTTTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
1 GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
* * * *
54752078 ATCACAGCTTAAGTTCATTGATTTACGATCATGAACAATTCATCTTGAGTTTTTTTATTTACGAT
66 ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTTTTTTATTTACGAT
54752143 CATGACTCCTCTC
131 CATGACTCCTCTC
* ** * *
54752156 GACTCCTCTTAGCAGTTTGTTGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATG
1 GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
* * *
54752221 ATCACGGTTTGAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTT
66 ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTT
54752272 CAAAAATTTA
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 103 1.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (143 bp):
GACTCCTCTTAACAGTTTGTTGATTTACGATAGCAACTGATATCATTAAAGCTCGCTGATTTACG
ATCACAGCTTAAGTTCATTAATTTACGATAATAAACAATTCATCTAGAGTTTTTTTATTTACGAT
CATGACTCCTCTC
Found at i:54752379 original size:98 final size:99
Alignment explanation
Indices: 54752176--54752384 Score: 240
Period size: 98 Copynumber: 2.1 Consensus size: 99
54752166 AGCAGTTTGT
* * * * * *
54752176 TGATTTACGATCTCAGCTGATATCATTAAAGCTCGCTGATTTATGATCACGGTTTGAGTTCATTA
1 TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
*
54752241 ATTTACGATAATAAACAATTCATCTAGAGTTCAA
66 ATTTACGATAATAAACAATTCATCTAAAGTTCAA
** * * * * *
54752275 AAATTTACGATCGCAACTAATATCATTAAAG-TCGTTGATTTACGATCATGGCTTAATTTTATTG
1 TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
* * * * *
54752339 ATTTATGATCATGAACAATTCATTTAAAGTTCAC
66 ATTTACGATAATAAACAATTCATCTAAAGTTCAA
54752373 TGATTTACGATC
1 TGATTTACGATC
54752385 ACGACTCCTT
Statistics
Matches: 89, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
98 63 0.71
99 26 0.29
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (99 bp):
TGATTTACGATCGCAACTAATATCATTAAAGCTCGCTGATTTACGATCACGGCTTAAGTTCATTA
ATTTACGATAATAAACAATTCATCTAAAGTTCAA
Found at i:54752472 original size:133 final size:132
Alignment explanation
Indices: 54752277--54752686 Score: 484
Period size: 133 Copynumber: 3.1 Consensus size: 132
54752267 GAGTTCAAAA
* * * * *
54752277 ATTTACGATCGCAACTAATATCATTAAAG-TCGTTGATTTACGATCATGGCTTAATTTTATTGAT
1 ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCA-CGCTTAAGTTAATTGAT
* * * *
54752341 TTATGATCATGAACAATTCATTTAAAGTTCACTGATTTACGATCACGACTCCTTTTAACAGTTTA
65 TTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTG
*
54752406 CTG
130 TTG
* * * *
54752409 ATTTACAATCGCTATTAATAACATTAAAGCTCGCTGATTTACGATCACAGCTTAAGTTCATTGAT
1 ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCAC-GCTTAAGTTAATTGAT
* * * * * *
54752474 TTACGATCATGAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTTTTGATAGTTCG
65 TTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTG
54752539 TTG
130 TTG
* * * *
54752542 ATTTACGATCGCAACTGATATA-ATCAAAGCTCGCT-AGTTTACGATCACGATTTCAGTTAATTG
1 ATTTACGATCGCAACTAATA-ACATTAAAGCTCGCTGA-TTTACGATCACG-CTTAAGTTAATTG
* * * * * *
54752605 ATTTACGATCATAAACACTTCATTTAGAGTTCGTTGATTTACGATCACGATTCCTCTTAACAATT
63 ATTTACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTT
54752670 TGTTG
128 TGTTG
54752675 ATTTACGATCGC
1 ATTTACGATCGC
54752687 GACTGCTATT
Statistics
Matches: 234, Mismatches: 39, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
132 27 0.12
133 206 0.88
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (132 bp):
ATTTACGATCGCAACTAATAACATTAAAGCTCGCTGATTTACGATCACGCTTAAGTTAATTGATT
TACGATCATGAACAATTCATTTAGAGTTCGCTGATTTACGATCACGACTCCTTTTAACAGTTTGT
TG
Found at i:54752739 original size:133 final size:132
Alignment explanation
Indices: 54752335--54752748 Score: 316
Period size: 133 Copynumber: 3.1 Consensus size: 132
54752325 GCTTAATTTT
* * * * * * * *
54752335 ATTGATTTATGATCATGAACAATTCATTTAAAGTTCACTGATTTACGATCACGACTCCTTTTAAC
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* *** * * * * * * * * *
54752400 AGTTTACTGATTTACAATCGCTATTAATA-ACATTAAAGCTCGCT-GATTTACGATCACAGCTTA
66 AATTCGTTGATTTACGATCGCAACTGATATA-ATCAAAACTCGCTAG-TTAACAATCACA-TTTA
* *
54752463 AGTTC
128 AATTA
* * * *
54752468 ATTGATTTACGATCATGAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTTTTGAT
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* * * * * *
54752533 AGTTCGTTGATTTACGATCGCAACTGATATAATCAAAGCTCGCTAGTTTACGATCACGATTTCAG
66 AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGTTAACAATCAC-ATTTAAA
54752598 TTA
130 TTA
* * * * * *
54752601 ATTGATTTACGATCATAAACACTTCATTTAGAGTTCGTTGATTTACGATCACGATTCCTCTTAAC
1 ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
* * * * *
54752666 AATTTGTTGATTTACGATCGCGACTGCTATTAT-AAAACTCGCTA-TCATGAACAATTCA-TTTT
66 AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGT--T-AACAA-TCACATTT
54752728 AAATTA
127 AAATTA
*
54752734 GTTGATTTACGATCA
1 ATTGATTTACGATCA
54752749 CAACTTCATT
Statistics
Matches: 233, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
131 1 0.00
132 10 0.04
133 213 0.91
134 6 0.03
135 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (132 bp):
ATTGATTTACGATCATAAACAATTCATCTAGAGTTCGCTAATTTACAATCACGACTCCTCTTAAC
AATTCGTTGATTTACGATCGCAACTGATATAATCAAAACTCGCTAGTTAACAATCACATTTAAAT
TA
Found at i:54756045 original size:35 final size:35
Alignment explanation
Indices: 54755999--54756069 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
54755989 CATCTCTGGA
*
54755999 GCTTGGTAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
* *
54756034 GCTTGGCAAATATGGAAGGTGATCTTCAAATATAT
1 GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
54756069 G
1 G
54756070 TGATCATAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGTGATCTTCAAAGATAT
Found at i:54760598 original size:21 final size:21
Alignment explanation
Indices: 54760572--54760612 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
54760562 ATCTTATGGC
54760572 AAAA-GGTTAAAAGATATTTGG
1 AAAAGGGTT-AAAGATATTTGG
54760593 AAAAGGGTTAAAGATATTTG
1 AAAAGGGTTAAAGATATTTG
54760613 ACAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
AAAAGGGTTAAAGATATTTGG
Found at i:54768365 original size:45 final size:45
Alignment explanation
Indices: 54768301--54768393 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
54768291 CATTCAACCC
54768301 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
1 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
54768346 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
1 CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
54768391 CAT
1 CAT
54768394 CCACTAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.27, C:0.29, G:0.06, T:0.38
Consensus pattern (45 bp):
CATATCATTTCTGCACATTTCCCATCACAACCTTACTTTAGTAGT
Found at i:54773675 original size:23 final size:22
Alignment explanation
Indices: 54773649--54773724 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 22
54773639 AGTGTTATTG
54773649 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCT-CGGCTACAT
54773672 ATCAGTGGTAGCCTCGGCTACAT
1 ATCAGTGGTAG-CTCGGCTACAT
* *
54773695 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGC-TCGGCTACAT
54773718 ATCAGTG
1 ATCAGTG
54773725 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 44 0.94
24 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (22 bp):
ATCAGTGGTAGCTCGGCTACAT
Found at i:54776010 original size:19 final size:20
Alignment explanation
Indices: 54775982--54776023 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
54775972 ATTTGATCCT
* *
54775982 AATTTTAAAAAT-ACATAAA
1 AATTTCAAAAATAAAATAAA
54776001 AATTTCAAAAATAAAATAAA
1 AATTTCAAAAATAAAATAAA
54776021 AAT
1 AAT
54776024 ACATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTCAAAAATAAAATAAA
Found at i:54778539 original size:21 final size:20
Alignment explanation
Indices: 54778503--54778543 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
54778493 TTTTTATTTC
54778503 AAAATAAATCATAAATATATT
1 AAAATAAATCATAAAT-TATT
54778524 AAAATAAAT-ATAAAATTATT
1 AAAATAAATCAT-AAATTATT
54778544 TTTTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAAATCATAAATTATT
Found at i:54782843 original size:7 final size:7
Alignment explanation
Indices: 54782831--54782878 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
54782821 TCCTAAGTTC
54782831 TCGATTT
1 TCGATTT
*
54782838 TTGATTT
1 TCGATTT
*
54782845 TTGATTT
1 TCGATTT
54782852 TCGATTT
1 TCGATTT
54782859 TCGATTT
1 TCGATTT
54782866 TCGATTT
1 TCGATTT
54782873 TCGATT
1 TCGATT
54782879 GTCAATCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.60
Consensus pattern (7 bp):
TCGATTT
Found at i:54787718 original size:22 final size:24
Alignment explanation
Indices: 54787676--54787720 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
54787666 ATTTTTAAAA
*
54787676 AGATATATTTTTATATTTTAGATT
1 AGATATATTGTTATATTTTAGATT
54787700 AGAT-TATTGTTA-ATTTTAGAT
1 AGATATATTGTTATATTTTAGAT
54787721 ATAACTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (24 bp):
AGATATATTGTTATATTTTAGATT
Found at i:54787773 original size:18 final size:19
Alignment explanation
Indices: 54787726--54787773 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
54787716 TAGATATAAC
* *
54787726 TTTTAATATTATATTTCTG
1 TTTTAAGATTAGATTTCTG
*
54787745 TTTTAAAGATTAGATTTGTG
1 TTTT-AAGATTAGATTTCTG
54787765 -TTTAAGATT
