Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 163 of 425
Found at i:49606852 original size:78 final size:81
Alignment explanation
Indices: 49606709--49606892 Score: 252
Period size: 78 Copynumber: 2.3 Consensus size: 81
49606699 GCTACTCGTT
* * *
49606709 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
49606774 ATTTAGTAAC-TCGCA
66 ATATAGTAACTTAGCA
**
49606789 CAAATGCCTTCGGG-CTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
*
49606851 GATATAGTCACTTAGCA
65 GATATAGTAACTTAGCA
49606868 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49606893 CATCATTCGA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
77 3 0.03
78 47 0.51
79 29 0.31
80 14 0.15
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:49611047 original size:40 final size:41
Alignment explanation
Indices: 49610953--49611173 Score: 255
Period size: 40 Copynumber: 5.6 Consensus size: 41
49610943 TATTCGAATG
*
49610953 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
49610994 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
49611034 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
*
49611074 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
49611114 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
49611153 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
49611174 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 16 0.10
40 95 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49614870 original size:40 final size:40
Alignment explanation
Indices: 49614776--49614960 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
49614766 TGTTCGAATG
* *
49614776 ATATCTGGGCTAAG-TCCTGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTGTGCTA-GTGACT
* * * *
49614817 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
49614857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
49614897 ATATCCGGGCTAAG-TCCCAAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
49614937 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
49614961 CTTGTTCAAG
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 91 0.75
41 26 0.21
42 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:49617988 original size:2 final size:2
Alignment explanation
Indices: 49617981--49618005 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49617971 TCAAGTATTC
49617981 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
49618006 CTTTCTCGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49621305 original size:14 final size:14
Alignment explanation
Indices: 49621286--49621313 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49621276 TTGGTATGTA
49621286 AATGATCTATGATG
1 AATGATCTATGATG
49621300 AATGATCTATGATG
1 AATGATCTATGATG
49621314 CATAAATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
AATGATCTATGATG
Found at i:49621964 original size:29 final size:29
Alignment explanation
Indices: 49621919--49621981 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
49621909 GAACTTGAGA
*
49621919 ATATGTTGTAAACATTGATAAAACATGTC
1 ATATGTTGTAAAAATTGATAAAACATGTC
49621948 ATATGTTGTAAAAATTGATAAAACATGTC
1 ATATGTTGTAAAAATTGATAAAACATGTC
49621977 ATATG
1 ATATG
49621982 AGCTTACCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (29 bp):
ATATGTTGTAAAAATTGATAAAACATGTC
Found at i:49625918 original size:52 final size:51
Alignment explanation
Indices: 49625840--49625982 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
49625830 CCTTGTAGTT
* * *
49625840 AAAGCTACCTTCTTCACAAAGTGGCCTTCACAGAGTACCACACTTGTGACC
1 AAAGCTATCTTCTTTACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
*
49625891 AAAGCTATCTTTCTTTACAAAGTGGCCTTCACATAGAACCACACTTGTGACC
1 AAAGCTATC-TTCTTTACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
49625943 -AAGCTATC-TCTTCT-CAAAGTGGCCTTCACATAGTACCACA
1 AAAGCTATCTTCTT-TACAAAGTGGCCTTCACATAGTACCACA
49625983 TTTGAGTCAG
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
49 29 0.34
50 1 0.01
51 16 0.19
52 39 0.46
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (51 bp):
AAAGCTATCTTCTTTACAAAGTGGCCTTCACATAGTACCACACTTGTGACC
Found at i:49630008 original size:40 final size:39
Alignment explanation
Indices: 49629843--49630026 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
49629833 AAATTGAATG
* * *
49629843 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
49629883 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
49629923 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
49629963 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
49630002 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
49630027 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:49630051 original size:80 final size:81
Alignment explanation
Indices: 49629883--49630071 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
49629873 GCTGGAAATT
* * * *
49629883 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
49629948 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
49629964 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
49630027 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
49630043 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
49630072 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:49641459 original size:29 final size:29
Alignment explanation
Indices: 49641426--49641557 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
49641416 GTGACGAGAT
49641426 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49641455 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
49641484 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
49641513 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
49641542 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49641558 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49643242 original size:27 final size:26
Alignment explanation
Indices: 49643212--49643684 Score: 384
Period size: 27 Copynumber: 17.7 Consensus size: 26
49643202 TAATAAAGAG
*
49643212 AAATTACTGAAATACCCCTAGTTTGTA
1 AAATTACTGAAATA-CCCTCGTTTGTA
* * *
49643239 AAATTACCGAAGTA-CCTCGGTTTATA
1 AAATTACTGAAATACCCTC-GTTTGTA
*
49643265 AAATTA-TCGAAATACTCCT-GGTTGTA
1 AAATTACT-GAAATAC-CCTCGTTTGTA
** *
49643291 AAATTACCAAAATACCTCTAGTTTGTA
1 AAATTACTGAAATACC-CTCGTTTGTA
* * *
49643318 AAATTACCGAAATACCTTAGTTTGTA
1 AAATTACTGAAATACCCTCGTTTGTA
** * *
49643344 AAATTACCAAAATACCCTTGGTTTGCA
1 AAATTACTGAAATACCC-TCGTTTGTA
* * *
49643371 AAATTGCTAAAATACCCTCGAATTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* * *
49643398 AAATTACCGAAATATCCTCGATTGTA
1 AAATTACTGAAATACCCTCGTTTGTA
* * *
49643424 AAATTAGTAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTC-GTTTGTA
*
49643451 AAATTA-TCGAAACT-CCCTCAATTTGTA
1 AAATTACT-GAAA-TACCCTC-GTTTGTA
*
49643478 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
*
49643505 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
49643532 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCG-TTTGTA
*
49643559 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* *
49643586 AAATTACCGAAATACCATCGATTTGTA
1 AAATTACTGAAATACCCTCG-TTTGTA
* * * *
49643613 AAATTACTAAAACACCTTCTATTTGTA
1 AAATTACTGAAATACCCTC-GTTTGTA
* *
49643640 AAATTA-TCGAAATACCCTTGTAGTGTA
1 AAATTACT-GAAATACCCTCGT-TTGTA
*
49643667 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
49643685 TGTAGTGTAA
Statistics
Matches: 372, Mismatches: 53, Indels: 42
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.01
26 88 0.24
27 274 0.74
28 6 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCGTTTGTA
Found at i:49643537 original size:81 final size:80
Alignment explanation
Indices: 49643233--49643684 Score: 436
Period size: 81 Copynumber: 5.6 Consensus size: 80
49643223 ATACCCCTAG
* * * * *
49643233 TTTGTAAAATTACCGAAGTA-CCTCGGTTTATAAAATTATCGAAATACTCCT-G-GTTGTAAAAT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATAC-CCTCGATTTGTAAAAT
* * *
49643295 TACCAAAATACCTCTAG
65 TACGAAAATCCCTC-AA
* * * * * *
49643312 TTTGTAAAATTACCGAAATACCTTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGCAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* *
49643376 GCTAAAATACCCTCGAA
66 ACGAAAAT-CCCTC-AA
* *** *
49643393 -TTGTAAAATTACCGAAATATCCTCGA-TTGTAAAATTAGTAAAATACCCTCAATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
*
49643456 ATCGAAACTCCCTCAA
66 A-CGAAAATCCCTCAA
** * *
49643472 TTTGTAAAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
*
49643537 ATCG-AAATACCCTCGA
66 A-CGAAAAT-CCCTCAA
** *
49643553 TTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCATCGATTTGTAAAATT
1 TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
* *
49643618 ACTAAAA-CACCTTCTA
66 ACGAAAATC-CC-TCAA
* * *
49643634 TTTGTAAAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 TTTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTACCGAAATACCCT
49643685 TGTAGTGTAA
Statistics
Matches: 313, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
78 3 0.01
79 41 0.13
80 106 0.34
81 163 0.52
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (80 bp):
TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATT
ACGAAAATCCCTCAA
Found at i:49643667 original size:54 final size:54
Alignment explanation
Indices: 49643212--49643684 Score: 439
Period size: 54 Copynumber: 8.8 Consensus size: 54
49643202 TAATAAAGAG
* ** * * *
49643212 AAATTA-CTGAAATACCC-CTAGTTTGTAAAATTACCGAAGTA-CCTCGGTTTATA
1 AAATTATC-GAAATACCCTCGA-TTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * *
49643265 AAATTATCGAAATACTCCT-G-GTTGTAAAATTACCAAAATA-CCTCTAGTTTGTA
1 AAATTATCGAAATAC-CCTCGATTTGTAAAATTACTAAAATACCCTCGA-TTTGTA
* * * * * * *
49643318 AAATTACCGAAATACCTTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGCA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * ** *
49643371 AAATT-GCTAAAATACCCTCGAATTGTAAAATTACCGAAATATCCTCGA-TTGTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * * *
49643424 AAATTAGT-AAAATACCCTCAATTTGTAAAATTATCGAAACT-CCCTCAATTTGTA
1 AAATTA-TCGAAATACCCTCGATTTGTAAAATTA-CTAAAATACCCTCGATTTGTA
* * *
49643478 AAATTATTGAAATACCCTCGATTTGTAAAATTACTGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
49643532 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * * * *
49643586 AAATTACCGAAATACCATCGATTTGTAAAATTACTAAAACACCTTCTATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
* * **
49643640 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCCT
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACTAAAATACCCT
49643685 TGTAGTGTAA
Statistics
Matches: 350, Mismatches: 55, Indels: 29
0.81 0.13 0.07
Matches are distributed among these distances:
52 24 0.07
53 113 0.32
54 213 0.61
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTA
Found at i:49643725 original size:27 final size:27
Alignment explanation
Indices: 49643636--49643727 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
49643626 ACCTTCTATT
* *
49643636 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
49643663 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
* *
49643690 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
*
49643717 GGTAAAATGAC
1 TGTAAAATGAC
49643728 TATTTTGCCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:49647535 original size:13 final size:13
Alignment explanation
Indices: 49647517--49647550 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
49647507 GCATGCGTGA
49647517 CCACACGGCCTTC
1 CCACACGGCCTTC
49647530 CCACACGGCCTTC
1 CCACACGGCCTTC
49647543 CCACACGG
1 CCACACGG
49647551 GCGTGTAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.53, G:0.18, T:0.12
Consensus pattern (13 bp):
CCACACGGCCTTC
Found at i:49649150 original size:19 final size:19
Alignment explanation
Indices: 49649113--49649212 Score: 150
Period size: 19 Copynumber: 5.3 Consensus size: 19
49649103 CAAGATTACA
49649113 ATATCATATCTTCAAGATTGC
1 ATATCATATC-T-AAGATTGC
49649134 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
49649153 ATATCATATCTAAGATTG-
1 ATATCATATCTAAGATTGC
* *
49649171 -TATCGTATCTAATATTGC
1 ATATCATATCTAAGATTGC
49649189 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
49649208 ATATC
1 ATATC
49649213 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
17 15 0.21
19 47 0.64
20 1 0.01
21 10 0.14
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:49649188 original size:36 final size:37
Alignment explanation
Indices: 49649104--49649212 Score: 139
Period size: 36 Copynumber: 2.8 Consensus size: 37
49649094 TTAAATCTCC
*
49649104 AAGATTACAATATCATATCTTCAAGATTGCATATCATATCT
