Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 70 of 318
Found at i:20316086 original size:46 final size:44
Alignment explanation
Indices: 20315977--20316099 Score: 140
Period size: 46 Copynumber: 2.7 Consensus size: 44
20315967 GGAGTAAGGT
20315977 GCCGATGCCATGTCCTAGACATGGTTTTACACTGACACATTTCATG
1 GCCGATG-CATGTCCTAGACAT-GTTTTACACTGACACATTTCATG
* * *
20316023 GCCGATGCATGTTCTAGACATGTTTTACACTGGCTTACATCTTGA-G
1 GCCGATGCATGTCCTAGACATGTTTTACACTGAC--ACAT-TTCATG
* * *
20316069 GCTGATGCATATCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCTAGACATGTTTTACACT
20316100 AGCGCTCGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
44 12 0.18
45 13 0.19
46 39 0.58
47 3 0.04
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (44 bp):
GCCGATGCATGTCCTAGACATGTTTTACACTGACACATTTCATG
Found at i:20317691 original size:29 final size:28
Alignment explanation
Indices: 20317657--20317759 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
20317647 TACTCAATCA
*
20317657 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
20317686 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
20317715 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
20317744 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
20317760 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:20324352 original size:29 final size:28
Alignment explanation
Indices: 20324318--20324420 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
20324308 TACTCAATCA
*
20324318 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
20324347 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
20324376 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
20324405 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
20324421 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:20329398 original size:40 final size:39
Alignment explanation
Indices: 20329233--20329416 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
20329223 AAATTGAATG
* * *
20329233 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
20329273 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
20329313 ACATCCGGGCTAAGACCCGAAGGCATTCGTACGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
20329353 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
20329392 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
20329417 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:20340016 original size:29 final size:29
Alignment explanation
Indices: 20339983--20340143 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
20339973 GTGACGAGAT
20339983 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
20340012 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
20340041 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
20340070 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * * **
20340099 TGACACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
20340128 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
20340144 AAATCGAGTA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:20347168 original size:46 final size:46
Alignment explanation
Indices: 20347101--20347276 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
20347091 TATTTGGGCA
20347101 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
20347147 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * * *
20347194 TCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
20347240 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20347277 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 64 0.60
47 30 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:20347256 original size:93 final size:93
Alignment explanation
Indices: 20347097--20347269 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
20347087 GGGATATTTG
* * *
20347097 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
20347162 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
20347190 GGCATCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
20347255 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
20347270 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:20352579 original size:87 final size:87
Alignment explanation
Indices: 20352428--20353211 Score: 1121
Period size: 87 Copynumber: 9.0 Consensus size: 87
20352418 GTAACAGGCT
* *
20352428 GAAG-CATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGATTTGGTGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
20352492 CTGTACTGTCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
*
20352514 GAAGACATAGCTAATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
*
20352579 CTGTACTGCCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
* ** * * * *
20352601 GAAGACGTAATTGATTTGGCTTTCACATGTTTACGTTGAAGCAAATTTAAGATGATTTGGCGTTT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
20352666 CTGTACTGTCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
20352688 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
*
20352753 CTGTACTATCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
* *
20352775 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGTAAATCTAAGATGATTTGGCGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
*
20352840 CTGTACTGTCAGAGAGCATATC
66 CTGTACTGTCAGAGAGCAGATC
* * *
20352862 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTGGAAGCAAATCTAAGATGATTTGGCATCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
*
20352927 CTGTATTGTCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
* *
20352949 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGAAAATCTAAGATGATTTGGCATCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
* *
20353014 TTGTACTATCAGAGAGCAGATC
66 CTGTACTGTCAGAGAGCAGATC
* * * * * * *
20353036 GAAGATATAGCT-AATTGGCTTTCACGTGCTTATATTAAAGCAACTCTAAGATGATTTGGTGTCT
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
* * *
20353100 CTGCACTGTCAGAGAGCAGGTT
66 CTGTACTGTCAGAGAGCAGATC
* * * * *
20353122 GAAGACGTAGCTGATTTGG---TCACGTGTTTACGA-TGAAGCAGATCGAAGAAGCAAATTTCGC
1 GAAGACATAGCTGATTTGGCTTTCACGTGTTTAC-ATTGAAGCAAATCTAAGATG---ATTTGGC
* * *
20353183 ATCTCTGTATTGGCAGAGAGCAGATC
62 GTCTCTGTACTGTCAGAGAGCAGATC
20353209 GAA
1 GAA
20353212 AATAATAGAT
Statistics
Matches: 624, Mismatches: 68, Indels: 11
0.89 0.10 0.02
Matches are distributed among these distances:
84 23 0.04
85 1 0.00
86 75 0.12
87 525 0.84
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (87 bp):
GAAGACATAGCTGATTTGGCTTTCACGTGTTTACATTGAAGCAAATCTAAGATGATTTGGCGTCT
CTGTACTGTCAGAGAGCAGATC
Found at i:20354062 original size:2 final size:2
Alignment explanation
Indices: 20354047--20354082 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
20354037 AATGTTTTAA
* *
20354047 AT AT AT GT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20354083 TGCAAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20354760 original size:21 final size:19
Alignment explanation
Indices: 20354718--20354760 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20354708 ATTTTAATCC
* *
20354718 TTTTATATATTTTAATTTA
1 TTTTAGATACTTTAATTTA
20354737 TTTTAGATACTTTATATATTA
1 TTTTAGATACTTTA-AT-TTA
20354758 TTT
1 TTT
20354761 ATTTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAGATACTTTAATTTA
Found at i:20354840 original size:23 final size:26
Alignment explanation
Indices: 20354800--20354849 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 26
20354790 GATATATTTT
**
20354800 TTATTTTATATATATTATCCATTATA
1 TTATTTTATATATATTATAAATTATA
20354826 TTATTTT-T-TAT-TTATAAATTATA
1 TTATTTTATATATATTATAAATTATA
20354849 T
1 T
20354850 GTTATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 3 0.14
25 1 0.05
26 7 0.32
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATTTTATATATATTATAAATTATA
Found at i:20354878 original size:29 final size:28
Alignment explanation
Indices: 20354820--20354891 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
20354810 TATATTATCC
*
20354820 ATTATATTATTTTTTATTTATAAATTAT
1 ATTATATTATTTTTTATTTATAAATCAT
* *
20354848 ATGT-TATTATATTTTATTATATATATCAT
1 AT-TATATTATTTTTTATT-TATAAATCAT
20354877 ATTATATTATTTTTT
1 ATTATATTATTTTTT
20354892 TAATTATGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTATATTATTTTTTATTTATAAATCAT
Found at i:20354883 original size:57 final size:55
Alignment explanation
Indices: 20354783--20354891 Score: 148
Period size: 55 Copynumber: 1.9 Consensus size: 55
20354773 ATATTAGTTG
*
20354783 TATAAATGATATATTTTTTATTTTATATATATTATCCATTATATTATTTTTTATT
