Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 235 of 310
Found at i:77563344 original size:54 final size:53
Alignment explanation
Indices: 77563152--77563358 Score: 193
Period size: 55 Copynumber: 3.8 Consensus size: 53
77563142 TTCCTTCTTA
* * * * * * * *
77563152 AACTTACCATTGCCATGTCTAGACATGGTCTTACGTGGTATCCTTGCTTTAT-G
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCCTTTCCTTATAG
* *
77563205 AACTCACCAATGCCATGCCTTGGCATGGTCTTCCATGGGA-CCTTTTCCTTATAG
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCC-TTTCCTTATAG
* ** * *
77563259 TAACTCATCAATGCCATGTTTTGTCATGGTCTTACATGATTTCCTTTCCTTATAG
1 -AACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-TATCCTTTCCTTATAG
* *
77563314 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AACTCACCAATGCCATGCCTTGGCATGGTCTTACAT-GTATCCTT
77563359 GTCTTACCAA
Statistics
Matches: 126, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 39 0.31
54 40 0.32
55 43 0.34
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGTATCCTTTCCTTATAG
Found at i:77565720 original size:50 final size:47
Alignment explanation
Indices: 77565645--77565773 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
77565635 CGAGATGTGT
* *
77565645 TAGTATAAGACCATGTCTGGGACATGGCATCGACACGGAT-ATGTGA-GAGC
1 TAGTGTAAGACCATGT-TTGGACATGGCATCGA-AC--ATGATG-GATGAGC
*
77565695 TAGTGTAAGACCATGTTTGGAACATGGCATC-AACTTGATGGATGAGC
1 TAGTGTAAGACCATGTTTGG-ACATGGCATCGAACATGATGGATGAGC
* *
77565742 CAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TAGTGTAAGACCATGT-TTGGACATGGCATCG
77565774 GCATTCTACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
46 3 0.04
47 32 0.46
48 5 0.07
49 4 0.06
50 25 0.36
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
TAGTGTAAGACCATGTTTGGACATGGCATCGAACATGATGGATGAGC
Found at i:77565767 original size:47 final size:49
Alignment explanation
Indices: 77565501--77565773 Score: 143
Period size: 46 Copynumber: 5.8 Consensus size: 49
77565491 GGCCACATTA
* * ** *
77565501 TGAGAGCCAGTGAAAGACCATGTCTAGGACATGGCATCGGCATTGAA-A
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGAATG
** * * * *
77565549 CAAGAG-TAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTC-GAGATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACACGGA-ATG
* * **
77565596 T-A-AGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGGTAC-GAGATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACACGGA-ATG
** * *
77565642 T----GTTAGTATAAGACCATGTCTGGGACATGGCATCGACACGGATATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGA-ATG
* * *
77565688 TGAGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATC-A-ACTTG-ATG
1 TGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGACAC-GGAATG
77565735 -GATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 TGA-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
77565774 GCATTCTACC
Statistics
Matches: 180, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
44 8 0.04
45 26 0.14
46 66 0.37
47 40 0.22
48 9 0.05
49 5 0.03
50 26 0.14
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (49 bp):
TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACACGGAATG
Found at i:77571060 original size:492 final size:491
Alignment explanation
Indices: 77570069--77572262 Score: 2726
Period size: 492 Copynumber: 4.5 Consensus size: 491
77570059 TTTGTTTCCG
* * * * *
77570069 CACATGGACTGGAACATGGTTCAATTACGTTATT-TCGAGGAATTTCCTGCAAAGAAGTTTGAAC
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCT-GAGGGATTTCCTGCAAA-AAGTTTGAGC
* * * * * *
77570133 CACAATATTACTCATATTACCAGAACTCATATAATCATCTTGATCACTAAAAGTCTTAACAGAGT
64 CACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGT
* **
77570198 CACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCAAAAAATATTT
129 CACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTT
* * *
77570263 ACCCAAAAAGTGCCGAATTCAAAATGATTTACCTCGACTGTACT-TAAT-GGAAGACATTCAGTA
194 ACCCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTAT-ATGGGAAGACATTCAGTA
* * * *
77570326 CCATAAAAGTAGTTTCTCCGCTTGCATTAAGCTCTGAAATGACAATACGTGGGTCCATTTTATCT
258 CCATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCT
* * * * *
77570391 AATAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATCCGTATGCTTATCATGGTGGCACTT
323 ATTAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTT
* * ** *
77570456 TAGTTCTGCATTGTGTACCCTCAGTTTCTCCTTGACATGTGTCTGCCATTCATCTAGTTCATCGA
388 TAGTTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAA
* * *
77570521 TTTGCAACATTCGTTATTCATGAGGCATACTATTTCCAT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
77570560 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAGAAGTTTGAGCC
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAA-AAGTTTGAGCC
* * * * * *
77570625 ACAATGTTACTTATATTAATAGAACTCGTATAATCATCTCTATCACTATATGTCTTAATAGAATC
65 ACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTC
** *
77570690 ACGAGCTTGGAGTTTAATCTCATCAATTTTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
130 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
* **
77570755 CCCTAAAAGTGCTAAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTGTC
195 CCCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACC
* ** * *
77570820 ATAAAAGGAGTTGCTTTTTTTGCATTAAGCTTTGAAGTGATAATACGTGGGTCCATTTTATCTAT
260 ATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTAT
*
77570885 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATTATGGTGTCACTTT-
325 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTTA
* * *
77570949 GATTCTATATTGTGTACTCTCAGTTTCTCCTTGAGATGTGTCCACCATTCATCCAGTTCATCAAA
390 G-TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATC-AA
* * *
77571014 TTT-CAACATTCATTCTTCATGAGTCATTCTATTTTCGT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
* *
77571052 CACATGGACTGGAACTTGGTTCCATTACATTCTTCTGAGGGATTT--T-C--------T-A--CA
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
* * * * * *
77571103 CAATGTTACTCATATTAACAGAACCCATATAATCATCTAGATGAATAGATGTCTTATTAGAGTCC
66 CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
*
77571168 CGAGCTTGGAGTTTAATCTTGTCAATTCTACTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
131 CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
* * * * * *
77571233 CCTAATAGTGCCGAATTCAAAATGATTTACCTCGACTGTACTGTGTGAGAAGACATTCAGTA-CA
196 CCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACCA
* * * *
77571297 GTAAAAGAAGTTACTCTGCTTGCATTAAGCTCTGAAGTGACAACACATGGGTCCATTTTATCTAT
261 -TAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTAT
* * * * * * * * *
77571362 TAATGCCTTGTGTTCAACCTTAATATGGTGTGTTCCATCCTTATGCTTATCATGGCGGT-GCTTT
325 TAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGG-TGTCACTTT
** * ** *
77571426 AGTTCTACATCATGTACTCTCAATTTCTCCTTGACATGTGTCTGCCATTCATCTAGTTCAGT-GA
389 AGTTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCA-TCAA
* *
77571490 TTTGCAACATTCGTTATTCATGAGTCATTCTGTTTCCAT
453 TTTGCAACATTCATTATTCATGAGTCATTCTATTTCCAT
* * * *
77571529 TACATGGACTGAAACGTGGTTCCATTACATTCTTCTGAGGGATTTCCTGCAAAAAGGTTTGAGCT
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAA-GTTTGAGCC
* * *
77571594 ACAATGCTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAAAATC
65 ACAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTC
*
77571659 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTAAGTCGAGTAATATTTA
130 ACGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTA
* * * * *
77571724 CCCTAAAAGTG-TCGAATTTAGAATGATTTACCTCAACTGTATTATATAGGAATACATTCAGTAC
195 CCCTAAAAGTGCT-GAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTAC
* * *
77571788 CGTAAAAGGAGTTGCTCTGCTTGCATTATGCTCTGAAGTGACAATACGTGGGTCCATTTTCTCTA
259 CATAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTA
* *
77571853 TTAATACCTTGTCTCCAACCTTAATTTGGTGTGGTCCATACATATGCTCATCATGGTGTCGCTTT
324 TTAATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTT
* * * *
77571918 -GATTCTGCATTTTGTACTCTCAGTTTCTCATTGAGATGTGTCCACCATTCATCTAGTTCATCAA
389 AG-TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAA
* * * **
77571982 ATTGCAACATTTATTCTTCATGAGTCATTCTATTTTTGA-
453 TTTGCAACATTCATTATTCATGAGTCATTCTA-TTTCCAT
* * * *
77572021 CACATGGACTGGTACTTGGTTCCATTACGTGCTTCCGAGGGATTT-C--C--------T--G-CA
1 CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
* * *
77572072 CAATGTTACTCATATTAACAGAACCCATATAATCATCTCAATCACTAGATGTCTTAATAGAGTTA
66 CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
** * * * * *
77572137 TAAGCTTGGAGTTTAATCTTATCAATTATACTAAC--AATAAGATTTGAGTCGAGTAATATTTTC
131 CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
* * *
77572200 CCTAATAGTG-TCGAATTCAGAATGATTTACCTCGACTGTTCTGTATGGGAAGACATTCAGTAC
196 CCTAAAAGTGCT-GAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTAC
77572263 TGTAACGCCC
Statistics
Matches: 1468, Mismatches: 204, Indels: 78
0.84 0.12 0.04
Matches are distributed among these distances:
475 80 0.05
476 6 0.00
477 488 0.33
478 5 0.00
479 2 0.00
480 3 0.00
489 3 0.00
490 2 0.00
491 218 0.15
492 652 0.44
493 9 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (491 bp):
CACATGGACTGGAACGTGGTTCCATTACGTTCTTCTGAGGGATTTCCTGCAAAAAGTTTGAGCCA
CAATGTTACTCATATTAACAGAACTCATATAATCATCTCGATCACTAGATGTCTTAATAGAGTCA
CGAGCTTGGAGTTTAATCTTGTCAATTCTATTAACAAAATAAGGTTTGAGTCGAGTAATATTTAC
CCTAAAAGTGCTGAATTCAGAATGATTTACCTCGACTGTACTATATGGGAAGACATTCAGTACCA
TAAAAGGAGTTGCTCTGCTTGCATTAAGCTCTGAAGTGACAATACGTGGGTCCATTTTATCTATT
AATACCTTGTCTCCAACCTTAATTTGGTGTGTTCCATACATATGCTCATCATGGTGTCACTTTAG
TTCTACATTGTGTACTCTCAGTTTCTCCTTGACATGTGTCCACCATTCATCTAGTTCATCAATTT
GCAACATTCATTATTCATGAGTCATTCTATTTCCAT
Found at i:77589951 original size:56 final size:56
Alignment explanation
Indices: 77589891--77590007 Score: 189
Period size: 56 Copynumber: 2.1 Consensus size: 56
77589881 ACAAAGAATG
*
77589891 ATGGGCAAAACATGTCATGAAACATGTTGTGTTATTGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAGTGGAAAAATAAAATAAGAAGC
* * * *
77589947 ATGGGCAAAACATGTCATGAAACATGTTTTGTTAGTGGAAGAATAAAATAAGGAGT
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAGTGGAAAAATAAAATAAGAAGC
77590003 ATGGG
1 ATGGG
77590008 TAATAAAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.26
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAGTGGAAAAATAAAATAAGAAGC
Found at i:77590998 original size:40 final size:41
Alignment explanation
Indices: 77590760--77590984 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 41
77590750 TCGAATGATG
* * *
77590760 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * * *
77590800 TCCGGACTAAGAT-CTGAAGGCATTTGTACGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
77590840 TCCGGCCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
77590879 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
77590919 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
