Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 79 of 378
Found at i:21235934 original size:92 final size:90
Alignment explanation
Indices: 21235787--21235998 Score: 246
Period size: 92 Copynumber: 2.3 Consensus size: 90
21235777 AGATTTGTGT
* * * * *
21235787 GCCAGTGTAAGACCATGTATGAGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGT
21235852 CTGGGACATGCATCAGCCAC-AGTATGAGA
64 CTGGGACATGCATCAGCCACGAG-AT--GA
* * * *
21235881 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGATAGCCAGTGTCAGACATGTCT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
* * * *
21235946 GGGACATGCGTCGGCTACGAGATGT
66 GGGACATGCATCAGCCACGAGATGA
*
21235971 GCTAGTGTAAGACATGTCTGGGACATGC
1 GCCAGTGTAAGACATGTCTGGGACATGC
21235999 GTCAGCACGG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
90 28 0.27
92 49 0.48
93 14 0.14
94 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (90 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCCACGAGATGA
Found at i:21236023 original size:90 final size:91
Alignment explanation
Indices: 21235838--21236048 Score: 225
Period size: 90 Copynumber: 2.3 Consensus size: 91
21235828 GACGAGGGCT
21235838 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTAT-AGAGCCAGTGTAAGACATGTCTGGG
* *
21235903 ACATGCATCGGCCTCGAGATGATAGCC
65 ACATGCATCAGCCTCGACATGATAGCC
* * * * * *
21235930 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAG-AT-GTGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AGTATAGAGCCAGTGTAAGACATGTCTGGG
* * *
21235993 ACATGCGTCAGCACGGT-TACATG-T-GTC
65 ACATGCATCAGC-C--TCGACATGATAGCC
*
21236020 AGTGTAAGACCTGTCTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACAT-GCATC
21236049 GACACAGATG
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
90 55 0.55
91 6 0.06
92 36 0.36
93 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGTATAGAGCCAGTGTAAGACATGTCTGGGA
CATGCATCAGCCTCGACATGATAGCC
Found at i:21244346 original size:4 final size:4
Alignment explanation
Indices: 21244333--21244369 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
21244323 TCAAATTTCC
21244333 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
21244370 CACGTTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:21247431 original size:46 final size:46
Alignment explanation
Indices: 21247364--21247535 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
21247354 AACCCGCCCC
* *
21247364 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * *
21247410 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * * * *
21247458 TCA-CGAACTCGAACTCAACTCAACAAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
21247503 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
21247536 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 58 0.57
47 26 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:21247478 original size:93 final size:93
Alignment explanation
Indices: 21247369--21247539 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
21247359 GCCCCTAAGT
* * * * *
21247369 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21247434 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
21247462 GAACTCGAACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21247527 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21247540 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:21249350 original size:29 final size:29
Alignment explanation
Indices: 21249318--21249373 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
21249308 AACATAATAA
*
21249318 ATTTTAAAAAATATATAAAATAAAAAAAT
1 ATTTTAAAAAATAAATAAAATAAAAAAAT
** *
21249347 ATTTTTGACAATAAATAAAATAAAAAA
1 ATTTTAAAAAATAAATAAAATAAAAAA
21249374 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (29 bp):
ATTTTAAAAAATAAATAAAATAAAAAAAT
Found at i:21249408 original size:45 final size:44
Alignment explanation
Indices: 21249322--21249425 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 44
21249312 TAATAAATTT
*
21249322 TAAAAAATATATAAAATAAAAAAATATTTTTGACAATAAATAAAA
1 TAAAAAATTTA-AAAATAAAAAAATATTTTTGACAATAAATAAAA
* *
21249367 TAAAAAATTTAAAAATATATAAAAATATATTTTTA-AA-AAATATAA
1 TAAAAAATTTAAAAATA-A-AAAAATAT-TTTTGACAATAAATAAAA
* *
21249412 CAATAAATTTAAAA
1 TAAAAAATTTAAAA
21249426 TTTATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 6 0.12
45 30 0.59
46 10 0.20
47 5 0.10
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (44 bp):
TAAAAAATTTAAAAATAAAAAAATATTTTTGACAATAAATAAAA
Found at i:21249409 original size:23 final size:24
Alignment explanation
Indices: 21249374--21249421 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
21249364 AAATAAAAAA
*
21249374 TTTAAAAATATATAAAAATATATT
1 TTTAAAAATATATAAAAATAAATT
*
21249398 TTTAAAAA-ATATAACAATAAATT
1 TTTAAAAATATATAAAAATAAATT
21249421 T
1 T
21249422 AAAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTAAAAATATATAAAAATAAATT
Found at i:21249431 original size:21 final size:21
Alignment explanation
Indices: 21249371--21249431 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
21249361 ATAAAATAAA
21249371 AAATTTAAAAATATATAAAAAT
1 AAATTT-AAAATATATAAAAAT
* * *
21249393 ATATTTTTAAAAAATATAACAAT
1 A-A-ATTTAAAATATATAAAAAT
*
21249416 AAATTTAAAATTTATA
1 AAATTTAAAATATATA
21249432 TTAATGTTAC
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 11 0.35
22 2 0.06
23 15 0.48
24 3 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATTTAAAATATATAAAAAT
Found at i:21249457 original size:25 final size:24
Alignment explanation
Indices: 21249427--21249475 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
21249417 AATTTAAAAT
* *
21249427 TTATATTAATGTTACATAAATATAA
1 TTATATTAATATTAAATAAA-ATAA
21249452 TTATATTAATATTAAATAAAATAA
1 TTATATTAATATTAAATAAAATAA
21249476 AATAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAATAAAATAA
Found at i:21252030 original size:18 final size:18
Alignment explanation
Indices: 21252007--21252054 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
21251997 AAAATGTGAG
* *
21252007 AAATGATGTTCACATTTT
1 AAATGATGTTCACATGTC
21252025 AAATGATGTTCACATGTC
1 AAATGATGTTCACATGTC
21252043 AAATGATGTTCA
1 AAATGATGTTCA
21252055 AATTGATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATGTC
Found at i:21252311 original size:13 final size:13
Alignment explanation
Indices: 21252293--21252318 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21252283 GGAAGAAGTT
21252293 CCAGAAGCTAGTC
1 CCAGAAGCTAGTC
21252306 CCAGAAGCTAGTC
1 CCAGAAGCTAGTC
21252319 TGCTATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CCAGAAGCTAGTC
Found at i:21252591 original size:72 final size:71
Alignment explanation
Indices: 21252496--21252807 Score: 430
Period size: 72 Copynumber: 4.3 Consensus size: 71
21252486 CAATGCTAAA
*
21252496 CTAGTTTTATCAATAGTTATTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
21252561 GTGTAAT
66 GT-TAAT
* * *
21252568 CTAGTTTTATCAATGGCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
21252633 GTGTAAT
66 GT-TAAT
* *
21252640 CTAGTTTTATTAATAGTTGTTTATGTTT-GGTCTTTGGATATTGAATTTATGGTCTACTTATTTA
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGT-TTTGGATATTGAATTTATGTTCTACTTATTTA
**
21252704 TGCTTAGGG
65 TG-TTA-AT
* ** *
21252713 CTAGTTTTATCAATAATTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
21252778 ACTAAAT
66 -GTTAAT
21252785 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
21252808 ATATGATTTT
Statistics
Matches: 213, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
71 24 0.11
72 128 0.60
73 60 0.28
74 1 0.00
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.54
Consensus pattern (71 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGGTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTTAAT
Found at i:21255050 original size:49 final size:50
Alignment explanation
Indices: 21254972--21255213 Score: 317
Period size: 49 Copynumber: 4.9 Consensus size: 50
21254962 AGCCATTGTG
* *
21254972 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
21255022 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
21255072 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
21255122 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
21255172 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
21255214 AATAGCTTCG
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
49 78 0.47
50 48 0.29
51 39 0.24
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:21255109 original size:28 final size:28
Alignment explanation
Indices: 21255077--21255160 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
21255067 AACTTCGATC
21255077 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
21255105 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
21255127 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
21255155 ACGTGT
1 ACGTGT
21255161 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:21255163 original size:101 final size:98
Alignment explanation
Indices: 21254975--21255204 Score: 325
Period size: 100 Copynumber: 2.3 Consensus size: 98
21254965 CATTGTGAGG
*
21254975 TCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
* *
21255040 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCGGATAA-TT-GA
* * ** *
21255075 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACATGTGTAGTAC
* *
21255140 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCGGATAATTGA
* *
21255174 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
21255205 TGCGTACCAA
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 43 0.37
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCGGATAATTGA
Found at i:21259684 original size:26 final size:26
Alignment explanation
Indices: 21259655--21259707 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
21259645 TACAAATTGG
21259655 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
*
21259681 TAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGA
21259707 T
1 T
21259708 GGGCATTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (26 bp):
TAATGGGTTAGGTAAATGTTCCATGA
Found at i:21261226 original size:26 final size:26
