Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 158 of 311
Found at i:53799412 original size:27 final size:27
Alignment explanation
Indices: 53799382--53799442 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
53799372 GGCAAAAAGG
*
53799382 TAATTTTACCCCACAAGGGTATTTCGA
1 TAATTTTACCCCACAAGGGTATTTCAA
* * *
53799409 TAATTCTACCCTACAGGGGTATTTCAA
1 TAATTTTACCCCACAAGGGTATTTCAA
53799436 TAATTTT
1 TAATTTT
53799443 TTAAATCGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.38
Consensus pattern (27 bp):
TAATTTTACCCCACAAGGGTATTTCAA
Found at i:53803535 original size:5 final size:5
Alignment explanation
Indices: 53803525--53803568 Score: 58
Period size: 5 Copynumber: 9.4 Consensus size: 5
53803515 GGGAAAAATT
*
53803525 AAAGA AAAGA AAAGA AAAG- AAAGA AAAGG AAAG- AAAG- AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
53803569 GGAATTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
4 12 0.33
5 24 0.67
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:53803549 original size:14 final size:14
Alignment explanation
Indices: 53803525--53803568 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
53803515 GGGAAAAATT
53803525 AAAGAAAAGAAAAGA
1 AAAG-AAAGAAAAGA
*
53803540 AAAGAAAGAAAAGG
1 AAAGAAAGAAAAGA
53803554 AAAGAAAG-AAAGA
1 AAAGAAAGAAAAGA
53803567 AA
1 AA
53803569 GGAATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 6 0.22
14 17 0.63
15 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAGA
Found at i:53804324 original size:14 final size:15
Alignment explanation
Indices: 53804300--53804342 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
53804290 CAACATAATT
53804300 CACAATA-CTCATCA
1 CACAATATCTCATCA
* *
53804314 CAC-ATGTCTCATAA
1 CACAATATCTCATCA
53804328 CACAATATCTCATCA
1 CACAATATCTCATCA
53804343 TAATAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 2 0.09
14 12 0.52
15 9 0.39
ACGTcount: A:0.40, C:0.33, G:0.02, T:0.26
Consensus pattern (15 bp):
CACAATATCTCATCA
Found at i:53812371 original size:71 final size:72
Alignment explanation
Indices: 53812255--53812421 Score: 230
Period size: 71 Copynumber: 2.3 Consensus size: 72
53812245 ACTTTATCAT
* * * * *
53812255 ATAACTGGAGGCCT-AGCCTCTTTTAATTACTGGGGCAAAATCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAGTAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
53812319 GCCCTTTTA
64 GCCCTTTTA
* *
53812328 ATAACTGGGGCATAAG-CCTTTTAGTAACTAGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAGTAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
*
53812392 CCTTTTG
66 CCTTTTA
53812399 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53812422 GCACTTCCTC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 63 0.75
72 11 0.13
73 10 0.12
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAGTAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTTA
Found at i:53812422 original size:24 final size:24
Alignment explanation
Indices: 53812255--53812421 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
53812245 ACTTTATCAT
*
53812255 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
53812280 ATTACTGGGGCAAAATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53812304 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53812328 ATAACTGGGGCATAAG-CCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
53812351 GTAACTAGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
53812375 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53812399 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53812422 GCACTTCCTC
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
23 21 0.17
24 96 0.76
25 10 0.08
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53812566 original size:25 final size:25
Alignment explanation
Indices: 53812534--53812581 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53812524 ATATATAAAC
* * *
53812534 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
53812559 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
53812582 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:53816466 original size:21 final size:20
Alignment explanation
Indices: 53816427--53816466 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53816417 GGCGCTTCTG
*
53816427 TCAAAACCTTCTTCAACTTT
1 TCAAAACCTTCTGCAACTTT
*
53816447 TCAAAAGCCTTCTGCTACTT
1 TCAAAA-CCTTCTGCAACTT
53816467 ATTTGCCCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.38
Consensus pattern (20 bp):
TCAAAACCTTCTGCAACTTT
Found at i:53820735 original size:24 final size:24
Alignment explanation
Indices: 53820543--53820734 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
53820533 GCTTTATCAT
*
53820543 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* * *
53820568 ATTACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53820592 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
53820616 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
53820640 GTAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
*
53820664 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
53820688 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
53820712 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
53820735 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
24 145 0.94
25 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:53825681 original size:10 final size:10
Alignment explanation
Indices: 53825661--53825708 Score: 87
Period size: 10 Copynumber: 4.7 Consensus size: 10
53825651 TGGCAAATTT
53825661 GAAATGTACAC
1 GAAA-GTACAC
53825672 GAAAGTACAC
1 GAAAGTACAC
53825682 GAAAGTACAC
1 GAAAGTACAC
53825692 GAAAGTACAC
1 GAAAGTACAC
53825702 GAAAGTA
1 GAAAGTA
53825709 TTAAAGAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 33 0.89
11 4 0.11
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (10 bp):
GAAAGTACAC
Found at i:53826926 original size:28 final size:28
Alignment explanation
Indices: 53826867--53826964 Score: 99
Period size: 28 Copynumber: 3.5 Consensus size: 28
53826857 TGTTTCGGAG
* *
53826867 GACTTCCACATTTAAGATCATACA-GATG
1 GACTTCCACGTTTAAGATCAT-CATGATA
*
53826895 GACTTCCACGTTTAAGATCATCATCATA
1 GACTTCCACGTTTAAGATCATCATGATA
* * * * *
53826923 GACTTACACGATTAAGATCGTCCTGACA
1 GACTTCCACGTTTAAGATCATCATGATA
*
53826951 AACTTCCACGTTTA
1 GACTTCCACGTTTA
53826965 TGGTACTACC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 2 0.04
28 55 0.96
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (28 bp):
GACTTCCACGTTTAAGATCATCATGATA
Found at i:53827580 original size:42 final size:41
Alignment explanation
Indices: 53827500--53827580 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 41
53827490 GTGCACGTTT
53827500 CACATGGCCAAGACACACGCCCGTGTTCTAGGCCGTGTAGCA
1 CACATGGCCAAGACACACGCCCGTGTTCTA-GCCGTGTAGCA
** *
53827542 CACATGGCTGAGACACACGTCCGTGTCTCT-GCCTGTGTA
1 CACATGGCCAAGACACACGCCCGTGT-TCTAGCC-GTGTA
53827581 CTCAATTCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 3 0.09
42 28 0.82
43 3 0.09
ACGTcount: A:0.21, C:0.32, G:0.26, T:0.21
Consensus pattern (41 bp):
CACATGGCCAAGACACACGCCCGTGTTCTAGCCGTGTAGCA
Found at i:53840777 original size:27 final size:27
Alignment explanation
Indices: 53840719--53840808 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
53840709 AAGAAGCATC
53840719 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
53840747 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
53840774 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
53840803 CTGGTG
1 CTGGTG
53840809 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:53840827 original size:55 final size:56
Alignment explanation
Indices: 53840719--53840833 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
53840709 AAGAAGCATC
* *
53840719 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
53840774 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
53840830 CTGG
1 CTGG
53840834 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:53843958 original size:42 final size:43
Alignment explanation
Indices: 53843892--53844033 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 43
53843882 AGCTCGTACA
* ***
53843892 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCATCGTCCCAGACAAGGTCTTACATGTAATCAAATATCG
* *
53843935 ATGCCA-CTGTCTCA-ACAAGGTCTTACATGAAATCAAATA-CG
1 ATGCCATC-GTCCCAGACAAGGTCTTACATGTAATCAAATATCG
* * *
53843976 ATGCCATCGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCATCGTCCCAGACAAGGTCTTACATGT-AATCA-AATATCG
*
53844020 ATGCCAACGTCCCA
1 ATGCCATCGTCCCA
53844034 AATGTGGTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
41 13 0.16
42 36 0.44
43 16 0.20
44 17 0.21
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCATCGTCCCAGACAAGGTCTTACATGTAATCAAATATCG
Found at i:53854084 original size:17 final size:18
Alignment explanation
Indices: 53854057--53854090 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53854047 AATTAAATAT
53854057 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
53854075 ATGC-TATTAATTTATT
1 ATGCATATTAAATTATT
53854091 TAAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:53854204 original size:25 final size:25
Alignment explanation
Indices: 53854170--53854220 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
53854160 ATTATAATAG
*
53854170 ATATAATTATATATTAAAGA-TTATC
1 ATATAATTAT-TATTAAAAACTTATC
*
53854195 ATATTATTATTATTAAAAACTTATC
1 ATATAATTATTATTAAAAACTTATC
53854220 A
1 A
53854221 AATGAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
ATATAATTATTATTAAAAACTTATC
Found at i:53859270 original size:28 final size:27
Alignment explanation
Indices: 53859229--53859318 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 27
53859219 AGGAAGCGTC
53859229 CTGGTGGCTA-TGCCAAAAATTATCTGTT
1 CTGGTGGC-ACTGCCAAAAA-TATCTGTT
