Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 277 of 343
Found at i:91971368 original size:28 final size:28
Alignment explanation
Indices: 91971336--91971389 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
91971326 TTGGATTTTT
91971336 GCATATTAATTATAAACTCATTTAGTGA
1 GCATATTAATTATAAACTCATTTAGTGA
91971364 GCATATTAATTATAAACTCATTTAGT
1 GCATATTAATTATAAACTCATTTAGT
91971390 CACGAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
GCATATTAATTATAAACTCATTTAGTGA
Found at i:91973700 original size:18 final size:18
Alignment explanation
Indices: 91973679--91973741 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
91973669 CTATTTTGTC
91973679 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
* *
91973697 TTTCACATTT-TTGGCTTTTTCC
1 TTT--CATTTATT---ATTTTCT
91973719 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
91973737 TTTCA
1 TTTCA
91973742 CATTTTTGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 13 0.37
19 2 0.06
20 10 0.29
21 2 0.06
22 8 0.23
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCATTTATTATTTTCT
Found at i:91973717 original size:22 final size:22
Alignment explanation
Indices: 91973691--91973756 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
91973681 TCATTTATTA
91973691 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
* *
91973713 TTTTCCTTT--CATTTATT---A
1 TTTTCTTTTCACATTT-TTGGCT
91973731 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
91973753 TTTT
1 TTTT
91973757 TACTCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 8 0.24
19 2 0.06
20 10 0.29
21 2 0.06
22 12 0.35
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTCTTTTCACATTTTTGGCT
Found at i:91973722 original size:40 final size:40
Alignment explanation
Indices: 91973678--91973756 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
91973668 TCTATTTTGT
91973678 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
91973718 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
91973757 TACTCCAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (40 bp):
CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
Found at i:91973745 original size:20 final size:20
Alignment explanation
Indices: 91973682--91973746 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
91973672 TTTTGTCTTT
91973682 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
* *
91973702 CATTT-TTGGCTTTTTCCTTT--
1 CATTTATT---ATTTTCTTTTCA
91973722 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
91973742 CATTT
1 CATTT
91973747 TTGGCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 8 0.23
19 2 0.06
20 15 0.43
21 2 0.06
22 8 0.23
ACGTcount: A:0.15, C:0.17, G:0.03, T:0.65
Consensus pattern (20 bp):
CATTTATTATTTTCTTTTCA
Found at i:91979503 original size:57 final size:58
Alignment explanation
Indices: 91979403--91979520 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 58
91979393 ATACAAATGG
* *
91979403 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAGTATAGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
* * * *
91979461 TGAAAATGGAGAAATG-GAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
91979518 TGA
1 TGA
91979521 CCTAAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 38 0.70
58 16 0.30
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
Found at i:91981256 original size:20 final size:20
Alignment explanation
Indices: 91981231--91981270 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
91981221 GAATAATGTC
91981231 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
91981251 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
91981271 TATTGATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ACATGTACTTGTCATGCATA
Found at i:91987885 original size:19 final size:18
Alignment explanation
Indices: 91987857--91987903 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
91987847 AGAAATAAAT
91987857 ATATAAAAATTCAAGAAAA
1 ATAT-AAAATTCAAGAAAA
*
91987876 ATATATAAA-TCTAGAAAA
1 ATATA-AAATTCAAGAAAA
*
91987894 AAATAAAATT
1 ATATAAAATT
91987904 TATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 3 0.12
18 14 0.58
19 7 0.29
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (18 bp):
ATATAAAATTCAAGAAAA
Found at i:91987897 original size:20 final size:18
Alignment explanation
Indices: 91987837--91987898 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
91987827 CATTAAATAT
91987837 ATATATAAATAGAAATAAA
1 ATATATAAATAGAAA-AAA
* **
91987856 TATATAAAAATTCAAGAAAA
1 -ATATATAAATAGAA-AAAA
91987876 ATATATAAATCTAGAAAAAA
1 ATATATAAA--TAGAAAAAA
91987896 ATA
1 ATA
91987899 AAATTTATAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 8 0.24
20 21 0.64
21 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATATATAAATAGAAAAAA
Found at i:91987902 original size:17 final size:16
Alignment explanation
Indices: 91987870--91987930 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
91987860 TAAAAATTCA
*
91987870 AGAAAAATATATAAATCT
1 AGAAAAAAATA-AAAT-T
91987888 AGAAAAAAATAAAATT
1 AGAAAAAAATAAAATT
* *
91987904 -TATAAAAATAAAATTT
1 AGAAAAAAATAAAA-TT
*
91987920 ACAAAAAAATA
1 AGAAAAAAATA
91987931 CGACAATTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 11 0.31
16 3 0.08
17 12 0.33
18 10 0.28
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (16 bp):
AGAAAAAAATAAAATT
Found at i:91987925 original size:14 final size:15
Alignment explanation
Indices: 91987892--91987926 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
91987882 AAATCTAGAA
91987892 AAAAATAAAATTTAT
1 AAAAATAAAATTTAT
*
91987907 AAAAATAAAATTTAC
1 AAAAATAAAATTTAT
91987922 AAAAA
1 AAAAA
91987927 AATACGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATAAAATTTAT
Found at i:91989503 original size:38 final size:39
Alignment explanation
Indices: 91989431--91989513 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 39
91989421 CATATAACTC
*
91989431 GAGAATATGCAAACAAGGGTAGATCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
* * *
91989470 GAGAATTTGC-AACCAGGTTAGACCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
91989508 GAGAAT
1 GAGAAT
91989514 CTACAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.77
39 9 0.22
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
Found at i:91989988 original size:18 final size:18
Alignment explanation
Indices: 91989955--91990009 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
91989945 CGTGATCCGA
*
91989955 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
91989972 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
*
91989989 TTGAAAACACGAAACTTT
1 TTGAAAACACGAAAATTT
91990007 TTG
1 TTG
91990010 GGATCCGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 21 0.66
18 11 0.34
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:91990582 original size:26 final size:27
Alignment explanation
Indices: 91990539--91990592 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
91990529 TATGTATACC
*
91990539 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
91990565 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
91990592 A
1 A
91990593 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:91990720 original size:3 final size:3
Alignment explanation
Indices: 91990712--91990762 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
91990702 AAAAATAAGT
* * * *
91990712 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91990757 ATA ATA
1 ATA ATA
91990763 TGTGAAGGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:91992516 original size:21 final size:21
Alignment explanation
Indices: 91992490--91992543 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
91992480 AGGATAGGAT
**
91992490 CTGCAACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
91992511 CTGCAACTTCGATCAGCTCCA
1 CTGCAACTTCAATCAGCTCCA
* *
91992532 TTGTAACTTCAA
1 CTGCAACTTCAA
91992544 GGCTCTGCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:91992814 original size:13 final size:13
Alignment explanation
Indices: 91992786--91992820 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
91992776 TGAGTTGATT
91992786 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
91992799 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
91992813 TTTGAAAA
1 TTTGAAAA
91992821 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:91992818 original size:88 final size:88
Alignment explanation
Indices: 91992664--91992881 Score: 235
Period size: 88 Copynumber: 2.5 Consensus size: 88
91992654 ATGTGATCGG
* * *
91992664 AGGCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAGACATTAAAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACTAGACATTAAAAACAGAAATT
* * * *
91992728 GAAAATAGCTCAGCACGTGAGCTA
65 GAAAATACCTCAGCACGTAACCCA
* * * **
91992752 AGGCTCAACTCGCTTCTTGCAATATGAGTTGATTTTTGAAAAC-AGA-ATTTGCAAAACAGATTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACA-TT-AAAAACAGAAAT
* * *
91992815 TGAAAATACCTCGGCATGTAACCCG
64 TGAAAATACCTCAGCACGTAACCCA
* *
91992840 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA
91992882 GCATAATTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 9 0.08
88 98 0.91
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACATTAAAAACAGAAATTG
AAAATACCTCAGCACGTAACCCA
Found at i:91992999 original size:73 final size:73
Alignment explanation
Indices: 91992839--91993251 Score: 573
Period size: 73 Copynumber: 5.6 Consensus size: 73
91992829 CATGTAACCC
* * *