1 AAGATTGC-ATATCATATC-T-AAGATTG-ATATCATATCT
*
49649145 AAGATTGCATATCATATCTAAGATTG-TATCGTATCT
1 AAGATTGCATATCATATCTAAGATTGATATCATATCT
*
49649181 AATATTGCATATCATATCTAAGATTGCATATC
1 AAGATTGCATATCATATCTAAGATTG-ATATC
49649213 CTTAAAGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
36 34 0.54
38 11 0.17
39 1 0.02
40 10 0.16
41 7 0.11
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
AAGATTGCATATCATATCTAAGATTGATATCATATCT
Found at i:49649655 original size:44 final size:45
Alignment explanation
Indices: 49649579--49649709 Score: 149
Period size: 45 Copynumber: 2.9 Consensus size: 45
49649569 GCTATCTTTG
* * * * *
49649579 ATCTGCTCCCTGTCTAATACAGAGACGTCAAAT-T-TTCTTCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTT-ATCTCCA
*
49649623 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCA
* * * *
49649668 ATTTACTCCCCGTCTAATACAAAGATGCCAAATCTGTCATCT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCT
49649710 TGGATCTGCA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
44 30 0.40
45 43 0.57
46 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCA
Found at i:49649947 original size:134 final size:134
Alignment explanation
Indices: 49649783--49650077 Score: 473
Period size: 134 Copynumber: 2.2 Consensus size: 134
49649773 CGAATATGGA
* * *
49649783 GATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAATACAGGGATGCCATGCTGAAATCTTCA
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCA
* **
49649848 ATCTGCTTCGCTATAAGCACAGGAATGTCAGATCTGCTATGTCTTTGATCTGTTCCCTATAAACA
66 ATCTACTTCGCTATAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTGTTCCCTATAAACA
49649913 AAGG
131 AAGG
* **
49649917 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGTTAAAATCTTTG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCA
* *
49649982 ATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTGTTCCCTATAAATA
66 ATCTACTTCGCTATAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTGTTCCCTATAAACA
*
49650047 CAGG
131 AAGG
*
49650051 GATGCCTAATCTGCTATCTTCAACTTG
1 GATGCCAAATCTGCTATCTTCAACTTG
49650078 CTCTCTGATA
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
134 148 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (134 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCA
ATCTACTTCGCTATAAGCACAGGAATGTCAGATCTGCTATGTCTTCAATCTGTTCCCTATAAACA
AAGG
Found at i:49649955 original size:44 final size:44
Alignment explanation
Indices: 49649783--49650121 Score: 215
Period size: 44 Copynumber: 7.6 Consensus size: 44
49649773 CGAATATGGA
* *
49649783 GATGCCAAATCTACTATCTTCAA-CTTGTTCCCTATAAATACAGG
1 GATGCCAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGG
** * *
49649827 GATGCC--ATGCTGAAATCTTCAATCTGCTTCGCTATAAGCACAGG
1 GATGCCAAAT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGG
* * * ** *
49649871 AATGTCAGATCTGCTATGTCTTTGATCTGTTCCCTATAAACAAAGG
1 GATGCCAAATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGG
49649917 GATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGG
1 GATGCCAAATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGG
** *** ** * * * *
49649961 GATGCCATGT-TAAAATCTTTGATCTACTTCGCTGTAAGCACAGG
1 GATGCCAAATCTGCTATCTTCAATCT-GTTCCCTATAAACACAGG
* * * *
49650005 AATGTCAGATCTGCTATGTCTTCAATCTGTTCCCTATAAATACAGG
1 GATGCCAAATCTGCTA--TCTTCAATCTGTTCCCTATAAACACAGG
* * * * *
49650051 GATGCCTAATCTGCTATCTTCAA-CTTGCTCTCTGAT-AATACAGA
1 GATGCCAAATCTGCTATCTTCAATC-TGTTCCCT-ATAAACACAGG
* * *
49650095 GACGCCAAATCTTCTATCTTCGATCTG
1 GATGCCAAATCTGCTATCTTCAATCTG
49650122 CTCTCTGACA
Statistics
Matches: 222, Mismatches: 57, Indels: 32
0.71 0.18 0.10
Matches are distributed among these distances:
42 2 0.01
43 22 0.10
44 118 0.53
45 9 0.04
46 54 0.24
47 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
GATGCCAAATCTGCTATCTTCAATCTGTTCCCTATAAACACAGG
Found at i:49650124 original size:44 final size:44
Alignment explanation
Indices: 49650043--49651199 Score: 319
Period size: 44 Copynumber: 26.4 Consensus size: 44
49650033 GTTCCCTATA
* * ** * *
49650043 AATACAGGGATGCCTAATCTGCTATCTTC-AACTTGCTCTCTGAT
1 AATACAGAGATGCCAAATCTATTATCTTCGATC-TGCTCTCTGAC
*
49650087 AATACAGAGACGCCAAATCT-TCTATCTTCGATCTGCTCTCTGAC
1 AATACAGAGATGCCAAATCTAT-TATCTTCGATCTGCTCTCTGAC
* * *
49650131 AATATAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * *
49650175 AATACAAAGATGTCAAATCTATTATCTTCGATCTACTCCCTGTC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * * *
49650219 TAATAAAGAGATGCCAAATC---T-GCTTAGATTTACT-TC-AAC
1 -AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * * *
49650258 GTAA-ACACGTGAAAGCCAAAT-TAGCTATGTCTTCGATCTACTCCCTGCC
1 --AATACA-GAG-ATGCCAAATCTA--T-TATCTTCGATCTGCTCTCTGAC
* * * *
49650307 AATACAGAGACGCCAAATC----ATCTTAGATTTGCT-TC-AAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * ** * * * *
49650345 ATAAACACATGAAAACCAAATC-AGCTATGTCCTCGATCTGCTCTCGGCC
1 A-ATACAGA-G-ATGCCAAATCTA--T-TATCTTCGATCTGCTCTCTGAC
* * * *
49650394 AATACAGAGACGCCAAATC----ATCTTAGATTTGCT-TC-AAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * * *
49650432 GTAA-ACACGTGAAAGCCAAATC-AGCTATGTCTTTGATCTGCTCCCTGCC
1 --AATACA-GAG-ATGCCAAATCTA--T-TATCTTCGATCTGCTCTCTGAC
* * * *
49650481 AATATAGAGATGCCAAATC----ATCTTAGATTTGCT-TC-AAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * * *
49650519 GTAA-ACATGTGAAAGCCAAATCAACTATGTCCTT-GATCTGCTCCCTGCC
1 --AATACA-GAG-ATGCCAAATCTA-T-TAT-CTTCGATCTGCTCTCTGAC
* * ** * * *
49650568 AATACAAAGACGCCAAATCTGCTGTCTTTGATCTGCTCTCTGCC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * *
49650612 AATATAGAGATGCCAAATCTGTTATCTTCAATCTGCTCTCTG-C
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * **
49650655 TAATATAGAGATGCCAAATTTGCTATCTTCGATCTGCTCTCTGAC
1 -AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * *
49650700 AATAGAGAGACGCCAAATC----ATCTTGGATTTGCT-TCAATG-T
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTC--TGAC
* * * * *
49650740 AA-ACACGTGAAAGCCAAATC-AGTTATGTCTTTGATCTGCTCCCTGCC
1 AATACA-GAG-ATGCCAAATCTA-TTA--TCTTCGATCTGCTCTCTGAC
* * *
49650787 AATACAGAGATGCCAAATC----ATCTTAGATTTGCT-TCAATG-T
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTC--TGAC
* * * * * *
49650827 AA-ACACGTGAAAGCCAAATC-AGCTATGTCCTCGATCTGCTCCCTGCC
1 AATACA-GAG-ATGCCAAATCTA--T-TATCTTCGATCTGCTCTCTGAC
* ** *
49650874 AATACAGAGACGCCAAATCTGCTGTCTTCGATCTGCTCTCT-ACC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGA-C
* * * *
49650918 AATACAGAGATGCCAAATTTGTTATCTTCGATCTACTCTCTGCC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* ** * * *
49650962 AAAACAGAGATGCCAAATCTGCTACCTTTGATCTGCTTTCTGAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * * * *
49651006 AATACAAAGACGCTAAATC----ATCTTGGATTTGCT-TC-AAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * * *
49651044 GTAA-ACATGTGAAAGCCAAAT-TAGTTATGTCTTCAATCTGCTCCCT-ACC
1 --AATACA-GAG-ATGCCAAATCTA-TTA--TCTTCGATCTGCTCTCTGA-C
* *
49651093 AATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
* * *
49651137 AATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGAC
1 AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
49651181 AATACAGAGATGCCAAATC
1 AATACAGAGATGCCAAATC
49651200 ATCTTGGATC
Statistics
Matches: 831, Mismatches: 177, Indels: 210
0.68 0.15 0.17
Matches are distributed among these distances:
38 6 0.01
39 30 0.04
40 91 0.11
41 73 0.09
42 2 0.00
43 4 0.00
44 400 0.48
45 22 0.03
46 68 0.08
47 95 0.11
48 34 0.04
49 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
AATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTGAC
Found at i:49650350 original size:87 final size:87
Alignment explanation
Indices: 49650199--49650586 Score: 564
Period size: 87 Copynumber: 4.4 Consensus size: 87
49650189 AAATCTATTA
* * * * *
49650199 TCTTCGATCTACTCCCTGTCTAATAAAGAGATGCCAAATC-TGCTTAGATTTACTTCAACGTAAA
1 TCTTCGATCTGCTCCCTG-CCAATACAGAGACGCCAAATCAT-CTTAGATTTGCTTCAACGTAAA
*
49650263 CACGTGAAAGCCAAATTAGCTATG
64 CACGTGAAAGCCAAATCAGCTATG
* *
49650287 TCTTCGATCTACTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACATAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
49650352 CATGAAAACCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
49650374 TCCTCGATCTGCTCTCGGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
49650439 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
* * *
49650461 TCTTTGATCTGCTCCCTGCCAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
49650526 TGTGAAAGCCAAATCAACTATG
66 CGTGAAAGCCAAATCAGCTATG
*
49650548 TCCTT-GATCTGCTCCCTGCCAATACAAAGACGCCAAATC
1 T-CTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
49650587 TGCTGTCTTT
Statistics
Matches: 272, Mismatches: 26, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
87 250 0.92
88 22 0.08
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:49650713 original size:306 final size:306
Alignment explanation
Indices: 49650377--49651111 Score: 1182
Period size: 306 Copynumber: 2.4 Consensus size: 306
49650367 AGCTATGTCC
* * *
49650377 TCGATCTGCTCTCGGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGT
* *
49650442 GAAAGCCAAATCAGCTATGTCTTTGATCTGCTCCCTGCCAATATAGAGATGCCAAATCATCTTAG
66 GAAAGCCAAATCAGTTATGTCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAG
* *
49650507 ATTTGCTTCAACGTAAACATGTGAAAGCCAAATCAACTATGTCCTTGATCTGCTCCCTGCCAATA
131 ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTGCCAATA
* * *
49650572 CAAAGACGCCAAATCTGCTGTCTTTGATCTGCTCTCTGCCAATATAGAGATGCCAAATCTGTTAT
196 CAAAGACGCCAAATCTGCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTTAT
* * * * * *
49650637 CTTCAATCTGCTCTCTGCTAATATAGAGATGCCAAATTTGCTATCT
261 CTTCAATCTACTCTCTGCCAAAACAGAGATGCCAAATCTGCTACCT
* *
49650683 TCGATCTGCTCTCTGACAATAGAGAGACGCCAAATCATCTTGGATTTGCTTCAATGTAAACACGT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGT
49650748 GAAAGCCAAATCAGTTATGTCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAG
66 GAAAGCCAAATCAGTTATGTCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAG
* *
49650813 ATTTGCTTCAATGTAAACACGTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATA
131 ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTGCCAATA
* *
49650878 CAGAGACGCCAAATCTGCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATTTGTTAT
196 CAAAGACGCCAAATCTGCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTTAT
*
49650943 CTTCGATCTACTCTCTGCCAAAACAGAGATGCCAAATCTGCTACCT
261 CTTCAATCTACTCTCTGCCAAAACAGAGATGCCAAATCTGCTACCT
* * * * *
49650989 TTGATCTGCTTTCTGACAATACAAAGACGCTAAATCATCTTGGATTTGCTTCAACGTAAACATGT
1 TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGT
* ** *
49651054 GAAAGCCAAATTAGTTATGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATC
66 GAAAGCCAAATCAGTTATGTCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATC
49651112 TGTTATCTTC
Statistics
Matches: 395, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
306 395 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (306 bp):
TCGATCTGCTCTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGT
GAAAGCCAAATCAGTTATGTCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAG
ATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTGCCAATA
CAAAGACGCCAAATCTGCTGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTTAT
CTTCAATCTACTCTCTGCCAAAACAGAGATGCCAAATCTGCTACCT
Found at i:49650756 original size:41 final size:41
Alignment explanation
Indices: 49650711--49650847 Score: 109
Period size: 41 Copynumber: 3.2 Consensus size: 41
49650701 ATAGAGAGAC
49650711 GCCAAATCATCTTGGATTTGCTTCAATGTAAACACGTGAAA
1 GCCAAATCATCTTGGATTTGCTTCAATGTAAACACGTGAAA
** ** * * *
49650752 GCCAAATCAGT-TATGTCTTTGATCTGCTCCCTGCCAATACA-GAG-AT
1 GCCAAATCA-TCT-TGGATTTG--CT--TCAATG-TAA-ACACGTGAAA
*
49650798 GCCAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAA
1 GCCAAATCATCTTGGATTTGCTTCAATGTAAACACGTGAAA
49650839 GCCAAATCA
1 GCCAAATCA
49650848 GCTATGTCCT
Statistics
Matches: 70, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
39 3 0.04
40 4 0.06
41 24 0.34
42 7 0.10
43 2 0.03
44 2 0.03
45 6 0.09
46 15 0.21
47 4 0.06
48 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (41 bp):
GCCAAATCATCTTGGATTTGCTTCAATGTAAACACGTGAAA
Found at i:49650790 original size:87 final size:87
Alignment explanation
Indices: 49650680--49650892 Score: 354
Period size: 87 Copynumber: 2.4 Consensus size: 87
49650670 AAATTTGCTA
* * * *
49650680 TCTTCGATCTGCTCTCTGACAATAGAGAGACGCCAAATCATCTTGGATTTGCTTCAATGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAATGTAAACA
*
49650745 CGTGAAAGCCAAATCAGTTATG