* * *
53859257 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCAAAAATATCTGTT
*
53859284 CTGGTGGCACTGCCATAACATATCTGTAT
1 CTGGTGGCACTGCCA-AAAATATCTGT-T
53859313 CTGGTG
1 CTGGTG
53859319 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCAAAAATATCTGTT
Found at i:53859287 original size:27 final size:28
Alignment explanation
Indices: 53859249--53859318 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
53859239 TGCCAAAAAT
* * *
53859249 TATCTGTTCTGGTGGCCCTGCCA-CATA
1 TATCTGTTCTGGTGGCACTGCCATAACA
53859276 TATCTGTTCTGGTGGCACTGCCATAACA
1 TATCTGTTCTGGTGGCACTGCCATAACA
53859304 TATCTGTATCTGGTG
1 TATCTGT-TCTGGTG
53859319 ACTCTGTCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 22 0.58
28 9 0.24
29 7 0.18
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (28 bp):
TATCTGTTCTGGTGGCACTGCCATAACA
Found at i:53867097 original size:27 final size:27
Alignment explanation
Indices: 53867039--53867128 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
53867029 AGGAAGCGTC
53867039 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
53867067 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
53867094 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
53867123 CTGGTG
1 CTGGTG
53867129 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:53867147 original size:55 final size:56
Alignment explanation
Indices: 53867039--53867153 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
53867029 AGGAAGCGTC
* *
53867039 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
53867094 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
53867150 CTGG
1 CTGG
53867154 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:53869296 original size:46 final size:46
Alignment explanation
Indices: 53869229--53869441 Score: 216
Period size: 46 Copynumber: 4.8 Consensus size: 46
53869219 TGTAACCCGC
* * *
53869229 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
53869275 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-A-TTCGCAT
* * *
53869325 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
53869368 CCGTAAGTG-ACTCGG-----ACTCAACGAGTTC-GG-ATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
53869406 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
53869442 ATGCTAGTTC
Statistics
Matches: 140, Mismatches: 11, Indels: 33
0.76 0.06 0.18
Matches are distributed among these distances:
38 17 0.12
39 7 0.05
40 13 0.09
42 2 0.01
43 4 0.03
44 15 0.11
45 9 0.06
46 35 0.25
47 28 0.20
48 3 0.02
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:53869411 original size:38 final size:40
Alignment explanation
Indices: 53869343--53869428 Score: 149
Period size: 38 Copynumber: 2.2 Consensus size: 40
53869333 CTCGGACTCA
53869343 ACTCAACGAGTTCGGACATTCGCATCCGTAAGTG-ACTCGG
1 ACTCAACGAGTTCGGA-ATTCGCATCCGTAAGTGAACTCGG
53869383 ACTCAACGAGTTCGG-ATTCGCATCCGTAAGTGAACTCGG
1 ACTCAACGAGTTCGGAATTCGCATCCGTAAGTGAACTCGG
53869422 ACTCAAC
1 ACTCAAC
53869429 TCAACGAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
38 17 0.38
39 13 0.29
40 15 0.33
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCAACGAGTTCGGAATTCGCATCCGTAAGTGAACTCGG
Found at i:53869538 original size:131 final size:130
Alignment explanation
Indices: 53869236--53869527 Score: 336
Period size: 131 Copynumber: 2.2 Consensus size: 130
53869226 CGCCCATAAG
* **
53869236 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGATG-TCGCATCCATAAGTGAACTCGGACTCAACTCA
*
53869301 ACGAGTTCGGATGCCTAGTTACATCTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC
65 ACGAGTTCGGATGCCTAGTTACATCTCACGAACT--GACTCAACTCAACGAGTTCGGACATTAGC
53869366 ATC
128 ATC
* * *
53869369 CGTAAGT--GACTCGGACTCAACGAGTTCGGAT-TCGCATCCGTAAGTGAACTCGGACTCAACTC
1 CG-AACTCGGACTC-AACTCAACGAGTTCGGATGTCGCATCCATAAGTGAACTCGGACTCAACTC
53869431 AACGAGTTCGGATG-CTAGTT-CAT-TCACGAACT-ACTCAACTC-A-G-GTTCGGATGCCTAGT
64 AACGAGTTCGGATGCCTAGTTACATCTCACGAACTGACTCAACTCAACGAGTTCGGA---C-A-T
*
53869489 TAATC-TC
124 T-AGCATC
53869496 CGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CGAACTCGGACTCAACTCAACGAGTTCGGATG
53869528 CTCAACCATC
Statistics
Matches: 138, Mismatches: 10, Indels: 27
0.79 0.06 0.15
Matches are distributed among these distances:
122 7 0.05
123 1 0.01
124 1 0.01
125 10 0.07
126 4 0.03
127 23 0.17
128 15 0.11
129 3 0.02
130 6 0.04
131 44 0.32
132 5 0.04
133 16 0.12
134 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (130 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGATGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCACGAACTGACTCAACTCAACGAGTTCGGACATTAGCATC
Found at i:53876016 original size:46 final size:46
Alignment explanation
Indices: 53875949--53876121 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
53875939 TGTAACCCGC
*
53875949 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
53875995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
53876045 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
53876088 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
53876122 TCATCGATCG
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:53888070 original size:47 final size:47
Alignment explanation
Indices: 53888007--53888310 Score: 421
Period size: 47 Copynumber: 6.4 Consensus size: 47
53887997 CCCTTCGGGA
* * *
53888007 CTTATCACATTTATACACTTTCACA-TCTATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCACTCGGC
* * *
53888054 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
53888101 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
53888148 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
53888195 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
53888242 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
53888291 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
53888311 GTACATCAAT
Statistics
Matches: 237, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 190 0.80
48 2 0.01
49 45 0.19
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:53899457 original size:44 final size:43
Alignment explanation
Indices: 53899392--53899518 Score: 146
Period size: 44 Copynumber: 2.9 Consensus size: 43
53899382 CATGTATCGT
* * * * *
53899392 ATCCATTATGAACTCAGACCAACTCAACGAGTTCGGATGCTCGC
1 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGC-CGC
*
53899436 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCTC
1 ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCGC
** *
53899479 ATATATATCACGAACCCAAACCAACTCAATGAGTTTGGAT
1 ATCCATA--ATGAACCCAAACCAACTCAATGAGTTTGGAT
53899519 TTCTTAATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 7 0.10
44 35 0.49
45 30 0.42
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
ATCCATAATGAACCCAAACCAACTCAATGAGTTTGGATGCCGC
Found at i:53902904 original size:79 final size:81
Alignment explanation
Indices: 53902768--53902950 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
53902758 TCGAATGATG
* *
53902768 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
53902832 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
53902847 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
53902909 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
53902927 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
53902951 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:53902966 original size:40 final size:40
Alignment explanation
Indices: 53902769--53902952 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
53902759 CGAATGATGT
* * * *
53902769 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
53902809 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
53902849 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53902887 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
53902928 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
53902953 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:53902974 original size:79 final size:79
Alignment explanation
Indices: 53902821--53902985 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
53902811 GGACTAAGAT
* **
53902821 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
53902886 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
53902900 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
53902963 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53902979 CCGAAGG
1 CCGAAGG
53902986 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53911082 original size:40 final size:40
Alignment explanation
Indices: 53910941--53911125 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
53910931 TCGAATGATG
* * * *
53910941 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
53910981 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
53911021 TACGGGCTAA-TCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
53911060 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
53911101 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
53911126 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 31 0.26
40 80 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:53911147 original size:79 final size:79
Alignment explanation
Indices: 53910994--53911158 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
53910984 GGACTAAGAT
* * **
53910994 CCGAAGGCATTTGTGTGAGATACTAATTACGGGCTAATCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAATCCCGAAGGCATTGGAACGAGTTACTAA
*
53911059 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
53911073 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAATAA-CGGGCTA-ATCCCGAAGGCATTGGAACGAGTTA-C
* *
53911136 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
53911152 CCGAAGG
1 CCGAAGG
53911159 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATAACGGGCTAATCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:53921297 original size:49 final size:50