Alignment explanation
Indices: 21261197--21261249 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
21261187 TTTACAGTTT
21261197 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
*
21261223 TACCCCTAGGGTTAAATTGACCGAAA
1 TACCCCTAGGGATAAATTGACCGAAA
21261249 T
1 T
21261250 GCATGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:21261742 original size:137 final size:136
Alignment explanation
Indices: 21261497--21261782 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
21261487 GAGTAGTCTC
*
21261497 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
21261562 GTTATCTGAATAAGGGGCTAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
66 ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
21261627 CTGTTA
131 CTGTTA
21261633 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
21261698 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCCAGTACC
65 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
21261763 ACTGTTA
130 ACTGTTA
**
21261770 CCTGAATGGGCTT
1 CCCAAATGGGCTT
21261783 AGGCCCAATA
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 20 0.14
137 122 0.86
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
ATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACCA
CTGTTA
Found at i:21263386 original size:3 final size:3
Alignment explanation
Indices: 21263371--21263409 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
21263361 GTCAAGAAAG
* *
21263371 TGA TGA TGG TGA TGA TGA TGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
21263410 CGGTGAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:21263388 original size:12 final size:12
Alignment explanation
Indices: 21263371--21263415 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
21263361 GTCAAGAAAG
21263371 TGATGATGGTGA
1 TGATGATGGTGA
21263383 TGATGA---TGA
1 TGATGATGGTGA
21263392 TGATGATGGTGA
1 TGATGATGGTGA
*
21263404 TGATGACGGTGA
1 TGATGATGGTGA
21263416 ATCAAACAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
9 9 0.31
12 20 0.69
ACGTcount: A:0.27, C:0.02, G:0.40, T:0.31
Consensus pattern (12 bp):
TGATGATGGTGA
Found at i:21265543 original size:21 final size:21
Alignment explanation
Indices: 21265519--21265565 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
21265509 TAGTTAAAGA
21265519 AAGCTGCTAGTTAATAATTTC
1 AAGCTGCTAGTTAATAATTTC
*
21265540 AAGCTGCTAGTTGATAATTTC
1 AAGCTGCTAGTTAATAATTTC
21265561 AAGCT
1 AAGCT
21265566 CAGCTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (21 bp):
AAGCTGCTAGTTAATAATTTC
Found at i:21272276 original size:15 final size:15
Alignment explanation
Indices: 21272225--21272276 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
21272215 CCTAAATTTA
21272225 TTAATTC-TAATTAT
1 TTAATTCTTAATTAT
* * *
21272239 TCTAATATTTTATTTAA
1 T-TAAT-TCTTAATTAT
21272256 TTAATTCTTAATTAT
1 TTAATTCTTAATTAT
21272271 TTAATT
1 TTAATT
21272277 ATATAATCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 5 0.17
17 6 0.21
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATTCTTAATTAT
Found at i:21272289 original size:32 final size:31
Alignment explanation
Indices: 21272224--21272290 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
21272214 ACCTAAATTT
* * *
21272224 ATTAATTCTAATTATTCTAATATTTTATTTA
1 ATTAATTCTAATTATTCTAATATATAATCTA
21272255 ATTAATTCTTAATTATT-TAATTATATAATCTA
1 ATTAATTC-TAATTATTCTAA-TATATAATCTA
21272287 ATTA
1 ATTA
21272291 TGGTTTCCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 11 0.35
32 20 0.65
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (31 bp):
ATTAATTCTAATTATTCTAATATATAATCTA
Found at i:21277052 original size:40 final size:40
Alignment explanation
Indices: 21276995--21277126 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 40
21276985 AATTATTAAA
* *
21276995 TGTTTGCATAT-TCGTGCCCCTATTTGTACTTTGGTACCCT
1 TGTTTGCACATAT-GTGCCCCTATTTGTACTTCGGTACCCT
* * *
21277035 TGTTTGCACATATGTGCCCCTGTTTGTTCTTCGATA-CCT
1 TGTTTGCACATATGTGCCCCTATTTGTACTTCGGTACCCT
*
21277074 CTGTTTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCT
1 -TGTTTGCACATATGTGCCCCTATTTGTACTTCGGTA-CCCT
21277116 T-TTTGCACATA
1 TGTTTGCACATA
21277127 AGTGTTCCTG
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
39 3 0.04
40 71 0.90
41 2 0.03
42 3 0.04
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.42
Consensus pattern (40 bp):
TGTTTGCACATATGTGCCCCTATTTGTACTTCGGTACCCT
Found at i:21277141 original size:40 final size:40
Alignment explanation
Indices: 21277008--21277142 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
21276998 TTGCATATTC
* * *
21277008 GTGCCCCTATTTGTACTTTGGTA-CCCTTGTTTGCACATAT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTT-TTTGCACATAA
* * * * *
21277048 GTGCCCCTGTTTGTTCTTCGATACCTCTGTTTGCACATAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTTTTTGCACATAA
*
21277088 GTGCCCCTATTTGTACTTCGGTACCCCTTTTTGCACATAA
1 GTGCCCCTGTTTGTACTTCGGTACCCCTTTTTGCACATAA
**
21277128 GTGTTCCTGTTTGTA
1 GTGCCCCTGTTTGTA
21277143 TTATGACAGC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 75 0.96
41 3 0.04
ACGTcount: A:0.14, C:0.27, G:0.18, T:0.41
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCGGTACCCCTTTTTGCACATAA
Found at i:21281230 original size:30 final size:30
Alignment explanation
Indices: 21281196--21281262 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
21281186 ACACGGGTAG
21281196 GCACACGAGCGTGTGTCTAGGCCGTGTGTC
1 GCACACGAGCGTGTGTCTAGGCCGTGTGTC
21281226 GCACACGAGCGTGTGTCTAGGCCGTGTGTC
1 GCACACGAGCGTGTGTCTAGGCCGTGTGTC
*
21281256 ACACACG
1 GCACACG
21281263 GCCAGCCCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.28, G:0.34, T:0.21
Consensus pattern (30 bp):
GCACACGAGCGTGTGTCTAGGCCGTGTGTC
Found at i:21283193 original size:41 final size:41
Alignment explanation
Indices: 21283097--21283237 Score: 133
Period size: 41 Copynumber: 3.4 Consensus size: 41
21283087 AGCTTTGCGC
*
21283097 CGGTGTAATGTATTAGGTCTTGAACCTAGCAGGCTTCACGT
1 CGGTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTCACGT
* * *
21283138 CGGTGTAACGTATCAGGTCTTGAACCTTGCAGGCTTCATG-
1 CGGTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTCACGT
* * * * * * *
21283178 CTGGTGTAATATATCAAG-CATTGAGCTTAGCAAGCTTCATGC
1 C-GGTGTAATGTATCAGGTC-TTGAACCTAGCAGGCTTCACGT
**
21283220 CGGTGTGTTGTATCAGGT
1 CGGTGTAATGTATCAGGT
21283238 AACTTGTACA
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 78 0.96
42 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (41 bp):
CGGTGTAATGTATCAGGTCTTGAACCTAGCAGGCTTCACGT
Found at i:21286644 original size:5 final size:5
Alignment explanation
Indices: 21286629--21286676 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
21286619 ATTGGGGTAG
* * *
21286629 GATAT AATAT GTTAT GATAT GAGATAT GATAT GATAT GATAC GATAT G
1 GATAT GATAT GATAT GATAT --GATAT GATAT GATAT GATAT GATAT G
21286677 TAATCCGATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 30 0.86
7 5 0.14
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:21286703 original size:17 final size:16
Alignment explanation
Indices: 21286629--21286704 Score: 59
Period size: 17 Copynumber: 4.7 Consensus size: 16
21286619 ATTGGGGTAG
*
21286629 GATATA-ATATGTTAT
1 GATATAGATATGATAT
21286644 GATATGAGATATGATAT
1 GATAT-AGATATGATAT
*
21286661 GATAT-GATACGATAT
1 GATATAGATATGATAT
* *
21286676 G-TAATCCGATATGGTAT
1 GAT-AT-AGATATGATAT
21286693 GATATAAGATAT
1 GATAT-AGATAT
21286705 ACTCTGATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
14 1 0.02
15 17 0.35
16 1 0.02
17 29 0.59
18 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (16 bp):
GATATAGATATGATAT
Found at i:21290194 original size:14 final size:15
Alignment explanation
Indices: 21290114--21290206 Score: 64
Period size: 15 Copynumber: 6.1 Consensus size: 15
21290104 AATATAGCAC
21290114 AGTTCACAAT-TCAT
1 AGTTCACAATATCAT
** *
21290128 AGTTTGCAATATCAC
1 AGTTCACAATATCAT
* * *
21290143 AGTTCGCAAATCTGCAG
1 AGTTCAC-AATAT-CAT
* *
21290160 AGCTCGCAATATCAT
1 AGTTCACAATATCAT
*
21290175 AATTCACAAT-TCAT
1 AGTTCACAATATCAT
21290189 AGTTCACATATATCAT
1 AGTTCACA-ATATCAT
21290205 AG
1 AG
21290207 GTTCGTATAA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
14 19 0.31
15 20 0.33
16 14 0.23
17 8 0.13
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (15 bp):
AGTTCACAATATCAT
Found at i:21290341 original size:18 final size:17
Alignment explanation
Indices: 21290318--21290588 Score: 186
Period size: 17 Copynumber: 15.6 Consensus size: 17
21290308 AATATAGCAA
*
21290318 GGTTCACACATAAGCTAG
1 GGTTCACACATTAG-TAG
21290336 GGTTCACACATTCAGTAG
1 GGTTCACACATT-AGTAG
*
21290354 GGTTAACACATTAGTA-
1 GGTTCACACATTAGTAG
* *
21290370 GGTTCACACTTTAGGTTG
1 GGTTCACACATTA-GTAG
*
21290388 GATTCACACATTAGGTAG
1 GGTTCACACATTA-GTAG
* *
21290406 GGTTCTCACATTGGTAG
1 GGTTCACACATTAGTAG
***
21290423 GGTTTGTACATTAGTAG
1 GGTTCACACATTAGTAG
* * *
21290440 GGTTCGCACTTTAGGAAG
1 GGTTCACACATTA-GTAG
*
21290458 GGTTTACACATTAGTAG
1 GGTTCACACATTAGTAG
* * *
21290475 GG-TCTGCACATTGGTAA
1 GGTTC-ACACATTAGTAG
* * *
21290492 GGTTTACACTTTAAGAAG
1 GGTTCACACATT-AGTAG
* *
21290510 GGTTCGCACATTAGTAA
1 GGTTCACACATTAGTAG
* * *
21290527 GGTTAATACTTTAGGTAG
1 GGTTCACACATTA-GTAG
*
21290545 GGTTCACACATTGGTAG
1 GGTTCACACATTAGTAG
* *
21290562 GGTTTACATATTAGTAG
1 GGTTCACACATTAGTAG
* *
21290579 AGTTCGCACA
1 GGTTCACACA
21290589 ATGACATGAT
Statistics
Matches: 191, Mismatches: 54, Indels: 17
0.73 0.21 0.06
Matches are distributed among these distances:
16 12 0.06
17 90 0.47
18 87 0.46
19 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (17 bp):
GGTTCACACATTAGTAG
Found at i:21290434 original size:35 final size:34
Alignment explanation
Indices: 21290318--21290588 Score: 222
Period size: 35 Copynumber: 7.8 Consensus size: 34
21290308 AATATAGCAA
* * * *
21290318 GGTTCACACATAAGCTAGGGTTCACACATTCAGTAG
1 GGTTTACACATTAG-TAGGGTTCGCACATT-GGTAG
* * * *
21290354 GGTTAACACATTAGTA-GGTTCACACTTTAGGTTG
1 GGTTTACACATTAGTAGGGTTCGCACATT-GGTAG
* * *
21290388 GATTCACACATTAGGTAGGGTTCTCACATTGGTAG
