Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 160 of 378
Found at i:46645033 original size:28 final size:27
Alignment explanation
Indices: 46644985--46645038 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 27
46644975 AATAATAAAG
46644985 AAATAAAGAAAATAAGTAATAAAGAAAT
1 AAATAAAGAAAATAAG-AATAAAGAAAT
46645013 AAATAAAGATTAAATAA-AATAAAGAA
1 AAATAAAGA--AAATAAGAATAAAGAA
46645039 TGGGTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 18 0.75
30 6 0.25
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (27 bp):
AAATAAAGAAAATAAGAATAAAGAAAT
Found at i:46648482 original size:14 final size:14
Alignment explanation
Indices: 46648460--46648496 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
46648450 TGATTATGCC
*
46648460 ATTTGCCTTCAGTT
1 ATTTCCCTTCAGTT
46648474 ATTTCCCTTCAGTT
1 ATTTCCCTTCAGTT
46648488 ATTTCCCTT
1 ATTTCCCTT
46648497 TTCATTAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.08, T:0.51
Consensus pattern (14 bp):
ATTTCCCTTCAGTT
Found at i:46651285 original size:40 final size:40
Alignment explanation
Indices: 46651229--46651396 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
46651219 CAATTGAATG
* *
46651229 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
46651270 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
46651309 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
46651349 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
46651389 ATATCCGG
1 ATATCCGG
46651397 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:46651362 original size:80 final size:79
Alignment explanation
Indices: 46651229--46651396 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
46651219 CAATTGAATG
* *
46651229 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
46651294 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
46651309 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
46651373 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
46651389 ATATCCGG
1 ATATCCGG
46651397 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:46659263 original size:40 final size:40
Alignment explanation
Indices: 46659207--46659374 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
46659197 CAATTGAATG
* *
46659207 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
46659248 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
46659287 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
46659327 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
46659367 ATATCCGG
1 ATATCCGG
46659375 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:46659340 original size:80 final size:79
Alignment explanation
Indices: 46659207--46659374 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
46659197 CAATTGAATG
* *
46659207 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
46659272 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
46659287 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
46659351 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
46659367 ATATCCGG
1 ATATCCGG
46659375 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:46661742 original size:49 final size:49
Alignment explanation
Indices: 46661665--46661764 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
46661655 GAATTGCTAC
46661665 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
1 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
* * *
46661714 TTTAGAGCTTAATGCAAACGGAATGATTCCTTTCACGGTATTGAATGTT
1 TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
46661763 TT
1 TT
46661765 CCCATACTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (49 bp):
TTTAGAGCTTAATGAAAACAGAACGATTCCTTTCACGGTATTGAATGTT
Found at i:46663847 original size:24 final size:24
Alignment explanation
Indices: 46663815--46663862 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
46663805 ATTCAAATTA
46663815 CATATTGTTCTAAAAAGCTTGGAT
1 CATATTGTTCTAAAAAGCTTGGAT
*
46663839 CATATTGTTCTAAAGAGCTTGGAT
1 CATATTGTTCTAAAAAGCTTGGAT
46663863 AAGTTATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (24 bp):
CATATTGTTCTAAAAAGCTTGGAT
Found at i:46678977 original size:32 final size:32
Alignment explanation
Indices: 46678936--46679001 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
46678926 TTCTAAGATA
46678936 CTCCCAACAATAGATAGTTCCCAGTGGACTAT
1 CTCCCAACAATAGATAGTTCCCAGTGGACTAT
46678968 CTCCCAACAATAGATAGTTCCCAGTGGACTAT
1 CTCCCAACAATAGATAGTTCCCAGTGGACTAT
46679000 CT
1 CT
46679002 GTTACTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (32 bp):
CTCCCAACAATAGATAGTTCCCAGTGGACTAT
Found at i:46681196 original size:21 final size:21
Alignment explanation
Indices: 46681126--46681196 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
46681116 ACTACGCACG
* *
46681126 CCCGTATGGAGGAGACACACA
1 CCCGTGTGGAGGAGACACATA
* *
46681147 CCCGTGTAGAGGAGACACGTA
1 CCCGTGTGGAGGAGACACATA
* *
46681168 CCCGTGTGGAAGAGACACATG
1 CCCGTGTGGAGGAGACACATA
46681189 CCCGTGTG
1 CCCGTGTG
46681197 ACCAAGCTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (21 bp):
CCCGTGTGGAGGAGACACATA
Found at i:46682999 original size:24 final size:24
Alignment explanation
Indices: 46682963--46683014 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
46682953 GAGTTCAAGC
*
46682963 GAGCCATGTCAGGAAGCTCAT-AA
1 GAGCCATATCAGGAAGCTCATGAA
* *
46682986 GAGCCTATATCAGGACGCTTATGAA
1 GAGCC-ATATCAGGAAGCTCATGAA
46683011 GAGC
1 GAGC
46683015 TGCGTTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCATGAA
Found at i:46689715 original size:39 final size:39
Alignment explanation
Indices: 46689661--46689739 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
46689651 TAGCCTGGAC
46689661 CGGTAATCTTGTTGTATACATGTGTGGCTCAAGAGTGTA
1 CGGTAATCTTGTTGTATACATGTGTGGCTCAAGAGTGTA
46689700 CGGTAATCTTGTTGTATACATGTGTGGCTCAAGAGTGTA
1 CGGTAATCTTGTTGTATACATGTGTGGCTCAAGAGTGTA
46689739 C
1 C
46689740 TCTCTGATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (39 bp):
CGGTAATCTTGTTGTATACATGTGTGGCTCAAGAGTGTA
Found at i:46690017 original size:14 final size:14
Alignment explanation
Indices: 46689998--46690026 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
46689988 TTGACGAGTA
46689998 TGTACATCCTTGAT
1 TGTACATCCTTGAT
46690012 TGTACATCCTTGAT
1 TGTACATCCTTGAT
46690026 T
1 T
46690027 ATAGACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (14 bp):
TGTACATCCTTGAT
Found at i:46691750 original size:35 final size:35
Alignment explanation
Indices: 46691665--46691761 Score: 140
Period size: 35 Copynumber: 2.8 Consensus size: 35
46691655 AGATTTTACA
** * *
46691665 TGTATACCATTTACACAGTTTCGCCCCAAAGGACC
1 TGTATACCATTTACATGGTATCACCCCAAAGGACC
46691700 TGTATACCATTTACATGGTATCACCCCAAAGGACC
1 TGTATACCATTTACATGGTATCACCCCAAAGGACC
* *
46691735 TGTATATCATTTACATGGTGTCACCCC
1 TGTATACCATTTACATGGTATCACCCC
46691762 GAAAAACCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 56 1.00
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (35 bp):
TGTATACCATTTACATGGTATCACCCCAAAGGACC
Found at i:46692676 original size:57 final size:57
Alignment explanation
Indices: 46692557--46693057 Score: 500
Period size: 57 Copynumber: 8.9 Consensus size: 57
46692547 AAGACGAAAA
* * * * * *
46692557 TGAT-GTCACACTTCCTTAAGATGGACTTTATATAATTCACCTATTTAAAGCGAAGC
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
* ** ** * *
46692613 TAATAGTCACATATCTTTAACTTGGACTCTATATAATTCACCTCTTCAAGGCAAAGT
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
** * * * *
46692670 TGATAGTCATGCCTCTTTAAGATGGACTTTATATAGTTCACCTTTTTAAAGTAAAGT
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
* * *
46692727 TGATAATCACAGCC-CCTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCGACA-T
1 TGATAGTCACA-CCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGC-AAAGT
* * * * * * * *
46692784 CGATAATCATACCTCTTTAACATGGACTTTATATAATTCATCTCTTTGAGGGAAATT
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
* ** * * *
46692841 TGATAATCATGCCTCTTTAAAATGGACTTTATATAAATTCGCCTCTTTAAGGCAAAAT
1 TGATAGTCACACCTCTTTAAGATGGACTTTATAT-AATTCACCTCTTTAAGGCAAAGT
* * * * **
46692899 TGATAGTCACGCCTTTTTAAGATGTACTTTATAGAATTCACCTCTTTAAGGTGAAGT
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
*
46692956 TGATAGTCACACCTCTTTAAGATGGAC------TAATTCACCTCTTTAAGGCAAAGC
1 TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
*
46693007 TGATAGTCACATCT-TTCTAAGATGGACTTTATATAATTCACCTCTTTAAGG
1 TGATAGTCACACCTCTT-TAAGATGGACTTTATATAATTCACCTCTTTAAGG
46693058 TTTTAAGTGG
Statistics
Matches: 364, Mismatches: 68, Indels: 25
0.80 0.15 0.05
Matches are distributed among these distances:
50 2 0.01
51 43 0.12
56 7 0.02
57 262 0.72
58 50 0.14
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (57 bp):
TGATAGTCACACCTCTTTAAGATGGACTTTATATAATTCACCTCTTTAAGGCAAAGT
Found at i:46692978 original size:229 final size:222
Alignment explanation
Indices: 46692626--46693053 Score: 538
Period size: 229 Copynumber: 1.9 Consensus size: 222
46692616 TAGTCACATA
** * *
46692626 TCTTTAACTTGGACTCTATATAATTCACCTCTTCAAGGCAAAGTTGATAGTCATGCCTCTTTAAG
1 TCTTTAAAATGGACTCTATATAATTCACCTCTTCAAGGCAAAATTGATAGTCACGCCTCTTTAAG
* * *
46692691 ATGGACTTTATATAGTTCACCTTTTTAAAGTAAAGTTGATAATCACAGCCCCTTAAGATGGACTT
66 ATGGACTTTATAGAATTCACCTCTTTAAAGTAAAGTTGATAATCACAGCCCCTTAAGATGGAC--
* * *
46692756 TATATAATTCACCTCTTTAAGGCGACATC-GATAATCATACCTCTT-TAACATGGACTTTATATA
129 ----TAATTCACCTCTTTAAGGC-AAAGCTGATAATCACACCT-TTCTAACATGGACTTTATATA
*
46692819 ATTCATCTCTTTGAGGGAAATTTGATAATCATGCC
188 ATTCACCTCTTTGAGGGAAATTTGATAATCATGCC
* * * *
46692854 TCTTTAAAATGGACTTTATATAAATTCGCCTCTTTAAGGCAAAATTGATAGTCACGCCTTTTTAA
1 TCTTTAAAATGGACTCTATAT-AATTCACCTCTTCAAGGCAAAATTGATAGTCACGCCTCTTTAA
* * * * *
46692919 GATGTACTTTATAGAATTCACCTCTTTAAGGTGAAGTTGATAGTCACA-CCTCTTTAAGATGGAC
65 GATGGACTTTATAGAATTCACCTCTTTAAAGTAAAGTTGATAATCACAGCC-CCTTAAGATGGAC
* * *
46692983 TAATTCACCTCTTTAAGGCAAAGCTGATAGTCACATCTTTCTAAGATGGACTTTATATAATTCAC
129 TAATTCACCTCTTTAAGGCAAAGCTGATAATCACACCTTTCTAACATGGACTTTATATAATTCAC
46693048 CTCTTT
194 CTCTTT
46693054 AAGGTTTTAA
Statistics
Matches: 173, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
222 5 0.03
223 57 0.33
228 20 0.12
229 91 0.53
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (222 bp):