66 CGTGAAAGCCAAATCAGCTATG
* *
49650767 TCTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAATGTAAACA
49650832 CGTGAAAGCCAAATCAGCTATG
66 CGTGAAAGCCAAATCAGCTATG
*
49650854 TCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATC
49650893 TGCTGTCTTC
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 116 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAATGTAAACA
CGTGAAAGCCAAATCAGCTATG
Found at i:49650994 original size:219 final size:219
Alignment explanation
Indices: 49650768--49651199 Score: 648
Period size: 219 Copynumber: 2.0 Consensus size: 219
49650758 TCAGTTATGT
* * * *
49650768 CTTTGATCTGCTCCCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAATGTAAACAC
1 CTTTGATCTGCTCCCTGACAATACAAAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * *
49650833 GTGAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTG
66 GTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCTA
* * * *
49650898 TCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATTTGTTATCTTCGATCTACTCTCTGCCA
131 TCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTCCCTGACA
49650963 AAACAGAGATGCCAAATCTGCTAC
196 AAACAGAGATGCCAAATCTGCTAC
** * * *
49650987 CTTTGATCTGCTTTCTGACAATACAAAGACGCTAAATCATCTTGGATTTGCTTCAACGTAAACAT
1 CTTTGATCTGCTCCCTGACAATACAAAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
* * * * *
49651052 GTGAAAGCCAAATTAGTTATGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATCTGTTA
66 GTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCTA
* *
49651117 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGACA
131 TCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTCCCTGACA
*
49651182 ATACAGAGATGCCAAATC
196 AAACAGAGATGCCAAATC
49651200 ATCTTGGATC
Statistics
Matches: 189, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 189 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (219 bp):
CTTTGATCTGCTCCCTGACAATACAAAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCCTCAATCTGCTCCCTACCAATACAGAGACGCCAAATCTGCTA
TCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATCTGTCATCTTCGATCTACTCCCTGACA
AAACAGAGATGCCAAATCTGCTAC
Found at i:49651085 original size:175 final size:175
Alignment explanation
Indices: 49650896--49651216 Score: 509
Period size: 175 Copynumber: 1.8 Consensus size: 175
49650886 CCAAATCTGC
* * *
49650896 TGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAATTTGTTATCTTCGATCTACTCTCTGC
1 TGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGC
* ** *
49650961 CAAAACAGAGATGCCAAATCTG-CTACCTTTGATCTGCTTTCTGACAATACAAAGACGCTAAATC
66 CAAAACAGAGATGCCAAATCTGTC-ACCTTCGATCTGCTCCCTGACAATACAAAGACGCCAAATC
*
49651025 ATCTTGGATTTGCTTCAACGTAAACATGTGAAAGCCAAATTAGTTA
130 ATCTTGGATCTGCTTCAACGTAAACATGTGAAAGCCAAATTAGTTA
*
49651071 TGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGC
1 TGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGC
* * * *
49651136 CAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCCCTGACAATACAGAGATGCCAAATCA
66 CAAAACAGAGATGCCAAATCTGTCACCTTCGATCTGCTCCCTGACAATACAAAGACGCCAAATCA
49651201 TCTTGGATCTGCTTCA
131 TCTTGGATCTGCTTCA
49651217 GTGTAAATAC
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
175 131 0.99
176 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (175 bp):
TGTCTTCAATCTGCTCCCTACCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGC
CAAAACAGAGATGCCAAATCTGTCACCTTCGATCTGCTCCCTGACAATACAAAGACGCCAAATCA
TCTTGGATCTGCTTCAACGTAAACATGTGAAAGCCAAATTAGTTA
Found at i:49652137 original size:1 final size:1
Alignment explanation
Indices: 49652131--49652178 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
49652121 TGGCCTCTCC
* * * * *
49652131 TTTTTTTTTTTTTTTTCTCTTTTTCTTTTTTTTTTTCTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49652179 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:49652149 original size:20 final size:19
Alignment explanation
Indices: 49652130--49652178 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 19
49652120 TTGGCCTCTC
49652130 CTTTTTTTTTTTTTTTTCT
1 CTTTTTTTTTTTTTTTTCT
49652149 CTTTTTCTTTTTTTTTTTCT
1 CTTTTT-TTTTTTTTTTTCT
49652169 CTTTTTTTTT
1 CTTTTTTTTT
49652179 GAAATAGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
CTTTTTTTTTTTTTTTTCT
Found at i:49657352 original size:22 final size:21
Alignment explanation
Indices: 49657326--49657416 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 21
49657316 ATTAATTCTC
49657326 CAAGATTACAATATCATATCTT
1 CAAGATTAC-ATATCATATCTT
*
49657348 CAAGATTGCATATCATATC-T
1 CAAGATTACATATCATATCTT
*
49657368 -AAGATT--GTATCATATC-T
1 CAAGATTACATATCATATCTT
**
49657385 -AAGATCGCATATCATATC-T
1 CAAGATTACATATCATATCTT
*
49657404 -AAGATTGCATATC
1 CAAGATTACATATC
49657417 CTTAAAGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
17 15 0.24
19 28 0.45
20 1 0.02
21 10 0.16
22 8 0.13
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (21 bp):
CAAGATTACATATCATATCTT
Found at i:49657373 original size:19 final size:19
Alignment explanation
Indices: 49657336--49657416 Score: 121
Period size: 19 Copynumber: 4.3 Consensus size: 19
49657326 CAAGATTACA
49657336 ATATCATATCTTCAAGATTGC
1 ATATCATATC-T-AAGATTGC
49657357 ATATCATATCTAAGATTG-
1 ATATCATATCTAAGATTGC
*
49657375 -TATCATATCTAAGATCGC
1 ATATCATATCTAAGATTGC
49657393 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
49657412 ATATC
1 ATATC
49657417 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
17 16 0.29
19 29 0.52
20 1 0.02
21 10 0.18
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:49657395 original size:36 final size:38
Alignment explanation
Indices: 49657337--49657410 Score: 125
Period size: 36 Copynumber: 2.0 Consensus size: 38
49657327 AAGATTACAA
*
49657337 TATCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTTCAAGATCGCATATCATATCTAAGATTG
49657375 TATCATATC-T-AAGATCGCATATCATATCTAAGATTG
1 TATCATATCTTCAAGATCGCATATCATATCTAAGATTG
49657411 CATATCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.71
37 1 0.03
38 9 0.26
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (38 bp):
TATCATATCTTCAAGATCGCATATCATATCTAAGATTG
Found at i:49657425 original size:36 final size:35
Alignment explanation
Indices: 49657339--49657421 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 35
49657329 GATTACAATA
*
49657339 TCATATCTTCAAGATTGCATATCATATCTAAGATTG
1 TCATATCTT-AAGATCGCATATCATATCTAAGATTG
49657375 TATCATATC-TAAGATCGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATCGCATATCATATCTAAGATTG
49657411 -CATATCCTTAA
1 TCATAT-CTTAA
49657422 AGATTATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
33 5 0.12
34 1 0.02
35 3 0.07
36 25 0.60
37 1 0.02
38 7 0.17
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (35 bp):
TCATATCTTAAGATCGCATATCATATCTAAGATTG
Found at i:49660886 original size:37 final size:37
Alignment explanation
Indices: 49660833--49660923 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
49660823 TATAAAAGAA
49660833 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
49660870 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
49660907 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
49660924 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:49661074 original size:49 final size:49
Alignment explanation
Indices: 49661019--49661610 Score: 623
Period size: 49 Copynumber: 11.4 Consensus size: 49
49661009 TTTTACATTA
49661019 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
49661068 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
49661117 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
49661166 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * * *
49661215 GCCATTAGGCCTCATCGGCCAT-TAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
1 GCCATTAGGCCTTATC--ACATATA---CATA-CAC-T-T---T-CACATTCAC-C-----ACAT
49661279 CG
48 CG
49661281 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
49661330 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
49661379 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * * * *
49661428 GCCATTAGGCCTCATCGGCCAT-TAGGCCTTATCACATAT-ACATCCACTTTCACATTCA
1 GCCATTAGGCCTTATC--ACATATA---CATA-CAC-TTTCACATTCAC---CACA-TCG
*
49661486 TCGCATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GC-CATT----A---GGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
49661543 GCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
49661592 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
49661611 CATATATGTG
Statistics
Matches: 466, Mismatches: 37, Indels: 80
0.80 0.06 0.14
Matches are distributed among these distances:
49 333 0.71
50 4 0.01
51 6 0.01
52 1 0.00
53 4 0.01
54 12 0.03
55 11 0.02
56 6 0.01
57 7 0.02
58 7 0.02
59 6 0.01
60 10 0.02
61 13 0.03
62 6 0.01
63 1 0.00
64 6 0.01
65 4 0.01
66 29 0.06
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:49661232 original size:17 final size:17
Alignment explanation
Indices: 49661210--49661243 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49661200 ACATTCATCA
49661210 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49661227 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49661244 TATCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGGCCATTAGGCCT
Found at i:49661237 original size:66 final size:66
Alignment explanation
Indices: 49661161--49661292 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
49661151 ACATTCACCA
* *
49661161 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49661226 T
66 T
*
49661227 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49661292 T
66 T
49661293 TATCACATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (66 bp):
CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
T
Found at i:49661255 original size:115 final size:115
Alignment explanation
Indices: 49661112--49661341 Score: 433
Period size: 115 Copynumber: 2.0 Consensus size: 115
49661102 ACATTCACCA
49661112 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
* *
49661177 TCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
49661227 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
*
49661292 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
49661342 TATCACATAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.28
Consensus pattern (115 bp):
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
Found at i:49661267 original size:164 final size:164
Alignment explanation
Indices: 49661063--49661554 Score: 730
Period size: 164 Copynumber: 3.0 Consensus size: 164
49661053 ACATTCACCA
49661063 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
* *
49661128 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
66 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATA
*
49661193 CACTTTCACATTCATCACATCGGCCATTAGGCCT
131 CACTTTCACATTCACCACATCGGCCATTAGGCCT
49661227 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49661292 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATA
66 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATA
49661357 CACTTTCACATTCACCACATCGGCCATTAGGCCT
131 CACTTTCACATTCACCACATCGGCCATTAGGCCT
* ** * * *
49661391 CATC--ACATATACATCCACTT-TCACAT-T-CAT-CAC-ATCGGCCATT-AGGCCTCATCGGCC
1 CATCGGCCAT-T--AGGC-CTTATCACATATACATACACTTTC--ACATTCA--CCACATCGGCC
* * * * *
49661448 ATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCCTTATCACA
58 ATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACA
49661513 TATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
123 TATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
49661555 TATCACATAT
Statistics
Matches: 306, Mismatches: 14, Indels: 16
0.91 0.04 0.05
Matches are distributed among these distances:
161 2 0.01
162 7 0.02
163 8 0.03
164 278 0.91
165 8 0.03
166 3 0.01
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.28
Consensus pattern (164 bp):
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATA
CACTTTCACATTCACCACATCGGCCATTAGGCCT
Found at i:49661386 original size:213 final size:213
Alignment explanation
Indices: 49661019--49661610 Score: 1085
Period size: 213 Copynumber: 2.8 Consensus size: 213
49661009 TTTTACATTA
49661019 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
49661084 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
49661149 TCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATC
131 TCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATC
49661214 GGCCATTAGGCCTCATCG
196 GGCCATTAGGCCTCATCG
49661232 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
49661297 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
