Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 63 of 284
Found at i:22018330 original size:25 final size:24
Alignment explanation
Indices: 22018274--22018324 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
22018264 ATTAATAACT
22018274 AGTTAAGTT-AATTAAATTATGATTA
1 AGTTAA-TTAAATTAAATTA-GATTA
22018299 AGTTAATTAAATTAAATTA-ATTA
1 AGTTAATTAAATTAAATTAGATTA
22018322 AGT
1 AGT
22018325 CTTAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 16 0.64
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (24 bp):
AGTTAATTAAATTAAATTAGATTA
Found at i:22022696 original size:43 final size:43
Alignment explanation
Indices: 22022625--22022863 Score: 230
Period size: 43 Copynumber: 5.6 Consensus size: 43
22022615 AATATTTTGC
*
22022625 ACGCCGCTATAGAACATGACCTTTAGCGGCACTTTTACAACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAA
* * * * *
22022668 ACGCTGCTAAAGAACATGGCATTTAGCGGCACTTTTTCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAA
* * * * *
22022711 ACGCCGTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAA-AA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTT-ACAACAA
* * * * *
22022754 ACACCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCACGA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAA
* * ** * *
22022797 ACACCGCTATAGAACA-GACCTTTAGCGGTGCTTTTCCCACAA
1 ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAA
* * *
22022839 ATGCCGATAAAGAATATGACCTTTA
1 ACGCCGCTAAAGAACATGACCTTTA
22022864 AAAAATATTT
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
42 38 0.23
43 124 0.76
44 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTACAACAA
Found at i:22022850 original size:85 final size:86
Alignment explanation
Indices: 22022628--22022863 Score: 285
Period size: 86 Copynumber: 2.8 Consensus size: 86
22022618 ATTTTGCACG
* * * * * *
22022628 CCGCTATAGAACATGACCTTTAGCGGCACTTTTACAACAAACGCTGCTAAAGAACATGGCATTTA
1 CCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
* *
22022693 GCGGCACTTTTTCCACAAACG
66 GCGGCACTTTTCCCACAAACA
* * * * * *
22022714 CCGTTAAAGAAAATGACCTTTAGTGGCGCTTTTCCCAAAAACACCGCTAAAGAACATGACCTTTA
1 CCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
* *
22022779 GCGGCGCTTTTCCCACGAACA
66 GCGGCACTTTTCCCACAAACA
* * * *
22022800 CCGCTATAGAACA-GACCTTTAGCGGTGCTTTTCCCACAAATGCCGATAAAGAATATGACCTTTA
1 CCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
22022864 AAAAATATTT
Statistics
Matches: 124, Mismatches: 26, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
85 44 0.35
86 80 0.65
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (86 bp):
CCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACATGACCTTTA
GCGGCACTTTTCCCACAAACA
Found at i:22023158 original size:19 final size:18
Alignment explanation
Indices: 22023136--22023174 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
22023126 ATTTAGAATC
22023136 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
* *
22023155 AAAATTAAATTAAATATA
1 AAAACTAAAATAAATATA
22023173 AA
1 AA
22023175 GATATCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:22024735 original size:48 final size:48
Alignment explanation
Indices: 22024634--22025044 Score: 318
Period size: 46 Copynumber: 8.7 Consensus size: 48
22024624 TCATTTGTGC
*
22024634 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAG-CATCGA-GATGAGA
* * * *
22024680 GCCAGTGTAAGACCATGTTTGGGACATGGCATCTGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGA
* *
22024728 GCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATG-AGA
* * * *
22024774 GCCAGTGTAAGA-CATGTCTGGGATAT-GCATCGAGTA-CGAGATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCATCGAGATGAGA
* * * *
22024819 TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CG-CATAGAGGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGAT-GA-GA
* * * *
22024866 GTTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGA--TGAGA
* ** * ** *
22024916 GCTAATGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATTTCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGAT-GAGA
* **
22024965 G-TCAGTGTACGACCATGTCTGGGACATGGCATC-G-A-CTTGATGGATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGAT-GA-GA
*
22025012 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
22025045 GGTATTACAC
Statistics
Matches: 293, Mismatches: 51, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.04
45 19 0.06
46 71 0.24
47 61 0.21
48 58 0.20
49 33 0.11
50 37 0.13
51 2 0.01
52 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATCGAGATGAGA
Found at i:22024933 original size:50 final size:48
Alignment explanation
Indices: 22024634--22024947 Score: 174
Period size: 48 Copynumber: 6.7 Consensus size: 48
22024624 TCATTTGTGC
* *
22024634 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATTATGA-GA
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACGCA-TA-GAGGA
* * * * * *
22024680 GCCAGTGTAAGACCATGTTTGGGACATGGCATCTGCATTG-AGATGA-GA
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCAGCA-CGCATA-GAGGA
* * * * *
22024728 GCTAGTGTAAGA-CGTGTCTGGGACAT-GCATCAGC-CTC-GAGATGTAA
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACGCATAGA-G-GA
* * * * * *
22024774 GCCAGTGTAAGA-CATGTCTGGGATAT-GCATCGAGTACG---AGATGT
1 GCTAATGTAAGACCATGTCTGGGACATGGCATC-AGCACGCATAGAGGA
* * *
22024818 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGCATAGAGGT
1 GCT-AATGTAAGACCATGTCTGGGACATGGCATCAGCACGCATAGAGGA
* * * * * *
22024866 GTTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATGGATATGTGAGA
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACGCATA-GAG-GA
22024916 GCTAATGTAAGACCATGTCTGGGACATGGCAT
1 GCTAATGTAAGACCATGTCTGGGACATGGCAT
22024948 TGGCCTCGAT
Statistics
Matches: 214, Mismatches: 35, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 17 0.08
46 55 0.26
47 27 0.13
48 67 0.31
49 4 0.02
50 30 0.14
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
GCTAATGTAAGACCATGTCTGGGACATGGCATCAGCACGCATAGAGGA
Found at i:22024935 original size:98 final size:96
Alignment explanation
Indices: 22024639--22025046 Score: 271
Period size: 94 Copynumber: 4.3 Consensus size: 96
22024629 TGTGCGCTAG
* * * *
22024639 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAG--AGCCAGTGTAAGACCATGTT
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCGCGA-TA-GAGATAGTCAGTGTAAGACCATGTC
* * * *
22024699 TGGGACATGGCATCTGCATTGAGAT-GA-GAGCTAG
64 TAGGACATGGCATC-G-ACTG-GATGGATGAGCCAA
* * * *
22024733 TGTAAGA-CGTGTCTGGGACAT-GCATCAGCCTCG--AGATG-TAAGCCAGTGTAAGA-CATGTC
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCGCGATAGA-GAT-AGTCAGTGTAAGACCATGTC
* * * * * * *
22024792 TGGGATAT-GCATCGA--GTACGAGATGTGTCAG
64 TAGGACATGGCATCGACTGGATG-GATGAGCCAA
* *
22024823 TGTAAGACCATGTCTGGGACATGGCATCGGCACGC-ATAGAGGT-GTTAGTGTAAGACCATGTCT
1 TGTAAGACCATGTCTGGGACATGGCATCGGC-CGCGATAGAGATAGTCAGTGTAAGACCATGTCT
*
22024886 AGGACATGGCATC-AGCATGGATATGTGA-GAGCTAA
65 AGGACATGGCATCGA-C-TGG--ATG-GATGAGCCAA
* * *** * *
22024921 TGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATTTCGATAGTCAGTGTACGACCATGTCTG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCGCGATAGAGATAGTCAGTGTAAGACCATGTCTA
* *
22024986 GGACATGGCATCGACTTGATGGATGAGCCAG
66 GGACATGGCATCGACTGGATGGATGAGCCAA
22025017 TGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
22025047 TATTACACCC
Statistics
Matches: 253, Mismatches: 36, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
87 1 0.00
88 1 0.00
89 2 0.01
90 12 0.05
91 16 0.06
92 24 0.09
93 28 0.11
94 52 0.21
95 2 0.01
96 37 0.15
97 3 0.01
98 39 0.15
99 35 0.14
100 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCGCGATAGAGATAGTCAGTGTAAGACCATGTCTA
GGACATGGCATCGACTGGATGGATGAGCCAA
Found at i:22024985 original size:49 final size:48
Alignment explanation
Indices: 22024678--22025043 Score: 212
Period size: 48 Copynumber: 7.7 Consensus size: 48
22024668 CACATTATGA
* * *
22024678 GAGCCAGTGTAAGACCATGTTTGGGACATGGCA-TCTGCATTGAGAT-GA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTC-G-ACT-CGATCGAT
* * *
22024726 GAGCTAGTGTAAGA-CGTGTCTGGGACAT-GCA-TCAGCCTCGA--GAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTC-GACTCGATCGAT
* *
22024770 GTAAGCCAGTGTAAGA-CATGTCTGGGATAT-GCA-TCGAGTACGA--GAT
1 G--AGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGACT-CGATCGAT
* * * * * *
22024816 GTGTCAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCACGCATAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGACTCG-ATCGAT
* ** * * *
22024864 GTGTTAGTGTAAGACCATGTCTAGGACATGGCA-TC-AGCATGGATATG-T
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGA-C-TCGAT-CGAT
* * * *
22024912 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATTTCGAT
1 --GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGA--TCGAT
* * * *
22024964 -AGTCAGTGTACGACCATGTCTGGGACATGGCA-TCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGATCGAT
22025010 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
22025044 CGGTATTACA
Statistics
Matches: 253, Mismatches: 44, Indels: 42
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 14 0.06
45 18 0.07
46 53 0.21
47 42 0.17
48 57 0.23
49 30 0.12
50 32 0.13
51 3 0.01
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGATCGAT
Found at i:22028876 original size:47 final size:47
Alignment explanation
Indices: 22028819--22029083 Score: 334
Period size: 47 Copynumber: 5.7 Consensus size: 47
22028809 AGATGGTTGA
22028819 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
22028866 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
22028914 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
22028959 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
22029007 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
22029052 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
22029084 ACTTATGGAT
Statistics
Matches: 188, Mismatches: 12, Indels: 36
0.80 0.05 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 58 0.31
47 90 0.48
48 6 0.03
50 10 0.05
51 4 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22028936 original size:46 final size:46
Alignment explanation
Indices: 22028869--22029137 Score: 293
Period size: 46 Copynumber: 5.8 Consensus size: 46
22028859 TAACTAGGCA
22028869 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22028915 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
22028960 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22029008 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
22029053 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22029101 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22029138 GCGGGTTACA
Statistics
Matches: 188, Mismatches: 17, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 10 0.05
45 6 0.03
46 92 0.49
47 58 0.31
48 6 0.03
50 9 0.05
51 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22028981 original size:93 final size:93
