Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 183 of 328
Found at i:54652055 original size:42 final size:42
Alignment explanation
Indices: 54651957--54652055 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
54651947 AGGGTAGGAC
* *
54651957 AGACACAGCCGTGTGAAAGTCTCACATACCCATGTGCCCATG
1 AGACACAGCTGTGTGAAAGTCTCACATACCCATGTGCCCACG
** * *
54651999 AGACGTAG-TCGTGTGAAAGTCTCACATGCCCGTGTGCCCACG
1 AGACACAGCT-GTGTGAAAGTCTCACATACCCATGTGCCCACG
*
54652041 GGACACAGCTGTGTG
1 AGACACAGCTGTGTG
54652056 TCTAGAGACA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.24, C:0.28, G:0.27, T:0.20
Consensus pattern (42 bp):
AGACACAGCTGTGTGAAAGTCTCACATACCCATGTGCCCACG
Found at i:54652843 original size:13 final size:13
Alignment explanation
Indices: 54652825--54652849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54652815 ATAAATAAAT
54652825 AAATAATAACTAA
1 AAATAATAACTAA
54652838 AAATAATAACTA
1 AAATAATAACTA
54652850 TTTAAGACTC
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAACTAA
Found at i:54663825 original size:40 final size:40
Alignment explanation
Indices: 54663766--54663986 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
54663756 TATTCGGATG
* *
54663766 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
54663806 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
54663846 ATATTCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
54663886 ATATCCGGGCTAAATCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
54663926 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
54663966 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
54663987 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.08
40 149 0.90
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:54671787 original size:10 final size:11
Alignment explanation
Indices: 54671772--54671830 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
54671762 CTTTCCTTAT
54671772 ATAATAAT-AA
1 ATAATAATAAA
54671782 ATAATAATAAA
1 ATAATAATAAA
* *
54671793 ATAATATTAAT
1 ATAATAATAAA
* *
54671804 AT-CTCATAAA
1 ATAATAATAAA
*
54671814 ATATTAATAAA
1 ATAATAATAAA
54671825 ATAATA
1 ATAATA
54671831 TTTATCAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
10 14 0.37
11 24 0.63
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:54671798 original size:21 final size:21
Alignment explanation
Indices: 54671772--54671830 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
54671762 CTTTCCTTAT
54671772 ATAATAATAAATAATAATAAA
1 ATAATAATAAATAATAATAAA
* * *
54671793 ATAAT-ATTAATATCTCATAAA
1 ATAATAATAAATA-ATAATAAA
*
54671814 ATATTAATAAAATAATA
1 ATAATAAT-AAATAATA
54671831 TTTATCAATT
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
20 6 0.21
21 15 0.54
22 3 0.11
23 4 0.14
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
ATAATAATAAATAATAATAAA
Found at i:54674793 original size:24 final size:24
Alignment explanation
Indices: 54674522--54674791 Score: 441
Period size: 24 Copynumber: 11.1 Consensus size: 24
54674512 GCAAAGACCA
*
54674522 TATGGCACTATGTGTGCTTGCATATAC
1 TATGGCACTATGTGTGC--G-ATTTAC
54674549 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54674573 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
54674597 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
54674621 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54674645 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
54674669 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
54674693 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
54674717 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
54674741 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
54674765 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
54674789 TAT
1 TAT
54674792 AGTCACATTC
Statistics
Matches: 236, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
24 218 0.92
25 1 0.00
27 17 0.07
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:54682823 original size:24 final size:24
Alignment explanation
Indices: 54682603--54682821 Score: 386
Period size: 24 Copynumber: 9.2 Consensus size: 24
54682593 ATGAGGCTAT
54682603 CTAT-GCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
*
54682626 CTATGGCACTATGTGTGCGATTCA
1 CTATGGCACTATGTGTGCGATTTA
54682650 CTATGGCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
54682674 CTATGGCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
*
54682698 CTATGGCACTATGTGTGCGATTCA
1 CTATGGCACTATGTGTGCGATTTA
54682722 CTATGGCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
54682746 CTATGGCACTATGTGTGCGATTTA
1 CTATGGCACTATGTGTGCGATTTA
*
54682770 CTATGGCACTATGTGTGCGATTTG
1 CTATGGCACTATGTGTGCGATTTA
* *
54682794 CTATAGCACTATGTGTGCGATTTG
1 CTATGGCACTATGTGTGCGATTTA
54682818 CTAT
1 CTAT
54682822 AGTCACATTC
Statistics
Matches: 189, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 4 0.02
24 185 0.98
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
CTATGGCACTATGTGTGCGATTTA
Found at i:54694468 original size:17 final size:17
Alignment explanation
Indices: 54694446--54694479 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54694436 GATAAGTATA
*
54694446 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
54694463 CATTGTCATTACATTTT
1 CATTGTCATTACATTTT
54694480 TGTGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:54705490 original size:41 final size:41
Alignment explanation
Indices: 54705445--54705526 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
54705435 GACTCGATTT
54705445 GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
1 GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
54705486 GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
1 GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
54705527 CCTGTCTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (41 bp):
GGGTAATTGTGGATAGGTTGACCAAATCTGCTCATTTCATA
Found at i:54707383 original size:27 final size:27
Alignment explanation
Indices: 54707342--54707486 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
54707332 TAGATAAGTT
54707342 GTAGAATTACCGAAATACCCATGTAGG
1 GTAGAATTACCGAAATACCCATGTAGG
** * *
54707369 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCATGTAGG
**
54707396 GTAGAATTATTGAAATACCCATGTAGG
1 GTAGAATTACCGAAATACCCATGTAGG
*
54707423 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCATGTAGG
* * *
54707450 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCATGTAGG
54707477 GTTA-AATTAC
1 G-TAGAATTAC
54707487 TATTTTACCC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 103 0.98
28 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCATGTAGG
Found at i:54708247 original size:33 final size:32
Alignment explanation
Indices: 54708198--54708263 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
54708188 CTCGCTGCAA
* *
54708198 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
54708231 TCTGGTGGCCTAGCCACAATATCTGTATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
54708263 T
1 T
54708264 GACTTCGTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:54709637 original size:18 final size:18
Alignment explanation
Indices: 54709611--54709678 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
54709601 CTTGGCCCAT
54709611 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAA
** * *
54709629 TAAAGTAACAGT-AATAG
1 TGCAGTAACAGTAAACAA
54709646 TGCAGTAACAGTAAACAA
1 TGCAGTAACAGTAAACAA
*
54709664 TGCAGTAACAATAAA
1 TGCAGTAACAGTAAA
54709679 TAGTGTAGTA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAA
Found at i:54709657 original size:35 final size:36
Alignment explanation
Indices: 54709611--54709698 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 36
54709601 CTTGGCCCAT
*
54709611 TGCAGTAACAGTAAACAATAAAGTAACAGT-AATAG
1 TGCAGTAACAGTAAACAATAAAGTAACAATAAATAG
**
54709646 TGCAGTAACAGTAAACAATGCAGTAACAATAAATAG
1 TGCAGTAACAGTAAACAATAAAGTAACAATAAATAG
* * *
54709682 TGTAGTAATAATAAACA
1 TGCAGTAACAGTAAACA
54709699 GTATGCAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 27 0.59
36 19 0.41
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (36 bp):
TGCAGTAACAGTAAACAATAAAGTAACAATAAATAG
Found at i:54709688 original size:18 final size:18
Alignment explanation
Indices: 54709632--54709696 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
54709622 TAAACAATAA
*
54709632 AGTAACAGT-AATAGTGC
1 AGTAACAATAAATAGTGC
* * *
54709649 AGTAACAGTAAACAATGC
1 AGTAACAATAAATAGTGC
*
54709667 AGTAACAATAAATAGTGT
1 AGTAACAATAAATAGTGC
*
54709685 AGTAATAATAAA
1 AGTAACAATAAA
54709697 CAGTATGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
17 9 0.22
18 31 0.77
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (18 bp):
AGTAACAATAAATAGTGC
Found at i:54710118 original size:81 final size:80
Alignment explanation
Indices: 54710021--54710196 Score: 237
Period size: 81 Copynumber: 2.2 Consensus size: 80
54710011 ACAAAGGGGT
* * *
54710021 AAAACAGTCATCTTACCATAAAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAATAGTGAT
1 AAAACAGTCATTTTACCATAAAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCAT
54710086 TT-TACCTCATAAAGGA
66 TTAT-CC-CATAAAGGA
* * * * *
54710102 AAAACAGTGATTTTACCTTATAAGGGCAAAATAGTCATTTTACCTCATAAGGGCAAAACAGTCAT
1 AAAACAGTCATTTTACCATAAAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCAT
*
54710167 TTATCCCATAAGGGA
66 TTATCCCATAAAGGA
*
54710182 AAAAAAGTCATTTTA
1 AAAACAGTCATTTTA
54710197 TCGATTAAGG
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 21 0.25
81 61 0.73
82 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (80 bp):
AAAACAGTCATTTTACCATAAAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCAT
TTATCCCATAAAGGA
Found at i:54710198 original size:27 final size:27
Alignment explanation
Indices: 54710021--54710196 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
54710011 ACAAAGGGGT
* *
54710021 AAAACAGTCATCTTACCAT-AAAAGGGC
1 AAAACAGTCATTTTACC-TCATAAGGGC
*
54710048 AAAACAGTCATTTTACCACATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
* * * *
54710075 AAAATAGTGATTTTACCTCATAAAGGA
1 AAAACAGTCATTTTACCTCATAAGGGC
* *
54710102 AAAACAGTGATTTTACCTTATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
*
54710129 AAAATAGTCATTTTACCTCATAAGGGC
1 AAAACAGTCATTTTACCTCATAAGGGC
*
54710156 AAAACAGTCA-TTTATCC-CATAAGGGA
1 AAAACAGTCATTTTA-CCTCATAAGGGC
*
54710182 AAAAAAGTCATTTTA
1 AAAACAGTCATTTTA
54710197 TCGATTAAGG
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.16
27 107 0.84
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
AAAACAGTCATTTTACCTCATAAGGGC
Found at i:54713039 original size:93 final size:93
Alignment explanation
Indices: 54712879--54713047 Score: 241
Period size: 93 Copynumber: 1.8 Consensus size: 93
54712869 GCCCATCAGT
* * * * *
54712879 GAACTTGGACTCAACACAATGAGCTCAGGCGTTCACATCCATAAGTGAACTCGGACTCAACTTAA
1 GAACTCGGACTCAACACAACGAGCTCAGGCGTTCACATCCATAAGTGAAATCAGACTCAACTCAA
54712944 CGAGTTCGGATACCTAGTTACATTTCAC
66 CGAGTTCGGATACCTAGTTACATTTCAC
* * **
54712972 GAACTCGGACTCAACTCAACGAGTTC-GGACGTTTGCATCCATAAGTGAAATCAGACTCAACTCA
1 GAACTCGGACTCAACACAACGAGCTCAGG-CGTTCACATCCATAAGTGAAATCAGACTCAACTCA
54713036 ACGAGTTCGGAT
65 ACGAGTTCGGAT
54713048 GCCCAAATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 64 0.97
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACACAACGAGCTCAGGCGTTCACATCCATAAGTGAAATCAGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATTTCAC
Found at i:54726204 original size:17 final size:17
Alignment explanation
Indices: 54726182--54726247 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
54726172 CTTGGCCCAT
54726182 TGCAGTAACAGTAACAA
1 TGCAGTAACAGTAACAA
54726199 TGCAGTAACAGTAACAA
1 TGCAGTAACAGTAACAA
** * * *
54726216 CACAGTAATAGCAAACAG
1 TGCAGTAACAG-TAACAA
54726234 TGCAGTAACAGTAA
1 TGCAGTAACAGTAA
54726248 ATAGTGCAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 27 0.69
18 12 0.31
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (17 bp):
TGCAGTAACAGTAACAA
Found at i:54726239 original size:18 final size:18
Alignment explanation
Indices: 54726182--54726268 Score: 70
Period size: 18 Copynumber: 4.9 Consensus size: 18
54726172 CTTGGCCCAT
* *
54726182 TGCAGTAACAGT-AACAA
1 TGCAGTAATAGTAAACAG
* *
54726199 TGCAGTAACAGT-AACAA
1 TGCAGTAATAGTAAACAG
** *
54726216 CACAGTAATAGCAAACAG
1 TGCAGTAATAGTAAACAG
* *
54726234 TGCAGTAACAGTAAATAG
1 TGCAGTAATAGTAAACAG
*
54726252 TGCAATAATAGTAAACA
1 TGCAGTAATAGTAAACA
54726269 ATATGCAAGT
Statistics