TCTTTAAAATGGACTCTATATAATTCACCTCTTCAAGGCAAAATTGATAGTCACGCCTCTTTAAG
ATGGACTTTATAGAATTCACCTCTTTAAAGTAAAGTTGATAATCACAGCCCCTTAAGATGGACTA
ATTCACCTCTTTAAGGCAAAGCTGATAATCACACCTTTCTAACATGGACTTTATATAATTCACCT
CTTTGAGGGAAATTTGATAATCATGCC
Found at i:46695942 original size:52 final size:50
Alignment explanation
Indices: 46695863--46695977 Score: 122
Period size: 50 Copynumber: 2.3 Consensus size: 50
46695853 GAGAACACAT
* ** * *
46695863 GTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACGTCTGCAGTACTAA
1 GTGCAGGCTACTACGTGTACAAAATGG--TTAGGTCACATCTGCAATACTAA
* * * * *
46695915 GTGCAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAATACTAA
1 GTGCAGGCTACTACGTGTACAAAATGGTTAGGTCACATCTGCAATACTAA
46695965 GTGCAGGCTACTA
1 GTGCAGGCTACTA
46695978 TGCGTACCCG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 31 0.58
52 22 0.42
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
GTGCAGGCTACTACGTGTACAAAATGGTTAGGTCACATCTGCAATACTAA
Found at i:46696029 original size:51 final size:51
Alignment explanation
Indices: 46695908--46696065 Score: 124
Period size: 51 Copynumber: 3.1 Consensus size: 51
46695898 CACGTCTGCA
* * ** * * * * *
46695908 GTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAGGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTATGCGTAAAAGATAGCTTCGATCACATGTGTG
* ***
46695958 ATACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTG
1 GTACTAAGTGCAGGCTACTATGCGTAAAAGATAGCTTCGATCACATGTGTG
* * * *
46696009 GTACTAAGTGTAGG-TCACTATGTGTAAAAGATAGCTTTGGTCAC-TAGTGTG
1 GTACTAAGTGCAGGCT-ACTATGCGTAAAAGATAGCTTCGATCACAT-GTGTG
46696060 GTACTA
1 GTACTA
46696066 TGTAAAGGCC
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
50 30 0.34
51 58 0.66
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
GTACTAAGTGCAGGCTACTATGCGTAAAAGATAGCTTCGATCACATGTGTG
Found at i:46701733 original size:50 final size:51
Alignment explanation
Indices: 46701654--46701796 Score: 171
Period size: 50 Copynumber: 2.8 Consensus size: 51
46701644 TAAAATGGTT
* * * *
46701654 TTAGTTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
* * * * *
46701704 TTAGGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
* * *
46701755 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
46701797 AAATATAGCT
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 41 0.53
51 36 0.47
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (51 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGC
Found at i:46701805 original size:51 final size:51
Alignment explanation
Indices: 46701654--46701840 Score: 162
Period size: 51 Copynumber: 3.7 Consensus size: 51
46701644 TAAAATGGTT
* * * * *
46701654 TTAGTTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GG
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGC
* * * * * *
46701704 TTAGGTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCCGATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGC
* * ** *
46701755 TTCGATCACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAATATAGC
1 TTAGATCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGC
* * * * *
46701806 TTTGGA-CACAAGTGTGGTACTATGTGAAGGCCACT
1 -TTAGATCACATGTGTAGTACTAAGTGCAGGCCACT
46701841 TTTTGAAGAA
Statistics
Matches: 112, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
50 41 0.37
51 67 0.60
52 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (51 bp):
TTAGATCACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGC
Found at i:46701857 original size:51 final size:50
Alignment explanation
Indices: 46701721--46701890 Score: 153
Period size: 51 Copynumber: 3.3 Consensus size: 50
46701711 GCATGTGTAA
* * * *** * *
46701721 TACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGATCACATGTGTGG
1 TACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGA-CACAAGTGTGG
* *
46701772 TACTAAGTGCAGGCCACTATGTGTAAAATATAGCTTTGGACACAAGTGTGG
1 TACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTT-GACACAAGTGTGG
* * * * * *
46701823 TACTATGTGAAGGCCACTTTTTG-AAGAAGGTAGCTTTGACTACAAGGGCGG
1 TACTATGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGAC-ACAAGTGTGG
46701874 TACTATGTGCAGGCCAC
1 TACTATGTGCAGGCCAC
46701891 CGAGTATCCG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 5 0.05
51 92 0.93
52 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (50 bp):
TACTATGTGCAGGCCACTATGTGTAAAAGATAGCTTTGACACAAGTGTGG
Found at i:46705958 original size:39 final size:39
Alignment explanation
Indices: 46705877--46706188 Score: 305
Period size: 39 Copynumber: 8.0 Consensus size: 39
46705867 CAAATCCAAT
* * *
46705877 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGAC-TT-AGCCCGGATATAA
*
46705917 TACCAGCAC-AAAGCCTGCAGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGAC-TTAGCCCGGATATAA
* *
46705956 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGAC-TTAGCCCGGATATAA
* * * *
46705995 CACCAGCAC-AAATGCCTTCTGGGCTTAACCCGGATATAA
1 CACCAGCACGAAA-GCCTGCAGGACTTAGCCCGGATATAA
* * * *
46706034 CACCAGCACGAATGCCTTC-GGGCTTAACCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAA
* *** *
46706072 CACCAGCACGAATGCCTTTGGGGCTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAA
* *
46706111 CACCAGCACGAATGCCTTTG-A-GACTGAGCCCGGATATAA
1 CACCAGCACGAAAGCC--TGCAGGACTTAGCCCGGATATAA
* *
46706150 CACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAA
46706189 TTCTCCATTA
Statistics
Matches: 246, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
37 1 0.00
38 38 0.15
39 174 0.71
40 32 0.13
41 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTGCAGGACTTAGCCCGGATATAA
Found at i:46706027 original size:78 final size:78
Alignment explanation
Indices: 46705877--46706188 Score: 371
Period size: 78 Copynumber: 4.0 Consensus size: 78
46705867 CAAATCCAAT
* * * *
46705877 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAATACCAGCACAAA-GCCTGCAGGAC
1 CACCAGCACGAAAGCCTGCGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTTCAGGAC
46705940 TTTAGCCCGGATATAA
64 -TTAGCCCGGATATAA
* * *
46705956 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACAAATGCCTTCTGGGCT
1 CACCAGCACGAAAGCCTGCGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACT
*
46706020 TAACCCGGATATAA
65 TAGCCCGGATATAA
* * * * ** *
46706034 CACCAGCACGAATGCCTTCGGG-CTTAACCCGGATATAACACCAGCACGAATGCCTTTGGGGCTT
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTT
46706098 AGCCCGGATATAA
66 AGCCCGGATATAA
* ** * * *
46706111 CACCAGCACGAATGCCTTTGAGACTGAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTT
1 CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTT
46706176 AGCCCGGATATAA
66 AGCCCGGATATAA
46706189 TTCTCCATTA
Statistics
Matches: 207, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
77 69 0.33
78 97 0.47
79 41 0.20
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.18
Consensus pattern (78 bp):
CACCAGCACGAAAGCCTGCGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTT
AGCCCGGATATAA
Found at i:46706188 original size:155 final size:156
Alignment explanation
Indices: 46705901--46706188 Score: 393
Period size: 155 Copynumber: 1.9 Consensus size: 156
46705891 ATGCGGGACT
* *
46705901 TTAAGCCCGGATATAATACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAATACCAGCACA
1 TTAAGCCCGGATATAACACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCACA
* * * *
46705966 AAGCCTGCGGGACTTTAGCCCGGATATAACACCAGCACAAATGCCTTCTGGGCTTAACCCGGATA
66 AAGCCTGCGAGACTTGAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTTAACCCGGATA
46706031 TAACACCAGCACGAATGCCTTCGGGC
131 TAACACCAGCACGAATGCCTTCGGGC
* *** *
46706057 TTAA-CCCGGATATAACACCAGCACGAATGCCTTTGGGGC-TTAGCCCGGATATAACACCAGCAC
1 TTAAGCCCGGATATAACACCAGCAC-AAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCAC
* ** * *
46706120 GAATGCCTTTGAGAC-TGAGCCCGGATATAACACCAGCACGAATGCCTTCAGGACTTAGCCCGGA
65 -AAAGCCTGCGAGACTTGAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTTAACCCGGA
46706184 TATAA
129 TATAA
46706189 TTCTCCATTA
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
155 91 0.80
156 23 0.20
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (156 bp):
TTAAGCCCGGATATAACACCAGCACAAAGCCTGCAGGACTTTAGCCCGGATATAACACCAGCACA
AAGCCTGCGAGACTTGAGCCCGGATATAACACCAGCACAAATGCCTTCAGGACTTAACCCGGATA
TAACACCAGCACGAATGCCTTCGGGC
Found at i:46706716 original size:110 final size:110
Alignment explanation
Indices: 46706523--46706738 Score: 432
Period size: 110 Copynumber: 2.0 Consensus size: 110
46706513 TGTGGATAGG
46706523 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
46706588 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
46706633 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
1 CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
46706698 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATT
66 TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATT
46706739 ATATAATAGT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.46
Consensus pattern (110 bp):
CTACTCGATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATT
TAAACAAATGAATTTGTTTAATTACTTACTCAACTTTAATTCTAT
Found at i:46714984 original size:19 final size:21
Alignment explanation
Indices: 46714950--46714989 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
46714940 AGTGCCATTA
*
46714950 ATCTTAAAAGTGTAG-CAAAT
1 ATCTAAAAAGTGTAGCCAAAT
46714970 ATCTAAAAAGT-TAGCCAAAT
1 ATCTAAAAAGTGTAGCCAAAT
46714990 GAGTATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (21 bp):
ATCTAAAAAGTGTAGCCAAAT
Found at i:46715419 original size:14 final size:15
Alignment explanation
Indices: 46715381--46715427 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
46715371 CAAACAAATG
* *
46715381 AAAAAATA-GAATGT
1 AAAAAATATAAATAT
46715395 AAAAAAT-TAAAT-T
1 AAAAAATATAAATAT
46715408 AAAAAATATAAATAT
1 AAAAAATATAAATAT
46715423 AAAAA
1 AAAAA
46715428 TGGCTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.28
14 15 0.52
15 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.23
Consensus pattern (15 bp):
AAAAAATATAAATAT
Found at i:46716541 original size:30 final size:30
Alignment explanation
Indices: 46716507--46716570 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
46716497 CACATGACTG
46716507 TGTGGCAGCCTGTGTGGGCTCACACAACCA
1 TGTGGCAGCCTGTGTGGGCTCACACAACCA
*