Alignment explanation
Indices: 22028822--22029130 Score: 582
Period size: 93 Copynumber: 3.3 Consensus size: 93
22028812 TGGTTGAGCA
22028822 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
22028887 AGTCCGAGTTCACTTATGGATGCGAATG
66 AGTCCGAGTTCACTTATGGATGCGAATG
22028915 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
22028980 AGTCCGAGTTCACTTATGGATGCGAATG
66 AGTCCGAGTTCACTTATGGATGCGAATG
22029008 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
* *
22029073 AGTCCGAGTTCACTTATGGATGCGGACG
66 AGTCCGAGTTCACTTATGGATGCGAATG
* *
22029101 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCG
22029131 CTTATGGGCG
Statistics
Matches: 212, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 212 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22031253 original size:15 final size:15
Alignment explanation
Indices: 22031214--22031284 Score: 74
Period size: 15 Copynumber: 4.7 Consensus size: 15
22031204 GTATCTTGGG
*
22031214 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
22031229 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
22031244 TTTCTTTATT-TCGGG
1 TTTCTTTATTCT-GGA
*
22031259 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
22031274 TTTCTTTATTC
1 TTTCTTTATTC
22031285 GATTTTCTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
14 2 0.04
15 40 0.89
16 3 0.07
ACGTcount: A:0.11, C:0.18, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22033278 original size:46 final size:46
Alignment explanation
Indices: 22033228--22033403 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
22033218 TGGTTGAGCA
22033228 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22033274 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
22033319 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
22033367 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22033404 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:22033384 original size:93 final size:93
Alignment explanation
Indices: 22033225--22033396 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
22033215 GGATGGTTGA
* *
22033225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22033290 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
22033318 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22033383 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
22033397 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:22037444 original size:19 final size:19
Alignment explanation
Indices: 22037420--22037459 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
22037410 GAACATACTT
22037420 TTGAAATGTTGAATTTTGG
1 TTGAAATGTTGAATTTTGG
22037439 TTGAAATGTTGAATTTTGG
1 TTGAAATGTTGAATTTTGG
22037458 TT
1 TT
22037460 ATGTATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (19 bp):
TTGAAATGTTGAATTTTGG
Found at i:22051449 original size:19 final size:19
Alignment explanation
Indices: 22051414--22051511 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
22051404 AAATTACAAG
22051414 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
22051435 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
22051454 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
22051471 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
22051490 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
22051509 ATC
1 ATC
22051512 CTTAAAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:22051478 original size:36 final size:37
Alignment explanation
Indices: 22051414--22051511 Score: 153
Period size: 36 Copynumber: 2.6 Consensus size: 37
22051404 AAATTACAAG
22051414 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
22051454 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
22051490 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
22051512 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.64
38 11 0.20
39 1 0.02
40 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:22052954 original size:26 final size:26
Alignment explanation
Indices: 22052918--22052972 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
22052908 TTATACATGA
22052918 CATATCATCATATATGACCAAGTATC
1 CATATCATCATATATGACCAAGTATC
22052944 CATATCATCATATATGACCAAGTATC
1 CATATCATCATATATGACCAAGTATC
22052970 CAT
1 CAT
22052973 GCTTAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (26 bp):
CATATCATCATATATGACCAAGTATC
Found at i:22053724 original size:17 final size:19
Alignment explanation
Indices: 22053702--22053740 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22053692 TGTACAAAAC
*
22053702 TATAAT-TC-GTCAATTTA
1 TATAATATCTGTCAATTCA
22053719 TATAATATCTGTCAATTCA
1 TATAATATCTGTCAATTCA
22053738 TAT
1 TAT
22053741 TCCAGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (19 bp):
TATAATATCTGTCAATTCA
Found at i:22053857 original size:24 final size:24
Alignment explanation
Indices: 22053783--22053859 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
22053773 AGCTCTTTCA
* *
22053783 AGCCATAAT-AGGAAGCTTATGTG
1 AGCCATAATCGGGAAGCTCATGTG
* **
22053806 AGTCATGTAA-CGGGAAGCTCATAAG
1 AGCCA--TAATCGGGAAGCTCATGTG
22053831 AGCCATAATCGGGAAGCTCATGTG
1 AGCCATAATCGGGAAGCTCATGTG
22053855 AGCCA
1 AGCCA
22053860 ATATCGTGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
23 7 0.17
24 18 0.43
25 17 0.40
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (24 bp):
AGCCATAATCGGGAAGCTCATGTG
Found at i:22054032 original size:25 final size:26
Alignment explanation
Indices: 22053919--22054058 Score: 64
Period size: 25 Copynumber: 5.6 Consensus size: 26
22053909 CTTTTATCGT
* *
22053919 GAAGCTCTTGAGAGC-C-AATTATCAG
1 GAAGCTCATGAGAGCTCAAATAAT-AG
* *
22053944 GAAGCTCAT-ACGAGCT-ATA-AATCAA
1 GAAGCTCATGA-GAGCTCAAATAAT-AG
* *
22053969 GAAGCTCAAGAGAG-TCATATAATAG
1 GAAGCTCATGAGAGCTCAAATAATAG
* * * *
22053994 GATGCTTATAAGAGCT-AAATAATGG
1 GAAGCTCATGAGAGCTCAAATAATAG
*
22054019 GAAGCTCATGAGAGC-CAAGT-ATCAG
1 GAAGCTCATGAGAGCTCAAATAAT-AG
* *
22054044 GACGCTCATAAGAGC
1 GAAGCTCATGAGAGC
22054059 AGTGGTGTGT
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
24 4 0.05
25 77 0.89
26 6 0.07
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (26 bp):
GAAGCTCATGAGAGCTCAAATAATAG
Found at i:22054055 original size:50 final size:49
Alignment explanation
Indices: 22053919--22054058 Score: 131
Period size: 50 Copynumber: 2.8 Consensus size: 49
22053909 CTTTTATCGT
* * *
22053919 GAAGCTCTTGAGAGCCAATTATCAGGAAGCTCATACGAGCTATAAATCAA
1 GAAGCTCATGAGAGCCAA-TATCAGGAAGCTCATAAGAGCTAAAAATCAA
* * * * **
22053969 GAAGCTCAAGAGAGTCATATAAT-AGGATGCTTATAAGAGCTAAATAAT-GG
1 GAAGCTCATGAGAGCCA-AT-ATCAGGAAGCTCATAAGAGCTAAA-AATCAA
*
22054019 GAAGCTCATGAGAGCCAAGTATCAGGACGCTCATAAGAGC
1 GAAGCTCATGAGAGCCAA-TATCAGGAAGCTCATAAGAGC
22054059 AGTGGTGTGT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
49 3 0.04
50 63 0.88
51 6 0.08
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (49 bp):
GAAGCTCATGAGAGCCAATATCAGGAAGCTCATAAGAGCTAAAAATCAA
Found at i:22055120 original size:15 final size:15
Alignment explanation
Indices: 22055100--22055129 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22055090 CATTTTATTT
*
22055100 ATATTAGGATAATTA
1 ATATTAAGATAATTA
22055115 ATATTAAGATAATTA
1 ATATTAAGATAATTA
22055130 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:22055157 original size:27 final size:26
Alignment explanation
Indices: 22055096--22055158 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
22055086 ACTCCATTTT
22055096 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
22055123 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
22055151 ATTTTATT
1 ATTTTATT
22055159 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:22055173 original size:10 final size:10
Alignment explanation
Indices: 22055154--22055185 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
22055144 TTTTAGGATT
22055154 TTAT-TTTAA
1 TTATCTTTAA
22055163 TTATCTTTAA
1 TTATCTTTAA
22055173 TTATCTTTAA
1 TTATCTTTAA
22055183 TTA
1 TTA
22055186 AATGTGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:22056501 original size:44 final size:44
Alignment explanation
Indices: 22056448--22056550 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
22056438 TGTCTTTGAC
* * *
22056448 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATG-ATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
22056492 ATGGACTTACATTGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACA-TGATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
22056538 ATAGACTTACATG
1 ATGGACTTACATG
22056551 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 31 0.62
45 4 0.08
46 15 0.30
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (44 bp):
ATGGACTTACATGATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:22056555 original size:46 final size:44
Alignment explanation
Indices: 22056467--22056555 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
22056457 CATGAATTAT
* * *
22056467 TCCTGTCTCCAATGCCATATATAATATGGACTTACATTGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATAGACTTACATGGCTCAA
*
22056511 TCCTGTCTCCAAAGCCATATTTCTAATATAGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATAGACTTACATGGCTCA
22056556 TTTCTGTTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
46 21 0.54
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATAGACTTACATGGCTCAA
Found at i:22063939 original size:46 final size:44
Alignment explanation
Indices: 22063835--22063942 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
22063825 TGTCTTTGAC
** * * *
22063835 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
22063879 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
22063925 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
22063943 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:22101616 original size:16 final size:17
Alignment explanation
Indices: 22101575--22101616 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
22101565 AGATTAATGT
22101575 AAATAAACATATAATTC
1 AAATAAACATATAATTC
*
22101592 TAGAATAAACATATAGTTC
1 -A-AATAAACATATAATTC
22101611 -AATAAA
1 AAATAAA
22101617 TTACAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (17 bp):
AAATAAACATATAATTC
Found at i:22106194 original size:41 final size:42
Alignment explanation
Indices: 22106131--22106315 Score: 191
Period size: 42 Copynumber: 4.5 Consensus size: 42
22106121 TAAAATTTGT
* * *
22106131 TAGGC-ATAAAGCCT-AGTATAATACATCGGCA-CAGAGCCTGC
1 TAGGCAATAAA-CCTGA-TATAATACACCGGCATCAAAGCCTAC
*
22106172 TAGGCAATAAACCTGAGT-TAATACACCGGCAT-AAAGCCTGC
1 TAGGCAATAAACCTGA-TATAATACACCGGCATCAAAGCCTAC
* * * *
22106213 TAGGTATTAAGCCTGATATCATACACCGGCATCAAAGCCTAC
1 TAGGCAATAAACCTGATATAATACACCGGCATCAAAGCCTAC
* *
22106255 TAGGCAATAAGCCTGATATCATACACCGGCATCAAAGCCTAC
1 TAGGCAATAAACCTGATATAATACACCGGCATCAAAGCCTAC
* * *
22106297 TAGGTAATAAGCTTGATAT
1 TAGGCAATAAACCTGATAT
22106316 TATATCACTG
Statistics