Matches: 56, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
17 25 0.45
18 31 0.55
ACGTcount: A:0.48, C:0.16, G:0.17, T:0.18
Consensus pattern (18 bp):
TGCAGTAATAGTAAACAG
Found at i:54726773 original size:54 final size:52
Alignment explanation
Indices: 54726582--54726792 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 52
54726572 AACATACATA
* * * * * * ** *
54726582 CATAGGGGTAAAACAATCATCTTACCATAAAAGCGCAAAATAGTCATCATACCA
1 CATAAGGGCAAAAAAATCATTTTACCAT--AAGGGAAAAATAGTCATTTTACCT
* * * *
54726636 CATAAGAGCAAAAAAATGATTTTACC-TCAACGGAAAAAAAGTCATTTTACCT
1 CATAAGGGCAAAAAAATCATTTTACCAT-AAGGGAAAAATAGTCATTTTACCT
54726688 CATAAGGG-AAAAAAAGTCATTTTACCTCATAAGGGAAAAATAGTCATTTTACCT
1 CATAAGGGCAAAAAAA-TCATTTTA-C-CATAAGGGAAAAATAGTCATTTTACCT
* * * *
54726742 CATAAGGGCAAAACAATCATTTTATGCCATAAGTGCAAAATAGTTATTTTA
1 CATAAGGGCAAAAAAATCATTTTA--CCATAAGGGAAAAATAGTCATTTTA
54726793 TCGATTATGG
Statistics
Matches: 128, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
51 7 0.05
52 31 0.24
53 2 0.02
54 80 0.62
55 8 0.06
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (52 bp):
CATAAGGGCAAAAAAATCATTTTACCATAAGGGAAAAATAGTCATTTTACCT
Found at i:54726774 original size:27 final size:27
Alignment explanation
Indices: 54726631--54726765 Score: 154
Period size: 27 Copynumber: 5.1 Consensus size: 27
54726621 ATAGTCATCA
* * *
54726631 TACCACATAAGAGCAAAAAAATGATTT
1 TACCTCATAAGGGCAAAAAAATCATTT
*
54726658 TACCTC--AACGG-AAAAAAAGTCATTT
1 TACCTCATAAGGGCAAAAAAA-TCATTT
54726683 TACCTCATAAGGG-AAAAAAAGTCATTT
1 TACCTCATAAGGGCAAAAAAA-TCATTT
*
54726710 TACCTCATAAGGG-AAAAATAGTCATTT
1 TACCTCATAAGGGCAAAAA-AATCATTT
*
54726737 TACCTCATAAGGGCAAAACAATCATTT
1 TACCTCATAAGGGCAAAAAAATCATTT
54726764 TA
1 TA
54726766 TGCCATAAGT
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
24 7 0.07
25 14 0.15
27 69 0.73
28 5 0.05
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (27 bp):
TACCTCATAAGGGCAAAAAAATCATTT
Found at i:54726790 original size:27 final size:28
Alignment explanation
Indices: 54726670--54726794 Score: 141
Period size: 27 Copynumber: 4.6 Consensus size: 28
54726660 CCTCAACGGA
* *
54726670 AAAAAAGTCATTTTA-CCTCATAAGGGA
1 AAAATAGTCATTTTATCCTCATAAGGGC
* *
54726697 AAAAAAGTCATTTTA-CCTCATAAGGGA
1 AAAATAGTCATTTTATCCTCATAAGGGC
54726724 AAAATAGTCATTTTA-CCTCATAAGGGC
1 AAAATAGTCATTTTATCCTCATAAGGGC
* * * *
54726751 AAAACAATCATTTTATGC-CATAAGTGC
1 AAAATAGTCATTTTATCCTCATAAGGGC
*
54726778 AAAATAGTTATTTTATC
1 AAAATAGTCATTTTATC
54726795 GATTATGGGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
27 86 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (28 bp):
AAAATAGTCATTTTATCCTCATAAGGGC
Found at i:54726935 original size:18 final size:17
Alignment explanation
Indices: 54726909--54726942 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
54726899 TATATTGCGG
54726909 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
54726927 GCCCCTGTGGCCCACA
1 GCCCATGTGGCCCACA
54726943 TAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.47, G:0.26, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:54730632 original size:735 final size:735
Alignment explanation
Indices: 54729216--54730690 Score: 2515
Period size: 735 Copynumber: 2.0 Consensus size: 735
54729206 GGTAGGGTTC
54729216 GACTATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAA
1 GACTATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAA
* *
54729281 AAGCAGAAAGAGTAGAGGAAAAGAGGAGAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGA
66 AAGCAAAAAGAGTAGAGGAAAAGAGGAAAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGA
*
54729346 GGGAAACATTGAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGG
131 GGGAAACATTGAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGA
*
54729411 AATCAATTGAGGAAGAGGGAGAAAAGAAAGAATTGGTTTAGACCTAGGAGCTAAAAGCTGAACAA
196 AATCAATTGAGGAAGAGGGAGAAAAGAAAGAATTGGTTTAGACCCAGGAGCTAAAAGCTGAACAA
* * * *
54729476 CTTTGAGATAGGAGAAATGAGTATTCAGCCAAGGAGAGAAGGGAAAATGATCCAAAACGTAAATC
261 CTTTAAGAGAGGAGAAAGGAGTATCCAGCCAAGGAGAGAAGGGAAAATGATCCAAAACGTAAATC
*
54729541 CGAAAAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCGGTTTCCAAAGAAATGAAG
326 CGAAAAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAG
54729606 CAACCAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGT
391 CAACCAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGT
* *
54729671 GCCTAAAGTTCAAATCCTTCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCTTAAAA
456 GCCTAAAGTTCAAATCCATCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAAA
54729736 TTTGGCTACAAAATCCTCACACCCTCAAACACTCCCCCTAGCATCAGAATCCCACTGACACACAA
521 TTTGGCTACAAAATCCTCACACCCTCAAACACTCCCCCTAGCATCAGAATCCCACTGACACACAA
* *
54729801 ACACTCACACGACATTCAACAAAATAAAATGCACCTTGCGCATAGTAGGACTCAAACTCAAAACC
586 ACACTCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCAAACTCAAAACC
* *
54729866 TCTAGTTATAGTAACAAGCCACCATTCCTTAGACCAGCAGGCCCATTCTGTCATGAAATACTCAC
651 TCTAGTTACAGTAACAAGCCACCACTCCTTAGACCAGCAGGCCCATTCTGTCATGAAATACTCAC
54729931 ATTTATTTAAAAGGCCTACT
716 ATTTATTTAAAAGGCCTACT
*
54729951 GACTATAAGCCAAGGATTCGATAGCCTAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAA
1 GACTATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAA
*
54730016 AAGCAAAAAGAGTAGAGGAAAAGAGGAAAATAACTATTCGGCAACAATACCAATGTGGAAGGAGA
66 AAGCAAAAAGAGTAGAGGAAAAGAGGAAAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGA
*
54730081 GGGAAACATTGAAACTTGAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGA
131 GGGAAACATTGAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGA
54730146 AATCAATTGAGGAAGAGGGAGAAAAGAAAGAATCT-GTTTAGACCCAGGAGCTAAAAGCTGAACA
196 AATCAATTGAGGAAGAGGGAGAAAAGAAAGAAT-TGGTTTAGACCCAGGAGCTAAAAGCTGAACA
* * *
54730210 ACTTTAAGAGAGGAGAAAGGATTATCCGGCCAAGGAGAGAAGGGAAAATGATCCAAAATGTAAAT
260 ACTTTAAGAGAGGAGAAAGGAGTATCCAGCCAAGGAGAGAAGGGAAAATGATCCAAAACGTAAAT
* *
54730275 TCGAAAAGCGCAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAA
325 CCGAAAAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAA
* ** * * *
54730340 GCAACCACAATGAAGTGCTACAACTCACCGAAATCAAATTCTTCCCTAAAGTTGATTCCTTTGAG
390 GCAACCAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAG
* *
54730405 TGCCTAGAGTTCAAATCCATCACACCACTTCCTCTCACCTCAACTCCCCATGATTTTCTCCTAAA
455 TGCCTAAAGTTCAAATCCATCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAA
* * * *
54730470 ATTTGGCTACACAATCCTCACACCCTCAAACACTCCTCCTAGCATCAGAATCCTACTGGCACACA
520 ATTTGGCTACAAAATCCTCACACCCTCAAACACTCCCCCTAGCATCAGAATCCCACTGACACACA
* ** * *
54730535 AGCACTCACACGACATTCAGTAAAATAAAATGCACCCTGCGCATAGCAGGACTCGAACTCAAGAC
585 AACACTCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCAAACTCAAAAC
*
54730600 CTC-AGGTTACAGTAA-AATGCCACCACTCCTTAGACCAGCAGGCCCATTTTGTCATGAAATACT
650 CTCTA-GTTACAGTAACAA-GCCACCACTCCTTAGACCAGCAGGCCCATTCTGTCATGAAATACT
* *
54730663 CACATTTATTTAAAAGGTCTATT
713 CACATTTATTTAAAAGGCCTACT
54730686 GACTA
1 GACTA
54730691 GAGACAGGGT
Statistics
Matches: 694, Mismatches: 43, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
734 3 0.00
735 690 0.99
736 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.20
Consensus pattern (735 bp):
GACTATAAGCCAAGGATTCGATAGCCCAAAAGGAAAACCATAATAACAAGGGAGAAGTTTCTCAA
AAGCAAAAAGAGTAGAGGAAAAGAGGAAAAGAACTATTCGGCAACAATACCAATGTGGAAGGAGA
GGGAAACATTGAAACTTAAAAGAATTGAGAAGGAGGAAGGAAAAAGGGTATTCGGCCAAAGAGGA
AATCAATTGAGGAAGAGGGAGAAAAGAAAGAATTGGTTTAGACCCAGGAGCTAAAAGCTGAACAA
CTTTAAGAGAGGAGAAAGGAGTATCCAGCCAAGGAGAGAAGGGAAAATGATCCAAAACGTAAATC
CGAAAAGCACAAATGAGAGAAACAGTGAAGCCTCTTAGCACCAATCAGTTTCCAAAGAAATGAAG
CAACCAAAACAAAGTGCTAAAACTCACCGAAATCAAATTCTTCCCCAAAGTCGATTCCTTTGAGT
GCCTAAAGTTCAAATCCATCACACCACTTCCTCTCACCTCAACCCCCCATGATTTTCTCCTAAAA
TTTGGCTACAAAATCCTCACACCCTCAAACACTCCCCCTAGCATCAGAATCCCACTGACACACAA
ACACTCACACGACATTCAACAAAATAAAATGCACCCTGCGCATAGCAGGACTCAAACTCAAAACC
TCTAGTTACAGTAACAAGCCACCACTCCTTAGACCAGCAGGCCCATTCTGTCATGAAATACTCAC
ATTTATTTAAAAGGCCTACT
Found at i:54733101 original size:41 final size:41
Alignment explanation
Indices: 54733056--54733173 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
54733046 TGAAAGATAA
54733056 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
54733097 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54733127 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
54733168 ATGTAG
1 ATGTAG
54733174 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:54733110 original size:71 final size:71
Alignment explanation
Indices: 54733024--54733187 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
54733014 GAGATGTATC
*
54733024 CCATGTAGACAAGAGAGCTATGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54733089 AGGACA
66 AGGACA
54733095 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
54733160 AGGACA
66 AGGACA
54733166 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
54733188 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:54749160 original size:40 final size:40
Alignment explanation
Indices: 54749058--54749241 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
54749048 AAATTGAATG
* * * * * *
54749058 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54749098 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
54749138 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
54749178 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54749218 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54749242 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:54749266 original size:80 final size:80
Alignment explanation
Indices: 54749098--54749286 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
54749088 GCTGGAAATT
* * *
54749098 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
54749163 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
54749178 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
54749241 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
54749258 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54749287 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:54757255 original size:40 final size:40
Alignment explanation
Indices: 54757153--54757336 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
54757143 AAATTGAATG
* * * * * *
54757153 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54757193 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
54757233 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
54757273 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54757313 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54757337 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:54757361 original size:80 final size:80
Alignment explanation
Indices: 54757193--54757381 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
54757183 GCTGGAAATT
* * *
54757193 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
54757258 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
54757273 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
54757336 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
54757353 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54757382 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:54759663 original size:30 final size:30
Alignment explanation
Indices: 54759629--54759692 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
54759619 AGAATAAGAT
54759629 GTTTAGGGGCAAAAGTGTAAATATGCAAAA
1 GTTTAGGGGCAAAAGTGTAAATATGCAAAA
* * * *
54759659 GTTTAGGGGCAAAATTGTAATTTTTCAAAA
1 GTTTAGGGGCAAAAGTGTAAATATGCAAAA
54759689 GTTT
1 GTTT
54759693 GAGTTAAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (30 bp):
GTTTAGGGGCAAAAGTGTAAATATGCAAAA
Found at i:54764737 original size:36 final size:35
Alignment explanation
Indices: 54764638--54764737 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
54764628 GGAAATTATA
* *
54764638 ACCGGGTTAAGACCCGAAGGCA-ATGTGCTAGCTAT
1 ACCGGGCTAAGACCCGAAGGCATTTGTGC-AGCTAT
* * *
54764673 ACCGGGCTAAGA-CCGAAGGCATTCGTGCAGTTGT
1 ACCGGGCTAAGACCCGAAGGCATTTGTGCAGCTAT
54764707 ATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-CCGGGCTAAGACCCGAAGGCATTTGTGCA
54764738 AATCGTGATA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
34 14 0.25
35 26 0.46
36 16 0.29
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (35 bp):
ACCGGGCTAAGACCCGAAGGCATTTGTGCAGCTAT
Found at i:54772764 original size:40 final size:40
Alignment explanation
Indices: 54772662--54772845 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