1 TATAAATGATATATTTTATATTTTATATATATTATCCATTATATTATTTTTTATT
* * *
20354838 TATAAATTATATGTTATTATATTTTAT-TATATATATCATATTATATTATTTTTT
1 TATAAATGATATATT-TTATATTTTATATATAT-TATC-CATTATATTATTTTTT
20354892 TAATTATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 18 0.38
56 14 0.30
57 15 0.32
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (55 bp):
TATAAATGATATATTTTATATTTTATATATATTATCCATTATATTATTTTTTATT
Found at i:20354884 original size:5 final size:5
Alignment explanation
Indices: 20354800--20354886 Score: 58
Period size: 5 Copynumber: 17.8 Consensus size: 5
20354790 GATATATTTT
* * * *
20354800 TTATT TTATA -TATA TTATCCA TTATA TTATT TTTTA TT-TA -TAAA TTATA
1 TTATA TTATA TTATA TTAT--A TTATA TTATA TTATA TTATA TTATA TTATA
* *
20354849 TGT-TA TTATA TTTTA TTATA -TATA TCATA TTATA TTAT
1 T-TATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT
20354887 TTTTTTAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
3 1 0.02
4 12 0.19
5 45 0.70
6 1 0.02
7 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:20354920 original size:61 final size:58
Alignment explanation
Indices: 20354794--20354920 Score: 136
Period size: 58 Copynumber: 2.2 Consensus size: 58
20354784 ATAAATGATA
* *
20354794 TATTTTTTATTTTATATATATTATCCATTATATTATTTTTTATTTATAAATTATATGT
1 TATTTTATATTTTATATATATTATCCATTATATTATTTTTTAATTATAAATTATATGT
* **
20354852 TA--TTATATTTTAT-TATATATATCATATTATATTATTTTTTTAATTATGTATTAT-TGTAT
1 TATTTTATATTTTATATATAT-TATC-CATTATATTA-TTTTTTAATTATAAATTATATG--T
20354911 TATTTTATAT
1 TATTTTATAT
20354921 GGTATATGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
55 5 0.09
56 14 0.25
57 11 0.19
58 18 0.32
59 3 0.05
61 6 0.11
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (58 bp):
TATTTTATATTTTATATATATTATCCATTATATTATTTTTTAATTATAAATTATATGT
Found at i:20357024 original size:15 final size:16
Alignment explanation
Indices: 20356998--20357032 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
20356988 TTGGACTTTG
20356998 TTTTATTATTATTTTT
1 TTTTATTATTATTTTT
20357014 TTTTATT-TTATTTTT
1 TTTTATTATTATTTTT
20357029 TTTT
1 TTTT
20357033 GGATTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTATTATTATTTTT
Found at i:20357480 original size:86 final size:84
Alignment explanation
Indices: 20357380--20358000 Score: 255
Period size: 88 Copynumber: 7.2 Consensus size: 84
20357370 ATGCCAAATC
20357380 ATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTATCCGTCGA
1 ATCTTGGATCTGCTTCAGTAAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCT-TCCGTCGA
20357445 AATGGAGATGCCAGATCTGTT
64 AATGGAGATGCCAGATCTGTT
* ** * * * * *
20357466 ATCTTGGATTTGCTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTG-TTC
1 ATCTTGGATCTGC-TT-CAGTAA-AACATCTGAAGGTTAGATCTGCTATG---T--ATCTGCTTC
* *
20357530 CTTGTAAGCACAA--GA-ATGCCAAATC----
58 C--GT-CG-A-AATGGAGATGCCAGATCTGTT
* * * *
20357555 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCATCAA
1 ATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGATCTGCTATGTATCTGCT-TCCGTCGA
20357620 AATGGAGATGCCAGATCTGTT
64 AATGGAGATGCCAGATCTGTT
** * * * * * * **
20357641 ATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCTATATCTTCGATTTTTTCC
1 ATCTTGGATCTGC-TT-CAGT-AAAACATCTGAAGGTTAGATCTGCTATGT-ATC---TGCTTCC
* *** *
20357706 -TTGTAAACACAAGAATGCCAAATC----
59 GTCG-AAA-TGGAG-ATGCCAGATCTGTT
* * * *
20357730 ATCTTAGATCTGCTTAAGTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGATCTGCTATGTATCTGCT-TCCGTCGA
*
20357795 AATGGAGATGCCAGATTTGTT
64 AATGGAGATGCCAGATCTGTT
** * * * * *
20357816 ATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAATCTGCTATGTCTTCGATTTG-TTC
1 ATCTTGGATCTGC-TT-CAGT-AAAACATCTGAAGGTTAGATCTGCTATG---T--ATCTGCTTC
* *** *
20357880 C-TTGTAAACACAAGAATGCCAAATC----
58 CGTCG-AAA-TGGAG-ATGCCAGATCTGTT
*
20357905 ATCTTGGATCTGCTTCAGTATAAACATCTGAAGG-T---T-TGCTATGTACCTGCTCTCCGTCGA
1 ATCTTGGATCTGCTTCAGTA-AAACATCTGAAGGTTAGATCTGCTATGTATCTGCT-TCCGTCGA
* *
20357965 AATGGAGATGCTAGATCTATT
64 AATGGAGATGCCAGATCTGTT
20357986 ATCTTGGATCTGCTT
1 ATCTTGGATCTGCTT
20358001 TGGTGTGAGA
Statistics
Matches: 386, Mismatches: 90, Indels: 123
0.64 0.15 0.21
Matches are distributed among these distances:
77 11 0.03
78 3 0.01
79 9 0.02
80 3 0.01
81 17 0.04
82 28 0.07
83 6 0.02
84 10 0.03
85 2 0.01
86 40 0.10
87 67 0.17
88 79 0.20
89 42 0.11
90 3 0.01
91 17 0.04
92 8 0.02
93 35 0.09
94 3 0.01
95 1 0.00
96 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (84 bp):
ATCTTGGATCTGCTTCAGTAAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTTCCGTCGAAA
TGGAGATGCCAGATCTGTT
Found at i:20357625 original size:175 final size:175
Alignment explanation
Indices: 20357332--20358074 Score: 1194
Period size: 175 Copynumber: 4.3 Consensus size: 175
20357322 ATCATAGATC
* * *
20357332 TCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCA
1 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
* * *
20357397 GTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTGCTATCCGTCGAAATGGAGATGCCAGAT
66 GTATAAA-CATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGAT
* *
20357461 CTGTTATCTTGGATTTGCTTTGGTGTAAGAACATCCGAAAGTCAAA
130 CTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAA
*
20357507 TCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCA
1 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
* *
20357572 GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCATCAAAATGGAGATGCCAGATC
66 GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGATC
*
20357637 TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAA
131 TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAA
* * * *
20357682 TCTGCTATATCTTCGATTTTTTCCTTGTAAACACAAGAATGCCAAATCATCTTAGATCTGCTTAA
1 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
*
20357747 GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGATT
66 GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGATC
*
20357812 TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCTGAAAGTCAAA
131 TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAA
20357857 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
1 TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
*
20357922 GTATAAACATCTGAAGGTT-----TGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCTAGATC
66 GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGATC
* * *
20357982 TATTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAATCAGA
131 TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAA
* * *
20358027 TCTACTATGTCTTCGATTTGTTTCC-TGTAAACACAGGGATGCCAAATC
1 TCTGCTATGTCTTCGATTTG-TTCCTTGTAAACACAAGAATGCCAAATC
20358075 TGCTATCTTC
Statistics
Matches: 533, Mismatches: 33, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
170 120 0.23
171 4 0.01
175 406 0.76
176 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (175 bp):
TCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCTGCTTCA
GTATAAACATCTGAAGGTTAGACCTGCTATGTACCTGCTCTCCGTCGAAATGGAGATGCCAGATC
TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAA
Found at i:20358102 original size:44 final size:44
Alignment explanation
Indices: 20358054--20358158 Score: 201
Period size: 44 Copynumber: 2.4 Consensus size: 44
20358044 TTGTTTCCTG
20358054 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCATA
1 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCATA
*
20358098 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTA
1 TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCATA
20358142 TAAACACAGGGATGCCA
1 TAAACACAGGGATGCCA
20358159 TGCTGAAATC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
TAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCATA
Found at i:20358153 original size:88 final size:88
Alignment explanation
Indices: 20358044--20358252 Score: 212
Period size: 88 Copynumber: 2.4 Consensus size: 88
20358034 TGTCTTCGAT
* * **
20358044 TTGTTTCCTGTAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTG-TTCCATATAAACACAG
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGAAATCTTCAATC-TGCTTCCATATAAACACAG
20358107 G-GATGCCAAATCTGCTATCTTCAA
65 GAG-TGCCAAATCTGCTATCTTCAA
* * * **
20358131 CTTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATCTGCTTCCCTGTAAGTACA
1 -TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGAAATCTTCAATCTGCTTCCATATAAACACA
* *
20358194 GGAGTGTCAAATCTGCTATCTTCGA
64 GGAGTGCCAAATCTGCTATCTTCAA
* *
20358219 TCTGTTTCCCTAAAAACACAAGGATGCCAAATCT