77590960 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77590985 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 30 0.19
40 116 0.75
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:77597581 original size:16 final size:18
Alignment explanation
Indices: 77597555--77597587 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77597545 AAAGTTGAGT
77597555 TCTACATGTTA-GAGATG
1 TCTACATGTTATGAGATG
77597572 TCTA-ATGTTATGAGAT
1 TCTACATGTTATGAGAT
77597588 TTTAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (18 bp):
TCTACATGTTATGAGATG
Found at i:77598231 original size:30 final size:30
Alignment explanation
Indices: 77598173--77598231 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
77598163 TTTACAAGCC
* * *
77598173 TAGGGGTCAAAGTACAAATATGTGAAAGTT
1 TAGGGGTCAAAATACAAATATATAAAAGTT
*
77598203 TAGGGGTCAAAATACAAATTTATAAAAGT
1 TAGGGGTCAAAATACAAATATATAAAAGT
77598232 ATGATTTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.27
Consensus pattern (30 bp):
TAGGGGTCAAAATACAAATATATAAAAGTT
Found at i:77598925 original size:50 final size:50
Alignment explanation
Indices: 77598861--77599248 Score: 355
Period size: 50 Copynumber: 7.7 Consensus size: 50
77598851 TAAGACAACT
77598861 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
77598911 TTAGGTCGCATGTGTAGTACTAAATGCCGGCTACTATGCGTACCCGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * *
77598961 TTTCGATCACGTGTGTAGTGCTAAGTGCAAGCTACTACGTGTATCAGATGG
1 -TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* *
77599012 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * *
77599062 ATAGGTCACATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCCG-TTAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--G
* ** * * * * *
77599113 TTCGACCACGTGTGTAGTACTAAGTGCAGGCTATTATGTGTATCAAATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* * * * * * * *
77599163 ATAAGTCACGTGTGTAGTACGAATTGTAGGCTACTACATCTACCAAATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
* ** *
77599213 ATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
77599249 TGCGTGTGAC
Statistics
Matches: 262, Mismatches: 72, Indels: 8
0.77 0.21 0.02
Matches are distributed among these distances:
49 2 0.01
50 187 0.71
51 72 0.27
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
Found at i:77599044 original size:101 final size:101
Alignment explanation
Indices: 77598866--77599047 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
77598856 CAACTTTAGG
* * * *
77598866 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTAC
*
77598931 TAAATGCCGGCTACTATGCGTACCCGATAGTTTCGA
66 TAAATGCAGGCTACTATGCGTACCCGATAGTTTCGA
* * *
77598967 TCACGTGTGTAGTGCTAAGTGCAAGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGCAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTAC
*
77599032 TAAGTGCAGGCTACTA
66 TAAATGCAGGCTACTA
77599048 CGTGTACCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATGGTTAGGTCACATGTGCAGTAC
TAAATGCAGGCTACTATGCGTACCCGATAGTTTCGA
Found at i:77599136 original size:151 final size:151
Alignment explanation
Indices: 77598861--77599253 Score: 570
Period size: 151 Copynumber: 2.6 Consensus size: 151
77598851 TAAGACAACT
* *
77598861 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGT
* * ** * *
77598926 AGTACTAAATGCCGGCTACTATGCGTACCCGATAGTTTCGATCACGTGTGTAGTGCTAAGTGCAA
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGACCACGTGTGTAGTACTAAGTGCAA
*
77598991 GCTACTACGTGTATCAGATGG
131 GCTACTACGTGTATCAAATGG
* *
77599012 TTAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCACATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGT
* * *
77599077 AGTATTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGACCACGTGTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGACCACGTGTGTAGTACTAAGTGCAA
* *
77599142 GCTATTATGTGTATCAAATGG
131 GCTACTACGTGTATCAAATGG
* * * * * * * *
77599163 ATAAGTCACGTGTGTAGTACGAATTGTAGGCTACTACATCTACCAAATTGATAGGTTGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGT
77599228 AGTACTAAGTGCAGGCTACTATGCGT
66 AGTACTAAGTGCAGGCTACTATGCGT
77599254 GTGACACCCC
Statistics
Matches: 215, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
151 215 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGACCACGTGTGTAGTACTAAGTGCAA
GCTACTACGTGTATCAAATGG
Found at i:77601832 original size:49 final size:47
Alignment explanation
Indices: 77601772--77602177 Score: 614
Period size: 47 Copynumber: 8.6 Consensus size: 47
77601762 GATAATTGTG
* * * *
77601772 ATGTGAATGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
77601819 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
77601866 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
77601915 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
77601964 ATGTGAAAGTGTATATATGTGGTAAGGCCGAATGGCCCATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
77602011 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
77602058 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
77602105 ATGTGAAAGTGTATATATGTCACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
77602152 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
77602178 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
47 235 0.71
49 96 0.29
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:77603965 original size:16 final size:16
Alignment explanation
Indices: 77603944--77603975 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
77603934 AGAGTAGAGT
77603944 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
77603960 AAGTGAAATTCTGTAA
1 AAGTGAAATTATGTAA
77603976 TAAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:77606998 original size:19 final size:20
Alignment explanation
Indices: 77606953--77606996 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
77606943 AGTCGTGATT
77606953 GAGGGAAAAACAAAGTTTAC
1 GAGGGAAAAACAAAGTTTAC
77606973 GAGGGAAAAACAAAGTTTAC
1 GAGGGAAAAACAAAGTTTAC
77606993 GAGG
1 GAGG
77606997 AATAGGCTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.30, T:0.14
Consensus pattern (20 bp):
GAGGGAAAAACAAAGTTTAC
Found at i:77607969 original size:36 final size:36
Alignment explanation
Indices: 77607920--77607991 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
77607910 GTGGCATGTA
77607920 TAGCTATTAGAATGGCTAATCAGGTTTATAAATGAT
1 TAGCTATTAGAATGGCTAATCAGGTTTATAAATGAT
* * *
77607956 TAGCTATTGGAATGGCTAATTAGGTTTATATATGAT
1 TAGCTATTAGAATGGCTAATCAGGTTTATAAATGAT
77607992 AACATGTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (36 bp):
TAGCTATTAGAATGGCTAATCAGGTTTATAAATGAT
Found at i:77618107 original size:37 final size:37
Alignment explanation
Indices: 77618066--77618140 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
77618056 GACTAAGGCC
* *
77618066 CCTATCCTGATACAACCAAAGTCTGGGAAAGAGATTA
1 CCTATCCTGATACAACCAAAGTCTAGAAAAGAGATTA
** * * *
77618103 CCTATTTTGATACAGCCAGAGTCTAGAAAAGAGTTTA
1 CCTATCCTGATACAACCAAAGTCTAGAAAAGAGATTA
77618140 C
1 C
77618141 TGTTTATAGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (37 bp):
CCTATCCTGATACAACCAAAGTCTAGAAAAGAGATTA
Found at i:77621959 original size:34 final size:33
Alignment explanation
Indices: 77621911--77621974 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
77621901 GCATATCTGT
*
77621911 ACTGTACTGTTACTGAAATGGGCTT-AGGCCGAC
1 ACTGTACTGATACTGAAATGGG-TTAAGGCCGAC
*
77621944 ACTGATACTGATACTGTAATGGGTTAAGGCC
1 ACTG-TACTGATACTGAAATGGGTTAAGGCC
77621975 CTGACTGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 6 0.22
34 21 0.78
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATACTGAAATGGGTTAAGGCCGAC
Found at i:77624704 original size:27 final size:26
Alignment explanation
Indices: 77624644--77624751 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
77624634 TGGCTGCCAT
* *
77624644 AACAGATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
*
77624670 ATATAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
77624698 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * *
77624725 ATCAGATAATTTTGGCATAGCCACCAG
1 AACAGATAA-TGTGGCAGAGCCACCAG
77624752 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 2 0.03
27 52 0.73
28 17 0.24
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:77624741 original size:54 final size:54
Alignment explanation
Indices: 77624644--77624751 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
77624634 TGGCTGCCAT
* *
77624644 AACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
* ** *
77624698 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTTGGCATAGCCACCAG
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
77624752 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:77631857 original size:27 final size:26
Alignment explanation
Indices: 77631813--77631864 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
77631803 CTCGTTACAA
*
77631813 TCTGGTGTCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
77631840 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
77631865 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:77634310 original size:27 final size:26
Alignment explanation
Indices: 77634266--77634317 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
77634256 CTCGCTGCAA
*
77634266 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
77634293 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
77634318 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:77637085 original size:24 final size:24
Alignment explanation
Indices: 77637058--77637129 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
77637048 CAGAATCAAA
77637058 ATTTATTAGCATAATTTATTTGAC
1 ATTTATTAGCATAATTTATTTGAC
* * *
77637082 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATTTATTTGAC
77637106 ATTTATTAGCATAATTTATTTGAC
1 ATTTATTAGCATAATTTATTTGAC
77637130 CTACGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (24 bp):
ATTTATTAGCATAATTTATTTGAC
Found at i:77644570 original size:87 final size:87
Alignment explanation
Indices: 77644424--77644584 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 87
77644414 CCTACCTAAT
* *** *
77644424 TTTTGCACATGGAAAATCCTAAAATAGATAACCTTATTTTGTGTGAATATGTTTAATTTTAGGTG
1 TTTTGCACATGGAAAATCCTAAAATAGATAAACTTATTCAATGTGAATATGTTTAATTTTAGATG
*
77644489 TTTAATTTTTTGCACATTAAGG
66 TTCAATTTTTTGCACATTAAGG
*
77644511 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAAGT-TGTTTAATTTTAGAT
1 TTTTGCACATGGAAAATCCTAAAATAGATAAACTTATTCAATGTGAA-TATGTTTAATTTTAGAT
77644575 GTTCAATTTT
65 GTTCAATTTT
77644585 CACCCAACGA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (87 bp):
TTTTGCACATGGAAAATCCTAAAATAGATAAACTTATTCAATGTGAATATGTTTAATTTTAGATG
TTCAATTTTTTGCACATTAAGG
Found at i:77645763 original size:20 final size:20
Alignment explanation
Indices: 77645727--77645772 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
77645717 TGCCATTACA