91992839 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCA-TAATTGAAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTGAAAATACCTCAG
91992903 CGTGCCCT
66 CGTGCCCT
* * *
91992911 GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGACAAA-CAAAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACCAGAAATTGAAAATACCTCA
*
91992975 GCGTGTCCT
65 GCGTGCCCT
* * * *
91992984 GAGGCCCAACTCACCTCTCAG-AATGTAAGTTTATTTTTTTGAAAACCAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTC-GCAATATGAGTTGA--TTTTTGAAAACCAGAAATTGAAAATACCT
91993048 CAGCGTGCCCT
63 CAGCGTGCCCT
* *
91993059 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAAAATCAGAAATTGAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAACCAGAAATTGAAAATACCT
*
91993124 CAGCGTGCCTT
63 CAGCGTGCCCT
* *
91993135 GGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACCAGAAATTGAAAATACCTCA
91993199 GCGTGCCCT
65 GCGTGCCCT
*
91993208 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
91993252 ATCAAAATAC
Statistics
Matches: 307, Mismatches: 24, Indels: 19
0.88 0.07 0.05
Matches are distributed among these distances:
72 43 0.14
73 125 0.41
74 8 0.03
75 60 0.20
76 71 0.23
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTGAAAATACCTCAG
CGTGCCCT
Found at i:91993229 original size:149 final size:148
Alignment explanation
Indices: 91992814--91993245 Score: 581
Period size: 149 Copynumber: 2.9 Consensus size: 148
91992804 AAAACAGATT
* * *
91992814 TTGAAAATACCTCGGCATGTAACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA
1 TTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCG-AATATGAGTTGATTTTTGA
* * *
91992879 AAAGCA-TAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
63 AAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
91992943 A---TTTTTGACAAACAAAAA
128 ATTTTTTTTGACAAACAAAAA
* * * * *
91992961 TTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCAGAATGTAAGTTTATTTTTTTGA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC-GAATATGAGTTGA--TTTTTGA
91993026 AAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
63 AAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
91993091 ATTTTTTTTTA-AAATCAGAAA
128 ATTTTTTTTGACAAA-CAAAAA
*
91993112 TTGAAAATACCTCAGCGTG-CCTTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
1 TTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCG-AATATGAGTTGATTTTTGA-
* *
91993176 AAA-CAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
63 AAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
91993240 ATTTTT
128 ATTTTT
91993246 GAAAACATCA
Statistics
Matches: 253, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
145 29 0.11
146 1 0.00
147 29 0.11
148 57 0.23
149 72 0.28
150 9 0.04
151 56 0.22
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (148 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGAATATGAGTTGATTTTTGAAAA
CCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTTGACAAACAAAAA
Found at i:91997518 original size:93 final size:93
Alignment explanation
Indices: 91997359--91997529 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
91997349 CCCATAAGTA
*
91997359 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
91997424 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * *
91997452 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
91997517 GAGTTCGGATGCC
66 GAGCTCGGATGCC
91997530 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:91997525 original size:46 final size:46
Alignment explanation
Indices: 91997350--91997525 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
91997340 TGTAACCCGC
* *
91997350 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
91997396 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
91997442 ACATCTCTCGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
91997489 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
91997526 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 67 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:91997544 original size:46 final size:46
Alignment explanation
Indices: 91997359--91997544 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 46
91997349 CCCATAAGTA
* * * * *
91997359 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGTG
* * *
91997405 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGTG
* * * * *
91997452 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGTG
* *
91997498 AACTCGGACTCAACTTAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
91997544 A
1 A
91997545 CATGTCACTT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
44 12 0.11
45 2 0.02
46 60 0.56
47 30 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
Found at i:92008045 original size:161 final size:168
Alignment explanation
Indices: 92007875--92008213 Score: 530
Period size: 178 Copynumber: 2.0 Consensus size: 168
92007865 TATGACAAGT
*
92007875 TTTACATTTGTTCAATTTGGTCCTAA-T-G-T-AG-CAA-AA-TTAACTTTACAATTTTGTCCTT
1 TTTACATTTGTTCAATTTGGTCCTAAGTAGATAAGACAACAAGTTAACTTTACAATTTAGTCCTT
92007933 TTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAA
66 TTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAA
92007998 CTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
131 CTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
92008036 TTTACATTTGTTCAATTTGGTCCTAATGTAGCAAAATTAAGAAACAAGCTAAGTTAACTTTACAA
1 TTTACATTTGTTCAATTTGGTCCTAA-GTAG----A-TAAG--ACAA-C-AAGTTAACTTTACAA
92008101 TTTAGTCCTTTTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTA
56 TTTAGTCCTTTTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTA
92008166 ACAATGACAACTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
121 ACAATGACAACTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
92008214 AGCTAGCTAA
Statistics
Matches: 160, Mismatches: 1, Indels: 17
0.90 0.01 0.10
Matches are distributed among these distances:
161 26 0.16
163 1 0.01
164 1 0.01
170 1 0.01
171 2 0.01
174 3 0.02
177 2 0.01
178 124 0.77
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (168 bp):
TTTACATTTGTTCAATTTGGTCCTAAGTAGATAAGACAACAAGTTAACTTTACAATTTAGTCCTT
TTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAA
CTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
Found at i:92014428 original size:6 final size:6
Alignment explanation
Indices: 92014404--92014440 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
92014394 GAGATTTGGA
*
92014404 GTTT-T GTTAAT GTTT-T GTTTAT GTTTAT GTTTAT GTT
1 GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTT
92014441 CTTCAGGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (6 bp):
GTTTAT
Found at i:92014436 original size:12 final size:11
Alignment explanation
Indices: 92014404--92014440 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
92014394 GAGATTTGGA
*
92014404 GTTTTGTTAAT
1 GTTTTGTTTAT
92014415 GTTTTGTTTAT
1 GTTTTGTTTAT
92014426 GTTTATGTTTAT
1 GTTT-TGTTTAT
92014438 GTT
1 GTT
92014441 CTTCAGGACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (11 bp):
GTTTTGTTTAT
Found at i:92022527 original size:17 final size:18
Alignment explanation
Indices: 92022505--92022538 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92022495 AGTTGAATTG
92022505 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
92022522 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
92022539 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:92023280 original size:10 final size:10
Alignment explanation
Indices: 92023261--92023330 Score: 74
Period size: 10 Copynumber: 7.0 Consensus size: 10
92023251 TTAAATTCTA
92023261 AAAGATAAAT
1 AAAGATAAAT
92023271 ACAA-ATAAAT
1 A-AAGATAAAT
*
92023281 ACAA-ATAATT
1 A-AAGATAAAT
*
92023291 AAAGATAATT
1 AAAGATAAAT
92023301 AAAGATAAAT
1 AAAGATAAAT
92023311 AAAGATAAAT
1 AAAGATAAAT
92023321 GAAA-ATAAAT
1 -AAAGATAAAT
92023331 CCTAAATTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:92023363 original size:13 final size:13
Alignment explanation
Indices: 92023347--92023371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92023337 TTTAAATCTA
92023347 AATAATTATCCTT
1 AATAATTATCCTT
92023360 AATAATTATCCT
1 AATAATTATCCT
92023372 ATTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:92024146 original size:96 final size:97
Alignment explanation
Indices: 92023967--92024152 Score: 313
Period size: 96 Copynumber: 1.9 Consensus size: 97
92023957 ATTTTATTTA
* *
92023967 TTTATTTTTACTTAGGAATATATTGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCCCA
1 TTTATTTTTACTTAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCCCA
92024032 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
92024064 TTTATTTTT-CTTAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCA-CCTC
1 TTTATTTTTACTTAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCC-C
92024127 ACCCCGGTTACTCAGCCCAACACATT
65 ACCCCGGTTACTCAGCCCAACACATT
92024153 TTTAAAAATT
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
95 2 0.02
96 73 0.87
97 9 0.11
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCCCA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Found at i:92024905 original size:9 final size:9
Alignment explanation
Indices: 92024891--92024959 Score: 68
Period size: 9 Copynumber: 7.4 Consensus size: 9
92024881 ATCAACATCC
92024891 AAAATAAAA
1 AAAATAAAA
92024900 AAAAT-AAA
1 AAAATAAAA
92024908 AAAATAAAAA
1 AAAAT-AAAA
*
92024918 GTAAAATAAAT
1 --AAAATAAAA
*
92024929 AAAATAAAT
1 AAAATAAAA