54772652 AAATTGAATG
* * * * * *
54772662 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54772702 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
54772742 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
54772782 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
54772822 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54772846 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:54772870 original size:80 final size:80
Alignment explanation
Indices: 54772702--54772890 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
54772692 GCTGGAAATT
* * *
54772702 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
54772767 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
54772782 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
54772845 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
54772862 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
54772891 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:54775977 original size:68 final size:65
Alignment explanation
Indices: 54775905--54776053 Score: 167
Period size: 66 Copynumber: 2.2 Consensus size: 65
54775895 CATCATGTGT
* * * *
54775905 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCAAGGTCGCATGCGTGATAC-AGTGAAGGACACCA
54775968 TGTAG
61 TGTAG
* * *
54775973 ACAAGAGAGCTACGAGATATATGTAGCAAGGTCGCATGCGTGGTTCAGGTGAAGGACACCATGTA
1 ACAAGAGAGCTACGACATATATGTAGCAAGGTCGCATGCGTGATACA-GTGAAGGACACCATGTA
54776038 G
65 G
54776039 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
54776054 GATAAATTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
63 1 0.01
64 22 0.31
65 5 0.07
66 30 0.42
68 13 0.18
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCAAGGTCGCATGCGTGATACAGTGAAGGACACCATGTAG
Found at i:54782425 original size:16 final size:17
Alignment explanation
Indices: 54782394--54782426 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54782384 TTCATAAGTA
54782394 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
54782411 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
54782427 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:54782981 original size:46 final size:46
Alignment explanation
Indices: 54782712--54782985 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
54782702 TTTGACATGA
* * * * *
54782712 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * *
54782758 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* * * * * *
54782804 TGCCAAGGTATCTTTCAACCTTGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
54782850 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
54782896 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
54782942 TGCCATGGTATCTTTCAACCATGGTGTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
54782986 AGAACACACT
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 202 0.98
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:54783403 original size:273 final size:273
Alignment explanation
Indices: 54782916--54783441 Score: 908
Period size: 273 Copynumber: 1.9 Consensus size: 273
54782906 TCTTTCAACC
* **
54782916 ATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTGTTACACATTTCAT
1 ATGGTCTTACACATTTCATATCAGGTCGCCATGGTATCTTTCAACCATGGACTTACACATTTCAT
*
54782981 ATCAGAGAACACACTCCCACGAACCTCATCCTTATAGTGGGATTACCAGTCCAGGCTAAATCCCC
66 ATCAGAGAACACACTCCCACGAACCTCATCCTTATACTGGGATTACCAGTCCAGGCTAAATCCCC
* * * * *
54783046 TGTAATATAAACTCATAGAGTATTTTCGGGATTACCAGTCTAGCCTAAATCCCTTGCAACAACAA
131 TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGCCTAAATCCCCTGAAACAACAA
54783111 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTCAGATTAC
196 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTCAGATTAC
54783176 CCGTCCAAGCTAA
261 CCGTCCAAGCTAA
54783189 ATGGTCTTACACATTTCATATCAGGTCGCCATGGTATCTTTCAACCATGGACTTACACATTTCAT
1 ATGGTCTTACACATTTCATATCAGGTCGCCATGGTATCTTTCAACCATGGACTTACACATTTCAT
* * *
54783254 ATCAGAGAGCACACTCCCGCGAACCTCATCCTTATACTGGGATTACCAGTCTAGGCTAAATCCCC
66 ATCAGAGAACACACTCCCACGAACCTCATCCTTATACTGGGATTACCAGTCCAGGCTAAATCCCC
* * *
54783319 TGTAATGTAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGGCTAAATCCCCTGAAACGACAA
131 TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGCCTAAATCCCCTGAAACAACAA
*
54783384 TTACTCTAATGATCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTC
196 TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTC
54783442 GGGAGGGCTA
Statistics
Matches: 237, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
273 237 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (273 bp):
ATGGTCTTACACATTTCATATCAGGTCGCCATGGTATCTTTCAACCATGGACTTACACATTTCAT
ATCAGAGAACACACTCCCACGAACCTCATCCTTATACTGGGATTACCAGTCCAGGCTAAATCCCC
TGTAATATAAACTCATAGAGTATTGTCAGGATTACCAGTCCAGCCTAAATCCCCTGAAACAACAA
TTACTCTAATGAGCTTGGATCTGAATTACCAGTCCAGGCTAAATTTAGACCCTGATTCAGATTAC
CCGTCCAAGCTAA
Found at i:54784880 original size:47 final size:47
Alignment explanation
Indices: 54784826--54784917 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
54784816 TTTCTATTTC
*
54784826 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTTCTTGCTATAT
1 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTATAT
54784873 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTAT
1 TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTAT
54784918 CTTTCTCTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (47 bp):
TTGAATCCAACTTGATATTCTTGCTCCCCATCATCTCCTTGCTATAT
Found at i:54789360 original size:39 final size:39
Alignment explanation
Indices: 54789240--54789362 Score: 183
Period size: 39 Copynumber: 3.2 Consensus size: 39
54789230 TGTGTATGAA
*
54789240 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
54789279 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
54789318 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
54789357 TGTGCG
1 TGTGCG
54789363 GGTTACCATA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:54789378 original size:39 final size:39
Alignment explanation
Indices: 54789257--54789398 Score: 122
Period size: 39 Copynumber: 3.6 Consensus size: 39
54789247 ATTGTGATAT
* * * * ** *
54789257 CCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACCATAA
* * *** *
54789296 CCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACCATAA
* *
54789335 CCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACCATAA
* *
54789374 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGT-CCGAAGGCATTTG
54789399 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 76 0.86
40 12 0.14
ACGTcount: A:0.22, C:0.23, G:0.33, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:54789378 original size:78 final size:79
Alignment explanation
Indices: 54789240--54789393 Score: 202
Period size: 78 Copynumber: 2.0 Consensus size: 79
54789230 TGTGTATGAA
** *
54789240 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTATGATATCCGGGCTAA
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAA
54789305 G-CCCGAAGGCAAT
66 GTCCCGAAGGCAAT
* * * * * * * *
54789318 TGTGCGAGTTGTGATATCCGGGTTAAGTCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAA
54789383 GTCCCGAAGGC
66 GTCCCGAAGGC
54789394 GTTTGAACGA
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
78 55 0.86
79 9 0.14
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (79 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAATGGTGCGAGCTACCATAACCGGGCTAA
GTCCCGAAGGCAAT
Found at i:54797305 original size:40 final size:39
Alignment explanation
Indices: 54797155--54797307 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
54797145 GAATGTTCGA
* *
54797155 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
54797194 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
54797233 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* **
54797272 GTGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
54797308 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 90 0.85
40 16 0.15
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:54797323 original size:40 final size:39
Alignment explanation
Indices: 54797156--54797338 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
54797146 AATGTTCGAG
* * *
54797156 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
54797195 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
54797234 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
54797273 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
54797313 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
54797339 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:54802847 original size:40 final size:39
Alignment explanation
Indices: 54802656--54802880 Score: 276
Period size: 39 Copynumber: 5.7 Consensus size: 39
54802646 TGAATGTTCG
* * *
54802656 TGTGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-
1 TGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGT
*
54802695 TGAAT-AAATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
1 TG--TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
*
54802735 TGTGATATCTGGGCTAAGCCCGAAGGCAATTGTGCGAGT
1 TGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
54802774 TGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
1 TGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
* * *
54802813 TGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGT
1 TGTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGT
* * *
54802853 TACT-ATAACCGGGCTATGTCCCGAAGGC
1 T-GTGATATCCGGGCTAAG-CCCGAAGGC
54802881 TTTTGAACGA
Statistics
Matches: 166, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 108 0.65
40 55 0.33
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGT
Found at i:54807249 original size:27 final size:27
Alignment explanation
Indices: 54807219--54807538 Score: 206
Period size: 27 Copynumber: 11.9 Consensus size: 27
54807209 AGAATTACTG
* *
54807219 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTTGATTTATAAAATTACCA
* *
54807246 AAATACCCTCGA-TTAGCAAAATTACCA
1 AAATACCCTTGATTTA-TAAAATTACCA
* * *
54807273 AAATACCCCT-AGTTTGTATAATTACCA
1 AAATACCCTTGA-TTTATAAAATTACCA
* * * *
54807300 AAATA-CCTCTGATTTGTGAAATTATCG
1 AAATACCCT-TGATTTATAAAATTACCA
* **
54807327 AAATACCCTCGACCTA-AAAATTACCA
1 AAATACCCTTGATTTATAAAATTACCA
* * ** *
54807353 AAATTCCTTTGACCTAGAAAATTACCA
1 AAATACCCTTGATTTATAAAATTACCA
* * * *
54807380 AAATACCCTCGACTTGTAAAATTACCG
1 AAATACCCTTGATTTATAAAATTACCA
* * *
54807407 AAATACCCTCGATTTGTAAAATTTCCA
1 AAATACCCTTGATTTATAAAATTACCA
** ***
54807434 AAATACGCC-TGATTTGGAAAATTATTG
1 AAATAC-CCTTGATTTATAAAATTACCA
* * *
54807461 AAATACCTTTGATTTATAGAATTACAA
1 AAATACCCTTGATTTATAAAATTACCA
*
54807488 AAATACCC-TGATTTATAGAATTA-CA
1 AAATACCCTTGATTTATAAAATTACCA
54807513 GAAATACCCTTGACTTTCA-AAAATTA
1 -AAATACCCTTGA-TTT-ATAAAATTA
54807539 GTGAAATATC
Statistics
Matches: 232, Mismatches: 48, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
25 1 0.00
26 50 0.22
27 163 0.70
28 17 0.07
29 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGATTTATAAAATTACCA
Found at i:54807403 original size:107 final size:107
Alignment explanation
Indices: 54807236--54807429 Score: 259
Period size: 107 Copynumber: 1.8 Consensus size: 107
54807226 CTTGGTTTAC
* * * *
54807236 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCTAGTTTGTATAATTACCAA
1 AAAATTACCAAAATACCCTCGACTAGCAAAATTACCAAAATACCCCGAGCTTGTAAAATTACCAA
*
54807301 AATA-CCTCTGATTTGTGAAATTATCGAAATACCCTCGACCTA
66 AATACCCTC-GATTTGTAAAATTATCGAAATACCCTCGACCTA
* * *
54807343 AAAATTACCAAAATTCCTTTGACCTAG-AAAATTACCAAAATACCCTCGA-CTTGTAAAATTACC
1 AAAATTACCAAAATACCCTCGA-CTAGCAAAATTACCAAAATACCC-CGAGCTTGTAAAATTACC
*
54807406 GAAATACCCTCGATTTGTAAAATT
64 AAAATACCCTCGATTTGTAAAATT
54807430 TCCAAAATAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
107 66 0.88
108 9 0.12
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (107 bp):
AAAATTACCAAAATACCCTCGACTAGCAAAATTACCAAAATACCCCGAGCTTGTAAAATTACCAA
AATACCCTCGATTTGTAAAATTATCGAAATACCCTCGACCTA
Found at i:54807510 original size:134 final size:135
Alignment explanation
Indices: 54807208--54807528 Score: 332
Period size: 134 Copynumber: 2.4 Consensus size: 135
54807198 TTGCTATGGG
** *
54807208 TAGAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TTAGCAAAATTACC
1 TAGAATTACAAAAATACCC-TGATTTACAAAATTACCAAAATACCCTCGACTTAGCAAAATTACC
* *
54807272 AAAATACCCCTAGTTTGTATAATTACCAAAATACCTCTGATTTGTGAAATTATCGAAATACCCTC
65 AAAATACCCCGAGTTTGTAAAATTACCAAAATACCTCTGATTTGTGAAATTATCGAAATACCCTC