1 GGTTTACACATTA-GTAGGGTTCGCACATTGGTAG
** * *
21290423 GGTTTGTACATTAGTAGGGTTCGCACTTTAGGAAG
1 GGTTTACACATTAGTAGGGTTCGCACATT-GGTAG
*
21290458 GGTTTACACATTAGTAGGG-TCTGCACATTGGTAA
1 GGTTTACACATTAGTAGGGTTC-GCACATTGGTAG
* * * *
21290492 GGTTTACACTTTAAGAAGGGTTCGCACATTAGTAA
1 GGTTTACACATT-AGTAGGGTTCGCACATTGGTAG
* * * *
21290527 GGTTAATACTTTAGGTAGGGTTCACACATTGGTAG
1 GGTTTACACATTA-GTAGGGTTCGCACATTGGTAG
* *
21290562 GGTTTACATATTAGTAGAGTTCGCACA
1 GGTTTACACATTAGTAGGGTTCGCACA
21290589 ATGACATGAT
Statistics
Matches: 190, Mismatches: 38, Indels: 16
0.78 0.16 0.07
Matches are distributed among these distances:
34 68 0.36
35 98 0.52
36 24 0.13
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (34 bp):
GGTTTACACATTAGTAGGGTTCGCACATTGGTAG
Found at i:21290444 original size:70 final size:69
Alignment explanation
Indices: 21290317--21290587 Score: 271
Period size: 70 Copynumber: 3.9 Consensus size: 69
21290307 CAATATAGCA
* * * * *
21290317 AGGTTCACACATAAGCTAGGGTTCACACATTCAGTAGGGTTAACACATTAGTA-GGTTCACACTT
1 AGGTTCACACATTAGGTAGGGTTCACACATT-GGTAGGGTTTACACATTAGTAGGGTTCGCACTT
21290381 TAGGT
65 TAGGT
* * **
21290386 TGGATTCACACATTAGGTAGGGTTCTCACATTGGTAGGGTTTGTACATTAGTAGGGTTCGCACTT
1 AGG-TTCACACATTAGGTAGGGTTCACACATTGGTAGGGTTTACACATTAGTAGGGTTCGCACTT
*
21290451 TAGGA
65 TAGGT
* * * * *
21290456 AGGGTTTACACATTA-GTAGGG-TCTGCACATTGGTAAGGTTTACACTTTAAGAAGGGTTCGCAC
1 A-GGTTCACACATTAGGTAGGGTTC-ACACATTGGTAGGGTTTACACATT-AGTAGGGTTCGCAC
*
21290519 ATTA-GT
63 TTTAGGT
* * * * *
21290525 AAGGTTAATACTTTAGGTAGGGTTCACACATTGGTAGGGTTTACATATTAGTAGAGTTCGCAC
1 -AGGTTCACACATTAGGTAGGGTTCACACATTGGTAGGGTTTACACATTAGTAGGGTTCGCAC
21290588 AATGACATGA
Statistics
Matches: 165, Mismatches: 29, Indels: 16
0.79 0.14 0.08
Matches are distributed among these distances:
68 2 0.01
69 67 0.41
70 92 0.56
71 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (69 bp):
AGGTTCACACATTAGGTAGGGTTCACACATTGGTAGGGTTTACACATTAGTAGGGTTCGCACTTT
AGGT
Found at i:21290454 original size:52 final size:52
Alignment explanation
Indices: 21290390--21290578 Score: 168
Period size: 52 Copynumber: 3.6 Consensus size: 52
21290380 TTAGGTTGGA
* * *
21290390 TTCACACATTAGGTAGGGTTCTCACATTGGTAGGGTTTGTACATTAGTAGGG
1 TTCACACTTTAGGAAGGGTTCTCACATTAGTAGGGTTTGTACATTAGTAGGG
* * * * *
21290442 TTCGCACTTTAGGAAGGGTT-TACACATTAGTAGGGTCTGCACATTGGTAAGG
1 TTCACACTTTAGGAAGGGTTCT-CACATTAGTAGGGTTTGTACATTAGTAGGG
* * * * ** *
21290494 TTTACACTTTAAGAAGGGTTCGCACATTAGTAAGGTTAATACTTTAGGTAGGG
1 TTCACACTTTAGGAAGGGTTCTCACATTAGTAGGGTTTGTACATTA-GTAGGG
* * *
21290547 TTCACACATT-GGTAGGGTT-TACATATTAGTAG
1 TTCACACTTTAGGAAGGGTTCT-CACATTAGTAG
21290579 AGTTCGCACA
Statistics
Matches: 106, Mismatches: 27, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
51 1 0.01
52 92 0.87
53 13 0.12
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (52 bp):
TTCACACTTTAGGAAGGGTTCTCACATTAGTAGGGTTTGTACATTAGTAGGG
Found at i:21290588 original size:104 final size:104
Alignment explanation
Indices: 21290333--21290588 Score: 268
Period size: 104 Copynumber: 2.5 Consensus size: 104
21290323 ACACATAAGC
* * * *
21290333 TAGGGTTCACACATTCA-GTAGGGTTAACACATTAGTAGGTTCACACTTTAGGTTGGATTCACAC
1 TAGGGTTCACACATT-AGGTAGGGTTTACACATTAGTAGGTTCGCACATTAGGTAGGATTCACAC
* * * * * **
21290397 ATTAGGTAGGGTTCTCACATTGGTAGGGTTTGTACATTAG
65 ATTAAGAAGGGTTCGCACATTAGTAAGGTTAATACATTAG
* * * * *
21290437 TAGGGTTCGCACTTTAGGAAGGGTTTACACATTAGTAGGGTCTGCACATT-GGTAAGG-TTTACA
1 TAGGGTTCACACATTAGGTAGGGTTTACACATTAGTAGGTTC-GCACATTAGGT-AGGATTCACA
* *
21290500 CTTTAAGAAGGGTTCGCACATTAGTAAGGTTAATACTTTAGG
64 CATTAAGAAGGGTTCGCACATTAGTAAGGTTAATACATTA-G
*
21290542 TAGGGTTCACACATT-GGTAGGGTTTACATATTAGTAGAGTTCGCACA
1 TAGGGTTCACACATTAGGTAGGGTTTACACATTAGTAG-GTTCGCACA
21290589 ATGACATGAT
Statistics
Matches: 124, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
103 1 0.01
104 99 0.80
105 24 0.19
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (104 bp):
TAGGGTTCACACATTAGGTAGGGTTTACACATTAGTAGGTTCGCACATTAGGTAGGATTCACACA
TTAAGAAGGGTTCGCACATTAGTAAGGTTAATACATTAG
Found at i:21290649 original size:17 final size:17
Alignment explanation
Indices: 21290629--21290681 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
21290619 AAGTCACACA
21290629 ACATAGCTTCGCACATC
1 ACATAGCTTCGCACATC
* *
21290646 ACATAGCAGTCACACA--
1 ACATAGC-TTCGCACATC
*
21290662 ACATAGGTTCGCACATC
1 ACATAGCTTCGCACATC
21290679 ACA
1 ACA
21290682 ATAGGGTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 10 0.36
18 6 0.21
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (17 bp):
ACATAGCTTCGCACATC
Found at i:21290657 original size:33 final size:33
Alignment explanation
Indices: 21290607--21290681 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
21290597 ATAAGGTTCA
*
21290607 CACATCATATAGAAGTCACACAACATAGCTTCG
1 CACATCACATAGAAGTCACACAACATAGCTTCG
* *
21290640 CACATCACATAGCAGTCACACAACATAGGTTCG
1 CACATCACATAGAAGTCACACAACATAGCTTCG
21290673 CACATCACA
1 CACATCACA
21290682 ATAGGGTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.39, C:0.31, G:0.12, T:0.19
Consensus pattern (33 bp):
CACATCACATAGAAGTCACACAACATAGCTTCG
Found at i:21290711 original size:22 final size:22
Alignment explanation
Indices: 21290686--21290745 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
21290676 ATCACAATAG
*
21290686 GGTTCACATGAAATTATAACAA
1 GGTTCACATGACATTATAACAA
* * * *
21290708 GGTTTACATGACATTTTAGCAG
1 GGTTCACATGACATTATAACAA
21290730 GGTTCACATGACATTA
1 GGTTCACATGACATTA
21290746 CCTAGGCTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (22 bp):
GGTTCACATGACATTATAACAA
Found at i:21301757 original size:2 final size:2
Alignment explanation
Indices: 21301750--21301778 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21301740 ACATATAAAC
21301750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21301779 ATTAACCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21308295 original size:5 final size:5
Alignment explanation
Indices: 21308287--21308331 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
21308277 ATTTTTATTT
*
21308287 TTTTG TTTTG TTTT- TTTTG TTTTG TTTTG TTAGTTG TTTTA TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TT--TTG TTTTG TTTT
21308332 TATTGGTGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
4 4 0.11
5 27 0.75
7 5 0.14
ACGTcount: A:0.04, C:0.00, G:0.16, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:21308295 original size:14 final size:14
Alignment explanation
Indices: 21308284--21308314 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21308274 TTTATTTTTA
21308284 TTTTTTTGTTTTGT
1 TTTTTTTGTTTTGT
21308298 TTTTTTTGTTTTGT
1 TTTTTTTGTTTTGT
21308312 TTT
1 TTT
21308315 GTTAGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (14 bp):
TTTTTTTGTTTTGT
Found at i:21308315 original size:19 final size:19
Alignment explanation
Indices: 21308273--21308317 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21308263 CCAGTTGTAC
*
21308273 TTTTATTTTTATTTTTTTG
1 TTTTGTTTTTATTTTTTTG
21308292 TTTTGTTTTT-TTTGTTTTG
1 TTTTGTTTTTATTT-TTTTG
21308311 TTTTGTT
1 TTTTGTT
21308318 AGTTGTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.84
Consensus pattern (19 bp):
TTTTGTTTTTATTTTTTTG
Found at i:21320973 original size:21 final size:21
Alignment explanation
Indices: 21320948--21320987 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21320938 ATAAATAAAA
21320948 AAGATAAAAGAAAAAAAAAGC
1 AAGATAAAAGAAAAAAAAAGC
* *
21320969 AAGATAAAGGAAAATAAAA
1 AAGATAAAAGAAAAAAAAA
21320988 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (21 bp):
AAGATAAAAGAAAAAAAAAGC
Found at i:21321047 original size:4 final size:4
Alignment explanation
Indices: 21321030--21321063 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
21321020 GGTAAAACCT
*
21321030 AATA AATA AGTA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
21321064 GGACTCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:21322572 original size:89 final size:89
Alignment explanation
Indices: 21322421--21322879 Score: 347
Period size: 89 Copynumber: 5.2 Consensus size: 89
21322411 TGCATATACC
* * * * ** * * *
21322421 ACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCGCTGC-GACTTTAGGGAGATGAGATTA
1 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACAG-CTTAAGAGAGATGAGATTA
21322485 GTGATTTTTAACCTGCTCCACTGCA
65 GTGATTTTTAACCTGCTCCACTGCA
* *
21322510 ACTTCAGGGAGATAAGGTTTGTAGTTTTGATCTGCTCTACTACAGCTTAA-AGAAGATGAGATTA
1 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACAGCTTAAGAG-AGATGAGATTA
*
21322574 GTGATTTTTAACCTGCTACACTGCA
65 GTGATTTTTAACCTGCTCCACTGCA
* * * **
21322599 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATTTGCTCTACTGCAGCTTCAGAGAGACAAGATT--
1 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACAGCTTAAGAGAGATGAGATTAG
* * *
21322662 TGATATTTTCAATCTACTCTACTGCA
66 TGAT-TTTT-AACCTGCTCCACTGCA
* * * * * * * * * * *
21322688 ACTTCAGGGAGATAAGATTTGTAATCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT
1 ACTTCAGGGAGATAAGGTTTGT-AGCTTTAATCTGCTCTACTACAGCTTAAGAGAGATGAGATTA
** * * *
21322753 GTG-GCTTTAATCTACTCCACTGCG
65 GTGATTTTTAACCTGCTCCACTGCA
* * * * * * * * * * * *
21322777 ACTTCAGAGAGATAAGATTTGTAACTTTGATCTACTCCAGTGCAACTTCAGGGAGATAAGATCT-
1 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACAGCTTAAGAGAGATGAGAT-TA
** *
21322841 GT-AACTTTAACCTGCTCTACTGCA
65 GTGATTTTTAACCTGCTCCACTGCA
*
21322865 ACTTCTGGGAGATAA
1 ACTTCAGGGAGATAA
21322880 TATTTGTAAT
Statistics
Matches: 310, Mismatches: 50, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
87 4 0.01
88 70 0.23
89 195 0.63
90 39 0.13
92 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (89 bp):
ACTTCAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCTACTACAGCTTAAGAGAGATGAGATTAG
TGATTTTTAACCTGCTCCACTGCA
Found at i:21322641 original size:44 final size:44
Alignment explanation
Indices: 21322421--21323452 Score: 626
Period size: 44 Copynumber: 22.8 Consensus size: 44
21322411 TGCATATACC
* * * * *
21322421 ACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCGCTGCG
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * ** *
21322465 ACTTTAGGGAGATGAGATTAGTGATTTTTAACCTGCTCCACTGCA
1 ACTTCAGGGAGATAAGATTTGT-AGCTTTAATCTGCTCCACTGCA
* * * * *
21322510 ACTTCAGGGAGATAAGGTTTGTAGTTTTGATCTGCTCTACTACA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * * ** * *
21322554 GCTTAAAGAAGATGAGATTAGTGATTTTTAACCTGCTACACTGCA
1 ACTTCAGGGAGATAAGATTTGT-AGCTTTAATCTGCTCCACTGCA
* * *
21322599 ACTTCAGGGAGATAAGGTTTGTAGCTTTAATTTGCTCTACTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * *
21322643 GCTTCAGAGAGACAAGATTTGATA-TTTTCAATCTACTCTACTGCA
1 ACTTCAGGGAGATAAGATTTG-TAGCTTT-AATCTGCTCCACTGCA
* *
21322688 ACTTCAGGGAGATAAGATTTGTAATCTTTAACCTGCTCCACTGCA
1 ACTTCAGGGAGATAAGATTTGT-AGCTTTAATCTGCTCCACTGCA
* * * *
21322733 ACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTACTCCACTGCG
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * *
21322777 ACTTCAGAGAGATAAGATTTGTAACTTTGATCTACTCCAGTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * *
21322821 ACTTCAGGGAGATAAGATCTGTAACTTTAACCTGCTCTACTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * *
21322865 ACTTCTGGGAGATAATATTTGTAATTCGTAGCTTTAATCTGTTCCACTACA
1 ACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * ** * * * * **
21322916 AATTTAAGGATATAAGATTCACTATCTTCAGTCTGTTCCACTATA
1 ACTTCAGGGAGATAAGATT-TGTAGCTTTAATCTGCTCCACTGCA
* * * * * * *
21322961 ATTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTCCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * *
21323005 ACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCTGCTCTACTACA
1 ACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCA
* ** * * *
21323050 ACTTCAGGGAGATAAGACTTAAAGTTTTAATCTACTCTACTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * ** * *
21323094 ACTTCAGAGAGGTAATATTTTTTATCTTCGATCTACTCCACTGTA
1 ACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCCACTGCA
** * * * *
21323139 ACTTCAATGAGATAAGATCTATAACTTCAATCTGCTCCACTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * **
21323183 ACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAATCTATTCCACTGCA
1 ACTTCAGGGAGAT---A--AG--ATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * * *
21323234 AATTTAGGGAAATAAGATTCGCTATCTTTAGTCTACTCCACTGCA
1 ACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCA
* * *
21323279 ACTTCAGGGAGATGAGACTTGTAATTTATAGCTTTAATCTGTTCCACTACA
1 ACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTTAATCTGCTCCACTGCA
* * * * * * *
21323330 ACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGTTCCATTGCA
1 ACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCCACTGCA
* * * *
21323375 ACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCA
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
* * *
21323419 ACTTCAAGGAGATAAGGTTTATAGCTTTAATCTG
1 ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
21323453 TTCTAAGATT
Statistics
Matches: 751, Mismatches: 205, Indels: 64
0.74 0.20 0.06
Matches are distributed among these distances:
44 341 0.45
45 299 0.40
46 8 0.01
47 2 0.00
48 1 0.00
49 4 0.01
50 3 0.00
51 90 0.12
52 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
ACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTGCA
Found at i:21322706 original size:134 final size:130
Alignment explanation
Indices: 21322421--21323451 Score: 450
Period size: 134 Copynumber: 7.6 Consensus size: 130
21322411 TGCATATACC
* * * * * * * * * *
21322421 ACTTCAAGGAGATAAGATTCGTAGCTTCAATCTGCTCCGCTGCGACTTTAGGGAGATGAGATTAG
1 ACTTCAGGGAGATAAGATT-GTATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTTG
** * * * * * * ** * * *
21322486 TGATTTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAGTTTTGATCTGCTCTACT
64 T-AGCTTTAATCTACTCCACTGCGACTTCAGAGAGACAAGATTTGTAACTTTAATCTACTCCACT
*
21322551 ACA
128 GCA
* * * * * *
21322554 GCTTAAAGAAGATGAGATTAGTGATTTTTAACCTGCTACACTGCAACTTCAGGGAGATAAGGTTT
1 ACTTCAGGGAGATAAGATT-GT-ATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTT
* * * * *
21322619 GTAGCTTTAATTTGCTCTACTGC-AGCTTCAGAGAGACAAGATTTG-ATATTTTCAATCTACTCT
63 GTAGCTTTAATCTACTCCACTGCGA-CTTCAGAGAGACAAGATTTGTA-ACTTT-AATCTACTCC
21322682 ACTGCA
125 ACTGCA
21322688 ACTTCAGGGAGATAAGATTTGTAATCTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTT
1 ACTTCAGGGAGATAAGA-TTGT-ATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTT
* * * *
21322753 GTGGCTTTAATCTACTCCACTGCGACTTCAGAGAGATAAGATTTGTAACTTTGATCTACTCCAGT
63 GTAGCTTTAATCTACTCCACTGCGACTTCAGAGAGACAAGATTTGTAACTTTAATCTACTCCACT
21322818 GCA
128 GCA
* * *
21322821 ACTTCAGGGAGATAAGATCTGTAACTTTAACCTGCTCTACTGCAACTTCTGGGAGATAATATTTG
1 ACTTCAGGGAGATAAGAT-TGTATCTTTAACCTGCTC-ACTGCAACTTCAGGGAGAT-A-A--GG
** * * * * * * ** * * *
21322886 TAATTCGTAGCTTTAATCTGTTCCACTACAAATTTA-AGGATATAAGATTCACTATCTTCAGTCT
60 T--TT-GTAGCTTTAATCTACTCCACTGCGACTTCAGA-GAGACAAGATT-TGTAACTTTAATCT
** **
21322950 GTTCCACTATA
120 ACTCCACTGCA
* * * * *
21322961 ATTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTCCAACTTCAGGGAGATAAGGTTTG
1 ACTTCAGGGAGATAAGA-TTGTATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTTG
* * * * * * * * * * * * *
21323026 TTATCTTCAGTCTGCTCTACTACAACTTCAGGGAGATAAGACTT-AAAGTTTTAATCTACTCTAC
64 -TAGCTTTAATCTACTCCACTGCGACTTCAGAGAGACAAGATTTGTAA-CTTTAATCTACTCCAC
21323090 TGCA
127 TGCA
* * * * ** * * * ** * *
21323094 ACTTCAGAGAGGTAATATTTTTTATCTTCGATCTACTCCACTGTAACTTCAATGAGATAAGATCT
1 ACTTCAGGGAGATAAGA--TTGTATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTT
* * * * * * * * *
21323159 ATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAATCTA
63 GTAGCTTTAATCTACTCCACTGCGACTTCAGAGAGA--C-A--AG--ATTTGTAACTTTAATCTA
*
21323224 TTCCACTGCA
121 CTCCACTGCA
* * * ** *
21323234 AATTTAGGGAAATAAGATTCGCTATCTTTAGTCTACTCCACTGCAACTTCAGGGAGATGAGACTT
1 ACTTCAGGGAGATAAGATT-G-TATCTTTAACCTGCT-CACTGCAACTTCAGGGAGAT-A-A---
* * ** * * * * * * * * *
21323299 GTAATTTATAGCTTTAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCT
58 G--GTTTGTAGCTTTAATCTACTCCACTGCGACTTCAGAGAGACAAGATTTG-TAACTTTAATCT
** *
21323364 GTTCCATTGCA
120 ACTCCACTGCA
* * * *
21323375 ACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTA
1 ACTTCAGGGAGATAAGA-TTGTATCTTTAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTTG
21323440 TAGCTTTAATCT
64 TAGCTTTAATCT
21323452 GTTCTAAGAT
Statistics
Matches: 694, Mismatches: 161, Indels: 86
0.74 0.17 0.09
Matches are distributed among these distances:
131 1 0.00
132 35 0.05
133 161 0.23
134 212 0.31
135 5 0.01
136 5 0.01
138 8 0.01
139 35 0.05
140 156 0.22
141 36 0.05
142 4 0.01
144 1 0.00
145 1 0.00
147 34 0.05
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (130 bp):
ACTTCAGGGAGATAAGATTGTATCTTTAACCTGCTCACTGCAACTTCAGGGAGATAAGGTTTGTA
GCTTTAATCTACTCCACTGCGACTTCAGAGAGACAAGATTTGTAACTTTAATCTACTCCACTGCA
Found at i:21322976 original size:45 final size:43
Alignment explanation
Indices: 21322902--21323434 Score: 174
Period size: 45 Copynumber: 11.7 Consensus size: 43
21322892 GTAGCTTTAA
* * * * *
21322902 TCTGTTCCACTACAAATTTAAGGATATAAGATTCACTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * * * *
21322947 TCTGTTCCACTATAATTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTATCTTCAG
* * * * *
21322991 CCTACTCCACTCCAACTTCAGGGAGATAAGGTTTGTTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAA-GATT-CTATCTTCAG
* ** * *
21323036 TCTGCTCTACTACAACTTCAGGGAGATAAGACTTAAAGT-TTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTA-TCTTCAG
* * * * * * *
21323080 TCTACTCTACTGCAACTTCAGAGAGGTAATATTTTTTATCTTC-G
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA--TTCTATCTTCAG
* ** ** *
21323124 ATCTACTCCACTGTAACTTCAATGAGATAAGA-TCTATAACTTCAA
1 -TCTGCTCCACTACAACTTCAGGGAGATAAGATTCTAT--CTTCAG
* ** * * *
21323169 TCTGCTCCACTGCAACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCT-ATCT-T---C--AG
** * * * * *
21323220 TCTATTCCACTGCAAATTTAGGGAAATAAGATTCGCTATCTTTAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * *
21323265 TCTACTCCACTGCAACTTCAGGGAGATGAGACTTGTAATT-TATAGCTTTAA
1 TCTGCTCCACTACAACTTCAGGGAGAT-A-A---G--ATTCTAT--CTTCAG
* *
21323316 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAGATT--CTATCTTCAG
* * * * * *
21323361 TCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA
1 TCTGCTCCACTACAACTTCAGGGAGATAAGA-TTCTATCTTCAG
* * *
21323405 CCTGCTCCACTGCAACTTCAAGGAGATAAG
1 TCTGCTCCACTACAACTTCAGGGAGATAAG
21323435 GTTTATAGCT
Statistics
Matches: 368, Mismatches: 85, Indels: 71
0.70 0.16 0.14
Matches are distributed among these distances:
42 4 0.01
44 129 0.35
45 149 0.40
46 9 0.02
47 6 0.02
49 5 0.01
50 5 0.01
51 57 0.15
52 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (43 bp):
TCTGCTCCACTACAACTTCAGGGAGATAAGATTCTATCTTCAG
Found at i:21323060 original size:89 final size:88
Alignment explanation
Indices: 21322938--21323204 Score: 284
Period size: 89 Copynumber: 3.0 Consensus size: 88
21322928 TAAGATTCAC
* * * *
21322938 TATCTTCAGTCTGTTCCACTATAATTTCAGGGAGATAAGACTTGTAACTTCAACCTACTCCACTC
1 TATCTTCAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTT-TAACTTCAATCTACTCCACTG
*
21323003 CAACTTCAGGGAGATAAGGTTTGT
65 CAACTTCAGGGAGATAAGATTTGT
* * * * * *
21323027 TATCTTCAGTCTGCTCTACTACAACTTCAGGGAGATAAGACTTAAAGTTTTAATCTACTCTACTG
1 TATCTTCAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTTTAA-CTTCAATCTACTCCACTG
* * * *
21323092 CAACTTCAGAGAGGTAATATTTTT
65 CAACTTCAGGGAGATAAGATTTGT
* * ** * *
21323116 TATCTTC-GATCTACTCCACTGTAACTTCAATGAGATAAGATCTATAACTTCAATCTGCTCCACT
1 TATCTTCAG-TCTGCTCCACTATAACTTCAGGGAGATAAGA-CTTTAACTTCAATCTACTCCACT
**
21323180 GCAACTTCAGGGAGATCCGATTTGT
64 GCAACTTCAGGGAGATAAGATTTGT
21323205 AATTTGTAGC
Statistics
Matches: 142, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
88 3 0.02
89 135 0.95
90 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (88 bp):
TATCTTCAGTCTGCTCCACTATAACTTCAGGGAGATAAGACTTTAACTTCAATCTACTCCACTGC
AACTTCAGGGAGATAAGATTTGT
Found at i:21323287 original size:96 final size:96
Alignment explanation
Indices: 21323163--21323398 Score: 328
Period size: 96 Copynumber: 2.5 Consensus size: 96
