Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 169 of 345
Found at i:47436559 original size:46 final size:48
Alignment explanation
Indices: 47436449--47436616 Score: 216
Period size: 48 Copynumber: 3.6 Consensus size: 48
47436439 TGATATGTGT
*
47436449 GCTAGTGAAAGACATGT-TGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
* * * * * *
47436496 GCCAGTGTAAGACATGTCTGGGACATACATCAGCATCAAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
* *
47436542 GCTAGTGTAAGACATGTCTAGGACATGCAACAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
* *
47436590 GCTAGTGTAAGACCTGTATGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
47436617 GCGTCAGCTT
Statistics
Matches: 100, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
46 37 0.37
47 17 0.17
48 46 0.46
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.21
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
Found at i:47436694 original size:141 final size:138
Alignment explanation
Indices: 47436498--47436759 Score: 332
Period size: 141 Copynumber: 1.9 Consensus size: 138
47436488 ATATACAAGC
* * *
47436498 CAGTGTAAGACATGTCTGGGACATACATCAGCATCAAGATGAGAGCTAGTGTAAGACATGTCTAG
1 CAGTGTAAGACATCTCTGGGACATACATCAGCACCAAGATGAGAGCCAGTGTAAGACAT-TCTAG
* *
47436563 GACATG-CAACAGCCTCGAGATAT-ACAAG-CTAGTGTAAGACCTGTATGGGACATGGCGTCAGC
65 GACACGACAACAGCCTCGACATATGA-AAGTC-AGTGTAAGACCTGTATGGGACATGGCGTCAGC
47436625 TTGTTGTGTGT
128 TTGTTGTGTGT
* * * * *
47436636 CAGTGTAAGACCTCTCTGGGACATGGCATCGGCACCGATAGATGAGAGCCAGTGTAAGACCTTTT
1 CAGTGTAAGACATCTCTGGGACAT-ACATCAGCACC-A-AGATGAGAGCCAGTGTAAGACATTCT
* * *
47436701 GGGACACGACATCAGCCTCGACATATGAAAGTCAGTGTAAGACCTGTCTGGGACATGGC
63 AGGACACGACAACAGCCTCGACATATGAAAGTCAGTGTAAGACCTGTATGGGACATGGC
47436760 ATCGACTTTG
Statistics
Matches: 105, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
138 22 0.21
139 8 0.08
140 9 0.09
141 64 0.61
142 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (138 bp):
CAGTGTAAGACATCTCTGGGACATACATCAGCACCAAGATGAGAGCCAGTGTAAGACATTCTAGG
ACACGACAACAGCCTCGACATATGAAAGTCAGTGTAAGACCTGTATGGGACATGGCGTCAGCTTG
TTGTGTGT
Found at i:47436695 original size:49 final size:48
Alignment explanation
Indices: 47436636--47436806 Score: 152
Period size: 48 Copynumber: 3.5 Consensus size: 48
47436626 TGTTGTGTGT
* *
47436636 CAGTGTAAGACCTCTCTGGGACATGGCATCGGCAC-CGATAGATGAGAGC
1 CAGTGTAAGACCT-TCTGGGACATGGCATCGGC-CTCGACAGATGAAAGC
* * * * * *
47436685 CAGTGTAAGACCTTTTGGGACACGACATCAGCCTCGACATATGAAAGT
1 CAGTGTAAGACCTTCTGGGACATGGCATCGGCCTCGACAGATGAAAGC
* * * *
47436733 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAC-G-TGCCAA-C
1 CAGTGTAAGACCT-TCTGGGACATGGCATCGGCCTCGACAGATG-AAAGC
47436780 CAGTGTAAGACCATGTCTGGGACATGG
1 CAGTGTAAGACC-T-TCTGGGACATGG
47436807 TGTCGGCATC
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
47 15 0.15
48 54 0.54
49 31 0.31
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (48 bp):
CAGTGTAAGACCTTCTGGGACATGGCATCGGCCTCGACAGATGAAAGC
Found at i:47442010 original size:40 final size:40
Alignment explanation
Indices: 47441902--47442111 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
47441892 CGGGATTTAA
* * * * *
47441902 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
47441942 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47441982 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47442022 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47442062 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
47442102 CCGGATATAT
1 CCGGATATAT
47442112 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:47444057 original size:93 final size:93
Alignment explanation
Indices: 47443898--47444068 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47443888 CGCCCTAAGT
* *
47443898 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47443963 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
47443991 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47444056 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47444069 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47444065 original size:46 final size:46
Alignment explanation
Indices: 47443893--47444065 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
47443883 TAACCCGCCC
* * * *
47443893 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47443939 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47443987 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47444032 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47444066 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47449929 original size:47 final size:49
Alignment explanation
Indices: 47449812--47449986 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
47449802 AACCCGCCCC
* * * *
47449812 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
47449857 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
47449905 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
47449950 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
47449987 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:47449975 original size:93 final size:92
Alignment explanation
Indices: 47449817--47449986 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
47449807 GCCCCTAAGT
*
47449817 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
47449882 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
47449909 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47449974 CGAGTTCGGATGC
65 CGAGTTCGGATGC
47449987 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47456999 original size:92 final size:93
Alignment explanation
Indices: 47456888--47457057 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
47456878 GCCCCTAAGT
* * *
47456888 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
47456952 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47456980 GAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
47457045 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47457058 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 48 0.66
93 25 0.34
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47457073 original size:46 final size:46
Alignment explanation
Indices: 47456883--47457060 Score: 193
Period size: 46 Copynumber: 3.9 Consensus size: 46
47456873 AACCCGCCCC
* * * *
47456883 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCA
* *
47456929 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-C---TCACATCCA
* * **
47456976 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCA
*
47457021 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCA
47457061 ACCATCCTAG
Statistics
Matches: 107, Mismatches: 17, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 23 0.21
46 49 0.46
47 24 0.22
48 1 0.01
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCA
Found at i:47459685 original size:23 final size:23
Alignment explanation
Indices: 47459594--47459707 Score: 120
Period size: 23 Copynumber: 5.0 Consensus size: 23
47459584 CATTTTTGGC
* **
47459594 GTATTCTGCAATGCCTATGTGAA
1 GTATTCTGCAATGCCTTTGTGGT
* * * *
47459617 GTATTATGTAATGCCTTAGTGGC
1 GTATTCTGCAATGCCTTTGTGGT
* * * *
47459640 ATATTCTACAATACCTATGTGGT
1 GTATTCTGCAATGCCTTTGTGGT
47459663 GTATTCTGCAATGCCTTTGTGGT
1 GTATTCTGCAATGCCTTTGTGGT
*
47459686 GTATTCTGCAATGCTTTTGTGG
1 GTATTCTGCAATGCCTTTGTGG
47459708 AAAATTCTGT
Statistics
Matches: 72, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (23 bp):
GTATTCTGCAATGCCTTTGTGGT
Found at i:47459707 original size:46 final size:46
Alignment explanation
Indices: 47459590--47459708 Score: 139
Period size: 46 Copynumber: 2.6 Consensus size: 46
47459580 GTTACATTTT
* *
47459590 TGGCGTATTCTGCAATGCCTATGTGAAGTATTATGTAATGCCTTAG
1 TGGCGTATTCTGCAATGCCTATGTGGAGTATTATGCAATGCCTTAG
* * * * * *
47459636 TGGCATATTCTACAATACCTATGTGGTGTATTCTGCAATGCCTTTG
1 TGGCGTATTCTGCAATGCCTATGTGGAGTATTATGCAATGCCTTAG
* * *
47459682 TGGTGTATTCTGCAATGCTTTTGTGGA
1 TGGCGTATTCTGCAATGCCTATGTGGA
47459709 AAATTCTGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (46 bp):
TGGCGTATTCTGCAATGCCTATGTGGAGTATTATGCAATGCCTTAG
Found at i:47459715 original size:69 final size:69
Alignment explanation
Indices: 47459594--47459726 Score: 167
Period size: 69 Copynumber: 1.9 Consensus size: 69
47459584 CATTTTTGGC
* * *
47459594 GTATTCTGCAATGCCTATGTGAAGTATTATGTAATGCCTTAGTGGCATATTCTACAATACCTATG
1 GTATTCTGCAATGCCTATGTGAAGTATTATGCAATGCCTTAGTGGAAAATTCTACAATACCTATG
47459659 TGGT
66 TGGT
* ** * * * **
47459663 GTATTCTGCAATGCCTTTGTGGTGTATTCTGCAATGCTTTTGTGGAAAATTCTGTAATACCTAT
1 GTATTCTGCAATGCCTATGTGAAGTATTATGCAATGCCTTAGTGGAAAATTCTACAATACCTAT
47459727 ATAGTGTACT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (69 bp):
GTATTCTGCAATGCCTATGTGAAGTATTATGCAATGCCTTAGTGGAAAATTCTACAATACCTATG
TGGT
Found at i:47462844 original size:15 final size:15
Alignment explanation
Indices: 47462820--47462849 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47462810 GCCGTGACTC
47462820 AGGCCATGTGGTTCA
1 AGGCCATGTGGTTCA
*
47462835 AGGCCGTGTGGTTCA
1 AGGCCATGTGGTTCA
47462850 CATAGCTAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (15 bp):
AGGCCATGTGGTTCA
Found at i:47465687 original size:40 final size:40
Alignment explanation
Indices: 47465638--47465805 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
47465628 TCTTCGGAAT
* * *
47465638 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
47465677 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *
47465717 TTAGCCCGGATATGACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
47465757 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
47465797 TTAGCCCGG
1 TTAGCCCGG
47465806 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:47471551 original size:39 final size:39
Alignment explanation
Indices: 47471439--47471633 Score: 246
Period size: 40 Copynumber: 4.9 Consensus size: 39
47471429 TCGTTCAAAC