54807337 GACCTA
130 GACCTA
* * * * ** * *
54807343 -AAAATTACCAAAATTCCTTTGACCTAGAAAATTACCAAAATACCCTCGACTT-GTAAAATTACC
1 TAGAATTACAAAAATACC-CTGATTTACAAAATTACCAAAATACCCTCGACTTAGCAAAATTACC
* * *
54807406 GAAATACCCTCGA-TTTGTAAAATTTCCAAAATACGC-CTGATTTG-GAAAATTATTGAAATACC
65 AAAATACCC-CGAGTTTGTAAAATTACCAAAATAC-CTCTGATTTGTG-AAATTATCGAAATACC
* * **
54807468 TTTGATTTA
127 CTCGACCTA
* * *
54807477 TAGAATTACAAAAATACCCTGATTTATAGAATTA-CAGAAATACCCTTGACTT
1 TAGAATTACAAAAATACCCTGATTTACAAAATTACCA-AAATACCCTCGACTT
54807529 TCAAAAATTA
Statistics
Matches: 151, Mismatches: 28, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
133 3 0.02
134 129 0.85
135 19 0.13
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (135 bp):
TAGAATTACAAAAATACCCTGATTTACAAAATTACCAAAATACCCTCGACTTAGCAAAATTACCA
AAATACCCCGAGTTTGTAAAATTACCAAAATACCTCTGATTTGTGAAATTATCGAAATACCCTCG
ACCTA
Found at i:54807546 original size:108 final size:108
Alignment explanation
Indices: 54807372--54807604 Score: 245
Period size: 108 Copynumber: 2.2 Consensus size: 108
54807362 TGACCTAGAA
* * ** *
54807372 AATTACCAAAATACCCTCGACTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTTCCAAAA
1 AATTACCAAAATACCCTCGACTTATAAAATTACAGAAATACCCTCGATTTCAAAAATTACCAAAA
* * *
54807437 TA-CGCCTGATTTGGAAAATTATTGAAATACCTTTGATTTATAG
66 TATCACCTG-TTTGCAAAATTATTGAAATACCCTTGATTTATAG
* * * * ***
54807480 AATTACAAAAATACCCT-GATTTATAGAATTACAGAAATACCCTTGACTTTCAAAAATTAGTGAA
1 AATTACCAAAATACCCTCGACTTATAAAATTACAGAAATACCCTCGA-TTTCAAAAATTACCAAA
** * *
54807544 ATATCATTTGTTTGCAAAATTATTGAAATACCCTTGGTTTGTAG
65 ATATCACCTGTTTGCAAAATTATTGAAATACCCTTGATTTATAG
* *
54807588 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
54807605 TGTAGGGTGA
Statistics
Matches: 101, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
107 24 0.24
108 74 0.73
109 3 0.03
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (108 bp):
AATTACCAAAATACCCTCGACTTATAAAATTACAGAAATACCCTCGATTTCAAAAATTACCAAAA
TATCACCTGTTTGCAAAATTATTGAAATACCCTTGATTTATAG
Found at i:54807583 original size:27 final size:28
Alignment explanation
Indices: 54807513--54807584 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
54807503 TAGAATTACA
*
54807513 GAAATACCCTTGACTTT-CAAAAATTAGT
1 GAAATACCCTTG-GTTTGCAAAAATTAGT
* * * *
54807541 GAAATATCATTTGTTTGC-AAAATTATT
1 GAAATACCCTTGGTTTGCAAAAATTAGT
54807568 GAAATACCCTTGGTTTG
1 GAAATACCCTTGGTTTG
54807585 TAGATTTACC
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (28 bp):
GAAATACCCTTGGTTTGCAAAAATTAGT
Found at i:54809080 original size:83 final size:83
Alignment explanation
Indices: 54808945--54809104 Score: 257
Period size: 83 Copynumber: 1.9 Consensus size: 83
54808935 TGGCCAGAGG
* * *
54808945 TTTTAAATAGTAAGAAGGGTTTTCAATGAGAACACGGTTTTCGAAAAACACTTCAATGTGACACG
1 TTTTAAATAGTAAGAAGGATTTTCAATAAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
54809010 CAAGATTTCGGCCATAAA
66 CAAGATTTCGGCCATAAA
* *
54809028 TTTTAAATAGTAAGAAGGATTTTCAATAAGAACATGGTTTTCGAAAATCACTTCAAAGTGACACG
1 TTTTAAATAGTAAGAAGGATTTTCAATAAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
* *
54809093 CCAGGTTTCGGC
66 CAAGATTTCGGC
54809105 TATAGTGTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 70 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (83 bp):
TTTTAAATAGTAAGAAGGATTTTCAATAAGAACACGGTTTTCGAAAAACACTTCAAAGTGACACG
CAAGATTTCGGCCATAAA
Found at i:54811596 original size:42 final size:43
Alignment explanation
Indices: 54811525--54811693 Score: 132
Period size: 42 Copynumber: 4.0 Consensus size: 43
54811515 CTCATACAAC
*
54811525 GCCAACGTCCCAGAC-GTGGTCTTACATGTAATCACATATCGAT
1 GCCAACTTCCCAGACAG-GGTCTTACATGTAATCACATATCGAT
* * *
54811568 GCC-ACTTCCCAGACAGGGTCTTATATGTACTCATATA-CGAT
1 GCCAACTTCCCAGACAGGGTCTTACATGTAATCACATATCGAT
* * ** ** * *
54811609 ACCGA-TGTCCCAGACATAGTCTTACACATAAATTACAAATCGAT
1 GCCAACT-TCCCAGACAGGGTCTTACATGT-AATCACATATCGAT
* * *
54811653 GCCAACGTCCCAGACATGGTCTTACATGAAAT-AGCATATCG
1 GCCAACTTCCCAGACAGGGTCTTACATGTAATCA-CATATCG
54811694 GAATCCTATG
Statistics
Matches: 97, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
41 7 0.07
42 47 0.48
43 18 0.19
44 25 0.26
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAACTTCCCAGACAGGGTCTTACATGTAATCACATATCGAT
Found at i:54815903 original size:29 final size:29
Alignment explanation
Indices: 54815815--54815917 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
54815805 TACTCGATCA
** *
54815815 CGCACACTTAGTGCCATGTGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ACATTTCAAGCT
* * *** *
54815844 CGCACACATAGTGCCATATAGCCCAAACT
1 CGCACACTTAGTGCCATACATTTCAAGCT
54815873 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCATACATTTCAAGCT
*
54815902 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
54815918 ATCTCGTCAT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 1 0.02
29 57 0.98
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACATTTCAAGCT
Found at i:54823549 original size:28 final size:28
Alignment explanation
Indices: 54823484--54823582 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
54823474 CATGAGATTG
* * *
54823484 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
* *
54823513 GTACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
54823541 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
54823569 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
54823583 GGCTTATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.72
29 16 0.26
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:54826917 original size:236 final size:236
Alignment explanation
Indices: 54826504--54826976 Score: 919
Period size: 236 Copynumber: 2.0 Consensus size: 236
54826494 ATTTGTGGGG
*
54826504 TAGCTTATTCTGTAGAATAGCTGAGCAGACTGCGTTTAGCTCCACATGCGACGCTTCGTCCAACT
1 TAGCTTATTCTGTAGAATAGCTGAGCAGACTGCATTTAGCTCCACATGCGACGCTTCGTCCAACT
54826569 TCCGCTTATTTACAAAAAGCTCTTTTAAAAATTTCATTACATTCGACATCTGCAACAGAGCTTCA
66 TCCGCTTATTTACAAAAAGCTCTTTTAAAAATTTCATTACATTCGACATCTGCAACAGAGCTTCA
54826634 ATAAACGGTAAGTTAATATGTAATTTTTTCAAAAGTTTAAGGAATTTACCGAATTGTTCATCTGA
131 ATAAACGGTAAGTTAATATGTAATTTTTTCAAAAGTTTAAGGAATTTACCGAATTGTTCATCTGA
*
54826699 GCGGTCTTTCCTTGTCGTGTTAGGGTATGGAATACGAGGTT
196 GCAGTCTTTCCTTGTCGTGTTAGGGTATGGAATACGAGGTT
54826740 TAGCTTATTCTGTAGAATAGCTGAGCAGACTGCATTTAGCTCCACATGCGACGCTTCGTCCAACT
1 TAGCTTATTCTGTAGAATAGCTGAGCAGACTGCATTTAGCTCCACATGCGACGCTTCGTCCAACT
54826805 TCCGCTTATTTACAAAAAGCTCTTTTAAAAATTTCATTACATTCGACATCTGCAACAGAGCTTCA
66 TCCGCTTATTTACAAAAAGCTCTTTTAAAAATTTCATTACATTCGACATCTGCAACAGAGCTTCA
*
54826870 ATAAACGGTAAGTTAATATGTAATTTTTTTAAAAGTTTAAGGAATTTACCGAATTGTTCATCTGA
131 ATAAACGGTAAGTTAATATGTAATTTTTTCAAAAGTTTAAGGAATTTACCGAATTGTTCATCTGA
54826935 GCAGTCTTTCCTTGTCGTGTTAGGGTATGGAATACGAGGTT
196 GCAGTCTTTCCTTGTCGTGTTAGGGTATGGAATACGAGGTT
54826976 T
1 T
54826977 GTATTCTTCA
Statistics
Matches: 234, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
236 234 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (236 bp):
TAGCTTATTCTGTAGAATAGCTGAGCAGACTGCATTTAGCTCCACATGCGACGCTTCGTCCAACT
TCCGCTTATTTACAAAAAGCTCTTTTAAAAATTTCATTACATTCGACATCTGCAACAGAGCTTCA
ATAAACGGTAAGTTAATATGTAATTTTTTCAAAAGTTTAAGGAATTTACCGAATTGTTCATCTGA
GCAGTCTTTCCTTGTCGTGTTAGGGTATGGAATACGAGGTT
Found at i:54828573 original size:5 final size:5
Alignment explanation
Indices: 54828563--54828587 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54828553 AGTAATAATA
54828563 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
54828588 GCAAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:54830488 original size:22 final size:22
Alignment explanation
Indices: 54830463--54830512 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
54830453 CTCAACGCCG
54830463 TAAACAAGACAACACATAGCCA
1 TAAACAAGACAACACATAGCCA
* * * * *
54830485 TAAAGAAGATAGCACATAGTCG
1 TAAACAAGACAACACATAGCCA
54830507 TAAACA
1 TAAACA
54830513 TCGCAACAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.52, C:0.20, G:0.14, T:0.14
Consensus pattern (22 bp):
TAAACAAGACAACACATAGCCA
Found at i:54830979 original size:41 final size:41
Alignment explanation
Indices: 54830921--54831043 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
54830911 AAAAGCCACC
* *
54830921 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
*
54830962 GGTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
* *
54831003 GGTGGATCCACAATCGTCAAGCAACTATGCGATCCTCAATT
1 GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
54831044 TCTTCCTTCG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
GGTGGATCCACGATCGTCAAGCAACCATGCGATCCTCAATT
Found at i:54831333 original size:27 final size:27
Alignment explanation
Indices: 54831303--54831355 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
54831293 GGTAAATCTA
54831303 CAAACCAATAGTATTT-TGATAATTTTG
1 CAAACCAATAGTATTTCTG-TAATTTTG
*
54831330 CAAACCAATGGTATTTCTGTAATTTT
1 CAAACCAATAGTATTTCTGTAATTTT
54831356 TGAAAGTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (27 bp):
CAAACCAATAGTATTTCTGTAATTTTG
Found at i:54831396 original size:27 final size:27
Alignment explanation
Indices: 54831313--54831615 Score: 175
Period size: 27 Copynumber: 11.3 Consensus size: 27
54831303 CAAACCAATA
* *
54831313 GTATTT-TGATAATTTTGC-AAACCAATG
1 GTATTTCTG-TAATTTT-CTAAATCAAGG
54831340 GTATTTCTGTAATTTT-TGAAAGTCAAGG
1 GTATTTCTGTAATTTTCT-AAA-TCAAGG
* * *
54831368 GTATTTTTGTAATTTTCTAAATTAGGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
*
54831395 GTATTTCTGTAATTTTCCAAATCAAAGG
1 GTATTTCTGTAATTTTCTAAATC-AAGG
** * * **
54831423 G-ATTTCAATAATTTTAC-AAGTCGACA
1 GTATTTCTGTAATTTT-CTAAATCAAGG
* ** *
54831449 GTATTTCGGTAATTTTAC-AGGTCGAGG
1 GTATTTCTGTAATTTT-CTAAATCAAGG
54831476 GTATTT-TGGTAA-TTTCATAAATCAAGG
1 GTATTTCT-GTAATTTTC-TAAATCAAGG
*
54831503 GTATTT-TGGTAATTTTAC-AAATCAGGG
1 GTATTTCT-GTAATTTT-CTAAATCAAGG
54831530 GTATTT-TGGTAATTTTGCT-AATCAAGG
1 GTATTTCT-GTAATTTT-CTAAATCAAGG
* * *
54831557 GTA-TTCAGTAATTTTGTAAACCAAGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
* * *
54831583 GTA-TTCAGTAATTTTGTAAACCAAGG
1 GTATTTCTGTAATTTTCTAAATCAAGG
*
54831609 ATATTTC
1 GTATTTC
54831616 AATAATTTAC
Statistics
Matches: 228, Mismatches: 31, Indels: 34
0.78 0.11 0.12
Matches are distributed among these distances:
25 2 0.01
26 50 0.22
27 142 0.62
28 32 0.14
29 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GTATTTCTGTAATTTTCTAAATCAAGG
Found at i:54831581 original size:26 final size:26
Alignment explanation
Indices: 54831538--54831623 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
54831528 GGGTATTTTG
*
54831538 GTAATTTTGCT-AATCAAGGGTATTCA
1 GTAATTTTG-TAAACCAAGGGTATTCA
54831564 GTAATTTTGTAAACCAAGGGTATTCA
1 GTAATTTTGTAAACCAAGGGTATTCA
*
54831590 GTAATTTTGTAAACCAAGGATATTTCA
1 GTAATTTTGTAAACCAAGGGTA-TTCA
*
54831617 ATAATTT
1 GTAATTT
54831624 ACCCTATTGG
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
25 1 0.02
26 44 0.80
27 10 0.18
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (26 bp):
GTAATTTTGTAAACCAAGGGTATTCA
Found at i:54833911 original size:24 final size:24
Alignment explanation
Indices: 54833884--54833930 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
54833874 ATATGTTGAC
54833884 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
54833908 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
54833931 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:54833964 original size:24 final size:24
Alignment explanation
Indices: 54833894--54833956 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
54833884 ATTCAAATCA
* * * *
54833894 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
54833918 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
54833942 GCACACATAGTGCCA
1 GCACACATAGTGCCA
54833957 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:54840240 original size:28 final size:27
Alignment explanation
Indices: 54840196--54840250 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
54840186 TGTTTTATTT
54840196 TATTTTATTACATTATAATATATTAATTAA
1 TATTTTA-TACATTATAAT-T-TTAATTAA
54840226 TATTTTA-ACATTATAATTTTAATTA
1 TATTTTATACATTATAATTTTAATTA
54840251 GTAAACCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.28
27 1 0.04
28 10 0.40
30 7 0.28
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTATACATTATAATTTTAATTAA
Found at i:54846228 original size:29 final size:29
Alignment explanation
Indices: 54846161--54846285 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