46716537 TGTGGCAGCCTGTGTGGGCTCACACAACCG
1 TGTGGCAGCCTGTGTGGGCTCACACAACCA
46716567 TGTG
1 TGTG
46716571 CCCAGCCCGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.22
Consensus pattern (30 bp):
TGTGGCAGCCTGTGTGGGCTCACACAACCA
Found at i:46717831 original size:2 final size:2
Alignment explanation
Indices: 46717818--46717856 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
46717808 AAATATTTAT
*
46717818 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46717857 CAAAATTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:46719554 original size:26 final size:26
Alignment explanation
Indices: 46719525--46719588 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
46719515 ATTTAGCCTA
*
46719525 GTAAAATTTTGACGA-TTTTACCCCTG
1 GTAAAATTTTAAC-ATTTTTACCCCTG
46719551 GTAAAATTTTAACATTTTTACCCCTG
1 GTAAAATTTTAACATTTTTACCCCTG
46719577 GTAAAATTTTAA
1 GTAAAATTTTAA
46719589 GAAAATTCGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
GTAAAATTTTAACATTTTTACCCCTG
Found at i:46731674 original size:28 final size:26
Alignment explanation
Indices: 46731642--46731699 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
46731632 TATTTTTTAG
*
46731642 ATTTAAGGTTCTT-ATAAGTTAGAATTAT
1 ATTTAAGGTT-TTAATAAGATA-AATT-T
*
46731670 ATTTAGGGTTTTAATAAGATAAATTT
1 ATTTAAGGTTTTAATAAGATAAATTT
46731696 ATTT
1 ATTT
46731700 TTAGGAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
27 6 0.22
28 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (26 bp):
ATTTAAGGTTTTAATAAGATAAATTT
Found at i:46741902 original size:23 final size:23
Alignment explanation
Indices: 46741876--46741922 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46741866 ATTACTTGTA
*
46741876 GACATGATTCAATGCATTATTTG
1 GACATGATTCAACGCATTATTTG
46741899 GACATGATTCAACGCATTATTTG
1 GACATGATTCAACGCATTATTTG
46741922 G
1 G
46741923 GAATTTAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (23 bp):
GACATGATTCAACGCATTATTTG
Found at i:46750225 original size:147 final size:146
Alignment explanation
Indices: 46749956--46750225 Score: 384
Period size: 147 Copynumber: 1.8 Consensus size: 146
46749946 GAAATAGTGA
* ** *
46749956 TATTTTATTAGAAATCTTGGTATAGGCTTGTAAATTTAGATTTTGGTATATCAAAATTCTAACGA
1 TATTTCATTAGAAATCTTGGTATAGGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGA
* * * *
46750021 GGTTCCATAGAAATATTGATATTCCTTTAGAAATTGAGGTATATACCAAAATATCTAAAGATAAC
66 GGTTCCATAAAAATATTGATATTCCCTTAGAAATTGAAGAATATACCAAAATATCTAAAGATAAC
46750086 CTCTTAAAAATTTTGG
131 CTCTTAAAAATTTTGG
* *
46750102 TATTTCATTAGAAATCTTGTTATAGGCTTGTACAACAT-GATTTTGGTATACCAAAATTTCTTAC
1 TATTTCATTAGAAATCTTGGTATAGGCTTGTA-AACATAGATTTTGGTATACCAAAA-TTCTAAC
*
46750166 GAGGTTCTATAAAAATATT-AGTATTCCCTTAGAAATT-ATAGAATATACCAAAATATCTAA
64 GAGGTTCCATAAAAATATTGA-TATTCCCTTAGAAATTGA-AGAATATACCAAAATATCTAA
46750226 GGATTTGCGC
Statistics
Matches: 109, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
146 49 0.45
147 60 0.55
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (146 bp):
TATTTCATTAGAAATCTTGGTATAGGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGA
GGTTCCATAAAAATATTGATATTCCCTTAGAAATTGAAGAATATACCAAAATATCTAAAGATAAC
CTCTTAAAAATTTTGG
Found at i:46750244 original size:147 final size:146
Alignment explanation
Indices: 46749901--46750249 Score: 425
Period size: 146 Copynumber: 2.4 Consensus size: 146
46749891 TACCACCTTG
* * * * ** * *
46749901 TTAGAAATTTTGGTATATACTAAAATATCTAAGGATGTGCTATTAGAAATAGTGATATTTTATTA
1 TTAGAAATTATGGTATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATTA
** * *
46749966 GAAATCTTGGTATAGGCTTGTAAATTTAGATTTTGGTATATCAAAATTCTAACGAGGTTCCATAG
66 GAAATCTTGGTATAGGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGAGGTTCCATAA
*
46750031 AAATATTGATATTCCT
131 AAATATTGATATTCCC
* ** *
46750047 TTAGAAATTGA-GGTATATACCAAAATATCTAAAGATAACCTCTTAAAAATTTTGGTATTTCATT
1 TTAGAAATT-ATGGTATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATT
* * *
46750111 AGAAATCTTGTTATAGGCTTGTACAACAT-GATTTTGGTATACCAAAATTTCTTACGAGGTTCTA
65 AGAAATCTTGGTATAGGCTTGTA-AACATAGATTTTGGTATACCAAAA-TTCTAACGAGGTTCCA
46750175 TAAAAATATT-AGTATTCCC
128 TAAAAATATTGA-TATTCCC
* * * *
46750194 TTAGAAATTATAGAATATACCAAAATATCTAAGGATTTGCGCTTAGAAATTTTGGT
1 TTAGAAATTATGGTATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGT
46750250 GTACCACAAT
Statistics
Matches: 170, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
146 92 0.54
147 78 0.46
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (146 bp):
TTAGAAATTATGGTATATACCAAAATATCTAAGGATATGCTCTTAGAAATTTTGGTATTTCATTA
GAAATCTTGGTATAGGCTTGTAAACATAGATTTTGGTATACCAAAATTCTAACGAGGTTCCATAA
AAATATTGATATTCCC
Found at i:46754521 original size:21 final size:22
Alignment explanation
Indices: 46754492--46754533 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
46754482 ATCAATTTCA
46754492 AAATCAAATT-TTGAAAATAAAT
1 AAATCAAATTATT-AAAATAAAT
46754514 AAAT-AAATTATTAAAATAAA
1 AAATCAAATTATTAAAATAAA
46754534 CATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AAATCAAATTATTAAAATAAAT
Found at i:46758998 original size:15 final size:15
Alignment explanation
Indices: 46758978--46759011 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
46758968 CGCTTTCCTT
46758978 TCTCCCCCAATAATA
1 TCTCCCCCAATAATA
46758993 TCTCCCCCAATAATA
1 TCTCCCCCAATAATA
46759008 TCTC
1 TCTC
46759012 TCTTCTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.41, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTCCCCCAATAATA
Found at i:46759525 original size:30 final size:30
Alignment explanation
Indices: 46759465--46759535 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
46759455 AATTTATATC
* *
46759465 TTTATAAT-TTTTTAAGATTTAAATCAAAT
1 TTTATATTATTTTTAAGATTAAAATCAAAT
**
46759494 TTT-TATTATTTTTAAGAGTTAAAATGTAAT
1 TTTATATTATTTTTAAGA-TTAAAATCAAAT
46759524 TTTACTATTATT
1 TTTA-TATTATT
46759536 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 3 0.09
29 12 0.35
30 12 0.35
32 7 0.21
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.55
Consensus pattern (30 bp):
TTTATATTATTTTTAAGATTAAAATCAAAT
Found at i:46766699 original size:12 final size:13
Alignment explanation
Indices: 46766682--46766714 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46766672 AATATTTATT
*
46766682 AATTAAAA-TATA
1 AATTAAAATTAAA
46766694 AATTAAAATTAAA
1 AATTAAAATTAAA
46766707 AATTAAAA
1 AATTAAAA
46766715 ACAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTAAAATTAAA
Found at i:46768474 original size:35 final size:35
Alignment explanation
Indices: 46768443--46768530 Score: 124
Period size: 35 Copynumber: 2.5 Consensus size: 35
46768433 TGTGATGTTT
46768443 TATTGAACTTGTATATTC-GACCATATATGATGATA
1 TATTGAACTTGTATATTCAG-CCATATATGATGATA
*
46768478 TATTGAACTTGTATATTCAGCCATATGTGATGATA
1 TATTGAACTTGTATATTCAGCCATATATGATGATA
* *
46768513 TAATGAACCTTGTGTATT
1 TATTGAA-CTTGTATATT
46768531 TGGCCATACA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 38 0.79
36 10 0.21
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (35 bp):
TATTGAACTTGTATATTCAGCCATATATGATGATA
Found at i:46773033 original size:31 final size:31
Alignment explanation
Indices: 46772997--46773058 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
46772987 ATTTTGTGTG
46772997 AATCTCTTACCTTTTTACTTTACTTTCTCTC
1 AATCTCTTACCTTTTTACTTTACTTTCTCTC
46773028 AATCTCTTACCTTTTTACTTTACTTTCTCTC
1 AATCTCTTACCTTTTTACTTTACTTTCTCTC
46773059 TCAGCCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (31 bp):
AATCTCTTACCTTTTTACTTTACTTTCTCTC
Found at i:46776235 original size:3 final size:3
Alignment explanation
Indices: 46776222--46776271 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
46776212 TTATTTTCTT
46776222 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46776268 TAA T
1 TAA T
46776272 GGATCAAACA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:46776608 original size:19 final size:18
Alignment explanation
Indices: 46776566--46776607 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
46776556 TGAAATGTAA
46776566 ATTTTATTTAATTGGTTTT
1 ATTTTATTTAATT-GTTTT
46776585 ATTTTATTTAATT-TTATT
1 ATTTTATTTAATTGTT-TT
46776603 ATTTT
1 ATTTT
46776608 TTTGTTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.09
18 7 0.32
19 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTATTTAATTGTTTT
Found at i:46778232 original size:42 final size:42
Alignment explanation
Indices: 46778161--46778339 Score: 151
Period size: 42 Copynumber: 4.3 Consensus size: 42
46778151 CAGTATGCTT
* * * * *
46778161 GATGATGCACGTACATGCCGGAATATTTTCTTCGGTATATCC
1 GATGATGCACTTACATGTCAGTATGTTTTCTTCGGTATATCC
* * * * **
46778203 GATGATGCACTTACGTGGCAGTATGTTTTCTTTGATATATTT
1 GATGATGCACTTACATGTCAGTATGTTTTCTTCGGTATATCC
** * * * *
46778245 GATGATGCACTTACATGTTGGTATGTTTTTTTTGGTACATTC
1 GATGATGCACTTACATGTCAGTATGTTTTCTTCGGTATATCC
* * * * * *
46778287 GATGATACACTTACATGTCAATATGATTGCTTCAGTTTATCC
1 GATGATGCACTTACATGTCAGTATGTTTTCTTCGGTATATCC
46778329 GATGATGCACT
1 GATGATGCACT
46778340 GTGCGTGTAA
Statistics
Matches: 106, Mismatches: 31, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (42 bp):
GATGATGCACTTACATGTCAGTATGTTTTCTTCGGTATATCC
Found at i:46779600 original size:14 final size:14
Alignment explanation
Indices: 46779583--46779614 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
46779573 AATCATTAGG
*
46779583 TCACATTCAACTAT
1 TCACATTCAACCAT
46779597 TCACATTCAACCAT
1 TCACATTCAACCAT
46779611 TCAC
1 TCAC
46779615 CAATCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (14 bp):
TCACATTCAACCAT
Found at i:46779683 original size:19 final size:20
Alignment explanation
Indices: 46779635--46779677 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
46779625 TAGACCACAT
46779635 CATAAATGAGATATTTGTACA
1 CATAAATGAGATATTTG-ACA
46779656 CATAAATGAGATATTTG-CA
1 CATAAATGAGATATTTGACA
46779675 CAT
1 CAT
46779678 GTATGAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
21 17 0.77
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (20 bp):
CATAAATGAGATATTTGACA
Found at i:46782987 original size:5 final size:6
Alignment explanation
Indices: 46782972--46783012 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
46782962 AAATTATATT
*
46782972 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