* * ** * *
47471439 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
47471479 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
47471519 GCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACCATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
47471558 GCCTTCGGGCTTAGCCCGGATATCATAATTCGCACAATTT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAA-TT
* *
47471598 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
47471634 TTCATACACA
Statistics
Matches: 138, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 60 0.43
40 78 0.57
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:47471553 original size:79 final size:79
Alignment explanation
Indices: 47471470--47471622 Score: 245
Period size: 79 Copynumber: 1.9 Consensus size: 79
47471460 TATGGTAACC
47471470 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAA-TTGCCTTCGGGCTTAGC
1 CGCACAAATGCCTTCGGG-CTTAACCCGGATATCACAACTCGCACAATTTGCCTTCGGGCTTAGC
47471534 CCGGATATCATAGCT
65 CCGGATATCATAGCT
* * * * *
47471549 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCATAATTCGCACAATTTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGCTTAACCCGGATATCACAACTCGCACAATTTGCCTTCGGGCTTAGCC
47471614 CGGATATCA
66 CGGATATCA
47471623 CAATTCGCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
78 25 0.37
79 43 0.63
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGCTTAACCCGGATATCACAACTCGCACAATTTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:47480114 original size:19 final size:20
Alignment explanation
Indices: 47480073--47480116 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
47480063 TAATAGTAAC
* * *
47480073 TCATCCATTTAAACAATACT
1 TCATCCATATAAACAACAAT
47480093 TCATCCATAT-AACAACAAT
1 TCATCCATATAAACAACAAT
47480112 TCATC
1 TCATC
47480117 TGTATAACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (20 bp):
TCATCCATATAAACAACAAT
Found at i:47480382 original size:26 final size:23
Alignment explanation
Indices: 47480310--47480387 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 23
47480300 AGCTCTATTA
*
47480310 AGCT-AAAACGGTAAGCTCTGACG
1 AGCTGAAAATGGTAAGCTCT-ACG
*
47480333 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTGAAAATGGTAAGCTC-TACG
*
47480357 AGCTGACATATTGGTAAGCTCATACG
1 AGCTGA-A-AATGGTAAGCTC-TACG
47480383 AGCTG
1 AGCTG
47480388 TGGTGAGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.09
24 21 0.46
25 2 0.04
26 19 0.41
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.23
Consensus pattern (23 bp):
AGCTGAAAATGGTAAGCTCTACG
Found at i:47494407 original size:23 final size:23
Alignment explanation
Indices: 47494364--47494407 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47494354 ATGAGCTATG
* **
47494364 TAACAGGAAGCTTATCCAAGCAA
1 TAACAGGAAGCTCATAAAAGCAA
47494387 TAACAGGAAGCTCATAAAAGC
1 TAACAGGAAGCTCATAAAAGC
47494408 CTAAATTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.16
Consensus pattern (23 bp):
TAACAGGAAGCTCATAAAAGCAA
Found at i:47494501 original size:26 final size:25
Alignment explanation
Indices: 47494387--47494513 Score: 100
Period size: 26 Copynumber: 5.1 Consensus size: 25
47494377 ATCCAAGCAA
*
47494387 TAACAGGAAGCTCATAAA-AGCC-T
1 TAACAGGAAGCTCACAAAGAGCCTT
* *
47494410 AAATTAGGAAGCTCACAAAGAGCCTT
1 TAA-CAGGAAGCTCACAAAGAGCCTT
* * * * *
47494436 T--TAGGAAGTTCACAAAAAACTTT
1 TAACAGGAAGCTCACAAAGAGCCTT
*
47494459 TAATCAGGAAGCTCACGAAGAGCCTT
1 TAA-CAGGAAGCTCACAAAGAGCCTT
* *
47494485 TAAACAGGAAGCTCACGAAGAGCCAT
1 T-AACAGGAAGCTCACAAAGAGCCTT
47494511 TAA
1 TAA
47494514 TTAAAAGCTC
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
23 21 0.26
24 13 0.16
25 6 0.07
26 40 0.49
27 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (25 bp):
TAACAGGAAGCTCACAAAGAGCCTT
Found at i:47499360 original size:29 final size:29
Alignment explanation
Indices: 47499328--47499389 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
47499318 GTGAGCATGA
* *
47499328 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGAATTAGGCCTAATGGGCC
* * *
47499357 ATATGAATGTGAATTAGGCCTGATGGGCC
1 ATATAAAGGTGAATTAGGCCTAATGGGCC
47499386 ATAT
1 ATAT
47499390 GAATGCGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATAAAGGTGAATTAGGCCTAATGGGCC
Found at i:47507104 original size:53 final size:53
Alignment explanation
Indices: 47507024--47507125 Score: 195
Period size: 53 Copynumber: 1.9 Consensus size: 53
47507014 GGCAATGGAG
47507024 CAAGCTCAAAATCGAAGGTAGAACAAAAGGGCTATTTGATATTTGGCCTGAAA
1 CAAGCTCAAAATCGAAGGTAGAACAAAAGGGCTATTTGATATTTGGCCTGAAA
*
47507077 CAAGCTCAAAATCGAAGGTAGAACAAAAGGGCTCTTTGATATTTGGCCT
1 CAAGCTCAAAATCGAAGGTAGAACAAAAGGGCTATTTGATATTTGGCCT
47507126 TGGTGATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (53 bp):
CAAGCTCAAAATCGAAGGTAGAACAAAAGGGCTATTTGATATTTGGCCTGAAA
Found at i:47509080 original size:40 final size:40
Alignment explanation
Indices: 47509025--47509156 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
47509015 ATTTGATGTG
47509025 TATCCGGGCTTAAAGACCCACAGGCTAT-ATGCTAGAATTA
1 TATCCGGGCTTAAAGACCCACAGGCT-TCATGCTAGAATTA
* * * *
47509065 TATCCGGGCTTAAAGACCCGCAGGCTTCTTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCACAGGCTTCATGCTAGAATTA
* *** * * *
47509105 TATCCGGACTT-AAGGTTCGCAGGCTTCATGCTGGAATTG
1 TATCCGGGCTTAAAGACCCACAGGCTTCATGCTAGAATTA
*
47509144 TATCCGGACTTAA
1 TATCCGGGCTTAA
47509157 GATCTGCAGG
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 36 0.44
40 45 0.56
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCACAGGCTTCATGCTAGAATTA
Found at i:47509137 original size:39 final size:39
Alignment explanation
Indices: 47509083--47509209 Score: 148
Period size: 39 Copynumber: 3.3 Consensus size: 39
47509073 CTTAAAGACC
*
47509083 CGCAGGCTTCTTGCTGGAATTGTATCCGGACTTAAGGTT
1 CGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTT
*
47509122 CGCAGGCTTCATGCTGGAATTGTATCCGGACTTAA-GAT
1 CGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTT
* * * *** * *
47509160 CTGCAGGCTTCGTGCTTGTACAATATCTGGACTTAAGGTC
1 C-GCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTT
47509200 CGCAGGCTTC
1 CGCAGGCTTC
47509210 GTACTGGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
38 3 0.04
39 70 0.93
40 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (39 bp):
CGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTT
Found at i:47509210 original size:39 final size:39
Alignment explanation
Indices: 47509064--47509257 Score: 145
Period size: 39 Copynumber: 4.9 Consensus size: 39
47509054 TGCTAGAATT
* ** * * **
47509064 ATATCCGGGCTTAAAGACCCGCAGGCTTCTTGCTGGAATT
1 ATATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGTACA
* * * * **
47509104 GTATCCGGACTTAAGGTTCGCAGGCTTCATGCTGGAATT
1 ATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTACA
* * * *
47509143 GTATCCGGACTTAAGATCTGCAGGCTTCGTGCTTGTACA
1 ATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTACA
* * *
47509182 ATATCTGGACTTAAGGTCCGCAGGCTTCGTACTGGTACC
1 ATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTACA
* * * * *
47509221 ATATCCGGGCTTAAAGTCCCGTAGGCTTTGTGTTGGT
1 ATATCCGGACTTAAGGT-CCGCAGGCTTCGTGCTGGT
47509258 GATTGAATTC
Statistics
Matches: 125, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 100 0.80
40 25 0.20
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (39 bp):
ATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTACA
Found at i:47512703 original size:80 final size:80
Alignment explanation
Indices: 47512565--47512783 Score: 210
Period size: 80 Copynumber: 2.7 Consensus size: 80
47512555 GAATCACGTA
* * * ** * * *
47512565 CCTTC-GGAATTTAACCGGATATAGGGACTCGCTCGATTGTCTTCGGGACATT-GCCCGGTTATA
1 CCTTCGGGAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGAC-TTAGCCCGGTTATA
* * *
47512628 GTGATTCGCACAATTG
65 GTAACTCGCACAAATG
* * *
47512644 CCTTCGGGAATT-AGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTTG
1 CCTTCGGGAATTGA-CCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATA
47512708 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * * *
47512724 CCTTCGTGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACCTAGCCCGG
1 CCTTCGGGAATTGACCCGGATTTAGTAAC-TCGCACGAATGCCTTCGGGACTTAGCCCGG
47512784 ACACCATTCG
Statistics
Matches: 115, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
79 8 0.07
80 81 0.70
81 26 0.23
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (80 bp):
CCTTCGGGAATTGACCCGGATTTAGTAACTCGCACGAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:47512783 original size:41 final size:40
Alignment explanation
Indices: 47512605--47512784 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 40
47512595 GCTCGATTGT
* * *
47512605 CTTCGGGACATT-GCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGAC-TTAGCCCGGATT-TAGTAACTCGCACAAATGC
* *
47512645 CTTCGGGAATTAGCCCGGATTTAGTAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * *
47512685 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * *
47512725 CTTCGTGAATT-GACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
47512766 CTTCGGGACCTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
47512785 CACCATTCGA
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.02
40 85 0.75
41 26 0.23
42 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:47514628 original size:29 final size:29
Alignment explanation
Indices: 47514596--47514657 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
47514586 GTGAGCATGA
* *
47514596 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGATGAATTGGGCCTAATGGGCC
* * *
47514625 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGATGAATTGGGCCTAATGGGCC
47514654 ATAT
1 ATAT
47514658 GAATGAGATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATAAAGATGAATTGGGCCTAATGGGCC
Found at i:47514678 original size:27 final size:29
Alignment explanation
Indices: 47514609--47514685 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 29
47514599 TAAAGGTGAT