21323153 AGATCTATAA
* * * * *
21323163 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATCCGATTTGTAATTTGTAGCCTTAATCTATTCC
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
* *
21323228 ACTGCAAATTTAGGGAAATAAGATTCGCTAT
66 ACTACAAATTCAGGGAAATAAGATTCGCTAT
* * * *
21323259 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATGAGACTTGTAATTTATAGCTTTAATCTGTTCC
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
*
21323324 ACTACAACTTCAGGGAAATAAGATTCGCTAT
66 ACTACAAATTCAGGGAAATAAGATTCGCTAT
** * *
21323355 CTTCAGTCTGTTCCATTGCAACTTCAGGGAGATAAGACTTGTAA
1 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAA
21323399 CTTCAACCTG
Statistics
Matches: 123, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 123 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (96 bp):
CTTCAGTCTACTCCACTGCAACTTCAGGGAGATCAGACTTGTAATTTATAGCCTTAATCTATTCC
ACTACAAATTCAGGGAAATAAGATTCGCTAT
Found at i:21323536 original size:44 final size:44
Alignment explanation
Indices: 21323482--21323594 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 44
21323472 CGATCTACTT
*
21323482 CACTGTAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
** * * ** * *
21323526 CACTGCAACTTCAAAAAGATAAGGTTTATGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
* * *
21323570 CATTACAACTTCAGGGAGATAAGAT
1 CACTGCAACTTCAGGAAGATAAGAT
21323595 TTGCTACGAT
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTCAGGAAGATAAGATCTATAACTTCAACCTGCTC
Found at i:21330096 original size:23 final size:23
Alignment explanation
Indices: 21330070--21330114 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21330060 TGGGTATGTG
*
21330070 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
21330093 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
21330115 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:21332055 original size:94 final size:94
Alignment explanation
Indices: 21331894--21332133 Score: 417
Period size: 94 Copynumber: 2.6 Consensus size: 94
21331884 TATGTTAATT
* * *
21331894 GAAGTAAGTTAATTGCCTTATTATAATGAATTAACATTGGCACTATGTGTGAGGAATTAAATGTC
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGAAATTAAATGTC
* *
21331959 ACTTTGTGTGCAGATTTTTTTTGCTATTC
66 ACTTTGTGTGCAGATTTTATATGCTATTC
*
21331988 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAGCATTGGCACTATGTGTGCGAAATTAAATGTC
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGAAATTAAATGTC
21332053 ACTTTGTGTGCAGATTTTATATGCTATTC
66 ACTTTGTGTGCAGATTTTATATGCTATTC
*
21332082 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATATGTGC
1 GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGC
21332134 AGATTTGAAT
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 138 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.40
Consensus pattern (94 bp):
GAAGTAAGTTAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGAAATTAAATGTC
ACTTTGTGTGCAGATTTTATATGCTATTC
Found at i:21345397 original size:53 final size:53
Alignment explanation
Indices: 21345273--21345380 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
21345263 AAATAAAATA
* *
21345273 ACAATGATGATAATAAAAAATGTACCAATAAATGCATGTGTAAAATCCAATTT
1 ACAATGATGATAATAAAAAAAGTACCAATAAAAGCATGTGTAAAATCCAATTT
* *
21345326 ACAATGATGATAATAAAAAAAGTACCGATAAAAGCATGTGTACAATCCAATTT
1 ACAATGATGATAATAAAAAAAGTACCAATAAAAGCATGTGTAAAATCCAATTT
21345379 AC
1 AC
21345381 GAGTATGTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.26
Consensus pattern (53 bp):
ACAATGATGATAATAAAAAAAGTACCAATAAAAGCATGTGTAAAATCCAATTT
Found at i:21345415 original size:16 final size:15
Alignment explanation
Indices: 21345390--21345419 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21345380 CGAGTATGTG
21345390 TAAAAAAATAAAAAA
1 TAAAAAAATAAAAAA
21345405 TAAAAATAATAAAAA
1 TAAAAA-AATAAAAA
21345420 CAAATATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAAAATAAAAAA
Found at i:21345515 original size:19 final size:20
Alignment explanation
Indices: 21345491--21345543 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
21345481 CAAAGGCACA
21345491 AAAAGAAAATAAAA-AAGAT
1 AAAAGAAAATAAAACAAGAT
*
21345510 AAAAGAAAA-AAAAGCACGAT
1 AAAAGAAAATAAAA-CAAGAT
*
21345530 AAAGGAAAATAAAA
1 AAAAGAAAATAAAA
21345544 TAAAAAACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 12 0.41
21 4 0.14
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (20 bp):
AAAAGAAAATAAAACAAGAT
Found at i:21345607 original size:4 final size:4
Alignment explanation
Indices: 21345574--21345619 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
21345564 TAAAAAATGG
* *
21345574 TAAA -AAA T-AA TAAA TAAG TAAA TAAG TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
21345620 GGACTCAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:21351706 original size:27 final size:27
Alignment explanation
Indices: 21351659--21351723 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
21351649 TCGAGACTAT
21351659 CAGGTAGGCGCGACTAATCACGCCTGA
1 CAGGTAGGCGCGACTAATCACGCCTGA
* * *
21351686 CAGGTAGGTGCGGCTAGTCACGCCTGA
1 CAGGTAGGCGCGACTAATCACGCCTGA
21351713 CAGGTAGGCGC
1 CAGGTAGGCGC
21351724 AACACCCCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.28, G:0.35, T:0.15
Consensus pattern (27 bp):
CAGGTAGGCGCGACTAATCACGCCTGA
Found at i:21351916 original size:3 final size:3
Alignment explanation
Indices: 21351898--21351938 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
21351888 AAATGAGAGA
* * *
21351898 AAG AAA AAG GAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21351939 AAAGGTAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21351919 original size:18 final size:18
Alignment explanation
Indices: 21351898--21351943 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
21351888 AAATGAGAGA
21351898 AAGAAAAAGGAGAAGAAG
1 AAGAAAAAGGAGAAGAAG
*
21351916 AAGAAAAAGAAGAAGAAG
1 AAGAAAAAGGAGAAGAAG
21351934 AAGAAAAAGG
1 AAGAAAAAGG
21351944 TAATGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AAGAAAAAGGAGAAGAAG
Found at i:21352112 original size:16 final size:18
Alignment explanation
Indices: 21352076--21352112 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21352066 TAGTGTTTTG
*
21352076 TATTTTGTTATAGTTATT
1 TATTTTGTTATAGTAATT
21352094 TATTTTGTTA-A-TAATT
1 TATTTTGTTATAGTAATT
21352110 TAT
1 TAT
21352113 GGGATTAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TATTTTGTTATAGTAATT
Found at i:21352327 original size:107 final size:107
Alignment explanation
Indices: 21352140--21352552 Score: 556
Period size: 107 Copynumber: 3.9 Consensus size: 107
21352130 TGATAGTGTT
* * * *
21352140 TAGTGTTTTAG-GGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTTAAAAAATAATTTTA
1 TAGTG-TTTAGTGGTATTAGTGTATTATGATTTTTTTAGTAATATATTTTAAAAAAATAATTTTA
21352204 TAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
65 TAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
*
21352247 TAGTGTTTAGTGGT-TTAGTGTATTATGA-TTTTTTAGTAATGTATTTTAAAAAATAATAATTTT
1 TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTTAGTAATATATTTT-AAAAA-AATAATTTT
* *
21352310 ATAGTTATTTTGTTAGTAATTTATGATTAGGTTACATAAATTGC
64 ATAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
*
21352354 TA--G-TTAGT-GTATTAGTGTATTGTGATTTTTTTAGTAATAATATATTTTAAAAAAAATAATT
1 TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTTAG---TAATATATTTT-AAAAAAATAATT
* *
21352415 TTATAGCTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGT
62 TTATAGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
* *
21352461 TAGTGTTTAGTGGT-TTAGTGTATTATGATTTTTTTAGTAATGTA-TTTAAAAAAATAATTTTTT
1 TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTTAGTAATATATTTTAAAAAAATAATTTTAT
* *
21352524 AGTTATTTTGTGTTAGTAATTTATGATTA
66 AGCTA-TTT-TATTAGTAATTTATGATTA
21352553 TAAATTTTAG
Statistics
Matches: 274, Mismatches: 18, Indels: 28
0.86 0.06 0.09
Matches are distributed among these distances:
103 2 0.01
104 18 0.07
105 45 0.16
106 27 0.10
107 136 0.50
108 16 0.06
109 1 0.00
110 27 0.10
111 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.51
Consensus pattern (107 bp):
TAGTGTTTAGTGGTATTAGTGTATTATGATTTTTTTAGTAATATATTTTAAAAAAATAATTTTAT
AGCTATTTTATTAGTAATTTATGATTAGGTTACATAAATTGC
Found at i:21352427 original size:214 final size:210
Alignment explanation
Indices: 21352147--21352552 Score: 674
Period size: 214 Copynumber: 1.9 Consensus size: 210
21352137 GTTTAGTGTT
*
21352147 TTAGGGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTTAAAAAATAATTTTATAGCTATT
1 TTAGGGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTAAAAAAATAATTTTATAGCTATT
21352212 TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGA-T
66 TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGATT
21352276 TTTTTAGTAATGTATTTTAAAAAATAATAATTTTATAGTTA-TTT-TGTTAGTAATTTATGATTA
131 TTTTTAGTAATGTA-TTT-AAAAA-AATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATTA
21352339 GGTTACATAAATTGCTAG
193 GGTTACATAAATTGCTAG
* *
21352357 TTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATAATATATTTTAAAAAAAATAATTTTATAGC
1 TTAGGGTATTAGTGTATTGTG-GTTTTTT--TAATAATATATTTT-AAAAAAATAATTTTATAGC
* *
21352422 TATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAT
62 TATTTTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTAT
*
21352487 GATTTTTTTAGTAATGTATTTAAAAAAATAATTTTTTAGTTATTTTGTGTTAGTAATTTATGATT
127 GATTTTTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATT
21352552 A
192 A
21352553 TAAATTTTAG
Statistics
Matches: 183, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
210 20 0.11
211 6 0.03
212 15 0.08
213 22 0.12
214 105 0.57
215 15 0.08
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (210 bp):
TTAGGGTATTAGTGTATTGTGGTTTTTTTAATAATATATTTTAAAAAAATAATTTTATAGCTATT
TTATTAGTAATTTATGATTAGGTTACATAAATTGCTAGTGTTTAGTGGTTTAGTGTATTATGATT
TTTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTTGTGTTAGTAATTTATGATTAGGT
TACATAAATTGCTAG
Found at i:21354700 original size:24 final size:24
Alignment explanation
Indices: 21354673--21354739 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