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCT
20358253 TGTTTCTTTG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
86 2 0.02
87 13 0.13
88 59 0.59
89 22 0.22
90 2 0.02
91 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (88 bp):
TTGTTCCCTATAAACACAGGGATGCCAAATCTGAAATCTTCAATCTGCTTCCATATAAACACAGG
AGTGCCAAATCTGCTATCTTCAA
Found at i:20358183 original size:44 final size:42
Alignment explanation
Indices: 20358036--20358247 Score: 169
Period size: 44 Copynumber: 4.8 Consensus size: 42
20358026 ATCTACTATG
* * *
20358036 TCTTCGATTTGTTTCCTGTAAACACAGGGATGCCAAATCTGCTA
1 TCTTCGATCTGTTCCCTATAAACACAGGGATGCC--ATCTGCTA
* *
20358080 TCTTC-AACTTGTTCCATATAAACACAGGGATGCCAAATCTGCTA
1 TCTTCGATC-TGTTCCCTATAAACACAGGGATGCC--ATCTGCTA
* **
20358124 TCTTC-AACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
1 TCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAT-CTGCTA
* ** *
20358167 TCTTCGATCTGCTTCCCTGTAAGTACA-GGAGTGTCAAATCTGCTA
1 TCTTCGATCTG-TTCCCTATAAACACAGGGA-TG-C-CATCTGCTA
* *
20358212 TCTTCGATCTGTTTCCCTAAAAACACAAGGATGCCA
1 TCTTCGATCTG-TTCCCTATAAACACAGGGATGCCA
20358248 AATCTTGTTT
Statistics
Matches: 139, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
42 2 0.01
43 16 0.12
44 87 0.63
45 29 0.21
46 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
TCTTCGATCTGTTCCCTATAAACACAGGGATGCCATCTGCTA
Found at i:20365898 original size:19 final size:19
Alignment explanation
Indices: 20365871--20365957 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
20365861 CCGTATCTTC
20365871 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
20365890 AAAATTGCATATCATATCT
1 AAGATTGCATATCATATCT
20365909 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
*
20365926 AAGATTGTATATCATATCT
1 AAGATTGCATATCATATCT
20365945 AAGATTGCATATC
1 AAGATTGCATATC
20365958 CTTAAAGATT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
17 17 0.27
19 46 0.73
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:20365922 original size:36 final size:37
Alignment explanation
Indices: 20365871--20365957 Score: 131
Period size: 36 Copynumber: 2.3 Consensus size: 37
20365861 CCGTATCTTC
20365871 AAGATTGCATATCATATCTAAAATTGCATATCATATCT
1 AAGATTG-ATATCATATCTAAAATTGCATATCATATCT
* *
20365909 AAGATTG-TATCATATCTAAGATTGTATATCATATCT
1 AAGATTGATATCATATCTAAAATTGCATATCATATCT
20365945 AAGATTGCATATC
1 AAGATTG-ATATC
20365958 CTTAAAGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 34 0.76
38 11 0.24
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAAATTGCATATCATATCT
Found at i:20365966 original size:36 final size:36
Alignment explanation
Indices: 20365871--20365971 Score: 102
Period size: 36 Copynumber: 2.8 Consensus size: 36
20365861 CCGTATCTTC
* *
20365871 AAGATTGCATATCATATCTAAA-ATTGCATATCATATCT
1 AAGATTGCATATC--CT-TAAAGATTGTATATCATATCT
20365909 AAGATTGTATCATAT-C-T-AAGATTGTATATCATATCT
1 AAGATTG---CATATCCTTAAAGATTGTATATCATATCT
20365945 AAGATTGCATATCCTTAAAGATTGTAT
1 AAGATTGCATATCCTTAAAGATTGTAT
20365972 TTCCATATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
33 5 0.09
34 1 0.02
35 3 0.06
36 33 0.61
38 7 0.13
41 5 0.09
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.39
Consensus pattern (36 bp):
AAGATTGCATATCCTTAAAGATTGTATATCATATCT
Found at i:20371980 original size:78 final size:77
Alignment explanation
Indices: 20371844--20372228 Score: 508
Period size: 78 Copynumber: 5.0 Consensus size: 77
20371834 GGCACGAAGG
* * * * * *
20371844 CCCGAATATAATACCAGCACTAGGCCTACGGG-ATTTATCCCAGATATAATACCAGCACGAAGCC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAACCCGGATATAATACCAGCACGAAGCC
20371908 TGCGGGATTTAA
66 TGCGGGATTTAA
* ** * *
20371920 CCAGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCCGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAA-CCCGGATATAATACCAGCACGAAGC
*
20371985 CTGCGTGATTTAA
65 CTGCGGGATTTAA
** *
20371998 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATATAATACCAGCACGAAGC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAA-CCCGGATATAATACCAGCACGAAGC
20372063 CTGCGGGATTTAA
65 CTGCGGGATTTAA
* *
20372076 CCCGGATATAATACCAGCACGAAGCCTTCGGG-ATTTAACCCGGATATATTACCAGCACGAAGCC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAACCCGGATATAATACCAGCACGAAGCC
*
20372140 TGCAGGATTTAA
66 TGCGGGATTTAA
* * * * *
20372152 CCCTGA-ATAATGCCAGCACGAAGCCTGC-AGAATTTAACCCGAATATAATACCAGCACGAAGCC
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAACCCGGATATAATACCAGCACGAAGCC
*
20372215 TGCTGGATTTAA
66 TGCGGGATTTAA
20372227 CC
1 CC
20372229 TAGATATACA
Statistics
Matches: 278, Mismatches: 28, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
74 1 0.00
75 63 0.23
76 66 0.24
77 9 0.03
78 139 0.50
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (77 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGTATTTAACCCGGATATAATACCAGCACGAAGCC
TGCGGGATTTAA
Found at i:20372080 original size:116 final size:114
Alignment explanation
Indices: 20371844--20372228 Score: 520
Period size: 116 Copynumber: 3.4 Consensus size: 114
20371834 GGCACGAAGG
* * * * * *
20371844 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTATCCCAGATATAATACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
* ** *
20371909 GCGGGATTTAACCAGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
66 GCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* * * *
20371959 GCCCGGATATAATACCCGCACGAAGCCTGCGTGATTTAACCCGGATATTTTACCAGCACGAAGCC
1 -CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCC
*
20372024 TGCGGGTCTTTAAGCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
65 TGCGGG-ATTTAA-CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
20372076 CCCGGATATAATACCAGCACGAAGCCTTCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
* * * * *
20372141 GCAGGATTTAACCCTGA-ATAATGCCAGCACGAAGCCTGCAGAATTTAA
66 GCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
20372189 CCCGAATATAATACCAGCACGAAGCCTGCTGGATTTAACC
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACC
20372229 TAGATATACA
Statistics
Matches: 239, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
113 65 0.27
114 5 0.02
115 5 0.02
116 125 0.52
117 10 0.04
118 29 0.12
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (114 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
GCGGGATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:20372236 original size:38 final size:38
Alignment explanation
Indices: 20371844--20372228 Score: 511
Period size: 38 Copynumber: 10.1 Consensus size: 38
20371834 GGCACGAAGG
* * * * *
20371844 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
20371882 CCCAGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
20371920 CCAGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
* *
20371959 GCCCGGATATAATACCCGCACGAAGCCTGCGTGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
20371998 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
20372037 GCCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 -CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
20372076 CCCGGATATAATACCAGCACGAAGCCTTCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
20372114 CCCGGATATATTACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * * *
20372152 CCCTGA-ATAATGCCAGCACGAAGCCTGCAGAATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
20372189 CCCGAATATAATACCAGCACGAAGCCTGCTGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
20372227 CC
1 CC
20372229 TAGATATACA
Statistics
Matches: 304, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
37 32 0.11
38 195 0.64
39 20 0.07
40 57 0.19
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:20374600 original size:17 final size:18
Alignment explanation
Indices: 20374558--20374606 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
20374548 AGTTGAAAAG
20374558 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
20374577 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
20374594 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
20374607 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:20375495 original size:40 final size:40
Alignment explanation
Indices: 20375429--20375595 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
20375419 AAATTGAATG
* * *
20375429 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
20375468 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
20375508 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
20375548 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