92024938 AAAATAAAA
1 AAAATAAAA
**
92024947 TTAATAAAA
1 AAAATAAAA
92024956 AAAA
1 AAAA
92024960 ATTGAGTTGC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
8 8 0.16
9 31 0.62
10 3 0.06
11 3 0.06
12 5 0.10
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:92024908 original size:5 final size:5
Alignment explanation
Indices: 92024891--92024961 Score: 64
Period size: 5 Copynumber: 15.0 Consensus size: 5
92024881 ATCAACATCC
92024891 AAAAT AAAA- AAAAT -AAA- AAAAT AAAAAGT AAAAT -AAAT AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAA-T AAAAT AAAAT AAAAT AAAAT
* *
92024938 AAAAT AAAAT -TAAT AAAAA AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
92024962 TGAGTTGCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
4 21 0.39
5 24 0.44
6 8 0.15
7 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:92024916 original size:14 final size:14
Alignment explanation
Indices: 92024899--92024961 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
92024889 CCAAAATAAA
92024899 AAAAATAAAAAAAT
1 AAAAATAAAAAAAT
92024913 AAAAAGTAAAATAAAT
1 AAAAA-TAAAA-AAAT
92024929 -AAAATAAATAAAAT
1 AAAAATAAA-AAAAT
* *
92024943 AAAATTAATAAAA-
1 AAAAATAAAAAAAT
92024956 AAAAAT
1 AAAAAT
92024962 TGAGTTGCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
13 5 0.12
14 17 0.40
15 16 0.38
16 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAATAAAAAAAT
Found at i:92028591 original size:10 final size:10
Alignment explanation
Indices: 92028564--92028623 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
92028554 TTAAATTCTA
92028564 AAAGATAAAT
1 AAAGATAAAT
92028574 ACAA-ATAAAT
1 A-AAGATAAAT
*
92028584 AAAGATAATT
1 AAAGATAAAT
*
92028594 AAAGACAAAT
1 AAAGATAAAT
92028604 AAAGATAAAT
1 AAAGATAAAT
92028614 GAAA-ATAAAT
1 -AAAGATAAAT
92028624 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:92029490 original size:123 final size:123
Alignment explanation
Indices: 92029271--92029521 Score: 405
Period size: 123 Copynumber: 2.0 Consensus size: 123
92029261 GTCGGGACTA
* ** * *
92029271 AAAACACGAACTCTGAATTGAATCTCTAGAGGAAAAGTCTATGGCCATGGTGCTCTTTCAAAGGG
1 AAAACACGAACTCTGAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
* *
92029336 CACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAGGATGATGATAGG
66 AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
* *
92029394 AAAACACGAACTCT-AATTTGAATCTTTGGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGG
1 AAAACACGAACTCTGAA-TTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGG
92029458 GAACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
65 GAACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
92029517 AAAAC
1 AAAAC
92029522 CTCACACAAT
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
122 2 0.02
123 116 0.98
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (123 bp):
AAAACACGAACTCTGAATTGAATCTCTAGAGGAAAAGCCTATGGCCATGGCACCCTGTCAAAGGG
AACTAAAAGATGGTGATTACCCAATAGGGTTCTCTGCGTGTCCCAAGATGATGATAGG
Found at i:92037948 original size:110 final size:111
Alignment explanation
Indices: 92037787--92037996 Score: 334
Period size: 110 Copynumber: 1.9 Consensus size: 111
92037777 ATATATAAAA
* * *
92037787 GGAAGGTCCAGGTTTACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGATTT
1 GGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGATTT
*
92037852 ATTTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTTAAT
66 AATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTTAAT
* * *
92037898 GGAAGCTCCAGCTTAACTCTTAGA-TTTTAAATTACATT-AATTATACAATTAATTATAGCGATT
1 GGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGA-ACAATTAATTATAACGATT
92037961 TAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
65 TAATTAGAGAAATGGAAGAGTTTGAGATGGTACACC
92037997 CATCTTAATT
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
109 4 0.04
110 67 0.74
111 20 0.22
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (111 bp):
GGAAGCTCCAGCTTAACTCATAGATTTTTAAATTACATTAAATGAACAATTAATTATAACGATTT
AATTAGAGAAATGGAAGAGTTTGAGATGGTACACCTATATCTTAAT
Found at i:92041744 original size:14 final size:14
Alignment explanation
Indices: 92041725--92041769 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
92041715 AACTCATCTT
*
92041725 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
92041739 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
92041752 AATTTAATTTAATG
1 AGTTTAATTTAATG
92041766 AGTT
1 AGTT
92041770 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:92042925 original size:5 final size:5
Alignment explanation
Indices: 92042915--92042939 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92042905 AGGATTCAAC
92042915 ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT
92042940 TACTAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:92044634 original size:43 final size:43
Alignment explanation
Indices: 92044578--92044671 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
92044568 AAATTTGTGA
* * * *
92044578 CGTTTATTTAAAAAACGCCACTAAAAGCCATGACTTTTAGCGG
1 CGTTTGTTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAG
* * * *
92044621 CGTTTGTTAAAAAAGCACCACTAAAAGTCATGGCTTTTAGTAG
1 CGTTTGTTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAG
92044664 CGTTTGTT
1 CGTTTGTT
92044672 GGGATGGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (43 bp):
CGTTTGTTAAAAAAACACCACTAAAAGCCATGACTTTTAGCAG
Found at i:92044799 original size:31 final size:31
Alignment explanation
Indices: 92044764--92044846 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
92044754 CTTCCTGCAT
* *
92044764 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
92044795 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
92044826 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
92044847 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:92045091 original size:21 final size:21
Alignment explanation
Indices: 92045067--92045128 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
92045057 TTTTGCTCTA
92045067 CTCTG-CTGCCATCGCTGCTGC
1 CTCTGCCT-CCATCGCTGCTGC
* *
92045088 CTCTGCCTCCCTCGCTGCTGT
1 CTCTGCCTCCATCGCTGCTGC
* * *
92045109 CGCTACCTCCTTCGCTGCTG
1 CTCTGCCTCCATCGCTGCTG
92045129 TCGCTGCCAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.03, C:0.45, G:0.21, T:0.31
Consensus pattern (21 bp):
CTCTGCCTCCATCGCTGCTGC
Found at i:92045129 original size:21 final size:21
Alignment explanation
Indices: 92045078--92045133 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
92045068 TCTGCTGCCA
* * *
92045078 TCGCTGCTGCCTCTGCCTCCC
1 TCGCTGCTGTCGCTACCTCCC
*
92045099 TCGCTGCTGTCGCTACCTCCT
1 TCGCTGCTGTCGCTACCTCCC
92045120 TCGCTGCTGTCGCT
1 TCGCTGCTGTCGCT
92045134 GCCACTGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.02, C:0.45, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCTGCTGTCGCTACCTCCC
Found at i:92045144 original size:27 final size:27
Alignment explanation
Indices: 92045083--92045154 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 27
92045073 TGCCATCGCT
*
92045083 GCTGCCTCTGCCTCCCTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
92045110 GCT---A---CCTCCTTCGCTGCTGTC
1 GCTGCCACTGCCTCCCTCGCTGCTGTC
*
92045131 GCTGCCACTGCCTCCCTCTCTGCT
1 GCTGCCACTGCCTCCCTCGCTGCT
92045155 TCATCGGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
21 19 0.54
24 1 0.03
27 15 0.43
ACGTcount: A:0.03, C:0.47, G:0.19, T:0.31
Consensus pattern (27 bp):
GCTGCCACTGCCTCCCTCGCTGCTGTC
Found at i:92050803 original size:9 final size:9
Alignment explanation
Indices: 92050789--92051040 Score: 228
Period size: 9 Copynumber: 28.4 Consensus size: 9
92050779 TATTTAAGTA
*
92050789 TTATGTAAG
1 TTATATAAG
*
92050798 TTATGTAAG
1 TTATATAAG
*
92050807 TTATGATATG
1 TTAT-ATAAG
* *
92050817 ATATAT-AT
1 TTATATAAG
*
92050825 TTATGTAAG
1 TTATATAAG
*
92050834 TTATAT-AT
1 TTATATAAG
*
92050842 TTATCTAAG
1 TTATATAAG
92050851 TTATATAAG
1 TTATATAAG
*
92050860 TTATGTAAG
1 TTATATAAG
*
92050869 TTATGTAAG
1 TTATATAAG
*
92050878 TTATAT-AT
1 TTATATAAG
92050886 TTATCA-AAG
1 TTAT-ATAAG
*
92050895 TTATATCAG
1 TTATATAAG
92050904 TTATATAAG
1 TTATATAAG
*
92050913 TTATGTAAG
1 TTATATAAG
92050922 TTATATAAG
1 TTATATAAG
92050931 TTATATAAG
1 TTATATAAG
*
92050940 TTATAT-AC
1 TTATATAAG
*
92050948 TTATCTAAG
1 TTATATAAG
92050957 TTATATAAG
1 TTATATAAG
*
92050966 TTATGTAAG
1 TTATATAAG
* *
92050975 TTATGTTAG
1 TTATATAAG
*
92050984 TTATAT-AT
1 TTATATAAG
*
92050992 TTATCTAAG
1 TTATATAAG
*
92051001 TTATCTAAG
1 TTATATAAG
92051010 TTATATAAG
1 TTATATAAG
*
92051019 TTATGTAAG
1 TTATATAAG
* *
92051028 TTTTGTAAG
1 TTATATAAG
92051037 TTAT
1 TTAT
92051041 GTTAAATATT
Statistics
Matches: 200, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
8 28 0.14
9 166 0.83
10 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATATAAG
Found at i:92050860 original size:53 final size:52
Alignment explanation
Indices: 92050789--92051040 Score: 281
Period size: 53 Copynumber: 4.8 Consensus size: 52
92050779 TATTTAAGTA
* * * * * * *
92050789 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATAT
1 TTATCTAAGTTATATAAGTTATG-TAAGTTATATAAGTTATAT-AGTTATATAG
* * *
92050842 TTATCTAAGTTATATAAGTTATGTAAGTTATGTAAGTTATATATTTATCAAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTAT-ATAG
* * *
92050895 TTATATCAGTTATATAAGTTATGTAAGTTATATAAGTTATATAAGTTATATAC
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATAT-AGTTATATAG
* * * *