47514609 TTGGGCCTAA-TGGGCCATATGAATATGAA
1 TTGGGCC-AAGTGGGCCATATGAATATGAA
*
47514638 TTGGGCC-TGATGGGCCATATG-A-ATGAGA
1 TTGGGCCAAG-TGGGCCATATGAATATGA-A
*
47514666 -TGGGCCAAGTGGGCTATATG
1 TTGGGCCAAGTGGGCCATATG
47514686 CATGTATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
27 20 0.49
28 3 0.07
29 18 0.44
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCAAGTGGGCCATATGAATATGAA
Found at i:47518661 original size:40 final size:40
Alignment explanation
Indices: 47518616--47518783 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
47518606 CGGAATACAA
47518616 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
47518656 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
47518696 CCGGATATAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
47518736 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
47518776 CCGGATAT
1 CCGGATAT
47518784 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:47518766 original size:80 final size:80
Alignment explanation
Indices: 47518616--47518783 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
47518606 CGGAATACAA
* *
47518616 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATG
*
47518681 CCTTCGGGTCTTAGC
66 CCTTCGGGACTTAGC
* * ** *
47518696 CCGGATATAGCCAC-TAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATAA
1 CCGGATATAACCACGT-GCACGAA-TGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACAA
*
47518758 ATGTCTTCGGGACTTAGC
63 ATGCCTTCGGGACTTAGC
47518776 CCGGATAT
1 CCGGATAT
47518784 CATTCAATTG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
79 4 0.05
80 72 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACAAATG
CCTTCGGGACTTAGC
Found at i:47520015 original size:17 final size:17
Alignment explanation
Indices: 47519993--47520035 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
47519983 AAGCAAAATC
47519993 TCGCCAAATAAGTAATG
1 TCGCCAAATAAGTAATG
47520010 TCGCCAAATAAGTAATG
1 TCGCCAAATAAGTAATG
47520027 TCGCCAAAT
1 TCGCCAAAT
47520036 CTTTAAGGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (17 bp):
TCGCCAAATAAGTAATG
Found at i:47524497 original size:40 final size:40
Alignment explanation
Indices: 47524452--47524619 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
47524442 CGGAATACAA
47524452 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
47524492 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
47524532 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
47524572 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
47524612 CCGGATAT
1 CCGGATAT
47524620 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:47526902 original size:21 final size:21
Alignment explanation
Indices: 47526878--47526947 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
47526868 TGATCTGAAC
47526878 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* **
47526899 TCA-TGATATATGTGGCATCTGAAC
1 TCATTGA-GT-TGTGG--TCTGAGT
* *
47526923 TCATTTAGTTATGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
47526944 TCAT
1 TCAT
47526948 GATGTATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 5 0.14
23 4 0.11
24 9 0.25
25 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.24, T:0.41
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:47526926 original size:45 final size:45
Alignment explanation
Indices: 47526870--47526957 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
47526860 GAACTATGTG
*
47526870 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
* *
47526915 ATCTGAACTCATTTAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTG
47526958 ACACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Found at i:47529120 original size:27 final size:26
Alignment explanation
Indices: 47529082--47529189 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
47529072 AAGCGTCCTA
* *
47529082 GTGGCTGTGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
47529109 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
47529136 GTGGCTTTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
* * * *
47529163 GTGACCCTGTCACATTATCTATTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
47529189 G
1 G
47529190 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 54 0.76
28 2 0.03
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:47529164 original size:54 final size:53
Alignment explanation
Indices: 47529082--47529189 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 53
47529072 AAGCGTCCTA
* * *
47529082 GTGGCTGTGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTGTGCCACAATTATCTGATCTGGTGACCCTGCCACAT-TATCTATTCTG
* * *
47529136 GTGGCTTTGCCACAATTATCTGTTCTGGTGACCCTGTCACATTATCTATTCTG
1 GTGGCTGTGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTATTCTG
47529189 G
1 G
47529190 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 11 0.23
54 37 0.77
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTGTGCCACAATTATCTGATCTGGTGACCCTGCCACATTATCTATTCTG
Found at i:47535801 original size:16 final size:16
Alignment explanation
Indices: 47535780--47535812 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47535770 AACTGAATTC
47535780 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
47535796 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
47535812 T
1 T
47535813 TTTCTTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:47537054 original size:27 final size:27
Alignment explanation
Indices: 47537024--47537113 Score: 103
Period size: 27 Copynumber: 3.4 Consensus size: 27
47537014 ATGCGACAAT
*
47537024 TATCTGATCTGGTGGCTCTACCACATA
1 TATCTGTTCTGGTGGCTCTACCACATA
*
47537051 TATCTGTTCTGGTGGCTCTGCCACA-A
1 TATCTGTTCTGGTGGCTCTACCACATA
* * * *
47537077 TTATCTGTTTTGGTGACCCTATCACAT-
1 -TATCTGTTCTGGTGGCTCTACCACATA
47537104 TATCTGTTCT
1 TATCTGTTCT
47537114 AGCAGCCATG
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.19
27 43 0.81
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.40
Consensus pattern (27 bp):
TATCTGTTCTGGTGGCTCTACCACATA
Found at i:47537091 original size:54 final size:53
Alignment explanation
Indices: 47537008--47537113 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
47536998 AAGCGTCCTA
* * *
47537008 GTGGCTATGCGACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTACCACAT-TATCTGTTCTG
* * * *
47537062 GTGGCTCTGCCACAATTATCTGTTTTGGTGACCCTATCACATTATCTGTTCT
1 GTGGCTATGCCACAATTATCTGATCTGGTGACCCTACCACATTATCTGTTCT
47537114 AGCAGCCATG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 10 0.22
54 35 0.78
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGACCCTACCACATTATCTGTTCTG
Found at i:47540129 original size:39 final size:40
Alignment explanation
Indices: 47540048--47540248 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 40
47540038 TCGAATGATG
* *
47540048 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
47540087 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
47540126 TCC-GGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
47540164 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
47540204 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
47540244 TCCGG
1 TCCGG
47540249 TTAAATTCTG
Statistics
Matches: 137, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
37 23 0.17
38 10 0.07
39 35 0.26
40 69 0.50
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:47562475 original size:22 final size:22
Alignment explanation
Indices: 47562427--47562503 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 22
47562417 AACCCGTAAG
47562427 AGCTTACTGTTCTCAGCTCGTATA
1 AGCTTACTGTT-T-AGCTCGTATA
*
47562451 AGCTTACTGTTTAGCTCTTCA-A
1 AGCTTACTGTTTAGCTCGT-ATA
*
47562473 AGCTTACTGTTTTAGCTC-AATA
1 AGCTTACTG-TTTAGCTCGTATA
47562495 GAGCTTACT
1 -AGCTTACT
47562504 ATTCATCAGC
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.02
22 17 0.36
23 18 0.38
24 11 0.23
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (22 bp):
AGCTTACTGTTTAGCTCGTATA
Found at i:47566814 original size:40 final size:40
Alignment explanation
Indices: 47566770--47566879 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
47566760 TTCACAATTT
* *
47566770 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
47566810 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
47566850 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
47566880 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:47571743 original size:24 final size:24
Alignment explanation
Indices: 47571714--47571774 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
47571704 TAGCATGTAA
47571714 GAGCTTACTGTTCTCAGCTCGTAT
1 GAGCTTACTGTTCTCAGCTCGTAT
47571738 GAGCTTACTGTTCTCAGCTCGTAT
1 GAGCTTACTGTTCTCAGCTCGTAT
*
47571762 GAGCTTGCTGTTC
1 GAGCTTACTGTTC
47571775 AGCTTTTCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.38
Consensus pattern (24 bp):
GAGCTTACTGTTCTCAGCTCGTAT
Found at i:47571830 original size:45 final size:45
Alignment explanation
Indices: 47571713--47571830 Score: 105
Period size: 45 Copynumber: 2.6 Consensus size: 45
47571703 TTAGCATGTA
* * *
47571713 AGAGCTTACTGTTC-TCAGCTCGTATGAGCTTACTGTTCTCAGCTCGT
1 AGAGCTTACTGTTCATCAGCTC--A-GACCTTACCGTTCTCAGCTCAT
* * ***
47571760 ATGAGCTTGCTGTTCAGCTTTTCAGACCTTACCGTT-TCAGCTCAAT
1 A-GAGCTTACTGTTCATCAGCTCAGACCTTACCGTTCTCAGCTC-AT
47571806 AGAGCTTACTGTTCATCAGCTCAGA
1 AGAGCTTACTGTTCATCAGCTCAGA
47571831 AAGAGCTTAC
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
45 26 0.47
46 12 0.22
47 2 0.04
48 12 0.22
49 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (45 bp):
AGAGCTTACTGTTCATCAGCTCAGACCTTACCGTTCTCAGCTCAT
Found at i:47571847 original size:26 final size:25
Alignment explanation
Indices: 47571796--47571860 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
47571786 CCTTACCGTT
* * *
47571796 TCAGCTCAATAGAGCTTACTGTTCA
1 TCAGCTCAAAAGAGCTTACCGATCA
47571821 TCAGCTCAGAAAGAGCTTACCGATCA
1 TCAGCTCA-AAAGAGCTTACCGATCA
*
47571847 TGA-CTCAAAAGAGC