21354663 TCCCGACTCA
* *
21354673 TATCTACCTCAGTACTCCAACCCG
1 TATCTACCACCGTACTCCAACCCG
*
21354697 TATCTACCACCGTACTCCGACCCG
1 TATCTACCACCGTACTCCAACCCG
21354721 TATCTACCACCGTACTCCA
1 TATCTACCACCGTACTCCA
21354740 CTCTTTAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.43, G:0.09, T:0.24
Consensus pattern (24 bp):
TATCTACCACCGTACTCCAACCCG
Found at i:21355353 original size:19 final size:19
Alignment explanation
Indices: 21355331--21355370 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
21355321 AGAGAATGAG
21355331 TATTAAAAACAATCAATTT
1 TATTAAAAACAATCAATTT
*
21355350 TATTAAAAACAATTAATTT
1 TATTAAAAACAATCAATTT
21355369 TA
1 TA
21355371 AAATACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTAAAAACAATCAATTT
Found at i:21358423 original size:24 final size:24
Alignment explanation
Indices: 21358378--21358423 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21358368 ACTTCTGTTC
* * *
21358378 TGCTAAATTTTGTGTTTTTTGCAA
1 TGCTAAATTTTCTGTATGTTGCAA
21358402 TGCTAAATTTTCTGTATGTTGC
1 TGCTAAATTTTCTGTATGTTGC
21358424 TCATCTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.17, T:0.52
Consensus pattern (24 bp):
TGCTAAATTTTCTGTATGTTGCAA
Found at i:21359125 original size:11 final size:11
Alignment explanation
Indices: 21359109--21359165 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
21359099 TAAATTAATC
21359109 AAAATTTTTAA
1 AAAATTTTTAA
*
21359120 AAAATTTGTAA
1 AAAATTTTTAA
*
21359131 ATAAA-TATTAA
1 A-AAATTTTTAA
21359142 ATAAATTTTTAA
1 A-AAATTTTTAA
21359154 AAAATTTATTAA
1 AAAATTT-TTAA
21359166 TATTTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
11 26 0.67
12 13 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAAATTTTTAA
Found at i:21359167 original size:23 final size:23
Alignment explanation
Indices: 21359109--21359167 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
21359099 TAAATTAATC
*
21359109 AAAATTT-TTAAAAAATTTGTAA
1 AAAATTTATTAATAAATTTGTAA
*
21359131 ATAAA--TATTAAATAAATTTTTAA
1 A-AAATTTATT-AATAAATTTGTAA
21359154 AAAATTTATTAATA
1 AAAATTTATTAATA
21359168 TTTATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
21 1 0.03
22 6 0.20
23 19 0.63
24 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTTATTAATAAATTTGTAA
Found at i:21373387 original size:37 final size:40
Alignment explanation
Indices: 21373291--21373430 Score: 115
Period size: 40 Copynumber: 3.5 Consensus size: 40
21373281 AACATACTAG
* * * *
21373291 TTTGGCACCCAGTGCCTTATCAGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* ** *
21373331 TTTGACACCCAGTATCTCATCGGCTAAATCAAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
* * *
21373369 -TTGGCACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAA
1 TTTGGCACCCAGTGCCTCATCGGATAAAT-CAAAGTAATAA
* * * *
21373409 ATTGACACCCAATGTCTCATCG
1 TTTGGCACCCAGTGCCTCATCG
21373431 ACTCGAAGTC
Statistics
Matches: 78, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 22 0.28
38 8 0.10
39 1 0.01
40 29 0.37
41 18 0.23
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGATAAATCAAAGTAATAA
Found at i:21382151 original size:43 final size:45
Alignment explanation
Indices: 21382081--21382175 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 45
21382071 CTGCTTTGGG
** * ** *
21382081 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTCACCACCTCAGAA
*
21382126 AGATAAGA-C-TCAATCTTCAACCTGCTCTCTCACCACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTCACCACCTCAGAA
21382169 AGATAAG
1 AGATAAG
21382176 GCCAGTGGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 34 0.79
44 1 0.02
45 8 0.19
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTCACCACCTCAGAA
Found at i:21383838 original size:21 final size:20
Alignment explanation
Indices: 21383814--21383856 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
21383804 TCATTCATTT
* *
21383814 AACAAATCCATAACATGATCA
1 AACAAACCCAAAACATG-TCA
*
21383835 AACACACCCAAAACATGTCA
1 AACAAACCCAAAACATGTCA
21383855 AA
1 AA
21383857 ACAATCATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.53, C:0.28, G:0.05, T:0.14
Consensus pattern (20 bp):
AACAAACCCAAAACATGTCA
Found at i:21384564 original size:40 final size:40
Alignment explanation
Indices: 21384505--21384581 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
21384495 AACACACCAG
* **
21384505 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* * *
21384545 TTTGACACCTAGTGTCTCATCGGCTAAACCGAAGTAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAA
21384582 ATTAACATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:21385571 original size:8 final size:8
Alignment explanation
Indices: 21385558--21385592 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
21385548 GATCAAAATT
21385558 TAATATTA
1 TAATATTA
21385566 TAATATTA
1 TAATATTA
21385574 TAATATTA
1 TAATATTA
21385582 TAATATATA
1 TAATAT-TA
21385591 TA
1 TA
21385593 TTTTAACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TAATATTA
Found at i:21396545 original size:25 final size:25
Alignment explanation
Indices: 21396517--21396567 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21396507 TTCCTTATAA
**
21396517 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21396542 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
21396567 A
1 A
21396568 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:21396566 original size:12 final size:12
Alignment explanation
Indices: 21396520--21396567 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
21396510 CTTATAAACT
21396520 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
21396532 TTCTATTAGGACT
1 TTAAATTAGGA-A
21396545 TTAAATTAGGAA
1 TTAAATTAGGAA
*
21396557 TTAGATTAGGA
1 TTAAATTAGGA
21396568 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:21412406 original size:21 final size:21
Alignment explanation
Indices: 21412382--21412425 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21412372 GTAACATTAA
21412382 ACTAAAGATTAAAGAGTGATT
1 ACTAAAGATTAAAGAGTGATT
21412403 ACTAAAGATTAAAGAGTGATT
1 ACTAAAGATTAAAGAGTGATT
21412424 AC
1 AC
21412426 AACTACTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (21 bp):
ACTAAAGATTAAAGAGTGATT
Found at i:21417773 original size:34 final size:34
Alignment explanation
Indices: 21417733--21417809 Score: 145
Period size: 34 Copynumber: 2.2 Consensus size: 34
21417723 CAAACATACG
21417733 AAGTAATAATTAAATAATGCATGATATACAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAA
21417767 AAGTAATAATTAAATAATGCATGATATACAAAAA
1 AAGTAATAATTAAATAATGCATGATATACAAAAA
21417801 AGAGTAATA
1 A-AGTAATA
21417810 CAATATCAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 35 0.83
35 7 0.17
ACGTcount: A:0.58, C:0.05, G:0.10, T:0.26
Consensus pattern (34 bp):
AAGTAATAATTAAATAATGCATGATATACAAAAA
Found at i:21420457 original size:16 final size:15
Alignment explanation
Indices: 21420436--21420470 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
21420426 TCATAAACTG
21420436 AAATAAAAAATATAAA
1 AAATAAAAAATA-AAA
21420452 AAATAAAAAATAAAA
1 AAATAAAAAATAAAA
21420467 AAAT
1 AAAT
21420471 TGAAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAAATAAAA
Found at i:21422202 original size:40 final size:40
Alignment explanation
Indices: 21422139--21422402 Score: 372
Period size: 40 Copynumber: 6.6 Consensus size: 40
21422129 ATTCGGATTG
* *
21422139 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
21422178 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
21422218 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
21422258 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGGGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
21422298 ATAACCGGGCTAAGTCCCGAAGGCAGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAA-G--GCAATTGTGCGAGTTACT
* *
21422341 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
21422381 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
21422403 TACTTGGTTT
Statistics
Matches: 207, Mismatches: 13, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
39 29 0.14
40 138 0.67
41 1 0.00
42 1 0.00
43 38 0.18
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:21429033 original size:56 final size:56
Alignment explanation
Indices: 21428953--21429073 Score: 217
Period size: 56 Copynumber: 2.2 Consensus size: 56
21428943 GAAAAAAGAA
21428953 AAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAG-AAAAG
1 AAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAAAAAG
21429008 AAAGAAAGAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAAAAAG
1 AAAGAAA-AAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAAAAAG
*
21429065 AAGGAAAAA
1 AAAGAAAAA
21429074 GAGCTTTGAG
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
55 7 0.11
56 45 0.71
57 11 0.17
ACGTcount: A:0.53, C:0.10, G:0.21, T:0.17
Consensus pattern (56 bp):
AAAGAAAAAAAAAAAAGCTCTCATGTTGTTCTTGGCCGAATAGAAGAAAGAAAAAG
Found at i:21430314 original size:40 final size:40
Alignment explanation
Indices: 21430250--21430470 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
21430240 ATTCGGATTC
*
21430250 ATAATCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
21430289 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
21430329 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGGGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21430369 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21430409 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
21430449 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
21430471 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 28 0.17
40 135 0.83
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21431908 original size:14 final size:14
Alignment explanation
Indices: 21431889--21431918 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21431879 CTTATTTTAC
21431889 AATATTTGAATTCT
1 AATATTTGAATTCT
*
21431903 AATATTTGTATTCT
1 AATATTTGAATTCT
21431917 AA
1 AA
21431919 AATAAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
AATATTTGAATTCT
Found at i:21435343 original size:16 final size:16