20375588 ATATCCGG
1 ATATCCGG
20375596 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:20382609 original size:17 final size:18
Alignment explanation
Indices: 20382567--20382615 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
20382557 AGTTGAAAAG
20382567 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
20382586 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
20382603 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
20382616 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:20383503 original size:40 final size:40
Alignment explanation
Indices: 20383437--20383603 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
20383427 AAATTGAATG
* * *
20383437 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
20383476 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
20383516 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
20383556 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
20383596 ATATCCGG
1 ATATCCGG
20383604 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:20386260 original size:22 final size:22
Alignment explanation
Indices: 20386230--20386290 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
20386220 TCACAATATG
20386230 TGCA-TGTGCGAACCTCTTCCA
1 TGCATTGTGCGAACCTCTTCCA
* * *
20386251 TGCATTGTGCAAACCTCATCTA
1 TGCATTGTGCGAACCTCTTCCA
*
20386273 TGCGTTGTGCGAA-CTCTT
1 TGCATTGTGCGAACCTCTT
20386291 AGCATGAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (22 bp):
TGCATTGTGCGAACCTCTTCCA
Found at i:20395532 original size:19 final size:19
Alignment explanation
Indices: 20395498--20395594 Score: 162
Period size: 19 Copynumber: 5.1 Consensus size: 19
20395488 GATTACAAGG
20395498 TCATATCTTCAAGATTGCATA
1 TCATATC-T-AAGATTGCATA
20395519 TCATATCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
20395538 TCATATCTAAGATTG--TA
1 TCATATCTAAGATTGCATA
20395555 TCATATCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
20395574 TCATATCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
20395593 TC
1 TC
20395595 CTTAAAGATT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
17 17 0.23
19 49 0.66
20 1 0.01
21 7 0.09
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
TCATATCTAAGATTGCATA
Found at i:20395560 original size:36 final size:37
Alignment explanation
Indices: 20395498--20395594 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 37
20395488 GATTACAAGG
20395498 TCATATCTTCAAGATTGCATATCATATCTAAGATTGCATA
1 TCATATC-T-AAGATTG-ATATCATATCTAAGATTGCATA
20395538 TCATATCTAAGATTG-TATCATATCTAAGATTGCATA
1 TCATATCTAAGATTGATATCATATCTAAGATTGCATA
20395574 TCATATCTAAGATTGCATATC
1 TCATATCTAAGATTG-ATATC
20395595 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
36 36 0.65
38 11 0.20
39 1 0.02
40 7 0.13
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
TCATATCTAAGATTGATATCATATCTAAGATTGCATA
Found at i:20396367 original size:206 final size:206
Alignment explanation
Indices: 20396002--20396730 Score: 1070
Period size: 206 Copynumber: 3.5 Consensus size: 206
20395992 CAATCTATTT
*
20396002 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCAC-TCGAAAACCAAA
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCACGT-GAAAGCCAAA
* * * * **
20396066 TCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATGTTGGATCTGCTTCA
65 TCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCA
* * ** * * *
20396131 GTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCCGCCCTCCGTCGAATATGGAGACACCAAAC
130 GTATAATCATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAAC
20396196 TTTGATTTGTTC
195 TTTGATTTGTTC
* * * *
20396208 TTTGACAATACAGAGATGCCAAATCATCTTAGATATGCTTCATCGTAAGCACGTGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCACGTGAAAGCCAAAT
* * *
20396273 CAGCTATGTCTTCGATTTGTTCCATGTAAGCACAAGGATGCCAAATCACCTTAGATCTGCTTCAA
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
* * *
20396338 TATAAACATATGAAGGCCAGATTTGCTATGTGTCTGCTCTCCGTCGAATATGGAGATGCCAAACT
131 TATAATCATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
*
20396403 TCGATTTGTTC
196 TTGATTTGTTC
* * *
20396414 TCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAGCACGTGATAGCCAAAG
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCACGTGAAAGCCAAA-
*
20396479 T-AGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCA
65 TCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCA
* *
20396543 GTATAATCATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCATCAAATATGGAGACGCCAAAC
130 GTATAATCATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAAC
20396608 TTCT-ATTTGTTC
195 TT-TGATTTGTTC
* * * *
20396620 TCTGACACTACAGAGATGCCAAATCATCTTAGATTTGCTTTAGCATAAAC-CATGAAAGCCAAAT
1 TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCACGTGAAAGCCAAAT
* *
20396684 CAGCTATATCTTCGATTTGTTCCTTGTAAGCACAGGGATGCCAAATC
66 CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
20396731 TGCTATCTTC
Statistics
Matches: 469, Mismatches: 50, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
204 1 0.00
205 54 0.12
206 412 0.88
207 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCATAAGCACGTGAAAGCCAAAT
CAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTGCTTCAG
TATAATCATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACT
TTGATTTGTTC
Found at i:20396749 original size:44 final size:43
Alignment explanation
Indices: 20396690--20397033 Score: 279
Period size: 44 Copynumber: 7.9 Consensus size: 43
20396680 AAATCAGCTA
* * * * *
20396690 TATCTTCGATTTGTTCCTTGTAAGCACAGGGATGCCAAATCTGC
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
**
20396734 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTAA
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * * * *
20396777 AATCTTCGA-TCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
1 TATCTTCAACT-TG-TTCCCTATAAACACAGGGATGCCA-ATCTGC
*
20396822 TATCTTCAATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-AATCTGC
* *
20396866 TATCTTCAACTTGTTCCCTATAAACACAGAGATGCC-ATGCTGA
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* **
20396909 AATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTAA
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAAT-CTGC
* * * * * *
20396952 AATCTTCGA-TCTGCTTCACTGTAAGCACA-GGAGTGTCAGATCTGC
1 TATCTTCAACT-TG-TTCCCTATAAACACAGGGA-TGCCA-ATCTGC
* *
20396997 TATCTTCGATTTGTTCCCTATAAACACA-GGATGCCAA
1 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
20397034 ATCTTGTTTC
Statistics
Matches: 245, Mismatches: 41, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
42 7 0.03
43 71 0.29
44 137 0.56
45 24 0.10
46 6 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (43 bp):
TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCAATCTGC
Found at i:20397051 original size:88 final size:89
Alignment explanation
Indices: 20396691--20397032 Score: 411
Period size: 88 Copynumber: 3.9 Consensus size: 89
20396681 AATCAGCTAT
* * *
20396691 ATCTTCGATTTG-TTC-CTTGTAAGCACAGG-GATGCCAAATCTGCTATCTTCAACTTGTTCCCT
1 ATCTTCGATCTGCTTCAC-TGTAAGCACAGGAGATGTCAGATCTGCTATCTTCAACTTGTTCCCT
20396753 ATAAACACAGGGATGCCATGCTAAA
65 ATAAACACAGGGATGCCATGCTAAA
*
20396778 ATCTTCGATCTGCTTCACTGTAAGCACAGGA-ATGTCAGATCTGCTATCTTCAATTTGTTCCCTA
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAGATGTCAGATCTGCTATCTTCAACTTGTTCCCTA
***
20396842 TAAACACAGGGATGCCAAAT-CTGCT
66 TAAACACAGGGATGCC--ATGCTAAA
* * * * * **
20396867 ATCTTC-AACTTG-TTCCCTATAAACACA-GAGATG-C-CATGCTGAAATCTTCAACTTGTTCCC
1 ATCTTCGATC-TGCTTCACTGTAAGCACAGGAGATGTCAGAT-CTGCTATCTTCAACTTGTTCCC
20396927 TATAAACACAGGGATGCCATGCTAAA
64 TATAAACACAGGGATGCCATGCTAAA
* *
20396953 ATCTTCGATCTGCTTCACTGTAAGCACAGGAG-TGTCAGATCTGCTATCTTCGATTTGTTCCCTA
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAGATGTCAGATCTGCTATCTTCAACTTGTTCCCTA
20397017 TAAACACA-GGATGCCA
66 TAAACACAGGGATGCCA
20397033 AATCTTGTTT
Statistics
Matches: 214, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
85 2 0.01
86 12 0.06
87 75 0.35
88 110 0.51
89 13 0.06
90 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (89 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAGATGTCAGATCTGCTATCTTCAACTTGTTCCCTA
TAAACACAGGGATGCCATGCTAAA
Found at i:20402722 original size:19 final size:19
Alignment explanation
Indices: 20402698--20402764 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
20402688 CATATCTTCC
20402698 AGATTGCATATCATATCTA
1 AGATTGCATATCATATCTA
20402717 AGATTG--TATCATATCTA
1 AGATTGCATATCATATCTA
*