*
77645727 AAAAAAAAAGATCAAAAGAT
1 AAAAAAAAAGATAAAAAGAT
*
77645747 AAAAAAAAAGCA-AAAAAGTT
1 AAAAAAAAAG-ATAAAAAGAT
77645767 AAAAAA
1 AAAAAA
77645773 GAATGCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (20 bp):
AAAAAAAAAGATAAAAAGAT
Found at i:77648836 original size:43 final size:43
Alignment explanation
Indices: 77648788--77648874 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
77648778 GAATCCAGAA
*
77648788 ACCGTTCTGGCCCTGTTCCACAAAAATCTGATTATCTCTTAAT
1 ACCGTTCTGGCCCTGTCCCACAAAAATCTGATTATCTCTTAAT
*
77648831 ACCGTTCTGGCCCTGTCCCACTAAAATCTGATTATCTCTTAAT
1 ACCGTTCTGGCCCTGTCCCACAAAAATCTGATTATCTCTTAAT
77648874 A
1 A
77648875 TACTGCCCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (43 bp):
ACCGTTCTGGCCCTGTCCCACAAAAATCTGATTATCTCTTAAT
Found at i:77649985 original size:27 final size:27
Alignment explanation
Indices: 77649946--77650123 Score: 175
Period size: 27 Copynumber: 6.6 Consensus size: 27
77649936 ATTTTGAGCC
* * *
77649946 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
77649973 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
77650000 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
* *
77650028 CGCACACTTAGTGCCT-CATGGTCAATT
1 CGCACACTTAGTG-CTACATAGTCAACT
* *
77650055 CGCACACTTAGTGC-ATCATATTC-ATT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
77650081 GCGCACACTTAGTGCAACATAGTCGAA-T
1 -CGCACACTTAGTGCTACATAGTC-AACT
*
77650109 CGCACACCTAGTGCT
1 CGCACACTTAGTGCT
77650124 GTACAATTTA
Statistics
Matches: 129, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
26 4 0.03
27 98 0.76
28 24 0.19
29 3 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:77667382 original size:22 final size:22
Alignment explanation
Indices: 77667343--77667385 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
77667333 ATCACTCTTC
* *
77667343 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
*
77667365 CTCTCCATTTGTTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
77667386 ATTCTTCTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.23, G:0.02, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:77668662 original size:27 final size:27
Alignment explanation
Indices: 77668622--77668733 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
77668612 AGGAAGCGTC
*
77668622 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
77668649 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
77668676 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
77668704 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
77668730 CTGG
1 CTGG
77668734 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:77668728 original size:54 final size:54
Alignment explanation
Indices: 77668622--77668733 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
77668612 AGGAAGCGTC
* *
77668622 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
77668676 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
77668730 CTGG
1 CTGG
77668734 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:77677626 original size:27 final size:26
Alignment explanation
Indices: 77677578--77677637 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
77677568 GCGAAGCTGC
*
77677578 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
77677605 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
77677631 CAGATAT
1 CAGATAT
77677638 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77678053 original size:27 final size:27
Alignment explanation
Indices: 77678023--77678136 Score: 165
Period size: 27 Copynumber: 4.2 Consensus size: 27
77678013 AAATCAGTAT
*
77678023 TTCTACCCTACAAGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
77678050 TTCTATCCTACAGGGGTATTTCGGTAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
* ***
77678077 TTCTACCCTATAGGGGTATTTTAATAA
1 TTCTACCCTACAGGGGTATTTCGGTAA
*
77678104 TTCTACCCTACAGGGGTATTTCGGTAT
1 TTCTACCCTACAGGGGTATTTCGGTAA
77678131 TTCTAC
1 TTCTAC
77678137 AACTTATCCA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTCGGTAA
Found at i:77687345 original size:45 final size:45
Alignment explanation
Indices: 77687281--77687460 Score: 288
Period size: 45 Copynumber: 4.0 Consensus size: 45
77687271 AATATTATAC
*
77687281 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
77687326 GATACTGTTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
* * *
77687371 GATACTATTCTGGCCTTTGAGCCTAGCAGGCTATAATACCAGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
*
77687416 GATACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
77687461 AATGATATCG
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (45 bp):
GATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
Found at i:77694477 original size:49 final size:49
Alignment explanation
Indices: 77694404--77694595 Score: 242
Period size: 49 Copynumber: 3.9 Consensus size: 49
77694394 CTATTGTGAT
* * *
77694404 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
* ** **
77694453 GTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTATTAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-G
* *
77694503 GTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
* * * *
77694551 GTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
77694596 GCCTTGTCTA
Statistics
Matches: 121, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
48 4 0.03
49 111 0.92
50 6 0.05
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG
Found at i:77694579 original size:98 final size:99
Alignment explanation
Indices: 77694404--77694582 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 99
77694394 CTATTGTGAT
* * *
77694404 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCACATGTGTAGTAC
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
77694469 TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
66 TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
* * *
77694503 GTCAC-TGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGTAGTAT
1 GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
*
77694567 TAAGTGCAGGCTACTA
66 TAAATGCAGGCTACTA
77694583 TGCGTACCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 68 0.93
99 5 0.07
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (99 bp):
GTCACGTGTGTAGTACCAAGTGCAGGCTACTACATGTACCAGATAATTAGTCACATGTGTAGTAC
TAAATGCAGGCTACTACGTGTATTAGATGGTTAG
Found at i:77696314 original size:14 final size:14
Alignment explanation
Indices: 77696295--77696347 Score: 70
Period size: 14 Copynumber: 3.8 Consensus size: 14
77696285 AAATGGTAAG
77696295 AATGGTATGAACGA
1 AATGGTATGAACGA
*
77696309 AATGGTATGAATGA
1 AATGGTATGAACGA
*
77696323 AATGGTATGATCGA
1 AATGGTATGAACGA
**
77696337 AGGGGTATGAA
1 AATGGTATGAA
77696348 TGAATTGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.25
Consensus pattern (14 bp):
AATGGTATGAACGA
Found at i:77696337 original size:28 final size:28
Alignment explanation
Indices: 77696295--77696356 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
77696285 AAATGGTAAG
*
77696295 AATGGTATGAACGAAATGGTATGAATGA
1 AATGGTATGAACGAAAGGGTATGAATGA
* *
77696323 AATGGTATGATCGAAGGGGTATGAATGA
1 AATGGTATGAACGAAAGGGTATGAATGA
*
77696351 ATTGGT
1 AATGGT
77696357 CAGTTTAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.27
Consensus pattern (28 bp):
AATGGTATGAACGAAAGGGTATGAATGA
Found at i:77701371 original size:6 final size:6
Alignment explanation
Indices: 77701360--77701442 Score: 80
Period size: 6 Copynumber: 13.5 Consensus size: 6
77701350 TCAGAACTAC
* *
77701360 AATCAG AATCAG AATCAG AATCAA AATCAG -GTGACAG AATCAG AATCAG
1 AATCAG AATCAG AATCAG AATCAG AATCAG AAT--CAG AATCAG AATCAG
* *
77701409 AATCAG TATCAGG TAA-CAG AATCAA AATCAG AAT
1 AATCAG AATCA-G -AATCAG AATCAG AATCAG AAT
77701443 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.05
6 52 0.83
7 6 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
AATCAG
Found at i:77701401 original size:31 final size:31
Alignment explanation
Indices: 77701363--77701442 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
77701353 GAACTACAAT
*
77701363 CAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
**
77701394 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAAAATCAGGTAA
*
77701425 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
77701443 GTGAATGCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAAAATCAGGTAA
Found at i:77701403 original size:25 final size:25
Alignment explanation
Indices: 77701367--77701439 Score: 89
Period size: 25 Copynumber: 2.9 Consensus size: 25
77701357 TACAATCAGA
77701367 ATCAGAATCAGAATCAAAATCAGGT
1 ATCAGAATCAGAATCAAAATCAGGT
*
77701392 GA-CAGAATCAGAATCAGAATCA-GT
1 -ATCAGAATCAGAATCAAAATCAGGT
77701416 ATCAGGTAA-CAGAATCAAAATCAG
1 ATCA-G-AATCAGAATCAAAATCAG
77701440 AATGTGAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.02
24 4 0.10
25 33 0.80
26 3 0.07
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
ATCAGAATCAGAATCAAAATCAGGT
Found at i:77701707 original size:27 final size:26
Alignment explanation
Indices: 77701659--77701710 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
77701649 GCGAGGCTGC
*
77701659 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
77701685 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
77701711 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:77701978 original size:27 final size:27
Alignment explanation
Indices: 77701945--77702347 Score: 464
Period size: 27 Copynumber: 14.9 Consensus size: 27
77701935 TCACACCTAG
*
77701945 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
77701972 GGGTAAAACGGTTATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77701999 GGGTAAAACGATAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77702026 GGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
77702053 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * * *
77702080 GGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
77702107 GGGTAAAATGATAATTTTGTAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
77702134 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77702161 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
77702188 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77702215 GGGTAAAATGGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
77702242 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77702269 GGGTAAAAAGATAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * *
77702296 GGGTAAAACAGTAATTTTATAAATTGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
77702323 GGGTAAAACGATAATTCTGTAAATC
1 GGGTAAAATGGTAATTTTGTAAATC
77702348 AAAGGTACTT
Statistics
Matches: 316, Mismatches: 60, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 316 1.00
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:77702381 original size:27 final size:27
Alignment explanation