1 TCAGCTCAAAAGAGC
47571861 AGAAATGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.20
25 12 0.34
26 16 0.46
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (25 bp):
TCAGCTCAAAAGAGCTTACCGATCA
Found at i:47574505 original size:26 final size:26
Alignment explanation
Indices: 47574476--47574525 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47574466 CAGGTCAACC
*
47574476 TTAACCCTAGGGGTATATCAATAATT
1 TTAACCCTAGGGGTAAATCAATAATT
* *
47574502 TTAATCCTAGGGGTAAATCTATAA
1 TTAACCCTAGGGGTAAATCAATAA
47574526 ATTGTCCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (26 bp):
TTAACCCTAGGGGTAAATCAATAATT
Found at i:47577413 original size:25 final size:25
Alignment explanation
Indices: 47577379--47577448 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
47577369 CTCTTTTAAT
*
47577379 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47577404 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47577429 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47577449 AGTACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:47577500 original size:16 final size:16
Alignment explanation
Indices: 47577479--47577509 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47577469 AACCCAACCC
*
47577479 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
47577495 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
47577510 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:47578314 original size:27 final size:27
Alignment explanation
Indices: 47578258--47578322 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
47578248 AGGCATATTC
*
47578258 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCATACAAGGGTATTACG
* * *
47578285 GTCATTTTACCCTAGAGGGGCT-TTACG
1 GTCATTTTACCATACAAGGG-TATTACG
*
47578312 GTCTTTTTACC
1 GTCATTTTACC
47578323 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:47578406 original size:27 final size:27
Alignment explanation
Indices: 47578375--47578554 Score: 98
Period size: 27 Copynumber: 6.6 Consensus size: 27
47578365 GGTAAATCTA
47578375 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* *
47578402 TAAACCAATGGTATTTCTA-TAATTTT-
1 CAAACCAAGGGTATTTC-AGTAATTTTG
* *
47578428 CAGAAAGTCAATGGTATTTCTA-TAATTTTG
1 C--AAA-CCAAGGGTATTTC-AGTAATTTTG
* ** * ** *
47578458 TAAATTAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
** * **
47578485 CAAATTAAGGGTATTTCGGTAATTTCA
1 CAAACCAAGGGTATTTCAGTAATTTTG
* *
47578512 CAAACC-AGTGGTATTTCGGTAATTTTA
1 CAAACCAAG-GGTATTTCAGTAATTTTG
* *
47578539 CAAACTAGGGGTATTT
1 CAAACCAAGGGTATTT
47578555 TGGTAATTCT
Statistics
Matches: 125, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.02
27 94 0.75
28 8 0.06
29 21 0.17
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCAGTAATTTTG
Found at i:47578556 original size:81 final size:81
Alignment explanation
Indices: 47578439--47578595 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
47578429 AGAAAGTCAA
* ** * *
47578439 TGGTATTTCTATAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTA-A-GGGTATTT
1 TGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTCTATC---TTACAGGGGTATTT
*
47578501 CGGTAATTTCACAAACCAG
63 CAGTAATTTCACAAACCAG
*
47578520 TGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTCAG
1 TGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTCAG
47578585 TAATTTCACAA
66 TAATTTCACAA
47578596 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
79 3 0.05
80 1 0.02
81 61 0.92
82 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (81 bp):
TGGTATTTCGATAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:47578559 original size:27 final size:27
Alignment explanation
Indices: 47578440--47578595 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
47578430 GAAAGTCAAT
** ** *
47578440 GGTATTTCTATAATTTTGTAAATTAGG
1 GGTATTTCGGTAATTTTACAAACTAGG
* * *
47578467 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTTACAAACTAGG
* * *
47578494 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTCGGTAATTTTACAAACTAGG
47578521 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAAACTAGG
* * **
47578548 GGTATTTTGGTAATTCTATCTTAC-AGG
1 GGTATTTCGGTAATTTTA-CAAACTAGG
* *
47578575 GGTATTTCAGTAATTTCACAA
1 GGTATTTCGGTAATTTTACAA
47578596 TCGAGGGTAA
Statistics
Matches: 103, Mismatches: 25, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
26 1 0.01
27 99 0.96
28 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAACTAGG
Found at i:47578628 original size:27 final size:27
Alignment explanation
Indices: 47578594--47578764 Score: 218
Period size: 27 Copynumber: 6.3 Consensus size: 27
47578584 GTAATTTCAC
47578594 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
47578621 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
47578648 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
47578675 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
47578702 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * **
47578729 AATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
47578756 AATCGAGGG
1 AATCGAGGG
47578765 CATTTTAGTA
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 126 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:47578667 original size:54 final size:54
Alignment explanation
Indices: 47578594--47578764 Score: 245
Period size: 54 Copynumber: 3.2 Consensus size: 54
47578584 GTAATTTCAC
* *
47578594 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATGGTAATTTTGTA
* *
47578648 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
* * * **
47578702 AATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
47578756 AATCGAGGG
1 AATCGAGGG
47578765 CATTTTAGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
Found at i:47578703 original size:81 final size:81
Alignment explanation
Indices: 47578594--47578764 Score: 272
Period size: 81 Copynumber: 2.1 Consensus size: 81
47578584 GTAATTTCAC
* * * *
47578594 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCAAGGGT
*
47578658 AAAATGGTAATTCTATA
65 AAAATGGTAATTCTACA
*
47578675 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATCAAGGGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTA
47578740 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
47578756 AATCGAGGG
1 AATCGAGGG
47578765 CATTTTAGTA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCAAGGGTA
AAATGGTAATTCTACA
Found at i:47580900 original size:29 final size:28
Alignment explanation
Indices: 47580838--47580892 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
47580828 CCTATTCAGT
* *
47580838 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
47580866 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
47580893 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:47580946 original size:31 final size:31
Alignment explanation
Indices: 47580906--47580976 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
47580896 TCAGTCTCGA
* *
47580906 CATAT-ACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
47580936 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCAAAGCCTTTTCATAAAT
47580967 CATATCACTG
1 CATATCACTG
47580977 CCCGAAGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTTCATAAAT
Found at i:47580987 original size:30 final size:31
Alignment explanation
Indices: 47580918--47580988 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
47580908 TATACTGGGT
*
47580918 CGAAGCCTTTTCATAAATCATATCACTGGGC
1 CGAAGCCTTTTCATAAATCATATCACTGGCC
*
47580949 CAAAGCCTTTTCATAAATCATATCACT-GCC
1 CGAAGCCTTTTCATAAATCATATCACTGGCC
47580979 CGAAGCCTTT
1 CGAAGCCTTT
47580989 ATTGTAAGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 11 0.30
31 26 0.70
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (31 bp):
CGAAGCCTTTTCATAAATCATATCACTGGCC
Found at i:47581242 original size:25 final size:25
Alignment explanation
Indices: 47581208--47581277 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
47581198 CTCTTTTAAT
*
47581208 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47581233 AACTGAGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
47581258 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
47581278 AGTACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:47582143 original size:27 final size:27
Alignment explanation
Indices: 47582087--47582151 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
47582077 GGGCATATTT
*
47582087 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCATACAAGGGTATTACG
*
47582114 GTCATTTTACCCTA-AAGGGGCT-TTACG
1 GTCATTTTACCATACAA-GGG-TATTACG
*
47582141 GTCTTTTTACC
1 GTCATTTTACC
47582152 TATTAGGGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 30 0.91
28 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:47582235 original size:27 final size:27
Alignment explanation
Indices: 47582204--47582383 Score: 107
Period size: 27 Copynumber: 6.6 Consensus size: 27
47582194 GGTAAATCTA
47582204 CAAACCAAGGGTATTTCAGTAATTTTG
1 CAAACCAAGGGTATTTCAGTAATTTTG
* *
47582231 TAAACCAATGGTATTTCTA-TAATTTT-
1 CAAACCAAGGGTATTTC-AGTAATTTTG
*
47582257 CAGAAAGTCAAGGGTATTTCTA-TAATTTTG
1 C--AAA-CCAAGGGTATTTC-AGTAATTTTG
* ** * ** *
47582287 TAAATTAGGGGTATTTTGGTAATTTTA
1 CAAACCAAGGGTATTTCAGTAATTTTG
** ** **
47582314 CAAATTAAGGGTATTTTGGTAATTTCA
1 CAAACCAAGGGTATTTCAGTAATTTTG
*
47582341 CAAACC-AGTGGTATTTCAGTAATTTTA
1 CAAACCAAG-GGTATTTCAGTAATTTTG
* *
47582368 CAAACTAGGGGTATTT
1 CAAACCAAGGGTATTT
47582384 TGGTAATTCT
Statistics
Matches: 124, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.02
27 94 0.76
28 8 0.06
29 20 0.16
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCAGTAATTTTG
Found at i:47582310 original size:56 final size:54
Alignment explanation
Indices: 47582202--47582371 Score: 141
Period size: 54 Copynumber: 3.1 Consensus size: 54
47582192 TTGGTAAATC
* *
47582202 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
* ** * *