49661362 TCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATC
131 TCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATC
49661427 GGCCATTAGGCCTCATCG
196 GGCCATTAGGCCTCATCG
* * * * *
49661445 GCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
*
49661510 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATCCACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
* * * * *
49661575 TCACATTCATCGCATTGGCCATTCGGCCTTATCACA
131 TCACATTCACCACATCGGCCATTAGGCCTCATCACA
49661611 CATATATGTG
Statistics
Matches: 368, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
213 368 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (213 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
TCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATC
GGCCATTAGGCCTCATCG
Found at i:49661445 original size:17 final size:17
Alignment explanation
Indices: 49661423--49661456 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49661413 ACATTCATCA
49661423 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49661440 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49661457 TATCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGGCCATTAGGCCT
Found at i:49661449 original size:115 final size:115
Alignment explanation
Indices: 49661325--49661554 Score: 388
Period size: 115 Copynumber: 2.0 Consensus size: 115
49661315 ACATTCACCA
49661325 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
* *
49661390 TCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
* * * * *
49661440 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
*
49661505 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
49661555 TATCACATAT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
115 107 1.00
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (115 bp):
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
TCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
Found at i:49661450 original size:66 final size:66
Alignment explanation
Indices: 49661374--49661505 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
49661364 ACATTCACCA
49661374 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
49661439 T
66 T
* * * *
49661440 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
49661505 T
66 T
49661506 TATCACATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (66 bp):
CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
T
Found at i:49664447 original size:40 final size:41
Alignment explanation
Indices: 49664403--49664501 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 41
49664393 TCGATTGTTC
* * * **
49664403 TCGGGACATAGCCCGG-TTATAGTGA-TTCGTACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
49664443 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
49664484 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
49664502 ACCATTCGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:49665020 original size:29 final size:29
Alignment explanation
Indices: 49664984--49665378 Score: 709
Period size: 29 Copynumber: 13.6 Consensus size: 29
49664974 TGTTGAAAAA
* *
49664984 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665013 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
* *
49665042 CTCGCACACATAGTGCCTCCATTACTAAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665071 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
49665100 CTCGCACACATAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665129 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
49665158 CTCTCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665187 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665216 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
49665245 CTCGCACACATAGTGCCTCGATTATTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665274 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
49665303 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
49665332 CTCGCACACATAGTGCTTCGATTACTGAT
1 CTCGCACACATAGTGCCTCGATTACTGAT
*
49665361 CTCGTACACATAGTGCCT
1 CTCGCACACATAGTGCCT
49665379 ATATTCATTC
Statistics
Matches: 351, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 351 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
CTCGCACACATAGTGCCTCGATTACTGAT
Found at i:49667492 original size:37 final size:37
Alignment explanation
Indices: 49667439--49667529 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
49667429 TATAAAAGAA
49667439 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
49667476 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
49667513 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
49667530 TTCCAAGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
37 46 0.92
38 4 0.08
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:49667680 original size:49 final size:49
Alignment explanation
Indices: 49667625--49668167 Score: 525
Period size: 49 Copynumber: 10.4 Consensus size: 49
49667615 TTTTACATTA
49667625 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
49667674 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
49667723 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
49667772 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * * *
49667821 GCCATTAGGCCTCATCGGCCAT-TAGGCCTTATCACATATACATACACTTTCACATTCACCACAT
1 GCCATTAGGCCTTATC--ACATATA---CATA-CAC-T-T---T-CACATTCAC-C-----ACAT
49667885 CG
48 CG
49667887 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
49667936 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * * * *
49667985 GCCATTAGGCCTCATCGGCCAT-TAGGCCTTATCACATAT-ACATCCACTTTCACATTCA
1 GCCATTAGGCCTTATC--ACATATA---CATA-CAC-TTTCACATTCAC---CACA-TCG
*
49668043 TCGCATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GC-CATT----A---GGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * * *
49668100 GCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
49668149 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
49668168 CATATATGTG
Statistics
Matches: 417, Mismatches: 37, Indels: 80
0.78 0.07 0.15
Matches are distributed among these distances:
49 284 0.68
50 4 0.01
51 6 0.01
52 1 0.00
53 4 0.01
54 12 0.03
55 11 0.03
56 6 0.01
57 7 0.02
58 7 0.02
59 6 0.01
60 10 0.02
61 13 0.03
62 6 0.01
63 1 0.00
64 6 0.01
65 4 0.01
66 29 0.07
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:49667838 original size:17 final size:17
Alignment explanation
Indices: 49667816--49667849 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49667806 ACATTCATCA
49667816 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49667833 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49667850 TATCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGGCCATTAGGCCT
Found at i:49667843 original size:66 final size:66
Alignment explanation
Indices: 49667767--49667898 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
49667757 ACATTCACCA
* *
49667767 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49667832 T
66 T
*
49667833 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49667898 T
66 T
49667899 TATCACATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (66 bp):
CATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
T
Found at i:49667861 original size:115 final size:115
Alignment explanation
Indices: 49667718--49668062 Score: 454
Period size: 115 Copynumber: 3.0 Consensus size: 115
49667708 ACATTCACCA
49667718 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
*
49667783 TCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
66 TTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
49667833 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
* *
49667898 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
66 TTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
* ** * * *
49667948 CATC--ACATATACATCCACTT-TCACAT-T-CAT-CAC-ATCGGCCATT-AGGCCTCATCGGCC
1 CATCGGCCAT-T--AGGC-CTTATCACATATACATACACTTTC--ACATTCA--CCACATCGGCC
* * *
49668005 ATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCCT
58 ATTAGGCCTTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
49668063 TATCACATAT
Statistics
Matches: 208, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
112 2 0.01
113 7 0.03
114 8 0.04
115 180 0.87
116 8 0.04
117 3 0.01
ACGTcount: A:0.27, C:0.34, G:0.11, T:0.28
Consensus pattern (115 bp):
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
TTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:49667873 original size:164 final size:164
Alignment explanation
Indices: 49667669--49668160 Score: 903
Period size: 164 Copynumber: 3.0 Consensus size: 164
49667659 ACATTCACCA
49667669 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49667734 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
66 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
49667799 CACTTTCACATTCATCACATCGGCCATTAGGCCT
131 CACTTTCACATTCATCACATCGGCCATTAGGCCT
49667833 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
49667898 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
66 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
49667963 CACTTTCACATTCATCACATCGGCCATTAGGCCT
131 CACTTTCACATTCATCACATCGGCCATTAGGCCT
* * * * *
49667997 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
*
49668062 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATC
66 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
* * *
49668127 CACTTTCACATTCATCGCATTGGCCATTCGGCCT
131 CACTTTCACATTCATCACATCGGCCATTAGGCCT
49668161 TATCACACAT
Statistics
Matches: 319, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 319 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (164 bp):
CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATC
CACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:49667992 original size:213 final size:212
Alignment explanation
Indices: 49667625--49668167 Score: 803
Period size: 213 Copynumber: 2.6 Consensus size: 212
49667615 TTTTACATTA
49667625 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
49667690 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
*
49667755 TCACATTCACCACATCGGCCATTAGGCCTCATC-ACATATACATCCACTT-TCACAT-T-CAT-C
131 TCACATTCACCACATCGGCCATTAGGCCTCATCGACAT-T--AGCC-CTTATCACATATACATCC
* *
49667815 AC-ATCGGCCATT-AGGCCTCATCG
192 ACTATC--ACATTCA--CCGCATCG
49667838 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* *
49667903 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATCACATATACATCCACTT
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
* * *
49667968 TCACATTCATCACATCGGCCATTAGGCCTCATCGGCCATTAGGCCTTATCACATATACATCCACT
131 TCACATTCACCACATCGGCCATTAGGCCTCATC-GACATTAGCCCTTATCACATATACATCCACT
* * *
49668033 TTCACATTCATCGCATTG
195 ATCACATTCACCGCATCG
*
49668051 GCCATTCGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
* * * * *
49668116 ACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCCTTATCACA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACA
49668168 CATATATGTG
Statistics
Matches: 304, Mismatches: 18, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
211 3 0.01
212 8 0.03
213 276 0.91
214 8 0.03
215 7 0.02
216 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.29
Consensus pattern (212 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTT
TCACATTCACCACATCGGCCATTAGGCCTCATCGACATTAGCCCTTATCACATATACATCCACTA
TCACATTCACCGCATCG
Found at i:49668002 original size:17 final size:17
Alignment explanation
Indices: 49667980--49668013 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49667970 ACATTCATCA
49667980 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49667997 CATCGGCCATTAGGCCT
1 CATCGGCCATTAGGCCT
49668014 TATCACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
CATCGGCCATTAGGCCT
Found at i:49668007 original size:66 final size:66
Alignment explanation
Indices: 49667931--49668062 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
49667921 ACATTCACCA
49667931 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
49667996 T
66 T
* * * *
49667997 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCC
1 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
49668062 T
66 T
49668063 TATCACATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.24, C:0.34, G:0.13, T:0.29
Consensus pattern (66 bp):
CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
T
Found at i:49668084 original size:115 final size:115
Alignment explanation
Indices: 49667767--49668111 Score: 427