46783013 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:46785948 original size:40 final size:37
Alignment explanation
Indices: 46785882--46786016 Score: 161
Period size: 35 Copynumber: 3.7 Consensus size: 37
46785872 CATGGAAAAG
46785882 TGTGAAATGTAGGTATGGTA--TCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
46785917 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATT-TC--ATCCATACTGAGT
** * *
46785957 TAAGAAATGTAGGTATGGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
* *
46785992 TGTAAAATCTAGGTATGGTATTTCA
1 TGTGAAATGTAGGTATGGTATTTCA
46786017 ATGAGGAATA
Statistics
Matches: 85, Mismatches: 9, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
35 49 0.58
38 2 0.02
39 2 0.02
40 32 0.38
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATTTCATCCATACTGAGT
Found at i:46785972 original size:35 final size:34
Alignment explanation
Indices: 46785885--46785973 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 34
46785875 GGAAAAGTGT
**
46785885 GAAATGTAGGTATGGTATCATCCATACTGAGTTGT
1 GAAATGTAGGTAT-GTATCATCCATACTGAGTTAA
46785920 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTAT-G---TATC--ATCCATACTGAGTTAA
46785960 GAAATGTAGGTATG
1 GAAATGTAGGTATG
46785974 GCATTTCCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
35 15 0.32
38 4 0.09
39 1 0.02
40 27 0.57
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.33
Consensus pattern (34 bp):
GAAATGTAGGTATGTATCATCCATACTGAGTTAA
Found at i:46801437 original size:7 final size:7
Alignment explanation
Indices: 46801425--46801609 Score: 65
Period size: 7 Copynumber: 25.9 Consensus size: 7
46801415 TACCATTATA
46801425 GTTTAGG
1 GTTTAGG
46801432 GTTTAGG
1 GTTTAGG
46801439 GTTTAGG
1 GTTTAGG
*
46801446 GTTTAAG
1 GTTTAGG
46801453 GTTTATGAG
1 GTTTA-G-G
* *
46801462 ATACTA--
1 GT-TTAGG
* *
46801468 TTTTAAG
1 GTTTAGG
*
46801475 GTTTATG
1 GTTTAGG
* *
46801482 GATTATG
1 GTTTAGG
46801489 GTTTAAGG
1 GTTT-AGG
*
46801497 G-TTGGG
1 GTTTAGG
**
46801503 GTTTAAT
1 GTTTAGG
*
46801510 GTTTATGA
1 GTTTA-GG
* *
46801518 GTTAAGT
1 GTTTAGG
46801525 G-TTAGG
1 GTTTAGG
*
46801531 GGTTATGG
1 GTTTA-GG
46801539 G-TTATGG
1 GTTTA-GG
46801546 GTTTAGG
1 GTTTAGG
46801553 GTTTAGG
1 GTTTAGG
46801560 GTTTAGG
1 GTTTAGG
* *
46801567 TTTTATG
1 GTTTAGG
*
46801574 ATTTAGG
1 GTTTAGG
**
46801581 GGATATGG
1 GTTTA-GG
*
46801589 GTTAAGGG
1 GTTTA-GG
46801597 GTTTAGG
1 GTTTAGG
46801604 GTTTAG
1 GTTTAG
46801610 ATTAATTAGT
Statistics
Matches: 133, Mismatches: 33, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
5 2 0.02
6 8 0.06
7 96 0.72
8 23 0.17
9 2 0.02
10 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:46801572 original size:57 final size:57
Alignment explanation
Indices: 46801430--46801574 Score: 147
Period size: 57 Copynumber: 2.5 Consensus size: 57
46801420 TTATAGTTTA
* *
46801430 GGGTTTAGGGTTTAGGGTTTAAGG-TTTATGAGATACTATTTTAAGGTTTATGGATTAT
1 GGGTTTAGGGTTTAGGGTTT-AGGTTTTATGAGATAC-ATGTTAAGGGTTATGGATTAT
* * * * *
46801488 -GGTTTAAGGG-TTGGGGTTTA-ATGTTTATGAGTTA-AGTGTTAGGGGTTATGGGTTAT
1 GGGTTT-AGGGTTTAGGGTTTAGGT-TTTATGAGATACA-TGTTAAGGGTTATGGATTAT
46801544 GGGTTTAGGGTTTAGGGTTTAGGTTTTATGA
1 GGGTTTAGGGTTTAGGGTTTAGGTTTTATGA
46801575 TTTAGGGGAT
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
55 1 0.01
56 21 0.30
57 44 0.62
58 5 0.07
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (57 bp):
GGGTTTAGGGTTTAGGGTTTAGGTTTTATGAGATACATGTTAAGGGTTATGGATTAT
Found at i:46802621 original size:34 final size:34
Alignment explanation
Indices: 46802578--46802648 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
46802568 CTCACCCCGC
* *
46802578 CGTTGCTCTTTTCAATCAAGAAATTCTCCAGCAG
1 CGTTGCTCTTCTCAATCAAGAAACTCTCCAGCAG
*
46802612 CGTTGCTCTTCTCAATCAAGAAACTCTCTAGCAG
1 CGTTGCTCTTCTCAATCAAGAAACTCTCCAGCAG
46802646 CGT
1 CGT
46802649 CTCCAAGCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (34 bp):
CGTTGCTCTTCTCAATCAAGAAACTCTCCAGCAG
Found at i:46804339 original size:31 final size:31
Alignment explanation
Indices: 46804301--46804367 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
46804291 CAGCAAATTG
46804301 AAGTGTTTAAATGCTGTAAATTGAAGTGTTA
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTA
46804332 AAGTGTTTAAATGCTGTAAATTGAAGTGTTA
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTA
46804363 AAGTG
1 AAGTG
46804368 CTGCAAGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (31 bp):
AAGTGTTTAAATGCTGTAAATTGAAGTGTTA
Found at i:46804359 original size:23 final size:23
Alignment explanation
Indices: 46804332--46805001 Score: 561
Period size: 23 Copynumber: 29.4 Consensus size: 23
46804322 TGAAGTGTTA
46804332 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
46804355 AAGTG-TTAAAGTGCTGCAAGTTG
1 AAGTGTTTAAA-TGCTGTAAATTG
*
46804378 AAGTG-TTAAATGCTATAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
46804400 AAGTGTTTAAATGTTGTAAATTA
1 AAGTGTTTAAATGCTGTAAATTG
* *
46804423 AAGTGCTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
46804446 AAGTGTTTAAGTACTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** * *
46804469 AAGTGTTTAGTTTCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804492 -AGATGTTTTATAT-CTGT-AATTG
1 AAG-TG-TTTAAATGCTGTAAATTG
* * * * *
46804514 AGGTGTATAATTGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
46804537 AAATG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
46804560 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804583 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
46804606 AAGTGTTTAAATGCTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804629 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * *
46804652 AAGTGTTTAAGTACTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
** *
46804675 AAGTGTTTAGTTGCTGGAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804698 -AGATGTTT-TATCGCTGT-AATTG
1 AAG-TGTTTAAAT-GCTGTAAATTG
* * * *
46804720 AGGTGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804743 -AGATG-TTAAAGTGCTGCAAATTG
1 AAG-TGTTTAAA-TGCTGTAAATTG
*
46804766 AAGTG-TTAAATGATGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804788 -AGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
**
46804810 AAGTGTTTAGTTGCTAG-AAATTG
1 AAGTGTTTAAATGCT-GTAAATTG
* *
46804833 AAATGTTT-TATCGCTGT-AATTG
1 AAGTGTTTAAAT-GCTGTAAATTG
* * * * *
46804855 AGGAGTATAAATGTTGTTAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* *
46804878 -AGATG-TTAAAGTGCTGCAAATTA
1 AAG-TGTTTAAA-TGCTGTAAATTG
*
46804901 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804924 AAGTG-TTAAAGTGCTGCAAATTG
1 AAGTGTTTAAA-TGCTGTAAATTG
*
46804947 AAGTGTTTAAATGTTGTAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
* * * *
46804970 AAGTTTTTAAGTACTGCAAATTG
1 AAGTGTTTAAATGCTGTAAATTG
*
46804993 AATTGTTTA
1 AAGTGTTTA
46805002 GTTGCTGAAA
Statistics
Matches: 520, Mismatches: 95, Indels: 64
0.77 0.14 0.09
Matches are distributed among these distances:
21 8 0.02
22 111 0.21
23 371 0.71
24 30 0.06
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
AAGTGTTTAAATGCTGTAAATTG
Found at i:46804397 original size:54 final size:54
Alignment explanation
Indices: 46804295--46804397 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
46804285 AAAGTGCAGC
* *
46804295 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAAGTGTATAAATGCTGT
*
46804349 AAATTGAAGTG-TTAAAGTGCTGCAAGTTGAAGTGTTAAA-TGCTATAAAT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTAAAGTG-TATAAAT
46804398 TGAAGTGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
53 7 0.16
54 37 0.84
ACGTcount: A:0.37, C:0.05, G:0.22, T:0.36
Consensus pattern (54 bp):
AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTAAAGTGTATAAATGCTGT
Found at i:46804702 original size:206 final size:204
Alignment explanation
Indices: 46804338--46804840 Score: 778
Period size: 206 Copynumber: 2.5 Consensus size: 204
46804328 GTTAAAGTGT
* * * *
46804338 TTAAA-TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAGTTGAAGTGTTAAATGCTATAAATTGAA
1 TTAAAGTGCTGCAAATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTAAATGCTGTAAATTGAA
* * *
46804402 GTGTTTAAATGTTGTAAATTAAAGTGCTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
65 GTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAAT
* * *
46804467 TGAAGTGTTTAGTTTCTGGAAATTGAGATGTTTTATATCTGTAATTGAGGTGTATAATTGTTGTT
130 TGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTT
46804532 AATTGAAATG
195 AATTGAAATG
*
46804542 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTG-TTAAATGCTGTAAATTGAAGTGTTAAA-TGCTGTAAATTGA
46804607 AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAA
64 AGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAA
*
46804672 TTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGT
129 TTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGT
*
46804737 TAATTGAGATG
194 TAATTGAAATG
* *
46804748 TTAAAGTGCTGCAAATTGAAGTGTTAAATGATGTAAATTG-AGTGTTTAAATGTTGTAAATTGAA
1 TTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTG-TTAAATGCTGTAAATTGAA
** *
46804812 GTGTTTAGTTGCTAG-AAATTGAAATGTTT
65 GTGTTTAAATGCT-GTAAATTGAAGTGTTT
46804841 TATCGCTGTA
Statistics
Matches: 275, Mismatches: 19, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
204 45 0.16
205 58 0.21
206 172 0.63
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (204 bp):
TTAAAGTGCTGCAAATTGAAGTGTTAAATGCTGTAAATTGAAGTGTTAAATGCTGTAAATTGAAG
TGTTTAAATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATT
GAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTATAGCTGTAATTGAGGTGTATAAATGTTGTTA
ATTGAAATG
Found at i:46804976 original size:135 final size:135
Alignment explanation
Indices: 46804612--46804976 Score: 533
Period size: 135 Copynumber: 2.7 Consensus size: 135
46804602 ATTGAAGTGT
* * *
46804612 TTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
* *
46804676 AGTGTTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAAT
66 AGTGTTTAGTTG-TTGAAATTGA-ATGTTTTATCGCTGTAATTGAGGAGTATAAATGTTGTTAAT
46804741 TGAGATG
129 TGAGATG
* * *
46804748 TTAAAGTGCTGCAAATTGAAGTG-TTAAATGATGTAAATTG-AGTGTTTAAA-TGTTGTAAATTG
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTG
*
46804810 AAGTGTTTAGTTGCTAGAAATTGAAATGTTTTATCGCTGTAATTGAGGAGTATAAATGTTGTTAA