1 TTTTAAGATT
54787774 TATGGATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 12 0.48
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
TTTTAAGATTAGATTTCTG
Found at i:54789160 original size:67 final size:68
Alignment explanation
Indices: 54789078--54789304 Score: 266
Period size: 67 Copynumber: 3.4 Consensus size: 68
54789068 CCTTAAAAGA
* * * * *
54789078 GGTTACGAGGTGTAAGAGCATAGCTTGAGTATGACAACCTATAGTGTCTGCCAGTGCATTAAACA
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTGCATTAAACA
54789143 TGG
66 TGG
* * **
54789146 GGTTAC-ATGTGTAAGACCATAGCTTGACTATGGCAACGAATAGAGTCTACCAAGATG--TTAAA
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACC-AG-TGCATTAAA
54789208 CATGG
64 CATGG
* * * *
54789213 GGTTACAAGGTGTAAGCCCGTAGCTCGACTATGACAACCTATAGAGTCCACCAG-GACATTAAAC
1 GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTG-CATTAAAC
54789277 ATGG
65 ATGG
*
54789281 GGTTAC-ATGTGTAAGACCATAGCT
1 GGTTACAAGGTGTAAGACCATAGCT
54789305 CAACTATGGC
Statistics
Matches: 134, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
67 70 0.52
68 61 0.46
69 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (68 bp):
GGTTACAAGGTGTAAGACCATAGCTTGACTATGACAACCTATAGAGTCTACCAGTGCATTAAACA
TGG
Found at i:54789244 original size:68 final size:67
Alignment explanation
Indices: 54789134--54789317 Score: 251
Period size: 68 Copynumber: 2.7 Consensus size: 67
54789124 TCTGCCAGTG
* * *
54789134 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTTGACTATGGCAACGAATAGAGTCTACCAA
1 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCAA
54789199 GA
66 GA
** * * * * *
54789201 TGTTAAACATGGGGTTACAAGGTGTAAGCCCGTAGCTCGACTATGACAACCTATAGAGTCCACCA
1 CATTAAACATGGGGTTAC-ATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCA
*
54789266 GGA
65 AGA
*
54789269 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCAACTATGGCAAC
1 CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAAC
54789318 ATGTTGAGTC
Statistics
Matches: 98, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 42 0.43
68 56 0.57
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (67 bp):
CATTAAACATGGGGTTACATGTGTAAGACCATAGCTCGACTATGGCAACCAATAGAGTCCACCAA
GA
Found at i:54792535 original size:42 final size:42
Alignment explanation
Indices: 54792476--54792561 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
54792466 GTTTCCTCAC
* *
54792476 CCGTGTAACTTAATGAGTTGTCTCACACGCCCGTGTGCCAGG
1 CCGTGTAACTTAATGAGTTGCCACACACGCCCGTGTGCCAGG
* *
54792518 CCGTGTAACTCT-TTGAGTTGCCACACACGCCCGTGTGCTAGG
1 CCGTGTAACT-TAATGAGTTGCCACACACGCCCGTGTGCCAGG
54792560 CC
1 CC
54792562 CTGTGCTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.97
43 1 0.03
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (42 bp):
CCGTGTAACTTAATGAGTTGCCACACACGCCCGTGTGCCAGG
Found at i:54818435 original size:25 final size:25
Alignment explanation
Indices: 54818394--54818462 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
54818384 ATGCTTATAC
* *
54818394 GAGCTGTA-AACGTTAAGCTCCTCT
1 GAGCTGAATAACGGTAAGCTCCTCT
*
54818418 GAGCTGAATAACGGTAAGCTCCTTT
1 GAGCTGAATAACGGTAAGCTCCTCT
*
54818443 GAGATGAATAACGGTAAGCT
1 GAGCTGAATAACGGTAAGCT
54818463 AATAAGAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCCTCT
Found at i:54818475 original size:25 final size:25
Alignment explanation
Indices: 54818422--54818475 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
54818412 TCCTCTGAGC
** **
54818422 TGAATAACGGTAAGCTCCTTTGAGA
1 TGAATAACGGTAAGCTAATAAGAGA
*
54818447 TGAATAACGGTAAGCTAATAAGAGT
1 TGAATAACGGTAAGCTAATAAGAGA
54818472 TGAA
1 TGAA
54818476 ATCGATAACC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (25 bp):
TGAATAACGGTAAGCTAATAAGAGA
Found at i:54827044 original size:42 final size:43
Alignment explanation
Indices: 54826943--54827114 Score: 118
Period size: 43 Copynumber: 4.0 Consensus size: 43
54826933 AGCTCGTACA
* * * * * * *
54826943 ATGCCAACGTTCCAGAC-GTGGTCTTACATGTATTCAAATAACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
* *
54826986 ATGCCACTTTCCCAGACAGGGTCTTACACGAAATCATATAT-G
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
* * * * *
54827028 ATGCCAATGTCCCAGACATGATCATACACGTAAATC-TCAAATCA
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAATCAT-ATATCG
* * * *
54827072 ATGCCAAAGTCCCAGAC-GTGGTCTTATACGATATCACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAATCATATATCG
54827115 GAATTCCTGT
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
42 27 0.28
43 46 0.47
44 25 0.26
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAATCATATATCG
Found at i:54835008 original size:43 final size:42
Alignment explanation
Indices: 54834974--54835105 Score: 117
Period size: 42 Copynumber: 3.1 Consensus size: 42
54834964 TTCCATGTAT
* *
54834974 TCAAATAATGATGCCACTGTCCCAGACAGAGTCTTACACGAAA
1 TCAAAT-ACGATGCCAATGTCCCAGACAGAGTCTTACACGAAA
*
54835017 TCATATACGATGCCAATGTCCCAGACATG-GTCTTACACGTAAA
1 TCAAATACGATGCCAATGTCCCAGACA-GAGTCTTACACG-AAA
* * * * *
54835060 TCTCAAAT-CAATGCCAACGTCCCAAACATG-GTCTTATACGATA
1 --TCAAATACGATGCCAATGTCCCAGACA-GAGTCTTACACGAAA
54835103 TCA
1 TCA
54835106 CATATCGGAA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
41 3 0.04
42 29 0.38
43 11 0.14
44 28 0.37
45 5 0.07
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (42 bp):
TCAAATACGATGCCAATGTCCCAGACAGAGTCTTACACGAAA
Found at i:54841237 original size:43 final size:43
Alignment explanation
Indices: 54841160--54841444 Score: 351
Period size: 43 Copynumber: 6.7 Consensus size: 43
54841150 TGTCCCAAAC
* ** * **
54841160 ATGGTCTTACATGGAAATCTCGTATCGATTCCAATAGCCCTCCT
1 ATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAGCCCAGCT
* *
54841204 ATAGTCATACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
** *
54841247 ATGGTCTTACACGAAATCTCAAATCGATGGTAATAGCCCAACT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * **
54841290 ATGGTCTTACAAG-AATCTCAAATCGACGCCAATATTCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
* * * * *
54841332 ATGGTCTTACAAG-AATCTCAAATCAACGACAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
54841374 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
54841417 ATGGTCTTACACG-AATATCAAATCGATG
1 ATGGTCTTACACGAAATCTCAAATCGATG
54841445 TCATATCCCA
Statistics
Matches: 209, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
42 86 0.41
43 114 0.55
44 9 0.04
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:54841330 original size:85 final size:85
Alignment explanation
Indices: 54841191--54841444 Score: 339
Period size: 85 Copynumber: 3.0 Consensus size: 85
54841181 GTATCGATTC
** * * *
54841191 CAATAGCCCTCCTATAGTCATACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
*
54841256 CACGAAATCTCAAATCGATGG
66 CACG-AATCTCAAATCGATGA
* * **
54841277 TAATAGCCCAACTATGGTCTTACAAG-AATCTCAAATCGACGCCAATATTCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
* * *
54841341 CAAGAATCTCAAATCAACGA
66 CACGAATCTCAAATCGATGA
* * *
54841361 CAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
1 CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
*
54841426 CACGAATATCAAATCGATG
66 CACGAATCTCAAATCGATG
54841445 TCATATCCCA
Statistics
Matches: 143, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 35 0.24
85 88 0.62
86 20 0.14
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
CAATAGCCCAACTATGGTCTTACAAGAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTA
CACGAATCTCAAATCGATGA
Found at i:54841479 original size:127 final size:127
Alignment explanation
Indices: 54841218--54841466 Score: 356
Period size: 127 Copynumber: 2.0 Consensus size: 127
54841208 TCATACACGA
* * * **
54841218 AATCTCAAATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGGTAATAG
1 AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
* * * *
54841283 CCCAACTATGGTCTTACAAGAATCTCAAATCGACGCCAATATTCCAGCTATGGTCTTACAAG
66 CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTACAAG
*
54841345 AATCTCAAATCAACGACAATAGCCTAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
1 AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
* * * * *
54841410 CCCAGCTATGGTCTTACACGAATATCAAATCGATGTC-ATATCCCATATATGGACTTA
66 CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTA
54841467 TACGGGATCT
Statistics
Matches: 107, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 16 0.15
127 91 0.85
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (127 bp):
AATCTCAAATCAACGACAATAGCCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
CCCAACTATGGTCTTACAAGAATATCAAATCGACGCCAATATCCCAGATATGGACTTACAAG
Found at i:54852163 original size:44 final size:45
Alignment explanation
Indices: 54852094--54852989 Score: 287
Period size: 44 Copynumber: 20.8 Consensus size: 45
54852084 CTACTGTTTT
* * *
54852094 AATCCACTCCACTGTAA-CTCTAGGGAGATAGGA-TTATCGTCTTC
1 AATCTACTCCACTGCAACCTC-AGGGAGATAAGACTTATCGTCTTC
* * * *
54852138 AATCTGCTCCACTGCAACCACAGGGAGATAAGACTT-GCTTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * * * **
54852182 GATCTACTCCGCTGCAACCTCAGGGAGATAACACCTGAT-GTGAT-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
** * * **
54852226 -AT-T-CTCTGCTGCAACCTTAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * *
54852267 AATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * *
54852311 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * * *
54852355 GATCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* *** * * **
54852396 GATCTACTTTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * *
54852440 AATC--C-GCACTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * * * * *
54852481 CATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGT-TTCTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* * *
54852525 GATCTACTCCGCTGCAACCTCAGGGAGATAAGACCTAAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* *** * * * **
54852566 GATCTACTCTGTTGCAACTTCAGAGAAATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
** * * * * *
54852610 AATCCGCTCTACTACAACTTCAGAGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * *
54852654 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGAT-G---T-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGA-CTTATCGTCTTC
* ** * * **
54852695 GATCTACTCTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * * *
54852739 AATCCACTCCACTACAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * * * *
54852783 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCTTT
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* ** * * * *
54852827 GATCTACTCTGCTGTAATCTCAGGGAGATAAGA-TT-T-GACGT-
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
* ** * * **
54852868 GATCTACTCTGCTGCAACTTCAGAGAGATAAGA-TCTATTAT-TTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACT-TATCGTCTTC
* * * *
54852912 AATCCACTCCATTGCAACTTCAGGGAGATAGGA-TTATCAG-CTTC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATC-GTCTTC
* * * *
54852956 CATTTGCTCTACTGCAACCTCAGGGAGATAAGAC
1 AATCTACTCCACTGCAACCTCAGGGAGATAAGAC
54852990 CTGATGTGAT
Statistics
Matches: 628, Mismatches: 170, Indels: 107
0.69 0.19 0.12
Matches are distributed among these distances:
39 4 0.01
40 12 0.02
41 164 0.26
42 10 0.02
43 21 0.03
44 399 0.64
45 15 0.02
46 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
AATCTACTCCACTGCAACCTCAGGGAGATAAGACTTATCGTCTTC
Found at i:54852268 original size:129 final size:130
Alignment explanation
Indices: 54852135--54853077 Score: 517
Period size: 129 Copynumber: 7.3 Consensus size: 130
54852125 GATTATCGTC
* * *
54852135 TTCAATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGATCTACTCCGCTGCAAC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
* * *
54852200 CTCAGGGAGATAACACCTGATGTGATATTCTCTGCTGCAACCTT-AGAGAGATAAGATCTATTAT
66 CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
* * * * ** * * **
54852264 TTCAATCCACTCCACTGCAACTTCAGGGAGATAGGA-TTATCAGCTTCCATCTGCTCCACTGCAA
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTT-GCTTCTTCGATCTACTCTGCTGCAA
* * * * * *
54852328 CCTCAGGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC-TCAGGGAGATAA-AAC-C
65 CCTCAGGGAGATAAGACCTG-AT-GT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTA
*
54852390 TGAT
127 TTAT
* * *** * * * * *
54852394 GT-GATCTACTTTGCTGCAACTTCAGAGAGATAAGATCTAT--TAT-TTCAATC--CGC-ACTGC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGA-CT-TGCT-TCTTCGATCTACTCTGCTGC
* * * * * * *
54852452 AACTTCAGGGAGATAGGA--TTATCAGCTTCCATCTGCT-TCACTGCAACCTTAAG-GAGATAAG
63 AACCTCAGGGAGATAAGACCTGAT--G--T-GATCTACTCT-GCTGCAACCTTCAGAGAGATAAG
* *
54852513 ACCTGTT-T
122 ATCTATTAT
* * ** *
54852521 CTTCGATCTACTCCGCTGCAACCTCAGGGAGATAAGAC---CTAATGT-GATCTACTCTGTTGCA
1 -TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCT-TCGATCTACTCTGCTGCA
* * * * * * * ** * * *
54852582 ACTTCAGAGAAATAAGATCTATTATTTCAATCCGCTCTACTACAA-CTTCAGAGAGATAGGAT-T
64 ACCTCAGGGAGATAAGA-C-CTGATGT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCT
* *
54852645 ATCAGC
126 ATTA-T
* * * * *
54852651 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GATCTACTCTGCTGCAAC
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
* * * * * * * ** * * *
54852713 TTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAA-CTTCAGGGAGATAGGAT-TAT
66 CTCAGGGAGATAAGA-C-CTGATGT-GATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTAT
* *
54852776 CAGC
128 TA-T
* * * * * *
54852780 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTGCTGTAAT
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
** *
54852845 CTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAA-CTTCAGAGAGATAAGATCTATTAT
66 CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
* * * * * ** * * * *
54852909 TTCAATCCACTCCATTGCAACTTCAGGGAGATAGGA-TTATCAGCTTCCATTTGCTCTACTGCAA
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTT-GCTTCTTCGATCTACTCTGCTGCAA
54852973 CCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGAGAGATAAGATCTATTA
65 CCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTA
54853037 T
130 T
** * *
54853038 TTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGACTTG
1 TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTG
54853078 GTGCGATCTC
Statistics
Matches: 649, Mismatches: 124, Indels: 82
0.76 0.15 0.10
Matches are distributed among these distances:
123 1 0.00
124 1 0.00
126 49 0.08
127 9 0.01
128 15 0.02
129 493 0.76
130 16 0.02
131 6 0.01
132 55 0.08
133 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (130 bp):
TTCAATCTACTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCGATCTACTCTGCTGCAAC
CTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACCTTCAGAGAGATAAGATCTATTAT
Found at i:54852300 original size:173 final size:173
Alignment explanation
Indices: 54852011--54852727 Score: 1029
Period size: 173 Copynumber: 4.2 Consensus size: 173
54852001 CCATTCTCAG
* * * * * *
54852011 TCTACTCCTCTGAAACCTTAGGGAGATAAGACCTGATGTGATCTACTCTACTGCAAGTTTAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
* * * * *
54852076 GATAAGATCTACTGTTTTAATCCACTCCACTGTAAC-TCTAGGGAGATAGGATTATC-GTCTTCA
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTC-AGGGAGATAGGATTATCAG-CTTCC
* *
54852139 ATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGA
129 ATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * *
54852184 TCTACTCCGCTGCAACCTCAGGGAGATAACACCTGATGTGATATTCTCTGCTGCAACCTT-AGAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAA-CTTCAGAG
54852248 AGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCA
65 AGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCA
54852313 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
130 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* *
54852357 TCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGATGTGATCTACTTTGCTGCAACTTCAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
*
54852422 GATAAGATCTATTATTTCAAT-C-C-GCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
* * * *
54852484 CTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGA
131 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* *
54852527 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTAATGTGATCTACTCTGTTGCAACTTCAGAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
* * * * *
54852592 AATAAGATCTATTATTTCAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAGCTTCCAT
66 GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
* *
54852657 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GA
131 CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * *
54852697 TCTACTCTGCTGCAACTTCAGAGAGATAAGA
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGA
54852728 TCTATTATTT
Statistics
Matches: 496, Mismatches: 41, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
170 188 0.38
171 3 0.01
172 6 0.01
173 294 0.59
174 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (173 bp):
TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGA
GATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTCCAT
CTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
Found at i:54852759 original size:173 final size:176
Alignment explanation
Indices: 54852011--54852985 Score: 881
Period size: 173 Copynumber: 5.7 Consensus size: 176
54852001 CCATTCTCAG
* * * * * * * * *
54852011 TCTACTCCTCTGAAACCTTAGGGAGATAAGACC--TGATGT-GATCTACTCTACTGCAAGTTTAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * *
54852073 AGAGATAAGATCTACTGTTTTAATCCACTCCACTGTAAC-TCTAGGGAGATAGGATTATC-GTCT
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTC-AGGGAGATAGGATTATCAG-CT
* * *
54852136 TCAATCTGCTCCACTGCAACCACAGGGAGATAAGACTTGCTTCTTCGA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * **
54852184 TCTACTCCGCTGCAACCTCAGGGAGATAACACC--TGATGTGATAT-T-CTCTGCTGCAACCTT-
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCA-ATCTACTCCACTGCAA-CTTC
*
54852244 AGAGAGATAAGATCTATTATTTCAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
64 AGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
54852309 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * ***
54852357 TCTACTCCGCTGCAACCTCAGGGAGATAAAACC--TGATGT-GATCTACTTTGCTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
54852419 AGAGATAAGATCTATTATTTCAATCCG---CACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
* * * *
54852481 CATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGA
131 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * ***
54852527 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTA--ATGT-GATCTACTCTGTTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * *
54852589 AGAAATAAGATCTATTATTTCAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAGCTTC
66 AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
* *
54852654 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTG-AT-GT-GA
131 CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * * *
54852697 TCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * * * * * * * **
54852762 GGAGATAGGAT-TATCAGCTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCT-GCTTCT
66 AGAGATAAGATCTATTA-TTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTATCAGCT
** * ** * * ** * *
54852825 TTGATCTACTCTGCTGTAATCTCAGGGAGATAAGATTTG--ACGT-GA
129 TCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
* * * * * *
54852870 TCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCACTCCATTGCAACTTCAG
1 TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
* * * * * ** * *
54852935 GGAGATAGGAT-TATCAGCTTCCATTTGCTCTACTGCAACCTCAGGGAGATA
66 AGAGATAAGATCTATTA-TTTCAATCCGCTCCACTGCAACTTCAGGGAGATA
54852986 AGACCTGATG
Statistics
Matches: 708, Mismatches: 75, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
170 193 0.27
171 3 0.00
172 12 0.02
173 491 0.69
174 7 0.01
175 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (176 bp):
TCTACTCCGCTGCAACCTCAGGGAGATAAGACCTATTATTTCAATCTACTCCACTGCAACTTCAG
AGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCTTC
CATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTCGA
Found at i:54852833 original size:302 final size:301
Alignment explanation
Indices: 54852351--54853073 Score: 1162
Period size: 302 Copynumber: 2.4 Consensus size: 301
54852341 AGACCTGCTT
* * * * *
54852351 CTTCGATCTACTCCGCTGCAACCTCAGGGAGATAAAACCTGATGTGATCTACTTTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
*
54852416 CAGAGAGATAAGATCTATTATTTCAAT-CC-GCACTGCAACTTCAGGGAGATAGGATTATCAGCT
66 CAGAGAGATAAGATCTATTATTTCAATCCCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
* * *
54852479 TCCATCTGCTTCACTGCAACCTTAAGGAGATAAGACCTGTTTCTTCGATCTACTCCGCTGCAACC
131 TCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC
* *
54852544 TCAGGGAGATAAGACCTAATGTGATCTACTCTGTTGCAACTTCAGAGAAATAAGATCTATTATTT
196 TCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATTT
* *
54852609 CAATCCGCTCTACTACAACTTCAGAGAGATAGGATTATCAG
261 CAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
54852650 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
*
54852715 CAGAGAGATAAGATCTATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGC
66 CAGAGAGATAAGATCTATTATTTCAATCC-CTCCACTGCAACTTCAGGGAGATAGGATTATCAGC
* * * * *
54852780 TTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTGCTGTAAT
130 TTCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAAC
** * *
54852845 CTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCTATTATT
195 CTCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATT
* * *
54852910 TCAATCCACTCCATTGCAACTTCAGGGAGATAGGATTATCAG
260 TCAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
* *
54852952 CTTCCATTTGCTCTACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
1 CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
54853017 CAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGA
66 CAGAGAGATAAGATCTATTATTTCAATCC-CTCCACTGCAACTTCAGGGAGATAGGA
54853074 CTTGGTGCGA
Statistics
Matches: 391, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
299 87 0.22
300 1 0.00
301 1 0.00
302 302 0.77
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (301 bp):
CTTCCATCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTT
CAGAGAGATAAGATCTATTATTTCAATCCCTCCACTGCAACTTCAGGGAGATAGGATTATCAGCT
TCCATCTGCTCCACTGCAACCTCAAGGAGATAAGACCTGCTTCTTCGATCTACTCCGCTGCAACC
TCAGGGAGATAAGACCTAACGTGATCTACTCTGCTGCAACTTCAGAGAAATAAGATCTATTATTT
CAATCCACTCCACTACAACTTCAGAGAGATAGGATTATCAG
Found at i:54852986 original size:173 final size:169
Alignment explanation
Indices: 54852665--54853032 Score: 583
Period size: 173 Copynumber: 2.1 Consensus size: 169
54852655 ATCTGCTCCA
* *
54852665 CTGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
1 CTGCAA-CTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
54852730 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
65 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
* *
54852795 TGCAACCTCAGGGAGATAAGACCTGCTTCTTTGATCTACTCTG
130 TGCAACCTCAGGGAGATAAGACCTG---ATGTGATCTACTCTG
* *
54852838 CTGTAATCTCAGGGAGATAAGATTTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
1 CTGCAA-CTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATC
* * * *
54852903 TATTATTTCAATCCACTCCATTGCAACTTCAGGGAGATAGGATTATCAGCTTCCATTTGCTCTAC
65 TATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCAC
54852968 TGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
130 TGCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
*
54853008 CTGCAACTTCAGAGAGATAAGATCT
1 CTGCAAC-TCAGGGAGATAAGATCT
54853033 ATTATTTCAA
Statistics
Matches: 180, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
169 1 0.01
170 33 0.18
173 146 0.81
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (169 bp):
CTGCAACTCAGGGAGATAAGATCTGACGTGATCTACTCTGCTGCAACTTCAGAGAGATAAGATCT
ATTATTTCAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCAGCTTCCATCTGCTCCACT
GCAACCTCAGGGAGATAAGACCTGATGTGATCTACTCTG
Found at i:54857872 original size:8 final size:8
Alignment explanation
Indices: 54857859--54857883 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54857849 ACTTGCATGG
54857859 AAAGAATA
1 AAAGAATA
54857867 AAAGAATA
1 AAAGAATA
54857875 AAAGAATA
1 AAAGAATA
54857883 A
1 A
54857884 TTGCCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAGAATA
Found at i:54860964 original size:8 final size:8
Alignment explanation
Indices: 54860951--54860987 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
54860941 AATAATGATT
54860951 TTTTAGAA
1 TTTTAGAA
54860959 TTTTAGAA
1 TTTTAGAA
54860967 TTTTAGAA
1 TTTTAGAA
54860975 TTTTAGAA
1 TTTTAGAA
54860983 TTTTA
1 TTTTA
54860988 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (8 bp):
TTTTAGAA
Found at i:54865034 original size:23 final size:23
Alignment explanation
Indices: 54865004--54865048 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
54864994 CAATAATACC
* * *
54865004 TTTATGGCGTATTCTGTCTGGCA
1 TTTATGGCATAATCTGTATGGCA
54865027 TTTATGGCATAATCTGTATGGC
1 TTTATGGCATAATCTGTATGGC
54865049 TTATGTGGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (23 bp):
TTTATGGCATAATCTGTATGGCA
Found at i:54865077 original size:21 final size:21
Alignment explanation
Indices: 54865053--54865113 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
54865043 TATGGCTTAT
*
54865053 GTGGCATTCT-ATTTGGCCTTC
1 GTGGCATTCTGA-TTAGCCTTC
*
54865074 GTGGCATTGTGATTAGCCTTC
1 GTGGCATTCTGATTAGCCTTC
*
54865095 GTGGCATTTTG-TTAGCCTT
1 GTGGCATTCTGATTAGCCTT
54865114 TATGGTGTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.22
21 27 0.75
22 1 0.03
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (21 bp):
GTGGCATTCTGATTAGCCTTC
Found at i:54865111 original size:20 final size:21
Alignment explanation
Indices: 54865068--54865113 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
54865058 ATTCTATTTG
54865068 GCCTTCGTGGCATTGTGATTA
1 GCCTTCGTGGCATTGTGATTA
*
54865089 GCCTTCGTGGCATTTTG-TTA
1 GCCTTCGTGGCATTGTGATTA
54865109 GCCTT
1 GCCTT
54865114 TATGGTGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.11, C:0.22, G:0.26, T:0.41
Consensus pattern (21 bp):
GCCTTCGTGGCATTGTGATTA
Found at i:54869694 original size:37 final size:37
Alignment explanation
Indices: 54869651--54869724 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
54869641 AATTACCTAT
54869651 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
1 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
54869688 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
1 AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
54869725 TTTCTCTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (37 bp):
AAATTTGGAGATGGCCAAATGGTTGAAAGCTTGAAGC
Found at i:54874356 original size:159 final size:162
Alignment explanation
Indices: 54874065--54874381 Score: 415
Period size: 165 Copynumber: 2.0 Consensus size: 162
54874055 GAAAAATATG
* * *
54874065 TATATTCCTTCTATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTGTTTTATCTC
1 TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
* * * * *
54874130 TATTATAATAATCATTCAAGTGAATTAATGTCACAAGTTAATCGGGTAACAATTTAATTGAAAAA
66 TATTATAATAA-CATT--A-TAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAA
*
54874195 TGGTTAAAATCTTA-TTTTAATTAAATATTCAAATT
127 TGGTTAAAATCTTATTTTTAATCAAATATTCAAATT
* * * * * * *
54874230 TATATTCTTTCCATAAATATTTTATTCTTTTGTTGTCCATCCTTTTAAAATTATTATTTTATCTA
1 TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
* *
54874295 TGTTATAATAA-ATT-TAAATGAGTGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
66 TATTATAATAACATTATAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
54874358 TAAAATCTTATTTTTAATCAAATA
131 TAAAATCTTATTTTTAATCAAATA
54874382 ATATAGGGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
159 53 0.40
160 12 0.09
163 3 0.02
165 65 0.49