Indices: 77702351--77702500 Score: 142
Period size: 27 Copynumber: 5.6 Consensus size: 27
77702341 GTAAATCAAA
*
77702351 GGTACTTTGGTAATTTTACAAGTCGAG
1 GGTATTTTGGTAATTTTACAAGTCGAG
* *
77702378 GGTATTTTAGTAATTTTACAGGTCGAG
1 GGTATTTTGGTAATTTTACAAGTCGAG
** * *
77702405 GGTATTTCAGTAATTTCACAAATC-AG
1 GGTATTTTGGTAATTTTACAAGTCGAG
* *
77702431 AGGTATTTTGGTAATTTTACAA-ACTAGG
1 -GGTATTTTGGTAATTTTACAAGTCGA-G
* ** * *
77702459 GGTATTTTGGTAATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTACAAGTCGAG
77702486 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
77702501 CTACCCTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 98 0.94
28 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAGTCGAG
Found at i:77702462 original size:54 final size:54
Alignment explanation
Indices: 77702360--77702525 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 54
77702350 AGGTACTTTG
* * ** *
77702360 GTAATTTTACAAGTC-GAGGGTATTTTAGTAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCAGA-GGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
* **
77702414 GTAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTAC-AACTAGAGGGTATTTCA
* * * * * * *
77702468 GTAATTTTATAAACCAAAGGTATTTTGGTAATTCTAC-CCTACAGGGCATTTCA
1 GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
77702521 GTAAT
1 GTAAT
77702526 GCTAGCCTAC
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
52 3 0.03
53 12 0.13
54 71 0.78
55 5 0.05
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTTTACAAATCAGAGGTATTTTGGTAATTTTACAACTAGAGGGTATTTCA
Found at i:77702500 original size:81 final size:81
Alignment explanation
Indices: 77702343--77702492 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 81
77702333 ATAATTCTGT
* * *** * *
77702343 AAATCAAAGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAGGTCGAGGGT
1 AAATCAAAGGTACTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGGT
77702408 ATTTCAGTAATTTCAC
66 ATTTCAGTAATTTCAC
* * * *
77702424 AAATCAGAGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTATAAACCAAAGG
1 AAATCAAAGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGG
77702488 TATTT
65 TATTT
77702493 TGGTAATTCT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 53 0.93
82 4 0.07
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
AAATCAAAGGTACTTTGGTAATTTTACAACTAGAGGGTATTTTAGTAATTTTACAAACCAAAGGT
ATTTCAGTAATTTCAC
Found at i:77704391 original size:6 final size:6
Alignment explanation
Indices: 77704373--77704454 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
77704363 AAGAAACATT
* *
77704373 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGGTG AT-AGA ATCAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
77704422 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
77704455 ATGATGCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 46 0.77
7 6 0.10
8 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:77704420 original size:31 final size:31
Alignment explanation
Indices: 77704384--77704454 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
77704374 TCAGAACTAG
* *
77704384 AATCAGAATCAGAATCAGGTGATAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
*
77704415 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAA
77704446 AATCAGAAT
1 AATCAGAAT
77704455 ATGATGCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:77704972 original size:27 final size:26
Alignment explanation
Indices: 77704956--77705527 Score: 457
Period size: 27 Copynumber: 21.2 Consensus size: 26
77704946 AACATCCTAG
77704956 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
77704983 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * * *
77705010 GGATAAAATAGTAATTTTTTAAATCAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
77705037 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
*
77705064 GGGTAAACA--GTAATTCTGTAAATCGA
1 GGGTAAA-ATGGTAATT-TATAAATCGA
* * *
77705090 GGGTAAAATGATAATTTTGTAAATTGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * *
77705117 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * * *
77705144 GGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
77705171 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * *
77705198 AGGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATGGTAATT-TATAAATCGA
* *
77705225 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
*
77705252 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * *
77705279 GGGTAAAACGGTAATTTTGTAAATTGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
77705306 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
*
77705333 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATT-TATAAATCGA
* * **
77705360 GGGTAAAACGGTAATTTTGTAAATTAA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* * *
77705387 GGGTAAAATAGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATT-TATAAATCGA
* *
77705414 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAA-TTTATAAATCGA
* *
77705441 GGGTAAAAATAGTAATTCTGTAAATCGA
1 GGGT-AAAATGGTAATT-TATAAATCGA
* * *
77705469 GGGTAAAACGATAATTCTGTAAATCGA
1 GGGTAAAATGGTAATT-TATAAATCGA
***
77705496 GGGTACTTTGGTAATTT-TACAAGTCGA
1 GGGTAAAATGGTAATTTATA-AA-TCGA
77705523 GGGTA
1 GGGTA
77705528 TTTCAGTAAT
Statistics
Matches: 458, Mismatches: 68, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.01
26 37 0.08
27 383 0.84
28 35 0.08
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (26 bp):
GGGTAAAATGGTAATTTATAAATCGA
Found at i:77705041 original size:54 final size:54
Alignment explanation
Indices: 77704956--77705500 Score: 626
Period size: 54 Copynumber: 10.1 Consensus size: 54
77704946 AACATCCTAG
* * * * *
77704956 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* * * * * *
77705010 GGATAAAATAGTAATTTTTTAAATCAAGGGTAAAACGATAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* * * * *
77705064 GGGT-AAACAGTAATTCTGTAAATCGAGGGTAAAATGATAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* * * * *
77705117 GGGTAAAATAGTAATTTTGTAAATCAAGGATAAAATAGTAATTTTGTAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
** * * *
77705171 GGGTAAAACGGTAATTCTGTAAATCGAA-GGTAAAATAGTAATTCTATAAATTGA
1 GGGTAAAATAGTAATTCTGTAAATC-AAGGGTAAAATGGTAATTCTGTAAATCGA
* * * *
77705225 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCAA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
** * ** * *
77705279 GGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* * * * **
77705333 GGGTAAAATGGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTGTAAATTAA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* *
77705387 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
* * *
77705441 GGGTAAAAATAGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGA
1 GGGT-AAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
77705496 GGGTA
1 GGGTA
77705501 CTTTGGTAAT
Statistics
Matches: 428, Mismatches: 59, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
53 46 0.11
54 329 0.77
55 53 0.12
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (54 bp):
GGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATGGTAATTCTGTAAATCGA
Found at i:77705192 original size:81 final size:81
Alignment explanation
Indices: 77704956--77705500 Score: 657
Period size: 81 Copynumber: 6.7 Consensus size: 81
77704946 AACATCCTAG
* * * * * *
77704956 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
* *
77705021 TAATTTTTTAAATCAA
66 TAATTCTGTAAATCAA
* * * *
77705037 GGGTAAAA-CGATAATTCTATAAATCGAGGGT-AAACAGTAATTCTGTAAATCGAGGGTAAAATG
1 GGGTAAAATAG-TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATG
* * **
77705100 ATAATTTTGTAAATTGA
65 GTAATTCTGTAAATCAA
* * * * *
77705117 GGGTAAAATAGTAATTTTGTAAATCAAGGATAAAATAGTAATTTTGTAAATTGAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
77705182 TAATTCTGTAAATCGAA
66 TAATTCTGTAAATC-AA
* * * *
77705199 -GGTAAAATAGTAATTCTATAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
77705263 TAATTCTATAAATCAA
66 TAATTCTGTAAATCAA
** * *
77705279 GGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
*
77705344 TAATTCTATAAATCAA
66 TAATTCTGTAAATCAA
** ** * *
77705360 GGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
* *
77705425 TAATTTTGTAAATCGA
66 TAATTCTGTAAATCAA
* *
77705441 GGGTAAAAATAGTAATTCTGTAAATCGAGGGTAAAA-CGATAATTCTGTAAATCGAGGGTA
1 GGGT-AAAATAGTAATTTTGTAAATCGAGGGTAAAATAG-TAATTCTGTAAATCGAGGGTA
77705501 CTTTGGTAAT
Statistics
Matches: 407, Mismatches: 50, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
80 67 0.16
81 293 0.72
82 47 0.12
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
TAATTCTGTAAATCAA
Found at i:77705659 original size:27 final size:27
Alignment explanation
Indices: 77705495--77705646 Score: 164
Period size: 27 Copynumber: 5.6 Consensus size: 27
77705485 CTGTAAATCG
* ** *
77705495 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAACCA
** * **
77705522 AGGGTATTTCAGTAATTTCACAAA-TT
1 AGGGTATTTTGGTAATTTTACAAACCA
*
77705548 AGAGGTATTTTGGTAATTTTACAAACTA
1 AG-GGTATTTTGGTAATTTTACAAACCA
77705576 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCA
* *
77705603 TA-GGTATTTTGGTAATTGTATAAACCA
1 -AGGGTATTTTGGTAATTTTACAAACCA
77705630 AGGGTATTTTGGTAATT
1 AGGGTATTTTGGTAATT
77705647 CTACCCTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.03
27 100 0.93
28 4 0.04
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAACCA
Found at i:77707890 original size:93 final size:93
Alignment explanation
Indices: 77707731--77707902 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
77707721 CGCCCATAAG
* * * *
77707731 CGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
77707796 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
77707824 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
77707889 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
77707903 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:77707892 original size:46 final size:46
Alignment explanation
Indices: 77707724--77707895 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 46
77707714 TGTAACCCGC
** * * * *
77707724 CCATAAGCGAACTCGGACTCAACTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
77707770 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
77707820 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
77707863 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
77707896 TGGATGCTCA
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.54
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:77707918 original size:46 final size:45
Alignment explanation
Indices: 77707775--77707918 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 45
77707765 CGCATCCATG
77707775 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
77707822 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