65 AAGTGTTTAGTTG-TTGAAATTG-AATGTTTTATCGCTGTAATTGAGGAGTATAAATGTTGTTAA
46804875 TTGAGATG
128 TTGAGATG
*
46804883 TTAAAGTGCTGCAAATTAAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
1 TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
**
46804948 AGTGTTTAAATGTTGTAAATTGAA-GTTTT
66 AGTGTTTAGTTGTTG-AAATTGAATGTTTT
46804977 TAAGTACTGC
Statistics
Matches: 207, Mismatches: 15, Indels: 15
0.87 0.06 0.06
Matches are distributed among these distances:
135 109 0.53
136 51 0.25
137 47 0.23
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (135 bp):
TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGA
AGTGTTTAGTTGTTGAAATTGAATGTTTTATCGCTGTAATTGAGGAGTATAAATGTTGTTAATTG
AGATG
Found at i:46805013 original size:114 final size:114
Alignment explanation
Indices: 46804332--46805013 Score: 606
Period size: 114 Copynumber: 6.0 Consensus size: 114
46804322 TGAAGTGTTA
* *
46804332 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAGTTGAAGTG-TTAAATGCTATAA
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
* * * * *
46804396 ATTGAAGTGTTTAAATGTTGTAAATTAAAGTGCTTAAATGTTGTAAATTG
66 ATTGAAGTGTTTAAATGTTGTAAATTGAAGTG-TTTAGTGCTGCAAATTG
* * * * * * *
46804446 AAGTGTTTAAGTACTGCAAATTGAAGTGTT-TAGTTTCTGGAAATTG-AGATGTTTTATAT-CTG
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TG-TTTAAATGCTG
* * * * * *
46804508 T-AATTGAGGTGTATAATTGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTG
63 TAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTT-TAGTGCTGCAAATTG
46804560 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
*
46804625 ATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTGCAAATTG
66 ATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTT-AGTGCTGCAAATTG
** * ** * * * *
46804675 AAGTGTTTAGTTGCTGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGT
1 AAGTGTTTAAATGCTGTAAATTGAAG-TGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATGCTGT
* * * * * * *
46804737 TAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTAAATGATGTAAATTG
64 AAATTGAAG-TGTTTAAA-TGTTGTAAATTGAAGTGTTTAGTGCTGCAAATTG
* * * *
46804788 -AGTGTTTAAATGTTGTAAATTGAAGTGTT-TAGTTGCTAG-AAATTGAAATGTTT-TATCGCTG
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAG-TGCT-GCAAATTGAAGTGTTTAAAT-GCTG
* * * * * *
46804849 T-AATTGAGGAGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTA
63 TAAATTGAAGTGTTTAAATGTTGTAAATTGAAG-TGTT-TAGTGCTGCAAATTG
* *
46804901 AAGTGTTTAAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAA
1 AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
* * ** * *
46804966 ATTGAAGTTTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTG-AAATT
66 ATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAG-TGCTGCAAATT
46805014 TAGTTTATGT
Statistics
Matches: 454, Mismatches: 84, Indels: 60
0.76 0.14 0.10
Matches are distributed among these distances:
111 4 0.01
112 46 0.10
113 64 0.14
114 223 0.49
115 111 0.24
116 6 0.01
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (114 bp):
AAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAA
ATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAGTGCTGCAAATTG
Found at i:46805798 original size:85 final size:85
Alignment explanation
Indices: 46805699--46805894 Score: 236
Period size: 85 Copynumber: 2.3 Consensus size: 85
46805689 CCGTTTTTAG
* * * * *
46805699 GAAAGCGTCGCTAAAAGTCAAGTTCTTTAGCGGCATTTTT-GGGAAAGCGA-CGCTAAAAGTCAG
1 GAAAGCGCCGCTAAAGGTCAAGTTCTTTAGCAGCATTTTTAAGAAAAGC-ACCGCTAAAAGTCAG
*
46805762 GTTTTTTAGCGGCGTTTGTGGA
65 GTTCTTTAGCGGCG-TTGTGGA
* * * *
46805784 GAAAGCGCCACTAAAGGTCATA-TTCTTTAGCAGCGTTTTTAAGAAAAGCACCGCTAAAGGTCAT
1 GAAAGCGCCGCTAAAGGTCA-AGTTCTTTAGCAGCATTTTTAAGAAAAGCACCGCTAAAAGTCAG
*
46805848 GTTCTTTAGCGGCGTTGTGGG
65 GTTCTTTAGCGGCGTTGTGGA
*
46805869 GAAAGCGCCGCTAAAGGTCATGTTCT
1 GAAAGCGCCGCTAAAGGTCAAGTTCT
46805895 AAAAAACGCC
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 63 0.67
86 31 0.33
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (85 bp):
GAAAGCGCCGCTAAAGGTCAAGTTCTTTAGCAGCATTTTTAAGAAAAGCACCGCTAAAAGTCAGG
TTCTTTAGCGGCGTTGTGGA
Found at i:46805813 original size:43 final size:43
Alignment explanation
Indices: 46805699--46805894 Score: 218
Period size: 42 Copynumber: 4.6 Consensus size: 43
46805689 CCGTTTTTAG
* * * * *
46805699 GAAAGCGTCGCTAAAAGTCAAGTTCTTTAGCGGCATTTTTGG-
1 GAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA
* * * *
46805741 GAAAGCGACGCTAAAAGTCAGGTTTTTTAGCGGCGTTTGTGGA
1 GAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA
* * * **
46805784 GAAAGCGCCACTAAAGGTCATATTCTTTAGCAGCGTTT-TTAA
1 GAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA
* *
46805826 GAAAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCG-TTGTGGG
1 G-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA
46805869 GAAAGCGCCGCTAAAGGTCATGTTCT
1 GAAAGCGCCGCTAAAGGTCATGTTCT
46805895 AAAAAACGCC
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
42 66 0.51
43 63 0.49
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (43 bp):
GAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA
Found at i:46806267 original size:43 final size:43
Alignment explanation
Indices: 46806146--46806269 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
46806136 ATAAGCTCGT
* *
46806146 ACAATGCC-ATATCCCAGATATGGTCTTACATGTAAAT-ACATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGT-AATCACATA
* * * * *
46806188 TCGATGCCACTGTCCCAGACA-GAGTCTTACACGTAATCTCA-A
1 ACAATGCCAATGTCCCAGACATG-GTCTTACATGTAATCACATA
46806230 CACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 -ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
46806270 AATCTCGGTA
Statistics
Matches: 65, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
42 11 0.17
43 53 0.82
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATA
Found at i:46807742 original size:42 final size:42
Alignment explanation
Indices: 46807665--46807836 Score: 141
Period size: 42 Copynumber: 4.1 Consensus size: 42
46807655 ATGTAGCCAG
* * * * *
46807665 TGATGCACTTACGTGCCAATAT-TATTGCTTTGGTATGTCTGA
1 TGATGCACTCACATGCCAATATGT-TTTCTTCGGTATATCTGA
* ** * *
46807707 TTATGCACTCATGTGCTAGTATGTTTTCTTCGGTATATCTGA
1 TGATGCACTCACATGCCAATATGTTTTCTTCGGTATATCTGA
* * *
46807749 TGATGCACTTACATGCCAATATGTTTTCTTCGGTACATCAGA
1 TGATGCACTCACATGCCAATATGTTTTCTTCGGTATATCTGA
* * * ** *
46807791 TGATGCAC-CTACATGTCAGTATGTTTGCTTTAGTTTATCTGA
1 TGATGCACTC-ACATGCCAATATGTTTTCTTCGGTATATCTGA
46807833 TGAT
1 TGAT
46807837 ACATGATGCA
Statistics
Matches: 103, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
42 102 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (42 bp):
TGATGCACTCACATGCCAATATGTTTTCTTCGGTATATCTGA
Found at i:46807797 original size:84 final size:84
Alignment explanation
Indices: 46807665--46807836 Score: 197
Period size: 84 Copynumber: 2.0 Consensus size: 84
46807655 ATGTAGCCAG
* * ** * *
46807665 TGATGCACTTACGTGCCAATATTATTGCTTTGGTATGTCTGATTATGCA-CT-CATGTGCTAGTA
1 TGATGCACTTACATGCCAATATTATTGCTTCGGTACATCAGATGATGCACCTACATGT-C-AGTA
* *
46807728 TGTTTTCTTCGGTATATCTGA
64 TGTTTGCTTCAGTATATCTGA
*
46807749 TGATGCACTTACATGCCAATATGT-TTTCTTCGGTACATCAGATGATGCACCTACATGTCAGTAT
1 TGATGCACTTACATGCCAATAT-TATTGCTTCGGTACATCAGATGATGCACCTACATGTCAGTAT
* *
46807813 GTTTGCTTTAGTTTATCTGA
65 GTTTGCTTCAGTATATCTGA
46807833 TGAT
1 TGAT
46807837 ACATGATGCA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 65 0.88
85 4 0.05
86 5 0.07
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (84 bp):
TGATGCACTTACATGCCAATATTATTGCTTCGGTACATCAGATGATGCACCTACATGTCAGTATG
TTTGCTTCAGTATATCTGA
Found at i:46808484 original size:13 final size:13
Alignment explanation
Indices: 46808466--46808490 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46808456 TTATAAAAAT
46808466 ATTTATTTTTTAG
1 ATTTATTTTTTAG
46808479 ATTTATTTTTTA
1 ATTTATTTTTTA
46808491 TTTTTTTAAG
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTATTTTTTAG
Found at i:46814430 original size:6 final size:6
Alignment explanation
Indices: 46814419--46814443 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46814409 GTATTGTGTC
46814419 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
46814444 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:46814641 original size:33 final size:33
Alignment explanation
Indices: 46814599--46814665 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
46814589 TTTTTAAGAT
46814599 AAATTTAACTCACAATCTTTTAAAAGGAGTCGA
1 AAATTTAACTCACAATCTTTTAAAAGGAGTCGA
46814632 AAATTTAACTCACAATCTTTTAAAAGGAGTCGA
1 AAATTTAACTCACAATCTTTTAAAAGGAGTCGA
46814665 A
1 A
46814666 TTCGCCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (33 bp):
AAATTTAACTCACAATCTTTTAAAAGGAGTCGA
Found at i:46815305 original size:20 final size:18
Alignment explanation
Indices: 46815282--46815329 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
46815272 TTACAAAAAA
46815282 TATTAAAAATATAAAAGAAT
1 TATTAAAAATATAAAAG--T
*
46815302 TATTTTAAAATTATAAAAGT
1 TA--TTAAAAATATAAAAGT
46815322 TATTAAAA
1 TATTAAAA
46815330 TTATTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
20 5 0.20
22 14 0.56
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (18 bp):
TATTAAAAATATAAAAGT
Found at i:46822086 original size:20 final size:20
Alignment explanation
Indices: 46822061--46822107 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
46822051 TTAAGTATTT
*
46822061 AAAATTTTATAAAAATATAA
1 AAAATTTTAAAAAAATATAA
* *
46822081 AAAATTATAAAAAAATGTAA
1 AAAATTTTAAAAAAATATAA
*
46822101 ATAATTT
1 AAAATTT
46822108 ATTGAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAATTTTAAAAAAATATAA
Found at i:46831691 original size:45 final size:45
Alignment explanation
Indices: 46831642--46831738 Score: 122
Period size: 45 Copynumber: 2.2 Consensus size: 45
46831632 GCCATAGTCA
* * **
46831642 TACTCATTTTCGTCTTGATGCCATAACATCTTTCATTTAGGGTTT
1 TACTCATTTTCATCATGATGCCATAACATCTTTCAGCTAGGGTTT
* * * *
46831687 TACTCATTTTTATCATGATGTCATAACATTTTTCAGCTATGGTTT
1 TACTCATTTTCATCATGATGCCATAACATCTTTCAGCTAGGGTTT
46831732 TACTCAT
1 TACTCAT
46831739 CTTGGTGTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (45 bp):
TACTCATTTTCATCATGATGCCATAACATCTTTCAGCTAGGGTTT
Found at i:46834767 original size:22 final size:22
Alignment explanation