20402734 AGATTGCATACCATATCTA
1 AGATTGCATATCATATCTA
20402753 AGATTGCATATC
1 AGATTGCATATC
20402765 CTTAAAGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.39
19 27 0.61
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
AGATTGCATATCATATCTA
Found at i:20402774 original size:36 final size:34
Alignment explanation
Indices: 20402698--20402764 Score: 100
Period size: 36 Copynumber: 1.9 Consensus size: 34
20402688 CATATCTTCC
*
20402698 AGATTGCATATCATATCTAAGATTGTATCATATCTA
1 AGATTGCATACCATATCTAAGATTG--TCATATCTA
20402734 AGATTGCATACCATATCTAAGATTG-CATATC
1 AGATTGCATACCATATCTAAGATTGTCATATC
20402765 CTTAAAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 6 0.20
36 24 0.80
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (34 bp):
AGATTGCATACCATATCTAAGATTGTCATATCTA
Found at i:20404638 original size:44 final size:44
Alignment explanation
Indices: 20404572--20405039 Score: 407
Period size: 44 Copynumber: 10.5 Consensus size: 44
20404562 TCAGGAATGT
* * * *
20404572 CAAATCTGCTATCTTTGATCTGCTTTCTGAAAATGCAGAGATGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* * * * * *
20404616 CAAACCTACTATATTCGATCTGCTCTTTGACAATATAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* *
20404660 CAAATCTATTATCTTCGATCTGCTCTCTGAAAATTCAGAGATGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* *
20404704 CAAATCTGCTATCTTTGATCTGCTCTCT-AACAATACAGAGATGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAA-AATACAGAGATGC
* * *
20404748 CAAATCTGGC-ATCTTTGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCT-ACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* * *
20404792 CAAATCTGATGCCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGC
1 CAAATC---T-----A----CTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* * * * * *
20404848 CAAATCTGCTGTCTTCGATCTACTCTCTGACAATACAGAAACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* *
20404892 CGAATCTACTATCTTCGATCTGCTCTCT-AACAATACAGAGACGC
1 CAAATCTACTATCTTCGATCTGCTCTCTGAA-AATACAGAGATGC
* *
20404936 CAAATCT-GTCATCTTCGATCTGCTCTCTG-----ACAAAGATGC
1 CAAATCTACT-ATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
* * *
20404975 CAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACT-C
1 CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGA-TGC
*
20405019 CAAATCTGCTATCTTCGATCT
1 CAAATCTACTATCTTCGATCT
20405040 ACATCGTCCC
Statistics
Matches: 354, Mismatches: 45, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
39 33 0.09
40 1 0.00
43 4 0.01
44 272 0.77
45 4 0.01
47 1 0.00
53 1 0.00
55 1 0.00
56 37 0.10
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAATCTACTATCTTCGATCTGCTCTCTGAAAATACAGAGATGC
Found at i:20404724 original size:88 final size:88
Alignment explanation
Indices: 20404572--20405039 Score: 509
Period size: 88 Copynumber: 5.2 Consensus size: 88
20404562 TCAGGAATGT
* * * * * *
20404572 CAAATCTGCTATCTTTGATCTGCTTTCTGAAAATGCAGAGATGCCAAACCTACTATATTCGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGCTATCTTCGATCT
* *
20404637 GCTCTTTGACAATATAGAGACGC
66 GCTCTCTGACAATACAGAGACGC
** * *
20404660 CAAATCTATTATCTTCGATCTGCTCTCTGAAAATTCAGAGATGCCAAATCTGCTATCTTTGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGCTATCTTCGATCT
* *
20404725 GCTCTCTAACAATACAGAGATGC
66 GCTCTCTGACAATACAGAGACGC
* *
20404748 CAAATCTGGC-ATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGATGCCAAATTTG
1 CAAATCT-GCTATCTTCGATCTGCTCTCTGAAAATACAGAGATGCC-AA----AT--C-----TG
*
20404812 CTATCTTCGATCTACTCTCTGACAATACAGAGACGC
53 CTATCTTCGATCTGCTCTCTGACAATACAGAGACGC
* * * * * * *
20404848 CAAATCTGCTGTCTTCGATCTACTCTCTGACAATACAGAAACGCCGAATCTACTATCTTCGATCT
1 CAAATCTGCTATCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGCTATCTTCGATCT
*
20404913 GCTCTCTAACAATACAGAGACGC
66 GCTCTCTGACAATACAGAGACGC
* *
20404936 CAAATCTG-TCATCTTCGATCTGCTCTCTG-----ACAAAGATGCCAAATCTGCTATCTTTGATC
1 CAAATCTGCT-ATCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGCTATCTTCGATC
*
20404995 TGCTCTCTGACAATACAGAGACTC
65 TGCTCTCTGACAATACAGAGACGC
20405019 CAAATCTGCTATCTTCGATCT
1 CAAATCTGCTATCTTCGATCT
20405040 ACATCGTCCC
Statistics
Matches: 323, Mismatches: 41, Indels: 37
0.81 0.10 0.09
Matches are distributed among these distances:
83 65 0.20
84 1 0.00
87 1 0.00
88 174 0.54
89 2 0.01
93 3 0.01
95 3 0.01
99 3 0.01
100 71 0.22
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (88 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGAAAATACAGAGATGCCAAATCTGCTATCTTCGATCT
GCTCTCTGACAATACAGAGACGC
Found at i:20404808 original size:56 final size:56
Alignment explanation
Indices: 20404743--20404855 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 56
20404733 ACAATACAGA
* * *
20404743 GATGCCAAATCTGGC-ATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCT
1 GATGCCAAAT-TGGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCT
*
20404799 GATGCCAAATTTGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCT
1 GATGCCAAATTGGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCT
20404855 G
1 G
20404856 CTGTCTTCGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 3 0.06
56 49 0.94
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (56 bp):
GATGCCAAATTGGCTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCT
Found at i:20404918 original size:144 final size:144
Alignment explanation
Indices: 20404669--20404943 Score: 399
Period size: 144 Copynumber: 1.9 Consensus size: 144
20404659 CCAAATCTAT
* * * * *
20404669 TATCTTCGATCTGCTCTCTGAAAATTCAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTAA
1 TATCTTCGATCTACTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTAA
* * * * * *
20404734 CAATACAGAGATGCCAAATCTGGCATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCT
66 CAATACAGAAACGCCAAATCTGACATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCT
20404799 GATGCCAAATTTGC
131 GATGCCAAATTTGC
* * *
20404813 TATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTGTCTTCGATCTACTCTCTGA
1 TATCTTCGATCTACTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTAA
*
20404878 CAATACAGAAACGCCGAATCT-ACTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
66 CAATACAGAAACGCCAAATCTGAC-ATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
20404942 TG
130 TG
20404944 TCATCTTCGA
Statistics
Matches: 115, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
143 1 0.01
144 114 0.99
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (144 bp):
TATCTTCGATCTACTCTCTGAAAATACAGAGACGCCAAATCTGCTATCTTCGATCTACTCTCTAA
CAATACAGAAACGCCAAATCTGACATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATCT
GATGCCAAATTTGC
Found at i:20404928 original size:188 final size:188
Alignment explanation
Indices: 20404624--20404968 Score: 528
Period size: 188 Copynumber: 1.8 Consensus size: 188
20404614 GCCAAACCTA
* * * * *
20404624 CTATATTCGATCTGCTCTTTGACAATATAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCTG
1 CTATATTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTG
* * * * * *
20404689 AAAATTCAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTAACAATACAGAGATGCCAAATC
66 AAAATACAGAAACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
*
20404754 TGGCATCTTTGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGATGCCAAATTTG
131 TGGCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGATGCCAAATTTG
* * *
20404812 CTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTGTCTTCGATCTACTCTCTG
1 CTATATTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTG
* *
20404877 ACAATACAGAAACGCCGAATCTACTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
66 AAAATACAGAAACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
*
20404942 TGTCATCTTCGATCTGCTCTCTGACAA
131 TGGCATCTTCGATCTGCTCTCTGACAA
20404969 AGATGCCAAA
Statistics
Matches: 139, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
188 139 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.30
Consensus pattern (188 bp):
CTATATTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCGATCTACTCTCTG
AAAATACAGAAACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAATACAGAGACGCCAAATC
TGGCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGATGCCAAATTTG
Found at i:20417469 original size:39 final size:40
Alignment explanation
Indices: 20417308--20417514 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
20417298 TGAATGATAC
* ** * *
20417308 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
20417348 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
20417388 CCGGGCTAAGACCCAAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * *** *
20417428 CCGGGCTAAGA-CCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* ** *
20417467 CCGGGTTAAGACCCGAAGGCAATT-GTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
20417507 CC-GGCTAA
1 CCGGGCTAA
20417515 ATTCTGAAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 36 0.25
40 101 0.71
41 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:20417486 original size:79 final size:80
Alignment explanation
Indices: 20417308--20417514 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 80
20417298 TGAATGATAC
* * * * * * *
20417308 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
20417373 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* *
20417388 CCGGGCTAAGACCCAAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGA-CCGAAGGCATTT
1 CCGGGCTAAGACCCAAAGGCAATT-GTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTC
20417451 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * **
20417467 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAA
20417515 ATTCTGAAGA
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
78 6 0.06
79 57 0.54
80 43 0.41
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCAAAGGCAATTGTGCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:20425480 original size:40 final size:40
Alignment explanation
Indices: 20425436--20425643 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
20425426 TGAATGAATC
* * * *
20425436 CCGGGCTAAGTCCCGAAGGCATTTATGCTA-ATGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
20425476 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20425516 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *** *
20425556 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * ** *
20425596 CCGGGTTAAGACCCGAAGGCAATTGCGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
20425636 CC-GGCTAA
1 CCGGGCTAA
20425644 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 5 0.03
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:20431611 original size:40 final size:40
Alignment explanation
Indices: 20431556--20431780 Score: 303
Period size: 40 Copynumber: 5.6 Consensus size: 40
20431546 TATTCGGATG
* *
20431556 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
20431596 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
20431636 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
20431679 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
20431719 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
20431759 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
20431781 TACTTGGGTT
Statistics
Matches: 167, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 15 0.09
40 113 0.68
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:20431709 original size:83 final size:83
Alignment explanation
Indices: 20431556--20431754 Score: 307
Period size: 83 Copynumber: 2.4 Consensus size: 83
20431546 TATTCGGATG
* *
20431556 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGC---TAGTGACCATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCGAAG
20431618 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
20431636 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-TGACCATACCCGGGCTAAGTCCCGAA
20431700 GGCATTTGTGCTAGTGACT
65 GGCATTTGTGCTAGTGACT
* *
20431719 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
20431755 TGCTATATCC
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
80 30 0.28
83 76 0.70
84 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCGAAG
GCATTTGTGCTAGTGACT
Found at i:20431799 original size:83 final size:82
Alignment explanation
Indices: 20431556--20431780 Score: 255
Period size: 83 Copynumber: 2.8 Consensus size: 82
20431546 TATTCGGATG
* * * * * * *
20431556 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGC--TAG-TGACCATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGACCCGAAGGCATGTGTGCAGTAGTTG-CTATACCCGGGCTAAATCCCGAAG
*
20431618 GCATTTGTGCTAGTGACT
65 GCATTTGTGCAAGTGACT
* * *
20431636 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCGAAGACCCGAAGGCATGTGTGC-AGTAGTTGCTATACCCGGGCTAAATCCCGAAG
*
20431701 GCATTTGTGCTAGTGACT
65 GCATTTGTGCAAGTGACT
* * *
20431719 ATATCCGGGCTAAGACCCGAAGGCATGTGTGC-G-AGTTGCTATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCGAAGACCCGAAGGCATGTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGG
20431781 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 14 0.11
80 42 0.32
81 1 0.01
83 72 0.55
84 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (82 bp):
ATATCCGGGCGAAGACCCGAAGGCATGTGTGCAGTAGTTGCTATACCCGGGCTAAATCCCGAAGG
CATTTGTGCAAGTGACT
Found at i:20434520 original size:46 final size:46
Alignment explanation
Indices: 20434453--20434628 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
20434443 TGAAACCCGC
* *
20434453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * * *
20434499 CCATAAGTGAACTCGGGCTCAACTCAACGAGCTCGGATAACTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCAT
* *** *
20434545 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
20434592 TCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20434629 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20434573 original size:93 final size:93
Alignment explanation
Indices: 20434461--20434629 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
20434451 GCCCATAAGT
* * *
20434461 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGGCTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20434526 CGAGCTCGGATAACTAGTTACATCTCTC
66 CGAGCTCGGATAACTAGTTACATCTCTC
* *
20434554 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20434619 CGAGTTCGGAT
66 CGAGCTCGGAT
20434630 GCCCAAATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATAACTAGTTACATCTCTC
Found at i:20442400 original size:45 final size:49
Alignment explanation
Indices: 20442268--20442400 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 49
20442258 TCACTATTTA
* *
20442268 TGGACAAGCCACCACTGAGTTGTAAATAAACTGCCACTGATAACACTTTG
1 TGGA-AAGCAACCACTGATTTGTAAATAAACTGCCACTGATAACACTTTG
* * * * *
20442318 TGGAAAAGCCACCACTGATATGCAAATATACTACCACTGA-AACACTTTG
1 TGG-AAAGCAACCACTGATTTGTAAATAAACTGCCACTGATAACACTTTG
*
20442367 T-G-AA-CAACCACTGATTTGTAGATAAACTGCCACT
1 TGGAAAGCAACCACTGATTTGTAAATAAACTGCCACT
20442401 TACTTCCACC
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
45 24 0.34
46 2 0.03
48 1 0.01
49 10 0.14
50 33 0.46
51 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (49 bp):
TGGAAAGCAACCACTGATTTGTAAATAAACTGCCACTGATAACACTTTG
Found at i:20443464 original size:18 final size:18
Alignment explanation
Indices: 20443443--20443485 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
20443433 TATTAATTTG
20443443 AAATATTTAAAAAAATAA
1 AAATATTTAAAAAAATAA
* * *
20443461 AAATTTTTAATAATATAA
1 AAATATTTAAAAAAATAA
*
20443479 TAATATT
1 AAATATT
20443486 AAGCTTGACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTTAAAAAAATAA
Found at i:20444492 original size:19 final size:18
Alignment explanation
Indices: 20444450--20444495 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
20444440 CTCTTGCCAC
20444450 TAATAAA-AAAATATTTA
1 TAATAAATAAAATATTTA
20444467 TAA-AAATAATAATAATTTA
1 TAATAAATAA-AAT-ATTTA
20444486 -AATAAATAAA
1 TAATAAATAAA
20444496 TTAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
16 3 0.12
17 5 0.20
18 6 0.24
19 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATAAATAAAATATTTA
Found at i:20450876 original size:80 final size:80
Alignment explanation
Indices: 20450792--20450940 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
20450782 TATGGTAACC
* * * *
20450792 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
20450856 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
20450872 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
20450937 CCGG
66 CCGG
20450941 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:20450882 original size:40 final size:38
Alignment explanation
Indices: 20450833--20450940 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
20450823 ATCACGATTT
*
20450833 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20450873 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20450913 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20450941 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:20458183 original size:80 final size:80
Alignment explanation