77707868 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
77707914 AGTGA
1 AGTGA
77707919 CATGTCACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.41
47 31 0.40
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:77710334 original size:15 final size:15
Alignment explanation
Indices: 77710295--77710335 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
77710285 CAAGGAAACC
77710295 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
77710310 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
77710325 GAATAAAGAAA
1 GAATAAAGAAA
77710336 CCCAAGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.61, C:0.10, G:0.17, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:77725338 original size:27 final size:27
Alignment explanation
Indices: 77725308--77725484 Score: 187
Period size: 27 Copynumber: 6.5 Consensus size: 27
77725298 AAATTGTACA
77725308 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
77725335 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
77725362 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
77725389 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
77725417 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
77725444 GCACTAAGTGTGCGAGTTGA-T-TGTAT
1 GCACTAAGTGTGCGATTTGACTATGT-T
*
77725470 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
77725485 GGCTCACTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 101 0.80
28 23 0.18
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:77725421 original size:82 final size:81
Alignment explanation
Indices: 77725308--77725463 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77725298 AAATTGTACA
* *
77725308 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
77725372 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77725389 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
77725454 TGCGAGTTGA
65 TGCGAATTGA
77725464 TTGTATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77725475 original size:82 final size:81
Alignment explanation
Indices: 77725300--77725484 Score: 228
Period size: 82 Copynumber: 2.3 Consensus size: 81
77725290 GCGGGATTAA
* *
77725300 ATTGTACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
77725365 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
77725381 ACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
77725445 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
77725463 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
77725485 GGCTCACTAT
Statistics
Matches: 84, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 19 0.23
82 65 0.77
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:77732841 original size:15 final size:17
Alignment explanation
Indices: 77732806--77732844 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
77732796 TTTCTCACTC
77732806 TCTTTTTCTTTTTCGATT
1 TCTTTTTC-TTTTCGATT
77732824 TCTTTTTC-TTTC-ATT
1 TCTTTTTCTTTTCGATT
77732839 TCTTTT
1 TCTTTT
77732845 GTTCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
18 8 0.38
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCTTTTCGATT
Found at i:77737129 original size:20 final size:19
Alignment explanation
Indices: 77737093--77737143 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
77737083 AAGGGCTATT
*
77737093 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
77737112 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
77737132 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
77737144 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:77737883 original size:46 final size:48
Alignment explanation
Indices: 77737811--77737933 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 48
77737801 GACATTATAA
* * *
77737811 AAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCATTGAGAC-GA-
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* * *
77737857 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACATAC
1 AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
* *
77737905 AAGCTAGTGTAAGACCTGTATGGGACATG
1 AAGCTAGTGTAAGACATGTCTGGGACATG
77737934 GCGTCAGCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
46 39 0.59
47 1 0.02
48 26 0.39
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (48 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACAGAC
Found at i:77738021 original size:49 final size:49
Alignment explanation
Indices: 77737954--77738083 Score: 122
Period size: 49 Copynumber: 2.6 Consensus size: 49
77737944 GTTGTGTGTC
* * *
77737954 AGTGTAAGACCTGCCTGGGACATGGCATCGACAC-CGATAGATGAGA-TCT
1 AGTG-AAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAATTCA
* * * * *
77738003 AGTGCAAGACCTGTCTGGGAGACGACATCGGCCTCGATATATGAAATTCA
1 AGTG-AAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAATTCA
*
77738053 ACAT-AAGACCTGTCTGGGACATGGCATCGAC
1 A-GTGAAGACCTGTCTGGGACATGGCATCGAC
77738084 TTTGATGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.02
49 59 0.92
50 3 0.05
51 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
AGTGAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAATTCA
Found at i:77742556 original size:46 final size:46
Alignment explanation
Indices: 77742433--77742559 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
77742423 TGATATGTGT
** *
77742433 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTACGAGA
* ***
77742479 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTTTGAG-ACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CACAGTACGAGA
77742525 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
77742560 TTACGATGTA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
46 69 0.97
47 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGTACGAGA
Found at i:77743654 original size:21 final size:20
Alignment explanation
Indices: 77743608--77743666 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
77743598 TCAGCTCCCA
*
77743608 TCAGCTCACTTGAGCTCAAT
1 TCAGCTCATTTGAGCTCAAT
*
77743628 TCAGCTCGTTTGAGCTCGAAT
1 TCAGCTCATTTGAGCTC-AAT
* *
77743649 TTAGCTCATTTCAGCTCA
1 TCAGCTCATTTGAGCTCA
77743667 TTCCTACTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (20 bp):
TCAGCTCATTTGAGCTCAAT
Found at i:77743667 original size:10 final size:10
Alignment explanation
Indices: 77743608--77743668 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
77743598 TCAGCTCCCA
*
77743608 TCAGCTCACT
1 TCAGCTCATT
* *
77743618 TGAGCTCAAT
1 TCAGCTCATT
*
77743628 TCAGCTCGTT
1 TCAGCTCATT
*
77743638 TGAGCTCGAATT
1 TCAGCTC--ATT
77743650 T-AGCTCATT
1 TCAGCTCATT
77743659 TCAGCTCATT
1 TCAGCTCATT
77743669 CCTACTTCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 4 0.10
10 29 0.71
11 5 0.12
12 3 0.07
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.36
Consensus pattern (10 bp):
TCAGCTCATT
Found at i:77744599 original size:81 final size:81
Alignment explanation
Indices: 77744502--77744662 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
77744492 TCCCATTACG
77744502 ACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGAATC
1 ACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGAATC
77744567 AGAGAGGAATCTGTAT
66 AGAGAGGAATCTGTAT
*
77744583 ACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGACTC
1 ACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGAATC
77744648 AGAGAGGAATCTGTA
66 AGAGAGGAATCTGTA
77744663 CATATATGGT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (81 bp):
ACTTGGATATCTCTCTGCACAGAGCTTCAATACTGATGCCGTTTGTTTCTATGGAAACTAGAATC
AGAGAGGAATCTGTAT
Found at i:77745669 original size:27 final size:27
Alignment explanation
Indices: 77745639--77745816 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
77745629 ATATTGAGCC
* * * *
77745639 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
** *
77745666 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77745693 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
77745721 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
77745748 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
77745775 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
77745802 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77745817 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:77745778 original size:82 final size:81
Alignment explanation
Indices: 77745660--77745815 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77745650 TGCTATATAA
* *
77745660 TCAACTCGCACACTTAGTGCTATGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
77745725 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
77745742 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTAT-ATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
77745806 CACTTAGTGC
65 CACTTAGTGC
77745816 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTATATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:77745830 original size:82 final size:83
Alignment explanation
Indices: 77745639--77745830 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
77745629 ATATTGAGCC
* * * * *
77745639 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTATGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTATATAATCAAATCGCACACTTA
*
77745703 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
77745721 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTAT-ATAATCAAATCGCACAC
77745782 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
77745802 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
77745831 CCGCGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 18 0.20
82 69 0.76
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTATATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:77749050 original size:26 final size:26
Alignment explanation
Indices: 77749021--77749143 Score: 72
Period size: 27 Copynumber: 4.7 Consensus size: 26
77749011 TTAGTTTACC
77749021 AAATTACTGAAATACCCCTAGTTGTA
1 AAATTACTGAAATACCCCTAGTTGTA
* ** *
77749047 AAATTAC-CAAAGTACCCCCGGTTATA
1 AAATTACTGAAA-TACCCCTAGTTGTA
** * * *
77749073 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATA-CCCCTAGTTGTA
* *
77749100 AGATTA-TCGAAATA-CCCTCAGTTTGCA
1 AAATTACT-GAAATACCCCT-AG-TTGTA
*
77749127 AAATTACTGAAACACCC
1 AAATTACTGAAATACCC
77749144 TCACATGTAA
Statistics
Matches: 71, Mismatches: 18, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
25 5 0.07
26 28 0.39
27 35 0.49
28 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.28
Consensus pattern (26 bp):
AAATTACTGAAATACCCCTAGTTGTA
Found at i:77749203 original size:27 final size:27
Alignment explanation
Indices: 77749165--77749359 Score: 196
Period size: 27 Copynumber: 7.2 Consensus size: 27
77749155 ATTAACAAAG
* *
77749165 TACCCTCAAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTATTT
* * * *
77749193 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
77749220 CACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