Indices: 46834742--46834785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46834732 TAATCCTATA
46834742 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
46834764 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
46834786 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:46834829 original size:13 final size:13
Alignment explanation
Indices: 46834813--46834845 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
46834803 TTATTTTAAT
46834813 AATAA-AATTTATA
1 AATAATAATTT-TA
46834826 AATAATAATTTTA
1 AATAATAATTTTA
46834839 AATAATA
1 AATAATA
46834846 TTATTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATAATAATTTTA
Found at i:46834831 original size:16 final size:14
Alignment explanation
Indices: 46834805--46834845 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
46834795 TTTCAATTTT
46834805 ATTTT-AATAATAAA
1 ATTTTAAATAAT-AA
46834819 ATTTATAAATAAT-A
1 ATTT-TAAATAATAA
46834833 ATTTTAAATAATA
1 ATTTTAAATAATA
46834846 TTATTCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 8 0.33
14 9 0.38
15 1 0.04
16 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:46834855 original size:29 final size:27
Alignment explanation
Indices: 46834805--46834867 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
46834795 TTTCAATTTT
*
46834805 ATTTTAATAATAAAATTTATAAATAATA
1 ATTTTAATAATAAAATTCATAAA-AATA
**
46834833 ATTTTAAATAATATTATTCATAAAAAT-
1 ATTTT-AATAATAAAATTCATAAAAATA
46834860 A-TTTAATA
1 ATTTTAATA
46834868 TCAATAGTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 3 0.10
27 1 0.03
28 8 0.26
29 15 0.48
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTTAATAATAAAATTCATAAAAATA
Found at i:46837729 original size:6 final size:6
Alignment explanation
Indices: 46837720--46837760 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
46837710 CAGAAGATGG
* *
46837720 AAGAGG AAGAGG AAGAGA AAGAGA AAGAGA AAGAGA AAGAG
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAG
46837761 TCCATGATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (6 bp):
AAGAGA
Found at i:46851272 original size:32 final size:32
Alignment explanation
Indices: 46851225--46851308 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
46851215 CCCGTGCGGC
*
46851225 AGCCCATGTGCGCCCACACACCCAACTTGGCCT
1 AGCCTATGTG-GCCCACACACCCAACTTGGCCT
** *
46851258 AGCCTATGTGGCCCACATGCCTAACTTGGCCT
1 AGCCTATGTGGCCCACACACCCAACTTGGCCT
* *
46851290 AACCTATATGGCCCACACA
1 AGCCTATGTGGCCCACACA
46851309 GCCACACTCC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 34 0.79
33 9 0.21
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.19
Consensus pattern (32 bp):
AGCCTATGTGGCCCACACACCCAACTTGGCCT
Found at i:46857022 original size:10 final size:10
Alignment explanation
Indices: 46856993--46857023 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
46856983 TCTTATGCTT
*
46856993 TTTTTTTTCT
1 TTTTTTTTCA
46857003 TTTTTTTTCA
1 TTTTTTTTCA
46857013 TTTTTTTTCA
1 TTTTTTTTCA
46857023 T
1 T
46857024 GTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:46859012 original size:22 final size:20
Alignment explanation
Indices: 46858976--46859017 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46858966 CCATTGTTGA
*
46858976 GAAATTGATGAATTAGACTT
1 GAAATTGATGAATTAAACTT
46858996 GAAATTGATAGATATTAAACTT
1 GAAATTGAT-GA-ATTAAACTT
46859018 AGACTATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (20 bp):
GAAATTGATGAATTAAACTT
Found at i:46859644 original size:21 final size:21
Alignment explanation
Indices: 46859619--46859659 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
46859609 ATTGAATAGA
* *
46859619 TATGAATTTAGAATGATGATT
1 TATGAATTGAGAACGATGATT
46859640 TATGAATTGAGAACGATGAT
1 TATGAATTGAGAACGATGAT
46859660 ATTGAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (21 bp):
TATGAATTGAGAACGATGATT
Found at i:46864760 original size:42 final size:42
Alignment explanation
Indices: 46864713--46864797 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
46864703 ACATTAAAGG
*
46864713 AAATCATGGTTCAAGATTAAATCCAAGAAAAGTGGACCAACC
1 AAATCATGATTCAAGATTAAATCCAAGAAAAGTGGACCAACC
46864755 AAATCATGATTCAAGATTAAATCCAAGAAAAGTGGACCAACC
1 AAATCATGATTCAAGATTAAATCCAAGAAAAGTGGACCAACC
46864797 A
1 A
46864798 TATCCAAATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (42 bp):
AAATCATGATTCAAGATTAAATCCAAGAAAAGTGGACCAACC
Found at i:46865707 original size:6 final size:6
Alignment explanation
Indices: 46865696--46865725 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
46865686 TCACAAGATC
46865696 GAACAA GAACAA GAACAA GAACAA GAACAA
1 GAACAA GAACAA GAACAA GAACAA GAACAA
46865726 TATAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
GAACAA
Found at i:46868983 original size:14 final size:14
Alignment explanation
Indices: 46868964--46868991 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46868954 AAATAAGTTT
46868964 AATAATGTCTCATG
1 AATAATGTCTCATG
46868978 AATAATGTCTCATG
1 AATAATGTCTCATG
46868992 CTCAACTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AATAATGTCTCATG
Found at i:46875305 original size:18 final size:18
Alignment explanation
Indices: 46875281--46875357 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
46875271 AAGAAACATT
46875281 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
* *
46875299 ATGAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
*
46875317 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAAA
*
46875335 ATCAG-GTGACAGAATCAAA
1 ATCAGAAT--CAGAATCAAA
46875354 ATCA
1 ATCA
46875358 AAATGTGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.02
18 36 0.71
19 14 0.27
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.17
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:46875358 original size:6 final size:6
Alignment explanation
Indices: 46875281--46875339 Score: 84
Period size: 6 Copynumber: 9.8 Consensus size: 6
46875271 AAGAAACATT
* *
46875281 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
46875329 ATCAGA ATCAG
1 ATCAGA ATCAG
46875340 GTGACAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
5 1 0.02
6 45 0.96
7 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:46875911 original size:27 final size:27
Alignment explanation
Indices: 46875881--46876103 Score: 248
Period size: 27 Copynumber: 8.3 Consensus size: 27
46875871 GGGGCAAAAT
* * * *
46875881 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
46875908 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
46875935 AGTAATTCTACCCTACAGGGGTATGTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
46875962 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
46875989 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
46876016 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
46876043 AGTATTTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
46876070 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
46876097 AGTAATT
1 GGTAATT
46876104 TTTTAAATCG
Statistics
Matches: 169, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 169 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:46876005 original size:81 final size:81
Alignment explanation
Indices: 46875897--46876103 Score: 317
Period size: 81 Copynumber: 2.6 Consensus size: 81
46875887 TTTACCCCAT
*
46875897 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATGTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATGTC
46875962 -GATATTTCTACCCTAC
66 AG-TATTTCTACCCTAC
* * * *
46875978 AAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATGTC
*
46876043 AGTATTTCTACTCTAC
66 AGTATTTCTACCCTAC
* * *
46876059 AGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
46876104 TTTTAAATCG
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
81 113 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATGTC
AGTATTTCTACCCTAC
Found at i:46876327 original size:27 final size:27
Alignment explanation
Indices: 46876139--46876320 Score: 204
Period size: 27 Copynumber: 6.7 Consensus size: 27
46876129 TTCTGTAAAT
* *
46876139 CAGGGGTACTTTGGTAATTTTAC-AAG
1 CAGGGGTATTTTGGTAATTTTACAAAC
** * * *
46876165 TTGAGGGTATTTTAGTAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAC
*
46876193 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
46876220 TAGGGGTATTTTGATAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
46876247 TAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
46876274 CAAGGGTATTCTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
46876301 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
46876321 GGTAAACTAA
Statistics
Matches: 131, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 126 0.96
28 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:46877424 original size:39 final size:39
Alignment explanation
Indices: 46877381--46877632 Score: 283
Period size: 39 Copynumber: 6.5 Consensus size: 39
46877371 CAGAAATCTG
46877381 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
* * * **
46877420 GTGATTATTTGGGCTATGTGTCTAGCAGGCTATGTG-TT
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
** *
46877458 GATGATTATTCATGCTATGTGCCTAGCAAGCTGTGTGCCA
1 G-TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
* *
46877498 GTGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCG
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
* * * *
46877537 GTGATTATTCAGGCAATGTGCCTAGTAGGCTGTGTGTC-
1 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
* * * * * *
46877575 GATGATTATTTGGGGTTTGTGCCTAGTAAGCTGTGTGCCG
1 G-TGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
*
46877615 GTGATTATTCAGGCTATG
1 GTGATTATTCGGGCTATG
46877633 AGCCGGTGTA
Statistics
Matches: 175, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
38 2 0.01
39 171 0.98
40 2 0.01
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.35
Consensus pattern (39 bp):
GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCA
Found at i:46877527 original size:117 final size:117
Alignment explanation
Indices: 46877381--46877632 Score: 351
Period size: 117 Copynumber: 2.2 Consensus size: 117
46877371 CAGAAATCTG
* ** * *
46877381 GTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCAGTGATTATTTGGGCTATGTGTCTAGC
1 GTGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCAGTGATTATTCAGGCAATGTGCCTAGC
* *