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (162 bp):
TATATTCCTTCCATAAAGATTTGATCCTTTTGCTATCCAACCTTTTAAAATTATTATTTTATCTA
TATTATAATAACATTATAAATGAATGTCACAAGTTAATCGAGTAACAATTCAATTAAAAAATGGT
TAAAATCTTATTTTTAATCAAATATTCAAATT
Found at i:54874655 original size:29 final size:30
Alignment explanation
Indices: 54874611--54874668 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
54874601 AAATTGAATC
54874611 AAATCAAAATATTATGTATAAAATTACACA
1 AAATCAAAATATTATGTATAAAATTACACA
*
54874641 AAATCAAAAT-TTATGTATAATATTACAC
1 AAATCAAAATATTATGTATAAAATTACAC
54874669 GTTAAACCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (30 bp):
AAATCAAAATATTATGTATAAAATTACACA
Found at i:54875032 original size:30 final size:31
Alignment explanation
Indices: 54874996--54875054 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
54874986 GTATTAAAAG
54874996 AAATCATATATTAAAAGAAATAAC-AATTTT
1 AAATCATATATTAAAAGAAATAACTAATTTT
* *
54875026 AAATCATGTATTAAAATAAATAACTAATT
1 AAATCATATATTAAAAGAAATAACTAATT
54875055 ACTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (31 bp):
AAATCATATATTAAAAGAAATAACTAATTTT
Found at i:54876553 original size:34 final size:33
Alignment explanation
Indices: 54876428--54876543 Score: 133
Period size: 34 Copynumber: 3.4 Consensus size: 33
54876418 TTTTAAAAAA
* *
54876428 TAAATCAGGGTTTACAATTTTTTAAAAAATTAAT
1 TAAATTAGGGTTTAC-AGTTTTTAAAAAATTAAT
* ** *
54876462 TAAATTAGGTTTTAGGGATTTTAAATAAATTAAT
1 TAAATTAGGGTTTACAGTTTTTAAA-AAATTAAT
* *
54876496 TAAATTAAGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTACAGTTTTTAA-AAAATTAAT
54876530 TAAATTAGGGTTTA
1 TAAATTAGGGTTTA
54876544 ATTTTTTTAA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 7 0.10
34 61 0.88
35 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.14, T:0.42
Consensus pattern (33 bp):
TAAATTAGGGTTTACAGTTTTTAAAAAATTAAT
Found at i:54876871 original size:126 final size:124
Alignment explanation
Indices: 54876644--54877288 Score: 781
Period size: 126 Copynumber: 5.1 Consensus size: 124
54876634 ATTTTATTTT
* * * * *
54876644 TTTTTCTACAGTAGTTTCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAG-TTCATAAAAA-AAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
54876709 ACACTACAAACAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
54876770 TCTTTCTACAGTAGTTCATAAAAAACACATTTTGAGAAGAAGGTTCTGAAAATATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCATAAAAAA-A-ATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
54876835 ACGCTTCAAGCAGGATGCACTGTTAGCAAAATTACTAAAAAAAGCTCCCACGTAGACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
54876896 TCTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCAT-AAAAAA-AATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
** * *
54876961 ACGCTTCAAGCAGGATGCACTGTCAGTAAAATTACTGAAAAAAGCTTCCACGTGGACGCTT
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
54877022 TTTTTCTATAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTAAAAAAATAGTGTTAAAA
1 TTTTTCTACAGTAGTTCAT-AAAAAA-AATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
54877087 ATGTTTCAAGAAAGATGCACTATCAACAAAATTACTGAAAAAAGCTCCCATGTGGAAGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* ** * * *
54877148 TTTTTCTACGGTAGTT-ACTGAAAAATGATTTTGAGAATACGATTCTG-AAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCA-T-AAAAAAAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * *
54877211 ACACTCCAAGTAGGATGCACTGTCAACAAAATTACTGAAAAAATCTCCCACGTGAACGCTC
64 ACGCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
54877272 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
54877289 TTGCTTGGCC
Statistics
Matches: 454, Mismatches: 60, Indels: 11
0.86 0.11 0.02
Matches are distributed among these distances:
124 80 0.18
125 27 0.06
126 340 0.75
127 7 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCATAAAAAAAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAAC
GCTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:54885099 original size:15 final size:15
Alignment explanation
Indices: 54885081--54885115 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
54885071 TTCTGCATGA
54885081 TATTACTGTATCTGT
1 TATTACTGTATCTGT
*
54885096 TATTTCTGTATCTGT
1 TATTACTGTATCTGT
*
54885111 GATTA
1 TATTA
54885116 AGGTGGGTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.14, T:0.54
Consensus pattern (15 bp):
TATTACTGTATCTGT
Found at i:54893174 original size:24 final size:24
Alignment explanation
Indices: 54893116--54893174 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
54893106 TTCTAATTAA
**
54893116 ATTTTATAAATATTTATTATTTAT
1 ATTTTATAAATATTTAAAATTTAT
* *
54893140 -TGCTTAAAAATATTTAAAATTTAT
1 AT-TTTATAAATATTTAAAATTTAT
54893164 ATTTTATAAAT
1 ATTTTATAAAT
54893175 TAAATTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTATAAATATTTAAAATTTAT
Found at i:54899848 original size:20 final size:23
Alignment explanation
Indices: 54899825--54899879 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
54899815 TTTTTTAATA
54899825 ATTTTTGAATTTTTAA-A-A-AT
1 ATTTTTGAATTTTTAATATATAT
**
54899845 ATTTTTTTATTTTTAATATATAT
1 ATTTTTGAATTTTTAATATATAT
54899868 ATTTTTAGAATT
1 ATTTTT-GAATT
54899880 AAGTCTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 14 0.52
21 1 0.04
22 1 0.04
23 8 0.30
24 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTTTTGAATTTTTAATATATAT
Found at i:54899850 original size:21 final size:23
Alignment explanation
Indices: 54899820--54899879 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 23
54899810 AATCATTTTT
*
54899820 TAATAATTTTTGAATTTTTAA-A
1 TAATATTTTTTGAATTTTTAATA
*
54899842 -AATATTTTTT-TATTTTTAATA
1 TAATATTTTTTGAATTTTTAATA
*
54899863 TATATATTTTTAGAATT
1 TA-ATATTTTTTGAATT
54899880 AAGTCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.27
21 10 0.33
22 1 0.03
23 8 0.27
24 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (23 bp):
TAATATTTTTTGAATTTTTAATA
Found at i:54899865 original size:19 final size:19
Alignment explanation
Indices: 54899816--54899865 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
54899806 TATAAATCAT
54899816 TTTTTAATA-ATTTTTGAA
1 TTTTTAATATATTTTTGAA
* **
54899834 TTTTTAAAAATATTTTTTTA
1 TTTTT-AATATATTTTTGAA
54899854 TTTTTAATATAT
1 TTTTTAATATAT
54899866 ATATTTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 5 0.19
19 9 0.35
20 12 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTAATATATTTTTGAA
Found at i:54901398 original size:22 final size:22
Alignment explanation
Indices: 54901372--54901413 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
54901362 ATTTTAAATA
54901372 CATTTATTT-TATTATATCATGT
1 CATTTATTTAT-TTATATCATGT
54901394 CATTTATTTATTTATATCAT
1 CATTTATTTATTTATATCAT
54901414 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (22 bp):
CATTTATTTATTTATATCATGT
Found at i:54913461 original size:44 final size:45
Alignment explanation
Indices: 54913383--54913487 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 45
54913373 ATAGCAAACC
* * ** *
54913383 TTATCTCCCCGAAGTTACAGTGGAGGAGGTTGAAGTTA-C-AAGTA
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAA-TA
*
54913427 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATC
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATA
*
54913472 TTATTTCCCTGAAGTT
1 TTATCTCCCTGAAGTT
54913488 GTAGTGGAAC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 33 0.63
45 17 0.33
46 2 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (45 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAGCGAATA
Found at i:54913575 original size:40 final size:40
Alignment explanation
Indices: 54913520--54913681 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
54913510 TAAAATACAG
*
54913520 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCATATCA
1 ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
* * * * *
54913560 ATCTTATCTCCCTAAATTTGTAGTGGAATAGGCTAAAGTTATAAATTACA
1 ATCTTATCTCCCTAAAGTTGCAGT---AGA-GC-AGA-TCAT--A-T-CA
* *
54913610 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCA
1 -ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
*
54913651 ATCTTATCTCCCTGAAA-TTGCAGTGGAGCAG
1 ATCTTATCTCCCT-AAAGTTGCAGTAGAGCAG
54913682 GTTGGAGTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 24
0.70 0.12 0.18
Matches are distributed among these distances:
40 46 0.49
41 4 0.04
42 1 0.01
43 3 0.03
44 2 0.02
45 5 0.05
46 5 0.05
47 2 0.02
48 3 0.03
49 1 0.01
50 2 0.02
51 20 0.21
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (40 bp):
ATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATCATATCA
Found at i:54913587 original size:91 final size:90
Alignment explanation
Indices: 54913468--54913677 Score: 303
Period size: 91 Copynumber: 2.3 Consensus size: 90
54913458 GAAGATAGCG
* * *
54913468 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAACTATAAAATACAGATCTTATCTCTCT
1 AATCTTATCTCCCT-AAATTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCT
54913533 AAAGTTGCAGTAGAGCAGATCATATC
65 AAAGTTGCAGTAGAGCAGATCATATC
* * ** *
54913559 AATCTTATCTCCCTAAATTTGTAGTGGAATAGGCTAAAGTTATAAATTACAGATCTTATCTCTCT
1 AATCTTATCTCCCTAAA-TTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCT
*
54913624 GAAGTTGCAGTAGAGCAGATCATATC
65 AAAGTTGCAGTAGAGCAGATCATATC
*