Period size: 115 Copynumber: 3.0 Consensus size: 115
49667757 ACATTCACCA
*
49667767 CATCGGCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
* ** * * *
49667832 TCATCGGCCAT-T--AGGC-CTTATCACATATACATACACTTTC--ACATTCA--CCA
66 TCATC--ACATATACATACACTT-TCACAT-T-CAT-CAC-ATCGGCCATT-AGGCCT
* *
49667882 CATCGGCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
*
49667947 TCATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* * *
49667997 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCGCATTGGCCATTCGGCC
1 CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
* *
49668062 TTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCT
66 TCATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCT
49668112 TATCACATAT
Statistics
Matches: 205, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
112 2 0.01
113 7 0.03
114 8 0.04
115 177 0.86
116 8 0.04
117 3 0.01
ACGTcount: A:0.27, C:0.34, G:0.11, T:0.28
Consensus pattern (115 bp):
CATCGGCCATTAGGCCTTATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCC
TCATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:49671124 original size:38 final size:38
Alignment explanation
Indices: 49671050--49671124 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
49671040 CAATCTCAAA
*
49671050 CATATACTGGGCCATAGCCCTTTTCATATTTTATATTT
1 CATATACTGGGCCATAGCCCTTTTCATATTTCATATTT
49671088 CATATCACTGGGCCGA-AG-CCTTTTCA-AGTTTCATATT
1 CATAT-ACTGGGCC-ATAGCCCTTTTCATA-TTTCATATT
49671125 ACTGGGCCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
37 1 0.03
38 21 0.64
39 10 0.30
40 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (38 bp):
CATATACTGGGCCATAGCCCTTTTCATATTTCATATTT
Found at i:49671384 original size:24 final size:24
Alignment explanation
Indices: 49671333--49671544 Score: 299
Period size: 24 Copynumber: 9.0 Consensus size: 24
49671323 GCTTTATCAT
*
49671333 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
49671358 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49671382 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
49671404 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49671428 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
49671451 ATAACTGGGGCATAAGTCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49671475 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
49671499 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
49671522 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49671545 GCACTTCCTC
Statistics
Matches: 169, Mismatches: 13, Indels: 11
0.88 0.07 0.06
Matches are distributed among these distances:
22 10 0.06
23 64 0.38
24 83 0.49
25 12 0.07
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:49671510 original size:71 final size:70
Alignment explanation
Indices: 49671333--49671545 Score: 304
Period size: 71 Copynumber: 3.0 Consensus size: 70
49671323 GCTTTATCAT
* * *
49671333 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACT-GGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAA
* *
49671396 GCCCTTTA
63 GCCTTTTG
*
49671404 ATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGTC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG-C
49671469 CTTTTG
65 CTTTTG
*
49671475 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG-C
49671540 CTTTTG
65 CTTTTG
49671546 CACTTCCTCC
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
69 10 0.08
70 35 0.27
71 85 0.65
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
TTTTG
Found at i:49671545 original size:47 final size:48
Alignment explanation
Indices: 49671333--49671544 Score: 299
Period size: 47 Copynumber: 4.5 Consensus size: 48
49671323 GCTTTATCAT
* *
49671333 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
49671382 ATAACT-GGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* * *
49671428 ATAATTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGTCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
* *
49671475 ATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
49671522 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
49671545 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
46 31 0.21
47 88 0.59
48 25 0.17
49 6 0.04
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:49671616 original size:9 final size:9
Alignment explanation
Indices: 49671602--49671658 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49671592 ATCTCATGTG
49671602 CATATCATA
1 CATATCATA
*
49671611 CATATCATGTG
1 CATATCA--TA
49671622 CATATCATA
1 CATATCATA
* *
49671631 CATGTCATGTG
1 CATATCA--TA
49671642 CATATCATA
1 CATATCATA
49671651 CATATCAT
1 CATATCAT
49671659 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:49671618 original size:20 final size:20
Alignment explanation
Indices: 49671590--49671660 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
49671580 GCATTTATGA
*
49671590 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49671610 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
49671630 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49671650 ACATATCATGT
1 ACATATCATGT
49671661 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:49671625 original size:11 final size:11
Alignment explanation
Indices: 49671595--49671649 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49671585 TATGAACATC
49671595 TCATGTGCATA
1 TCATGTGCATA
*
49671606 TCA--TACATA
1 TCATGTGCATA
49671615 TCATGTGCATA
1 TCATGTGCATA
* *
49671626 TCA--TACATG
1 TCATGTGCATA
49671635 TCATGTGCATA
1 TCATGTGCATA
49671646 TCAT
1 TCAT
49671650 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:49671743 original size:25 final size:25
Alignment explanation
Indices: 49671697--49671744 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
49671687 ATATATAAAC
* * * *
49671697 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
49671722 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
49671745 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:49673005 original size:27 final size:27
Alignment explanation
Indices: 49672984--49673541 Score: 543
Period size: 27 Copynumber: 20.7 Consensus size: 27
49672974 AAGGGTATTT
*
49672984 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
49673011 TAGTAATTCTGTAAATCAAGGGTGAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
49673038 CAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
49673065 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * * *
49673092 -CGATAATTATGTAAATTGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
49673119 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
** *
49673146 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
49673173 TAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
49673200 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
49673227 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
49673254 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
49673281 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
49673308 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
49673335 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
49673362 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
** *
49673389 CGGTAATTCTGTAAATCGAAGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
49673416 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
49673443 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
49673470 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
49673497 CAGTAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
49673524 CGGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
49673542 GGAGTACTTT
Statistics
Matches: 459, Mismatches: 60, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 448 0.98
28 6 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:49673071 original size:81 final size:81
Alignment explanation
Indices: 49672986--49673541 Score: 665
Period size: 81 Copynumber: 6.9 Consensus size: 81
49672976 GGGTATTTTA
* * * * * * *
49672986 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTGAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
*
49673051 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * * *
49673067 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATTGGGGGTAAAATGGTAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
*
49673131 AAAT-TAGGGGTAAAACG
65 AAATCGA-GGGTAAAACG
* * * * *
49673148 GTAATTCTATAAATCGAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGT
49673212 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* ** * *
49673229 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
* *
49673294 AATCAAGGGTAAAACA
66 AATCGAGGGTAAAACG
* * **
49673310 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGT
49673374 AAA-CTGAGGGTAAAACG
65 AAATC-GAGGGTAAAACG
* * * * *
49673391 GTAATTCTGTAAATCGAAGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
49673456 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* **
49673472 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGT
49673536 AAATCG
65 AAATCG
49673542 GGAGTACTTT
Statistics
Matches: 411, Mismatches: 53, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
80 5 0.01
81 402 0.98
82 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:49673558 original size:54 final size:54
Alignment explanation
Indices: 49672986--49673541 Score: 654
Period size: 54 Copynumber: 10.3 Consensus size: 54
49672976 GGGTATTTTA
* * ** * * *
49672986 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTGAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
49673040 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * * * * *
49673094 ATAATTATGTAAATTGGGGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACG
*** *
49673148 GTAATTCTATAAATCGAGGGTAAAATAATAATTCTGTAAA-CTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
* * **
49673202 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
49673256 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * **
49673310 ATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
49673364 GTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTATAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * *
49673418 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
49673472 GTAATTTTACAAATCGAGGGTAAAACAGTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACG
*
49673526 GTAATTCTGTAAATCG
1 GTAATTCTATAAATCG
49673542 GGAGTACTTT
Statistics
Matches: 437, Mismatches: 58, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.01
54 431 0.99
55 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:49685792 original size:42 final size:42
Alignment explanation
Indices: 49685689--49685796 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
49685679 ATATGTGTTA
* * * *
49685689 TCGTGTAAGACCACGTCTAGGACGTTGGCATCATTTATGATT
1 TCGTGTAAGACCACGTCTGGGACGTTAGCATCATATATAATT
* *
49685731 TACGTGTAAGACCACGTCTGGGACGTTAGCATCGTATCTAATT
1 T-CGTGTAAGACCACGTCTGGGACGTTAGCATCATATATAATT
49685774 TCGTGTAAGACC-CTGTCTGGGAC
1 TCGTGTAAGACCAC-GTCTGGGAC
49685797 AGAGACATTG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.02
42 21 0.36
43 36 0.62
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACGTTAGCATCATATATAATT
Found at i:49693856 original size:48 final size:48
Alignment explanation
Indices: 49693785--49694458 Score: 1162
Period size: 48 Copynumber: 14.0 Consensus size: 48
49693775 CAAGATAAAT
49693785 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49693833 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49693879 --A-G-ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49693923 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
49693971 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAG
49694023 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49694071 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49694119 ATATGTATATGTGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49694167 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49694215 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49694263 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAC
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
49694311 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAG
* *
49694361 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
49694409 ATATGTATATGTGTTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
49694457 AT
1 AT
49694459 GTGTGTATAT
Statistics
Matches: 599, Mismatches: 15, Indels: 24
0.94 0.02 0.04