46877446 AGGCTATGTGTTGATGATTATTCATGCTATGTGCCTAGCAAGCTGTGTGCCA
66 AGGCTATGTGTCGATGATTATTCAGGCTATGTGCCTAGCAAGCTGTGTGCCA
* *
46877498 GTGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCGGTGATTATTCAGGCAATGTGCCTAGT
1 GTGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCAGTGATTATTCAGGCAATGTGCCTAGC
* ** * * * *
46877563 AGGCTGTGTGTCGATGATTATTTGGGGTTTGTGCCTAGTAAGCTGTGTGCCG
66 AGGCTATGTGTCGATGATTATTCAGGCTATGTGCCTAGCAAGCTGTGTGCCA
*
46877615 GTGATTATTCAGGCTATG
1 GTGATTATTCGGGCTATG
46877633 AGCCGGTGTA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.35
Consensus pattern (117 bp):
GTGATTATTCGGGCTATGTGCCTAACAGGCTGTGTGCCAGTGATTATTCAGGCAATGTGCCTAGC
AGGCTATGTGTCGATGATTATTCAGGCTATGTGCCTAGCAAGCTGTGTGCCA
Found at i:46884135 original size:40 final size:40
Alignment explanation
Indices: 46884080--46884303 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
46884070 TATTCGGATG
46884080 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46884120 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
46884163 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
46884203 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
46884243 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46884283 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46884304 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:46884223 original size:83 final size:80
Alignment explanation
Indices: 46884084--46884303 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
46884074 CGGATGATAT
* **
46884084 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
46884149 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
46884167 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
46884232 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
46884247 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
46884304 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:46892307 original size:40 final size:40
Alignment explanation
Indices: 46892252--46892472 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
46892242 TATTCAGATG
46892252 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46892292 ATATCCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
46892334 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
46892374 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
46892414 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC--GTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
46892452 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46892473 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
37 14 0.09
38 8 0.05
39 1 0.01
40 102 0.63
42 35 0.22
43 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:46892393 original size:82 final size:80
Alignment explanation
Indices: 46892256--46892445 Score: 283
Period size: 82 Copynumber: 2.4 Consensus size: 80
46892246 CAGATGATAT
* **
46892256 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
46892321 TCGAGTAGTTG-CTATAC
66 T-G-CTAG-TGACTATAC
*
46892338 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
46892403 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
46892418 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
46892446 GTTGCTATAT
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
79 2 0.02
80 35 0.35
81 1 0.01
82 62 0.62
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:46895622 original size:40 final size:40
Alignment explanation
Indices: 46895567--46895788 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
46895557 TATTCAGATG
46895567 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
46895607 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
46895650 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
46895690 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
46895730 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC--GTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
46895768 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
46895789 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
37 14 0.09
38 8 0.05
40 103 0.63
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:46895710 original size:83 final size:80
Alignment explanation
Indices: 46895571--46895761 Score: 285
Period size: 83 Copynumber: 2.4 Consensus size: 80
46895561 CAGATGATAT
* **
46895571 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
46895636 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
46895654 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
46895719 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
46895734 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
46895762 GTTGCTATAT
Statistics
Matches: 101, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
79 2 0.02
80 35 0.35
83 64 0.63
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:46897348 original size:40 final size:40
Alignment explanation
Indices: 46897230--46897396 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
46897220 TTCTTCGAAT
* * * *
46897230 TTAG-CCGGATACAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
46897269 TTAACCCGG-TAT-AGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
*
46897308 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
46897348 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGGC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
46897388 TTAGCCCGG
1 TTAGCCCGG
46897397 GTATCATTCA
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 33 0.29
40 76 0.67
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:46905397 original size:40 final size:40
Alignment explanation
Indices: 46905279--46905444 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
46905269 TCTTCGGAAT
* * * *
46905279 TTAG-CCGGATACAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
46905318 TTAACCCGG-TAT-AGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
*
46905357 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
*
46905397 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
46905436 TTAGCCCGG
1 TTAGCCCGG
46905445 GTATCATTCA
Statistics
Matches: 113, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.02
39 43 0.38
40 66 0.58
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:46905405 original size:79 final size:79
Alignment explanation
Indices: 46905279--46905444 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
46905269 TCTTCGGAAT
* *
46905279 TTAG-CCGGATACAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGG-TAT-AGCAACTCGCA
1 TTAGCCCGGATACAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGC-ACTAGCA
46905341 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGG-C
* * * * * * *
46905357 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCAT
1 TTAGCCCGGATACAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCACTAGCAC
46905422 AAATGCCTTCGGGC
66 AAATGCCTTCGGGC
46905436 TTAGCCCGG
1 TTAGCCCGG
46905445 GTATCATTCA
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 4 0.05
79 48 0.63
80 22 0.29
81 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATACAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAAGCACTAGCAC
AAATGCCTTCGGGC
Found at i:46908854 original size:43 final size:44
Alignment explanation
Indices: 46908788--46908876 Score: 144
Period size: 43 Copynumber: 2.0 Consensus size: 44
46908778 TCTGTAAGTT
*
46908788 AAATAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGA
1 AAATAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGA
* *
46908832 AAATAATGTT-AAATATCCTACACTAATCAAAGTTTAAGTGGGA
1 AAATAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGA
46908875 AA
1 AA
46908877 CTAACAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 33 0.79
44 9 0.21
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (44 bp):
AAATAATATTAAAATAACCTACACTAATCAAAGTTTAAGTGGGA
Found at i:46909513 original size:21 final size:22
Alignment explanation
Indices: 46909469--46909518 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
46909459 TGCAGGGCTC
46909469 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGTCCAAGGG
*
46909491 ACACGCCCGTGTGGT-CTAGGG
1 ACACGCCCGTGTGGTCCAAGGG
46909512 ACACGCC
1 ACACGCC
46909519 TATGTTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.18, C:0.34, G:0.34, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAGGG
Found at i:46911439 original size:20 final size:20
Alignment explanation
Indices: 46911397--46911441 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
46911387 AGCACATGTA
*
46911397 TTCATAAAATTTTAGAATAT
1 TTCATAAAATTTTAAAATAT
*
46911417 TTCATCAAATTTTACAAAT-T
1 TTCATAAAATTTTA-AAATAT
46911437 TTCAT
1 TTCAT
46911442 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
TTCATAAAATTTTAAAATAT
Found at i:46913321 original size:27 final size:27
Alignment explanation
Indices: 46913290--46913343 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
46913280 AAATGATAAA
*
46913290 AAAAATCACCAACAAAAATAATTTCAC
1 AAAAATCACAAACAAAAATAATTTCAC
46913317 AAAAATCACAAACAAAAATAATTTCAC
1 AAAAATCACAAACAAAAATAATTTCAC
46913344 CAACAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.61, C:0.20, G:0.00, T:0.19
Consensus pattern (27 bp):
AAAAATCACAAACAAAAATAATTTCAC
Found at i:46913564 original size:44 final size:44
Alignment explanation
Indices: 46913514--46913600 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
46913504 GTAGGTCAAA
46913514 TAATATTAAAATAACATATACTAATAAGAGTTTAAGTGAGAAAT
1 TAATATTAAAATAACATATACTAATAAGAGTTTAAGTGAGAAAT
* * * * *
46913558 TAATATTAAAATAGCCTATATTAATTAGAGTTTAAGTGGGAAA
1 TAATATTAAAATAACATATACTAATAAGAGTTTAAGTGAGAAA
46913601 CTAAAAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (44 bp):
TAATATTAAAATAACATATACTAATAAGAGTTTAAGTGAGAAAT
Found at i:46914063 original size:17 final size:17
Alignment explanation
Indices: 46914041--46914074 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46914031 AATTGGAGAG
46914041 ATAGCTTGGCTTGGCTA
1 ATAGCTTGGCTTGGCTA
46914058 ATAGCTTGGCTTGGCTA
1 ATAGCTTGGCTTGGCTA
46914075 TCATAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.35
Consensus pattern (17 bp):
ATAGCTTGGCTTGGCTA
Found at i:46921223 original size:3 final size:3
Alignment explanation