Matches: 128, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 54 0.42
42 73 0.57
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (42 bp):
TAGGCAATAAACCTGATATAATACACCGGCATCAAAGCCTAC
Found at i:22106279 original size:83 final size:83
Alignment explanation
Indices: 22106151--22106315 Score: 226
Period size: 83 Copynumber: 2.0 Consensus size: 83
22106141 GCCTAGTATA
* * * *
22106151 ATACATCGGCACAGAGCCTGCTAGGCAATAAACCTGAGTTAATACACCGGCAT-AAAGCCTGCTA
1 ATACACCGGCACAAAGCCTACTAGGCAATAAACCTGAGTTAATACACCGGCATCAAAGCCTACTA
*
22106215 GGTATTAAGCCTGATATC
66 GGTAATAAGCCTGATATC
* *
22106233 ATACACCGGCATCAAAGCCTACTAGGCAATAAGCCTGA-TATCATACACCGGCATCAAAGCCTAC
1 ATACACCGGCA-CAAAGCCTACTAGGCAATAAACCTGAGT-TAATACACCGGCATCAAAGCCTAC
*
22106297 TAGGTAATAAGCTTGATAT
64 TAGGTAATAAGCCTGATAT
22106316 TATATCACTG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
82 11 0.15
83 36 0.50
84 25 0.35
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (83 bp):
ATACACCGGCACAAAGCCTACTAGGCAATAAACCTGAGTTAATACACCGGCATCAAAGCCTACTA
GGTAATAAGCCTGATATC
Found at i:22106333 original size:42 final size:42
Alignment explanation
Indices: 22106151--22106315 Score: 210
Period size: 42 Copynumber: 4.0 Consensus size: 42
22106141 GCCTAGTATA
* * * * * *
22106151 ATACATCGGCA-CAGAGCCTGCTAGGCAATAAACCTGAGT-TA
1 ATACACCGGCATCAAAGCCTACTAGGTAATAAGCCTGA-TATC
* *
22106192 ATACACCGGCAT-AAAGCCTGCTAGGTATTAAGCCTGATATC
1 ATACACCGGCATCAAAGCCTACTAGGTAATAAGCCTGATATC
*
22106233 ATACACCGGCATCAAAGCCTACTAGGCAATAAGCCTGATATC
1 ATACACCGGCATCAAAGCCTACTAGGTAATAAGCCTGATATC
*
22106275 ATACACCGGCATCAAAGCCTACTAGGTAATAAGCTTGATAT
1 ATACACCGGCATCAAAGCCTACTAGGTAATAAGCCTGATAT
22106316 TATATCACTG
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 1 0.01
41 44 0.40
42 65 0.59
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
ATACACCGGCATCAAAGCCTACTAGGTAATAAGCCTGATATC
Found at i:22113196 original size:26 final size:24
Alignment explanation
Indices: 22113169--22113215 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22113159 CTTGAGCCAA
*
22113169 AAAAAAGTAAGCTCTATTGAGCTG
1 AAAAAAGTAAGCTCTATTGAGCTC
**
22113193 AAAACGGTAAGCTCTATTGAGCT
1 AAAAAAGTAAGCTCTATTGAGCT
22113216 AAATAGTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAAAGTAAGCTCTATTGAGCTC
Found at i:22120831 original size:24 final size:24
Alignment explanation
Indices: 22120795--22120852 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
22120785 CTGAGCCAAT
*
22120795 AAACAGTATGCTCTATTGAGTTGA
1 AAACAGTAAGCTCTATTGAGTTGA
*
22120819 AAACGGTAAGCTCTATTGAGTTG-
1 AAACAGTAAGCTCTATTGAGTTGA
22120842 -AACAGTAAGCT
1 AAACAGTAAGCT
22120853 TTTTTGAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 10 0.32
24 21 0.68
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (24 bp):
AAACAGTAAGCTCTATTGAGTTGA
Found at i:22120852 original size:22 final size:22
Alignment explanation
Indices: 22120796--22120875 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
22120786 TGAGCCAATA
*
22120796 AACAGTATGCTCTATTGAGTTG
1 AACAGTAAGCTCTATTGAGTTG
*
22120818 AAAACGGTAAGCTCTATTGAGTTG
1 --AACAGTAAGCTCTATTGAGTTG
* * *
22120842 AACAGTAAGCTTTTTTGAGCTG
1 AACAGTAAGCTCTATTGAGTTG
*
22120864 AATCTGTAAGCT
1 AA-CAGTAAGCT
22120876 GCAATGAGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 20 0.42
23 8 0.17
24 20 0.42
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.34
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGTTG
Found at i:22120895 original size:23 final size:23
Alignment explanation
Indices: 22120869--22120932 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 23
22120859 AGCTGAATCT
*
22120869 GTAAGCTGCAATGAGCTGAAATA
1 GTAAGCTGCAACGAGCTGAAATA
*** *
22120892 GTAAGCTTTTACGAGCTGAATTA
1 GTAAGCTGCAACGAGCTGAAATA
22120915 GTAAGCT-CATACGAGCTG
1 GTAAGCTGCA-ACGAGCTG
22120933 TGGTGAGTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (23 bp):
GTAAGCTGCAACGAGCTGAAATA
Found at i:22120931 original size:46 final size:46
Alignment explanation
Indices: 22120845--22120932 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
22120835 TGAGTTGAAC
** *
22120845 AGTAAGCTTTTTTGAGCTGAATCTGTAAGCTGCAATGAGCTGAAAT
1 AGTAAGCTTTTACGAGCTGAATCTGTAAGCTGCAACGAGCTGAAAT
22120891 AGTAAGCTTTTACGAGCTGAAT-TAGTAAGCT-CATACGAGCTG
1 AGTAAGCTTTTACGAGCTGAATCT-GTAAGCTGCA-ACGAGCTG
22120933 TGGTGAGTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 3 0.08
46 34 0.92
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (46 bp):
AGTAAGCTTTTACGAGCTGAATCTGTAAGCTGCAACGAGCTGAAAT
Found at i:22124551 original size:35 final size:36
Alignment explanation
Indices: 22124498--22124724 Score: 336
Period size: 35 Copynumber: 6.3 Consensus size: 36
22124488 AATCATATCT
*
22124498 TCTAAGATTGCATATCATATTTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
*
22124535 TCGAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
22124571 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
22124606 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGCAATCATA
22124643 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCA-ATCATA
* *
22124679 TCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
22124714 TCTAAGATTGC
1 TCTAAGATTGC
22124725 ATATTGAAGA
Statistics
Matches: 175, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
35 71 0.41
36 47 0.27
37 57 0.33
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGCAATCATA
Found at i:22124560 original size:54 final size:54
Alignment explanation
Indices: 22124498--22124728 Score: 444
Period size: 54 Copynumber: 4.3 Consensus size: 54
22124488 AATCATATCT
* *
22124498 TCTAAGATTGCATATCATATTTAAGATTGCAATCATATCGAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
22124552 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
22124606 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
22124660 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
22124714 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
22124729 TGAAGATTAT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 175 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:22124675 original size:14 final size:15
Alignment explanation
Indices: 22124530--22124728 Score: 121
Period size: 17 Copynumber: 11.4 Consensus size: 15
22124520 AAGATTGCAA
*
22124530 TCATATCGAAGATTG
1 TCATATCTAAGATTG
22124545 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22124562 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
22124581 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
22124599 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22124616 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
22124635 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
22124653 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22124670 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
22124689 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
22124707 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
22124724 -CATAT
1 TCATAT
22124729 TGAAGATTAT
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
14 5 0.03
17 62 0.37
18 48 0.29
19 51 0.31
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:22125429 original size:213 final size:213
Alignment explanation
Indices: 22125053--22125444 Score: 473
Period size: 213 Copynumber: 1.8 Consensus size: 213
22125043 GATATCTTCG
* * *
22125053 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTTTTCTGACAATACAG
1 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATCTGCTCTCTGACAATACAG
* * * *** *
22125118 AGATGCCAAATCATCTTGGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGTTGTGTCTTC
66 AGACGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTC
* * * *** ** *
22125183 AATTTTCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTTAGTTAAATCATCTAA
131 AATCTGCTCCCTACCAACACAAGGACACCAAATCATCTTAGATCTGCTTTAGTTAAATCATCTAA
22125248 AGGTTAGATCTGCTATGT
196 AGGTTAGATCTGCTATGT
** * * * *
22125266 ATCTGCTCTCCGTCGAA-ATGGAGATGCCAGATCTGTTATCTTTGATCTGCTCTCTGACAATACA
1 ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCT-TCTTCGATCTGCTCTCTGACAATACA
* * *
22125330 GAGACGCTAAATCATCTTAGATTTGCTTCAATGTAAACACGTGAAAGCCAAATCAACTATGTCTT
65 GAGACGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTT
* * *
22125395 CGATCTGCTCCCTACCAATAC-AGAGACACCAAATCATCTTAGATTTGCTT
130 CAATCTGCTCCCTACCAACACAAG-GACACCAAATCATCTTAGATCTGCTT
22125445 CAACGTAAAC
Statistics
Matches: 146, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
212 17 0.12
213 129 0.88
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (213 bp):
ATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATCTGCTCTCTGACAATACAG
AGACGCCAAATCATCTTAGATCTGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCTTC
AATCTGCTCCCTACCAACACAAGGACACCAAATCATCTTAGATCTGCTTTAGTTAAATCATCTAA
AGGTTAGATCTGCTATGT
Found at i:22125463 original size:18 final size:18
Alignment explanation
Indices: 22125440--22125477 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22125430 ATCTTAGATT
22125440 TGCTTCAACGTAAACACG
1 TGCTTCAACGTAAACACG
22125458 TGCTTCAACGTAAACACG
1 TGCTTCAACGTAAACACG
22125476 TG
1 TG
22125478 AAAAGCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (18 bp):
TGCTTCAACGTAAACACG
Found at i:22125535 original size:105 final size:105
Alignment explanation
Indices: 22125353--22125564 Score: 354
Period size: 105 Copynumber: 2.0 Consensus size: 105
22125343 ATCTTAGATT
* *
22125353 TGCTTCAATGTAAACACGTGAAAGCCAAATCAACTATGTCTTCGATCTGCTCCCTACCAATACAG
1 TGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTACCAATACAG
22125418 AGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACG
66 AGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACG
* * *
22125458 TGCTTCAACGTAAACACGTGAAAAG-CAAATCAGCTATGTCCTCGATCTGCTTCCTGCCAATACA
1 TGCTTCAACGTAAACACGTG-AAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTACCAATACA
*
22125522 GAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACG
65 GAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACG
22125563 TG
1 TG
22125565 AAAGCCAAAT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
105 96 0.96
106 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (105 bp):
TGCTTCAACGTAAACACGTGAAAGCCAAATCAACTATGTCCTCGATCTGCTCCCTACCAATACAG
AGACACCAAATCATCTTAGATTTGCTTCAACGTAAACACG
Found at i:22125607 original size:87 final size:87
Alignment explanation
Indices: 22125458--22125620 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
22125448 CGTAAACACG
*
22125458 TGCTTCAACGTAAACACGTGAAAAGCAAATCAGCTATGTCCTCGATCTGCTTCCTGCCAATACAG
1 TGCTTCAACGTAAACACGTGAAAAGCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAG
22125523 AGACGCCAAATCATCTTAGATT
66 AGACGCCAAATCATCTTAGATT
*
22125545 TGCTTCAACGTAAACACGTG-AAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCTAATACA
1 TGCTTCAACGTAAACACGTGAAAAG-CAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACA
22125609 GAGACGCCAAAT