Alignment explanation
Indices: 53921168--53921300 Score: 137
Period size: 49 Copynumber: 2.7 Consensus size: 50
53921158 TACAAGATGT
* *
53921168 GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGAGATGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACATGATA
* * * * * * *
53921218 G-CTAGTGTAAGACCATGTCCGAGAAATGGCATTGGCTTC-GA-TCTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGACATGATA
*
53921267 GTCAGTGTAAGACCATGTCTGGGACTTGGCATCG
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
53921301 ACTTAATGGA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
49 33 0.50
50 32 0.48
51 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACATGATA
Found at i:53935182 original size:27 final size:26
Alignment explanation
Indices: 53935152--53935214 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
53935142 ATTTACTAAA
53935152 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCT-AG-ATGCAAAATTACCATT
*
53935179 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
*
53935205 ATACCGCTAG
1 ATACCCCTAG
53935215 GGTTAATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 23 0.70
27 8 0.24
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:53935361 original size:27 final size:28
Alignment explanation
Indices: 53935323--53935407 Score: 120
Period size: 27 Copynumber: 3.1 Consensus size: 28
53935313 AAGCGTTCTA
*
53935323 GTGGCTCTGCCACAAATATCTG-ATCTG
1 GTGGCTATGCCACAAATATCTGTATCTG
* * *
53935350 GTGGCTTTGCCACAAATATCTGTTTCTA
1 GTGGCTATGCCACAAATATCTGTATCTG
53935378 GTGGCTATGCCAC-AATATCTGTATCTG
1 GTGGCTATGCCACAAATATCTGTATCTG
53935405 GTG
1 GTG
53935408 ACTCTATCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 36 0.71
28 15 0.29
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (28 bp):
GTGGCTATGCCACAAATATCTGTATCTG
Found at i:53935425 original size:54 final size:55
Alignment explanation
Indices: 53935318--53935427 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 55
53935308 GGAGGAAGCG
* * * *
53935318 TTCTAGTGGCTCTGCCACAAATATCTGATCTGGTGGCTTTGCCACAAATATCTGT
1 TTCTAGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTGT
*
53935373 TTCTAGTGGCTATGCCAC-AATATCTGTATCTGGTGACTCTATCAC-AATATCTGT
1 TTCTAGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTACCACAAATATCTGT
53935427 T
1 T
53935428 CTGGCAGCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 18 0.37
55 31 0.63
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (55 bp):
TTCTAGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACAAATATCTGT
Found at i:53943028 original size:27 final size:26
Alignment explanation
Indices: 53942998--53943054 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
53942988 ATTTACTAAG
53942998 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCT-AG-ATGCAAAATTACCATT
*
53943025 ATACCCCTAGGTGCAAAATTACCATT
1 ATACCCCTAGATGCAAAATTACCATT
53943051 ATAC
1 ATAC
53943055 TACTAGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 2 0.07
26 18 0.64
27 8 0.29
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.28
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCATT
Found at i:53943203 original size:27 final size:27
Alignment explanation
Indices: 53943165--53943277 Score: 158
Period size: 27 Copynumber: 4.2 Consensus size: 27
53943155 GAGGAAGCGT
53943165 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
53943192 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
53943220 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
53943247 TCTAGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
53943273 TCTGG
1 TCTGG
53943278 CAGCCATGCC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 4 0.05
27 58 0.73
28 17 0.22
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:53943259 original size:55 final size:53
Alignment explanation
Indices: 53943163--53943277 Score: 169
Period size: 55 Copynumber: 2.1 Consensus size: 53
53943153 TGGAGGAAGC
* *
53943163 GTTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCAC-AATATCT
*
53943217 GTTTCTGGTGGCTCTGCCAC-AATATCTGTATCTAGTGACTCTGTCACAATATCT
1 G-TTCTGGTGGCTCTGCCACAAATATCTG-ATCTAGTGACTCTGCCACAATATCT
53943271 GTTCTGG
1 GTTCTGG
53943278 CAGCCATGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
53 6 0.11
54 17 0.30
55 33 0.59
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
GTTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAATATCT
Found at i:53953226 original size:10 final size:10
Alignment explanation
Indices: 53953206--53953241 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
53953196 CATGGGCTTA
*
53953206 GGCCTTTTTG
1 GGCCATTTTG
*
53953216 GACCATTTTG
1 GGCCATTTTG
53953226 GGCCATTTTG
1 GGCCATTTTG
53953236 GGCCAT
1 GGCCAT
53953242 ATTCGGTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.11, C:0.22, G:0.28, T:0.39
Consensus pattern (10 bp):
GGCCATTTTG
Found at i:53957093 original size:25 final size:25
Alignment explanation
Indices: 53957063--53957114 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
53957053 CCAAAAGTGT
53957063 ACCAAAAGGGGCTTTGATAGTGTGG
1 ACCAAAAGGGGCTTTGATAGTGTGG
53957088 ACCAAAAGGGGCTTTGATAGTGTGG
1 ACCAAAAGGGGCTTTGATAGTGTGG
53957113 AC
1 AC
53957115 GACTTCGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (25 bp):
ACCAAAAGGGGCTTTGATAGTGTGG
Found at i:53957575 original size:40 final size:40
Alignment explanation
Indices: 53957505--53957722 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
53957495 AAGCCAGGTA
* * * *
53957505 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
53957544 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53957584 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53957624 CCTTTGGGGCTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * **
53957664 CCTTCAGGACTTAGCCCGGA-ACTAGTCACTAGTGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53957704 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53957723 TTATCATCCG
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 13 0.08
40 143 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53967518 original size:42 final size:43
Alignment explanation
Indices: 53967407--53967562 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
53967397 TATGTGTTAA
* * * * * *
53967407 GTAAGACCACGTCTGGGATATTGGCAGCAATTTGTGATTTATGT
1 GTAAGACCATGTCTGGGACATTGGCATCAATATATGA-TTACGT
* *
53967451 GTAAGACCATGTCTAGGG-CATTGGCATC-GTATATGATTTCGT
1 GTAAGACCATGTCT-GGGACATTGGCATCAATATATGATTACGT
* * * * *
53967493 GTAAGACCCTGTATGGGACAGTGGCATCAATATTTGATTACAT
1 GTAAGACCATGTCTGGGACATTGGCATCAATATATGATTACGT
*
53967536 GTAAGACCAAGTCTGGGACATTGGCAT
1 GTAAGACCATGTCTGGGACATTGGCAT
53967563 TGTAGGAGCT
Statistics
Matches: 90, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
41 3 0.03
42 25 0.28
43 38 0.42
44 21 0.23
45 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GTAAGACCATGTCTGGGACATTGGCATCAATATATGATTACGT
Found at i:53971308 original size:28 final size:27
Alignment explanation
Indices: 53971276--53971338 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
53971266 CTCAAATACT
53971276 AAGTGCCATACTCAATATCTCGCACACC
1 AAGTGCCATACT-AATATCTCGCACACC
* * * * *
53971304 AAGTGCCATTCTTATATTTCTCACACT
1 AAGTGCCATACTAATATCTCGCACACC
53971331 AAGTGCCA
1 AAGTGCCA
53971339 CATATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (27 bp):
AAGTGCCATACTAATATCTCGCACACC
Found at i:53973776 original size:25 final size:25
Alignment explanation
Indices: 53973730--53973800 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
53973720 GAGGAAGTGC
* *
53973730 AAAAGGGCTTTTGCCCTAGTTTACCG
1 AAAAGGGC-TTTGCCCCAGTTTACCA
* *
53973756 AAAAGGGCTTTGCCCCGGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
53973781 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
53973801 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 32 0.80
26 8 0.20
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:53973813 original size:24 final size:24
Alignment explanation
Indices: 53973729--53973827 Score: 69
Period size: 25 Copynumber: 4.0 Consensus size: 24
53973719 GGAGGAAGTG
* *
53973729 CAAAAG-GGCTTTTGCCCTAGTTTAC
1 CAAAAGAGGC-TTTGCCCCAG-TTAT
*
53973754 CGAAAAG-GGCTTTGCCCCGGTTTAT
1 C-AAAAGAGGCTTTGCCCCAG-TTAT
53973779 CAAAA-AGGGCTTTGCCCCAGTTAT
1 CAAAAGA-GGCTTTGCCCCAGTTAT
* **
53973803 TAAAAGAGGCTAGGCCTCCAGTTAT
1 CAAAAGAGGCTTTGCC-CCAGTTAT
53973828 ATGATAAAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 19 0.31
25 35 0.56
26 8 0.13
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
CAAAAGAGGCTTTGCCCCAGTTAT
Found at i:53974057 original size:30 final size:31
Alignment explanation
Indices: 53974021--53974103 Score: 134
Period size: 30 Copynumber: 2.7 Consensus size: 31
53974011 CATTTACAGT
53974021 AAAGGCTTCGGCCCAGTGATATG-ATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
53974051 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
53974082 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
53974104 TTGAGATTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 26 0.53
31 23 0.47
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:53974086 original size:31 final size:30
Alignment explanation
Indices: 53974021--53974098 Score: 129
Period size: 31 Copynumber: 2.6 Consensus size: 30
53974011 CATTTACAGT
*
53974021 AAAGGCTTCGGCCCAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
*
53974051 AAAGGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
53974082 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
53974099 ATATGTTGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 22 0.49
31 23 0.51
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.21
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:53981508 original size:89 final size:89