92050948 TTATCTAAGTTATATAAGTTATGTAAGTTATGTTAGTTATATATTTATCTAAG
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTATAT-AG
* *
92051001 TTATCTAAGTTATATAAGTTATGTAAGTTTTGTAAGTTAT
1 TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTAT
92051041 GTTAAATATT
Statistics
Matches: 170, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 18 0.11
53 147 0.86
54 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (52 bp):
TTATCTAAGTTATATAAGTTATGTAAGTTATATAAGTTATATAGTTATATAG
Found at i:92050873 original size:44 final size:44
Alignment explanation
Indices: 92050789--92051029 Score: 254
Period size: 44 Copynumber: 5.5 Consensus size: 44
92050779 TATTTAAGTA
* * * * *
92050789 TTATGTAAGTTATGTAAGTTATGATA-TGATATATATTTATGTAAG
1 TTATATAAGTTATCTAAGTTAT-ATAGTTATCTA-AGTTATGTAAG
* *
92050834 TTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAG
1 TTATATAAGTTATCTAAGTTATAT-AGTTATCTAAGTTATGTAAG
* * *
92050878 TTATAT-ATTTATCAAAGTTATATCAGTTATATAAGTTATGTAAG
1 TTATATAAGTTATCTAAGTTATAT-AGTTATCTAAGTTATGTAAG
* * *
92050922 TTATATAAGTTATATAAGTTATATACTTATCTAAGTTATATAAG
1 TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
* * * * *
92050966 TTATGTAAGTTATGTTAGTTATATATTTATCTAAGTTATCTAAG
1 TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
*
92051010 TTATATAAGTTATGTAAGTT
1 TTATATAAGTTATCTAAGTT
92051030 TTGTAAGTTA
Statistics
Matches: 171, Mismatches: 22, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
43 2 0.01
44 145 0.85
45 24 0.14
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (44 bp):
TTATATAAGTTATCTAAGTTATATAGTTATCTAAGTTATGTAAG
Found at i:92051173 original size:15 final size:15
Alignment explanation
Indices: 92051153--92051237 Score: 90
Period size: 15 Copynumber: 5.8 Consensus size: 15
92051143 TAAGTTGCGG
92051153 ATTAAATAATATTTA
1 ATTAAATAATATTTA
92051168 ATTAAATAATATTT-
1 ATTAAATAATATTTA
92051182 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
92051197 ATTAAATAATATTGA
1 ATTAAATAATATTTA
*
92051212 A--AAATATTATTTTA
1 ATTAAATAATA-TTTA
92051226 ATTAAATAATAT
1 ATTAAATAATAT
92051238 ACATGTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.03
13 13 0.22
14 8 0.14
15 20 0.34
16 13 0.22
17 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:92051201 original size:29 final size:29
Alignment explanation
Indices: 92051156--92051237 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
92051146 GTTGCGGATT
* *
92051156 AAATAATA-TTTAATTAAATAATATTTATA
1 AAATATTATTTTAATTAAATAATATTGA-A
92051185 AAA-ATTATTTTAATTAAATAATATTGAA
1 AAATATTATTTTAATTAAATAATATTGAA
92051213 AAATATTATTTTAATTAAATAATAT
1 AAATATTATTTTAATTAAATAATAT
92051238 ACATGTCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.14
29 42 0.86
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
AAATATTATTTTAATTAAATAATATTGAA
Found at i:92051443 original size:24 final size:24
Alignment explanation
Indices: 92051411--92051481 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
92051401 TTAACTTAGA
92051411 TGATAAAACGGACGATAATATTTG
1 TGATAAAACGGACGATAATATTTG
*
92051435 TGATAAAACGGACAATAATATTTG
1 TGATAAAACGGACGATAATATTTG
* *
92051459 TGATAGAACGGACGAGAATATTT
1 TGATAAAACGGACGATAATATTT
92051482 CAATAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACGATAATATTTG
Found at i:92051600 original size:57 final size:57
Alignment explanation
Indices: 92051531--92051644 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
92051521 ATTTTATTAA
*
92051531 ATATTTGTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAAATCGT
1 ATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
92051588 ATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
1 ATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
92051645 GATAGAAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.41
Consensus pattern (57 bp):
ATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGT
Found at i:92053857 original size:18 final size:18
Alignment explanation
Indices: 92053813--92053860 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
92053803 GCTATGGATT
*
92053813 TTGGGGAAATTTTAGGGA
1 TTGGGGAAATTTTAGGAA
*
92053831 TT-AGGAAATTTGT-GGAA
1 TTGGGGAAATTT-TAGGAA
92053848 TTGGGGAAATTTT
1 TTGGGGAAATTTT
92053861 GTTTTGGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (18 bp):
TTGGGGAAATTTTAGGAA
Found at i:92055552 original size:41 final size:41
Alignment explanation
Indices: 92055495--92055667 Score: 201
Period size: 41 Copynumber: 4.2 Consensus size: 41
92055485 GTGGCGTTTG
92055495 GTGGCGTTTGGACTAAAAACGCCGCTACTT-CTCAGTTTTTA
1 GTGGCGTTTGGACTAAAAACGCCGCTA-TTACTCAGTTTTTA
* *
92055536 GTGGCGTTTGGACTAAAAACGCCGCTATTTCTAAGTTTTTA
1 GTGGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTA
* * *
92055577 GCT-GCGTTTGGACCAAAAATGCCGCTATTACTCA-ATTTTA
1 G-TGGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTA
* * *
92055617 GCGGCATTTGGAGC-AAAAACGCCACTATTACTCAGTTTTTTA
1 GTGGCGTTTGGA-CTAAAAACGCCGCTATTACTCAG-TTTTTA
*
92055659 GTAGCGTTT
1 GTGGCGTTT
92055668 TTGTGAAAAC
Statistics
Matches: 112, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
40 34 0.30
41 66 0.59
42 12 0.11
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
GTGGCGTTTGGACTAAAAACGCCGCTATTACTCAGTTTTTA
Found at i:92055667 original size:82 final size:82
Alignment explanation
Indices: 92055498--92055656 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 82
92055488 GCGTTTGGTG
* * * * *
92055498 GCGTTTGGACTAAAAACGCCGCTACTTCTCAGTTTTTAGTGGCGTTTGGACTAAAAACGCCGCTA
1 GCGTTTGGACCAAAAACGCCGCTACTTCTCAGATTTTAGCGGCATTTGGACTAAAAACGCCACTA
*
92055563 TTTCTAAGTTTTTAGCT
66 TTACTAAGTTTTTAGCT
*
92055580 GCGTTTGGACCAAAAATGCCGCTA-TTACTCA-ATTTTAGCGGCATTTGGAGC-AAAAACGCCAC
1 GCGTTTGGACCAAAAACGCCGCTACTT-CTCAGATTTTAGCGGCATTTGGA-CTAAAAACGCCAC
*
92055642 TATTACTCAGTTTTT
64 TATTACTAAGTTTTT
92055657 TAGTAGCGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 40 0.60
82 27 0.40
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (82 bp):
GCGTTTGGACCAAAAACGCCGCTACTTCTCAGATTTTAGCGGCATTTGGACTAAAAACGCCACTA
TTACTAAGTTTTTAGCT
Found at i:92061663 original size:21 final size:20
Alignment explanation
Indices: 92061639--92061683 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
92061629 TATAACATAA
* * *
92061639 AACAAAATATATAAATAAAG
1 AACAAAAGATAGAAACAAAG
92061659 CAACAAAAGATAGAAACAAAG
1 -AACAAAAGATAGAAACAAAG
92061680 AACA
1 AACA
92061684 GAGGAAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.69, C:0.11, G:0.09, T:0.11
Consensus pattern (20 bp):
AACAAAAGATAGAAACAAAG
Found at i:92061707 original size:16 final size:16
Alignment explanation
Indices: 92061676--92061713 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
92061666 AGATAGAAAC
92061676 AAAG-AACAGAGGAAG
1 AAAGAAACAGAGGAAG
92061691 AAACGAAACAG-GGAAG
1 AAA-GAAACAGAGGAAG
92061707 AAAGAAA
1 AAAGAAA
92061714 AGAAAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 9 0.43
17 5 0.24
ACGTcount: A:0.63, C:0.08, G:0.29, T:0.00
Consensus pattern (16 bp):
AAAGAAACAGAGGAAG
Found at i:92064588 original size:46 final size:46
Alignment explanation
Indices: 92064521--92064783 Score: 393
Period size: 46 Copynumber: 5.7 Consensus size: 46
92064511 TGGCAACCTG
92064521 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
92064567 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
92064613 TGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* *
92064659 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
* ** * *
92064705 AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAA
* * * *
92064751 TGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
92064784 TCACGTCAAA
Statistics
Matches: 201, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 200 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
Found at i:92064715 original size:138 final size:130
Alignment explanation
Indices: 92064472--92064783 Score: 428
Period size: 138 Copynumber: 2.3 Consensus size: 130
92064462 AGTGTGCTCT
92064472 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
* * **
92064537 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
92064602 CTGATATGAAATGTGTAAGAACATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-----T--G-TGTGTAAG
*
92064667 ACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
58 ACCATGGTTGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACC
92064732 ATGGCAAC
123 ATGGCAAC
* * * * * *
92064740 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92064784 TCACGTCAAA
Statistics
Matches: 160, Mismatches: 13, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
130 46 0.29
135 1 0.01
137 2 0.01
138 111 0.69
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92065089 original size:23 final size:25
Alignment explanation
Indices: 92065044--92065090 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
92065034 AATAAATATA
*
92065044 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
92065069 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
92065091 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:92067687 original size:11 final size:11
Alignment explanation
Indices: 92067658--92067698 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
92067648 TTCTAATACG
92067658 TATATATA-T-
1 TATATATATTA
*
92067667 TATATGTATTA
1 TATATATATTA
92067678 TATATATATTA
1 TATATATATTA
*
92067689 TGTATATATT
1 TATATATATT
92067699 TTTTAATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 7 0.26