Indices: 20458099--20458247 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
20458089 TATGGTAACC
* * * *
20458099 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
20458163 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
20458179 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
20458244 CCGG
66 CCGG
20458248 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:20458189 original size:40 final size:38
Alignment explanation
Indices: 20458140--20458247 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
20458130 ATCACGATTT
*
20458140 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
20458180 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
20458220 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
20458248 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:20459507 original size:22 final size:22
Alignment explanation
Indices: 20459467--20459527 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
20459457 GATTCATGCT
*
20459467 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAATGCATAG
* * *
20459488 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAATGCATAG
20459510 AAGAGGTTCGCAC-ATGCA
1 AAGAGGTTCGCACAATGCA
20459528 CATGTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAGGTTCGCACAATGCATAG
Found at i:20461309 original size:19 final size:19
Alignment explanation
Indices: 20461274--20461371 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
20461264 AGATTACAAG
*
20461274 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
20461295 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
20461314 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
20461331 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
20461350 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
20461369 ATC
1 ATC
20461372 CTTAAAGATT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:20461339 original size:36 final size:37
Alignment explanation
Indices: 20461274--20461371 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
20461264 AGATTACAAG
20461274 ATCATATCTTCAAGATTGTATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
20461314 ATCATATCTAAGATTG-TATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
20461350 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
20461372 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:20462150 original size:41 final size:41
Alignment explanation
Indices: 20462100--20462236 Score: 104
Period size: 41 Copynumber: 3.3 Consensus size: 41
20462090 ACCTGTTACC
*
20462100 CTACCGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCTA
1 CTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCTA
* ** * *
20462141 CTACTGCTTAGGGAGA-TAAGATCTGCA-AATTTAACCTG-T-TA
1 CTACTGCTTAGGG-GATTAAG-GC-G-AGTCTTTGATCTGCTCTA
* *
20462182 CCCTCCTGCTTA-GGGATTAAGGCGAGTCTTCGATCTGCTCTA
1 --CTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCTA
*
20462224 CTATTGCTTAGGG
1 CTACTGCTTAGGG
20462237 AGATAAGATC
Statistics
Matches: 70, Mismatches: 15, Indels: 22
0.65 0.14 0.21
Matches are distributed among these distances:
39 1 0.01
40 15 0.21
41 24 0.34
42 12 0.17
43 17 0.24
44 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (41 bp):
CTACTGCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCTA
Found at i:20462181 original size:84 final size:84
Alignment explanation
Indices: 20462042--20462455 Score: 636
Period size: 84 Copynumber: 5.0 Consensus size: 84
20462032 AAGGTGCATC
* * *
20462042 GTCTTCGATCTACTCCGCTACTGCTTA-GG-GATAAGATCTGCAAATTTAACCTGTTACCCTACC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
20462105 GCTTAGGGGATTAAGGCGA
66 GCTTAGGGGATTAAGGCGA
* * *
20462124 GTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTCCT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
20462189 GCTTA-GGGATTAAGGCGA
66 GCTTAGGGGATTAAGGCGA
* * *
20462207 GTCTTCGATCTGCTCTACTATTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCAACT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
* *
20462272 GTTTAGGGGATTAATGCGA
66 GCTTAGGGGATTAAGGCGA
* *
20462291 GTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACTTGTTACCCTACT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
* *
20462356 GCTTAGGGGATTAATGTGA
66 GCTTAGGGGATTAAGGCGA
* * * *
20462375 GTCTTCGATCTGCTCCAGTACTGCTTAGGTAGATAAGATCTGCAAATTTTACTTGTTACCCTACT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
20462440 GCTTAGGGGATTAAGG
66 GCTTAGGGGATTAAGG
20462456 TGCTGAATTT
Statistics
Matches: 305, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
82 23 0.08
83 80 0.26
84 202 0.66
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (84 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
GCTTAGGGGATTAAGGCGA
Found at i:20462316 original size:167 final size:168
Alignment explanation
Indices: 20462042--20462455 Score: 636
Period size: 167 Copynumber: 2.5 Consensus size: 168
20462032 AAGGTGCATC
* * *
20462042 GTCTTCGATCTACTCCGCTACTGCTTA-GG-GATAAGATCTGCAAATTTAACCTGTTACCCTACC
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
* * *
20462105 GCTTAGGGGATTAAGGCGAGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGCAAA
66 GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAAA
*
20462170 TTTAACCTGTTACCCTCCTGCTTA-GGGATTAAGGCGA
131 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
* * *
20462207 GTCTTCGATCTGCTCTACTATTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCAACT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
* *
20462272 GTTTAGGGGATTAATGCGAGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAAA
66 GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAAA
* * *
20462337 TTTAACTTGTTACCCTACTGCTTAGGGGATTAATGTGA
131 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
* * * *
20462375 GTCTTCGATCTGCTCCAGTACTGCTTAGGTAGATAAGATCTGCAAATTTTACTTGTTACCCTACT
1 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
20462440 GCTTAGGGGATTAAGG
66 GCTTAGGGGATTAAGG
20462456 TGCTGAATTT
Statistics
Matches: 222, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
165 23 0.10
166 2 0.01
167 114 0.51
168 83 0.37
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (168 bp):
GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACT
GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCCCCACTACTGCTTAGGGAGATAAGATCTGCAAA
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
Found at i:20462320 original size:41 final size:41
Alignment explanation
Indices: 20462269--20462403 Score: 98
Period size: 41 Copynumber: 3.2 Consensus size: 41
20462259 CTGTTACCCA
* *
20462269 ACTGTTTAGGGGATTAATGCGAGTCTTCGATCTGCCCCACT
1 ACTGCTTAGGGGATTAATGCGAGTCTTCGATCTGCACCACT
* * * * *
20462310 ACTGCTTAGGGAGATAAGATCTGCAAAT-TT--AACTTGTTACC-CT
1 ACTGCTTAGGG-GATTA-A--TGCGAGTCTTCGATC-TG-CACCACT
* * *
20462353 ACTGCTTAGGGGATTAATGTGAGTCTTCGATCTGCTCCAGT
1 ACTGCTTAGGGGATTAATGCGAGTCTTCGATCTGCACCACT
20462394 ACTGCTTAGG
1 ACTGCTTAGG
20462404 TAGATAAGAT
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
39 4 0.06
40 4 0.06
41 24 0.35
42 12 0.17
43 16 0.23
44 4 0.06
45 5 0.07
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (41 bp):
ACTGCTTAGGGGATTAATGCGAGTCTTCGATCTGCACCACT
Found at i:20463456 original size:17 final size:16
Alignment explanation
Indices: 20463406--20463460 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
20463396 GCCTCTCCAA
*
20463406 TTTTCTTTTTTCTTTT
1 TTTTTTTTTTTCTTTT
*
20463422 TATTTTTTTTCTCTTTT
1 T-TTTTTTTTTTCTTTT
20463439 TCTTTTTTTTTTCCTTTT
1 T-TTTTTTTTTT-CTTTT
20463457 TTTT
1 TTTT
20463461 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.03
17 26 0.79
18 6 0.18
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTTTTTCTTTT
Found at i:20466175 original size:32 final size:34
Alignment explanation
Indices: 20466129--20466193 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
20466119 TAACAGTGGT
*
20466129 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
** *
20466161 ACTGGGCCTTAGCCCCTTATTTAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
20466194 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 10 0.37
33 5 0.19
34 12 0.44
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:20466524 original size:25 final size:27
Alignment explanation
Indices: 20466487--20466539 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
20466477 TCAAACATGC
20466487 ATTTAGGTCAATTTA-ATCCTAGGGGT
1 ATTTAGGTCAATTTATATCCTAGGGGT
* *