65 GAGACGCCAAAT
22125621 TTGCTGTCTT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 4 0.05
87 69 0.95
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (87 bp):
TGCTTCAACGTAAACACGTGAAAAGCAAATCAGCTATGTCCTCGATCTGCTCCCTGCCAATACAG
AGACGCCAAATCATCTTAGATT
Found at i:22125823 original size:175 final size:175
Alignment explanation
Indices: 22125627--22125945 Score: 532
Period size: 175 Copynumber: 1.8 Consensus size: 175
22125617 AAATTTGCTG
* * *
22125627 TCTTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTTGATCTACTCTCTGCCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGCCA
* * * *
22125692 ATACAGAGATGCCAAATTTGTTATCTTCGATCTGCT-TTCTGACAATACAGAGACGCCAAATCAT
66 ATACAGAGATGCCAAATCTGTCATCTTCGACCTGCTCCT-TGACAATACAGAGACGCCAAATCAT
22125756 CTTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGTTATC
130 CTTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGTTATC
**
22125802 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCTTCGATCTGTTCTCTGCCA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGCCA
*
22125867 ATACAGAGATGCCAAATCTGTCATCTTTGACCTGCTCCTTGACAATACAGAGACGCCAAATCATC
66 ATACAGAGATGCCAAATCTGTCATCTTCGACCTGCTCCTTGACAATACAGAGACGCCAAATCATC
22125932 TTGGATTTGCTTCA
131 TTGGATTTGCTTCA
22125946 GTGTAAATAC
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
175 132 0.99
176 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.32
Consensus pattern (175 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCTTCGATCTACTCTCTGCCA
ATACAGAGATGCCAAATCTGTCATCTTCGACCTGCTCCTTGACAATACAGAGACGCCAAATCATC
TTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGTTATC
Found at i:22125826 original size:87 final size:88
Alignment explanation
Indices: 22125686--22125945 Score: 241
Period size: 87 Copynumber: 3.0 Consensus size: 88
22125676 GATCTACTCT
* ** * **
22125686 CTGCCAATACAGAGATGCCAAATTTGT--TATCTTCGATCTGCTTTCTGACAATACAGAGACGCC
1 CTGCCAATACAGAGAAGCCAAATCAGTCATCTCTTCGATCTGCTCCCTGACAATACAGAGACGCC
22125749 AAATCATCTTGGATTTGCTTCAA
66 AAATCATCTTGGATTTGCTTCAA
* * * * *
22125772 C-G-TAA-ACACGTGAAAGCCAAATCAGTTATCTCTTCGATCTGCTCCCTGCCAATACAGAGATG
1 CTGCCAATACA-GAG-AAGCCAAATCAGTCATCTCTTCGATCTGCTCCCTGACAATACAGAGACG
* * *
22125834 CCAAATCTGTTATCTTCGATCTG-TTC-T
64 CCAAATC----ATCTTGGATTTGCTTCAA
* * * *
22125861 CTGCCAATACAGAGATGCCAAATCTGTCATCT-TT-GACCTGCTCCTTGACAATACAGAGACGCC
1 CTGCCAATACAGAGAAGCCAAATCAGTCATCTCTTCGATCTGCTCCCTGACAATACAGAGACGCC
22125924 AAATCATCTTGGATTTGCTTCA
66 AAATCATCTTGGATTTGCTTCA
22125946 GTGTAAATAC
Statistics
Matches: 137, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
83 3 0.02
84 14 0.10
85 14 0.10
86 1 0.01
87 36 0.26
88 30 0.22
89 3 0.02
90 19 0.14
91 14 0.10
92 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (88 bp):
CTGCCAATACAGAGAAGCCAAATCAGTCATCTCTTCGATCTGCTCCCTGACAATACAGAGACGCC
AAATCATCTTGGATTTGCTTCAA
Found at i:22125878 original size:219 final size:219
Alignment explanation
Indices: 22125499--22125927 Score: 680
Period size: 219 Copynumber: 2.0 Consensus size: 219
22125489 AGCTATGTCC
*
22125499 TCGATCTGCTTCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
1 TCGATCTGCTTCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
* * * *
22125564 GAAAGCCAAATCAGCTATGTCCTCGATCTGCTCCCTGCTAATACAGAGACGCCAAATTTGCTGTC
66 GAAAGCCAAATCAGCTATCTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTATC
* * * *
22125629 TTTGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTTGATCTACT-CTCTGCCAA
131 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGACCTACTCCT-TGACAA
*
22125693 TACAGAGATGCCAAATTTGTTATCT
195 TACAGAGACGCCAAATTTGTTATCT
* *
22125718 TCGATCTGCTTTCTGACAATACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAACACGT
1 TCGATCTGCTTCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
* * * *
22125783 GAAAGCCAAATCAGTTATCTCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATC
66 GAAAGCCAAATCAGCTATCTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTATC
* *
22125848 TTCGATCTGTTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGACCTGCTCCTTGACAAT
131 TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGACCTACTCCTTGACAAT
22125913 ACAGAGACGCCAAAT
196 ACAGAGACGCCAAAT
22125928 CATCTTGGAT
Statistics
Matches: 191, Mismatches: 18, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
219 189 0.99
220 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (219 bp):
TCGATCTGCTTCCTGACAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
GAAAGCCAAATCAGCTATCTCCTCGATCTGCTCCCTGCCAATACAGAGACGCCAAATCTGCTATC
TTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTTGACCTACTCCTTGACAAT
ACAGAGACGCCAAATTTGTTATCT
Found at i:22125928 original size:44 final size:44
Alignment explanation
Indices: 22125588--22125928 Score: 336
Period size: 44 Copynumber: 7.8 Consensus size: 44
22125578 CTATGTCCTC
* * * * * *
22125588 GATCTGCTCCCTGCTAATACAGAGACGCCAAATTTGCTGTCTTT
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
22125632 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
* * *
22125676 GATCTACTCTCTGCCAATACAGAGATGCCAAATTTGTTATCTTC
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
* * * *
22125720 GATCTGCTTTCTGACAATACAGAGACGCCAAATC----ATCTTG
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
* ** * * * *
22125760 GATTTGCT-TCAACGTAA-ACACGTGAAAGCCAAATCAGTTATCTCTT
1 GATCTGCTCTCTGC-CAATACA-GAG-ATGCCAAATCTGTTATCT-TT
* *
22125806 CGATCTGCTCCCTGCCAATACAGAGATGCCAAATCTGTTATCTTC
1 -GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
* *
22125851 GATCTGTTCTCTGCCAATACAGAGATGCCAAATCTGTCATCTTT
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
* * *
22125895 GACCTGCTC-CTTGACAATACAGAGACGCCAAATC
1 GATCTGCTCTC-TGCCAATACAGAGATGCCAAATC
22125929 ATCTTGGATT
Statistics
Matches: 245, Mismatches: 40, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
39 5 0.02
40 16 0.07
41 9 0.04
43 1 0.00
44 176 0.72
45 5 0.02
46 17 0.07
47 11 0.04
48 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTATCTTT
Found at i:22126915 original size:18 final size:18
Alignment explanation
Indices: 22126886--22126939 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
22126876 GGCCTCTCCA
22126886 TTTTTTCT-TTTTTCTTT
1 TTTTTTCTCTTTTTCTTT
22126903 TTTTTTCTCTTTTTCTTT
1 TTTTTTCTCTTTTTCTTT
22126921 TCTTTTT-TCATTTTT-TTT
1 T-TTTTTCTC-TTTTTCTTT
22126939 T
1 T
22126940 GAAATAGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.24
18 16 0.47
19 10 0.29
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCTCTTTTTCTTT
Found at i:22126934 original size:8 final size:7
Alignment explanation
Indices: 22126886--22126936 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
22126876 GGCCTCTCCA
22126886 TTTTTTC
1 TTTTTTC
22126893 TTTTTTC
1 TTTTTTC
22126900 TTTTTT-
1 TTTTTTC
*
22126906 TTTCTCTTT
1 TTT-T-TTC
22126915 TTCTTTTC
1 TT-TTTTC
22126923 TTTTTTC
1 TTTTTTC
22126930 ATTTTTT
1 -TTTTTT
22126937 TTTGAAATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
6 3 0.08
7 19 0.50
8 12 0.32
9 3 0.08
10 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:22126934 original size:13 final size:12
Alignment explanation
Indices: 22126886--22126939 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
22126876 GGCCTCTCCA
22126886 TTTTTTCTTTT-
1 TTTTTTCTTTTC
*
22126897 TTCTTTTTTTTTC
1 TT-TTTTCTTTTC
22126910 TCTTTTTCTTTTC
1 T-TTTTTCTTTTC
22126923 TTTTTTCATTTT-
1 TTTTTTC-TTTTC
22126935 TTTTT
1 TTTTT
22126940 GAAATAGAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 2 0.05
12 19 0.51
13 15 0.41
14 1 0.03
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:22133683 original size:22 final size:21
Alignment explanation
Indices: 22133648--22133723 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
22133638 AAAAGTTATC
* *
22133648 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
22133669 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
22133692 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
22133711 TGC-AATCATATCT
1 TACAAATCATATCT
22133724 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:22133699 original size:17 final size:19
Alignment explanation
Indices: 22133684--22133752 Score: 117
Period size: 17 Copynumber: 3.8 Consensus size: 19
22133674 AATCATATCT
22133684 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
22133703 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
22133721 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
22133738 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
22133753 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.34
18 16 0.34
19 15 0.32
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:22135034 original size:28 final size:28
Alignment explanation
Indices: 22134994--22135058 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
22134984 CGTGTCAATG
* *
22134994 GCCCGTGTCCCTCACACGGCCATGACAC
1 GCCCATGTCCCTCACACGGCCATAACAC
22135022 GCCCATGTCCCTCACACGGCCATAACAC
1 GCCCATGTCCCTCACACGGCCATAACAC
22135050 GCCCATGTC
1 GCCCATGTC
22135059 TTAGTTCCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.20, C:0.46, G:0.18, T:0.15
Consensus pattern (28 bp):
GCCCATGTCCCTCACACGGCCATAACAC
Found at i:22136089 original size:46 final size:46
Alignment explanation
Indices: 22136001--22136162 Score: 168
Period size: 46 Copynumber: 3.5 Consensus size: 46
22135991 GTGCCAATGC
* ** *
22136001 CATGTCTGGGACATGGCATCGGC-ATTGAGACGAGGGCTAGTGTAAGA
1 CATGTCTGGGACAT-GCATCGGCTA-CGAGACGATAGCCAGTGTAAGA
* *
22136048 CATGTCTAGGACATGCATCGGCCT-CGAGGCG-TAAGCCAGTGTAAGA
1 CATGTCTGGGACATGCATCGG-CTACGAGACGAT-AGCCAGTGTAAGA
* * *
22136094 CATGTCTGGGACATGCATTGGCTACGAGATGATAGTCAGTGTAAGA
1 CATGTCTGGGACATGCATCGGCTACGAGACGATAGCCAGTGTAAGA
22136140 CCATGTCTGGGACATGGCATCGG
1 -CATGTCTGGGACAT-GCATCGG
22136163 TACCTTGGGA
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.02
46 59 0.61
47 29 0.30
48 6 0.06
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (46 bp):
CATGTCTGGGACATGCATCGGCTACGAGACGATAGCCAGTGTAAGA
Found at i:22139995 original size:40 final size:40
Alignment explanation
Indices: 22139936--22140044 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
22139926 TATTCGGATG
*
22139936 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
22139976 A-ATTCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
22140016 ATAACCGGGCTATA-TCCCGAAGGCATTTG
1 ATAACCGGGCTA-AGTCCCGAAGGCATTTG
22140045 AGTGAGTAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
39 1 0.02
40 58 0.95
41 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:22140158 original size:103 final size:103
Alignment explanation
Indices: 22139979--22140180 Score: 404
Period size: 103 Copynumber: 2.0 Consensus size: 103
22139969 AGTTACTAAT
22139979 TCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAACCGGGCTATATCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAACCGGGCTATATCCCGAAGGCATTT