10 1 0.04
11 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:92067712 original size:24 final size:23
Alignment explanation
Indices: 92067685--92067770 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 23
92067675 TTATATATAT
92067685 ATTATGTATATATTTTTTAATACC
1 ATTATGTATATATTTTTT-ATACC
* *
92067709 ATTA-GTTATATATTTCTTATACT
1 ATTATG-TATATATTTTTTATACC
* * *
92067732 ATTCCATGTATGTATTTTATATCATC
1 ATT--ATGTATATATTTTTTAT-ACC
92067758 -TTATGTATATATT
1 ATTATGTATATATT
92067771 CTTAAATACT
Statistics
Matches: 49, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 18 0.37
24 15 0.31
25 14 0.29
26 2 0.04
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTATGTATATATTTTTTATACC
Found at i:92068072 original size:13 final size:13
Alignment explanation
Indices: 92068056--92068080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92068046 ATTTTATGTA
92068056 TATATTATTATTT
1 TATATTATTATTT
92068069 TATATTATTATT
1 TATATTATTATT
92068081 ACCAAATATA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTATTATTT
Found at i:92068081 original size:19 final size:19
Alignment explanation
Indices: 92067990--92068071 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 19
92067980 TAATATTTTC
*
92067990 TTTTATTGTAGATATTATTA
1 TTTTA-TGTATATATTATTA
*
92068010 --TTAT-TACATACTT-TTA
1 TTTTATGTATATA-TTATTA
* *
92068026 TTATATGCATATATATATGTA
1 TTTTATGTATATAT-TAT-TA
92068047 TTTTATGTATATATTATTA
1 TTTTATGTATATATTATTA
92068066 TTTTAT
1 TTTTAT
92068072 ATTATTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
16 8 0.16
17 3 0.06
18 7 0.14
19 13 0.27
20 4 0.08
21 14 0.29
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (19 bp):
TTTTATGTATATATTATTA
Found at i:92071050 original size:12 final size:12
Alignment explanation
Indices: 92071033--92071063 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
92071023 TACCAGTTGA
92071033 AGATCGACATCC
1 AGATCGACATCC
92071045 AGATCGACATCC
1 AGATCGACATCC
92071057 AGATCGA
1 AGATCGA
92071064 AAAGTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.16
Consensus pattern (12 bp):
AGATCGACATCC
Found at i:92087561 original size:11 final size:11
Alignment explanation
Indices: 92087545--92087569 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
92087535 TTCAGCTGAT
92087545 GAAAATGAAGA
1 GAAAATGAAGA
92087556 GAAAATGAAGA
1 GAAAATGAAGA
92087567 GAA
1 GAA
92087570 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:92090547 original size:12 final size:12
Alignment explanation
Indices: 92090530--92090555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
92090520 ATAACAAAAC
92090530 ATAAATAAAAGA
1 ATAAATAAAAGA
92090542 ATAAATAAAAGA
1 ATAAATAAAAGA
92090554 AT
1 AT
92090556 TTAGGTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
ATAAATAAAAGA
Found at i:92093504 original size:10 final size:11
Alignment explanation
Indices: 92093483--92093517 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
92093473 TACTTTTAAA
92093483 TTTTTAGTTTT
1 TTTTTAGTTTT
92093494 TTTTTAGTTTT
1 TTTTTAGTTTT
92093505 TATTTTAGCTTTT
1 T-TTTTAG-TTTT
92093518 CTTATGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 12 0.55
12 6 0.27
13 4 0.18
ACGTcount: A:0.11, C:0.03, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTTTAGTTTT
Found at i:92109909 original size:14 final size:14
Alignment explanation
Indices: 92109890--92109919 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
92109880 AGAATTTTAA
92109890 AATTAAAAAAATAT
1 AATTAAAAAAATAT
92109904 AATTAAAAAAATAT
1 AATTAAAAAAATAT
92109918 AA
1 AA
92109920 AGATTAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AATTAAAAAAATAT
Found at i:92112677 original size:15 final size:15
Alignment explanation
Indices: 92112650--92112688 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
92112640 GAAAAAATAT
*
92112650 TAATAAGAATAATTA
1 TAATAAAAATAATTA
* *
92112665 TAGTAAAAATAATTT
1 TAATAAAAATAATTA
92112680 TAATAAAAA
1 TAATAAAAA
92112689 GAATAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAAAAATAATTA
Found at i:92114263 original size:44 final size:45
Alignment explanation
Indices: 92114214--92114460 Score: 143
Period size: 44 Copynumber: 5.6 Consensus size: 45
92114204 CAATTATTAG
*
92114214 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTATCTTGAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTAGTATCTTGAA
* * * * * ** *
92114258 CCTGCTCCACTACAACTTTAGGGAGACAAG-GTTGGTGGCTTAAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTAGTATCTTGAA
* * * * * *
92114302 TCTGCTCCATTGCCGA-TACATGGAGATAA-AATTCA-TCATCTTCG-A
1 TCTGCTCCACT-ACAACTTCAGGGAGATAAGACTT-AGT-ATCTT-GAA
** ** * * *
92114347 TCTGCTCCACTACTGCTT-AGGGAGATAAGA-TATACAATTTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACT-TAGTATCTTGAA
* *
92114391 TTTGCTCCACTACAACTTCAAGGAGATAAGACTT-GTATCTTGAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTAGTATCTTGAA
* * *
92114435 CCTGCTCCACTGCAACTTTAGGGAGA
1 TCTGCTCCACTACAACTTCAGGGAGA
92114461 CAAGGTTGGT
Statistics
Matches: 145, Mismatches: 45, Indels: 26
0.67 0.21 0.12
Matches are distributed among these distances:
43 2 0.01
44 111 0.77
45 31 0.21
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGACTTAGTATCTTGAA
Found at i:92114382 original size:177 final size:177
Alignment explanation
Indices: 92114083--92114741 Score: 978
Period size: 177 Copynumber: 3.7 Consensus size: 177
92114073 ATCTTCATTT
* * * * * * * *
92114083 TGCTCCATTGCAACTTCAGGGAAATAAGACTT-GTGGCTTAAATCTGTTTCATTGCCGCTACATG
1 TGCTCCACTGCAACTTTAGGGAGACAAG-GTTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
* * * * *
92114147 GAGATAAGATTCGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATATACAATTATT
65 AAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTT
*
92114212 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGAACC
130 AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
* *
92114260 TGCTCCACTACAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGG
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* * * *
92114325 AGATAAAATTCATCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
* *
92114390 GTTTGCTCCACTACAACTTCAAGGAGATAAGACTTGTATCTTGAACC
131 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
**
92114437 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGTTGATACATGA
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* *
92114502 AGATAAGATTCACCGTCTTCGATCTACTCCACTATTGCTTAGGGAGATAAGATATGCAATTTTTA
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
*
92114567 GTCTGCTCCACTGCAATTTCAAGGAGATAAGACTTGTATCTTGAACC
131 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
* * * *
92114614 TGCTCCACTGCAACTTCAGGGAGACAAGGCTGATGGCTTAAATCTGCTCCATTACCGATACATGA
1 TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
* * ** *
92114679 AGATAAGATTCACCGTTTTCGATCTGCTCCACTACTATTTAGGGAGATAAGATCTACAATTTT
66 AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTT
92114742 CTTCAATCCA
Statistics
Matches: 435, Mismatches: 46, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
176 2 0.00
177 433 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (177 bp):
TGCTCCACTGCAACTTTAGGGAGACAAGGTTGGTGGCTTAAATCTGCTCCATTGCCGATACATGA
AGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATATACAATTTTTA
GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTATCTTGAACC
Found at i:92114661 original size:44 final size:44
Alignment explanation
Indices: 92114568--92114664 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 44
92114558 CAATTTTTAG
* * *
92114568 TCTGCTCCACTGCAATTTCAAGGAGATAAGACTTGTATCTTGAA
1 TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTATCTTAAA
* * *
92114612 CCTGCTCCACTGCAACTTCAGGGAGACAAGGC-TG-ATGGCTTAAA
1 TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTAT--CTTAAA
92114656 TCTGCTCCA
1 TCTGCTCCA
92114665 TTACCGATAC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 2 0.05
43 2 0.05
44 40 0.91
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAAGGAGACAAGACTTGTATCTTAAA
Found at i:92126834 original size:3 final size:3
Alignment explanation
Indices: 92126828--92126897 Score: 90
Period size: 3 Copynumber: 23.0 Consensus size: 3
92126818 GGAAATAGAA
*
92126828 AAT AAT AAT AAT AAT AGATT AAT -AT GGAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-A-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT
92126875 AAT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
92126898 GGGGAAAAGG
Statistics
Matches: 61, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
2 4 0.07
3 51 0.84
4 4 0.07
5 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92126945 original size:15 final size:15
Alignment explanation
Indices: 92126918--92126956 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
92126908 GGAAAAATAT
*
92126918 TAATAAGAATAATTA
1 TAATAAAAATAATTA
* *
92126933 TAGTAAAAATAATTT
1 TAATAAAAATAATTA
92126948 TAATAAAAA
1 TAATAAAAA
92126957 GAATAATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
TAATAAAAATAATTA
Found at i:92127042 original size:28 final size:25
Alignment explanation
Indices: 92126972--92127036 Score: 103
Period size: 25 Copynumber: 2.5 Consensus size: 25
92126962 ATAAAAGTAA
92126972 AAAAAAATGAATGTAATAGTAACAT
1 AAAAAAATGAATGTAATAGTAACAT
92126997 AAAAAAATGAATGTAATAGTAACAT
1 AAAAAAATGAATGTAATAGTAACAT
92127022 ATAATAATAATGAAT
1 A-AA-AA-AATGAAT