47582256 TCAGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAATTAGGGGTATTT-TGGTAATTT
1 T-ACAAA-TCAAGGGTATTTC-AGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
* ** ***
47582312 TACAAATTAAGGGTATTTTGGTAATTTCACAAACC-AGTGGTATTTC-AGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAG-GGTATTTCTA-TAATTT
47582366 TACAAA
1 TACAAA
47582372 CTAGGGGTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
53 1 0.01
54 40 0.44
55 9 0.10
56 39 0.43
57 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:47582385 original size:81 final size:81
Alignment explanation
Indices: 47582269--47582424 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
47582259 GAAAGTCAAG
** * *
47582269 GGTATTTCTATAATTTTGTAAATTAGGGGTATTTTGGTAATTTTA-CAAATTA-A-GGGTATTTT
1 GGTATTTCTATAATTTTACAAACTAGGGGTATTTTGGTAATTCTATC---TTACAGGGGTATTTT
*
47582331 GGTAATTTCACAAACCAGT
63 AGTAATTTCACAAACCAGT
47582350 GGTATTTC-AGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTTAG
1 GGTATTTCTA-TAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTTAG
47582414 TAATTTCACAA
65 TAATTTCACAA
47582425 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
79 3 0.05
80 2 0.03
81 60 0.91
82 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTCTATAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCTTACAGGGGTATTTTAGT
AATTTCACAAACCAGT
Found at i:47582389 original size:27 final size:27
Alignment explanation
Indices: 47582292--47582424 Score: 142
Period size: 27 Copynumber: 4.9 Consensus size: 27
47582282 TTTTGTAAAT
*
47582292 TAGGGGTATTTTGGTAATTTTACAAAT
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
47582319 TAAGGGTATTTTGGTAATTTCACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * **
47582346 CAGTGGTATTTCAGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* **
47582373 TAGGGGTATTTTGGTAATTCTATCTTAC
1 TAGGGGTATTTTGGTAATTTTA-CAAAC
* *
47582401 -AGGGGTATTTTAGTAATTTCACAA
1 TAGGGGTATTTTGGTAATTTTACAA
47582425 TCGAGGGTAA
Statistics
Matches: 84, Mismatches: 21, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
26 1 0.01
27 80 0.95
28 3 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:47582408 original size:54 final size:54
Alignment explanation
Indices: 47582293--47582424 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 54
47582283 TTTGTAAATT
* *
47582293 AGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTTGGTAATTTCACAAACC
1 AGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTCACAAACC
* * * **
47582347 AGTGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTCTATCTTA-C
1 AGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTC-A-CAAACC
*
47582401 AGGGGTATTTTAGTAATTTCACAA
1 AGGGGTATTTTAGTAATTTTACAA
47582425 TCGAGGGTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
53 3 0.05
54 61 0.92
55 2 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTCACAAACC
Found at i:47582457 original size:27 final size:27
Alignment explanation
Indices: 47582423--47582593 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
47582413 GTAATTTCAC
47582423 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
47582450 AAGT-GAGGGTAAAATGGTAATTTTGTA
1 AA-TCGAGGGTAAAACGGTAATTTTGTA
* * *
47582477 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
47582504 AATCGAGGGTAAAACGATAATTTTGCA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
47582531 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
47582558 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
47582585 AATCGAGGG
1 AATCGAGGG
47582594 CATTTTAGTA
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:47582496 original size:54 final size:54
Alignment explanation
Indices: 47582423--47582593 Score: 245
Period size: 54 Copynumber: 3.2 Consensus size: 54
47582413 GTAATTTCAC
* * *
47582423 AATCGAGGGTAAAACGGTAATTTTGTAAAGT-GAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATAAA-TCGAGGGTAAAATGGTAATTTTGCA
* * *
47582477 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGCA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGCA
* * *
47582531 AATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGCA
47582585 AATCGAGGG
1 AATCGAGGG
47582594 CATTTTAGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 103 0.99
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGCA
Found at i:47582528 original size:81 final size:81
Alignment explanation
Indices: 47582423--47582593 Score: 263
Period size: 81 Copynumber: 2.1 Consensus size: 81
47582413 GTAATTTCAC
* * * * *
47582423 AATCGAGGGTAAAACGGTAATTTTGTAAAGT-GAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGATAATTTTGCAAA-TCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
*
47582487 AAAATGGTAATTCTATA
65 AAAATGGTAATTCTACA
*
47582504 AATCGAGGGTAAAACGATAATTTTGCAAATCGAGGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
47582569 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
47582585 AATCGAGGG
1 AATCGAGGG
47582594 CATTTTAGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 1 0.01
81 81 0.99
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTTTGCAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:47583811 original size:25 final size:25
Alignment explanation
Indices: 47583783--47583843 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
47583773 ATCACTACCA
47583783 AACAGGATGCTCACAAGA-GCCATAT
1 AACAGGATGCTC-CAAGAGGCCATAT
* * *
47583808 AACAGGAAGCT-CAAGAGGGCTTAT
1 AACAGGATGCTCCAAGAGGCCATAT
47583832 AACAGGATGCTC
1 AACAGGATGCTC
47583844 GTAGGAGCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 5 0.17
24 15 0.50
25 10 0.33
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (25 bp):
AACAGGATGCTCCAAGAGGCCATAT
Found at i:47591255 original size:13 final size:13
Alignment explanation
Indices: 47591239--47591273 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
47591229 AATAAAATAA
47591239 TAAAATATCTT-AT
1 TAAAATAT-TTAAT
47591252 TAAAATATTTAAT
1 TAAAATATTTAAT
47591265 TAAAATATT
1 TAAAATATT
47591274 AATAAAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAAATATTTAAT
Found at i:47591566 original size:30 final size:31
Alignment explanation
Indices: 47591511--47591569 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
47591501 CACCTTTAAA
*
47591511 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTTC
47591542 ATATTTACACT-TTAG-CCTCTCAAATTTT
1 ATATTTACACTATTAGTCCT-TCAAATTTT
47591570 GAGTTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 13 0.50
31 10 0.38
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGTCCTTCAAATTTTTC
Found at i:47592460 original size:20 final size:20
Alignment explanation
Indices: 47592435--47592487 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
47592425 AGGGGCACAT
* *
47592435 GCCCGTGTGGCTTGGAACAC
1 GCCCGTGTGGCCTAGAACAC
*
47592455 GCCCGTGTGGCCTAGAACAT
1 GCCCGTGTGGCCTAGAACAC
47592475 GCCCGTGTGGCCT
1 GCCCGTGTGGCCT
47592488 GCCCATGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.32, G:0.34, T:0.21
Consensus pattern (20 bp):
GCCCGTGTGGCCTAGAACAC
Found at i:47593324 original size:53 final size:52
Alignment explanation
Indices: 47593199--47593402 Score: 174
Period size: 52 Copynumber: 4.0 Consensus size: 52
47593189 TCACACATAA
* * * * *
47593199 CACACCGAAGCAATAGCCCTGCCATGGTCTTACACGG-ATCACATAT--CAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACAT
* ** * *
47593248 ---ACCGATGCCATATCCCAAATATGGTATTATACGAAATCACATTATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TATCACAT
*
47593298 CACACTGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGA-ATCACAT
1 CACACCGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCAC-ATATCACAT
*** *
47593350 TGTACCGATGCCATAGCCC-GACTATGGTCTTATACGGAATCATATATCACAT
1 CACACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATATCACAT
47593402 C
1 C
47593403 TTTTCTATCA
Statistics
Matches: 121, Mismatches: 22, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
46 24 0.20
47 6 0.05
48 3 0.02
50 3 0.02
51 6 0.05
52 45 0.37
53 30 0.25
54 4 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
CACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATATCACAT
Found at i:47602188 original size:29 final size:29
Alignment explanation
Indices: 47602155--47602315 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
47602145 GTGACGAGAT
47602155 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
47602184 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47602213 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
47602242 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
47602271 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
47602300 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47602316 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47609709 original size:29 final size:29
Alignment explanation
Indices: 47609676--47609835 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
47609666 GTGACGAGAT
47609676 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47609705 TGGCACT-AGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47609733 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
47609762 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
47609791 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
47609820 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47609836 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 29 0.26
29 81 0.74
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47610149 original size:29 final size:29
Alignment explanation
Indices: 47610116--47610276 Score: 162
Period size: 29 Copynumber: 5.6 Consensus size: 29
47610106 GTGACGAGAT
47610116 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
47610145 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47610174 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
47610203 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
47610232 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