22140044 GAGTGAGTAGCTATATCCGGTTAAATTTCGAAGGCAAA
66 GAGTGAGTAGCTATATCCGGTTAAATTTCGAAGGCAAA
22140082 TCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAACCGGGCTATATCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAACCGGGCTATATCCCGAAGGCATTT
22140147 GAGTGAGTAGCTATATCCGGTTAAATTTCGAAGG
66 GAGTGAGTAGCTATATCCGGTTAAATTTCGAAGG
22140181 TATGTGATTT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (103 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCAAGTTACTATAACCGGGCTATATCCCGAAGGCATTT
GAGTGAGTAGCTATATCCGGTTAAATTTCGAAGGCAAA
Found at i:22142645 original size:129 final size:128
Alignment explanation
Indices: 22142181--22142702 Score: 738
Period size: 127 Copynumber: 4.1 Consensus size: 128
22142171 GCCAAATGGG
* * *
22142181 AACTACTGTAGAAAAAGA-GCGTCCACGTGGGAGCTTTTTTTTCAGTAATTTTGCTGAGAGTTCA
1 AACTACTGTAGAAAAA-ACGCGTCCACGTGGAAGC-TTTTTTT-AGTAATTTTGCTGACAGTGCA
* *
22142245 TCCTGCTTGAAGCGTTTTTGACACTA-TTGTTCAGATATATCTTCTCAAAATTA--TTTTTTCAG
63 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAG
22142307 A
128 A
* * *
22142308 AACTACTGTAGAAAAAACGCGTCCACGTAAGAA-CTTTTTTCAGTACTTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAACGCGTCCACGT-GGAAGCTTTTTTTAGTAATTTTGCTGACAGTGCATC
22142372 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTT-AGA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAGA
* *
22142435 AACTACTGTAGAAAAAACACGTCCACGTGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAACGCGTCCACGTGGAAGCTTTTTTTAGTAATTTTGCTGACAGTGCATCC
**
22142500 TGCTTGAAGTATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAGA
* * * *
22142563 AACTACTATAGGAAAAACGCGTCCACGTGGAAGCTTTTTTTTAATACTTTTGCTGACAGTGCATC
1 AACTACTGTAGAAAAAACGCGTCCACGTGGAAGC-TTTTTTTAGTAATTTTGCTGACAGTGCATC
* ** * *
22142628 CTGCTTGAAGCGTTTTTGGCACTATTTGTTCAGAAATGTCTTCTC--AATT-TTATTGTTTCAAA
65 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATT-TTTTTTCAGA
22142690 AACTACTGTAGAA
1 AACTACTGTAGAA
22142703 TTTTTTTATT
Statistics
Matches: 356, Mismatches: 30, Indels: 18
0.88 0.07 0.04
Matches are distributed among these distances:
125 44 0.12
126 36 0.10
127 167 0.47
128 41 0.12
129 68 0.19
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (128 bp):
AACTACTGTAGAAAAAACGCGTCCACGTGGAAGCTTTTTTTAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAGA
Found at i:22142653 original size:256 final size:253
Alignment explanation
Indices: 22142181--22142702 Score: 773
Period size: 256 Copynumber: 2.1 Consensus size: 253
22142171 GCCAAATGGG
* * *
22142181 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTTCAGTAATTTTGCTGAGAGTTCAT
1 AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * *
22142246 CCTGCTTGAAGCGTTTTTGACACTATTGTTCAGATATATCTTCTCAAAATTATTTTTTCAGAAAC
66 CCTGCTTGAAGCATTTTTGACACTATTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
* *
22142311 TACTGTAGAAAAAACGCGTCCACGTAAGAACTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGC
131 TACTATAGAAAAAACGCGTCCACGTAAGAACTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
* * *
22142376 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTAGA
196 TTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA-TTGTTTCAAA
22142435 AACTACTGTAGAAAAA-ACACGTCCACGTGGGAGC-TTTTTTT-AGTAATTTTGCTGACAGTGCA
1 AACTACTGTAGAAAAAGA-ACGTCCACGTGGGAGCTTTTTTTTCAGTAATTTTGCTGACAGTGCA
*
22142497 TCCTGCTTGAAGTATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTTTCAG
65 TCCTGCTTGAAGCATTTTTGACACTA-TTGTTCAGAAACATCTTCTCAAAATTA--TTTTTTCAG
* * *
22142562 AAACTACTATAGGAAAAACGCGTCCACGT-GGAAGCTTTTTTTTAATACTTTTGCTGACAGTGCA
127 AAACTACTATAGAAAAAACGCGTCCACGTAAGAA-C-TTTTTTCAATACTTTTGCTGACAGTGCA
* ** **
22142626 TCCTGCTTGAAGCGTTTTTGGCACTATTTGTTCAGAAATGTCTTCTCAATTTTATTGTTTCAAA
190 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTGTTTCAAA
22142690 AACTACTGTAGAA
1 AACTACTGTAGAA
22142703 TTTTTTTATT
Statistics
Matches: 242, Mismatches: 20, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
252 43 0.18
253 33 0.14
254 34 0.14
255 57 0.24
256 75 0.31
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (253 bp):
AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTTTCAGTAATTTTGCTGACAGTGCAT
CCTGCTTGAAGCATTTTTGACACTATTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGAAAC
TACTATAGAAAAAACGCGTCCACGTAAGAACTTTTTTCAATACTTTTGCTGACAGTGCATCCTGC
TTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTGTTTCAAA
Found at i:22142916 original size:23 final size:22
Alignment explanation
Indices: 22142882--22142932 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
22142872 TTTTTCTTAA
*
22142882 AAAAATCTAAA-CCCTAAACTCT
1 AAAAACCTAAACCCCTAAACT-T
*
22142904 AAAAACCTAAAACCCCTAACCTT
1 AAAAACCT-AAACCCCTAAACTT
22142927 AAAAAC
1 AAAAAC
22142933 ATTAACCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 10 0.40
24 8 0.32
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAAACCTAAACCCCTAAACTT
Found at i:22150518 original size:10 final size:9
Alignment explanation
Indices: 22150503--22150544 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
22150493 AATAAATTTC
22150503 ATATATATGG
1 ATATATAT-G
22150513 ATATATAT-
1 ATATATATG
22150521 ATATATATTG
1 ATATATA-TG
22150531 ATATATATAG
1 ATATATAT-G
22150541 ATAT
1 ATAT
22150545 TAATGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.24
9 2 0.07
10 20 0.69
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (9 bp):
ATATATATG
Found at i:22150526 original size:18 final size:18
Alignment explanation
Indices: 22150503--22150544 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22150493 AATAAATTTC
22150503 ATATATATGGATATATAT
1 ATATATATGGATATATAT
*
22150521 ATATATATTGATATATAT
1 ATATATATGGATATATAT
*
22150539 AGATAT
1 ATATAT
22150545 TAATGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (18 bp):
ATATATATGGATATATAT
Found at i:22155375 original size:61 final size:63
Alignment explanation
Indices: 22155307--22155462 Score: 228
Period size: 61 Copynumber: 2.5 Consensus size: 63
22155297 TATGTTTTCT
22155307 TTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAA-AT-AGTATTAA
1 TTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACATAAGTATTAA
* * *
22155368 TTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACTTAATTATTAT
1 TTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACATAAGTATTAA
*
22155431 TTGATTCAACTT-AAGTATGAATAAGTATGAAT
1 TT-ATT--ATTTGAAGTATGAATAAGTATGAAT
22155463 TAATTTTATT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
61 51 0.59
62 1 0.01
63 8 0.09
64 3 0.03
65 20 0.23
66 3 0.03
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (63 bp):
TTATTATTTGAAGTATGAATAAGTATGAATAAGTTTTTATATTTGGTTCAACATAAGTATTAA
Found at i:22156591 original size:333 final size:332
Alignment explanation
Indices: 22155986--22156650 Score: 1231
Period size: 333 Copynumber: 2.0 Consensus size: 332
22155976 TTAATTTTAT
*
22155986 TACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
1 TACCATGTAGCTTGCTTATCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
* * *
22156051 AAATATTTTAAAGATTCAAAGTATATGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAA
66 AAATATTTTAAAGATTCAAAGTATATGGCTGGAAAACTGACGGGTTGCCTTAAATCAAGCTGTAA
* * *
22156116 GATATAATGGATCCTCCCTAGGTGTAACGACGCCACGTATGATGAATCTTAAAAAATTCAAAAAG
131 GATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCCTAAAAAATTCAAAAAG
22156181 ACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
196 ACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
*
22156246 ATTTACTTATAAAAATTAAACTATGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
261 ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
22156311 TATATTA
326 TATATTA
22156318 TACCATGTAGCTTGCTTATCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
1 TACCATGTAGCTTGCTTATCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
22156383 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAAACTGACGGGTTGCCTTAAATCAAGCTGTA
66 AAATATTTTAAAGATTCAAAGTATAT-GGCTGGAAAACTGACGGGTTGCCTTAAATCAAGCTGTA
22156448 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCCTAAAAAATTCAAAAA
130 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCCTAAAAAATTCAAAAA
* *
22156513 GACTTGGAAAAAGTTCTATCGATCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCC
195 GACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCC
22156578 AATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTT
260 AATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTT
22156643 TTATATTA
325 TTATATTA
22156651 ATAATGTTTG
Statistics
Matches: 322, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
332 90 0.28
333 232 0.72
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (332 bp):
TACCATGTAGCTTGCTTATCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
AAATATTTTAAAGATTCAAAGTATATGGCTGGAAAACTGACGGGTTGCCTTAAATCAAGCTGTAA
GATATAATGGATCCTCCCTAGGTGTAACAACGCCACATATGATGAATCCTAAAAAATTCAAAAAG
ACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
TATATTA
Found at i:22156971 original size:305 final size:305
Alignment explanation
Indices: 22156415--22157023 Score: 1182
Period size: 305 Copynumber: 2.0 Consensus size: 305
22156405 ATATAGGCTG
22156415 GAAAACTGACGGGTTGCCTTAAATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
1 GAAAACTGACGGGTTGCCTTAAATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
22156480 GCCACATATGATGAATCCTAAAAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTAC
66 GCCACATATGATGAATCCTAAAAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTAC
22156545 TATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
131 TATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
22156610 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATATTTAA
196 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATATTTAA
22156675 TATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAGA
261 TATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAGA
* * * *
22156720 GAAACCTGACGGGTTGCCTTATATCGAGTTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
1 GAAAACTGACGGGTTGCCTTAAATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
22156785 GCCACATATGATGAATCCTAAAAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTAC
66 GCCACATATGATGAATCCTAAAAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTAC
22156850 TATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
131 TATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
22156915 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATATTTAA
196 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATATTTAA
22156980 TATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAG
261 TATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAG
22157024 TAGTATTAAT
Statistics
Matches: 300, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
305 300 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (305 bp):
GAAAACTGACGGGTTGCCTTAAATCAAGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAAC
GCCACATATGATGAATCCTAAAAAATTCAAAAAGACTTGGAAAAAGTTCTATCGATCTCATTTAC
TATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATATTTAA
TATTTTTAAATGTCTTTAAAAGTTATAACTAATTTTTATCAAAGA
Found at i:22157067 original size:9 final size:9
Alignment explanation
Indices: 22157044--22157171 Score: 103
Period size: 9 Copynumber: 13.6 Consensus size: 9
22157034 ATTGATCATT
*
22157044 ACTTAAATA
1 ACTTACATA
*
22157053 AATTACATA
1 ACTTACATA
22157062 ACTTACATA
1 ACTTACATA
* *
22157071 ACTCATATA
1 ACTTACATA
*
22157080 ACTTACGTA
1 ACTTACATA
*
22157089 ATTTACATAACA
1 ACTTACAT---A
22157101 ACTTACATA
1 ACTTACATA
*
22157110 ACTCACATA
1 ACTTACATA
22157119 ACTTACATA
1 ACTTACATA
* *
22157128 ATTTACAAA
1 ACTTACATA
*
22157137 ACTCACATA
1 ACTTACATA
*
22157146 ACGTACATAACA
1 ACTTACAT---A
22157158 ACTTACATA
1 ACTTACATA
22157167 ACTTA
1 ACTTA
22157172 ACTAATACAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
9 76 0.83
12 16 0.17
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
ACTTACATA
Found at i:22160980 original size:46 final size:46
Alignment explanation
Indices: 22160912--22161086 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
22160902 TGTAACCCGC
* *
22160912 CCATAAGTGAACTCGGAATCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
22160958 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
22161008 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
22161051 CCATATGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
22161087 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 62 0.56
47 27 0.25
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:22161052 original size:93 final size:93
Alignment explanation
Indices: 22160920--22161090 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
22160910 GCCCATAAGT
* * *
22160920 GAACTCGGAATCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
22160985 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
22161013 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATATGTGAACTCGGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
22161078 CGAGTTCGGATGC
66 CGAGCTCGGATGC
22161091 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:22165504 original size:21 final size:21
Alignment explanation
Indices: 22165478--22165522 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
22165468 TCAACTTAGA
*
22165478 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
*
22165499 GCGGAGGTAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
22165520 GCG
1 GCG
22165523 AAGCAGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.58, T:0.02
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:22165905 original size:43 final size:44
Alignment explanation
Indices: 22165819--22166010 Score: 194
Period size: 44 Copynumber: 4.4 Consensus size: 44
22165809 ACTGGGCAAA
* *
22165819 TTAGCGGCATTTTTTAGAAAAGCGCCGCTAGAGGTCCCTA-TTT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAGAGGTCCCTATTTT
*
22165862 TTAGCGGCGTTTTATAAAAAAAGCGCCGCTAGAGGTCCC-ATTTT
1 TTAGCGGCGTTTT-TTAAAAAAGCGCCGCTAGAGGTCCCTATTTT
* * * ** *
22165906 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGT-CTTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAGAGGTCCCTATTTT
** * * * *
22165949 TTAGCGGCGTTTGTTTGGAAAAGCGCCGCTAAAAGT-CCTAGTCT
1 TTAGCGGCGTTT-TTTAAAAAAGCGCCGCTAGAGGTCCCTATTTT
*
22165993 TTAGCGGCATTTTTTAAA
1 TTAGCGGCGTTTTTTAAA
22166011 CAGCACCACT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.01
43 50 0.39
44 77 0.60
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (44 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAGAGGTCCCTATTTT
Found at i:22165952 original size:87 final size:87
Alignment explanation
Indices: 22165819--22166010 Score: 217
Period size: 87 Copynumber: 2.2 Consensus size: 87
22165809 ACTGGGCAAA
* * * *
22165819 TTAGCGGCATTTTTTAGAAAAGCGCCGCTAGAGGTCCCTATTTTTAGCGGCGTTT-TATAAAAAA
1 TTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTCCCTATCTTTAGCGGCGTTTGT-TAAAAAA
* * * *
22165883 AGCGCCGCTAGAGGTCCCATTTT
65 AGCGCCGCTAAAAGTCCCAGTCT
* * * ***
22165906 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGT-CTTGGTCTTTAGCGGCGTTTGTTTGGAAA
1 TTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTCCCT-ATCTTTAGCGGCGTTTGTTAAAAAA
*
22165970 AGCGCCGCTAAAAGTCCTAGTCT
65 AGCGCCGCTAAAAGTCCCAGTCT
22165993 TTAGCGGCATTTTTTAAA
1 TTAGCGGCATTTTTTAAA
22166011 CAGCACCACT
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 2 0.02
87 84 0.97
88 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (87 bp):
TTAGCGGCATTTTTTAAAAAAGCGCCGCTAAAAGTCCCTATCTTTAGCGGCGTTTGTTAAAAAAA
GCGCCGCTAAAAGTCCCAGTCT
Found at i:22173266 original size:6 final size:6
Alignment explanation
Indices: 22173256--22173296 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
22173246 ATCAGCTAGT
* *
22173256 ATATAT ATATAC ATATAC ATATAC ATATAC ATATAT ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
22173297 ATTTTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAC
Found at i:22178532 original size:15 final size:15
Alignment explanation
Indices: 22178512--22178541 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22178502 TTTGCTAATT
22178512 TTCCTTGAAACTAGA
1 TTCCTTGAAACTAGA
22178527 TTCCTTGAAACTAGA
1 TTCCTTGAAACTAGA
22178542 CTCACATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
TTCCTTGAAACTAGA
Found at i:22179376 original size:40 final size:39
Alignment explanation
Indices: 22179318--22179403 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
22179308 TTTATATATA
* **
22179318 TAGCCAAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* *
22179358 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
22179397 TAGCCGA
1 TAGCCGA
22179404 TAAGTCGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:22184748 original size:45 final size:44
Alignment explanation
Indices: 22184604--22184820 Score: 194
Period size: 45 Copynumber: 4.9 Consensus size: 44
22184594 TTTCATCAAA
* * *
22184604 TCACCGGCATT-TAGCCTGCTAGGTTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGG--CTCAAAGCCCGAATAGT-ATC
* * * * *** *
22184647 TCACTGGCATT-TCGCCTGCTAGGCCCAAGGCCCG-ATACCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
*
22184689 TCACCGGCATTATAGCCTGTTAGGCTCGAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
* * *
22184734 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
*
22184779 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCA-AAGCCCGAATAGT
22184821 GTCGTACGAT
Statistics
Matches: 141, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.01
41 7 0.05
42 10 0.07
43 33 0.23
44 10 0.07
45 78 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:22184789 original size:90 final size:87
Alignment explanation
Indices: 22184604--22184820 Score: 228
Period size: 90 Copynumber: 2.5 Consensus size: 87
22184594 TTTCATCAAA
* * * * *
22184604 TCACCGGCATT-TAGCCTGCTAGGTTTTAAAAACCCGAAT--TCAT-TCACTGGCATTTCGCCTG
1 TCACCGGCATTATAGCCTGCTAGG-CTCAGAAGCCCGAATAGT-ATCTCACTGGCATTTAGCCTG
* * *
22184665 CTAGGCCCAAGGCCCGATACCCTT
64 CTAGGCCAAAGGCCCAATACCCTC
*
22184689 TCACCGGCATTATAGCCTGTTAGGCTC-GAAAGCCCGAATAGTATCTCACTGGCATTATAGCCTG
1 TCACCGGCATTATAGCCTGCTAGGCTCAG-AAGCCCGAATAGTATCTCACTGGCATT-TAGCCTG
***
22184753 CTAGGCTCAAAGGCCCAAATAGTGTC
64 CTAGGC-CAAAGGCCC-AATACCCTC
*
22184779 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCAGAAGCCCGAATAGT
22184821 GTCGTACGAT
Statistics
Matches: 109, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
85 21 0.19
86 13 0.12
87 12 0.11
88 12 0.11
89 8 0.07
90 42 0.39
91 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (87 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAGAAGCCCGAATAGTATCTCACTGGCATTTAGCCTGCT
AGGCCAAAGGCCCAATACCCTC
Found at i:22184821 original size:45 final size:45
Alignment explanation
Indices: 22184647--22184823 Score: 200
Period size: 45 Copynumber: 4.0 Consensus size: 45
22184637 CCGAATTCAT
* * * *** *
22184647 TCACTGGCATT-TCGCCTGCTAGGCCCA-AGGCCCG-ATACCCTT
1 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTGTC
* * *
22184689 TCACCGGCATTATAGCCTGTTAGGCTC-GAAAGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAG-AGGCCCGAATAGTGTC
* * *
22184734 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTGTC
22184779 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTGTC
22184824 GTACGATAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
42 10 0.09
43 12 0.11
44 6 0.05
45 84 0.75
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTGTC
Found at i:22188847 original size:42 final size:41
Alignment explanation
Indices: 22188733--22188866 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 41
22188723 TTCCGATATG
* *
22188733 TGATTTCGTGTAAGACCAC-GTTTAAGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACC-CTGTTTAGGAC-ATGGCATCGTATT
* * * *
22188774 TGAGATTTATGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 T--GATTT-CGTGTAAGACCCTGTTTAGGACAT-GGCATCGTATT
22188819 TGATTTCGTGTAAGACCCTGTTTAGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCCTGTTTAGGACA-TGGCATCG-TATT
22188862 TGATT
1 TGATT
22188867 ACATATAAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 26 0.35
43 21 0.28
44 23 0.31
45 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCCTGTTTAGGACATGGCATCGTATT
Found at i:22188876 original size:43 final size:42
Alignment explanation
Indices: 22188787--22188888 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 42
22188777 GATTTATGTG
* * * *
22188787 TAAGACCATGTCTGGGACA-TCGGCATCGTATTTGATTTCGTG
1 TAAGACCATGTCTAGGACAGT-GGCATCGTATTTGATTACATA
* *
22188829 TAAGACCCTGTTTAGGACAGTGGCATCGATATTTGATTACATA
1 TAAGACCATGTCTAGGACAGTGGCATCG-TATTTGATTACATA
22188872 TAAGACCATGTCTAGGA
1 TAAGACCATGTCTAGGA
22188889 TGCTGGCACT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 23 0.46
43 27 0.54
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TAAGACCATGTCTAGGACAGTGGCATCGTATTTGATTACATA
Found at i:22197380 original size:18 final size:18
Alignment explanation
Indices: 22197337--22197415 Score: 113
Period size: 18 Copynumber: 4.3 Consensus size: 18
22197327 CGGGCTGAGG
* *
22197337 ACACGGGCGTGTCTAAGCC
1 ACACGGGCGTGTGTGA-CC
22197356 ACACGGGCGTGTGTGACC
1 ACACGGGCGTGTGTGACC
*
22197374 GCACGGGCGTGTGTGACC
1 ACACGGGCGTGTGTGACC
*
22197392 GCACGGGCGTGTGTGACC
1 ACACGGGCGTGTGTGACC
22197410 ACACGG
1 ACACGG
22197416 ACTACCCACA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
18 42 0.75
19 14 0.25
ACGTcount: A:0.16, C:0.29, G:0.39, T:0.15
Consensus pattern (18 bp):
ACACGGGCGTGTGTGACC
Found at i:22198403 original size:24 final size:24
Alignment explanation
Indices: 22198376--22198423 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22198366 ATGTAAGACC
22198376 ATGTTTGGGACATCGACATCGTAT
1 ATGTTTGGGACATCGACATCGTAT
22198400 ATGTTTGGGACATCGACATCGTAT
1 ATGTTTGGGACATCGACATCGTAT