*
77749247 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
77749274 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
77749301 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
*
77749328 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
77749355 TACCC
1 TACCC
77749360 CTATGGTGTT
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 128 0.90
28 13 0.09
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:77749238 original size:54 final size:54
Alignment explanation
Indices: 77749165--77749359 Score: 248
Period size: 54 Copynumber: 3.6 Consensus size: 54
77749155 ATTAACAAAG
* * * * *
77749165 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTATAGAATTA-CTGTTT
1 TACCCTCAATTTA-TAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GTTT
* *
77749220 CACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* * **
77749274 TACCCTCGATTTATAGAATTATTATTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
* *
77749328 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCAATTTATAAAATTACCATTTTACCC
77749360 CTATGGTGTT
Statistics
Matches: 122, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
54 110 0.90
55 12 0.10
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (54 bp):
TACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTT
Found at i:77749306 original size:81 final size:81
Alignment explanation
Indices: 77749165--77749359 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 81
77749155 ATTAACAAAG
* * * *
77749165 TACCCTCAAATTACAAAAATTACTATTTTACCCTCAATTTATAGAATTACTGTTTCACCCTCAAT
1 TACCCTCGATTTAC-AAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAAT
*
77749230 TTATAAAATTACCATTT
65 TTACAAAATTACCATTT
* * * * * *
77749247 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAATT
* * *
77749312 TACAGAATTATCGTTT
66 TACAAAATTACCATTT
77749328 TACCCTCGATTTACAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
77749360 CTATGGTGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
81 85 0.88
82 12 0.12
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAGAATTACTATTTCACCCTCAATT
TACAAAATTACCATTT
Found at i:77749640 original size:27 final size:26
Alignment explanation
Indices: 77749596--77749647 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
77749586 CTCACTGCAA
*
77749596 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
77749623 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
77749648 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:77749685 original size:67 final size:68
Alignment explanation
Indices: 77749577--77749715 Score: 190
Period size: 69 Copynumber: 2.0 Consensus size: 68
77749567 GAGGAAGCGT
* * * *
77749577 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
77749641 ATA
66 ATA
** * *
77749644 TCTGGCAGCCTTGCTGCAATCTAGTGGCTTCGCCATATATATATCTGTTCTGGTGACCTAGCCAC
1 TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCA-ACATATATCTGTTCTGGTGACCTAGCCAC
77749709 AATA
65 AATA
77749713 TCT
1 TCT
77749716 ATATCTGGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 30 0.48
69 32 0.52
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (68 bp):
TCTGGCAGCCTCACTGCAATCTAGTGGCCTCGCCAACATATATCTGTTCTGGTGACCTAGCCACA
ATA
Found at i:77749724 original size:27 final size:26
Alignment explanation
Indices: 77749684--77749742 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
77749674 CGCCATATAT
*
77749684 ATATCTGTTCTGGTGACCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
77749710 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
77749737 ATATCT
1 ATATCT
77749743 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:77749893 original size:6 final size:6
Alignment explanation
Indices: 77749862--77749910 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
77749852 TTGCATTCAC
* *
77749862 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
77749911 TCACCTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 2 0.06
6 30 0.83
7 3 0.08
8 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:77749932 original size:31 final size:31
Alignment explanation
Indices: 77749862--77749934 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
77749852 TTGCATTCAC
* * * *
77749862 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
77749893 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTCACCTAATACTA
*
77749924 ATTTTGATTCT
1 ATTCTGATTCT
77749935 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTA
Found at i:77753374 original size:29 final size:29
Alignment explanation
Indices: 77753340--77753426 Score: 117
Period size: 29 Copynumber: 3.1 Consensus size: 29
77753330 GTGTTTGGAT
77753340 TTTTGATGAATTTGCTAATTATGGACTAA
1 TTTTGATGAATTTGCTAATTATGGACTAA
*** *
77753369 -TTT--TGAATTTGCTAATTATGGTGGAT
1 TTTTGATGAATTTGCTAATTATGGACTAA
77753395 TTTTGATGAATTTGCTAATTATGGACTAA
1 TTTTGATGAATTTGCTAATTATGGACTAA
77753424 TTT
1 TTT
77753427 GTGAAAATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 19 0.40
27 3 0.06
28 3 0.06
29 22 0.47
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (29 bp):
TTTTGATGAATTTGCTAATTATGGACTAA
Found at i:77753375 original size:26 final size:27
Alignment explanation
Indices: 77753341--77753431 Score: 112
Period size: 26 Copynumber: 3.3 Consensus size: 27
77753331 TGTTTGGATT
77753341 TTTGATGAATTTGCTAATTATGGACTAA
1 TTTG-TGAATTTGCTAATTATGGACTAA
*** *
77753369 TTT-TGAATTTGCTAATTATGGTGGATT
1 TTTGTGAATTTGCTAATTATGGACTA-A
77753396 TTTGATGAATTTGCTAATTATGGACTAA
1 TTTG-TGAATTTGCTAATTATGGACTAA
77753424 TTTGTGAA
1 TTTGTGAA
77753432 AATGAGAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
26 19 0.37
27 7 0.13
28 7 0.13
29 19 0.37
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTGTGAATTTGCTAATTATGGACTAA
Found at i:77754065 original size:47 final size:47
Alignment explanation
Indices: 77754006--77754135 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
77753996 TGTGAGGAAA
* * * *
77754006 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGTGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GAAAAGT
* *
77754053 TACCTTGATTTGGCTACGGGCCATAGTATAAGTACTCTAGGAAAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAAAAGT
*
77754100 TACCATGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
77754136 TATTGATTGT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 70 0.96
48 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGAAAAGT
Found at i:77771739 original size:19 final size:19
Alignment explanation
Indices: 77771715--77771751 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77771705 TTTCTTTTGT
*
77771715 TTTATTCTATTTACTTTAA
1 TTTATTCTATTTAATTTAA
*
77771734 TTTATTTTATTTAATTTA
1 TTTATTCTATTTAATTTA
77771752 TTTGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATTCTATTTAATTTAA
Found at i:77771760 original size:14 final size:14
Alignment explanation
Indices: 77771710--77771760 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
77771700 TTTCTTTTCT
77771710 TTTGTTTT-ATTCTA
1 TTTGTTTTAATT-TA
**
77771724 TTTACTTTAATTTA
1 TTTGTTTTAATTTA
77771738 TTT-TATTTAATTTA
1 TTTGT-TTTAATTTA
77771752 TTTGTTTTA
1 TTTGTTTTA
77771761 TATTAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 27 0.87
15 4 0.13
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.71
Consensus pattern (14 bp):
TTTGTTTTAATTTA
Found at i:77772238 original size:29 final size:28
Alignment explanation
Indices: 77772206--77772273 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
77772196 ATAATATCAT
77772206 TATAATTTAATTATCATAAATTCA-T-ATTA
1 TATAATTTAATT-T-ATAAA-TCATTAATTA
* *
77772235 TATAAATTATATTTATATATCATTAATTA
1 TATAATTTA-ATTTATAAATCATTAATTA
77772264 TATAATTTAA
1 TATAATTTAA
77772274 AACAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 6 0.18
29 21 0.64
30 3 0.09
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
TATAATTTAATTTATAAATCATTAATTA
Found at i:77772239 original size:15 final size:14
Alignment explanation
Indices: 77772206--77772268 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
77772196 ATAATATCAT
*
77772206 TATAATTTA-ATTA
1 TATAAATTATATTA
77772219 TCATAAATTCATATTA
1 T-ATAAATT-ATATTA
77772235 TATAAATTATATTTA
1 TATAAATTATA-TTA
*
77772250 TATATCATTA-ATTA
1 TATA-AATTATATTA
77772264 TATAA
1 TATAA
77772269 TTTAAAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 1 0.02
14 16 0.38
15 16 0.38
16 9 0.21
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAAATTATATTA
Found at i:77784422 original size:24 final size:25
Alignment explanation
Indices: 77784369--77784422 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
77784359 GGTGCCGATT
77784369 TCTTC-TTCCTCCCTTTTTCTTCCA
1 TCTTCTTTCCTCCCTTTTTCTTCCA
* * * *
77784393 TTTTCTTTCTTCCTTTTTTCTT-TA
1 TCTTCTTTCCTCCCTTTTTCTTCCA
77784417 TCTTCT
1 TCTTCT
77784423 AGCTGAAACC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (25 bp):
TCTTCTTTCCTCCCTTTTTCTTCCA
Found at i:77788074 original size:14 final size:13
Alignment explanation
Indices: 77788051--77788123 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 13
77788041 ATAATATAAT
77788051 ATTATTATAATTTA
1 ATTA-TATAATTTA
77788065 ATTATCATAAATTTA
1 ATTAT-AT-AATTTA
*
77788080 TATTATATAAATTA
1 -ATTATATAATTTA
77788094 TATT-TATATATCATTA
1 -ATTATATA-AT--TTA
77788110 ATTATATAATTTA
1 ATTATATAATTTA
77788123 A
1 A
77788124 AACAAATAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
13 9 0.18
14 16 0.32
15 13 0.26
16 12 0.24
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTATATAATTTA
Found at i:77788079 original size:15 final size:15
Alignment explanation
Indices: 77788028--77788103 Score: 65
Period size: 15 Copynumber: 5.2 Consensus size: 15
77788018 CACAATTGGC
77788028 ATAAATTTAT-TTA-
1 ATAAATTTATATTAT
*
77788041 AT-AATATAATATTAT
1 ATAAAT-TTATATTAT
77788056 -TATAATTTA-ATTAT
1 ATA-AATTTATATTAT
77788070 CATAAATTTATATTAT
1 -ATAAATTTATATTAT
77788086 ATAAA-TTATATTTAT
1 ATAAATTTATA-TTAT
77788101 ATA
1 ATA
77788104 TCATTAATTA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
14 14 0.27
15 20 0.38
16 10 0.19
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAAATTTATATTAT
Found at i:77788100 original size:20 final size:20
Alignment explanation
Indices: 77788075--77788116 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
77788065 ATTATCATAA
77788075 ATTTATATTAT-ATAAATTAT
1 ATTTATA-TATCATAAATTAT
*
77788095 ATTTATATATCATTAATTAT
1 ATTTATATATCATAAATTAT
77788115 AT
1 AT
77788117 AATTTAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATATATCATAAATTAT
Found at i:77790919 original size:40 final size:40
Alignment explanation
Indices: 77790862--77791079 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
77790852 CGGATGGAAA
* * *
77790862 CCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