92127037 ACAATAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
25 26 0.70
26 2 0.05
27 2 0.05
28 7 0.19
ACGTcount: A:0.60, C:0.03, G:0.11, T:0.26
Consensus pattern (25 bp):
AAAAAAATGAATGTAATAGTAACAT
Found at i:92129184 original size:18 final size:18
Alignment explanation
Indices: 92129163--92129202 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
92129153 TAAAAAATTT
*
92129163 TATTTTAATTT-TTAAAAA
1 TATTTAAATTTATT-AAAA
92129181 TATTTAAATTTATTAAAA
1 TATTTAAATTTATTAAAA
92129199 TATT
1 TATT
92129203 AATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTTAAATTTATTAAAA
Found at i:92129405 original size:15 final size:15
Alignment explanation
Indices: 92129387--92129475 Score: 70
Period size: 15 Copynumber: 5.4 Consensus size: 15
92129377 TATCAATATT
92129387 AATATTTTAATAATA
1 AATATTTTAATAATA
*
92129402 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
92129421 AATATATTAATAATA
1 AATATTTTAATAATA
*
92129436 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
92129455 AATATATTAATAATA
1 AATATTTTAATAATA
92129470 AATATT
1 AATATT
92129476 CTGTAGTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
15 25 0.43
16 3 0.05
17 8 0.14
18 2 0.03
19 20 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:92129421 original size:19 final size:19
Alignment explanation
Indices: 92129399--92129459 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
92129389 TATTTTAATA
92129399 ATAAATATTTATTAAAATT
1 ATAAATATTTATTAAAATT
*
92129418 ATAAATA--TATT--AATA
1 ATAAATATTTATTAAAATT
92129433 ATAAATATTTATTAAAATT
1 ATAAATATTTATTAAAATT
92129452 ATAAATAT
1 ATAAATAT
92129460 ATTAATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 10 0.28
17 8 0.22
19 18 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAATATTTATTAAAATT
Found at i:92129431 original size:34 final size:34
Alignment explanation
Indices: 92129387--92129475 Score: 169
Period size: 34 Copynumber: 2.6 Consensus size: 34
92129377 TATCAATATT
*
92129387 AATATTTTAATAATAAATATTTATTAAAATTATA
1 AATATATTAATAATAAATATTTATTAAAATTATA
92129421 AATATATTAATAATAAATATTTATTAAAATTATA
1 AATATATTAATAATAAATATTTATTAAAATTATA
92129455 AATATATTAATAATAAATATT
1 AATATATTAATAATAAATATT
92129476 CTGTAGTATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
AATATATTAATAATAAATATTTATTAAAATTATA
Found at i:92129970 original size:14 final size:14
Alignment explanation
Indices: 92129934--92129972 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
92129924 CCAGGAAAGT
92129934 AAGTCATTTTCCAG
1 AAGTCATTTTCCAG
* * *
92129948 AAATTATTTTTCAG
1 AAGTCATTTTCCAG
92129962 AAGTCATTTTC
1 AAGTCATTTTC
92129973 AGTGAAATAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (14 bp):
AAGTCATTTTCCAG
Found at i:92136049 original size:31 final size:31
Alignment explanation
Indices: 92135962--92136052 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
92135952 TGATCTACGT
*
92135962 AAATTA-A-ATTAAATAAAAATTTCATGTATA
1 AAATTACACATTAAATAAAAA-TTCATATATA
* * *
92135992 AAATTACACA--AAATTAAAATTTATATATG
1 AAATTACACATTAAATAAAAATTCATATATA
* *
92136021 ACATTACACATTAAATCAAAATTCATATATA
1 AAATTACACATTAAATAAAAATTCATATATA
92136052 A
1 A
92136053 TTTTAATATT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
29 16 0.33
30 14 0.29
31 18 0.37
32 1 0.02
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATTACACATTAAATAAAAATTCATATATA
Found at i:92136258 original size:31 final size:31
Alignment explanation
Indices: 92136223--92136304 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
92136213 TATTAAAATT
*
92136223 ATATATAAATTTTGATTTAATGTGTAATGTC
1 ATATATAAATTTTAATTTAATGTGTAATGTC
* *
92136254 ATATATAAATTTTAATTT--TGTGTAATTTT
1 ATATATAAATTTTAATTTAATGTGTAATGTC
* *
92136283 ATACATGAAATTTTTATTTAAT
1 ATATAT-AAATTTTAATTTAAT
92136305 TTAATTTACA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 14 0.33
30 11 0.26
31 17 0.40
32 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (31 bp):
ATATATAAATTTTAATTTAATGTGTAATGTC
Found at i:92136720 original size:20 final size:18
Alignment explanation
Indices: 92136695--92136731 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
92136685 CATTTTAAAA
92136695 TAAATATACATATATATAAC
1 TAAATATA-ATATA-ATAAC
92136715 TAAATATAATATAATAA
1 TAAATATAATATAATAA
92136732 TAATAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATATAATATAATAAC
Found at i:92136760 original size:23 final size:23
Alignment explanation
Indices: 92136692--92136745 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
92136682 AGACATTTTA
92136692 AAATA-AATATACATATATATAACT
1 AAATATAATATA-ATA-ATATAACT
*
92136716 AAATATAATATAATAATAATAACA
1 AAATATAATATAATAAT-ATAACT
92136740 AAATAT
1 AAATAT
92136746 TGATAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 2 0.07
24 19 0.70
25 6 0.22
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATATAATATAATAATATAACT
Found at i:92137263 original size:29 final size:28
Alignment explanation
Indices: 92137203--92137267 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 28
92137193 TTAAGGTCAA
*
92137203 TTTTTTTTTAAAAAAAATCACTTTCTTTTC
1 TTTTTTTTAAAAAAAAATCACTTTC--TTC
92137233 TTTTTTTTAAAAAAAAAGTCAGCTTTC-TC
1 TTTTTTTTAAAAAAAAA-TCA-CTTTCTTC
92137262 TTTTTT
1 TTTTTT
92137268 CTTTCCTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.25
30 16 0.50
31 3 0.09
32 5 0.16
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTTTTTTAAAAAAAAATCACTTTCTTC
Found at i:92137382 original size:11 final size:11
Alignment explanation
Indices: 92137362--92137396 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
92137352 AAAAGGTGTA
92137362 TTTTTT-TATT
1 TTTTTTGTATT
92137372 TTTTTTGTATT
1 TTTTTTGTATT
*
92137383 TTTTATGTATT
1 TTTTTTGTATT
92137394 TTT
1 TTT
92137397 AAAGAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTTTTGTATT
Found at i:92137395 original size:19 final size:19
Alignment explanation
Indices: 92137358--92137396 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
92137348 TTCAAAAAGG
*
92137358 TGTATTTTTTTATTTTTTT
1 TGTATTTTTTTATTATTTT
92137377 TGTA-TTTTTTATGTATTTT
1 TGTATTTTTTTAT-TATTTT
92137396 T
1 T
92137397 AAAGAACAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (19 bp):
TGTATTTTTTTATTATTTT
Found at i:92137878 original size:9 final size:10
Alignment explanation
Indices: 92137854--92137904 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 10
92137844 TTTTGGTGTT
92137854 TGGGTTTAAG
1 TGGGTTTAAG
*
92137864 TGGGTTTGA-
1 TGGGTTTAAG
92137873 TGGG-TTAAG
1 TGGGTTTAAG
*
92137882 -GGTTTTAA-
1 TGGGTTTAAG
92137890 TGGGTTTAAG
1 TGGGTTTAAG
92137900 TGGGT
1 TGGGT
92137905 CTGTTTGGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 5 0.15
9 15 0.45
10 13 0.39
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (10 bp):
TGGGTTTAAG
Found at i:92138003 original size:18 final size:18
Alignment explanation
Indices: 92137980--92138039 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
92137970 AAAAGTTATG
92137980 ATAATTATATATTTATAA
1 ATAATTATATATTTATAA
*
92137998 ATAATTATA-ATTTAATAG
1 ATAATTATATATTT-ATAA
* * *
92138016 GTGA-TATATATTTAAAA
1 ATAATTATATATTTATAA
92138033 ATAATTA
1 ATAATTA
92138040 GAAAATTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
ATAATTATATATTTATAA
Found at i:92138387 original size:27 final size:27
Alignment explanation
Indices: 92138336--92138388 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
92138326 CCTTAATTAC
*
92138336 TATAATTAAAAATAAAATATTTAAAAA
1 TATAATTAAAAATAAAATATGTAAAAA
* * *
92138363 TATAATTAAATATTAAATGTGTAAAA
1 TATAATTAAAAATAAAATATGTAAAA
92138389 TTACTTGCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
TATAATTAAAAATAAAATATGTAAAAA
Found at i:92139013 original size:18 final size:18
Alignment explanation
Indices: 92138978--92139016 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92138968 TTTAAGCAAT
*
92138978 AAATATTAATTATTTATA
1 AAATATTAATTATATATA
92138996 AAAT-TTAATTATAATATA
1 AAATATTAATTAT-ATATA
92139014 AAA
1 AAA
92139017 CTATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTAATTATATATA
Found at i:92140705 original size:16 final size:15
Alignment explanation
Indices: 92140679--92140708 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
92140669 CAACTCCGAA
92140679 CTCTTCTTTCTCTCT
1 CTCTTCTTTCTCTCT
92140694 CTCTTCCTTTCTCTC
1 CTCTT-CTTTCTCTC
92140709 CATTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
CTCTTCTTTCTCTCT
Found at i:92141644 original size:13 final size:13
Alignment explanation
Indices: 92141626--92141653 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92141616 GTTGCAACTA
92141626 GTGAATTGATATG
1 GTGAATTGATATG
92141639 GTGAATTGATATG
1 GTGAATTGATATG
92141652 GT
1 GT
92141654 TTTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (13 bp):
GTGAATTGATATG
Found at i:92145027 original size:23 final size:23
Alignment explanation
Indices: 92145000--92145050 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
92144990 AGGGTTGACG
92145000 TCACGCGATGAGGGGGTTCCTTA
1 TCACGCGATGAGGGGGTTCCTTA
*
92145023 TCACGCGGTGAGGGGGTTCCTTA
1 TCACGCGATGAGGGGGTTCCTTA
92145046 TCACG
1 TCACG
92145051 ACACAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.16, C:0.24, G:0.35, T:0.25
Consensus pattern (23 bp):
TCACGCGATGAGGGGGTTCCTTA
Found at i:92149159 original size:23 final size:24
Alignment explanation
Indices: 92149114--92149159 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
92149104 AAAGCTCGAT
* *