Alignment explanation
Indices: 53981344--53981517 Score: 215
Period size: 89 Copynumber: 2.0 Consensus size: 89
53981334 TTGAGCACAT
* * * *
53981344 GTGTAACATCCCGAATTAGGGCCTAGTCAGAATAGTGGTTTTGAGACCATAAATCCGAGATAAAA
1 GTGTAACAGCCCGAATTAGGGCCTAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAAA
* *
53981409 ATAATGATTTTATGATTATTATGA
66 ATAAAGATTTTATCATTATTATGA
* * * * **
53981433 GTGTAACAGCCCGATTTATGGCCTAGTCAGAATAGTGGTCTTGGGGCCACAAATCCGAAAT-TGA
1 GTGTAACAGCCCGAATTAGGGCCTAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAAA
*
53981497 CTAAAGTATTTTATCATTATT
66 ATAAAG-ATTTTATCATTATT
53981518 TTGGAGTCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
88 5 0.07
89 66 0.93
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.32
Consensus pattern (89 bp):
GTGTAACAGCCCGAATTAGGGCCTAGTCAGAATAGTGGTCTTGAGACCACAAATCCGAAATAAAA
ATAAAGATTTTATCATTATTATGA
Found at i:53988236 original size:27 final size:27
Alignment explanation
Indices: 53988206--53988400 Score: 222
Period size: 27 Copynumber: 7.2 Consensus size: 27
53988196 GTGACGAAAT
53988206 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
53988233 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
53988260 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
53988287 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
53988314 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
* *
53988341 CGCCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
53988368 CACCAAAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
53988395 CACCAG
1 CACCAG
53988401 GATGATTCCT
Statistics
Matches: 142, Mismatches: 15, Indels: 22
0.79 0.08 0.12
Matches are distributed among these distances:
26 12 0.08
27 124 0.87
28 6 0.04
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:53988309 original size:81 final size:81
Alignment explanation
Indices: 53988206--53988400 Score: 249
Period size: 81 Copynumber: 2.4 Consensus size: 81
53988196 GTGACGAAAT
53988206 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGAACAGATATAT-GTGGCAGAGCCACCA-GAT
1 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGAACAGATA-ATCGTGGCAGAGCCACCAGGA-
*
53988268 CAGATA-ATCGTGGCATAGC
63 CAGATATAT-GTGGCAGAGC
* * *
53988287 CACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCGCCAGGACAG
1 CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATCGTGGCAGAGCCACCAGGACAG
53988352 ATATATGTGGCAGAGC
66 ATATATGTGGCAGAGC
*
53988368 CACCA-AATCAGATA-ATTGTGGCATAGCCACCAG
1 CACCAGAA-CAGATATA-TGTGGCAGAGCCACCAG
53988401 GATGATTCCT
Statistics
Matches: 103, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
80 13 0.13
81 86 0.83
82 4 0.04
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (81 bp):
CACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATAATCGTGGCAGAGCCACCAGGACAG
ATATATGTGGCAGAGC
Found at i:53988402 original size:54 final size:54
Alignment explanation
Indices: 53988206--53988400 Score: 320
Period size: 54 Copynumber: 3.6 Consensus size: 54
53988196 GTGACGAAAT
* *
53988206 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
53988260 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
53988314 CACCAGATCAGATAATCGTGGCATAGCCGCCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
53988368 CACCAAATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
53988401 GATGATTCCT
Statistics
Matches: 133, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
53 5 0.04
54 128 0.96
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:53991072 original size:39 final size:39
Alignment explanation
Indices: 53991018--53991155 Score: 179
Period size: 39 Copynumber: 3.5 Consensus size: 39
53991008 GACATAAGGA
*
53991018 GCTATATGCTGGAAAAATATCTGGACATGAGATCCGTAG
1 GCTATATGCTGGAAAAATATCCGGACATGAGATCCGTAG
*
53991057 GCTATATGCTGGAAAAATATCCGGACATGAGATCCGCAG
1 GCTATATGCTGGAAAAATATCCGGACATGAGATCCGTAG
* * * * *
53991096 GCTATATGCTAGAAATATATCCGGACTTGAGGTCCACT-G
1 GCTATATGCTGGAAAAATATCCGGACATGAGATCC-GTAG
**
53991135 GCTACGTGCTGGAAAAATATC
1 GCTATATGCTGGAAAAATATC
53991156 TGGGTTAAAG
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (39 bp):
GCTATATGCTGGAAAAATATCCGGACATGAGATCCGTAG
Found at i:53993128 original size:26 final size:26
Alignment explanation
Indices: 53993097--53993204 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
53993087 TGAAATTCCC
53993097 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
53993123 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
53993149 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
53993175 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
53993201 ATCA
1 ATCA
53993205 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:53998371 original size:27 final size:28
Alignment explanation
Indices: 53998341--53998517 Score: 136
Period size: 27 Copynumber: 6.2 Consensus size: 28
53998331 GTGAGGAAGT
*
53998341 CACCAGATACAGATAT-TGTGGCAGAAC
1 CACCAGATACAGATATATGTGGCAGAGC
* *
53998368 CACCAGA-ATAGATATATGTGGCATAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* *
53998395 CACCAGAT-CAGATA-ATCATGGCA-TGC
1 CACCAGATACAGATATAT-GTGGCAGAGC
*
53998421 CACCAGA-ACAGATATATGTGGCATAGC
1 CACCAGATACAGATATATGTGGCAGAGC
53998448 CACCAGATAATTATGGCACAGATATATGTGGCAGAGC
1 CACCAG------AT---ACAGATATATGTGGCAGAGC
*
53998485 CACCAGAT-CAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
53998512 CACCAG
1 CACCAG
53998518 GATGCTTCCT
Statistics
Matches: 123, Mismatches: 10, Indels: 34
0.74 0.06 0.20
Matches are distributed among these distances:
26 30 0.24
27 65 0.53
31 2 0.02
33 1 0.01
37 25 0.20
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:53998407 original size:53 final size:54
Alignment explanation
Indices: 53998341--53998456 Score: 166
Period size: 53 Copynumber: 2.2 Consensus size: 54
53998331 GTGAGGAAGT
** *
53998341 CACCAGATACAGAT-ATTGTGGCA-GAACCACCAGAATAGATATATGTGGCATAGC
1 CACCAGATACAGATAATCATGGCATG--CCACCAGAACAGATATATGTGGCATAGC
53998395 CACCAGAT-CAGATAATCATGGCATGCCACCAGAACAGATATATGTGGCATAGC
1 CACCAGATACAGATAATCATGGCATGCCACCAGAACAGATATATGTGGCATAGC
53998448 CACCAGATA
1 CACCAGATA
53998457 ATTATGGCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
53 40 0.71
54 15 0.27
55 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (54 bp):
CACCAGATACAGATAATCATGGCATGCCACCAGAACAGATATATGTGGCATAGC
Found at i:53998432 original size:26 final size:27
Alignment explanation
Indices: 53998341--53998454 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
53998331 GTGAGGAAGT
* *
53998341 CACCAGATACAGATAT-TGTGGCAGAAC
1 CACCAGA-ACAGATATATGTGGCATAGC
*
53998368 CACCAGAATAGATATATGTGGCATAGC
1 CACCAGAACAGATATATGTGGCATAGC
* *
53998395 CACCAGATCAGATA-ATCATGGCAT-GC
1 CACCAGAACAGATATAT-GTGGCATAGC
53998421 CACCAGAACAGATATATGTGGCATAGC
1 CACCAGAACAGATATATGTGGCATAGC
53998448 CACCAGA
1 CACCAGA
53998455 TAATTATGGC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 30 0.40
27 45 0.60
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCATAGC
Found at i:53998464 original size:22 final size:21
Alignment explanation
Indices: 53998403--53998465 Score: 54
Period size: 26 Copynumber: 2.7 Consensus size: 21
53998393 GCCACCAGAT
*
53998403 CAGATAATCATGGCATGCCAC
1 CAGATAATTATGGCATGCCAC
*
53998424 CAGAACAGATATATGTGGCATAGCCAC
1 CAG-ATA-AT-TA--TGGCAT-GCCAC
53998451 CAGATAATTATGGCA
1 CAGATAATTATGGCA
53998466 CAGATATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
21 3 0.09
22 7 0.21
23 2 0.06
24 3 0.09
25 2 0.06
26 8 0.24
27 8 0.24
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (21 bp):
CAGATAATTATGGCATGCCAC
Found at i:54000147 original size:26 final size:26
Alignment explanation
Indices: 54000116--54000223 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
54000106 TGAAATGCCC
54000116 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
54000142 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
54000168 ATCATGG-ACTATTTACCTAATCCATT
1 ATCATGGAAC-ATTTACCTAAACCATT
54000194 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
54000220 ATCA
1 ATCA
54000224 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.07
26 69 0.91
27 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:54002877 original size:34 final size:32
Alignment explanation
Indices: 54002783--54002878 Score: 104
Period size: 34 Copynumber: 2.9 Consensus size: 32
54002773 CTATGGGCCA
* *
54002783 TACTGTTATCTGAAAAGGGGCTGAGGCCCAGTT
1 TACTGTTATCTGAAAA-GGGCTTAGGCCCAGTC
* *
54002816 TACT-TTATTTTGAAAAGGGCTTCGGCCCAGTACC
1 TACTGTTA-TCTGAAAAGGGCTTAGGCCCAGT--C
*
54002850 TACTGTTATCTGAATAGGGCTTAGGCCCA
1 TACTGTTATCTGAAAAGGGCTTAGGCCCA
54002879 ATGGGCTCGG
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
32 16 0.31
33 11 0.21
34 22 0.42
35 3 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (32 bp):
TACTGTTATCTGAAAAGGGCTTAGGCCCAGTC
Found at i:54004645 original size:46 final size:46
Alignment explanation
Indices: 54004484--54004657 Score: 147
Period size: 46 Copynumber: 3.8 Consensus size: 46
54004474 TGTAACCCGC
* * ** * *
54004484 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
* * * * * * * *
54004530 CTATGAGTGAACTCGGATTCAACTCAACGAGTTTGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGA--AC-ATTTGCAT
*
54004580 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
*
54004623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
54004658 GATGCTCAAC
Statistics
Matches: 98, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.58
47 24 0.24
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCAT
Found at i:54004650 original size:93 final size:93
Alignment explanation
Indices: 54004491--54004662 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
54004481 CGCCCATAAG