77790902 CTGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77790942 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77790982 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77791022 CCGGGCTAAGTCCCGCAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
77791062 CC-GACTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
77791080 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.09
40 144 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77799173 original size:40 final size:40
Alignment explanation
Indices: 77799118--77799335 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
77799108 CGGATGGCAA
* * *
77799118 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTGAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
*
77799158 CCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77799198 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
77799238 CCGGGCTAAGTCCCGAAGGGATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
77799278 CCGGGCTAAGTCCCGCAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
77799318 CC-GACTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
77799336 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:77801293 original size:12 final size:12
Alignment explanation
Indices: 77801276--77801301 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77801266 CATTCCGAAG
77801276 TATATATATACA
1 TATATATATACA
77801288 TATATATATACA
1 TATATATATACA
77801300 TA
1 TA
77801302 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:77801812 original size:27 final size:27
Alignment explanation
Indices: 77801781--77801958 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
77801771 TAAATTGTAC
77801781 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
77801808 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77801834 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
77801862 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
77801890 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
77801917 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
77801944 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
77801959 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:77801895 original size:82 final size:81
Alignment explanation
Indices: 77801782--77801937 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
77801772 AAATTGTACA
* *
77801782 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
77801846 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
77801863 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
77801928 TGCGAGTTGA
65 TGCGAATTGA
77801938 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:77801949 original size:82 final size:81
Alignment explanation
Indices: 77801778--77801958 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
77801768 GATTAAATTG
* *
77801778 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
77801843 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
77801859 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
77801923 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
77801941 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
77801959 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:77803918 original size:105 final size:103
Alignment explanation
Indices: 77803715--77803906 Score: 271
Period size: 105 Copynumber: 1.9 Consensus size: 103
77803705 AAGTGCCTAT
*
77803715 TTGATTTTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
1 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
* * * * * *
77803780 GCAATTAGACCATTGAATATATGAGTGGACATTAATGACC
66 GCAAATAAAACA-T-AAAACATGAATGGACATTAATGACC
77803820 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGTA
1 TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATG-A
*
77803885 T-TAAATAAAACA-AAAACATGAA
65 TGCAAATAAAACATAAAACATGAA
77803907 ATAAGGCCAT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
102 7 0.09
105 69 0.88
106 2 0.03
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (103 bp):
TTGATATTAATGTTTTAAATGTTTATAATGCAAGGGTAATATGGTAATTGATGTGTTAATATGAT
GCAAATAAAACATAAAACATGAATGGACATTAATGACC
Found at i:77804798 original size:46 final size:42
Alignment explanation
Indices: 77804731--77804852 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 42
77804721 TATATGTTAT
* * *
77804731 TGTGTAA-ATCCACGTCTGGGACGTTGGCATCGACTTATGCTTTAC
1 TGTGTAAGA-CCATGTCTGGGACATTGGCATCGA-TT-TGATTT-C
77804776 ATGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTTC
1 -TGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTC
* *
77804820 -GTGTAAGACCCTGTCTGGGACAATGGCATCGAT
1 TGTGTAAGACCATGTCTGGGACATTGGCATCGAT
77804853 GTTTGATTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
41 2 0.03
42 29 0.42
44 1 0.01
45 5 0.07
46 30 0.43
47 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTC
Found at i:77804837 original size:42 final size:43
Alignment explanation
Indices: 77804778--77804873 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 43
77804768 TGCTTTACAT
* *
77804778 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGATATTTGATTAC
* *
77804820 GTGTAAGACCCTGTCTGGGACAATGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTGGGACAATGGCATCGATATTTGATTAC
*
77804863 ATGTAAGACCA
1 GTGTAAGACCA
77804874 CATCTAGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 29 0.62
43 18 0.38
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAATGGCATCGATATTTGATTAC
Found at i:77804890 original size:43 final size:42
Alignment explanation
Indices: 77804740--77804896 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 42
77804730 TTGTGTAAAT
* *
77804740 CCACGTCTGGGACGTTGGCATCG-ACTTATGCTTTACATGTGTAAGA
1 CCACGTCTGGGACATTGGCATCGTA-TT-TG-ATTACA--TGTAAGA
* * *
77804786 CCATGTCTGGGACATTGGCATCGTATTTGATTTCGTGTAAGA
1 CCACGTCTGGGACATTGGCATCGTATTTGATTACATGTAAGA
* *
77804828 CC-CTGTCTGGGACAATGGCATCGATGTTTGATTACATGTAAGA
1 CCAC-GTCTGGGACATTGGCATCG-TATTTGATTACATGTAAGA
* * * *
77804871 CCACATCTAGGACGTTGGCATTGTAT
1 CCACGTCTGGGACATTGGCATCGTAT
77804897 GTGCTTTCCG
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 4 0.04
45 2 0.02
46 23 0.25
47 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
CCACGTCTGGGACATTGGCATCGTATTTGATTACATGTAAGA
Found at i:77806706 original size:49 final size:49
Alignment explanation
Indices: 77806650--77806824 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
77806640 CTGGTACGCA
77806650 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * * * *
77806699 TAATAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CGAATACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG-GTACACG
*
77806750 TAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
*
77806799 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
77806825 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 60 0.57
50 10 0.10
51 35 0.33
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:77806777 original size:100 final size:100
Alignment explanation
Indices: 77806644--77806829 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
77806634 GGCCATCTGG
* *
77806644 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTG
1 TACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTA
77806709 CACTTAGTACTACACACGTGATCGAAGTTATCGAA
66 CACTTAGTACTACACACGTGATCGAAGTTATCGAA
*
77806744 TACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
1 TACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTA
77806809 CACTTAGTACTACACACGTGA
66 CACTTAGTACTACACACGTGA
77806830 CCTCACAATA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (100 bp):
TACGCATAGTAGCCTGCACTAAGTACTACACATGCGACCAATTATCCGGTACACGTAATAGCCTA
CACTTAGTACTACACACGTGATCGAAGTTATCGAA
Found at i:77807108 original size:27 final size:27
Alignment explanation
Indices: 77807078--77807131 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
77807068 TCATACAACC
*
77807078 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAGTAATTTAACATTCAATT
**
77807105 CATGTAACAGTAATTTTCCATTCAATT
1 CATGTAACAGTAATTTAACATTCAATT
77807132 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAGTAATTTAACATTCAATT
Found at i:77812210 original size:27 final size:26
Alignment explanation
Indices: 77812175--77812286 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
77812165 AGCATGGCTG
* *
77812175 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
77812201 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
77812229 CCAGAACAAAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
77812256 CCAGATCAGATAATTGTAGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
77812283 CCAG
1 CCAG
77812287 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:77815641 original size:46 final size:45
Alignment explanation
Indices: 77815574--77815748 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
77815564 TGTAACCCGC
*
77815574 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
77815620 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTCG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
77815666 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
77815713 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
77815749 ATGCCCAAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 70 0.65
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:77815695 original size:93 final size:93
Alignment explanation
Indices: 77815582--77815753 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
77815572 GCCCATAAGT
* * *
77815582 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77815647 CGAGCTCGGATGCCTCGTTACATCTCTC
66 CGAGCTCGGATGCCTCGTTACATCTCTC
* *
77815675 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
77815740 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
77815754 CAAATATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTCGTTACATCTCTC
Found at i:77822292 original size:34 final size:35
Alignment explanation
Indices: 77822215--77822314 Score: 100
Period size: 34 Copynumber: 2.9 Consensus size: 35
77822205 ACTCTTTGTT
*
77822215 TGCATACTG-TACTGAAATGGGCTAAGGCCCAGAC
1 TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
* *
77822249 TGCCT-CTGTTACTAAAATGGGCTCAA-GCCCAGAT
1 TGCATACTGTTACTAAAATGGGCT-AAGGCCCAGAC
* *
77822283 TG-ATACTGTTTCTGAAAAAGAGGCTAAGGCCC
1 TGCATACTGTTACT-AAAATG-GGCTAAGGCCC
77822315 TAACTGGAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
33 4 0.07
34 33 0.61
35 9 0.17
36 8 0.15
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (35 bp):
TGCATACTGTTACTAAAATGGGCTAAGGCCCAGAC
Found at i:77826300 original size:47 final size:47
Alignment explanation
Indices: 77826242--77826336 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
77826232 CTTAATAATT
* *
77826242 AAAAACTTATACCCTTTTTAAACCTTGTTAGAAACCTCAGCTGAATA