54913650 AATCTTATCTCCCTGAAATTGCAGTGGA
1 AATCTTATCTCCCT-AAATTGTAGTGGA
54913678 GCAGGTTGGA
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
90 2 0.02
91 102 0.95
92 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (90 bp):
AATCTTATCTCCCTAAATTGTAGTGGAACAGACTAAAACTATAAAATACAGATCTTATCTCTCTA
AAGTTGCAGTAGAGCAGATCATATC
Found at i:54913716 original size:44 final size:44
Alignment explanation
Indices: 54913660--54913776 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
54913650 AATCTTATCT
* * *
54913660 CCCTGAAATTGCAGTGGAGCAGGTTGGAGTTACAAAGCTTA-TA
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
* * * *
54913703 CCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTATAGATCTTATTT
1 CCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
* * *
54913748 CCCTAAAGTTGCAGTGGAGTAGATCGAAG
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAG
54913777 CAACAATTCT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 55 0.89
45 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAAGCTTATTA
Found at i:54916616 original size:19 final size:19
Alignment explanation
Indices: 54916581--54916633 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
54916571 ATAAAATATT
*
54916581 AAGAGTATTACTTAATGTTTA
1 AAGATTATTA-TTAATG-TTA
54916602 AA-ATTATTATTAATGTTA
1 AAGATTATTATTAATGTTA
*
54916620 AAGTTTATTATTAA
1 AAGATTATTATTAA
54916634 AATAAATTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 6 0.21
21 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (19 bp):
AAGATTATTATTAATGTTA
Found at i:54916827 original size:14 final size:15
Alignment explanation
Indices: 54916810--54916839 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
54916800 TATAATTCAC
54916810 TACATATTTAT-TTT
1 TACATATTTATGTTT
54916824 TACATATTTATGTTT
1 TACATATTTATGTTT
54916839 T
1 T
54916840 TCAACCACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (15 bp):
TACATATTTATGTTT
Found at i:54917801 original size:28 final size:30
Alignment explanation
Indices: 54917756--54917821 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 30
54917746 AAAAAGGGGC
54917756 AATTTACCAAAAAAAGCC-ATTTTTTTTA-
1 AATTTACCAAAAAAAGCCGATTTTTTTTAT
* **
54917784 AATTTACCGAAATGAGCCGATTTTTTTTAT
1 AATTTACCAAAAAAAGCCGATTTTTTTTAT
*
54917814 TATTTACC
1 AATTTACC
54917822 CGAATGGGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 15 0.47
29 10 0.31
30 7 0.22
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (30 bp):
AATTTACCAAAAAAAGCCGATTTTTTTTAT
Found at i:54918232 original size:14 final size:14
Alignment explanation
Indices: 54918209--54918238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
54918199 ATTTGGCTTT
*
54918209 TTTTATAAAATTAA
1 TTTTAAAAAATTAA
54918223 TTTTAAAAAATTAA
1 TTTTAAAAAATTAA
54918237 TT
1 TT
54918239 AATTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAAATTAA
Found at i:54918561 original size:23 final size:23
Alignment explanation
Indices: 54918535--54918667 Score: 96
Period size: 23 Copynumber: 5.8 Consensus size: 23
54918525 CATTTTTCTA
54918535 TTTTTTAATTTGTTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
* *
54918558 TTTTTTAAATTATTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
* * *
54918581 TTTTATAATAT-TTTA--A-ATG
1 TTTTTTAATTTGTTTATTATTTG
* **
54918600 TTTTATAATATTTGTTTATTCAAAT-
1 TTTT-TTA-ATTTGTTTATT-ATTTG
*
54918625 TTTTTTAATTTTTTTATTATTTG
1 TTTTTTAATTTGTTTATTATTTG
*
54918648 TTTTATAATATTTGTTTATT
1 TTTT-TTA-ATTTGTTTATT
54918668 CATACGTTTT
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
19 6 0.07
20 2 0.02
21 3 0.04
22 10 0.12
23 43 0.51
24 4 0.05
25 15 0.18
26 2 0.02
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTTAATTTGTTTATTATTTG
Found at i:54918678 original size:48 final size:48
Alignment explanation
Indices: 54918536--54918678 Score: 147
Period size: 48 Copynumber: 3.1 Consensus size: 48
54918526 ATTTTTCTAT
* * * *
54918536 TTTTTAATTTGTTTATTATTTGTTTTTTAA-A-TTATTTATT-ATTTG
1 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
* * * *
54918581 TTTTATAA-TATTTTA--A-ATGTTTTATAATATTTGTTTATTCAAATT
1 TTTT-TAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
*
54918626 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATACG
1 TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
54918674 TTTTT
1 TTTTT
54918679 CAGAAAATAT
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
42 9 0.12
43 2 0.03
44 11 0.14
45 21 0.27
46 3 0.04
47 1 0.01
48 30 0.39
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (48 bp):
TTTTTAATTTTTTTATTATTTGTTTTATAATATTTGTTTATTCATATG
Found at i:54924506 original size:20 final size:20
Alignment explanation
Indices: 54924483--54924520 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
54924473 AATGTTAAAT
* *
54924483 TATATAAATTAAAATTAGCA
1 TATAAAAATGAAAATTAGCA
54924503 TATAAAAATGAAAATTAG
1 TATAAAAATGAAAATTAG
54924521 AAGGTAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (20 bp):
TATAAAAATGAAAATTAGCA
Found at i:54925751 original size:22 final size:22
Alignment explanation
Indices: 54925716--54925758 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
54925706 ATTTTCTAAC
*
54925716 AGATTTAATAAATAAATTCAAG
1 AGATTAAATAAATAAATTCAAG
*
54925738 AGATTAAATGAATAAATTCAA
1 AGATTAAATAAATAAATTCAA
54925759 TGTTTCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
AGATTAAATAAATAAATTCAAG
Found at i:54926475 original size:13 final size:14
Alignment explanation
Indices: 54926450--54926480 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
54926440 TGATGTGTTT
54926450 TAAACTAAATTTAC
1 TAAACTAAATTTAC
54926464 TAAACT-AATTTAC
1 TAAACTAAATTTAC
54926477 TAAA
1 TAAA
54926481 AACTCAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAACTAAATTTAC
Found at i:54932590 original size:23 final size:24
Alignment explanation
Indices: 54932546--54932591 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
54932536 TTTCTCACAT
* **
54932546 TTTCAAGTCAATCATTTTTCCACC
1 TTTCAAGTCAATAATTAATCCACC
54932570 TTTCAA-TCAATAATTAATCCAC
1 TTTCAAGTCAATAATTAATCCAC
54932592 AAACTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (24 bp):
TTTCAAGTCAATAATTAATCCACC
Found at i:54932745 original size:3 final size:3
Alignment explanation
Indices: 54932737--54932762 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54932727 TCACTCATCT
54932737 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
54932763 CTTACCTCAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:54933400 original size:17 final size:17
Alignment explanation
Indices: 54933366--54933399 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
54933356 GAATGGTCTC
*
54933366 TGTTTCTTTTCTTCTTT
1 TGTTTCTTTTATTCTTT
54933383 TGTTTCTTTTATT-TTT
1 TGTTTCTTTTATTCTTT
54933399 T
1 T
54933400 TATTTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.79
Consensus pattern (17 bp):
TGTTTCTTTTATTCTTT
Found at i:54933453 original size:22 final size:24
Alignment explanation
Indices: 54933425--54933471 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
54933415 ATGTATTAGT
54933425 TAATAAT-A-ATAACAATATATTA
1 TAATAATCATATAACAATATATTA
* *
54933447 TAATAATCATATAATAATATTTTA
1 TAATAATCATATAACAATATATTA
54933471 T
1 T
54933472 TCACAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 13 0.62
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TAATAATCATATAACAATATATTA
Found at i:54948177 original size:72 final size:72
Alignment explanation
Indices: 54948060--54948227 Score: 223
Period size: 72 Copynumber: 2.3 Consensus size: 72
54948050 TCTCTAAATC
* *
54948060 TGTTTCTTCCCCTA-CTGCTGATGACTTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
1 TGTTTCTTCCCC-AGTTGCTGATGACCTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
54948124 ATTGAAGA
65 ATTGAAGA
* * * *
54948132 TGTTTCTTCCCCAGTTGCTGATGACGCTTGTTT-TTCAGTCATTGAAGGCGTTTCTTTTTCAGCC
1 TGTTTCTTCCCCAGTTGCTGATGAC-CTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCC
*
54948196 ATTGAAGT
65 ATTGAAGA
* *
54948204 TGTTTCTGCCCCTGTTGCTGATGA
1 TGTTTCTTCCCCAGTTGCTGATGA
54948228 GTCTCCTTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.01
72 79 0.93
73 5 0.06
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (72 bp):
TGTTTCTTCCCCAGTTGCTGATGACCTTCTTTCTGCAGCCATTGAAGACGTTTCTTTTTCAGCCA
TTGAAGA
Found at i:54948210 original size:24 final size:24
Alignment explanation
Indices: 54948085--54948202 Score: 101
Period size: 24 Copynumber: 4.9 Consensus size: 24
54948075 TGCTGATGAC
*
54948085 TTTCTTTCTGCAGCCATTGAAGACG
1 TTTCTTT-TTCAGCCATTGAAGACG
*
54948110 TTTCTTTTTCAGCCATTGAAGATG
1 TTTCTTTTTCAGCCATTGAAGACG
*** **** *
54948134 TTTCTTCCCCAGTTGCTGATGACG
1 TTTCTTTTTCAGCCATTGAAGACG
* * * *
54948158 CTTGTTTTTCAGTCATTGAAGGCG
1 TTTCTTTTTCAGCCATTGAAGACG
54948182 TTTCTTTTTCAGCCATTGAAG
1 TTTCTTTTTCAGCCATTGAAG
54948203 TTGTTTCTGC
Statistics
Matches: 69, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
24 62 0.90
25 7 0.10
ACGTcount: A:0.18, C:0.21, G:0.19, T:0.42
Consensus pattern (24 bp):
TTTCTTTTTCAGCCATTGAAGACG
Found at i:54948238 original size:72 final size:72
Alignment explanation
Indices: 54948095--54948251 Score: 226
Period size: 72 Copynumber: 2.2 Consensus size: 72
54948085 TTTCTTTCTG
*