54846151 AAGTCTATAT
* *
54846161 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54846189 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
54846218 GCATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54846247 ACATTCATATGGACCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
54846276 ACATTCATAT
1 ACATTCATAT
54846286 TCATACTTTC
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 21 0.24
29 67 0.76
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:54846538 original size:16 final size:16
Alignment explanation
Indices: 54846496--54846530 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54846486 GTAGCCAAAC
*
54846496 TTTCAAATTTTCGACA
1 TTTCAACTTTTCGACA
*
54846512 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGACA
54846528 TTT
1 TTT
54846531 TGACTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.49
Consensus pattern (16 bp):
TTTCAACTTTTCGACA
Found at i:54851644 original size:93 final size:93
Alignment explanation
Indices: 54851532--54851703 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54851522 GCCCATAAGT
* *
54851532 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54851597 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
54851625 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54851690 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
54851704 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54851699 original size:46 final size:46
Alignment explanation
Indices: 54851524--54851699 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
54851514 TGTAACCCGC
* *
54851524 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54851570 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
54851616 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
54851663 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54851700 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54856413 original size:27 final size:28
Alignment explanation
Indices: 54856367--54856424 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
54856357 TACCTAGGCC
54856367 CCCTATATATGATAAAATGACTATTTTG
1 CCCTATATATGATAAAATGACTATTTTG
* * *
54856395 CCCT-TATATGTTAAGATGACTGTTTTG
1 CCCTATATATGATAAAATGACTATTTTG
54856422 CCC
1 CCC
54856425 CTATGTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (28 bp):
CCCTATATATGATAAAATGACTATTTTG
Found at i:54858244 original size:46 final size:46
Alignment explanation
Indices: 54858177--54858347 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
54858167 TGTAACCCGC
*
54858177 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * * *
54858223 CCATAAGTGAACTCAGACTCAACTC--CGAGCTCGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG--GGC-ATTTGCAT
* * * *
54858270 CTC-T---CGAACTCGGACTCAACTCAACGAG-TTGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
54858312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
54858348 ATGCCAAATA
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 2 0.02
44 24 0.24
45 25 0.25
46 33 0.33
47 7 0.07
48 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:54861352 original size:567 final size:566
Alignment explanation
Indices: 54860244--54861376 Score: 2000
Period size: 567 Copynumber: 2.0 Consensus size: 566
54860234 AGGAAGTCTT
***
54860244 TGTAATATCCTGAATTAGGGCTTAATTGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAA
1 TGTAATATCCTGAATTAGGGCTTAATCAAAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAA
*
54860309 TAATTATTTTATAATTATTTTGATGATTATGATATGATTGCATGATTGTGTGAAAATTTCATGAT
66 TAATTATTTTATAATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCATGAT
*
54860374 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGTAAAACTTG
131 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
** * *
54860439 CATTCTAGAAGTTTTTAGTATGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATT
196 CATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGGTCTTAAATAACAATT
* *
54860504 TGACCAGTTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTGGAAAGTTTAGTAGTA
261 TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTAGAAAGTTTAGTAGTA
*
54860569 AGGGTATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
326 AGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
*
54860634 ATCTTCTTCATTAGGCCGAAATTTCAAGGGTTCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
391 ATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
*
54860699 CTCCATAGTAAGTGATTCCAAGCCCCATTTTTAATGTTCTTTACGTTTTTGGAATCCCGGTAGCT
456 CTCCATAGTAAGTGATTCCAAGCCCCATTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCT
*
54860764 CGATTAAGCTTATGTTAGCAATAATTCAACCTAGGGTTTATATTTG
521 CGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
*
54860810 TGTAATATCCTGAATTAGGGCTTAATCAAAATAGTGGTTTCGTGACCACAAATCTGAGATAGAAA
1 TGTAATATCCTGAATTAGGGCTTAATCAAAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAA
*
54860875 TAATTATTTTATAATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCGTGAT
66 TAATTATTTTATAATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCATGAT
*
54860940 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAATTTG
131 GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
*
54861005 CATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATTAGGAGGTCTTAAATAACAATT
196 CATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGGTCTTAAATAACAATT
*
54861070 TGACCAATTTCTAAG-TCTATGGACAAAAATT-GGACATGGATGGAATTTTTAGAAAGTTTAGTA
261 TGACCAATTT-TAAGTTC-ATGGAC-AAAATTAGGACATGGAAGGAATTTTTAGAAAGTTTAGTA
*
54861133 GTAAGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAGAACAAAATTAAAAGCCAATTTTTG
323 GTAAGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTG
* *
54861198 TCCATCTTTTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGTTTCAAGCTTCC
388 TCCATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCC
* *
54861263 AAGCTCCATAGTAAGTGATTCCAAGCCTCGTTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAA
453 AAGCTCCATAGTAAGTGATTCCAAGCCCCATTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAA
54861328 GCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
518 GCTCGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
54861377 GAAAAATACC
Statistics
Matches: 539, Mismatches: 25, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
566 258 0.48
567 275 0.51
568 6 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (566 bp):
TGTAATATCCTGAATTAGGGCTTAATCAAAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAA
TAATTATTTTATAATTATTTTGATGAATATGATATGATTGCATGATTGTGTGAAAATTTCATGAT
GAAATTCTATGCCTAAAGTGCTTAAATTGAAAGTAGGGACTAAATCGAATAAGTTGCAAAACTTG
CATTCTAGAAGTTTTTAGTATGAAATTGCATTGAAATATTAATGAGGAGGTCTTAAATAACAATT
TGACCAATTTTAAGTTCATGGACAAAATTAGGACATGGAAGGAATTTTTAGAAAGTTTAGTAGTA
AGGGCATTTTGGTCATTTAGTTATTAAAATGAATTAAAAACAAAATTAAAAGCCAATTTTTGTCC
ATCTTCTTCATTAGGCCGAAATTTCAAGGGTCCTCCATAGCTAGGGTTTGCTTCAAGCTTCCAAG
CTCCATAGTAAGTGATTCCAAGCCCCATTTTTAATGTTCTTTACGTTTTTGGAATCCCGGAAGCT
CGATTAAGCTTATGCTAGCAATAATTCAACCTAGGGTTTATATTTG
Found at i:54862263 original size:93 final size:93
Alignment explanation
Indices: 54862104--54862274 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
54862094 GGATGGTTGA
* * *
54862104 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
54862169 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
54862197 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
54862262 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
54862275 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54862277 original size:46 final size:46
Alignment explanation
Indices: 54862108--54862279 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
54862098 GGTTGAGCAT
* * *
54862108 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
54862154 CCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
54862199 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
54862247 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54862280 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:54862718 original size:174 final size:174
Alignment explanation
Indices: 54862427--54862776 Score: 630
Period size: 174 Copynumber: 2.0 Consensus size: 174
54862417 TTTGGTAAGT
*
54862427 GTTGTGACAGCCCAAAATTGACCCTAGTCGGGATGTGGTTTCGGGACCACAAAACCGAGGCATAA
1 GTTGTGACAGCCCAAAATTGACCCTAGACGGGATGTGGTTTCGGGACCACAAAACCGAGGCATAA
* *
54862492 AAATAATTTAAAATTTATTTTGATGCCTATGATATGTGTTAATTCGTGTGTGACATTTTTGATGA
66 AAATAATTTAAAATTTATTTTGATGCCTATGATATGTGTGAATTCATGTGTGACATTTTTGATG-
*
54862557 TTT-GATTTAGAGTTATAAATGTGAATTTTACTAGAAAGGACCTA
130 TTTCGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTA
*
54862601 GTTGTGACAGCCCAAAATTGACCCTAGACGGGATGTGGTTTCGGGACCACAAAATCGAGGCATAA
1 GTTGTGACAGCCCAAAATTGACCCTAGACGGGATGTGGTTTCGGGACCACAAAACCGAGGCATAA
54862666 AAATAATTTAAAATTTATTTTGATGCCTATGATATGTGTGAATTCATGTGTGACATTTTTGATGT
66 AAATAATTTAAAATTTATTTTGATGCCTATGATATGTGTGAATTCATGTGTGACATTTTTGATGT
*
54862731 TTCGATTTAGAGTTATAAATGTGAATTTCACTAGAAGGGACCTA
131 TTCGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTA
54862775 GT
1 GT
54862777 AGTAAACTTT
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
173 3 0.02
174 166 0.98
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (174 bp):
GTTGTGACAGCCCAAAATTGACCCTAGACGGGATGTGGTTTCGGGACCACAAAACCGAGGCATAA
AAATAATTTAAAATTTATTTTGATGCCTATGATATGTGTGAATTCATGTGTGACATTTTTGATGT
TTCGATTTAGAGTTATAAATGTGAATTTCACTAGAAAGGACCTA
Found at i:54864242 original size:29 final size:29
Alignment explanation
Indices: 54864209--54864369 Score: 171
Period size: 29 Copynumber: 5.6 Consensus size: 29
54864199 GTGACGAGAT
54864209 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
54864238 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
54864267 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
54864296 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
54864325 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
54864354 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
54864370 AAATCGAGTA
Statistics
Matches: 112, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 110 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:54867252 original size:29 final size:29
Alignment explanation
Indices: 54867221--54867325 Score: 174
Period size: 29 Copynumber: 3.6 Consensus size: 29
54867211 CTTGGAAGGT
*
54867221 ATGGCACTAAGTGTGCGAACTTAAATTAT
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
54867250 ATGGCACTAAGTGTGCGAACTTAAATTAC
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
* **
54867279 ATGGCACTATGTGTGCGAACTTAAATCGC
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
54867308 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
54867326 GATCGTTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAACTTAAATTAC
Found at i:54875243 original size:29 final size:29
Alignment explanation
Indices: 54875212--54875316 Score: 174
Period size: 29 Copynumber: 3.6 Consensus size: 29
54875202 CTTGGAAGGT
*
54875212 ATGGCACTAAGTGTGCGAACTTAAATTAT
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
54875241 ATGGCACTAAGTGTGCGAACTTAAATTAC
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
* **
54875270 ATGGCACTATGTGTGCGAACTTAAATCGC
1 ATGGCACTAAGTGTGCGAACTTAAATTAC
54875299 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
54875317 GATCGTTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAACTTAAATTAC
Found at i:54878772 original size:46 final size:46
Alignment explanation
Indices: 54878716--54878838 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
54878706 TGGTTGAGCA
*
54878716 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
* *
54878762 TCCGAACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
* *
54878808 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCAC
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCAC
54878839 TTAGGGGCGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
45 2 0.03
46 68 0.97
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
Found at i:54883671 original size:46 final size:46
Alignment explanation
Indices: 54883604--54883778 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
54883594 TGTAACCCGC
*
54883604 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * * * *
54883650 CCATAAGTGAACTCAGACTCAACTCACCGAGCTCGAATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCG---GGC-ATTTGCAT
* * * * *