** * * * *
54004491 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATGAGTGAACTCGGATTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
54004556 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
54004584 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54004649 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54004663 TCAACCATCC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54004678 original size:46 final size:45
Alignment explanation
Indices: 54004535--54004678 Score: 109
Period size: 46 Copynumber: 3.1 Consensus size: 45
54004525 CGCATCTATG
* *
54004535 AGTGAACTCGGATTCAACTCAACGAGTTTGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * * *
54004582 CA-CGAACTCGGACTCAACTCAACGAGTTCGAACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCT-CAACCATCT
54004628 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
54004674 AGTGA
1 AGTGA
54004679 CATGTCACTT
Statistics
Matches: 75, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 32 0.43
47 28 0.37
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:54006615 original size:20 final size:20
Alignment explanation
Indices: 54006586--54006626 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
54006576 AAATTCCTTT
54006586 TCCTTAGTGCCGATTTCTTC
1 TCCTTAGTGCCGATTTCTTC
* *
54006606 TCCTTGGTGCTGATTTCTTC
1 TCCTTAGTGCCGATTTCTTC
54006626 T
1 T
54006627 TCCTCTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.07, C:0.27, G:0.17, T:0.49
Consensus pattern (20 bp):
TCCTTAGTGCCGATTTCTTC
Found at i:54010001 original size:31 final size:32
Alignment explanation
Indices: 54009849--54010001 Score: 229
Period size: 32 Copynumber: 4.8 Consensus size: 32
54009839 CACGGCTTAT
*
54009849 AGCCATCAGTAGCGGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
* * * * *
54009881 AGCAAACAATAGCTGTAATATGATTGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
*
54009913 AGCCATCAGTAGCTGTAATATGATCGACACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
54009945 AGCCATCAGTA-CTGTAATATGATCGGCACAA
1 AGCCATCAGTAGCTGTAATATGATCGGCACAA
54009976 AGCCATCAGTA-CTGTAATATGATCGG
1 AGCCATCAGTAGCTGTAATATGATCGG
54010002 TAACAAGCCA
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 45 0.41
32 65 0.59
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AGCCATCAGTAGCTGTAATATGATCGGCACAA
Found at i:54012594 original size:35 final size:35
Alignment explanation
Indices: 54012546--54012612 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
54012536 TTTATAACAG
* *
54012546 TTCAATTACAAATAAACATATATAACTCAATTCAA
1 TTCAATAACAAATAAACATATATAACACAATTCAA
* * *
54012581 TTCAATAATAAATAAGCATTTATAACACAATT
1 TTCAATAACAAATAAACATATATAACACAATT
54012613 TAAATACGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (35 bp):
TTCAATAACAAATAAACATATATAACACAATTCAA
Found at i:54017351 original size:27 final size:27
Alignment explanation
Indices: 54017297--54017407 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
54017287 AGCATGGCTG
** * *
54017297 CCAGAACAGATAA-TGTGATAGGGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
54017323 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
54017350 CCAGAACAAAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
54017377 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
54017404 CCAG
1 CCAG
54017408 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:54018623 original size:16 final size:16
Alignment explanation
Indices: 54018598--54018630 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
54018588 CCAAAAGAAA
54018598 AAGAAAAGATGAGCAG
1 AAGAAAAGATGAGCAG
*
54018614 AAGAAGAGATGAGCAG
1 AAGAAAAGATGAGCAG
54018630 A
1 A
54018631 GAATTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.33, T:0.06
Consensus pattern (16 bp):
AAGAAAAGATGAGCAG
Found at i:54022061 original size:40 final size:40
Alignment explanation
Indices: 54022017--54022208 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 40
54022007 ATAACCACAA
* * * *
54022017 GCACAATTACCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
54022057 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
54022097 ACACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
54022137 GCATAAATGCCTTTGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
54022177 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
54022209 CATTCAAATG
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 132 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:54022124 original size:80 final size:80
Alignment explanation
Indices: 54021997--54022207 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 80
54021987 TCTTCGAAAT
* * * * * * * * *
54021997 TTAG-CCGGATATAACCACAAGCACAATTACCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGC-ACTAGCA
*
54022060 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGAC
* *
54022076 TTAGCCCGGAT-ATATCAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGC
1 TTAGCCCGGATAAAATC-ACT-AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGC
* *
54022139 ATAAATGCCTTTGGGAC
64 ACAAATGCCTTCGGGAC
* *
54022156 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
54022208 TCATTCAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
79 7 0.06
80 94 0.86
81 8 0.07
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCAC
AAATGCCTTCGGGAC
Found at i:54036627 original size:43 final size:43
Alignment explanation
Indices: 54036507--54036628 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 43
54036497 AGCTTGTTCA
* *
54036507 ATGCCAATGTCCCGGACATGGTCATACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCATACA-GTAAATCAAATATCG
* * * * *
54036550 ATGCC-ACTGTCCCAGACAGGGTCTTATAGGAAATCAAGTATC-
1 ATGCCAAC-GTCCCAGACATGGTCATACAGTAAATCAAATATCG
54036592 ATGCCAACGTCCCAGACATGGTCATACACGTAAATCA
1 ATGCCAACGTCCCAGACATGGTCATACA-GTAAATCA
54036629 TAGGTTGATG
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 24 0.38
43 40 0.62
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCATACAGTAAATCAAATATCG
Found at i:54042758 original size:34 final size:35
Alignment explanation
Indices: 54042705--54042771 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
54042695 CATAGCTATA
*
54042705 GTCTCAGTCTTCTAAAGTTTTCAGT-TTTCCCTACT
1 GTCTCAGTCTTCTAAAG-TTTCAGTATTACCCTACT
*
54042740 GTCTCAGT-TTCTACAGTTTCAGTATTACCCTA
1 GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTA
54042772 ACTACAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.24
34 14 0.48
35 8 0.28
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (35 bp):
GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTACT
Found at i:54045957 original size:65 final size:65
Alignment explanation
Indices: 54045853--54045983 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
54045843 AGTCTCACGC
* *
54045853 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
54045918 ATCAGATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
54045983 A
1 A
54045984 ACCCTAGTGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGAAAATAGTAACAGTCAAACATCCATTCAGGTCAACCTT
Found at i:54049256 original size:34 final size:35
Alignment explanation
Indices: 54049203--54049269 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
54049193 CCTATCTACA
*
54049203 GTCTCAGTCTTCTAAAGTTTTCAGT-TTTCCCTATT
1 GTCTCAGTCTTCTAAAG-TTTCAGTATTACCCTATT
*
54049238 GTCTCAGT-TTCTACAGTTTCAGTATTACCCTA
1 GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTA
54049270 ACTACAGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 7 0.24
34 14 0.48
35 8 0.28
ACGTcount: A:0.19, C:0.24, G:0.12, T:0.45
Consensus pattern (35 bp):
GTCTCAGTCTTCTAAAGTTTCAGTATTACCCTATT
Found at i:54053093 original size:51 final size:51
Alignment explanation
Indices: 54053030--54053151 Score: 190
Period size: 51 Copynumber: 2.4 Consensus size: 51
54053020 CTGCCACGGT
* *
54053030 CTTACCATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCA
1 CTTACCACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCA
*
54053081 CTTACCACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCA
1 CTTACCACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCA
* * *
54053132 CTTATCACTTGTCGCTTGTC
1 CTTACCACTTATCACTTGTC
54053152 GATTGTCACT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
CTTACCACTTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCA
Found at i:54060917 original size:49 final size:51
Alignment explanation
Indices: 54060862--54060973 Score: 174
Period size: 49 Copynumber: 2.2 Consensus size: 51
54060852 CTGATCACAT
*
54060862 TTATCACTTGTCACTGATCAGATAAGTGTAGC-AAA-CTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
*
54060911 TTATCACTTGTCACTGATGAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
* *
54060962 TTGTCGCTTGTC
1 TTATCACTTGTC
54060974 GCTTGTCACT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
49 30 0.53
50 3 0.05
51 24 0.42
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
Found at i:54068604 original size:51 final size:51
Alignment explanation
Indices: 54068533--54068646 Score: 183
Period size: 51 Copynumber: 2.2 Consensus size: 51
54068523 CTGATCACAT
* *
54068533 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTAGCAC
*
54068584 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTAGCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTAGCAC
* *
54068635 TTGTCGCTTGTC
1 TTATCACTTGTC
54068647 GCTTGTCACT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAACTACCACTTAGCAC
Found at i:54076854 original size:42 final size:42
Alignment explanation
Indices: 54076729--54076872 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
54076719 TTCGAATAGG
* * * * *
54076729 CCAGCTATAGTCTTACACGAAGTTTTATACCGATTCTATAAC
1 CCAGATATGGTCTTACACGAAGTTTCATATCGATTCTATATC
* **
54076771 CCAGATACGGTCTTACACGAAGTTTCATATTTATTCTATATC