54948095 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTTCCCCAGTTGCTGATGACGCT
1 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACGCT
**
54948160 TGTTTTT
66 CCTTTTT
* * * *
54948167 CAGTCATTGAAGGCGTTTCTTTTTCAGCCATTGAAGTTGTTTCTGCCCCTGTTGCTGATGA-GTC
1 CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACG-C
54948231 TCCTTTTT
65 TCCTTTTT
*
54948239 CAGCCATTTAAGA
1 CAGCCATTGAAGA
54948252 AGAAAAGAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 73 0.99
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (72 bp):
CAGCCATTGAAGACGTTTCTTTTTCAGCCATTGAAGATGTTTCTGCCCCAGTTGCTGATGACGCT
CCTTTTT
Found at i:54950661 original size:13 final size:13
Alignment explanation
Indices: 54950643--54950667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54950633 TATTTTAATA
54950643 TTATTTTGTGTGT
1 TTATTTTGTGTGT
54950656 TTATTTTGTGTG
1 TTATTTTGTGTG
54950668 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:54951778 original size:114 final size:114
Alignment explanation
Indices: 54951647--54951868 Score: 408
Period size: 114 Copynumber: 1.9 Consensus size: 114
54951637 ATCAGCATAT
* *
54951647 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
54951712 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
* *
54951761 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
54951826 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
54951869 GTATATATGA
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.40
Consensus pattern (114 bp):
ATATATACGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATAAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:54952404 original size:41 final size:41
Alignment explanation
Indices: 54952355--54952458 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
54952345 GACTTTACGT
*
54952355 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
*
54952396 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
54952437 TTAGCAGGTTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
54952459 ATATGTTAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:54954352 original size:15 final size:16
Alignment explanation
Indices: 54954321--54954353 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54954311 ATATCCTTTT
*
54954321 AAATTTCAAACACATA
1 AAATTTCAAACAAATA
54954337 AAATTTCAAA-AAATA
1 AAATTTCAAACAAATA
54954352 AA
1 AA
54954354 GGCAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATTTCAAACAAATA
Found at i:54955658 original size:17 final size:17
Alignment explanation
Indices: 54955604--54955662 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
54955594 GAAATTAATA
54955604 TTTTAAATATTTTTTAT
1 TTTTAAATATTTTTTAT
** *
54955621 ATTTATATAA-ATCATTGAT
1 -TTT-TA-AATATTTTTTAT
54955640 TTTTAAATATTTTTTAT
1 TTTTAAATATTTTTTAT
54955657 TTTTAA
1 TTTTAA
54955663 TAATTCATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
16 2 0.06
17 14 0.44
18 6 0.19
19 8 0.25
20 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTAAATATTTTTTAT
Found at i:54955674 original size:34 final size:36
Alignment explanation
Indices: 54955604--54955674 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
54955594 GAAATTAATA
54955604 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
1 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
* *
54955640 TTTTAAATATTTTTTATTTTTA-ATAATTCA-TGAT
1 TTTTAAATATTTTTTATATTTATATAAATCATTGAT
54955674 T
1 T
54955675 AAATTAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 5 0.15
35 7 0.21
36 21 0.64
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (36 bp):
TTTTAAATATTTTTTATATTTATATAAATCATTGAT
Found at i:54972799 original size:21 final size:22
Alignment explanation
Indices: 54972761--54972802 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
54972751 AAAAACAAGA
*
54972761 ATAAATAATTGTCATCTTAATC
1 ATAAACAATTGTCATCTTAATC
54972783 ATAAACAATTG-CATCTTAAT
1 ATAAACAATTGTCATCTTAAT
54972803 TCCTTCAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAAACAATTGTCATCTTAATC
Found at i:54978245 original size:37 final size:37
Alignment explanation
Indices: 54978195--54978286 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
54978185 TTAAACTTTT
* *
54978195 CCTCATGTTTCAAGTTATGACGGTCCGCTGGACTTGC
1 CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
** *
54978232 CCTCATGTTTCAAGTTATGACGATTTGCTAGACTTTC
1 CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
* *
54978269 CCACATATTTCAAGTTAT
1 CCTCATGTTTCAAGTTAT
54978287 AACAGTTCGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (37 bp):
CCTCATGTTTCAAGTTATGACGATCCGCTAGACTTGC
Found at i:54978543 original size:26 final size:26
Alignment explanation
Indices: 54978514--54978620 Score: 117
Period size: 26 Copynumber: 4.1 Consensus size: 26
54978504 AATAGTCTAT
54978514 AAGGACTATTTCAAGTATGAGTCCGC
1 AAGGACTATTTCAAGTATGAGTCCGC
* *
54978540 AAGGACTATTTCATGTATGAGTCTGC
1 AAGGACTATTTCAAGTATGAGTCCGC
* * **
54978566 -AGATACTATTTCAAGCATGAGTCCAA
1 AAG-GACTATTTCAAGTATGAGTCCGC
* *
54978592 AAAGACTATTATCAAGTATGAGTCTGC
1 AAGGACTATT-TCAAGTATGAGTCCGC
54978619 AA
1 AA
54978621 AGATTTCTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
25 2 0.03
26 47 0.73
27 15 0.23
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (26 bp):
AAGGACTATTTCAAGTATGAGTCCGC
Found at i:54978574 original size:52 final size:53
Alignment explanation
Indices: 54978518--54978619 Score: 152
Period size: 52 Copynumber: 1.9 Consensus size: 53
54978508 GTCTATAAGG
* ** * *
54978518 ACTATTTCAAGTATGAGTCCGCAAGGACTATT-TCATGTATGAGTCTGCAGAT
1 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCAGAT
54978570 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCA
1 ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCA
54978620 AAGATTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 28 0.64
53 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (53 bp):
ACTATTTCAAGCATGAGTCCAAAAAGACTATTATCAAGTATGAGTCTGCAGAT
Found at i:54990228 original size:172 final size:175
Alignment explanation
Indices: 54989866--54990275 Score: 558
Period size: 184 Copynumber: 2.3 Consensus size: 175
54989856 AAAATACATA
* * * * *
54989866 TATAAAGTGTTTAAGAAAATATATTAATGGTTGAATTTTGATATTTTGATTTCATATATAAAACC
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
*
54989931 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTTGAGGATGGCCAGAACAACACGACTT
66 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTCGAGGATGGCCAGAACAACACGACTT
* * *
54989996 TAGTGTAATGGATTAATTTGCTTTATTTACCAAAAAAAACCATATATATATATT
131 TAATGTAATGGATTAATTTACTTTATTT---------AACCATATATATATATC
*
54990050 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAATC
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
* * *
54990115 ATTTGATTATGTCTTGTCTCTTGTTCATGATGACTT-GATCGAGGATGGCCAGAACAACACGACT
66 ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAG-TCGAGGATGGCCAGAACAACACGACT
*
54990179 TTAATTTAATGGATTAATTTACTTTATTT-A-CA-ATATATATATC
130 TTAATGTAATGGATTAATTTACTTTATTTAACCATATATATATATC
* *
54990222 TATAAAGTCTTTACGAAAGCATATAAATGGTTAAATTTTGATATTTTGATTTGA
1 TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGA
54990276 AAATTTAAGT
Statistics
Matches: 209, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
172 62 0.30
173 2 0.01
174 1 0.00
183 1 0.00
184 143 0.68
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (175 bp):
TATAAAGTCTTTAAGAAAACATATAAATGGTTAAATTTTGATATTTTGATTTGATATATAAAACC
ATTTGATCATGTCTTGTCTCTTGTACACGATGACTTAGTCGAGGATGGCCAGAACAACACGACTT
TAATGTAATGGATTAATTTACTTTATTTAACCATATATATATATC
Found at i:54992697 original size:26 final size:26
Alignment explanation
Indices: 54992663--54992821 Score: 111
Period size: 26 Copynumber: 6.4 Consensus size: 26
54992653 TGGCTATCCG
*
54992663 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
* *
54992688 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
* * * *
54992714 GAACTTCCTGATT-ATGACTC-TTAT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
****
54992738 GAGCTTCCTG-TTATATA-GC-CCGAAT
1 GAGCTTCCTGATTA-A-AGGCTCTTTGT
* *
54992763 AAGCTTTCTGA-T--AGGCTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
*
54992786 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTTGT
54992812 GAGCTTCCTG
1 GAGCTTCCTG
54992822 TTATATGGCT
Statistics
Matches: 100, Mismatches: 23, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 13 0.13
24 14 0.14
25 20 0.20
26 50 0.50
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTTGT
Found at i:54992791 original size:23 final size:26
Alignment explanation
Indices: 54992776--54992831 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
54992766 CTTTCTGATA
54992776 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAT
54992802 GGCTCTTTGTGAGCTTCCTG-TTATAT
1 GGCTCTTTGTGAGCTTCCTGATTA-AT
54992828 GGCT
1 GGCT
54992832 TGAGAGAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.12, C:0.20, G:0.25, T:0.43
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAT
Found at i:54993878 original size:74 final size:73
Alignment explanation
Indices: 54993750--54993893 Score: 225
Period size: 74 Copynumber: 2.0 Consensus size: 73
54993740 CTCGGATTTG
* *
54993750 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCTGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