22198424 TTGATTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
ATGTTTGGGACATCGACATCGTAT
Found at i:22200637 original size:42 final size:42
Alignment explanation
Indices: 22200584--22200680 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
22200574 ATGGCTTAGA
* *
22200584 CACACGAGCGTGTCTAATTCCGTGTGAGGCACATGGCCTGTT
1 CACACGGGCGTGTCTAAATCCGTGTGAGGCACATGGCCTGTT
22200626 CACACGGGCGTGTCTAAATCCGTGTGAGGCACATGGCCTGTT
1 CACACGGGCGTGTCTAAATCCGTGTGAGGCACATGGCCTGTT
22200668 CACACGGGCGTGT
1 CACACGGGCGTGT
22200681 GATATTTGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (42 bp):
CACACGGGCGTGTCTAAATCCGTGTGAGGCACATGGCCTGTT
Found at i:22200777 original size:24 final size:24
Alignment explanation
Indices: 22200745--22200795 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
22200735 GATTAGAGTC
22200745 TTGTATGCTTGATTTAAGTACATA
1 TTGTATGCTTGATTTAAGTACATA
*
22200769 TTGTATGCTTGATTTAAGTATATA
1 TTGTATGCTTGATTTAAGTACATA
22200793 TTG
1 TTG
22200796 AATGTGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.49
Consensus pattern (24 bp):
TTGTATGCTTGATTTAAGTACATA
Found at i:22205505 original size:9 final size:9
Alignment explanation
Indices: 22205491--22205515 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
22205481 AAGATAACAA
22205491 AACTAAAAT
1 AACTAAAAT
22205500 AACTAAAAT
1 AACTAAAAT
22205509 AACTAAA
1 AACTAAA
22205516 GCAATTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
AACTAAAAT
Found at i:22210889 original size:19 final size:19
Alignment explanation
Indices: 22210867--22210906 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
22210857 AATAAAGGGG
22210867 TTTGTTTAATCTAAATGAA
1 TTTGTTTAATCTAAATGAA
22210886 TTTGTTTAATCTAAATGAA
1 TTTGTTTAATCTAAATGAA
22210905 TT
1 TT
22210907 AACTAAACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (19 bp):
TTTGTTTAATCTAAATGAA
Found at i:22212771 original size:38 final size:38
Alignment explanation
Indices: 22212729--22212805 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
22212719 AGTAATGGGT
22212729 TATGGGTTAATATTGAGGGAAAATCAATGAATAGCTTG
1 TATGGGTTAATATTGAGGGAAAATCAATGAATAGCTTG
*
22212767 TATGGGTTAATATTGAGGGAAAATCAATGAATGGCTTG
1 TATGGGTTAATATTGAGGGAAAATCAATGAATAGCTTG
22212805 T
1 T
22212806 TAGGCTCAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (38 bp):
TATGGGTTAATATTGAGGGAAAATCAATGAATAGCTTG
Found at i:22222052 original size:12 final size:12
Alignment explanation
Indices: 22222037--22222063 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22222027 TGTTATTGAT
22222037 TTTATTATTAGA
1 TTTATTATTAGA
22222049 TTTATTATTAGA
1 TTTATTATTAGA
22222061 TTT
1 TTT
22222064 TCTTATAGCA
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (12 bp):
TTTATTATTAGA
Found at i:22223613 original size:20 final size:19
Alignment explanation
Indices: 22223582--22223626 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
22223572 TAATATATCC
22223582 ATTTTTTA-TTTTAATTCTA
1 ATTTTTTATTTTTAATT-TA
*
22223601 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
22223621 ATTTTT
1 ATTTTT
22223627 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:22227423 original size:38 final size:38
Alignment explanation
Indices: 22227375--22227461 Score: 156
Period size: 38 Copynumber: 2.3 Consensus size: 38
22227365 GATATTTGGA
22227375 AACATATCCGGACTTGAGGTCCGCAGGCTACATGCTGG
1 AACATATCCGGACTTGAGGTCCGCAGGCTACATGCTGG
*
22227413 AACATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGG
1 AACATATCCGGACTTGAGGTCCGCAGGCTACATGCTGG
*
22227451 AATATATCCGG
1 AACATATCCGG
22227462 GCCTAAAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (38 bp):
AACATATCCGGACTTGAGGTCCGCAGGCTACATGCTGG
Found at i:22227549 original size:37 final size:37
Alignment explanation
Indices: 22227496--22227575 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
22227486 CTAGTAACTG
22227496 GATTCGGGTTTAAAAACCTAGCAGACTTAACGCCGGT
1 GATTCGGGTTTAAAAACCTAGCAGACTTAACGCCGGT
* * *
22227533 GATTCGGGTTTTAAAACCTGGCAGGCTTAACGCCGGT
1 GATTCGGGTTTAAAAACCTAGCAGACTTAACGCCGGT
*
22227570 TATTCG
1 GATTCG
22227576 AGTAAGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (37 bp):
GATTCGGGTTTAAAAACCTAGCAGACTTAACGCCGGT
Found at i:22235793 original size:93 final size:93
Alignment explanation
Indices: 22235681--22235852 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22235671 GCCCATAAGT
* * *
22235681 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22235746 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
22235774 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
22235839 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
22235853 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:22235848 original size:46 final size:46
Alignment explanation
Indices: 22235673--22235848 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
22235663 TGTAACCCGC
* *
22235673 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22235719 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
22235765 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
22235812 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
22235849 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:22236805 original size:65 final size:65
Alignment explanation
Indices: 22236681--22236806 Score: 148
Period size: 65 Copynumber: 1.9 Consensus size: 65
22236671 CGGACTTACA
** **
22236681 ATCGAGCTTGGAAGCTTAAAAAACCCTAGTCATGGTTTCTCCTTGCTATATTCGGCCATGGGGTT
1 ATCGAGCTTGGAAGCTTAAAAAACCCTAGTCATGGAGTCTCCTTGCTATACACGGCCATGGGGTT
** * *
22236746 ATCGAGCTTGGAAGCTT-GGAAACCCTAGAT-ATGGAGTCTCCCTTGGTATACACGTCCATGG
1 ATCGAGCTTGGAAGCTTAAAAAACCCTAG-TCATGGAGTCT-CCTTGCTATACACGGCCATGG
22236807 TGAAGAAGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 16 0.31
65 35 0.69
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (65 bp):
ATCGAGCTTGGAAGCTTAAAAAACCCTAGTCATGGAGTCTCCTTGCTATACACGGCCATGGGGTT
Found at i:22238352 original size:30 final size:30
Alignment explanation
Indices: 22238308--22238396 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
22238298 CAAAGATAAC
22238308 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
22238337 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
22238367 AAGAAATCCAGGATAAAAAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
22238397 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.60, C:0.16, G:0.15, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:22238356 original size:15 final size:15
Alignment explanation
Indices: 22238308--22238383 Score: 93
Period size: 15 Copynumber: 5.1 Consensus size: 15
22238298 CAAAGATAAC
*
22238308 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
22238322 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
22238337 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
22238352 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
22238367 AAGAAATCCAGGATA
1 AAGAAATCCAGAATA
22238382 AA
1 AA
22238384 AAAACCCAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:22238396 original size:15 final size:15
Alignment explanation
Indices: 22238319--22238396 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
22238309 AGAAAACCGA
22238319 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
22238334 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
22238348 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
22238363 AATAAAGAAATCCAGG
1 -ATAAAGAAATCCAAG
* *
22238379 ATAAAAAAACCCAAG
1 ATAAAGAAATCCAAG
22238394 ATA
1 ATA
22238397 CGATACTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.08
15 46 0.87
16 3 0.06
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:22240068 original size:65 final size:65
Alignment explanation
Indices: 22239986--22240116 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
22239976 CATGCTAGGT
*
22239986 TAGTCCAAGAACCGACTAAACCTGCTCTGATACCATCAAATGTAATGCCCCCACGCCCAAAACCG
1 TAGTCCAAGAACCGACTAAACCTGCTCTGATACCATCAAATGTAACGCCCCCACGCCCAAAACCG
*
22240051 TAGTCCGAGAACCGACTAAACCTGCTCTGATACCATCAAATGTAACGCCCCCACGCCCAAAACCG
1 TAGTCCAAGAACCGACTAAACCTGCTCTGATACCATCAAATGTAACGCCCCCACGCCCAAAACCG
22240116 T
1 T
22240117 CTCCGGAGTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.17
Consensus pattern (65 bp):
TAGTCCAAGAACCGACTAAACCTGCTCTGATACCATCAAATGTAACGCCCCCACGCCCAAAACCG
Found at i:22245576 original size:57 final size:57
Alignment explanation
Indices: 22245488--22245600 Score: 217
Period size: 57 Copynumber: 2.0 Consensus size: 57
22245478 CAGGATTTCA
22245488 AAAACGTAAAAATCATTAAAAACAGGGCTTGGAATCACTTACTATGAAGCTTGAAAC
1 AAAACGTAAAAATCATTAAAAACAGGGCTTGGAATCACTTACTATGAAGCTTGAAAC
*
22245545 AAAACGTAAAAATCATTAAAAACGGGGCTTGGAATCACTTACTATGAAGCTTGAAA
1 AAAACGTAAAAATCATTAAAAACAGGGCTTGGAATCACTTACTATGAAGCTTGAAA
22245601 GTTGAAGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (57 bp):
AAAACGTAAAAATCATTAAAAACAGGGCTTGGAATCACTTACTATGAAGCTTGAAAC
Found at i:22245834 original size:59 final size:56
Alignment explanation
Indices: 22245725--22245835 Score: 168
Period size: 59 Copynumber: 1.9 Consensus size: 56
22245715 AATGCCCCTC
* *
22245725 CTTATTAAACTTTCAAAAATTCCATCCATGTCTTATTTTGTCCATGAACTTAGAAT
1 CTTACTAAACTTTCAAAAATTCCATCCATGTCTAATTTTGTCCATGAACTTAGAAT
*
22245781 CTTACTAAACTTTCAAAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTTA
1 CTTACTAAACTTTC--AAAAATTCCATCCATGT-CTAATTTTGTCCATGAACTTA
22245836 AAATTGGTCA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
56 13 0.27
58 16 0.33
59 20 0.41
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (56 bp):
CTTACTAAACTTTCAAAAATTCCATCCATGTCTAATTTTGTCCATGAACTTAGAAT
Found at i:22252276 original size:46 final size:45
Alignment explanation
Indices: 22252207--22252375 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 45
22252197 GTAACCCGCC
* *
22252207 CCTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
22252252 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGAACTCAACTCAACGAGCTCG---GAC--GTTCGCAT
* * * * *
22252302 -CTCA-CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCTAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGTTCGCAT
22252345 CCGTAAGTGAACTCGAACTCAACTCAACGAG
1 CC-TAAGTGAACTCGAACTCAACTCAACGAG
22252376 TTCAGATGCT
Statistics
Matches: 99, Mismatches: 15, Indels: 19
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 4 0.04
46 52 0.53
47 25 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (45 bp):
CCTAAGTGAACTCGAACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:22254556 original size:17 final size:17
Alignment explanation
Indices: 22254526--22254580 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
22254516 ATTTATTTTA
22254526 TTTATTA-TGATTATTAT
1 TTTATTATTG-TTATTAT
22254543 TTTATTATTGTTATTAGT
1 TTTATTATTGTTATTA-T
22254561 ATTATATTTATT-TTATTAT
1 -TT-TA-TTATTGTTATTAT
22254580 T
1 T
22254581 ATTAGAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
17 13 0.39
18 4 0.12