1 CCAGATATGGTCTTACACGAAGTTTCATATCGATTCTATATC
* *
54076813 CCAGATATGGTCTTACACGAAGTTTCATATCGATGCCATATC
1 CCAGATATGGTCTTACACGAAGTTTCATATCGATTCTATATC
* * *
54076855 TCAAATATGGTCTCACAC
1 CCAGATATGGTCTTACAC
54076873 ATAAATCTCA
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (42 bp):
CCAGATATGGTCTTACACGAAGTTTCATATCGATTCTATATC
Found at i:54086917 original size:40 final size:39
Alignment explanation
Indices: 54086872--54087145 Score: 343
Period size: 40 Copynumber: 6.9 Consensus size: 39
54086862 GGATATAGCT
* * *
54086872 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* * * *
54086912 ACTCGCACAATTGCCTTCGAGACTTAGCACGTATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTTAGTA
*
54086952 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
54086992 ACTCGCACAATTGCCTTTGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
54087032 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
** *
54087072 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* * *
54087111 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTT
54087146 TCATCCAAAT
Statistics
Matches: 208, Mismatches: 23, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.16
40 172 0.83
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:54087005 original size:80 final size:80
Alignment explanation
Indices: 54086872--54087142 Score: 384
Period size: 80 Copynumber: 3.4 Consensus size: 80
54086862 GGATATAGCT
* * * *
54086872 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAATTGCCTTCGAGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAATTGCCTTCGGGACT
* *
54086936 TAGCACGTATTTAGTA
65 TAGCCCGGATTTAGTA
* *
54086952 ACTCGCACAAATGCCTTCGAGACTTAGCCCGGATTTAGTAACTCGCACAATTGCCTTTGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTGCCTTCGGGACTT
54087017 AGCCCGGATTTAGTA
66 AGCCCGGATTTAGTA
*
54087032 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTGCCTTCGGGACTT
** *
54087097 -GCCCGGAACTAGTC
66 AGCCCGGATTTAGTA
* * *
54087111 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
54087143 TTTTCATCCA
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
79 40 0.23
80 131 0.76
81 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAATTGCCTTCGGGACTT
AGCCCGGATTTAGTA
Found at i:54095069 original size:40 final size:40
Alignment explanation
Indices: 54095014--54095284 Score: 420
Period size: 40 Copynumber: 6.8 Consensus size: 40
54095004 GGATATAGCT
* * *
54095014 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
54095054 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
54095094 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
54095134 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
54095174 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
54095214 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
54095253 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
54095285 TTTTCATCCA
Statistics
Matches: 216, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
39 33 0.15
40 181 0.84
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:54104636 original size:6 final size:7
Alignment explanation
Indices: 54104619--54104650 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
54104609 AATCTTTTCA
54104619 AAAAAAT
1 AAAAAAT
54104626 AAAAAAT
1 AAAAAAT
54104633 AAAAAAT
1 AAAAAAT
54104640 AAAAAAAT
1 -AAAAAAT
54104648 AAA
1 AAA
54104651 GAGTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:54104636 original size:14 final size:15
Alignment explanation
Indices: 54104619--54104650 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
54104609 AATCTTTTCA
54104619 AAAAAAT-AAAAAAT
1 AAAAAATAAAAAAAT
54104633 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
54104648 AAA
1 AAA
54104651 GAGTTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:54116354 original size:57 final size:57
Alignment explanation
Indices: 54116266--54116379 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
54116256 CGTGATAAGC
**
54116266 AATTGTATGCAAAGTTAAGTAAATGTGAATTCTGGTTATGAGAGGTCAGTTTTCTGG
1 AATTGTATGCAAAGTTAAGTAAATGTGAATTCTGGTTACAAGAGGTCAGTTTTCTGG
* * *
54116323 AATTGTATGCAAAGTTCAGTAAATGTGAATTCTGGTTGCAAGAGGTCGGTTTTCTGG
1 AATTGTATGCAAAGTTAAGTAAATGTGAATTCTGGTTACAAGAGGTCAGTTTTCTGG
54116380 GTCATATTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.36
Consensus pattern (57 bp):
AATTGTATGCAAAGTTAAGTAAATGTGAATTCTGGTTACAAGAGGTCAGTTTTCTGG
Found at i:54121884 original size:56 final size:56
Alignment explanation
Indices: 54121824--54122068 Score: 341
Period size: 56 Copynumber: 4.4 Consensus size: 56
54121814 CAGACAGGGA
* * *
54121824 CTTACTTGCACACATA-ATTCGGAATCACATATCGATGCCAACGTATTAAACGTGGT
1 CTTACTCGCACACATATA-TCGAAATCACATATCGATGCCAACGTATTAAACATGGT
** * * * ** *
54121880 CTTACTCAAACACATATATCAAAATCACATATTGATGCCAACATATTAAATGTGCT
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACATGGT
* *
54121936 CTTACTTGCACACATATATCGAAATCAAATATCGATGCCAACGTATTAAACATGGT
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACATGGT
54121992 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACATGGT
1 CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACATGGT
*
54122048 CTTACTCGTA-ACATATATCGA
1 CTTACTCGCACACATATATCGA
54122069 TGCCATGGTC
Statistics
Matches: 166, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
55 11 0.07
56 154 0.93
57 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.29
Consensus pattern (56 bp):
CTTACTCGCACACATATATCGAAATCACATATCGATGCCAACGTATTAAACATGGT
Found at i:54125284 original size:56 final size:56
Alignment explanation
Indices: 54125188--54125378 Score: 229
Period size: 56 Copynumber: 3.4 Consensus size: 56
54125178 TCCCAGATAG
* * *** * * * *
54125188 GGTCTTACTCGCACACATAAATTGGAATCGCATTTTGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* *
54125244 GCTCTTACTCACACATATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* * *
54125300 GGTCTTACTCGCACACATATATCAAAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
* * *
54125356 GGTTTTACTCGCACGCATATATC
1 GGTCTTACTCACACACATATATC
54125379 GATGCCATGG
Statistics
Matches: 117, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 117 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAACGTATTAAACGT
Found at i:54130848 original size:27 final size:27
Alignment explanation
Indices: 54130829--54131039 Score: 296
Period size: 27 Copynumber: 7.8 Consensus size: 27
54130819 ATTACCAAAG
*
54130829 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
54130856 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
54130883 TACTCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
54130910 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
54130937 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
54130964 TACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
54130991 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
54131018 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
54131040 TGAAATACCC
Statistics
Matches: 164, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:54131048 original size:27 final size:27
Alignment explanation
Indices: 54130910--54131076 Score: 93
Period size: 27 Copynumber: 6.2 Consensus size: 27
54130900 ATTACCATTT
* ***
54130910 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
* * * **
54130937 TACCCTCGATTTATAGAATTACC-ATTT
1 TACCCTTGATTTACAAAATTACCGA-AA
* * * * ***
54130964 TACCATCGATTTACAGAATTACTGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
* * ***
54130991 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
*
54131018 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* * *
54131045 TACCCTTGGTTTCCAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCGAAA
54131072 TACCC
1 TACCC
54131077 CTAATTTTAG
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 119 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:54131065 original size:54 final size:54
Alignment explanation
Indices: 54130829--54131068 Score: 282
Period size: 54 Copynumber: 4.4 Consensus size: 54
54130819 ATTACCAAAG
* * * * **
54130829 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGAATTACTGTTT
* * *
54130883 TACTCTCGATTTATAAAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGAATTACTGTTT
* * * *
54130937 TACCCTCGATTTATAGAATTACCATTTTACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGAATTACTGTTT
* * * ***
54130991 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGAATTACTGTTT
* * *
54131045 TACCCTTGGTTTCCAAAATTACCA
1 TACCCTCGATTTACAAAATTACCA
54131069 AAATACCCCT
Statistics
Matches: 161, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 161 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTTGATTTACAGAATTACTGTTT
Found at i:54131076 original size:81 final size:81
Alignment explanation
Indices: 54130816--54131076 Score: 254
Period size: 81 Copynumber: 3.2 Consensus size: 81
54130806 CTCAATTTGT
* ** * *
54130816 AAAATTACCAAAGTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
** * *
54130881 TTTACTCTCGATTTAT
66 AATACCCTCGATTTAC
** * * *
54130897 AAAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
** *
54130962 TTTACCATCGATTTAC
66 AATACCCTCGATTTAC
* **** * *
54130978 AGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGA
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC-CA
* * *
54131043 -AATACCCTTGGTTTCC
65 TAATACCCTCGATTTAC
*
54131059 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
54131077 CTAATTTTAG
Statistics
Matches: 150, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
81 149 0.99
82 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
AATACCCTCGATTTAC
Found at i:54131099 original size:27 final size:26
Alignment explanation
Indices: 54131069--54131131 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