Matches are distributed among these distances:
42 39 0.07
43 1 0.00
44 2 0.00
46 2 0.00
47 1 0.00
48 460 0.77
49 5 0.01
50 44 0.07
51 1 0.00
52 44 0.07
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:49694745 original size:37 final size:37
Alignment explanation
Indices: 49694599--49694743 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
49694589 GGAAATATAT
49694599 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
**
49694636 TCCGGGTAAGATTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49694673 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49694710 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49694744 TTATCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49698112 original size:43 final size:43
Alignment explanation
Indices: 49697944--49698100 Score: 244
Period size: 43 Copynumber: 3.7 Consensus size: 43
49697934 ATATTGTACA
* *
49697944 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
49697987 ATGCC-ACTGTCCCAGACGTGGTCTTACACGTAATCACATATCA
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
49698030 ATGCTAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
49698073 ATGCCAACGTTCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
49698101 GGAGAACACA
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 2 0.02
43 99 0.96
44 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:49699574 original size:27 final size:28
Alignment explanation
Indices: 49699544--49699613 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49699534 ATAATAAGTC
*
49699544 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
49699571 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
49699599 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49699614 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49707499 original size:27 final size:28
Alignment explanation
Indices: 49707469--49707538 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
49707459 ATAATAAGTC
*
49707469 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
49707496 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
49707524 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49707539 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49711373 original size:18 final size:18
Alignment explanation
Indices: 49711350--49711386 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
49711340 AGCATATGCC
49711350 TAAGGAAATTTTGTGTAT
1 TAAGGAAATTTTGTGTAT
49711368 TAAGGAAATTTTGTGTAT
1 TAAGGAAATTTTGTGTAT
49711386 T
1 T
49711387 TTTGTGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (18 bp):
TAAGGAAATTTTGTGTAT
Found at i:49711960 original size:43 final size:42
Alignment explanation
Indices: 49711860--49711960 Score: 98
Period size: 43 Copynumber: 2.4 Consensus size: 42
49711850 ATTTACGTGA
* * *
49711860 AAGACTACATCTGGGACGTTGACATCATATCTGATTTCATGT
1 AAGACCACATCTGGGACGTAGACATCATATCTGATTACATGT
* * * *
49711902 AAGACC-CTTTTTGGGACAG-AGGCATCGATATTTGATTACATGT
1 AAGACCAC-ATCTGGGAC-GTAGACATC-ATATCTGATTACATGT
49711945 AAGACCACATCTGGGA
1 AAGACCACATCTGGGA
49711961 TGTTCACATT
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
41 1 0.02
42 17 0.37
43 27 0.59
44 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGACCACATCTGGGACGTAGACATCATATCTGATTACATGT
Found at i:49713882 original size:43 final size:43
Alignment explanation
Indices: 49713833--49713960 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
49713823 GATTACTGAG
*
49713833 ATGTGATTACATGTAAGACCATATTTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGA-ATTGGCATTGTAT
*
49713877 -TGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGA-ATTGGCATTGTAT
* *
49713919 ATGTGATAATATGTAAGACCATATCTGGG-ATGTGGCATTGTA
1 ATGTGATTACATGTAAGACCATATCTGGGAAT-TGGCATTGTA
49713961 CAAGCTATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.03
42 10 0.13
43 63 0.84
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATATCTGGGAATTGGCATTGTAT
Found at i:49719157 original size:27 final size:27
Alignment explanation
Indices: 49718630--49719156 Score: 605
Period size: 27 Copynumber: 19.6 Consensus size: 27
49718620 AAAGTACTCC
49718630 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
49718657 -TAGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
49718684 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49718711 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
49718738 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49718765 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49718792 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
49718819 TGATTTACA-AATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49718845 CGATTTATAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49718872 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49718899 CGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
49718925 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
49718952 CGATGTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * * *
49718979 TAATTTACATAATTGCCATTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49719006 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49719033 TGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49719060 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
49719087 CGATTTATAGAATTAATGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49719114 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49719141 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
49719157 TAAAATACCC
Statistics
Matches: 425, Mismatches: 67, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
25 1 0.00
26 48 0.11
27 373 0.88
28 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:49720421 original size:24 final size:24
Alignment explanation
Indices: 49720389--49720435 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
49720379 TTATAATATG
* *
49720389 AAAATGACCATTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
49720413 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49720436 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:49720496 original size:11 final size:11
Alignment explanation
Indices: 49720482--49720536 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49720472 ACATATATGT
49720482 ATGATATGCAC
1 ATGATATGCAC
* *
49720493 ATGACATG--T
1 ATGATATGCAC
49720502 ATGATATGCAC
1 ATGATATGCAC
*
49720513 ATGATATG--T
1 ATGATATGCAC
49720522 ATGATATGCAC
1 ATGATATGCAC
49720533 ATGA
1 ATGA
49720537 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49720503 original size:20 final size:20
Alignment explanation
Indices: 49720478--49720541 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
49720468 ATAAACATAT
49720478 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
49720498 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
49720518 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
49720538 ATGT
1 ATGT
49720542 TCATAAATGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:49720666 original size:24 final size:24
Alignment explanation
Indices: 49720586--49720799 Score: 319
Period size: 24 Copynumber: 9.0 Consensus size: 24
49720576 GGAGGAAGTG
49720586 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49720610 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49720633 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49720656 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49720680 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
49720704 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
49720728 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49720751 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
49720775 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
49720800 ATGATAAAGC
Statistics
Matches: 179, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
23 67 0.37
24 101 0.56
25 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:49720679 original size:47 final size:47
Alignment explanation
Indices: 49720588--49720778 Score: 330
Period size: 47 Copynumber: 4.1 Consensus size: 47
49720578 AGGAAGTGCA
*
49720588 AAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
49720634 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
49720682 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
49720729 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
49720776 AAA
1 AAA
49720779 AGAGGCTAGG
Statistics
Matches: 138, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
46 22 0.16
47 70 0.51
48 46 0.33
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:49721026 original size:30 final size:32
Alignment explanation
Indices: 49720992--49721081 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 32
49720982 CGTTTACAGT
49720992 AAAGGCTTCGGCCCAGTA-ATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTACATATGAAATATGA
*
49721022 AAAGGCTTCGGCCCAGTGTTATGATATGAAATATGA
1 AAAGGCTTCGGCCCA--G-TA-CATATGAAATATGA
*
49721058 AAAGGGCTACGGCCCAGTACATAT
1 AAA-GGCTTCGGCCCAGTACATAT
49721082 TTGAGATTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
30 15 0.29
32 1 0.02
33 6 0.12
34 2 0.04
35 10 0.20
36 6 0.12
37 11 0.22
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAGTACATATGAAATATGA
Found at i:49723757 original size:27 final size:27
Alignment explanation
Indices: 49723725--49724183 Score: 583
Period size: 27 Copynumber: 17.6 Consensus size: 27
49723715 AAAGTACTCC
49723725 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
49723752 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49723779 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49723806 CGATTTA-AGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49723832 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49723859 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49723886 CGATTTACA-AATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49723912 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
49723939 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49723966 CGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49723992 C-AGTTTACAGAATTA-C-TTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
49724017 CGATTTACATAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
49724043 CTATTTACATAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49724069 CGATTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
49724096 CGATTTACAGAATTACC-----A---T
1 CGATTTACAGAATTACCGTTTTACCCT
* **
49724115 -GATTTATAGAATTAATGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
49724141 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
49724168 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
49724184 TAAAATACCC
Statistics
Matches: 387, Mismatches: 28, Indels: 34
0.86 0.06 0.08
Matches are distributed among these distances:
18 13 0.03
19 1 0.00
22 1 0.00
23 1 0.00
25 22 0.06
26 126 0.33
27 223 0.58
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:49723846 original size:53 final size:54
Alignment explanation
Indices: 49723725--49724183 Score: 583
Period size: 53 Copynumber: 8.8 Consensus size: 54
49723715 AAAGTACTCC
* * *
49723725 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
** *
49723779 CGATTTGTAAAATTACCGTTTTACCCTCGATTTA-AGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
49723832 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* *
49723886 CGATTTACA-AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
** *
49723939 CGATTTGTAAAATTACCGTTTTACCCTCGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
*
49723992 C-AGTTTACAGAATTA-C-TTTTACCCTCGATTTACATAATTACCGTTTTACCC-
1 CGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* * * * *
49724043 CTATTTACATAATTACCATTTTACCC-CGATTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* **
49724096 CGATTTACAGAATTACC-----A---T-GATTTATAGAATTAATGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
* * *
49724141 TGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAC
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
49724184 TAAAATACCC
Statistics
Matches: 356, Mismatches: 31, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
45 36 0.10
48 1 0.00
50 1 0.00
51 30 0.08
52 45 0.13
53 149 0.42
54 94 0.26
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
Found at i:49723853 original size:80 final size:81
Alignment explanation
Indices: 49723725--49724183 Score: 592
Period size: 80 Copynumber: 5.9 Consensus size: 81
49723715 AAAGTACTCC
* * * **