Alignment explanation
Indices: 21435304--21435377 Score: 73
Period size: 16 Copynumber: 4.7 Consensus size: 16
21435294 AATTTCCCAT
*
21435304 TTTCTTTCTTT-TCTCC
1 TTTCTTTCTTTCTCT-A
21435320 TTTCTTTCTTTC-CTA
1 TTTCTTTCTTTCTCTA
*
21435335 TTTCGTTTCATTCTCTA
1 TTTC-TTTCTTTCTCTA
*
21435352 TTTCTTTCTTTATCT-
1 TTTCTTTCTTTCTCTA
*
21435367 TTTGTTTCTTT
1 TTTCTTTCTTT
21435378 ATTTTATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
15 14 0.28
16 29 0.58
17 7 0.14
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTTCTTTCTCTA
Found at i:21435437 original size:15 final size:15
Alignment explanation
Indices: 21435401--21435430 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
21435391 TATGTTTAAT
21435401 TAATATAATATATTA
1 TAATATAATATATTA
21435416 TAATATAATAATATT
1 TAATATAAT-ATATT
21435431 TTATATATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATATAATATATTA
Found at i:21437577 original size:64 final size:64
Alignment explanation
Indices: 21437371--21437687 Score: 282
Period size: 64 Copynumber: 4.9 Consensus size: 64
21437361 CATAATTTTG
* * * * * *
21437371 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATATGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * * * * * * * ** *
21437434 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACACGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTATCACCCATGTGACCTAGCTACATATATCTCG
21437499 TA
63 TA
*
21437501 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
* * *
21437565 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGATCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTA---CAT-ATATCTC
21437630 GTA
62 GTA
* ** * *
21437633 GCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTATCACCCATGTGACCTAGCTACATA
21437688 CCATCTGTAT
Statistics
Matches: 209, Mismatches: 34, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
63 18 0.09
64 83 0.40
65 3 0.01
66 22 0.11
67 33 0.16
68 48 0.23
69 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCTCGTA
Found at i:21437651 original size:132 final size:128
Alignment explanation
Indices: 21437371--21437687 Score: 316
Period size: 132 Copynumber: 2.4 Consensus size: 128
21437361 CATAATTTTG
* * * * * *
21437371 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATATGACCTAGCCAC-TTTATCTCGTAG
1 GCTCTCTTGTACACATGGTGTACAC-TAGTATCACCCATGTGACCTAGCTACATATATCCCGTAG
* * * * *
21437435 CTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACACGCAACCTAGCTACATTTATCTCGT
65 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACACGCAACCTAGCTACATATATCTCGT
21437500 A
128 A
21437501 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTAC-ACATGGTGTACAC-TAGTATCACCCATGTGACCTAGCTACATATATCCCGTA
* * * * * * *
21437565 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCGATCTAGCTACCTCATAATGTCT
64 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACACGCAACCTAGCTA---CAT-ATATCT
21437629 CGTA
125 CGTA
* ** * *
21437633 GCTCTCTTGTACACATGGTATACATCCCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACA-CTAGTATCACCCATGTGACCTAGCTACATA
21437688 CCATCTGTAT
Statistics
Matches: 155, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
128 22 0.14
129 1 0.01
130 45 0.29
131 31 0.20
132 54 0.35
133 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.32
Consensus pattern (128 bp):
GCTCTCTTGTACACATGGTGTACACTAGTATCACCCATGTGACCTAGCTACATATATCCCGTAGC
TCTCTTGTCTACATGGTGCTACACATAGAACCACACACGCAACCTAGCTACATATATCTCGTA
Found at i:21438171 original size:30 final size:30
Alignment explanation
Indices: 21438137--21438197 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21438127 TCCTTAACTC
21438137 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
21438167 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
21438197 A
1 A
21438198 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:21441298 original size:31 final size:31
Alignment explanation
Indices: 21441263--21441325 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21441253 TACTGTTCGA
21441263 TAGGTACACTTGCCTTCATCGTGATAATAGT
1 TAGGTACACTTGCCTTCATCGTGATAATAGT
21441294 TAGGTACACTTGCCTTCATCGTGATAATAGT
1 TAGGTACACTTGCCTTCATCGTGATAATAGT
21441325 T
1 T
21441326 TGATCCGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (31 bp):
TAGGTACACTTGCCTTCATCGTGATAATAGT
Found at i:21445241 original size:2 final size:2
Alignment explanation
Indices: 21445234--21445263 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21445224 TTAGGATTGA
21445234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21445264 GAGTTTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21445929 original size:25 final size:25
Alignment explanation
Indices: 21445876--21445988 Score: 90
Period size: 25 Copynumber: 4.6 Consensus size: 25
21445866 TTACCGATTG
*
21445876 CAGCTCGTGA-GAGCTTAC-AATTCT
1 CAGCTCGT-ATGAGCTTACTGATTCT
*
21445900 CAGCTCGTATGTGCTTACTGATTCT
1 CAGCTCGTATGAGCTTACTGATTCT
* * *
21445925 TAGCTTGTATGAGCTTACTGGTT-T
1 CAGCTCGTATGAGCTTACTGATTCT
* * * *
21445949 ACAGCTCGTGA-AAGCATACTAATTCA
1 -CAGCTCGT-ATGAGCTTACTGATTCT
21445975 CAGCTCGTATGAGC
1 CAGCTCGTATGAGC
21445989 ATAGATGTAC
Statistics
Matches: 69, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.01
24 17 0.25
25 50 0.72
26 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACTGATTCT
Found at i:21451580 original size:44 final size:43
Alignment explanation
Indices: 21451510--21451667 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 43
21451500 ATGTGTTATT
** * *
21451510 GTGTAAGACCACGTCTAAGACGTTGGCACCGACT-TCTATTTCAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-TATCTATTT-AC
*
21451554 GTGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTT-C
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATCT-ATTTAC
* * * * *
21451596 GTGTAAGACC-CTCTCTGGGACAGTGGCATCGATGTTTAATTAC
1 GTGTAAGACCAC-GTCTGGGACATTGGCATCGATATCTATTTAC
* * *
21451639 ATGTAAGACCACATCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
21451668 TGTATATGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 32 0.34
43 30 0.32
44 31 0.33
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATCTATTTAC
Found at i:21451658 original size:43 final size:42
Alignment explanation
Indices: 21451555--21451672 Score: 105
Period size: 43 Copynumber: 2.8 Consensus size: 42
21451545 CTATTTCACG
** * * * *
21451555 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTTCG
1 TGTAAGACCACATCTGGGACAGTGGCATCGTATCTAATTACA
* * *
21451597 TGTAAGACC-CTCTCTGGGACAGTGGCATCGATGTTTAATTACA
1 TGTAAGACCAC-ATCTGGGACAGTGGCATCG-TATCTAATTACA
*
21451640 TGTAAGACCACATCTGGGAC-GTTGGCATTGTAT
1 TGTAAGACCACATCTGGGACAG-TGGCATCGTAT
21451673 ATGCTTTCTG
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
42 29 0.48
43 31 0.51
44 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACAGTGGCATCGTATCTAATTACA
Found at i:21462356 original size:2 final size:2
Alignment explanation
Indices: 21462343--21462430 Score: 167
Period size: 2 Copynumber: 44.0 Consensus size: 2
21462333 CTAACGAATA
*
21462343 TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21462385 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21462427 TG TG
1 TG TG
21462431 AGAGAGAGAG
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.01, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21467530 original size:2 final size:2
Alignment explanation
Indices: 21467523--21467563 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21467513 TAACATTGTT
21467523 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21467564 TGTTAAATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21469267 original size:3 final size:3
Alignment explanation
Indices: 21469259--21469322 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
21469249 AAATGTATAT
21469259 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21469307 ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
21469323 AAGAAAGAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21469818 original size:8 final size:7
Alignment explanation
Indices: 21469807--21469851 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
21469797 TTGAGTAAAA
21469807 ATTTAAAT
1 ATTT-AAT
21469815 ATTTAAT
1 ATTTAAT
21469822 ATTTAAT
1 ATTTAAT
*
21469829 ATTCAAT
1 ATTTAAT
*
21469836 ATTCAAT
1 ATTTAAT
*
21469843 ATTCAAT
1 ATTTAAT
21469850 AT
1 AT
21469852 GAAATTGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (7 bp):
ATTTAAT
Found at i:21469824 original size:7 final size:7
Alignment explanation
Indices: 21469812--21469851 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
21469802 TAAAAATTTA
*
21469812 AATATTT
1 AATATTC
*
21469819 AATATTT
1 AATATTC
21469826 AATATTC
1 AATATTC
21469833 AATATTC
1 AATATTC
21469840 AATATTC
1 AATATTC
21469847 AATAT
1 AATAT
21469852 GAAATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (7 bp):
AATATTC
Found at i:21469831 original size:14 final size:14
Alignment explanation
Indices: 21469807--21469851 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
21469797 TTGAGTAAAA
*
21469807 ATTTAAATATTTAAT
1 ATTT-AATATTCAAT
21469822 ATTTAATATTCAAT
1 ATTTAATATTCAAT
*
21469836 ATTCAATATTCAAT
1 ATTTAATATTCAAT
21469850 AT
1 AT
21469852 GAAATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 24 0.86
15 4 0.14
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAATATTCAAT
Found at i:21472072 original size:20 final size:20
Alignment explanation
Indices: 21472047--21472089 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
21472037 AAAATAATTA
21472047 AAGAGAAAACAAAGATTCTC
1 AAGAGAAAACAAAGATTCTC
21472067 AAGAGAAAACAAAGATTCTC
1 AAGAGAAAACAAAGATTCTC
21472087 AAG
1 AAG
21472090 TCTTGAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (20 bp):
AAGAGAAAACAAAGATTCTC
Found at i:21478491 original size:22 final size:22
Alignment explanation
Indices: 21478460--21478501 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21478450 CTTTATTCCT
* *
21478460 AATTTCTATATATTAATAAAGG
1 AATTTATATAGATTAATAAAGG
21478482 AATTTATATAGATTAATAAA