47610261 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47610277 AAATCGAGTA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
28 2 0.02
29 108 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:47610270 original size:441 final size:441
Alignment explanation
Indices: 47609409--47610292 Score: 1718
Period size: 441 Copynumber: 2.0 Consensus size: 441
47609399 GGAACTAAAT
47609409 CGGACAAAGGAAAGGAGAAAGCAAACGAGTAGCCGATTTGGAACCGTTCTACCCAAAACTAGGTA
1 CGGACAAAGGAAAGGAGAAAGCAAACGAGTAGCCGATTTGGAACCGTTCTACCCAAAACTAGGTA
47609474 AGTCATTAAGCACATATGTTTGATATTGCTTAAATGATTGAAAAATCTATGCAATTGTGTTTAAT
66 AGTCATTAAGCACATATGTTTGATATTGCTTAAATGATTGAAAAATCTATGCAATTGTGTTTAAT
47609539 GGGATGCTATATATATAAATGAAATTGTATGTGTATGGAGTGATGACATTGTTGAATGTAAAAGA
131 GGGATGCTATATATATAAATGAAATTGTATGTGTATGGAGTGATGACATTGTTGAATGTAAAAGA
47609604 AATAGTGAAATGTGTACAAAGTTTGCTTTCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTG
196 AATAGTGAAATGTGTA-AAAGTTTGCTTTCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTG
47609669 ACGAGATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAGTGTGCATGCTGGAAATATAT
260 ACGAGATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAGTGTGCATGCTGGAAATATAT
47609734 GGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTA
325 GGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTA
47609799 TGTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGAAATCGAGTATTAAG
390 TGTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGAAATCGAGTATTAAG
*
47609851 CGGACAAAGGAAAGGAGAAAGCAAACGAGTAGCTGATTTGGAACCGTTCTACCCAAAACTAGGTA
1 CGGACAAAGGAAAGGAGAAAGCAAACGAGTAGCCGATTTGGAACCGTTCTACCCAAAACTAGGTA
47609916 AGTCATTAAGCACATATGTTTGATATTGCTTAAATGATTGAAAAATCTATGCAATTGTGTTTAAT
66 AGTCATTAAGCACATATGTTTGATATTGCTTAAATGATTGAAAAATCTATGCAATTGTGTTTAAT
47609981 -GGATGCTATATATATAAATGAAATTGTATGTGTATGGAGTGATGACAATTGTTGAATGTAAAAG
131 GGGATGCTATATATATAAATGAAATTGTATGTGTATGGAGTGATGAC-ATTGTTGAATGTAAAAG
47610045 AAATAGTGAAATGTGT-AAAGTTTGCTTTCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTG
195 AAATAGTGAAATGTGTAAAAGTTTGCTTTCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTG
47610109 ACGAGATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTGAGTGTGCATGCTGGAAATATA
260 ACGAGATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACT-AGTGTGCATGCTGGAAATATA
47610174 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACT
324 TGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACT
47610239 ATGTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGAAATCGAGTATTAAG
389 ATGTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGAAATCGAGTATTAAG
47610292 C
1 C
47610293 ACTGTGTGTG
Statistics
Matches: 439, Mismatches: 1, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
440 91 0.21
441 186 0.42
442 162 0.37
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (441 bp):
CGGACAAAGGAAAGGAGAAAGCAAACGAGTAGCCGATTTGGAACCGTTCTACCCAAAACTAGGTA
AGTCATTAAGCACATATGTTTGATATTGCTTAAATGATTGAAAAATCTATGCAATTGTGTTTAAT
GGGATGCTATATATATAAATGAAATTGTATGTGTATGGAGTGATGACATTGTTGAATGTAAAAGA
AATAGTGAAATGTGTAAAAGTTTGCTTTCGGCACTAAGTGTGCGGGCAATACGTGTGTACGGTGA
CGAGATTGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAGTGTGCATGCTGGAAATATATG
GCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAAGGGTATGGCACTAT
GTGTGCGGGCTTAAATCGCATGGCACTAAGTGTGCGAAATCGAGTATTAAG
Found at i:47618159 original size:29 final size:29
Alignment explanation
Indices: 47618126--47618219 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
47618116 GTGACGAGAT
* *
47618126 TGGCACTAAGTGTGCGTGATGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47618155 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47618184 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47618213 CGGCACT
1 TGGCACT
47618220 GGGTGTGCGA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47618244 original size:58 final size:58
Alignment explanation
Indices: 47618122--47618256 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
47618112 TACGGTGACG
* * *
47618122 AGAT-TGGCACTAAGTGTGCGTGATGGAAATATATGGCACTGAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGATGGAAATATACGGCACTGAGTGTGCATGCTCGAA
* * *
47618179 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGATGGAAATATACGGCACTGAGTGTGC-ATGCTCGAA
* * *
47618237 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
47618257 GGGCTTAAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
57 3 0.05
58 62 0.94
59 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGATGGAAATATACGGCACTGAGTGTGCATGCTCGAA
Found at i:47623652 original size:30 final size:30
Alignment explanation
Indices: 47623597--47623727 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
47623587 ATAGTGAATC
*
47623597 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
47623626 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
47623656 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
47623684 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
47623714 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47623728 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:47623707 original size:58 final size:58
Alignment explanation
Indices: 47623596--47623727 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
47623586 TATAGTGAAT
* * * * *
47623596 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
47623655 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
47623713 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
47623728 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:47628053 original size:29 final size:29
Alignment explanation
Indices: 47627952--47628045 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
47627942 GTGACGAGAT
47627952 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47627981 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47628010 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47628039 CGGCACT
1 TGGCACT
47628046 GGGTGTGCGA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47628075 original size:58 final size:58
Alignment explanation
Indices: 47627955--47628082 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 58
47627945 ACGAGATTGG
* * * *
47627955 CACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAATATATGG
1 CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGA
** * *
47628013 CACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGA-GCTCGAAGGGTATGA
1 CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGC-ATGCTCGAAAGATATGA
*
47628071 CACTATGTGTGC
1 CACTAAGTGTGC
47628083 GGGCTTAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
58 59 0.98
59 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (58 bp):
CACTAAGTGTGCATGCTGGAAATATACGGCACTAAGTGTGCATGCTCGAAAGATATGA
Found at i:47632392 original size:16 final size:15
Alignment explanation
Indices: 47632365--47632398 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47632355 ATACATAGTA
*
47632365 TATAATTATATTTAT
1 TATAATTATATTAAT
47632380 TATAATATATATTAAT
1 TATAAT-TATATTAAT
47632396 TAT
1 TAT
47632399 TATCGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:47633867 original size:23 final size:26
Alignment explanation
Indices: 47633816--47633867 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
47633806 TTATTTATTA
*
47633816 AAACATACTTATGAAAGAAATAATTT
1 AAACATACTTATGAAAGAAAAAATTT
47633842 AAACATA-TT-TGAAA-AAAAAATTT
1 AAACATACTTATGAAAGAAAAAATTT
47633865 AAA
1 AAA
47633868 AGTTTGAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
24 5 0.20
25 2 0.08
26 7 0.28
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (26 bp):
AAACATACTTATGAAAGAAAAAATTT
Found at i:47640835 original size:27 final size:28
Alignment explanation
Indices: 47640786--47640854 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
47640776 ATAGTGAGTC
47640786 CGCACACTTA-TGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
47640812 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
47640840 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47640855 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 10 0.25
27 11 0.28
28 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:47641679 original size:41 final size:39
Alignment explanation
Indices: 47641607--47641818 Score: 201
Period size: 41 Copynumber: 5.2 Consensus size: 39
47641597 CGGATTACAA
* *
47641607 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
*
47641647 CCGGATATAACGACTTGCCACAAATGCCTTC-GGTATTAGC
1 CCGGATATAAC-ACTTG-CACAAATGCCTTCGGGTCTTAGC
* *
47641687 CCGGAGTTTAACAACTTGCACGAATGCCTTCGGGTCCTTTAGC
1 CCGGA-TATAAC-ACTTGCACAAATGCCTTCGGGT-C-TTAGC
* * * * *
47641730 CCGGATGTAGTCACTAGCACAATTGCCTTCGGCGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGG-GTCTTAGC
* * * *
47641771 CCGGATATAATTACTAGCACAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
47641811 CCGGATAT
1 CCGGATAT
47641819 CATTCAATTG
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
39 1 0.01
40 53 0.37
41 55 0.38
42 21 0.15
43 13 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47649782 original size:40 final size:39
Alignment explanation
Indices: 47649737--47649944 Score: 236
Period size: 40 Copynumber: 5.2 Consensus size: 39
47649727 CGGATTACAA
*
47649737 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47649777 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
47649817 CCGGATTTAACAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
47649857 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** ** *
47649897 CCGGATATAATTACTAGCACAAATATCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47649937 CCGGATAT
1 CCGGATAT
47649945 CATTCAATTG
Statistics
Matches: 146, Mismatches: 21, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
39 1 0.01
40 145 0.99
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47658891 original size:17 final size:17