49723725 CGATTTACAGAATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTGTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
49723790 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
*
49723806 CGATTTA-AGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
49723870 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
* * **
49723886 CGATTTACA-AATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
49723950 ATTACCGTTTTACCCT
66 ATTACCGTTTTACCCT
*
49723966 CGATTTACA-AATTACCGTTTTACCCTC-AGTTTACAGAATTA-C-TTTTACCCTCGATTTACAT
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAA
49724027 AATTACCGTTTTACCC-
65 AATTACCGTTTTACCCT
* * * * * *
49724043 CTATTTACATAATTACCATTTTACCC-CGATTTACATAATTACCATTTTACCCTCGATTTACAGA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
49724107 ATTACC-----A---T
66 ATTACCGTTTTACCCT
* ** * *
49724115 -GATTTATAGAATTAATGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAA
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
49724179 ATTAC
66 ATTAC
49724184 TAAAATACCC
Statistics
Matches: 339, Mismatches: 31, Indels: 25
0.86 0.08 0.06
Matches are distributed among these distances:
71 19 0.06
72 38 0.11
74 1 0.00
77 20 0.06
78 49 0.14
79 27 0.08
80 177 0.52
81 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAA
ATTACCGTTTTACCCT
Found at i:49724059 original size:45 final size:45
Alignment explanation
Indices: 49723959--49724156 Score: 132
Period size: 52 Copynumber: 4.1 Consensus size: 45
49723949 AATTACCGTT
49723959 TTACCCTCGATTTACA-AATTACCGTTTTA-CCCTCAGTTTACAGAATTA
1 TTACCCTCGATTTACATAATTACCGTTTTACCCCT-A-TTTACAG-A--A
*
49724007 CTTTTACCCTCGATTTACATAATTACCGTTTTACCCCTATTTACATAA
1 ---TTACCCTCGATTTACATAATTACCGTTTTACCCCTATTTACAGAA
* * *
49724055 TTACCATTTTACCCCGATTTACATAATTACCATTTTACCCTCGATTTACAGAA
1 TTA-C------CCTCGATTTACATAATTACCGTTTTACCC-CTATTTACAGAA
* * * ** *
49724108 TTACCAT-GATTTATAGAATTAATGTTTTACCCTTGATTTACAGAA
1 TTACCCTCGATTTACATAATTACCGTTTTACCCCT-ATTTACAGAA
49724153 TTAC
1 TTAC
49724157 TGTTTTACCC
Statistics
Matches: 122, Mismatches: 14, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
45 37 0.30
46 2 0.02
48 1 0.01
50 1 0.01
51 22 0.18
52 42 0.34
53 17 0.14
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (45 bp):
TTACCCTCGATTTACATAATTACCGTTTTACCCCTATTTACAGAA
Found at i:49724192 original size:27 final size:27
Alignment explanation
Indices: 49724135--49724194 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
49724125 ATTAATGTTT
* * ****
49724135 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
49724162 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
49724189 TACCCT
1 TACCCT
49724195 TGGTTTGTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:49725452 original size:25 final size:25
Alignment explanation
Indices: 49725424--49725471 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49725414 TTATAATATG
* *
49725424 AAAATGACCATTTTGCCCCTAGGTC
1 AAAATGACCATTATACCCCTAGGTC
49725449 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
49725472 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTC
Found at i:49725522 original size:9 final size:9
Alignment explanation
Indices: 49725510--49725566 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
49725500 TTTGATAAAC
49725510 ATGATATGT
1 ATGATATGT
*
49725519 ATGATATGCAC
1 ATGATATG--T
*
49725530 ATGACATGT
1 ATGATATGT
*
49725539 ATGATATGCAC
1 ATGATATG--T
49725550 ATGATATGT
1 ATGATATGT
49725559 ATGATATG
1 ATGATATG
49725567 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49725533 original size:20 final size:20
Alignment explanation
Indices: 49725508--49725578 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
49725498 ATTTTGATAA
49725508 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49725528 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
49725548 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
49725568 ACATGAGATGT
1 ACATGATATGT
49725579 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:49725555 original size:11 final size:11
Alignment explanation
Indices: 49725519--49725573 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
49725509 CATGATATGT
49725519 ATGATATGCAC
1 ATGATATGCAC
* *
49725530 ATGACATG--T
1 ATGATATGCAC
49725539 ATGATATGCAC
1 ATGATATGCAC
*
49725550 ATGATATG--T
1 ATGATATGCAC
49725559 ATGATATGCAC
1 ATGATATGCAC
49725570 ATGA
1 ATGA
49725574 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49725654 original size:23 final size:23
Alignment explanation
Indices: 49725624--49725884 Score: 432
Period size: 23 Copynumber: 11.1 Consensus size: 23
49725614 AGGAAGTGCA
49725624 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49725647 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49725670 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
49725694 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
49725718 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49725741 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49725764 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
49725788 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
49725812 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
49725835 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
49725858 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
49725882 AAA
1 AAA
49725885 AGAGGCTAGG
Statistics
Matches: 230, Mismatches: 5, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
23 116 0.50
24 114 0.50
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:49725702 original size:24 final size:23
Alignment explanation
Indices: 49725623--49725906 Score: 426
Period size: 24 Copynumber: 12.0 Consensus size: 23
49725613 GAGGAAGTGC
49725623 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
49725646 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
49725669 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
49725692 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
49725716 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
49725740 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
49725763 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
49725786 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
49725810 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
49725834 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
49725858 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
49725882 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
49725906 A
1 A
49725907 TGATAAAGCA
Statistics
Matches: 247, Mismatches: 9, Indels: 9
0.93 0.03 0.03
Matches are distributed among these distances:
23 111 0.45
24 126 0.51
25 10 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:49725783 original size:94 final size:94
Alignment explanation
Indices: 49725622--49725905 Score: 507
Period size: 94 Copynumber: 3.0 Consensus size: 94
49725612 GGAGGAAGTG
49725622 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
49725687 GTTATCAAAAGGGCTTATGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
49725716 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
49725781 GTTATCAAAAGGGCTTATGCCCCAGTTAT
66 GTTATCAAAAGGGCTTATGCCCCAGTTAT
*
49725810 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCC
* *
49725875 AGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
65 AGTTATCAAAAG-GGCTTATGCC-CCAGTTAT
49725906 ATGATAAAGC
Statistics
Matches: 184, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
94 142 0.77
95 31 0.17
96 11 0.06
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (94 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCA
GTTATCAAAAGGGCTTATGCCCCAGTTAT
Found at i:49727044 original size:31 final size:32
Alignment explanation
Indices: 49727006--49727077 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
49726996 GAAACAGGGT
*
49727006 CACACGCCCGTGTGGG-TAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTTAAGCCGTGTGGTCA
* *
49727037 CACACGCCTGTGTGGGTTAAGCCGTGTGGTGA
1 CACACGCCCGTGTGGGTTAAGCCGTGTGGTCA
49727069 CACACGCCC
1 CACACGCCC
49727078 ATATGGCTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.15, C:0.31, G:0.35, T:0.19
Consensus pattern (32 bp):
CACACGCCCGTGTGGGTTAAGCCGTGTGGTCA
Found at i:49730398 original size:49 final size:49
Alignment explanation
Indices: 49730328--49730489 Score: 301
Period size: 49 Copynumber: 3.3 Consensus size: 49
49730318 CCCTTCGGGA
49730328 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49730375 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49730424 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49730473 CTTATCACATATATATA
1 CTTATCACATATATATA
49730490 TCTCATACAA
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
47 10 0.09
48 1 0.01
49 100 0.90
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49732856 original size:28 final size:28
Alignment explanation
Indices: 49732824--49732898 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
49732814 ATCTTCGATG
49732824 TCTCGCACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
*
49732852 TCTCGCACA-TCAAGTGCCATTCTCAATA
1 TCTCGCACACT-AAGTGCCATACTCAATA
* *
49732880 TTTTGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
49732899 CATATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 40 0.95
29 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.28
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:49732992 original size:40 final size:40
Alignment explanation
Indices: 49732909--49732984 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
49732899 CATATATATA
*
49732909 TAGCTGAAGTTATCTCAAATCGCACACCAAGTGCCACATT
1 TAGCTGAAGCTATCTCAAATCGCACACCAAGTGCCACATT
* * *
49732949 TAGCTGAAGCTATTTCAAATTGCACACTAAGTGCCA
1 TAGCTGAAGCTATCTCAAATCGCACACCAAGTGCCA
49732985 TTCTTAGCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TAGCTGAAGCTATCTCAAATCGCACACCAAGTGCCACATT
Found at i:49733230 original size:21 final size:20
Alignment explanation
Indices: 49733193--49733231 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49733183 AAATAATCAA
*
49733193 ATTCAACTAATTTAATCATT
1 ATTCAACTAATTCAATCATT
*
49733213 ATTCTACTCAATTCAATCA
1 ATTCAACT-AATTCAATCA
49733232 AATTTCATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTCAACTAATTCAATCATT
Found at i:49734802 original size:31 final size:31
Alignment explanation
Indices: 49734749--49734842 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
49734739 AATCAGGTGA
49734749 CAGAATCAGAATCA-G-AATCAGAATCAGAAT
1 CAGAATCAGAATCAGGTAA-CAGAATCAGAAT
* * *
49734779 CAGAATCAGAATTAGGTGACAGAATTAGAAT
1 CAGAATCAGAATCAGGTAACAGAATCAGAAT
* * *
49734810 TAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAGGTAACAGAATCAGAAT
49734841 CA
1 CA
49734843 AAATGTGAAT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 13 0.25
31 38 0.73
32 1 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:49734810 original size:6 final size:6
Alignment explanation
Indices: 49734704--49734790 Score: 106
Period size: 6 Copynumber: 14.3 Consensus size: 6
49734694 AAGAAACATT
* * *
49734704 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
49734753 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT
49734791 TAGGTGACAG
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
5 2 0.03
6 63 0.90
7 4 0.06
8 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:49734818 original size:49 final size:49
Alignment explanation
Indices: 49734704--49734842 Score: 181
Period size: 49 Copynumber: 2.8 Consensus size: 49
49734694 AAGAAACATT
* * *
49734704 ATCAGAACTAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGA
1 ATCAGAATTAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGA
* *
49734753 ATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGA
1 ATCAGAATTAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGA
* * *
49734802 ATTAGAATTAGAATCAGTATCAGGTAA-CAGAATCAAAATCA
1 ATCAGAATTAGAATCAGAATCA-G-AATCAGAATCAGAATCA
49734843 AAATGTGAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
49 63 0.81
50 13 0.17
51 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (49 bp):
ATCAGAATTAGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGA
Found at i:49735027 original size:2 final size:2
Alignment explanation
Indices: 49735020--49735055 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49735010 CACCAGAACA
49735020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49735056 GTGGCGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49735405 original size:27 final size:27