1 AAAAACGTATACCCTTTTTAAACCTTGTTAGAAACCTCAGCTAAATA
77826289 AAAAACGTATACCCTTTTTAAACCTTGTTAGAAACCTCAGCTAAATA
1 AAAAACGTATACCCTTTTTAAACCTTGTTAGAAACCTCAGCTAAATA
77826336 A
1 A
77826337 CATTCTTAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (47 bp):
AAAAACGTATACCCTTTTTAAACCTTGTTAGAAACCTCAGCTAAATA
Found at i:77826849 original size:49 final size:49
Alignment explanation
Indices: 77826777--77826871 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
77826767 TAGCCCACTA
*
77826777 TAACAGATAGTACCAGATGGGCTTTAACCCATTACAGAATAAGAAATTT
1 TAACAGACAGTACCAGATGGGCTTTAACCCATTACAGAATAAGAAATTT
77826826 TAACAGACAGTACCAGATGGGCTTTAACCCATTACAGAATAAGAAA
1 TAACAGACAGTACCAGATGGGCTTTAACCCATTACAGAATAAGAAA
77826872 CATTATTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (49 bp):
TAACAGACAGTACCAGATGGGCTTTAACCCATTACAGAATAAGAAATTT
Found at i:77826894 original size:6 final size:6
Alignment explanation
Indices: 77826885--77826995 Score: 75
Period size: 6 Copynumber: 17.8 Consensus size: 6
77826875 TATTAGAACT
* * *
77826885 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* * *
77826934 AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
77826984 AAAAATC AGAAT
1 -AGAATC AGAAT
77826996 GTGAATGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
5 5 0.06
6 60 0.74
7 13 0.16
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:77826923 original size:31 final size:31
Alignment explanation
Indices: 77826885--77826995 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
77826875 TATTAGAACT
* * * *
77826885 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
77826916 AGAATCAGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
77826947 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
77826978 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
77826996 GTGAATGCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 62 0.85
32 11 0.15
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:77826952 original size:19 final size:19
Alignment explanation
Indices: 77826928--77826984 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
77826918 AATCAGAATT
77826928 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
*
77826947 AGAATCA--A--A---ATC
1 AGAATCAGTATCAGGTAAC
77826959 AGAATCAGTATCAGGTAAC
1 AGAATCAGTATCAGGTAAC
77826978 AGAATCA
1 AGAATCA
77826985 AAAATCAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
12 9 0.31
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
19 16 0.55
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (19 bp):
AGAATCAGTATCAGGTAAC
Found at i:77827174 original size:27 final size:26
Alignment explanation
Indices: 77827132--77827233 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 26
77827122 GCTCAGTTAT
* *
77827132 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
77827159 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
77827185 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* * *
77827213 CAGGTAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
77827234 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.79
28 7 0.10
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:77827420 original size:22 final size:22
Alignment explanation
Indices: 77827392--77827456 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
77827382 GAAAATACAT
*
77827392 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
77827414 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
77827436 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
77827457 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:77827939 original size:27 final size:27
Alignment explanation
Indices: 77827883--77827979 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
77827873 GGGGCAAAAT
* * * *
77827883 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77827909 GGTAATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
77827936 GGTAATTCTACCCTACAGGGGTATTTTA
1 GGTAATTCTACCCTACAGGGGTA-TTTC
77827964 GG-AATTCTACCCTACA
1 GGTAATTCTACCCTACA
77827980 TGTAACACCC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 14 0.23
27 43 0.69
28 5 0.08
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:77828262 original size:27 final size:27
Alignment explanation
Indices: 77828232--77828298 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
77828222 ACATGCCATG
* *
77828232 TTTCGATATTTCTACCCTATAAGGGTA
1 TTTCGATAATTCTACCCTACAAGGGTA
* * *
77828259 TTTCGGTAATTCTATCCTACAGGGGTA
1 TTTCGATAATTCTACCCTACAAGGGTA
*
77828286 TTTCAATAATTCT
1 TTTCGATAATTCT
77828299 TAGCAGTACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (27 bp):
TTTCGATAATTCTACCCTACAAGGGTA
Found at i:77828840 original size:37 final size:37
Alignment explanation
Indices: 77828790--77828868 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
77828780 TTATTACGAA
* * *
77828790 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
77828827 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
77828864 GTCTT
1 GTCTT
77828869 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:77829064 original size:47 final size:47
Alignment explanation
Indices: 77828986--77829474 Score: 906
Period size: 47 Copynumber: 10.4 Consensus size: 47
77828976 CCCTTCGGGA
* * * * * *
77828986 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
77829033 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829080 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829127 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829174 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829221 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829268 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829315 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829362 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829409 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
77829456 CTTATCACATATATACACT
1 CTTATCACATATATACACT
77829475 GTCTTGGCTG
Statistics
Matches: 432, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 432 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:77833303 original size:40 final size:40
Alignment explanation
Indices: 77833214--77833565 Score: 512
Period size: 40 Copynumber: 8.8 Consensus size: 40
77833204 GAATACACAT
*
77833214 CACCAGCAT-GAATGCTCTTCGAGACTTAGCCCGG--ATAA
1 CACCAGC-TCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
77833252 CACTAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
77833292 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
77833332 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
77833372 CACCAACTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
77833412 CACCAGCACGAATGCTCTTCGGGACTTAGCTCGGATATAT
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
77833452 CACTAGCACGAATGCTCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
77833492 CACCAACTCGAATGCTCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
77833532 CACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
1 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGG
77833566 GTATCTAACT
Statistics
Matches: 284, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
37 1 0.00
38 29 0.10
40 254 0.89
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:77833413 original size:120 final size:120
Alignment explanation
Indices: 77833214--77833565 Score: 582
Period size: 120 Copynumber: 3.0 Consensus size: 120
77833204 GAATACACAT
* * *
77833214 CACCAGCATGAATGCTCTTCGAGACTTAGCCCGG--ATAACACTAGCTCGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
* * *
77833277 CTAGCCCGGATATAACACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
77833332 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
* *
77833397 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCTCGGATATAT
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
77833452 CACTAGCACGAATGCTCTTTGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCAGGAC
1 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
*
77833517 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCAGGACTTAGCCCGG
66 TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
77833566 GTATCTAACT
Statistics
Matches: 219, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
118 33 0.15
120 186 0.85
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (120 bp):
CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACTCGAATGCTCTTCGGGAC
TTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:77834902 original size:37 final size:37
Alignment explanation
Indices: 77834838--77834988 Score: 230
Period size: 37 Copynumber: 4.1 Consensus size: 37
77834828 CCTTTAGCTT
* * *
77834838 GGACGAAATCTCCACACGAAGTTATCGGGTCTTACCC
1 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
*
77834875 GGACAAAATCTCTACACGTAGTCATCGGGTCTTACCC
1 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
*
77834912 GGGCAAAATCTCCACACGTAGTCATCGGGTCTTACCC
1 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
* * *
77834949 GGACATACTCTCCACACGTAGTCATCGGGTCTCACCC
1 GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
77834986 GGA
1 GGA
77834989 ATATATTTCC
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (37 bp):
GGACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
Found at i:77835189 original size:48 final size:48
Alignment explanation
Indices: 77835135--77835699 Score: 864
Period size: 48 Copynumber: 11.7 Consensus size: 48
77835125 GCACATCGCC
* *
77835135 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
77835183 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
77835231 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
77835279 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACACATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
77835327 TACATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
77835375 TACATATTGCACATTAGCCATTCGGCTTTACCATATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* ** *
77835425 TATATATTTCACATTAGCCATTCTTCTTTACCATATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
77835473 TACATATTTCACACTAGCCATTC-GCATTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGC-TTTACCACATATACATATCTCA
* * *
77835521 TATAT-TCTTCACATTAGCCATTCGGATTTACCACATATATATATCTCA
1 TACATAT-TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* **
77835569 TACATGTTTCATGTTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * * *
77835617 TATATATTTCATATTAGCTATTTGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
77835665 TACATATTTCACATTAGCCATTCGGCTTTACCACA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACA
77835700 CACATATATA
Statistics
Matches: 477, Mismatches: 34, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
47 2 0.00
48 429 0.90
49 2 0.00
50 44 0.09
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Done.