Indices: 46921210--46921261 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
46921200 AATTTGGATG
*
46921210 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46921258 TTA T
1 TTA T
46921262 GTATATTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:46923663 original size:40 final size:39
Alignment explanation
Indices: 46923618--46923825 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
46923608 CGGAATACAA
*
46923618 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46923658 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46923698 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
46923738 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
46923778 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
46923818 CCGGATAT
1 CCGGATAT
46923826 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46923758 original size:80 final size:80
Alignment explanation
Indices: 46923618--46923824 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
46923608 CGGAATACAA
* * *
46923618 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
46923682 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
46923698 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
46923762 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
46923778 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
46923825 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:46931714 original size:40 final size:39
Alignment explanation
Indices: 46931669--46931876 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
46931659 CGGAATACAA
*
46931669 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46931709 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
46931749 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
46931789 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
46931829 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
46931869 CCGGATAT
1 CCGGATAT
46931877 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:46931809 original size:80 final size:80
Alignment explanation
Indices: 46931669--46931875 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
46931659 CGGAATACAA
* * *
46931669 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
46931733 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
46931749 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
46931813 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
46931829 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
46931876 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:46934040 original size:16 final size:15
Alignment explanation
Indices: 46934014--46934044 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
46934004 ACTCGATTGG
46934014 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
46934029 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
46934045 TGGCATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.52, C:0.26, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:46934323 original size:27 final size:27
Alignment explanation
Indices: 46934293--46934354 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
46934283 ATTTACTAAA
46934293 ATACCCCTAAGTATG-AAAATTACCATC
1 ATACCCCTAAG-ATGCAAAATTACCATC
* * *
46934320 ATACACCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATC
46934346 ATACCCCTA
1 ATACCCCTA
46934355 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATC
Found at i:46934499 original size:27 final size:28
Alignment explanation
Indices: 46934460--46934573 Score: 137
Period size: 27 Copynumber: 4.2 Consensus size: 28
46934450 GAGGAAGCGT
46934460 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
46934487 TCTGGTGGTTCTGCCATAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
46934515 TCTGGTGGCTCTGCCAC-AATATTTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
46934542 TCTGGTGACTCTGTCAC-AATATTTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
46934568 TCTGGT
1 TCTGGT
46934574 AGCCATGCTG
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.08
27 56 0.73
28 15 0.19
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:46942619 original size:12 final size:12
Alignment explanation
Indices: 46942602--46942662 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
46942592 TGTTATCAAT
46942602 TTATTATTATAA
1 TTATTATTATAA
**
46942614 TTATTATTATGG
1 TTATTATTATAA
46942626 TT-TTATT-TAA
1 TTATTATTATAA
*
46942636 ATATTATTATTAA
1 TTATTATTA-TAA
46942649 -TATTATTAT-A
1 TTATTATTATAA
46942659 TTAT
1 TTAT
46942663 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 3 0.08
11 14 0.35
12 20 0.50
13 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:46942936 original size:3 final size:3
Alignment explanation
Indices: 46942922--46943013 Score: 104
Period size: 3 Copynumber: 32.0 Consensus size: 3
46942912 AAATAGATAT
* * *
46942922 TTA TTA TCA TTA TTA TTA -TA GTT- TTA -TA TTA -AA TTA TTA -AA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
46942963 TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
46943011 TTA
1 TTA
46943014 AAATAAATCA
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
2 8 0.11
3 66 0.88
4 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:46943158 original size:13 final size:13
Alignment explanation
Indices: 46943142--46943176 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
46943132 AATTAAATAT
*
46943142 TATTATTATATTG
1 TATTATTATAATG
46943155 TATTATTATAATG
1 TATTATTATAATG
46943168 TATTATTAT
1 TATTATTAT
46943177 TAATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (13 bp):
TATTATTATAATG
Found at i:46943160 original size:16 final size:16
Alignment explanation
Indices: 46943139--46943183 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 16
46943129 ATGAATTAAA
46943139 TATTATTATTATATTG
1 TATTATTATTATATTG
46943155 TATTATTA-TA-A-TG
1 TATTATTATTATATTG
46943168 TATTATTATTAATATT
1 TATTATTATT-ATATT
46943184 ATTAACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 3 0.12
16 9 0.36
17 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
TATTATTATTATATTG
Found at i:46945242 original size:70 final size:75
Alignment explanation
Indices: 46945155--46945330 Score: 202
Period size: 70 Copynumber: 2.3 Consensus size: 75
46945145 ATGTGAAAAA
* * *
46945155 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAATAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
46945215 AA-GTATATTG
65 AATGTATATTG
*
46945225 ATTGGAAACTAATAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAATAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
46945290 TGAAATGTATATTG
62 TGAAATGTATATTG
* *
46945304 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-TAGTGATTTGAATT
46945331 TGATTGGAAA
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
70 25 0.28
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.20
79 18 0.20
80 14 0.16
ACGTcount: A:0.41, C:0.01, G:0.19, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAATAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:46945365 original size:86 final size:78
Alignment explanation
Indices: 46945200--46945350 Score: 203
Period size: 79 Copynumber: 1.9 Consensus size: 78
46945190 AATTATGAAT
* *
46945200 TATGTGAATATTTGAAAGTATATTGATTGGAAACTAATAGTGATTTGAATTGAATCAAATTGAAT
1 TATGTGAATATTTGAAAGTATATTGATTGAAAACTAATAGTGATTTGAATTGAATCAAAATGAAT
*
46945265 TGAATGAAGAAAA
66 TAAATGAAGAAAA
* * * *
46945278 TATGTGAGTATTTGAAATGTATATTGATTGAAAAGTAATTAGTGATTTGAATTTGATTGGAAAAT
1 TATGTGAATATTTGAAA-GTATATTGATTGAAAACTAA-TAGTGATTTGAA-TTGAAT-CAAAAT
46945343 GAATTAAA
62 GAATTAAA
46945351 AATATGAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 16 0.26
79 18 0.29
80 12 0.19
81 5 0.08
82 11 0.18
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.37
Consensus pattern (78 bp):
TATGTGAATATTTGAAAGTATATTGATTGAAAACTAATAGTGATTTGAATTGAATCAAAATGAAT
TAAATGAAGAAAA
Found at i:46945551 original size:34 final size:36
Alignment explanation
Indices: 46945511--46945578 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
46945501 AAGTGGAAAA
46945511 GTGAATTTGAATTG-AA-TGAGAATTGA-ATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGACATTGAATT
46945545 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
46945579 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 8 0.26
36 9 0.29
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGACATTGAATT
Found at i:46945579 original size:18 final size:17
Alignment explanation
Indices: 46945508--46945583 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
46945498 AGGAAGTGGA
*
46945508 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
46945525 -AA-TGAGAATTGAATTG
1 AAAGTGA-AATTGAATTG
* *
46945541 AATTGTGAATTTGAATTG
1 AA-AGTGAAATTGAATTG
46945559 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
46945577 AAAGTGA
1 AAAGTGA
46945584 TTTGAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 10 0.20
18 22 0.45
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:46945587 original size:34 final size:33
Alignment explanation
Indices: 46945508--46945589 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
46945498 AGGAAGTGGA
46945508 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
*
46945541 AATTGTGAATTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGAATTTGAATTG-AA-TGAGAATTGA-ATTG
46945577 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
46945590 ATGTGAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.49
35 11 0.26
36 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAATGAGAATTGAATTG
Found at i:46945596 original size:18 final size:18
Alignment explanation
Indices: 46945508--46945596 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 18
46945498 AGGAAGTGGA
46945508 AAAGTGAATTTG-AATTG
1 AAAGTGAATTTGAAATTG
* *
46945525 AATGAGAA-TTG-AATTG
1 AAAGTGAATTTGAAATTG
*
46945541 AATTGTGAATTTG-AATTG
1 AA-AGTGAATTTGAAATTG
* *
46945559 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGAAATTG
46945577 AAAGTG-ATTTGAAATGTG
1 AAAGTGAATTTGAAAT-TG
46945595 AA
1 AA
46945597 TTTGGAGATC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.17
17 26 0.43
18 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.34
Consensus pattern (18 bp):
AAAGTGAATTTGAAATTG
Done.