92149114 CATATTATATAAACAATCATTTAC
1 CATATTATATAAAAAACCATTTAC
*
92149138 CATA-TATATAAAAAACCCTTTA
1 CATATTATATAAAAAACCATTTA
92149160 ACAAATAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (24 bp):
CATATTATATAAAAAACCATTTAC
Found at i:92154788 original size:63 final size:63
Alignment explanation
Indices: 92154683--92154908 Score: 218
Period size: 63 Copynumber: 3.6 Consensus size: 63
92154673 CTAGACACAC
* * * * * *
92154683 GCCCGTATGACCCTAATTCAAAAACAGTGAGATACACAGCCTGGACACATGTTCATGTCTCTA
1 GCCCGTGTGACCTTAATTCACAAACAATGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
* * ** ** * * *
92154746 GCCCATGTTACCTTAATTCACAAACAATGAGTTACATGGCCTGGAGGCACGTTCGTGTTTTTA
1 GCCCGTGTGACCTTAATTCACAAACAATGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
** ** * * **
92154809 GCTTGTGTGACCTTAATTTTCAAACAGTGAGTTACACAGTCTGGACACACGCCCATGTCTCTA
1 GCCCGTGTGACCTTAATTCACAAACAATGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
* * *
92154872 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACAC
1 GCCCGTGTGACCTTAATTCACAAACAATGAGTTACAC
92154909 GGTTTGGACA
Statistics
Matches: 125, Mismatches: 38, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
63 125 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (63 bp):
GCCCGTGTGACCTTAATTCACAAACAATGAGTTACACAGCCTGGACACACGTTCATGTCTCTA
Found at i:92154917 original size:63 final size:62
Alignment explanation
Indices: 92154683--92154971 Score: 182
Period size: 63 Copynumber: 4.6 Consensus size: 62
92154673 CTAGACACAC
* ** * * * * * * *
92154683 GCCCGTATGACCCTAATTCAAAAACAGTGAGATACACAGCCTGGACACATGTTCATGTCTCTA
1 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTCTGGACACACG-CCATGTCTCTA
* * * * * * * ** * * * *
92154746 GCCCATGTTACCTTAATTCACAAACAATGAGTTACATGGCCTGGAGGCACGTTCGTGTTTTTA
1 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTCTGGACACACG-CCATGTCTCTA
** * * * * *
92154809 GCTTGTGTGACCTTAATTTTCAAACAGTGAGTTACACAGTCTGGACACACGCCCATGTCTCTA
1 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTCTGGACACACG-CCATGTCTCTA
* * * *
92154872 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTTTGGACACATGCTAGTGTCCCTA
1 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTCTGGACACACGCCA-TGTCTCTA
** * * * *
92154935 GCATGTGTAACCCTAAATCTAAAACAGTAAGTTACAC
1 GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACAC
92154972 AACTTGCCAC
Statistics
Matches: 176, Mismatches: 49, Indels: 2
0.78 0.22 0.01
Matches are distributed among these distances:
62 2 0.01
63 174 0.99
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (62 bp):
GCCCGTGTGACCCTAATTCTCAAACAATAAGTTACACGGTCTGGACACACGCCATGTCTCTA
Found at i:92154942 original size:126 final size:126
Alignment explanation
Indices: 92154692--92154972 Score: 292
Period size: 126 Copynumber: 2.2 Consensus size: 126
92154682 CGCCCGTATG
* * * * ** *
92154692 ACCCTAATTCAAAAACAGTGAGATACACAGCCTGGACACATGTTCATGTCTCTAGCCCATGTTAC
1 ACCCTAAATCTAAAACAGTGAGTTACACAGCCTGGACACACGCCCATGTCTCTAGCCCATGTGAC
* * * ** * * *** * *
92154757 CTTAATTCACAAACAATGAGTTACATGGCCTGGAGGCACGTTCGTGTTTTTAGCTTGTGTG
66 CCTAATTCACAAACAATAAGTTACACGGCCTGGACACACGCTAGTGTCCCTAGCATGTGTA
* * * * * *
92154818 ACCTTAATTTTCAAACAGTGAGTTACACAGTCTGGACACACGCCCATGTCTCTAGCCCGTGTGAC
1 ACCCTAAATCTAAAACAGTGAGTTACACAGCCTGGACACACGCCCATGTCTCTAGCCCATGTGAC
* ** *
92154883 CCTAATTCTCAAACAATAAGTTACACGGTTTGGACACATGCTAGTGTCCCTAGCATGTGTA
66 CCTAATTCACAAACAATAAGTTACACGGCCTGGACACACGCTAGTGTCCCTAGCATGTGTA
*
92154944 ACCCTAAATCTAAAACAGTAAGTTACACA
1 ACCCTAAATCTAAAACAGTGAGTTACACA
92154973 ACTTGCCACA
Statistics
Matches: 123, Mismatches: 32, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (126 bp):
ACCCTAAATCTAAAACAGTGAGTTACACAGCCTGGACACACGCCCATGTCTCTAGCCCATGTGAC
CCTAATTCACAAACAATAAGTTACACGGCCTGGACACACGCTAGTGTCCCTAGCATGTGTA
Found at i:92161663 original size:63 final size:63
Alignment explanation
Indices: 92161596--92161789 Score: 201
Period size: 63 Copynumber: 3.1 Consensus size: 63
92161586 CAAATTCCCA
* * * ** *
92161596 AAACAATAAGTTATACGGCCTAGACACACGCCTGTATCTCTGGCCCGTGTGACCCTAATTCAC
1 AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
* * * * *
92161659 AAACAGTGAGTTACACAGCTTAGAGACAAGCCCCTATCTCTAGCCTGTGTGACCCTAATTCAC
1 AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
* * * * ** * *
92161722 AAACAGTAAGTTACACGGCCTAGAAACATA-CCCATGTCTCCAGCCTATGTGACCCTAGTTCCC
1 AAACAGTAAGTTACACGGCCTAGACACA-AGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
92161785 AAACA
1 AAACA
92161790 ATGCGTTACA
Statistics
Matches: 109, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
63 108 0.99
64 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (63 bp):
AAACAGTAAGTTACACGGCCTAGACACAAGCCCCTATCTCTAGCCCGTGTGACCCTAATTCAC
Found at i:92172758 original size:27 final size:27
Alignment explanation
Indices: 92172710--92172868 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
92172700 GCGAGGCTAC
* *
92172710 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
92172737 CAGATATTGTGGCGGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
92172763 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
92172790 CAGATAATTGTGGCATAGCCACCACG--A
1 CAGAT-ATTGTGGCAGAGCCACCA-GATA
*
92172817 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
92172844 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
92172869 GACCCTTCCT
Statistics
Matches: 114, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
26 10 0.09
27 98 0.86
28 6 0.05
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:92172800 original size:54 final size:53
Alignment explanation
Indices: 92172728--92172868 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 53
92172718 GTGACGAAGT
**
92172728 CACCAGATACAGAT-ATTGTGGCGGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAG-ACAGATATATGTGGCAGAGC
92172782 CACCAGATCAGATAATTGTGGCATAGCCACCACGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCA-GACAGATATATGTGGCAGAGC
*
92172836 CACCAAATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
92172869 GACCCTTCCT
Statistics
Matches: 82, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
53 6 0.07
54 75 0.91
55 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
Found at i:92174495 original size:26 final size:26
Alignment explanation
Indices: 92174465--92174546 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
92174455 TGAAATTCCC
92174465 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92174491 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92174517 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
92174543 ATCA
1 ATCA
92174547 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92179855 original size:27 final size:27
Alignment explanation
Indices: 92179807--92179965 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
92179797 GCGAGGCTGC
* *
92179807 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
92179834 CAGATATTGTGGCGGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
92179860 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
92179887 CAGATAATTGTGGCATAACCACCACG--A
1 CAGAT-ATTGTGGCAGAGCCACCA-GATA
*
92179914 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
92179941 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
92179966 GACCCTTCCT
Statistics
Matches: 112, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 6 0.05
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:92179897 original size:54 final size:53
Alignment explanation
Indices: 92179825--92179965 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 53
92179815 GTGACGAAGT
**
92179825 CACCAGATACAGAT-ATTGTGGCGGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAG-ACAGATATATGTGGCAGAGC
*
92179879 CACCAGATCAGATAATTGTGGCATAACCACCACGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCA-GACAGATATATGTGGCAGAGC
*
92179933 CACCAAATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
92179966 GACCCTTCCT
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
53 6 0.08
54 73 0.91
55 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGACAGATATATGTGGCAGAGC
Found at i:92181592 original size:26 final size:26
Alignment explanation
Indices: 92181562--92181617 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
92181552 TGAAATTCCC
92181562 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92181588 ATCATGGAACATTTACCTAACCCGTT
1 ATCATGGAACATTTACCTAACCCATT
92181614 ATCA
1 ATCA
92181618 ATTTATATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92186609 original size:40 final size:40
Alignment explanation
Indices: 92186565--92186661 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
92186555 GTACAAATAA
* * * *
92186565 GGGCACTTATGTACATTTAAAAGTACCAAAGTCTAAGCAG
1 GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
**
92186605 GGGCACGTATGTGCATTTAAGGGTACCAAAGTCCAAACAG
1 GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
*
92186645 GGTCACGTATGTGCATT
1 GGGCACGTATGTGCATT
92186662 CAAGGTCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (40 bp):
GGGCACGTATGTGCATTTAAAAGTACCAAAGTCCAAACAG
Found at i:92191662 original size:48 final size:46
Alignment explanation
Indices: 92191497--92191671 Score: 158
Period size: 48 Copynumber: 3.7 Consensus size: 46
92191487 AACCCGCCCC
* ** *
92191497 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCC--A
* * * * *
92191545 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-ATTTGCATCCA