54131059 AAAATTACCA
*
54131069 AAATACCCCTAATTT-TAGACATGATCG
1 AAATACCCCTAATTTGTA-AAAT-ATCG
* *
54131096 AAATACTCTTAATTTGTAAAATATCG
1 AAATACCCCTAATTTGTAAAATATCG
54131122 AAATACCCCT
1 AAATACCCCT
54131132 GTAGGGTAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.40
27 16 0.53
28 2 0.07
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (26 bp):
AAATACCCCTAATTTGTAAAATATCG
Found at i:54131161 original size:27 final size:27
Alignment explanation
Indices: 54131121--54131425 Score: 358
Period size: 27 Copynumber: 11.3 Consensus size: 27
54131111 GTAAAATATC
54131121 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
54131148 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
54131175 GATATACCCCTGTATGATAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * * *
54131202 AAAATAACCCTATAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
54131229 GAAATACCCCTGTACGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
54131256 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
54131283 GAAATAACCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
54131310 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
54131337 GAAATACCCTTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
54131364 GAAATACCCTTATAGGGTAAAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
54131391 GAAATACCGCTATAGTGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
54131418 GAGATACC
1 GAAATACC
54131426 TGGGGTAAAT
Statistics
Matches: 231, Mismatches: 47, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 231 1.00
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:54131677 original size:25 final size:25
Alignment explanation
Indices: 54131643--54131712 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
54131633 AGAAAGTGCT
54131643 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
54131668 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
54131693 AAGAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
54131713 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:54131721 original size:25 final size:25
Alignment explanation
Indices: 54131646--54131723 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 25
54131636 AAGTGCTAAA
***
54131646 AGGGCTTTGCCCCAGTTTACCGAAA-
1 AGGGCTTTGCCCCAG-TTATTAAAAG
*
54131671 AGGGCTTTGCCCCAG-T-TTACCGAAG
1 AGGGCTTTGCCCCAGTTATTA--AAAG
54131696 AGGGCTTTGCCCCAGTTATTAAAAG
1 AGGGCTTTGCCCCAGTTATTAAAAG
54131721 AGG
1 AGG
54131724 CTAAGCCTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
23 1 0.02
24 2 0.05
25 36 0.84
26 1 0.02
27 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AGGGCTTTGCCCCAGTTATTAAAAG
Found at i:54133775 original size:27 final size:27
Alignment explanation
Indices: 54133745--54133982 Score: 296
Period size: 27 Copynumber: 8.8 Consensus size: 27
54133735 ATTACCAAAG
* **
54133745 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
54133772 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
54133799 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
** *
54133826 TATTCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
54133853 TACCTTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
54133880 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * *
54133907 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * * * *
54133934 TACTCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
54133961 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
54133983 TAAAATACCC
Statistics
Matches: 189, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 189 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:54133844 original size:81 final size:81
Alignment explanation
Indices: 54133745--54134010 Score: 318
Period size: 81 Copynumber: 3.3 Consensus size: 81
54133735 ATTACCAAAG
* *
54133745 TACCCTCAATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
*
54133810 TATAGAATTACCGTTT
66 TATAGAATTACCATTT
** * * * *
54133826 TATTCTCGATTTACAGAATTACCATTTTACCTTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
54133891 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * * * *
54133907 TACCCTCAATTTACAAAATTACCGTTTTACTCTCGATTTACAAAATTA-TCGTTTTACCCTCGAT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACT-ATTTTACCCTCGAT
* * * ***
54133971 TTACAAAATTACTAAAA
65 TTATAGAATTACCATTT
* *
54133988 TACCCTTAATTTACAAAATTACC
1 TACCCTCAATTTACAGAATTACC
54134011 AAAATACCCC
Statistics
Matches: 157, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 157 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:54133991 original size:27 final size:27
Alignment explanation
Indices: 54133880--54134019 Score: 100
Period size: 27 Copynumber: 5.2 Consensus size: 27
54133870 ATTACCATTT
* * * ***
54133880 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
****
54133907 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCAATTTACAAAATTACCAAAA
* * * ****
54133934 TACTCTCGATTTACAAAATTATCGTTT
1 TACCCTCAATTTACAAAATTACCAAAA
* *
54133961 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*
54133988 TACCCTTAATTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
54134015 TACCC
1 TACCC
54134020 CTGATTTTAG
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:54134026 original size:27 final size:27
Alignment explanation
Indices: 54133963--54134026 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
54133953 TATCGTTTTA
*
54133963 CCCTCGATTTACAAAATTACTAAAATAC
1 CCCT-GATTTACAAAATTACCAAAATAC
* *
54133991 CCTTAATTTACAAAATTACCAAAATAC
1 CCCTGATTTACAAAATTACCAAAATAC
54134018 CCCTGATTT
1 CCCTGATTT
54134027 TAGAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 28 0.90
28 3 0.10
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (27 bp):
CCCTGATTTACAAAATTACCAAAATAC
Found at i:54134104 original size:27 final size:27
Alignment explanation
Indices: 54134065--54134387 Score: 421
Period size: 27 Copynumber: 12.0 Consensus size: 27
54134055 TAAAATATCA
54134065 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
54134092 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
54134119 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
54134146 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
54134173 AAATAACCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
54134200 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
54134227 AAATACCCCTGTAGGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
54134254 AAATAACCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
54134281 AAATACCCCTGTAGGATAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
54134308 AAATACCCTTGTCGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
54134335 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
54134362 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
54134388 ATTTTGCCCC
Statistics
Matches: 258, Mismatches: 38, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 258 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:54134661 original size:24 final size:25
Alignment explanation
Indices: 54134590--54134672 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
54134580 AGGAAGTGCT
* * * *
54134590 AAAAGGGCTATGCCGCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
54134615 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
54134640 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
54134664 AAAGGGGCT
1 AAAAGGGCT
54134673 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 13 0.25
25 39 0.75
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:54141796 original size:18 final size:20
Alignment explanation
Indices: 54141757--54141797 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
54141747 GGGAGGTATG
54141757 ATAAAATAAGGAACATGGGA
1 ATAAAATAAGGAACATGGGA
*
54141777 ATAAAATAATGAA-A-GGGA
1 ATAAAATAAGGAACATGGGA
54141795 ATA
1 ATA
54141798 GGATGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.59, C:0.02, G:0.22, T:0.17
Consensus pattern (20 bp):
ATAAAATAAGGAACATGGGA
Found at i:54143179 original size:40 final size:40
Alignment explanation
Indices: 54143124--54143268 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
54143114 TGGATGATAA
* ** * *
54143124 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-TAT
*
54143164 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
54143204 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
*
54143244 CCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54143269 AGTGAGTAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 96 0.99
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
Found at i:54143257 original size:80 final size:80
Alignment explanation
Indices: 54143124--54143287 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 80
54143114 TGGATGATAA
* *
54143124 CCGGGCTAAGTCCCGAAGGCATCTACGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATCTACGCAAGTGACTAGTTCCAGGCTAAGTCCCGAAGGCATTTG
*
54143189 TGCGAGTTA-CTATAT
66 AGCGAG-TAGCTATAT
* ** *
54143204 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-TATCCAGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATCTACGCAAGTGACTAGT-TCCAGGCTAAGTCCCGAAGGCATTT
*
54143268 GAGTGAGTAGCTATAT
65 GAGCGAGTAGCTATAT
54143284 CCGG
1 CCGG
54143288 TTAAATCCTG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 3 0.04
80 71 0.96
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATCTACGCAAGTGACTAGTTCCAGGCTAAGTCCCGAAGGCATTTG
AGCGAGTAGCTATAT
Found at i:54143282 original size:40 final size:40
Alignment explanation
Indices: 54143127--54143285 Score: 196
Period size: 40 Copynumber: 4.0 Consensus size: 40
54143117 ATGATAACCG
* ** * * *
54143127 GGCTAAGTCCCGAAGGCATCTACGCTAGTGACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCA
*