54883700 CTC-T---CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
54883743 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
54883779 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.07
44 2 0.02
46 60 0.58
47 23 0.22
49 2 0.02
50 7 0.07
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:54883718 original size:93 final size:93
Alignment explanation
Indices: 54883612--54883783 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
54883602 GCCCATAAGT
* * * *
54883612 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCAGACTCAACTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
54883677 CGAGCTCGAATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* * *
54883705 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
54883770 CGAGTTCGGATGCC
66 CGAGCTCGAATGCC
54883784 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:54885100 original size:20 final size:20
Alignment explanation
Indices: 54885075--54885114 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
54885065 TTTTAGAATC
54885075 AGGGCACACA-CCCGTGTGGA
1 AGGGCA-ACAGCCCGTGTGGA
54885095 AGGGCAACAGGCCCGTGTGG
1 AGGGCAACA-GCCCGTGTGG
54885115 CCAATTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 6 0.33
21 9 0.50
ACGTcount: A:0.23, C:0.28, G:0.40, T:0.10
Consensus pattern (20 bp):
AGGGCAACAGCCCGTGTGGA
Found at i:54886388 original size:47 final size:46
Alignment explanation
Indices: 54886288--54886452 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 46
54886278 GTGCTGATAT
*
54886288 CATGTCCC-AACATGGTCTTACACT-GACACCTCTCAT-A-G-CCGATG
1 CATGTCCCAAACAT-GTCTTACACTAG-CA-CTCTCATAATGTGCGATG
*
54886332 CATGTCCCAAACATGTCTTACACTAGCACTCGTCTTAATGT-CGATG
1 CATGTCCCAAACATGTCTTACACTAGCACTC-TCATAATGTGCGATG
*
54886378 CCATGTCCCAAACATGGTCTTACACT-G-GCTCTCATAATGTGGCTGATG
1 -CATGTCCCAAACAT-GTCTTACACTAGCACTCTCATAATGT-GC-GATG
54886426 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAAACATGTCTTACACTAGC
54886453 TCACTCAAGT
Statistics
Matches: 105, Mismatches: 3, Indels: 22
0.81 0.02 0.17
Matches are distributed among these distances:
43 3 0.03
44 23 0.22
45 15 0.14
46 19 0.18
47 31 0.30
48 14 0.13
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.28
Consensus pattern (46 bp):
CATGTCCCAAACATGTCTTACACTAGCACTCTCATAATGTGCGATG
Found at i:54893946 original size:46 final size:45
Alignment explanation
Indices: 54893887--54894010 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
54893877 CTCTCGTAGT
* * *
54893887 CGATACATGTCCCAGACATGTCTTACACTGGCTTA-TGTCTCCACAC
1 CGATGCATGTCCCAGACATGTCTTACACT-AC-TACTGTCTCAACAC
* **
54893933 CGATGCATGTCCCAGACATGTCTTATACTACTACTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTACTAC-TGTCTCAACAC
*
54893979 CGATGCCATATCCCAGACATAGTCTTACACTA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTA
54894011 TCTCTCATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.03
45 1 0.02
46 40 0.61
47 13 0.20
48 10 0.15
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTACTACTGTCTCAACAC
Found at i:54897002 original size:43 final size:42
Alignment explanation
Indices: 54896937--54897097 Score: 130
Period size: 43 Copynumber: 3.8 Consensus size: 42
54896927 AGCTCATACA
* ** * *
54896937 ATGCC-ATATCCCAGATTTGGTCTAACATGTAAATACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAAT-CATATCG
* * *
54896979 ATGCCATTGTCCCAGACAGGGTCTTATACG-AAATCATAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCAT-AT-CG
* * * *
54897022 ATGCCAGTGTCCTAGACATGGTCTTACACGTAATCTCAATAT-A
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA-ATC-ATATCG
* *
54897065 ATGCCAATGTCTCAGACATGGTCTTACATGTAA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAA
54897098 TCAAATCTCG
Statistics
Matches: 95, Mismatches: 18, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
41 3 0.03
42 11 0.12
43 73 0.77
44 2 0.02
45 4 0.04
46 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATATCG
Found at i:54900686 original size:51 final size:51
Alignment explanation
Indices: 54900569--54900704 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 51
54900559 CTACCACCAA
* * *
54900569 ATCTCTAAGAATATAATATCATATCTTCTAAGATTACATATCTTAGATAAG
1 ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
* * * * * * **
54900620 ATATGTAA-TCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGAC-TATAATATCATATCTTATAAGATTACATATCATAGATAAG
*
54900671 ATCTCTAAGACTATAATATCATATCTTTTAAGAT
1 ATCTCTAAGACTATAATATCATATCTTATAAGAT
54900705 CATGTTTCTA
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
51 65 0.98
52 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGACTATAATATCATATCTTATAAGATTACATATCATAGATAAG
Found at i:54904597 original size:430 final size:430
Alignment explanation
Indices: 54903792--54904636 Score: 1413
Period size: 430 Copynumber: 2.0 Consensus size: 430
54903782 TATTCTGATC
* *
54903792 ATAAAAGTTTGAAATATCTGATGACTCAGAAAGATTTGAATCTGTGACAGAGAAGATGGCTAGAA
1 ATAAAAGTTTGAAATATCTGATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
*
54903857 CTGCTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTGATGC
66 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTGATGC
*
54903922 TTTGAGTCGGAAATCATTGTTTGTATTGCGTGCAATGAATACTCATTTAATTTTGTCCAATGATG
131 TTTGAGTCGAAAATCATTGTTTGTATTGCGTGCAATGAATACTCATTTAATTTTGTCCAATGATG
* * * * * *
54903987 GTTCGATTTTAGCTGAATTGAAAGTGAGACTGCTATTTTTACAACAGATTATTGATGCTCAGAAA
196 GTCCGATTTTAGCCGAATTGAAAGCGAGACTGCTATTTTTAAAACAAATTATTGATGCTAAGAAA
* *
54904052 CTTGATAATGAGATAATAGCAAAATGAGCTCAGTATAATTTGGATTTTGAGTCTGAATATCGAAT
261 CTTGATAATGAGATAATAGCAAAATGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAAT
* * *
54904117 TGATAATGACGATTGTTTGAGATTTCGAGGTTAGATTTGTGTCGTGAGAAATTCAGAGTTGATTC
326 TGATAATGACGACTGTTTGAGATTTCGAGGTCAGATTTGTGTCGTGAGAAATTCAGAGTTAATTC
54904182 AGAGGATTTTGAACAAAACTCACAATAGTCATTTACCTGT
391 AGAGGATTTTGAACAAAACTCACAATAGTCATTTACCTGT
* *
54904222 ATAAAAGTTTGAAATATCTTATGGCTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
1 ATAAAAGTTTGAAATATCTGATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
* *
54904287 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGCAAATGTTGTTGCTGATTC
66 CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTGATGC
* * *
54904352 TTTGAGTTGAAAATCATTGTTTGTATTGTGTGCGATGAATACTCATTTAATTTTGTCCAATGATG
131 TTTGAGTCGAAAATCATTGTTTGTATTGCGTGCAATGAATACTCATTTAATTTTGTCCAATGATG
* *
54904417 GTCCGATTTTAGCCGAATTGAAAGCGAGACTGTTGTTTTTAAAACAAATTATTGATGCTAAGAAA
196 GTCCGATTTTAGCCGAATTGAAAGCGAGACTGCTATTTTTAAAACAAATTATTGATGCTAAGAAA
* *
54904482 GTTGATAATGAGATAATAGCAAAATGAGCTCAGTATAATTTGGATTTTGATTCTAAATATCAAAT
261 CTTGATAATGAGATAATAGCAAAATGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAAT
*
54904547 TGATAATGACGACTGTTTGAGATTTCGAGGTCGGATTTGTGTTC-TGAGAAATTCAGAGTTAATT
326 TGATAATGACGACTGTTTGAGATTTCGAGGTCAGATTTGTG-TCGTGAGAAATTCAGAGTTAATT
* *
54904611 CAGATGATTTTGAACAAAGCTCACAA
390 CAGAGGATTTTGAACAAAACTCACAA
54904637 CAATCGTTTA
Statistics
Matches: 385, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
430 383 0.99
431 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (430 bp):
ATAAAAGTTTGAAATATCTGATGACTCAGAAAGACTTGAACCTGTGACAGAGAAGATGGCTAGAA
CTACTAAAAGATTATAAGCTTGTTATCGATTATCATCTGGGAAAAGAAAATGTTGTTGCTGATGC
TTTGAGTCGAAAATCATTGTTTGTATTGCGTGCAATGAATACTCATTTAATTTTGTCCAATGATG
GTCCGATTTTAGCCGAATTGAAAGCGAGACTGCTATTTTTAAAACAAATTATTGATGCTAAGAAA
CTTGATAATGAGATAATAGCAAAATGAGCTCAGTATAATTTGGATTTTGAGTCTAAATATCAAAT
TGATAATGACGACTGTTTGAGATTTCGAGGTCAGATTTGTGTCGTGAGAAATTCAGAGTTAATTC
AGAGGATTTTGAACAAAACTCACAATAGTCATTTACCTGT
Found at i:54907255 original size:42 final size:43
Alignment explanation
Indices: 54907125--54907265 Score: 101
Period size: 44 Copynumber: 3.3 Consensus size: 43
54907115 CATAGGATTC
** * * * *
54907125 CGATATGT-GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATAT-TCGATTTCGTGTAAGACCATATCTAGGACATAGACAT
* * * * *
54907168 CGAT-TTGAGACTTACGTGTAAGACCATGTCTGGGACATCGACAT
1 CGATATT-CGA-TTTCGTGTAAGACCATATCTAGGACATAGACAT
* *
54907212 CG-TATTTGATTTCGTGTAAGACCCTATCTAGGACACTAG-CAT
1 CGATATTCGATTTCGTGTAAGACCATATCTAGGACA-TAGACAT
54907254 CGATATTCGATT
1 CGATATTCGATT
54907266 ACATGTAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.35
43 19 0.24
44 32 0.40
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
CGATATTCGATTTCGTGTAAGACCATATCTAGGACATAGACAT
Found at i:54909048 original size:37 final size:37
Alignment explanation
Indices: 54908998--54909107 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
54908988 TAGCTCAGAT
* *
54908998 GAAATCTCCACACGAAGTTATCGGGTCTTACCCGGAC
1 GAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
54909035 GAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 GAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
54909072 -ATAATCTCCACAAGTAGTCATCGGGTCTTACCCGGA
1 GA-AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
54909108 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
36 1 0.01
37 68 0.99
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (37 bp):
GAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:54909380 original size:50 final size:50
Alignment explanation
Indices: 54909257--54909551 Score: 411
Period size: 48 Copynumber: 5.9 Consensus size: 50
54909247 CATCGCCTAC
* *
54909257 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
54909305 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
54909355 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
54909403 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* * *
54909455 ATATTTCACATTAACCATTCTGCTTTACCATATATACATATCTCATATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATATAT
*
54909509 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
54909552 TATACATCAA
Statistics
Matches: 224, Mismatches: 13, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
48 88 0.39
49 2 0.01
50 43 0.19
52 44 0.20
54 47 0.21
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:54909407 original size:98 final size:98
Alignment explanation
Indices: 54909257--54909551 Score: 430
Period size: 98 Copynumber: 2.9 Consensus size: 98
54909247 CATCGCCTAC
* *
54909257 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTA-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
54909322 TTCGGCTTTACCACATATACATATCTC-ATATAT
65 TTCGGCTTTACCACATATACATATCTCAATATAT
*
54909355 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATT-ACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
54909420 TTCGGCTTTACCACATATACATATCTCATATATAT
65 TTCGGCTTTACCACATATACATATCTCA-ATATAT
* * * *
54909455 ATATTTCACATTAACCATTCTGCTTTACCATATATACATATCTCATATATATATATATTTCGCAT
1 ATATTTCACATT-ACCATTCGGCTTTACCACATATACATATCTC------ATACATATTTCACAT
54909520 TAGCCATTCGGCTTTACCACATATACATATCT
59 TAGCCATTCGGCTTTACCACATATACATATCT
54909552 TATACATCAA
Statistics
Matches: 179, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
98 87 0.49
99 1 0.01
100 46 0.26
106 45 0.25
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (98 bp):
ATATTTCACATTACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCAT
TCGGCTTTACCACATATACATATCTCAATATAT
Found at i:54920130 original size:47 final size:47
Alignment explanation
Indices: 54920075--54920689 Score: 962
Period size: 47 Copynumber: 13.1 Consensus size: 47
54920065 TTAGGATTTT
*
54920075 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920122 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920169 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54920216 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAACGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920263 ATGTGATGAATGTGAAACATGCATATATGTGATAAGGCCGAACGGCCA
1 ATGTGATGAATGTG-AACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
54920311 ATGTGAGGAATGCGAATATGCATATATGTGATAAGGTCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
54920358 ATGTGATGAATGCGAACATGCATATGTGTGATAAGACCGAGTGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54920405 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920452 ATGTGACGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54920499 ATGTGATGAATGTGAACATGCATATGTGTAATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920546 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54920593 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * ** * * *
54920640 ATGTGATGAACGTGGATGTGTATATATGTGGTATA-GCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATA-AGGCCGAATGGCCA
54920687 ATG
1 ATG
54920690 CGAAATGTGT