1 AATTTATATAGATTAATAAA
21478502 TTAGCATGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
AATTTATATAGATTAATAAAGG
Found at i:21479899 original size:2 final size:2
Alignment explanation
Indices: 21479892--21479920 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21479882 TATTGCATTT
21479892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21479921 TTATTTACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21493385 original size:176 final size:176
Alignment explanation
Indices: 21493084--21493613 Score: 756
Period size: 176 Copynumber: 3.0 Consensus size: 176
21493074 TTTCTTCTTG
* *
21493084 AAGTTGCAGGAAGCAGGCTGAAAATTACAGCTCTTATCTCCATGTATCGGCTATTGAGCAGATCG
1 AAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCG
* *
21493149 AGGATGGTGAGCCTTATCTCCATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
66 AGGATGGCGAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
21493214 TTGAAGTTGTAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTA
131 TTGAAGTTGTAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTA
* *
21493260 AAGTTGTAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGACTATTGAGCAGATCG
1 AAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCG
21493325 AGGATGGCGAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
66 AGGATGGCGAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
* *
21493390 TTGAAGTTGCAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTG
131 TTGAAGTTGTAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTA
* * * *
21493436 AAGTTGCAGGAAGCAAACTGAAAACTACAGATCTTATTTCCATGTATCGGCTATGGAGCAGATCG
1 AAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCG
* * ** * ** * ** * *
21493501 AAGACGGCGAATCTTATCTCTATGTATTGGCAATGGAGCAGATTTAAGTTACTAGCCTTATCTCC
66 AGGATGGCGAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
* * * * * *
21493566 CTGAAGTT-TCAGTGGAGCAGGCTCAAAATTACAAGTGTTATCTTCCTA
131 TTGAAGTTGT-AG-AGAGCAGGTTGAAGA-TACAAGTCTTATCTTCCTA
21493614 GAGTCGCAAT
Statistics
Matches: 317, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
176 289 0.91
177 11 0.03
178 17 0.05
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (176 bp):
AAGTTGCAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATTGAGCAGATCG
AGGATGGCGAGCCTTATCTCTATGTATCGGTTATGGAGCAGATTTTAGCCACTAACCTTATCTCT
TTGAAGTTGTAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTA
Found at i:21495114 original size:21 final size:21
Alignment explanation
Indices: 21495090--21495132 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
21495080 ATTTTCTTAA
*
21495090 ATTTTATATATATATATATAT
1 ATTTTAAATATATATATATAT
* *
21495111 ATTTTAAATTTATTTATATAT
1 ATTTTAAATATATATATATAT
21495132 A
1 A
21495133 ATTTGGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATATATATATAT
Found at i:21498017 original size:14 final size:15
Alignment explanation
Indices: 21497989--21498017 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21497979 GCACAAACAT
21497989 TAAATCTTAAATTTC
1 TAAATCTTAAATTTC
21498004 TAAATCTT-AATTTC
1 TAAATCTTAAATTTC
21498018 AAAAAAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATCTTAAATTTC
Found at i:21498416 original size:21 final size:21
Alignment explanation
Indices: 21498367--21498417 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
21498357 TTAAAATTTA
*
21498367 AAATA-TAAATGTTAAATTCT
1 AAATATTAAATCTTAAATTCT
* *
21498387 AACTCTTAAATCTTAAATAT-T
1 AAATATTAAATCTTAAAT-TCT
21498408 AAATATTAAA
1 AAATATTAAA
21498418 GTTTAATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.83
22 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATATTAAATCTTAAATTCT
Found at i:21498739 original size:24 final size:26
Alignment explanation
Indices: 21498712--21498759 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21498702 TTTTTTTTAT
*
21498712 TAAAT-AAA-AAATTTTAAAATATAA
1 TAAATCAAATAAATTTAAAAATATAA
*
21498736 TAAATCAAATACATTTAAAAATAT
1 TAAATCAAATAAATTTAAAAATAT
21498760 TAAAACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 3 0.15
26 12 0.60
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAATCAAATAAATTTAAAAATATAA
Found at i:21498763 original size:24 final size:25
Alignment explanation
Indices: 21498724--21498770 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21498714 AATAAAAAAT
*
21498724 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAATAAAACAAATACA
*
21498749 TTTAAAA-ATATTAAAACAAATA
1 TTTAAAATATAATAAAACAAATA
21498771 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAATATAATAAAACAAATACA
Found at i:21498769 original size:12 final size:12
Alignment explanation
Indices: 21498754--21498780 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21498744 ATACATTTAA
21498754 AAATATTAAAAC
1 AAATATTAAAAC
21498766 AAATATTAAAAC
1 AAATATTAAAAC
21498778 AAA
1 AAA
21498781 AAAATAAAAA
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:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:21499352 original size:22 final size:21
Alignment explanation
Indices: 21499309--21499353 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
21499299 TAATATTATT
* *
21499309 ATATTAATTTATAATTTTAAA
1 ATATTAATTTATAATATCAAA
21499330 ATATTAATATTATAATATCAAA
1 ATATTAAT-TTATAATATCAAA
21499352 AT
1 AT
21499354 TCTTCGACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTAATTTATAATATCAAA
Found at i:21499930 original size:23 final size:26
Alignment explanation
Indices: 21499877--21499937 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 26
21499867 TGCAGAAACT
*
21499877 TATGACATATTTTAACTTGATATAGAA
1 TATGA-ATATTTCAACTTGATATAGAA
21499904 TATGAATATTTCAA-TT-ATATA-AA
1 TATGAATATTTCAACTTGATATAGAA
*
21499927 TATGAGTATTT
1 TATGAATATTT
21499938 GTTTAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 12 0.38
24 5 0.16
25 2 0.06
26 8 0.25
27 5 0.16
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (26 bp):
TATGAATATTTCAACTTGATATAGAA
Found at i:21500072 original size:22 final size:23
Alignment explanation
Indices: 21500033--21500081 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
21500023 TATTAAGTTT
*
21500033 ATATATGATATTAATTATTACAAA
1 ATATATAATATT-ATTATTACAAA
*
21500057 ATATATAATATT-TTATTATAAA
1 ATATATAATATTATTATTACAAA
21500079 ATA
1 ATA
21500082 AATTTCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATATATAATATTATTATTACAAA
Found at i:21500894 original size:6 final size:6
Alignment explanation
Indices: 21500885--21500909 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21500875 CTTAAATATA
21500885 CAAACT CAAACT CAAACT CAAACT C
1 CAAACT CAAACT CAAACT CAAACT C
21500910 CGAAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CAAACT
Found at i:21508635 original size:24 final size:23
Alignment explanation
Indices: 21508608--21508665 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
21508598 TTATATAATT
*
21508608 ATTTTATATTCATATTATACTTT-A
1 ATTTTATATTCAT-TCATA-TTTAA
*
21508632 ATTTTTTATTCATTCATATTTAAA
1 ATTTTATATTCATTCATATTT-AA
21508656 ATTTTATATT
1 ATTTTATATT
21508666 TATAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 3 0.10
23 4 0.14
24 22 0.76
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTATATTCATTCATATTTAA
Found at i:21509083 original size:17 final size:17
Alignment explanation
Indices: 21509055--21509087 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21509045 CACCCATATT
21509055 ATTTTTTATTATATTTAA
1 ATTTTTTATTAT-TTTAA
21509073 ATTTTTT-TTATTTTA
1 ATTTTTTATTATTTTA
21509088 TTTTAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTATTTTAA
Found at i:21509083 original size:27 final size:27
Alignment explanation
Indices: 21509053--21509135 Score: 71
Period size: 30 Copynumber: 3.0 Consensus size: 27
21509043 CCCACCCATA
21509053 TTATTTTTTATTATATTTAAATTTTTT
1 TTATTTTTTATTATATTTAAATTTTTT
*
21509080 TTATTTTATT-TTAATATTTAATAATTTTAT
1 TTATTTT-TTATT-ATATTT-A-AATTTTTT
** * *
21509110 ACATTTTTTATT-TATTAAAAATTTTT
1 TTATTTTTTATTATATTTAAATTTTTT
21509136 ATATAGTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
26 6 0.13
27 10 0.22
28 12 0.27
29 3 0.07
30 14 0.31
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTTTTTATTATATTTAAATTTTTT
Found at i:21509092 original size:21 final size:21
Alignment explanation
Indices: 21509050--21509098 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
21509040 AGGCCCACCC
21509050 ATATTATTTTTTATTATATTTA
1 ATATT-TTTTTTATTATATTTA
*
21509072 A-ATTTTTTTTATTTTATTTTA
1 ATATTTTTTTTATTATA-TTTA
21509093 ATATTT
1 ATATTT
21509099 AATAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 8 0.33
22 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATATTTTTTTTATTATATTTA
Found at i:21521643 original size:16 final size:16
Alignment explanation
Indices: 21521622--21521660 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21521612 TTTGGTTTGC
21521622 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
**
21521638 TGTAATTTAATAGAGT
1 TGTAATGGAATAGAGT
21521654 TGTAATG
1 TGTAATG
21521661 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:21521891 original size:13 final size:13
Alignment explanation
Indices: 21521873--21521897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21521863 TTAATCATAT
21521873 TTTAATATAATTA
1 TTTAATATAATTA
21521886 TTTAATATAATT
1 TTTAATATAATT
21521898 TAATAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATAATTA
Found at i:21534926 original size:46 final size:46
Alignment explanation
Indices: 21534874--21535008 Score: 182
Period size: 46 Copynumber: 2.9 Consensus size: 46
21534864 GTGTGCTCTC
*
21534874 TGATATGAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGATCATGGTTGAAAGATACCATGGCAACG
*
21534920 TGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGATCATGGTTGAAAGATACCATGGCAACG
* * * * * *
21534966 TGACA-GAAAATGAGTAAGACCATAGTTGGAAGACACTATGGCA
1 TGATATG-AAATGAGTAAGATCATGGTTGAAAGATACCATGGCA
21535009 TCATATCAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 78 0.99
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGATCATGGTTGAAAGATACCATGGCAACG
Done.