Alignment explanation
Indices: 47658871--47658905 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47658861 TCACATGCGA
47658871 GGGGTCCGATCTATATC
1 GGGGTCCGATCTATATC
47658888 GGGGTCCGATCTATATC
1 GGGGTCCGATCTATATC
47658905 G
1 G
47658906 ACGTAACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (17 bp):
GGGGTCCGATCTATATC
Found at i:47670356 original size:35 final size:35
Alignment explanation
Indices: 47670292--47670471 Score: 164
Period size: 35 Copynumber: 5.1 Consensus size: 35
47670282 TACTTACTTG
* * *
47670292 TATGGCCGAATACT-CAAGGTTCATTATGTCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* * * *
47670328 TATGGCTAAATATACAAGTGCAATATGTCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * *
47670363 TATGACCGAATATACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * *
47670398 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
47670433 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
47670468 TATG
1 TATG
47670472 TATATACCTA
Statistics
Matches: 114, Mismatches: 29, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
35 101 0.89
36 13 0.11
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:47674422 original size:46 final size:46
Alignment explanation
Indices: 47674365--47674633 Score: 175
Period size: 46 Copynumber: 5.8 Consensus size: 46
47674355 GGGCTATTGT
*
47674365 GAGCTACTGTAAGA-CATGTCTGGGACAT-GCATCGACCATAGTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-CCATAG-ATGA
* * *
47674411 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGGGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCA-T-AGATGA
* * * *
47674459 GTGCTAGTGTAAGA-CATTTCTAGGACAT-GCATCGGCC-TCGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCATAGATGA
* *
47674502 CGTAAGTCT-GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGT
1 -G--AG-CTAGTGTAAGACCATGTCTGGGACATGGCATC-GCCAT-AGATGA
* * * *
47674551 G-TC-AGCGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGCTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GC-CATAGATG--A
*
47674599 GAGCCT-GTGTAAGACCATGTTTGGGACATGGCATC
1 GAG-CTAGTGTAAGACCATGTCTGGGACATGGCATC
47674634 AGTAGTTTAC
Statistics
Matches: 178, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 11 0.06
45 15 0.08
46 59 0.33
47 34 0.19
48 27 0.15
49 2 0.01
50 28 0.16
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCATAGATGA
Found at i:47674609 original size:94 final size:93
Alignment explanation
Indices: 47674373--47674633 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 93
47674363 GTGAGCTACT
* *
47674373 GTAAGACATGTCTGGGACATGCATCGACCATAGTATG-AGAGCTAGTGTAAGACCATGTCTGGGA
1 GTAAGACATGTCTGGGACATGCATCGGCCAGA-TATGTAGAGCT-GTGTAAGACCATGTCTGGGA
* *
47674437 CATGGCATCGGCATTGGGACGAGTGCTAGT
64 CATGGCATCGGCATTGAGACGAGTGCTAGC
* * * * *
47674467 GTAAGACATTTCTAGGACATGCATCGGCCTCGAGACGTA-AGTCTGTGTAAGA-CATGTCTGGGA
1 GTAAGACATGTCTGGGACATGCATCGGCC-AGATATGTAGAG-CTGTGTAAGACCATGTCTGGGA
* *
47674530 CAT-GCATCGGC-TATGAGATGTGT-C-AGC
64 CATGGCATCGGCAT-TGAGACGAGTGCTAGC
*
47674557 GTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGCTAGAGCCTGTGTAAGACCATGTTTG
1 GTAAGA-CATGTCTGGGACAT-GCATCGGC-CAGATATG-TAGAG-CTGTGTAAGACCATGTCTG
47674622 GGACATGGCATC
61 GGACATGGCATC
47674634 AGTAGTTTAC
Statistics
Matches: 138, Mismatches: 18, Indels: 20
0.78 0.10 0.11
Matches are distributed among these distances:
90 8 0.06
91 14 0.10
92 27 0.20
93 17 0.12
94 50 0.36
95 17 0.12
96 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (93 bp):
GTAAGACATGTCTGGGACATGCATCGGCCAGATATGTAGAGCTGTGTAAGACCATGTCTGGGACA
TGGCATCGGCATTGAGACGAGTGCTAGC
Found at i:47680907 original size:15 final size:15
Alignment explanation
Indices: 47680884--47680917 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47680874 TTAATAGATT
*
47680884 TAAAGTGCAATAAAC
1 TAAAATGCAATAAAC
*
47680899 TAAAATGCATTAAAC
1 TAAAATGCAATAAAC
47680914 TAAA
1 TAAA
47680918 GCTTAAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.24
Consensus pattern (15 bp):
TAAAATGCAATAAAC
Found at i:47682784 original size:29 final size:29
Alignment explanation
Indices: 47682690--47682762 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
47682680 GTGACGAGAT
47682690 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47682719 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47682748 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47682763 GAGCTCGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47682858 original size:2 final size:2
Alignment explanation
Indices: 47682853--47682883 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47682843 GTGTGCGTAC
47682853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47682884 CTCCGATCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:47685703 original size:23 final size:23
Alignment explanation
Indices: 47685673--47685718 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
47685663 GGTAAGAAGG
47685673 AACATTCAGATGTTTTTCTTTTC
1 AACATTCAGATGTTTTTCTTTTC
47685696 AACATTCAGATGTTTTTCTTTTC
1 AACATTCAGATGTTTTTCTTTTC
47685719 TTCCTTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (23 bp):
AACATTCAGATGTTTTTCTTTTC
Found at i:47686767 original size:23 final size:23
Alignment explanation
Indices: 47686732--47686951 Score: 131
Period size: 23 Copynumber: 9.6 Consensus size: 23
47686722 TTGTGAAGCT
*
47686732 TTTGTGGCATATTCTATAATGCC
1 TTTGTGGCGTATTCTATAATGCC
* * *
47686755 TTTGTAGCGTATTTTTTAATGCC
1 TTTGTGGCGTATTCTATAATGCC
* * * **
47686778 ATTATGGAGTATTCTGCAATGCC
1 TTTGTGGCGTATTCTATAATGCC
* * * *
47686801 TATGTGGCATATTTTGTAATG-C
1 TTTGTGGCGTATTCTATAATGCC
*
47686823 TTTGTGGCGTATTTTGA-AATGCC
1 TTTGTGGCGTATTCT-ATAATGCC
* * * * * *
47686846 TATGTGGCTTATTATGTAATTCT
1 TTTGTGGCGTATTCTATAATGCC
* * **
47686869 TTTGTGGCATATTTTGCAATG-C
1 TTTGTGGCGTATTCTATAATGCC
* *
47686891 TTATGTGGCTTATTCTATAATGCT
1 TT-TGTGGCGTATTCTATAATGCC
* *
47686915 TTTGTGGTGTATTCTACAATGCC
1 TTTGTGGCGTATTCTATAATGCC
* *
47686938 TATGTAGCGTATTC
1 TTTGTGGCGTATTC
47686952 AATGTTTGTC
Statistics
Matches: 147, Mismatches: 45, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
22 20 0.14
23 125 0.85
24 2 0.01
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (23 bp):
TTTGTGGCGTATTCTATAATGCC
Found at i:47686951 original size:46 final size:46
Alignment explanation
Indices: 47686729--47686951 Score: 198
Period size: 46 Copynumber: 4.9 Consensus size: 46
47686719 TACTTGTGAA
* * * * * *
47686729 GCTTTTGTGGCATATTCTATAATGCCTTTGTAGCGTATTTTTTAAT
1 GCTTTTGTGGCGTATTCTACAATGCCTATGTGGCGTATTCTGTAAT
** * * * * *
47686775 GCCATTATGGAGTATTCTGCAATGCCTATGTGGCATATTTTGTAAT
1 GCTTTTGTGGCGTATTCTACAATGCCTATGTGGCGTATTCTGTAAT
* * *
47686821 GC-TTTGTGGCGTATTTTGA-AATGCCTATGTGGCTTATTATGTAAT
1 GCTTTTGTGGCGTATTCT-ACAATGCCTATGTGGCGTATTCTGTAAT
* * * * * * *
47686866 TCTTTTGTGGCATATTTTGCAATGCTTATGTGGCTTATTCTATAAT
1 GCTTTTGTGGCGTATTCTACAATGCCTATGTGGCGTATTCTGTAAT
* *
47686912 GCTTTTGTGGTGTATTCTACAATGCCTATGTAGCGTATTC
1 GCTTTTGTGGCGTATTCTACAATGCCTATGTGGCGTATTC
47686952 AATGTTTGTC
Statistics
Matches: 142, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
45 36 0.25
46 106 0.75
ACGTcount: A:0.20, C:0.14, G:0.21, T:0.45
Consensus pattern (46 bp):
GCTTTTGTGGCGTATTCTACAATGCCTATGTGGCGTATTCTGTAAT
Found at i:47692947 original size:26 final size:26
Alignment explanation
Indices: 47692918--47692969 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47692908 AAATTAGGAG
47692918 ACTATGACCATAGAAATGGATCTATT
1 ACTATGACCATAGAAATGGATCTATT
47692944 ACTATGACCATAGAAATGGATCTATT
1 ACTATGACCATAGAAATGGATCTATT
47692970 TCTTTTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (26 bp):
ACTATGACCATAGAAATGGATCTATT
Found at i:47697284 original size:10 final size:10
Alignment explanation
Indices: 47697252--47697285 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
47697242 AATAAATTAT
47697252 ATATATTAAA
1 ATATATTAAA
*
47697262 AAATATTTAAA
1 ATATA-TTAAA
47697273 ATATATTAAA
1 ATATATTAAA
47697283 ATA
1 ATA
47697286 AAATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATATTAAA
Found at i:47698494 original size:24 final size:24
Alignment explanation
Indices: 47698456--47698501 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47698446 CTTTTTAAAT
47698456 TTAAAAAATAGAAAAATTAAATCC
1 TTAAAAAATAGAAAAATTAAATCC
* *
47698480 TTAAAAAGTATAAAAATTAAAT
1 TTAAAAAATAGAAAAATTAAAT
47698502 TCCACGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (24 bp):
TTAAAAAATAGAAAAATTAAATCC
Found at i:47698806 original size:25 final size:23
Alignment explanation
Indices: 47698777--47698841 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
47698767 AAATAAAAAC
*
47698777 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
47698802 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
47698823 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
47698842 AATAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:47698840 original size:19 final size:20
Alignment explanation
Indices: 47698803--47698841 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
47698793 TCAAATACAT
47698803 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
47698823 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
47698842 AATAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:47702861 original size:40 final size:40
Alignment explanation
Indices: 47702812--47703019 Score: 215
Period size: 40 Copynumber: 5.2 Consensus size: 40
47702802 TCTTCGGAAT
* * *
47702812 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
47702851 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
47702891 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
47702931 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
* * * * *
47702971 TTAGCCCGGATATAATC-ATTAACATAAATGCCTTTGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
47703011 TTAGCCCGG
1 TTAGCCCGG