Statistics
Matches: 526, Mismatches: 40, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 482 0.92
48 44 0.08
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54920724 original size:46 final size:46
Alignment explanation
Indices: 54920663--54920766 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
54920653 GGATGTGTAT
* * *
54920663 ATATGTGGTATAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54920709 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54920755 ATATGAGGTAAA
1 ATATGAGGTAAA
54920767 TGAATTACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:54923400 original size:46 final size:46
Alignment explanation
Indices: 54923342--54923506 Score: 183
Period size: 46 Copynumber: 3.6 Consensus size: 46
54923332 TTAGGCATCT
* * *
54923342 GAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC
* * * *
54923388 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAA--A--CGTCC
* *
54923435 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC
*
54923481 GAGCTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
54923507 GTTTATGGGC
Statistics
Matches: 99, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 53 0.54
47 29 0.29
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC
Found at i:54923492 original size:93 final size:93
Alignment explanation
Indices: 54923333--54923508 Score: 289
Period size: 93 Copynumber: 1.9 Consensus size: 93
54923323 CTAGGATGTT
* * * *
54923333 TAGGCATCTGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
54923398 AGTTGAGTCCGAGTTCGTGAGATGTAAC
66 AGTTGAGTCCGAGTTCGTGAGATGTAAC
* * *
54923426 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTG
1 TAGGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
54923491 AGTTGAGTCCGAGTTCGT
66 AGTTGAGTCCGAGTTCGT
54923509 TTATGGGCGG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
TAGGCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAGATGTAAC
Found at i:54925013 original size:40 final size:40
Alignment explanation
Indices: 54924958--54925359 Score: 606
Period size: 40 Copynumber: 10.1 Consensus size: 40
54924948 TGAGAGTTAT
54924958 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
54924998 ATATATCCGAGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54925038 ATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
54925078 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
54925118 ATATATCCGGGCTAAGTTCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
54925158 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
**
54925198 ATATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
** * *
54925238 ATATATCCAAGCTAAGTCCCGAAGAGCATACGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
54925278 TTATATCCGGGCTAAGTCTCGAAGAGCATTAGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
54925318 TTATATCCGAGCTAAGTCCCGAAGAGCATTCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
54925358 AT
1 AT
54925360 GTGTATTCGG
Statistics
Matches: 331, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 331 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:54929179 original size:47 final size:47
Alignment explanation
Indices: 54929128--54929404 Score: 466
Period size: 47 Copynumber: 5.9 Consensus size: 47
54929118 TTAGGATTTT
54929128 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54929175 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54929222 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54929269 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54929316 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54929363 ATGTGACGAATGTGAACATGCATA-AGTGTGATAAGGCCGAAT
1 ATGTGATGAATGTGAACATGCATATA-TGTGATAAGGCCGAAT
54929405 TCATGCATAT
Statistics
Matches: 216, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54929284 original size:141 final size:141
Alignment explanation
Indices: 54929128--54929775 Score: 634
Period size: 141 Copynumber: 4.4 Consensus size: 141
54929118 TTAGGATTTT
54929128 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
54929193 TGCATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGG
66 TGCATATGTGTGATAAGGCCTAATGGCCAATGTGACGAATGTGAATATGCATATATGTGATAAGG
54929258 CCGAATGGCCA
131 CCGAATGGCCA
*
54929269 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * *
54929334 TGCATATGTGTGATAAGGTCAAATGGCCAATGTGACGAATGTGAACATGCATA-AGTGTGATAAG
66 TGCATATGTGTGATAAGGCCTAATGGCCAATGTGACGAATGTGAATATGCATATA-TGTGATAAG
* *
54929398 GCCGAATTCATGCATA
130 GCCGAA-T--GGC-CA
* * * * * *
54929414 TATGTGAT-AA-G-G-CCGAGTGGC-CA-ATGTGATGAATG-TGAACAT-GCATATATGTGATAA
1 -ATGTGATGAATGTGAAC-A-T-GCATATATGTGAT-AAGGCCG-A-ATGGC-CA-ATGTGATGA
* ** * *
54929471 AGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTG-ATAA-GGCCGAATGGCCAATG
57 A----TGTGAAC-ATG-CAT--ATGTG----TG-ATA-A-G-GCCTAATGGCC-AA-------TG
* * * *
54929534 TGATGAATGTGAACATGCATATCTGTGATAAGGCCGAATCGCCA
98 TGACGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
* *
54929578 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
54929643 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGG
66 TGCATATGTGTGATAAGGCCTAATGGCCAATGTGACGAATGTGAATATGCATATATGTGATAAGG
54929708 CCGAATGGCCA
131 CCGAATGGCCA
*
54929719 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
54929776 CGTGGATGTG
Statistics
Matches: 415, Mismatches: 43, Indels: 98
0.75 0.08 0.18
Matches are distributed among these distances:
140 1 0.00
141 225 0.54
142 1 0.00
143 10 0.02
144 11 0.03
145 8 0.02
146 16 0.04
147 1 0.00
148 5 0.01
149 5 0.01
150 7 0.02
151 5 0.01
152 2 0.00
154 5 0.01
155 5 0.01
157 2 0.00
158 5 0.01
159 7 0.02
160 5 0.01
161 5 0.01
162 1 0.00
163 16 0.04
164 8 0.02
165 11 0.03
166 9 0.02
167 2 0.00
168 37 0.09
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATGTGTGATAAGGCCTAATGGCCAATGTGACGAATGTGAATATGCATATATGTGATAAGG
CCGAATGGCCA
Found at i:54929420 original size:74 final size:74
Alignment explanation
Indices: 54929332--54929476 Score: 220
Period size: 74 Copynumber: 2.0 Consensus size: 74
54929322 TGAATGTGAA
* *
54929332 CATGCATATGTGTGATAAGGTCAAATGGCCAATGTGACGAATGTGAACATGCATA-AGTGTGATA
1 CATGCATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAACATGCATATA-TGTGATA
*
54929396 AGGCCGAATT
65 AAGCCGAATT
* * *
54929406 CATGCATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
1 CATGCATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAACATGCATATATGTGATAA
54929471 AGCCGA
66 AGCCGA
54929477 GTGGCCAATG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 63 0.98
75 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (74 bp):
CATGCATATATGTGATAAGGCCAAATGGCCAATGTGACGAATGTGAACATGCATATATGTGATAA
AGCCGAATT
Found at i:54929459 original size:47 final size:47
Alignment explanation
Indices: 54929406--54929815 Score: 651
Period size: 47 Copynumber: 8.7 Consensus size: 47
54929396 AGGCCGAATT
*
54929406 CATGCATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
54929453 CATGCATATATGTGATAAAGCCGAGTGGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
54929500 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
54929547 CATGCATATCTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* *
54929594 CATGCATATGTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
54929641 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
54929688 TATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* * *
54929735 CATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGAACGTGGA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
** * * *
54929782 TGTGTATATATGTGGTATA-GCCGAATGGCTAATG
1 CATGCATATATGTGATA-AGGCCGAATGGCCAATG
54929816 CAAAATGTGT
Statistics
Matches: 343, Mismatches: 19, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 342 1.00
48 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (47 bp):
CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
Found at i:54929517 original size:168 final size:168
Alignment explanation
Indices: 54929239--54929572 Score: 578
Period size: 168 Copynumber: 2.0 Consensus size: 168
54929229 GAATGTGAAT
* *
54929239 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAG
1 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAA
* *
54929304 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCAAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGA
*
54929369 CGAATGTGAACATGCATAAGTGTGATAAGGCCGAATTC
131 CGAATGTGAACATGCATAACTGTGATAAGGCCGAATTC
*
54929407 ATGCATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAA
1 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAA
* *
54929472 GCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
66 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGA
* *
54929537 TGAATGTGAACATGCATATCTGTGATAAGGCCGAAT
131 CGAATGTGAACATGCATAACTGTGATAAGGCCGAAT
54929573 CGCCAATGTG
Statistics
Matches: 156, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
168 156 1.00
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (168 bp):
ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAA
GCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGA
CGAATGTGAACATGCATAACTGTGATAAGGCCGAATTC
Found at i:54929563 original size:215 final size:215
Alignment explanation
Indices: 54929191--54929619 Score: 741
Period size: 215 Copynumber: 2.0 Consensus size: 215
54929181 TGAATGTGAA
* * *
54929191 CATGCATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
* *
54929256 GGCCGAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTG
66 AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
54929321 ATGAATGTGAACATGCATATGTGTGATAAGGTCAAATGGCCAATGTGACGAATGTGAACATGCAT
131 ATGAATGTGAACATGCATATCTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCAT
54929386 AAGTGTGATAAGGCCGAATT
196 AAGTGTGATAAGGCCGAATT
*
54929406 CATGCATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
*
54929471 AGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
66 AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
* *
54929536 ATGAATGTGAACATGCATATCTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCAT
131 ATGAATGTGAACATGCATATCTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCAT
*
54929601 ATGTGTGATAAGGCCGAAT
196 AAGTGTGATAAGGCCGAAT
54929620 CGCCAATGTG
Statistics
Matches: 201, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
215 201 1.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (215 bp):
CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGAACATGCATATCTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCAT
AAGTGTGATAAGGCCGAATT
Found at i:54929609 original size:262 final size:262
Alignment explanation
Indices: 54929144--54929815 Score: 932
Period size: 262 Copynumber: 2.5 Consensus size: 262
54929134 TGAATGTGAA
*
54929144 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
* * *
54929209 GGCCTAATGGCCAATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTG
66 AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
* *
54929274 ATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
131 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCAT
* *
54929339 ATGTGTGATAAGGTCAAATGGCCAATGTGACGAATGTGAACATGCATAAGTGTGATAAGGCCGAA
196 ATGTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCATAAGTGTGATAAGGCCGAA
54929404 TT
261 TT
*
54929406 CATGCATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
1 CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
*
54929471 AGCCGAGTGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
66 AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
*
54929536 ATGAATGTGAACATGCATATCTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCAT
131 ATGAATGTGAACATGCATATATGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCAT
* * *
54929601 ATGTGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAA
196 ATGTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCATAAGTGTGAT-------AA
54929666 TGGCCAATGTGATGAATGT
254 -GGCC--------GAAT-T
*
54929685 GAATATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
1 ---CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGA
* * * * ** * * *
54929750 TAAGGCAGAATGGCCAATGTGATGAACGTGGATGTGTATATATGTGGTATA-GCCGAATGGCTAA
63 TAAAGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA-AGGCCGAATGGCCAA
54929814 TG
127 TG
54929816 CAAAATGTGT
Statistics
Matches: 363, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
262 237 0.65
269 2 0.01
270 4 0.01
278 4 0.01
279 1 0.00
282 114 0.31