* *
92191593 TCA-CGAACTCGGACTCAACTCAACGAGTTCGCAACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG-AACATTTGCATCCA
92191639 TAAGTGAAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTG-AACTCGGACTCAACTCAACGAGTTCG
92191672 GATGCTCAAC
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
44 6 0.06
45 2 0.02
46 3 0.03
47 27 0.26
48 56 0.55
49 1 0.01
51 2 0.02
52 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCA
Found at i:92191669 original size:95 final size:94
Alignment explanation
Indices: 92191502--92191676 Score: 262
Period size: 95 Copynumber: 1.8 Consensus size: 94
92191492 GCCCCTAAGT
**
92191502 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATATAAATGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCA-ATAAATGAACTCGGACTCAACTC
*
92191567 AATGAGTTCGGATGCCTAGTTACATCTCAC
65 AACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
92191597 GAACTCGGACTCAACTCAACGAGTTCGCAACATTTGCATCC-ATAAGTGAAACTCGGACTCAACT
1 GAACTCGGACTCAACTCAACGAGCTCG-AACATTCGCATCCAATAAATG-AACTCGGACTCAACT
92191661 CAACGAGTTCGGATGC
64 CAACGAGTTCGGATGC
92191677 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
94 6 0.08
95 56 0.78
96 10 0.14
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCAATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:92192126 original size:30 final size:30
Alignment explanation
Indices: 92192092--92192151 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
92192082 ATTTAATACG
92192092 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** * *
92192122 AACTTTTGCACAATTACACTTTTTCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
92192152 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:92195479 original size:16 final size:18
Alignment explanation
Indices: 92195440--92195481 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
92195430 AAAGTTCTTA
92195440 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
92195457 ATTTTTATATATTATG-T
1 ATATTTATATATTATGTT
92195474 A-ATTTATA
1 ATATTTATA
92195482 ACACATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:92196740 original size:23 final size:22
Alignment explanation
Indices: 92196709--92196757 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
92196699 CTTTTTCACC
*
92196709 TTTTTTCTTCTTC-TTTTCTTCTA
1 TTTTCTCTTCTTCATTTT-TT-TA
92196732 TTTTCTCTTCTTCATTTTTTTA
1 TTTTCTCTTCTTCATTTTTTTA
92196754 TTTT
1 TTTT
92196758 GATTTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTCTTCTTCATTTTTTTA
Found at i:92198794 original size:144 final size:144
Alignment explanation
Indices: 92198534--92198819 Score: 572
Period size: 144 Copynumber: 2.0 Consensus size: 144
92198524 ACATGTATAT
92198534 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
1 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
92198599 TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
66 TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
92198664 CGCATAATCTTTAA
131 CGCATAATCTTTAA
92198678 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
1 CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
92198743 TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
66 TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
92198808 CGCATAATCTTT
131 CGCATAATCTTT
92198820 TTATATACTT
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
144 142 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (144 bp):
CAATAAGCTACCTAATTTTCATGTTCTATCAATTCCATTTAATCATGCAAATTACAGTTTGAAGA
TCTTTCTAGAGTCTATTGACTCATTCGTATTCAGTTCGGCCACCAAGGCTCAATTCTAATTGGAT
CGCATAATCTTTAA
Found at i:92199069 original size:19 final size:19
Alignment explanation
Indices: 92199047--92199084 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
92199037 ACTGGTGCAA
* *
92199047 GAAGTGCATCTTGGCACAC
1 GAAGCGCATCTTCGCACAC
92199066 GAAGCGCATCTTCGCACAC
1 GAAGCGCATCTTCGCACAC
92199085 AAAATGCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.24, T:0.18
Consensus pattern (19 bp):
GAAGCGCATCTTCGCACAC
Found at i:92199093 original size:19 final size:19
Alignment explanation
Indices: 92199051--92199093 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
92199041 GTGCAAGAAG
* * *
92199051 TGCATCTTGGCACACGAAG
1 TGCATCTTCGCACACAAAA
*
92199070 CGCATCTTCGCACACAAAA
1 TGCATCTTCGCACACAAAA
92199089 TGCAT
1 TGCAT
92199094 AAACCCGTAC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (19 bp):
TGCATCTTCGCACACAAAA
Found at i:92203042 original size:42 final size:43
Alignment explanation
Indices: 92202995--92203111 Score: 152
Period size: 41 Copynumber: 2.8 Consensus size: 43
92202985 TAACAGTGAT
*
92202995 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTA-TG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
* **
92203037 ATATCAAGCTTATTGCCTAGCAGGCTTT-ATGCTAGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
* *
92203079 A-ATCAGGTTTATTACCTAGCAGGCTTTG-TGCCG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCG
92203112 ATGTTTTATA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
41 35 0.55
42 29 0.45
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (43 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATTG
Found at i:92208603 original size:107 final size:107
Alignment explanation
Indices: 92208417--92208630 Score: 358
Period size: 107 Copynumber: 2.0 Consensus size: 107
92208407 ACAATAACCC
* *
92208417 GTATCATTGTTTAAATCAAAGTATTTAGCTTAAGAAGAGTTGTTTTAAGTACATATTAACTTAGT
1 GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
*
92208482 CTTTTTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
66 CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
* *
92208524 GTATCATTGTTTAAATCAAAGTATTTAGCATAGGGAA-AGTTGTTTTAAGTACATATTAAGTTAG
1 GTATCATTGTTTAAATCAAAGTATTTAGCATA-AGAAGAGTTGTTTTAAGTACATATTAACTTAG
*
92208588 CCTTTCTATATATCTCTCTTTTTCCTTCCCTTTTGCATGCATT
65 CCTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
92208631 TCAACAGATA
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
107 97 0.97
108 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (107 bp):
GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTTAAGTACATATTAACTTAGC
CTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
Found at i:92215122 original size:234 final size:234
Alignment explanation
Indices: 92214713--92215177 Score: 887
Period size: 234 Copynumber: 2.0 Consensus size: 234
92214703 CTGTTTGAAG
**
92214713 AGTATAAAAATGTTGTCAATTCTACATAGGAGGAATAATAATAGAAAACAACACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACAAGGAATAATAATAGAAAACAACACGGTGGTTCTTT
92214778 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAC
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAC
92214843 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
92214908 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
*
92214947 AGTATAAAAATGTTGTCAATTCTACATACAAGGAATAATAATAGAAAACGAA-ATGGTGGTTCTT
1 AGTATAAAAATGTTGTCAATTCTACATACAAGGAATAATAATAGAAAAC-AACACGGTGGTTCTT
92215011 TATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTA
65 TATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTA
92215076 CAAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCC
130 CAAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCC
92215141 ATTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
195 ATTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
92215178 CAAGTACTCA
Statistics
Matches: 227, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
234 225 0.99
235 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACAAGGAATAATAATAGAAAACAACACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAC
AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
Found at i:92222657 original size:28 final size:28
Alignment explanation
Indices: 92222608--92222667 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
92222598 ATTATCAACT
92222608 CCATAAGTTATAAAACTCTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
* * * *
92222636 CCATAAGTTATGAGATTTTTCCTATACC
1 CCATAAGTTATAAAACTCTTCCTATACC
92222664 CCAT
1 CCAT
92222668 TAATATGGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.35
Consensus pattern (28 bp):
CCATAAGTTATAAAACTCTTCCTATACC
Found at i:92222827 original size:14 final size:14
Alignment explanation
Indices: 92222787--92222827 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
92222777 AAAAAGAAGA
92222787 TACACTCTCTCTTC
1 TACACTCTCTCTTC
92222801 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
92222812 TACACTCTTTCTTC
1 TACACTCTCTCTTC
92222826 TA
1 TA
92222828 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:92223392 original size:20 final size:22
Alignment explanation
Indices: 92223364--92223409 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
92223354 TATCATTTTT
92223364 TAAAATTA-TAA-AAATATATA
1 TAAAATTATTAATAAATATATA
* *
92223384 TAAAGTTATTAATAAATATGTA
1 TAAAATTATTAATAAATATATA
92223406 TAAA
1 TAAA
92223410 TGAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
TAAAATTATTAATAAATATATA
Found at i:92234780 original size:21 final size:21
Alignment explanation
Indices: 92234751--92234790 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
92234741 AGCTCTTGGA
*
92234751 GCTTGTTTTAGTTTGTATAGT
1 GCTTGTTTTAGCTTGTATAGT
*
92234772 GCTTTTTTTAGCTTGTATA
1 GCTTGTTTTAGCTTGTATA
92234791 CCTTACTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.57
Consensus pattern (21 bp):
GCTTGTTTTAGCTTGTATAGT
Done.