54143167 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
*
54143207 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
* *
54143247 GGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
54143286 GGTTAAATCC
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
39 3 0.03
40 104 0.97
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCA
Found at i:54144922 original size:120 final size:121
Alignment explanation
Indices: 54144760--54144982 Score: 394
Period size: 122 Copynumber: 1.8 Consensus size: 121
54144750 CAAATAGCCG
54144760 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAAT-CTCGATTTAACACAAAATGT
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATACTCGATTTAACACAAAATGT
*
54144824 ATGATAACTAACCTAAGAATGCAAATTAAATTATAGACATTGGCATGGTAATAGCA
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
* * *
54144880 TGAGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATAACTCGATTTAACACGAAATG
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAAT-ACTCGATTTAACACAAAATG
54144945 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
65 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
54144983 ATAATGAGCA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 42 0.43
122 55 0.57
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.29
Consensus pattern (121 bp):
TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATACTCGATTTAACACAAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
Found at i:54152659 original size:9 final size:9
Alignment explanation
Indices: 54152645--54152676 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
54152635 AACGCTTTTT
54152645 TTGCATTCA
1 TTGCATTCA
54152654 TTGCATTCA
1 TTGCATTCA
54152663 TTGCATTCA
1 TTGCATTCA
54152672 -TGCAT
1 TTGCAT
54152677 CGGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:54161259 original size:44 final size:43
Alignment explanation
Indices: 54161159--54161274 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
54161149 AACCACCAAG
* ** * *
54161159 CTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAG
1 CTTTAACCCCCTAAGCAATAGGGTAACAAGCCAAAGTTTAAAC
* * * *
54161202 ATATTATCGCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAAC
1 CT-TTAACCCCCTAAGCAATAGGGTAACAAGCCAAAGTTT-AAAC
54161247 CTTTAACCCCCTAAGCAATAGGGTAACA
1 CTTTAACCCCCTAAGCAATAGGGTAACA
54161275 GGTTGAGCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.02
44 55 0.93
45 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.24
Consensus pattern (43 bp):
CTTTAACCCCCTAAGCAATAGGGTAACAAGCCAAAGTTTAAAC
Found at i:54161460 original size:42 final size:42
Alignment explanation
Indices: 54161408--54161531 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 42
54161398 AGAGCAGCTA
*
54161408 AAAGCCACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
* *
54161450 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGG-ATTAAGC
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
*
54161491 GAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGAT
1 AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGAT
54161532 TGAAGCCACG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
41 38 0.51
42 37 0.49
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (42 bp):
AAAGCTACAGCAGATCTCCTTGAAGTTTCAGTGGAATTGATC
Found at i:54164149 original size:21 final size:21
Alignment explanation
Indices: 54164108--54164149 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
54164098 ATAAGTCATG
*
54164108 ATTTTACTCAAAACATTAATA
1 ATTTTACTCAAAACATAAATA
*
54164129 ATTTT-CTCATAAACGTAAATA
1 ATTTTACTCA-AAACATAAATA
54164150 TTCTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.38
Consensus pattern (21 bp):
ATTTTACTCAAAACATAAATA
Found at i:54173111 original size:46 final size:46
Alignment explanation
Indices: 54173057--54173229 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
54173047 TGGTTAAGCA
54173057 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * * *
54173103 TCCAAACTCGTTGAGTTGAGCCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
54173148 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54173196 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54173230 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.57
47 26 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54173213 original size:93 final size:93
Alignment explanation
Indices: 54173054--54173224 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
54173044 GGATGGTTAA
* * *
54173054 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
54173119 TGAGCCCGAGTTCGTGAAATGTAACTAG
66 TGAGCCCGAGTTCGTGAAATGTAACTAG
* *
54173147 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
*
54173212 TGAGTCCGAGTTC
66 TGAGCCCGAGTTC
54173225 ACTTAGGGGC
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:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGCCCGAGTTCGTGAAATGTAACTAG
Found at i:54180688 original size:46 final size:46
Alignment explanation
Indices: 54180638--54180810 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
54180628 TGGTTGAGCA
54180638 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * ** *
54180684 TCCGAACTCGTTGAGTTGAGCCCGAGTT--CGTA-AAATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
54180729 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
54180777 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54180811 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 3 0.03
46 56 0.54
47 26 0.25
48 1 0.01
49 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54180794 original size:93 final size:93
Alignment explanation
Indices: 54180635--54180805 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
54180625 GGATGGTTGA
* *
54180635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
54180700 TGAGCCCGAGTTCGTAAAATGTAACTAG
66 TGAGCCCGAGTTCGTAAAATGTAACTAG
*
54180728 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
54180792 TTGAGTCCGAGTTC
65 TTGAGCCCGAGTTC
54180806 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGCCCGAGTTCGTAAAATGTAACTAG
Found at i:54203610 original size:20 final size:20
Alignment explanation
Indices: 54203587--54203629 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
54203577 CTCATCTACA
54203587 TGTCCTAAGACATGGGCTTG
1 TGTCCTAAGACATGGGCTTG
* *
54203607 TGT-CTCAGCCATGGGCTTG
1 TGTCCTAAGACATGGGCTTG
54203626 TGTC
1 TGTC
54203630 TCAGCCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.14, C:0.23, G:0.30, T:0.33
Consensus pattern (20 bp):
TGTCCTAAGACATGGGCTTG
Found at i:54203621 original size:19 final size:19
Alignment explanation
Indices: 54203597--54203638 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
54203587 TGTCCTAAGA
54203597 CATGGGCTTGTGTCTCAGC
1 CATGGGCTTGTGTCTCAGC
54203616 CATGGGCTTGTGTCTCAGC
1 CATGGGCTTGTGTCTCAGC
54203635 CATG
1 CATG
54203639 TGTGACACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.12, C:0.26, G:0.31, T:0.31
Consensus pattern (19 bp):
CATGGGCTTGTGTCTCAGC
Found at i:54206432 original size:20 final size:20
Alignment explanation
Indices: 54206407--54206446 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
54206397 ATTGGGCCTT
54206407 GCCCATATT-AACACAGTTGG
1 GCCCAT-TTCAACACAGTTGG
*
54206427 GCCCATTTCAATACAGTTGG
1 GCCCATTTCAACACAGTTGG
54206447 CCGATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATTTCAACACAGTTGG
Found at i:54214822 original size:31 final size:30
Alignment explanation
Indices: 54214786--54214846 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54214776 TCCCTAACTC
54214786 AAACTTTAGAAAAATTACAATTTTGCCCCTA
1 AAACTTTA-AAAAATTACAATTTTGCCCCTA
* * *
54214817 AAACTTTATAGAATTACGATTTTGCCCCTA
1 AAACTTTAAAAAATTACAATTTTGCCCCTA
54214847 GGCTCAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (30 bp):
AAACTTTAAAAAATTACAATTTTGCCCCTA
Found at i:54216568 original size:60 final size:60
Alignment explanation
Indices: 54216491--54216611 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
54216481 ACATAACATT
* *
54216491 TCACGCTCCTACTAGTATAACTAAATCAAGTTATCATCCATCTCTTTACTTCTCAAATAA
1 TCACACTCCTACTAGTATAACTAAATCAAGTTATCATCCATCTCTGTACTTCTCAAATAA
*
54216551 TCACACTCTTACTAGTATAACTAAATCAAGTTATCATCCATCTCTGTACTTCTCAAATAA
1 TCACACTCCTACTAGTATAACTAAATCAAGTTATCATCCATCTCTGTACTTCTCAAATAA
54216611 T
1 T
54216612 AAACTAATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.36
Consensus pattern (60 bp):
TCACACTCCTACTAGTATAACTAAATCAAGTTATCATCCATCTCTGTACTTCTCAAATAA
Found at i:54216765 original size:44 final size:44
Alignment explanation
Indices: 54216715--54216803 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
54216705 AACCAAGCTG
*
54216715 AATCATAATGGATACTTCAATTTTCAATATCTTCAACTGTTTAT
1 AATCATAATGGATACTTCAATTGTCAATATCTTCAACTGTTTAT
*
54216759 AATCATAATGGATACTTCAATTGTCAATATCTTCAACTTTTTAT
1 AATCATAATGGATACTTCAATTGTCAATATCTTCAACTGTTTAT
54216803 A
1 A
54216804 CTTTATTAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.16, G:0.07, T:0.43
Consensus pattern (44 bp):
AATCATAATGGATACTTCAATTGTCAATATCTTCAACTGTTTAT
Found at i:54220361 original size:5 final size:5
Alignment explanation
Indices: 54220351--54220457 Score: 65
Period size: 5 Copynumber: 19.8 Consensus size: 5
54220341 TATGTCTTTC
54220351 AAAAT AAAAT AATAA- AATAAT AAAATT AAAAT GAAAAT AAAAAT AAAAAT
1 AAAAT AAAAT AA-AAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT
* * * * *
54220401 AAAAAT AAAAAT AATAT AATAT AATAT AATAT AATAT AAAA- AAATAT
1 -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
54220448 AAGAAT AAAA
1 AA-AAT AAAA
54220458 AGATAAAAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 14
0.84 0.03 0.13
Matches are distributed among these distances:
4 3 0.03
5 45 0.49
6 43 0.47
7 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAAAT
Done.