19 3 0.09
20 8 0.24
21 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
TTTATTATTGTTATTAT
Found at i:22254583 original size:26 final size:26
Alignment explanation
Indices: 22254515--22254585 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
22254505 CCCTTTTCTT
* *
22254515 TATTTATTTTATTTATTATGATTATTA
1 TATTTATTTTA-TTATTATTAGTATTA
*
22254542 T-TTTA--TTATTGTTATTAGTATTA
1 TATTTATTTTATTATTATTAGTATTA
22254565 TATTTATTTTATTATTATTAG
1 TATTTATTTTATTATTATTAG
22254586 AATTGTGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
23 13 0.35
24 7 0.19
26 16 0.43
27 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (26 bp):
TATTTATTTTATTATTATTAGTATTA
Found at i:22254600 original size:3 final size:3
Alignment explanation
Indices: 22254518--22254584 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
22254508 TTTTCTTTAT
* * *
22254518 TTA TT- TTA TTTA TTA TGA TTA TTA TT- TTA TTA TTG TTA TTA GTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22254562 TTA -TA TTTA TT- TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA
22254585 GAATTGTGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 8 0.15
3 39 0.75
4 5 0.10
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22256140 original size:20 final size:19
Alignment explanation
Indices: 22256115--22256153 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
22256105 TCGATCACTG
*
22256115 ATTTATTTTAGTTTTCTATT
1 ATTTATTTTAATTTT-TATT
22256135 ATTTATTTTAATTTTTATT
1 ATTTATTTTAATTTTTATT
22256154 TCCAGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTTATTTTAATTTTTATT
Found at i:22270607 original size:40 final size:40
Alignment explanation
Indices: 22270552--22270686 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 40
22270542 CGGTCATTTG
** *
22270552 TGGCACTTAGTGTGCGATACGACATAGCTTCGACTATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
22270592 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* * *
22270632 TGGCACTTAGTGTCCGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* **
22270672 CGAAACTTAGTGTGC
1 TGGCACTTAGTGTGC
22270687 AAGATATTGA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
Found at i:22273076 original size:18 final size:18
Alignment explanation
Indices: 22273053--22273089 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22273043 GAATAATAAT
22273053 TTGTCTCTATGTTGATGA
1 TTGTCTCTATGTTGATGA
22273071 TTGTCTCTATGTTGATGA
1 TTGTCTCTATGTTGATGA
22273089 T
1 T
22273090 GTACTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (18 bp):
TTGTCTCTATGTTGATGA
Found at i:22281634 original size:20 final size:20
Alignment explanation
Indices: 22281609--22281654 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
22281599 GAGAAAACGA
*
22281609 GCGTGTCCCAAGCCACACGG
1 GCGTGTACCAAGCCACACGG
*
22281629 GCGTGTACCAAGCCATACGG
1 GCGTGTACCAAGCCACACGG
22281649 GCGTGT
1 GCGTGT
22281655 GACTCTCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (20 bp):
GCGTGTACCAAGCCACACGG
Found at i:22284489 original size:21 final size:21
Alignment explanation
Indices: 22284463--22284511 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
22284453 CGGGCTGCAG
* *
22284463 CACGGGCGTGT-CCTATGATCA
1 CACGGGCATGTCCCT-TGACCA
22284484 CACGGGCATGTCCCTTGACCA
1 CACGGGCATGTCCCTTGACCA
22284505 CACGGGC
1 CACGGGC
22284512 TTGTGTGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (21 bp):
CACGGGCATGTCCCTTGACCA
Found at i:22290255 original size:50 final size:49
Alignment explanation
Indices: 22290141--22290270 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
22290131 CTGGTACGCA
* ** *
22290141 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
* * *
22290190 TAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAACAGTCTAATACACG
22290240 TAGTAGCCTGCACTTAGTACTACACATGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
22290271 TCACAGTTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
49 28 0.40
50 38 0.54
51 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTAATACACG
Found at i:22295595 original size:49 final size:48
Alignment explanation
Indices: 22295522--22295658 Score: 161
Period size: 49 Copynumber: 2.8 Consensus size: 48
22295512 AGCCGAAGCT
* *
22295522 ATCTGGTACGTATAGTAGCCTGCACTTAGTACTACACATG-CGAC-CAAC
1 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGAC--CTCAAC
*
22295570 AGTCTGGTACATGTAGTAGCCTGCACTTAGTACTACATACATGACCTCACC
1 A-TCTGGTACATGTAGTAGCCTGCACTTAGTACTAC--ACATGACCTCAAC
** *
22295621 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACA
22295659 CGTGATCACA
Statistics
Matches: 78, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
48 4 0.05
49 32 0.41
50 32 0.41
51 9 0.12
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
ATCTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGACCTCAAC
Found at i:22295655 original size:50 final size:49
Alignment explanation
Indices: 22295534--22295656 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 49
22295524 CTGGTACGTA
** *
22295534 TAGTAGCCTGCACTTAGTACTAC-ACATGCGACCAACAGTCTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACAACATGC-ACCAACAGTCTAATACACG
*
22295583 TAGTAGCCTGCACTTAGTACTACATACATG-ACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACA-ACATGCA-C-CAACAGTCTAATACACG
22295633 TAGTAGCCTGCACTTAGTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
22295657 CACGTGATCA
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
49 24 0.36
50 33 0.50
51 9 0.14
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACAACATGCACCAACAGTCTAATACACG
Found at i:22298795 original size:53 final size:53
Alignment explanation
Indices: 22298732--22298835 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
22298722 TGAAATTCAA
* *
22298732 GGGCTTTTATGGTAATATGTAAAATTCGGTTAGGCTTGGAATAAGGATTAAAG
1 GGGCTATTATGGTAATATGTAAAATTCAGTTAGGCTTGGAATAAGGATTAAAG
*
22298785 GGGCTATTATGGTAATATGTAAAATTTAGTTAGGCTTGGAATAAGGATTAA
1 GGGCTATTATGGTAATATGTAAAATTCAGTTAGGCTTGGAATAAGGATTAA
22298836 GTTGCATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.35
Consensus pattern (53 bp):
GGGCTATTATGGTAATATGTAAAATTCAGTTAGGCTTGGAATAAGGATTAAAG
Found at i:22300261 original size:19 final size:20
Alignment explanation
Indices: 22300224--22300261 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22300214 CTTGCCAACT
* *
22300224 AATTTTAAAAGTATTAAAAA
1 AATTTAAAAAGTATCAAAAA
22300244 AATTTAAAAAG-ATCAAAA
1 AATTTAAAAAGTATCAAAA
22300262 TGTTGTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (20 bp):
AATTTAAAAAGTATCAAAAA
Found at i:22303472 original size:31 final size:31
Alignment explanation
Indices: 22303437--22303498 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
22303427 AATAAAAAAG
*
22303437 TAAGAATCAAATTAAATAAATGTGTAAAGAA
1 TAAGAATCAAATTAAATAAAGGTGTAAAGAA
* *
22303468 TAAGAGTCAAATTGAATAAAGGTGTAAAGAA
1 TAAGAATCAAATTAAATAAAGGTGTAAAGAA
22303499 AAAGGGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.55, C:0.03, G:0.18, T:0.24
Consensus pattern (31 bp):
TAAGAATCAAATTAAATAAAGGTGTAAAGAA
Found at i:22303511 original size:31 final size:31
Alignment explanation
Indices: 22303438--22303512 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
22303428 ATAAAAAAGT
* * *
22303438 AAGAATCAAATTAAATAAATGTGTAAAGAAT
1 AAGAGTCAAATTAAATAAAGGTGTAAAGAAA
*
22303469 AAGAGTCAAATTGAATAAAGGTGTAAAGAAA
1 AAGAGTCAAATTAAATAAAGGTGTAAAGAAA
* *
22303500 AAGGGTTAAATTA
1 AAGAGTCAAATTA
22303513 TTTGGATACG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.55, C:0.03, G:0.19, T:0.24
Consensus pattern (31 bp):
AAGAGTCAAATTAAATAAAGGTGTAAAGAAA
Found at i:22311176 original size:12 final size:13
Alignment explanation
Indices: 22311159--22311188 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
22311149 TAATAACATA
22311159 AAAATTTAATT-T
1 AAAATTTAATTAT
22311171 AAAATTTAATTAT
1 AAAATTTAATTAT
22311184 AAAAT
1 AAAAT
22311189 ATCAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATTTAATTAT
Found at i:22311638 original size:6 final size:7
Alignment explanation
Indices: 22311580--22311641 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
22311570 AAATGATAAT
22311580 ATTAAAA
1 ATTAAAA
**
22311587 ATTTTAA
1 ATTAAAA
22311594 ATTAAAA
1 ATTAAAA
*
22311601 AGTAAAAGA
1 A-TTAAA-A
*
22311610 ATTAAATT
1 ATTAAA-A
*
22311618 TTTAAAA
1 ATTAAAA
22311625 ATTAAAA
1 ATTAAAA
22311632 ATTAAAA
1 ATTAAAA
22311639 ATT
1 ATT
22311642 GAAAGAATAA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 27 0.64
8 13 0.31
9 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (7 bp):
ATTAAAA
Found at i:22316557 original size:43 final size:44
Alignment explanation
Indices: 22316508--22316721 Score: 199
Period size: 43 Copynumber: 5.0 Consensus size: 44
22316498 GATTACCGAG
* *
22316508 ATGTGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
*
22316552 -TGTGATTACATATAAGACCATGTCTGGGATATTGGCATCAT-TAT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCAT--TGTAT
* * * * * *
22316596 A-G-AATTTCATGTAAGACCCTATCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
* * * * * * *
22316637 ATATGATTTCGTGTAAGACCCTGTCTGAGATAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
* *
22316680 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTA
22316722 CGAGATATAT
Statistics
Matches: 137, Mismatches: 25, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.01
42 8 0.06
43 122 0.89
44 4 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGATATTGGCATTGTAT
Found at i:22316693 original size:86 final size:86
Alignment explanation
Indices: 22316508--22316717 Score: 230
Period size: 86 Copynumber: 2.5 Consensus size: 86
22316498 GATTACCGAG
** * *
22316508 ATGTGATTACATGTAAGACCATGCCTGGGACATTGGCATTGTATTGTGATTACATATAAGACCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATTATGATTACATATAAGACCAT
* *
22316573 GTCTGGGATATTGGCATCATT
66 GTCTGAGATAGTGGCATCATT
* * * * * *
22316594 ATAG-AATTTCATGTAAGACCCTATCTGGGACATTGGCATCGT-TATATGATTTCGTGTAAGACC
1 AT-GTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT-TATGATTACATATAAGACC
*
22316657 CTGTCTGAGATAGTGGCATCGA-T
64 ATGTCTGAGATAGTGGCATC-ATT
* *
22316680 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
22316718 TGTACGAGAT
Statistics
Matches: 102, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
85 8 0.08
86 92 0.90
87 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (86 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATTATGATTACATATAAGACCAT
GTCTGAGATAGTGGCATCATT
Found at i:22324290 original size:20 final size:20
Alignment explanation
Indices: 22324265--22324307 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
22324255 CACACGCTCA
* *
22324265 TGTGCATTGGGACATGCCCG
1 TGTGCATTAGGACACGCCCG
22324285 TGTGCATTAGGACACGCCCG
1 TGTGCATTAGGACACGCCCG
22324305 TGT
1 TGT
22324308 CCCTTACTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.26
Consensus pattern (20 bp):
TGTGCATTAGGACACGCCCG
Done.