47703020 GTATCATTCA
Statistics
Matches: 144, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:47704952 original size:24 final size:24
Alignment explanation
Indices: 47704901--47704961 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
47704891 TCAAGCCGGC
* * * *
47704901 ACACATAGTGCCATTCGACTTCGC
1 ACACATAGTGCCATTCAAATCCGA
47704925 ACACATAGTGCCATTCAAATCCGA
1 ACACATAGTGCCATTCAAATCCGA
*
47704949 ACACTTAGTGCCA
1 ACACATAGTGCCA
47704962 ATATCGACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (24 bp):
ACACATAGTGCCATTCAAATCCGA
Found at i:47712663 original size:24 final size:24
Alignment explanation
Indices: 47712636--47712708 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
47712626 ATTCAAGCCG
*
47712636 GCACACATAGTGCCATTCGACTTC
1 GCACACATAGTGCCATTCGACTCC
* *
47712660 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCGACTCC
*
47712684 GCACACTTAGTGCCAATATCGACTC
1 GCACACATAGTGCC-AT-TCGACTC
47712709 ATATGATAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 34 0.83
25 2 0.05
26 5 0.12
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.23
Consensus pattern (24 bp):
GCACACATAGTGCCATTCGACTCC
Found at i:47714347 original size:31 final size:31
Alignment explanation
Indices: 47714306--47714369 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
47714296 CCTTTTCATA
*
47714306 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
47714337 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
47714368 TT
1 TT
47714370 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:47714610 original size:24 final size:24
Alignment explanation
Indices: 47714580--47714751 Score: 260
Period size: 24 Copynumber: 7.3 Consensus size: 24
47714570 GAGGCCTAGC
*
47714580 CCCTTTTAATAACTGGGGCAAAAG
1 CCCTTTTAATAACTGGGGCATAAG
47714604 CCCTTTTAATAACTGGGGCATAAG
1 CCCTTTTAATAACTGGGGCATAAG
*
47714628 CCC-TTTAATAACTGGGGCGTAAG
1 CCCTTTTAATAACTGGGGCATAAG
** *
47714651 CTTTTTTGATAACTGGGGCATAAG
1 CCCTTTTAATAACTGGGGCATAAG
*
47714675 CCCTTTTGATAACTGGGGCATAAG
1 CCCTTTTAATAACTGGGGCATAAG
*
47714699 CCCTTTTGATAACTGGGGCATAAG
1 CCCTTTTAATAACTGGGGCATAAG
47714723 CCC-TTTAATAACT-GGGCATAAG
1 CCCTTTTAATAACTGGGGCATAAG
47714745 CCCTTTT
1 CCCTTTT
47714752 GCACTTCCTC
Statistics
Matches: 137, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
22 12 0.09
23 32 0.23
24 93 0.68
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CCCTTTTAATAACTGGGGCATAAG
Found at i:47714663 original size:47 final size:47
Alignment explanation
Indices: 47714584--47714752 Score: 268
Period size: 47 Copynumber: 3.6 Consensus size: 47
47714574 CCTAGCCCCT
* *
47714584 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
* **
47714631 TTTAATAACTGGGGCGTAAGCTTTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
47714678 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
47714726 TTTAATAACT-GGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
47714753 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
46 17 0.15
47 51 0.46
48 43 0.39
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:47714668 original size:71 final size:71
Alignment explanation
Indices: 47714581--47714751 Score: 256
Period size: 71 Copynumber: 2.4 Consensus size: 71
47714571 AGGCCTAGCC
*
47714581 CCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGG
1 CCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
*
47714645 CGTAAG
66 CATAAG
* * * *
47714651 CTTTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGG
1 C-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGG
47714716 GCATAAG
65 GCATAAG
*
47714723 CCCTTTAATAACT-GGGCATAAGCCCTTTT
1 CCTTTTAATAACTGGGGCATAAGCCCTTTT
47714752 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 17 0.19
71 54 0.60
72 19 0.21
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (71 bp):
CCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGG
CATAAG
Found at i:47714825 original size:20 final size:20
Alignment explanation
Indices: 47714797--47714847 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
47714787 GCATTTATAA
*
47714797 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
47714817 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
47714837 ACATATCATGT
1 ACATATCATGT
47714848 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:47716173 original size:27 final size:27
Alignment explanation
Indices: 47716094--47716180 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
47716084 TATTCGTCAT
* *
47716094 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
47716121 TTTACCCTACAGGGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
* *
47716148 TTTACCCTATAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
47716175 TTTACC
1 TTTACC
47716181 TAATAGGGGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:47716264 original size:27 final size:27
Alignment explanation
Indices: 47716231--47716570 Score: 193
Period size: 27 Copynumber: 12.6 Consensus size: 27
47716221 TTGGTAAATC
*
47716231 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * *
47716258 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTTC-AGTAA-TTT
* * *
47716286 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-TCAAGGGTATTTCAGTAATTT
*** * **
47716314 TGTTAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* **
47716341 TACATATTGAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * * **
47716368 CACAAA-CCAGTGGCATTTTGGTAATTT
1 TACAAATCAAG-GGTATTTCAGTAATTT
* **
47716395 TACAAA-CTAGGGGTATTTTGGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
** *
47716422 TACAAATTGAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
47716449 TACAAACCAAGGGTATTTTAGCAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * *
47716476 TACAGA-CTAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** * ***
47716502 TGTAAATCGAGGGTAAAACAGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** ** *
47716529 TGTAAATCAAGGGTATAACTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
*
47716556 TATAAATCAAGGGTA
1 TACAAATCAAGGGTA
47716571 AAATGGTAAT
Statistics
Matches: 243, Mismatches: 62, Indels: 16
0.76 0.19 0.05
Matches are distributed among these distances:
26 23 0.09
27 192 0.79
28 14 0.06
29 14 0.06
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:47716424 original size:81 final size:81
Alignment explanation
Indices: 47716322--47716516 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
47716312 TTTGTTAATC
*
47716322 AGGGGTATTTTGGTAATTTTACATATTGAGGGTATTTCAGTAATTTCACAAACC-AGTGGCATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAG-GGCATTT
* *
47716386 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* * *
47716403 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGCATTTT
*
47716468 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* ** *
47716484 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
47716517 AAACAGTAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 28 0.27
81 72 0.71
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAAGGGCATTTT
AGCAATTTTACAAACT
Found at i:47716529 original size:80 final size:81
Alignment explanation
Indices: 47716322--47716544 Score: 225
Period size: 81 Copynumber: 2.8 Consensus size: 81
47716312 TTTGTTAATC
* * * *** * *
47716322 AGGGGTATTTTGGTAATTTTACATATTGAGGGTATTTCAGTAATTTCACAAACC-AGTGGCATTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTTTACAAACCAAG-GGTATTT
* *
47716386 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* * *** *
47716403 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTTTACAAACCAAGGGTATTTT
*
47716468 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** ** *
47716484 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTAT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAT
47716545 AACTGTAATT
Statistics
Matches: 123, Mismatches: 18, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
80 49 0.40
81 72 0.59
82 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTTTACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:47716596 original size:81 final size:81
Alignment explanation
Indices: 47716495--47716678 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 81
47716485 GGGTATTTTA
* * * * *
47716495 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTATAACTGTAATTTTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
*
47716560 AATCAAGGGTAAAATG
66 AATCAAGGGTAAAACG
* * *
47716576 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
*
47716641 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACG
* *
47716657 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
47716679 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTATATA
AATCAAGGGTAAAACG
Found at i:47716672 original size:27 final size:27
Alignment explanation
Indices: 47716495--47716678 Score: 233
Period size: 27 Copynumber: 6.8 Consensus size: 27
47716485 GGGTATTTTA
* *
47716495 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
47716522 GTAATTTTGTAAATCAAGGGTATAACT
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
47716549 GTAATTTTATAAATCAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
47716576 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47716603 GTAATTCTGTAAGTCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
47716630 GTAATTATGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
47716657 ATAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
47716679 CTTTGGTAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:47720049 original size:12 final size:12
Alignment explanation
Indices: 47720032--47720058 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47720022 CCACACACGC
47720032 GCCGTGTGCTAG
1 GCCGTGTGCTAG
47720044 GCCGTGTGCTAG
1 GCCGTGTGCTAG
47720056 GCC
1 GCC
47720059 ATGCCAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.30, G:0.41, T:0.22
Consensus pattern (12 bp):
GCCGTGTGCTAG
Done.