283 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (262 bp):
CATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAA
AGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGAACATGCATATATGTGATAAGGCCGAATCGCCAATGTGATGAATGTGAACATGCAT
ATGTGTGATAAGGCCAAATCGCCAATGTGACGAATGTGAACATGCATAAGTGTGATAAGGCCGAA
TT
Found at i:54929631 original size:22 final size:22
Alignment explanation
Indices: 54929557--54929631 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
54929547 CATGCATATC
54929557 TGTGATAAGGCCGAATCGCCAA
1 TGTGATAAGGCCGAATCGCCAA
* *
54929579 TGTGATGAATG-TGAA-CATG-CATA
1 TGTGAT-AAGGCCGAATC--GCCA-A
54929602 TGTGTGATAAGGCCGAATCGCCAA
1 --TGTGATAAGGCCGAATCGCCAA
54929626 TGTGAT
1 TGTGAT
54929632 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
21 1 0.03
22 17 0.43
23 5 0.12
24 5 0.12
25 11 0.28
26 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATCGCCAA
Found at i:54929678 original size:22 final size:22
Alignment explanation
Indices: 54929651--54929725 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
54929641 CATGCATATG
54929651 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * *
54929673 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
54929698 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54929720 TGTGAT
1 TGTGAT
54929726 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54929772 original size:22 final size:22
Alignment explanation
Indices: 54929651--54929772 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
54929641 CATGCATATG
*
54929651 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
54929673 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
54929698 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
54929720 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
54929745 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
54929767 TGTGAT
1 TGTGAT
54929773 GAACGTGGAT
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:54929850 original size:46 final size:46
Alignment explanation
Indices: 54929789--54929892 Score: 172
Period size: 46 Copynumber: 2.3 Consensus size: 46
54929779 GGATGTGTAT
* *
54929789 ATATGTGGTATAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
**
54929835 ATATGAGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
54929881 ATATGAGGTAAA
1 ATATGAGGTAAA
54929893 TGAATTACAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 54 1.00
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.27
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
Found at i:54933887 original size:40 final size:40
Alignment explanation
Indices: 54933826--54933959 Score: 205
Period size: 40 Copynumber: 3.4 Consensus size: 40
54933816 CGATATCTCA
* * * *
54933826 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* *
54933866 CACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATTG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
*
54933906 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGTATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
54933946 CACACTAAGTGCCA
1 CACACTAAGTGCCA
54933960 CAAATAACCG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
Found at i:54940185 original size:34 final size:34
Alignment explanation
Indices: 54940106--54940178 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
54940096 TGTATTGAAG
* * **
54940106 TGGGGTAAGGCCCACACTGATACTGTTACTGTAT
1 TGGGCTAAGGCCCACACTAATACTGCGACTGTAT
*
54940140 TGGGCTAAGGCCCACACTAATATTGCGACTG-AT
1 TGGGCTAAGGCCCACACTAATACTGCGACTGTAT
54940173 ATGGGC
1 -TGGGC
54940179 CTAGGCCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
33 2 0.06
34 31 0.94
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTAATACTGCGACTGTAT
Found at i:54940990 original size:2 final size:2
Alignment explanation
Indices: 54940983--54941009 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
54940973 TTTATCAATG
54940983 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 T
54941010 CACGTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:54941968 original size:38 final size:38
Alignment explanation
Indices: 54941873--54942010 Score: 150
Period size: 38 Copynumber: 3.6 Consensus size: 38
54941863 GAATCCAATC
* * * *
54941873 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAACCT-GGATATAAT
* ** *
54941913 ACCAGTATTAAGACTGCGGGATTTAACCTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAAT
* **
54941951 ACCAGCGCGAAGCCTGCGGGATAAAACCTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAAT
*
54941989 ACCAGCACGAAGCTTGCGGGAT
1 ACCAGCACGAAGCCTGCGGGAT
54942011 AAACTCGGAT
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 59 0.72
39 7 0.09
40 16 0.20
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCTGGATATAAT
Found at i:54943028 original size:46 final size:46
Alignment explanation
Indices: 54942957--54943047 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
54942947 ATCCCACGAG
* *
54942957 TAAGATTATGATCTGTCTTCTGCTATACATCATACCAACCTGAATA
1 TAAGATTATGATCTATCTTCCGCTATACATCATACCAACCTGAATA
54943003 TAAGATTATGATCTATCTTCCGCTATACATCATACCAACCTGAAT
1 TAAGATTATGATCTATCTTCCGCTATACATCATACCAACCTGAAT
54943048 CTTCTTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.34
Consensus pattern (46 bp):
TAAGATTATGATCTATCTTCCGCTATACATCATACCAACCTGAATA
Found at i:54948458 original size:40 final size:40
Alignment explanation
Indices: 54948413--54948542 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
54948403 CGGAATATAA
54948413 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54948453 CCGGATAGAA-TGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
54948493 CCGGATGTAGCCACTAGT--ACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-T-GTGCACAAATGCCTTCGGGTCTTAGC
54948533 CCGGATATAA
1 CCGGATATAA
54948543 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
39 2 0.03
40 66 0.94
42 1 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54948557 original size:40 final size:40
Alignment explanation
Indices: 54948429--54948580 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
54948419 ATAACCATGT
* * *
54948429 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
54948469 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
54948509 GTACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
54948549 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
54948581 CATTCAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:54948563 original size:80 final size:80
Alignment explanation
Indices: 54948431--54948578 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
54948421 AACCATGTGC
*
54948431 ACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGCCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGCCC
54948495 GGATGTAGCCACTAGT
65 GGATGTAGCCACTAGT
* * * * *
54948511 ACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAGCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAGCC
54948574 CGGAT
64 CGGAT
54948579 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 55 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCCCG
GATGTAGCCACTAGT
Found at i:54950609 original size:27 final size:27
Alignment explanation
Indices: 54950579--54950829 Score: 252
Period size: 27 Copynumber: 9.6 Consensus size: 27
54950569 TTAGTTTACC
* *
54950579 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
54950606 AAATTACTAAAATA-CCCTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
54950632 AAATCACCAAAATA---CTA-----AA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
54950651 AAATTACCAAAATACCCCTGGTTAGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
54950678 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
54950705 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
54950732 AAATTACGAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
54950759 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
54950786 AAATTAACAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
54950813 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
54950830 TCGACCTGTA
Statistics
Matches: 189, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
19 14 0.07
22 2 0.01
24 2 0.01
26 23 0.12
27 148 0.78
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:54950654 original size:45 final size:46
Alignment explanation
Indices: 54950605--54950692 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
54950595 ACTGGTTTGT
*
54950605 AAAATTACTAAAATA-CCCTGGTTTA-TAAAATCACCAAAATACTAA
1 AAAATTACCAAAATACCCCTGG-TTAGTAAAATCACCAAAATACTAA
* *
54950650 AAAATTACCAAAATACCCCTGGTTAGTAAAATTACTAAAATAC
1 AAAATTACCAAAATACCCCTGGTTAGTAAAATCACCAAAATAC
54950693 CCTTAGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 17 0.45
46 21 0.55
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (46 bp):
AAAATTACCAAAATACCCCTGGTTAGTAAAATCACCAAAATACTAA
Found at i:54950665 original size:72 final size:73
Alignment explanation
Indices: 54950579--54950719 Score: 239
Period size: 72 Copynumber: 1.9 Consensus size: 73
54950569 TTAGTTTACC
* *
54950579 AAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCC-TGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCACTGGTTAGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
54950643 ATACTAAA
66 ATACTAAA
* *
54950651 AAATTACCAAAATACCCCTGGTTAGTAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCACTGGTTAGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
54950716 ATAC
66 ATAC
54950720 CCTTAGTTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 42 0.66
73 22 0.34
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.28
Consensus pattern (73 bp):
AAATTACCAAAATACCACTGGTTAGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
ATACTAAA
Found at i:54950840 original size:81 final size:81
Alignment explanation
Indices: 54950650--54950890 Score: 226
Period size: 81 Copynumber: 3.0 Consensus size: 81
54950640 AAAATACTAA
* * * *
54950650 AAAATTACCAAAATACCCCTG-G-TTAGTAAAATTA-CTAAAATACCCTTAGTTTATAAAATTAC
1 AAAATTACGAAAATACCCC-GAGCCT-GTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTAC
*
54950712 CAAAATA-CCCTTAGTTTGT
63 CAAAATACCCCTGA-TTTGT
* ** *
54950731 AAAATTACGAAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTAACAA
1 AAAATTACGAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
54950796 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
* ** * *
54950812 GAAATTACTG-AAATACCCTCGA-CCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTAC
1 AAAATTAC-GAAAATACCC-CGAGCCTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTAC
* *
54950874 CAAAGTACCCTTGATTT
63 CAAAATACCCCTGATTT
54950891 ACAGAATTAC
Statistics
Matches: 136, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
80 5 0.04
81 120 0.88
82 11 0.08
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACGAAAATACCCCGAGCCTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:54950882 original size:27 final size:28
Alignment explanation
Indices: 54950650--54950884 Score: 202
Period size: 27 Copynumber: 8.7 Consensus size: 28
54950640 AAAATACTAA
*
54950650 AAAATTACCAAAATACCC-CTG-GTTAGT
1 AAAATTACCAAAATACCCTC-GAGTTTGT
* * *
54950677 AAAATTACTAAAATACCCT-TAGTTTAT
1 AAAATTACCAAAATACCCTCGAGTTTGT
*
54950704 AAAATTACCAAAATACCCT-TAGTTTGT
1 AAAATTACCAAAATACCCTCGAGTTTGT
* *
54950731 AAAATTACGAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGAGTTTGT
* *
54950758 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGAGTTTGT
*
54950785 AAAATTAACAAAATACCC-CTGA-TTTGT
1 AAAATTACCAAAATACCCTC-GAGTTTGT
* ** **
54950812 GAAATTACTGAAATACCCTCGA-CCTGT
1 AAAATTACCAAAATACCCTCGAGTTTGT
*** *
54950839 AAAATTATTGAAATACCCTCGA-CTTGT
1 AAAATTACCAAAATACCCTCGAGTTTGT
*
54950866 AAAATTACCAAAGTACCCT
1 AAAATTACCAAAATACCCT
54950885 TGATTTACAG
Statistics
Matches: 179, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
27 177 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
AAAATTACCAAAATACCCTCGAGTTTGT
Found at i:54950898 original size:27 final size:26
Alignment explanation
Indices: 54950866--54950940 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
54950856 CTCGACTTGT
54950866 AAAATTACCAAAGTACCCTTGATTTAC
1 AAAATTACCAAA-TACCCTTGATTTAC
* *** *
54950893 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACC-AAATACCCTTGATTTAC
54950920 AAAATTACCGAAATACCCTTG
1 AAAATTACC-AAATACCCTTG
54950941 TAGGGTAGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.09, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAATACCCTTGATTTAC
Done.