Alignment explanation
Indices: 49735375--49735809 Score: 583
Period size: 27 Copynumber: 16.2 Consensus size: 27
49735365 AACACCCTAG
**
49735375 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735402 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
* *
49735429 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735456 GGGTAAAAC-GATAATTCTATAAATCGA
1 GGGTAAAACAG-TAATTTTATAAATCGA
* * *
49735483 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735510 GGGTAAAAC-GATAATTTTGTAAATCGA
1 GGGTAAAACAG-TAATTTTATAAATCGA
49735537 -GGTAAAA-AGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735562 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
* *
49735589 GGGTAAAACAGTAATTCTATATATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735616 GGGTAAAAC-GATAATTATATAAATCGA
1 GGGTAAAACAG-TAATTTTATAAATCGA
* *
49735643 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
* * *
49735670 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735697 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
*
49735724 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
* *
49735751 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAACAGTAATTTTATAAATCGA
* *
49735778 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGA
49735805 GGGTA
1 GGGTA
49735810 CTTTGGTAAT
Statistics
Matches: 369, Mismatches: 31, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.04
26 18 0.05
27 334 0.91
28 2 0.01
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTATAAATCGA
Found at i:49735845 original size:27 final size:27
Alignment explanation
Indices: 49735798--49735983 Score: 153
Period size: 27 Copynumber: 6.9 Consensus size: 27
49735788 GTAATTCTGT
49735798 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* *
49735825 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
** * * *
49735852 AGGTTGAGGTGTATTTCAGTAATTTCAC
1 AAATCGAGG-GTATTTCGGTAATTTTAC
* * *
49735880 AAATCAAAGGTATTTTGGTAATTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
* *
49735907 AAAT-TAGGGGTATTTTGGTAATTTTAC
1 AAATCGA-GGGTATTTCGGTAATTTTAC
* * *
49735934 AAA-CTAGGGGTATTTTGGTAATTTTAT
1 AAATCGA-GGGTATTTCGGTAATTTTAC
* * *
49735961 AAACCAAGGGTATTTTGGTAATT
1 AAATCGAGGGTATTTCGGTAATT
49735984 CTACCCTACA
Statistics
Matches: 137, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.03
27 110 0.80
28 23 0.17
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
AAATCGAGGGTATTTCGGTAATTTTAC
Found at i:49735936 original size:54 final size:54
Alignment explanation
Indices: 49735805--49735983 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 54
49735795 TGTAAATCGA
* * * ** **
49735805 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTTGAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATT-AG
* ** * *
49735860 GTGTATTTCAGTAATTTCACAAATCAAAGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATTAG
* * ** *
49735914 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAATTAG
49735968 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
49735984 CTACCCTACA
Statistics
Matches: 101, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
53 1 0.01
54 60 0.59
55 40 0.40
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATTAG
Found at i:49736002 original size:27 final size:27
Alignment explanation
Indices: 49735978--49736048 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
49735968 GGGTATTTTG
49735978 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
49736005 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
49736032 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
49736049 ATATGAGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:49739436 original size:40 final size:40
Alignment explanation
Indices: 49739391--49739557 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
49739381 CGGAATATAA
49739391 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49739431 CCGGATAGACT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49739471 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49739511 CCGGATA-AATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49739550 CCGGATAT
1 CCGGATAT
49739558 CATTCAATTT
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
39 31 0.30
40 70 0.69
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49743791 original size:20 final size:20
Alignment explanation
Indices: 49743766--49743803 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49743756 GTTTATTCGC
*
49743766 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
49743786 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
49743804 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:49745458 original size:28 final size:28
Alignment explanation
Indices: 49745426--49745480 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
49745416 CGTAGATCAC
49745426 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
49745454 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
49745481 CAATATACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:49754320 original size:29 final size:29
Alignment explanation
Indices: 49754287--49754369 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
49754277 GTGTCGAGAT
49754287 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49754316 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
49754345 TGGCACTAAGTGTGCAAGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
49754370 AAAATACGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49759198 original size:27 final size:28
Alignment explanation
Indices: 49759142--49759211 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
49759132 AAATTTGTAC
49759142 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
49759170 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
49759197 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
49759212 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:49762693 original size:41 final size:41
Alignment explanation
Indices: 49762636--49762777 Score: 230
Period size: 41 Copynumber: 3.5 Consensus size: 41
49762626 CATTACCATA
*
49762636 CCAGACAGGGTCTTACACGAATCATATACGATGCCAGTGTC
1 CCAGACAGGGTCTTACACGAATCATATACGATGCCAATGTC
* * *
49762677 CCAGACAGGGTCTTACATGAATCATATACGATGCCACTATC
1 CCAGACAGGGTCTTACACGAATCATATACGATGCCAATGTC
*
49762718 CCAGATAGGGTCTTACACGAATCATATACGATGCCAATGTC
1 CCAGACAGGGTCTTACACGAATCATATACGATGCCAATGTC
*
49762759 CCAGACATGGTCTTACACG
1 CCAGACAGGGTCTTACACG
49762778 TTTTCTCACT
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
CCAGACAGGGTCTTACACGAATCATATACGATGCCAATGTC
Found at i:49763964 original size:13 final size:13
Alignment explanation
Indices: 49763946--49763972 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49763936 CACAAACAAT
49763946 AAAATTTTCACAC
1 AAAATTTTCACAC
49763959 AAAATTTTCACAC
1 AAAATTTTCACAC
49763972 A
1 A
49763973 TATCAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:49768127 original size:40 final size:41
Alignment explanation
Indices: 49768071--49768289 Score: 227
Period size: 41 Copynumber: 5.4 Consensus size: 41
49768061 TCGTTTCTAT
* *
49768071 TTCGATACCTCTGAATTGCACTTA-GTGCCTCTGTTTGTA-
1 TTCGATACCCCTGAATTGCACATACGTGCCTCTGTTTGTAC
* * *
49768110 TGTCGGTACCCCTGAATTGCACATACATG-CTCCCGTTTGTAC
1 T-TCGATACCCCTGAATTGCACATACGTGCCT-CTGTTTGTAC
* * * *
49768152 TT-GATACCCTTGACTTGCACATACGTGCCCCTATTTGTAC
1 TTCGATACCCCTGAATTGCACATACGTGCCTCTGTTTGTAC
* *
49768192 TTTGATACCCTTGAATTGCACAT--GTGCGCTCCTGTTTGTAC
1 TTCGATACCCCTGAATTGCACATACGTGC-CT-CTGTTTGTAC
* *
49768233 TTC-AGTACCCCTGAATTGCACATACGTGCCCCTATTTGTAC
1 TTCGA-TACCCCTGAATTGCACATACGTGCCTCTGTTTGTAC
49768274 TTCGATACCCCTGAAT
1 TTCGATACCCCTGAAT
49768290 ACACTTTTGT
Statistics
Matches: 149, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
39 5 0.03
40 55 0.37
41 82 0.55
42 3 0.02
43 4 0.03
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
TTCGATACCCCTGAATTGCACATACGTGCCTCTGTTTGTAC
Found at i:49768139 original size:81 final size:81
Alignment explanation
Indices: 49768043--49768289 Score: 252
Period size: 81 Copynumber: 3.0 Consensus size: 81
49768033 GATTATTTTA
* * * *
49768043 AATTGCATC-TACATGC-CCTCGTTTCTATTTCGATA-CCTCTGAATTGCACTTA-GTGCCTCTG
1 AATTGCA-CATACATGCTCC-CGTTTCTACTT-GATACCCT-TGAATTGCACATACGTGCCCCTA
*
49768104 TTTGTA-TGTCGGTACCCCTG
62 TTTGTACT-TCGATACCCCTG
* *
49768124 AATTGCACATACATGCTCCCGTTTGTACTTGATACCCTTGACTTGCACATACGTGCCCCTATTTG
1 AATTGCACATACATGCTCCCGTTTCTACTTGATACCCTTGAATTGCACATACGTGCCCCTATTTG
* *
49768189 TACTTTGATACCCTTG
66 TACTTCGATACCCCTG
**** * * * *
49768205 AATTGCACATGTGCGCTCCTGTTTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTATTT
1 AATTGCACATACATGCTCCCGTTTCTACTTGA-TACCCTTGAATTGCACATACGTGCCCCTATTT
49768270 GTACTTCGATACCCCTG
65 GTACTTCGATACCCCTG
49768287 AAT
1 AAT
49768290 ACACTTTTGT
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
80 16 0.11
81 74 0.52
82 51 0.36
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (81 bp):
AATTGCACATACATGCTCCCGTTTCTACTTGATACCCTTGAATTGCACATACGTGCCCCTATTTG
TACTTCGATACCCCTG
Found at i:49768274 original size:82 final size:81
Alignment explanation
Indices: 49768075--49768289 Score: 263
Period size: 82 Copynumber: 2.7 Consensus size: 81
49768065 TTCTATTTCG
* * * * * *
49768075 ATACCTCTGAATTGCACTTA-GTGCCTCTGTTTGTA-TGTCGGTACCCCTGAATTGCACATACAT
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTACT-TCGATACCCCTGAATTGCACATACAC
*
49768138 GCTCCCGTTTGTACTTG
65 GCTCCCGTTTGTACTTC
* * * * ***
49768155 ATACCCTTGACTTGCACATACGTGCCCCTATTTGTACTTTGATACCCTTGAATTGCACATGTGCG
1 ATACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAATTGCACATACACG
*
49768220 CTCCTGTTTGTACTTC
66 CTCCCGTTTGTACTTC
49768236 AGTACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAAT
1 A-TACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAAT
49768290 ACACTTTTGT
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 16 0.14
81 48 0.42
82 49 0.43
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (81 bp):
ATACCCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCCTGAATTGCACATACACG
CTCCCGTTTGTACTTC
Found at i:49768302 original size:122 final size:121
Alignment explanation
Indices: 49768074--49768309 Score: 293
Period size: 122 Copynumber: 1.9 Consensus size: 121
49768064 TTTCTATTTC
* *
49768074 GATACCTCTGAATTGCACTTAGTGCCTCTGTTTGTATGTCGGTACCCCTGAATTGCACATACATG
1 GATACCTCTGAATTGCACATAGTGCCTCTGTTTGTATGTCAGTACCCCTGAATTGCACATACATG
* * * *
49768139 CTCCCGTTTGTACTTGATACCCTTGACTTGCACATACGTGCCCCTATTTGTACTTT
66 CTCCCATTTGTACTTGATACCCCTGACATACACATACGTGCCCCTATTTGTACTTT
49768195 GATACC-CTTGAATTGCACAT-GTGCGCTCCTGTTTGTACT-TCAGTACCCCTGAATTGCACATA
1 GATACCTC-TGAATTGCACATAGTGC-CT-CTGTTTGTA-TGTCAGTACCCCTGAATTGCACATA
* * **
49768257 CGTGC-CCCTATTTGTACTTCGATACCCCTGA-ATACACTTTTGTGCCCCTATTT
62 CATGCTCCC-ATTTGTACTT-GATACCCCTGACATACACATACGTGCCCCTATTT
49768310 ACACTCCGAT
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
120 5 0.05
121 22 0.22
122 61 0.62
123 11 0.11
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (121 bp):
GATACCTCTGAATTGCACATAGTGCCTCTGTTTGTATGTCAGTACCCCTGAATTGCACATACATG
CTCCCATTTGTACTTGATACCCCTGACATACACATACGTGCCCCTATTTGTACTTT
Found at i:49771514 original size:27 final size:27
Alignment explanation
Indices: 49771476--49771544 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
49771466 CGAATTCCAG
* ** *
49771476 CTCACCAGGCCTGTTGGCAAAAATCAA
1 CTCACCAAGCCTACTGGCAAAAACCAA
* * *
49771503 CTCGCCAAGCCTACTGGCAAATACCAG
1 CTCACCAAGCCTACTGGCAAAAACCAA
49771530 CTCACCAAGCCTACT
1 CTCACCAAGCCTACT
49771545 AGCGGATACG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.17
Consensus pattern (27 bp):
CTCACCAAGCCTACTGGCAAAAACCAA
Found at i:49774423 original size:43 final size:44
Alignment explanation
Indices: 49774373--49774528 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 44
49774363 ATGTGACTCA
49774373 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACG
* * * *
49774416 TGTAAGACCATGTCTGGGACATCGGCATC-ATATATGAGTTT--G
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGA-TTTACG
* *
49774458 TGTAAGACC-CTGTCTAGGACAG-TGGCATCGATATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTTACG
*
49774501 TGTAAGACCACGTCTGGGACGCTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
49774529 TGTACGACCT
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 27 0.29
43 60 0.65
44 4 0.04
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACG
Done.