54993815 TTGAGAAA
66 TTGAGAAA
** * *
54993823 AAAAAGGGGATCATGCCCAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAATA
1 AAAAA-GGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAA
54993888 CTTGAG
65 CTTGAG
54993894 TTTGAAAAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 5 0.08
74 59 0.92
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (73 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAGAAA
Found at i:54994101 original size:9 final size:9
Alignment explanation
Indices: 54994084--54994120 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
54994074 TGAGTTTTCG
54994084 AATTCGAAT
1 AATTCGAAT
*
54994093 AACTCGAAT
1 AATTCGAAT
54994102 AATTCGAAT
1 AATTCGAAT
54994111 AATTCGAAT
1 AATTCGAAT
54994120 A
1 A
54994121 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55004078 original size:30 final size:30
Alignment explanation
Indices: 55004044--55004378 Score: 190
Period size: 30 Copynumber: 11.2 Consensus size: 30
55004034 GTATCCTGAA
**
55004044 TGGTGTGATAATGCAGCCCCATATCCGGCT
1 TGGTGTGATGGTGCAGCCCCATATCCGGCT
* * * * *
55004074 TGGTGTGACGGTGTAACCACATATCCGGGT
1 TGGTGTGATGGTGCAGCCCCATATCCGGCT
* *
55004104 TGGTGT-AGCGGTGCAGCCCCATATCCAGCT
1 TGGTGTGA-TGGTGCAGCCCCATATCCGGCT
* * * *
55004134 TGGTGCGATGGTACAGCTCCA-AACTCGGCT
1 TGGTGTGATGGTGCAGCCCCATATC-CGGCT
* *
55004164 TGGTGTGACGGTGC-GACTCCATATCCGGCT
1 TGGTGTGATGGTGCAG-CCCCATATCCGGCT
* * **
55004194 TGGTGCGACGGTGGGGCCCCATATCCAAGG--
1 TGGTGTGATGGTGCAGCCCCATATCC--GGCT
* * *
55004224 TGGTGTAATGATGCAGTCCCATATCCTGG-T
1 TGGTGTGATGGTGCAGCCCCATATCC-GGCT
55004254 TGGTGCTG-TGGTGCAGCCCCATATCCTGG-T
1 TGGTG-TGATGGTGCAGCCCCATATCC-GGCT
* ** *
55004284 TGGTGT-AGTAGTGTTGCCCCATATCCAGCT
1 TGGTGTGA-TGGTGCAGCCCCATATCCGGCT
* **
55004314 TGGTG-CATGGGTGCAGCAACATATCCGAG-T
1 TGGTGTGAT-GGTGCAGCCCCATATCCG-GCT
* * *
55004344 TGGTGCGGTGGTGCAGCACCATATCCAGG-T
1 TGGTGTGATGGTGCAGCCCCATATCC-GGCT
55004374 TGGTG
1 TGGTG
55004379 AGGCAATGGT
Statistics
Matches: 238, Mismatches: 49, Indels: 36
0.74 0.15 0.11
Matches are distributed among these distances:
29 9 0.04
30 219 0.92
31 8 0.03
32 2 0.01
ACGTcount: A:0.17, C:0.24, G:0.32, T:0.26
Consensus pattern (30 bp):
TGGTGTGATGGTGCAGCCCCATATCCGGCT
Found at i:55004138 original size:90 final size:89
Alignment explanation
Indices: 55004007--55004318 Score: 247
Period size: 90 Copynumber: 3.5 Consensus size: 89
55003997 CAGCTCTATC
* * * * * * ** *
55004007 TCCGAGTTGGTGAAGAGGTGCAACCCCGTATCCTGAATGGTGTGATAATGCAGCCCCATATCCGG
1 TCCGGGTTGGTGTAGCGGTGCAGCCCCATATCCAGCTTGGTGTGATGATGCAGCCCCATATCCGG
*
55004072 CTTGGTGTGACGGTGTAACCACATA
66 CTTGGTGTGACGGTGCAACC-CATA
* * * * *
55004097 TCCGGGTTGGTGTAGCGGTGCAGCCCCATATCCAGCTTGGTGCGATGGTACAGCTCCA-AACTCG
1 TCCGGGTTGGTGTAGCGGTGCAGCCCCATATCCAGCTTGGTGTGATGATGCAGCCCCATATC-CG
*
55004161 GCTTGGTGTGACGGTGCGACTCCATA
65 GCTTGGTGTGACGGTGCAAC-CCATA
* * ** * * *
55004187 TCCGGCTTGGTG-CGACGGTGGGGCCCCATATCCAAG-GTGGTGTAATGATGCAGTCCCATATCC
1 TCCGGGTTGGTGTAG-CGGTGCAGCCCCATATCC-AGCTTGGTGTGATGATGCAGCCCCATATCC
* *
55004250 TGG-TTGGTGCTG-TGGTGCAGCCCCATA
64 -GGCTTGGTG-TGACGGTGCA-ACCCATA
* ** **
55004277 TCCTGGTTGGTGTAGTAGTGTTGCCCCATATCCAGCTTGGTG
1 TCCGGGTTGGTGTAGCGGTGCAGCCCCATATCCAGCTTGGTG
55004319 CATGGGTGCA
Statistics
Matches: 173, Mismatches: 39, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
89 5 0.03
90 157 0.91
91 11 0.06
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.26
Consensus pattern (89 bp):
TCCGGGTTGGTGTAGCGGTGCAGCCCCATATCCAGCTTGGTGTGATGATGCAGCCCCATATCCGG
CTTGGTGTGACGGTGCAACCCATA
Found at i:55006836 original size:82 final size:86
Alignment explanation
Indices: 55006744--55006916 Score: 273
Period size: 90 Copynumber: 2.0 Consensus size: 86
55006734 TGATGTAAAT
55006744 TTAAAACTTCTAACTATTTGTTTTATG-TAAAAAAAA-TCAACCGTTG-A-ATATATATATTAAT
1 TTAAAACTTCTAACTATTTGTTTTATGATAAAAAAAATTCAACCGTTGAATATATATATATTAAT
*
55006805 ATATTGAGTGCTTTAGATTAA
66 ATATTGAGTACTTTAGATTAA
55006826 TTAAAACTTCTAACTATTTGTTTTATGTAATAAAAAAAATTCAACCGTTGAATATATATATATAT
1 TTAAAACTTCTAACTATTTGTTTTATG--ATAAAAAAAATTCAACCGTTG-A-ATATATATATAT
55006891 TAATATATTGAGTACTTTAGATTAA
62 TAATATATTGAGTACTTTAGATTAA
55006916 T
1 T
55006917 ATGAAAGAGA
Statistics
Matches: 82, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
82 27 0.33
85 9 0.11
86 10 0.12
89 1 0.01
90 35 0.43
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (86 bp):
TTAAAACTTCTAACTATTTGTTTTATGATAAAAAAAATTCAACCGTTGAATATATATATATTAAT
ATATTGAGTACTTTAGATTAA
Found at i:55013754 original size:48 final size:48
Alignment explanation
Indices: 55013702--55013800 Score: 171
Period size: 48 Copynumber: 2.1 Consensus size: 48
55013692 GGAGGATCTT
* *
55013702 GAATAAATCTATTGAGAAATATAAATATGGAATAAATTGGTTAAAATA
1 GAATAAATCTATTGAGAAATATAAATATGAAATAAATTGGTCAAAATA
*
55013750 GAATAAATCTATTGAGAAATATAGATATGAAATAAATTGGTCAAAATA
1 GAATAAATCTATTGAGAAATATAAATATGAAATAAATTGGTCAAAATA
55013798 GAA
1 GAA
55013801 AGACGCAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (48 bp):
GAATAAATCTATTGAGAAATATAAATATGAAATAAATTGGTCAAAATA
Found at i:55013788 original size:25 final size:25
Alignment explanation
Indices: 55013712--55013788 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
55013702 GAATAAATCT
* *
55013712 ATTGAGAAATATAAATATGGAATAA
1 ATTGAGAAATATAGATATGAAATAA
**
55013737 ATTG-GTTAAA-ATAGA-AT-AAATCT
1 ATTGAG--AAATATAGATATGAAATAA
55013760 ATTGAGAAATATAGATATGAAATAA
1 ATTGAGAAATATAGATATGAAATAA
55013785 ATTG
1 ATTG
55013789 GTCAAAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 3 0.08
23 12 0.30
24 6 0.15
25 16 0.40
26 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.16, T:0.31
Consensus pattern (25 bp):
ATTGAGAAATATAGATATGAAATAA
Found at i:55013798 original size:25 final size:24
Alignment explanation
Indices: 55013726--55013799 Score: 64
Period size: 25 Copynumber: 3.0 Consensus size: 24
55013716 AGAAATATAA
*
55013726 ATATGGAATAAATTGGTTAAAATAG
1 ATATGAAATAAATTGG-TAAAATAG
**
55013751 A-AT-AAATCTATTGAG-AAATATAG
1 ATATGAAATAAATTG-GTAAA-ATAG
55013774 ATATGAAATAAATTGGTCAAAATAG
1 ATATGAAATAAATTGGT-AAAATAG
55013799 A
1 A
55013800 AAGACGCAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
22 3 0.08
23 12 0.32
24 6 0.16
25 14 0.37
26 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (24 bp):
ATATGAAATAAATTGGTAAAATAG
Found at i:55020185 original size:30 final size:30
Alignment explanation
Indices: 55020108--55020186 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
55020098 AATGTGTATG
*
55020108 ATTGAATCAAAATTAAAGTTTTATGTATACA
1 ATTGAA-CCAAATTAAAGTTTTATGTATACA
*
55020139 TTTGAACCACAATTAAAGTTTCGTATGTA-A-A
1 ATTGAACCA-AATTAAAGTTT--TATGTATACA
*
55020170 ATTGCACCAAATTAAAG
1 ATTGAACCAAATTAAAG
55020187 CTCGTGTATC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 10 0.24
31 24 0.59
32 1 0.02
33 6 0.15
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (30 bp):
ATTGAACCAAATTAAAGTTTTATGTATACA
Found at i:55024627 original size:74 final size:75
Alignment explanation
Indices: 55024515--55024690 Score: 189
Period size: 74 Copynumber: 2.4 Consensus size: 75
55024505 TTTGTGGAAG
* * * *
55024515 TCAAATTGTTTAACTTGATTAAAAC-CCTTAAGAGATTTAACTTTA-CTGATTAAGTGCAAGCAA
1 TCAAATTGTTTAACTTGATTACATCTCCTAAAGAGATTTAACTTTATC-GATTAAATGCAAGCAA
*
55024578 ATCTCTGAAAC
65 ATCTATGAAAC
* ** *
55024589 TCAAATTGTTTAACTTGATTACATCTCCTAAAGA-ATTTAGCTTTATCGATTAAATGGGAGCAAT
1 TCAAATTGTTTAACTTGATTACATCTCCTAAAGAGATTTAACTTTATCGATTAAATGCAAGCAAA
* * *
55024653 TTTATGGAAG
66 TCTATGAAAC
* *
55024663 TTAAATTGTTTGACTTGATTACAT-TCCT
1 TCAAATTGTTTAACTTGATTACATCTCCT
55024691 GTTAGCTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
73 4 0.05
74 74 0.86
75 8 0.09
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (75 bp):
TCAAATTGTTTAACTTGATTACATCTCCTAAAGAGATTTAACTTTATCGATTAAATGCAAGCAAA
TCTATGAAAC
Found at i:55027900 original size:17 final size:17
Alignment explanation
Indices: 55027873--55027918 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
55027863 AAAGTTTAGG
55027873 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
55027891 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
55027906 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
55027919 TAGAGGGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:55028283 original size:9 final size:9
Alignment explanation
Indices: 55028269--55028305 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
55028259 TATAGTTTGA
55028269 TATTCGAAT
1 TATTCGAAT
55028278 TATTCGAAT
1 TATTCGAAT
*
55028287 TATTCGAGT
1 TATTCGAAT
55028296 TATTCGAAT
1 TATTCGAAT
55028305 T
1 T
55028306 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:55029878 original size:28 final size:29
Alignment explanation
Indices: 55029841--55029902 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
55029831 GAAAAAAATA
*
55029841 AAAATTTATTCT-AAAA-GAGAATAAAAG
1 AAAATTTATTCTAAAAATAAGAATAAAAG
*
55029868 AAAATTCTATTCTAAAAATAAGAATAAAAT
1 AAAATT-TATTCTAAAAATAAGAATAAAAG
55029898 AAAAT
1 AAAAT
55029903 AAAATAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 6 0.20
28 6 0.20
29 4 0.13
30 14 0.47
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.27
Consensus pattern (29 bp):
AAAATTTATTCTAAAAATAAGAATAAAAG
Done.