20466513 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTATATCCTAGGGGT
20466539 A
1 A
20466540 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTATATCCTAGGGGT
Found at i:20468054 original size:26 final size:26
Alignment explanation
Indices: 20468024--20468105 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
20468014 TGGAATCCCA
20468024 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20468050 ATCATGAAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
20468076 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20468102 ATCA
1 ATCA
20468106 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20470897 original size:22 final size:22
Alignment explanation
Indices: 20470857--20470917 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
20470847 GATTCATGCT
*
20470857 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAATGCATAG
* * *
20470878 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAATGCATAG
20470900 AAGAGGTTCGCAC-ATGCA
1 AAGAGGTTCGCACAATGCA
20470918 CATGTTCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 8 0.24
22 25 0.76
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (22 bp):
AAGAGGTTCGCACAATGCATAG
Found at i:20472223 original size:12 final size:12
Alignment explanation
Indices: 20472206--20472230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20472196 ATACATAATC
20472206 ATAATATATAAA
1 ATAATATATAAA
20472218 ATAATATATAAA
1 ATAATATATAAA
20472230 A
1 A
20472231 AGGTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATATAAA
Found at i:20472638 original size:36 final size:36
Alignment explanation
Indices: 20472596--20472667 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
20472586 CAAGATTATA
20472596 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
* *
20472632 TATCATATCTAATATTTCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
20472668 CATATCCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:20472671 original size:19 final size:19
Alignment explanation
Indices: 20472595--20472673 Score: 126
Period size: 19 Copynumber: 4.3 Consensus size: 19
20472585 TCAAGATTAT
20472595 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
20472614 ATATCATATCTAAGATTG-
1 ATATCATATCTAAGATTGC
* *
20472632 -TATCATATCTAATATTTC
1 ATATCATATCTAAGATTGC
20472650 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
20472669 ATATC
1 ATATC
20472674 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
17 15 0.28
19 39 0.72
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.41
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:20475081 original size:21 final size:21
Alignment explanation
Indices: 20475029--20475081 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
20475019 TGACAATTTT
* *
20475029 ATAAATAAA-AAAATAACAAA
1 ATAATTAAATAAAAAAACAAA
* *
20475049 TTTATATAAATAAAAAAACAAA
1 ATAAT-TAAATAAAAAAACAAA
20475071 ATAATTAAATA
1 ATAATTAAATA
20475082 GTATCTGGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
20 2 0.08
21 10 0.40
22 13 0.52
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAATTAAATAAAAAAACAAA
Found at i:20483714 original size:86 final size:86
Alignment explanation
Indices: 20483581--20483755 Score: 332
Period size: 86 Copynumber: 2.0 Consensus size: 86
20483571 TATCGGCAGT
20483581 GAGAACACAGTGTTCACGAATACATTAAACTGAAAAAAACATTCACTTTGTTTTACCCTCTTTTA
1 GAGAACACAGTGTTCACGAATACATTAAACTGAAAAAAACATTCACTTTGTTTTACCCTCTTTTA
20483646 TCATTGAAGATTATGGGATTG
66 TCATTGAAGATTATGGGATTG
*
20483667 GAGAACACGGTGTTCACGAATACATTAAACTGAAAAAAACATTCACTTTGTTTTACCCTCTTTTA
1 GAGAACACAGTGTTCACGAATACATTAAACTGAAAAAAACATTCACTTTGTTTTACCCTCTTTTA
*
20483732 TCATTGAAGATTATGGTATTG
66 TCATTGAAGATTATGGGATTG
20483753 GAG
1 GAG
20483756 TTTTTTTTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (86 bp):
GAGAACACAGTGTTCACGAATACATTAAACTGAAAAAAACATTCACTTTGTTTTACCCTCTTTTA
TCATTGAAGATTATGGGATTG
Found at i:20488510 original size:2 final size:2
Alignment explanation
Indices: 20488503--20488538 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
20488493 TTTAGAGGCC
20488503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
20488539 TTAACCTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20488660 original size:22 final size:22
Alignment explanation
Indices: 20488620--20488676 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
20488610 GATTCATGCT
20488620 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAACGCATAG
* * * *
20488641 ATGAGGTTTGCACAAGGCATGG
1 AAGAGGTTCGCACAACGCATAG
20488663 AAGAGGTTCGCACA
1 AAGAGGTTCGCACA
20488677 TGCACATGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (22 bp):
AAGAGGTTCGCACAACGCATAG
Found at i:20491280 original size:22 final size:23
Alignment explanation
Indices: 20491251--20491299 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
20491241 TTATTATTCC
*
20491251 AATTT-TATAAATAAAAAATAAAA
1 AATTTATATAAAGAAAAAA-AAAA
20491274 AATTTATATAAAGAAAAAAAAAA
1 AATTTATATAAAGAAAAAAAAAA
20491297 AAT
1 AAT
20491300 AATTAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AATTTATATAAAGAAAAAAAAAA
Found at i:20500737 original size:136 final size:138
Alignment explanation
Indices: 20500480--20500766 Score: 488
Period size: 136 Copynumber: 2.1 Consensus size: 138
20500470 TATTGGGCCT
** *
20500480 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCCTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCCTTTTCAGATTACAATAAACTGGGCCT
*
20500545 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-A
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAA
20500609 ACATATGC
131 ACATATGC
* *
20500617 AAGCTCATTTGGGTAACAGTGGTACTGGGTCAAAG-CCCTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCCTTTTCAGATTACAATAAACTGGGCCT
* *
20500681 TAGTCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAGTAA
66 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAA
20500746 ACATATGC
131 ACATATGC
20500754 AAGCCCATTTGGG
1 AAGCCCATTTGGG
20500767 GAGACTACTC
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
136 89 0.64
137 51 0.36
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (138 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCCTTTTCAGATTACAATAAACTGGGCCT
TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAA
ACATATGC
Found at i:20501043 original size:26 final size:26
Alignment explanation
Indices: 20501014--20501066 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20501004 TCAAACATGC
*
20501014 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
20501040 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
20501066 A
1 A
20501067 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:20502452 original size:5 final size:5
Alignment explanation
Indices: 20502444--20502481 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
20502434 CTAACTGTGA
*
20502444 AAAAT AAAAT AGAAT AAAAT -AAAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
20502482 GAACACATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:20502470 original size:9 final size:9
Alignment explanation
Indices: 20502445--20502475 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20502435 TAACTGTGAA
20502445 AAATAAAAT
1 AAATAAAAT
20502454 AGAATAAAAT
1 A-AATAAAAT
20502464 AAATAAAAT
1 AAATAAAAT
20502473 AAA
1 AAA
20502476 AATAAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:20507410 original size:26 final size:26
Alignment explanation
Indices: 20507374--20507457 Score: 152
Period size: 26 Copynumber: 3.2 Consensus size: 26
20507364 CATGAAATTC
20507374 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
20507400 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACACA
20507426 TTATCATGAAACATTTACCTAAC-CTA
1 TTATCATGAAACATTTACCTAACAC-A
20507452 TTATCA
1 TTATCA
20507458 ATTTGTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
25 1 0.02
26 56 0.98
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACACA
Found at i:20507413 original size:13 final size:13
Alignment explanation
Indices: 20507374--20507440 Score: 52
Period size: 13 Copynumber: 5.2 Consensus size: 13
20507364 CATGAAATTC
20507374 TTATCATGAAACA
1 TTATCATGAAACA
*
20507387 TT-TACCT-AACACA
1 TTAT-CATGAA-ACA
20507400 TTATCATGAAACA
1 TTATCATGAAACA
*
20507413 TT-TACCT-AACACA
1 TTAT-CATGAA-ACA
20507426 TTATCATGAAACA
1 TTATCATGAAACA
20507439 TT
1 TT
20507441 TACCTAACCT
Statistics
Matches: 42, Mismatches: 4, Indels: 16
0.68 0.06 0.26
Matches are distributed among these distances:
12 6 0.14
13 30 0.71
14 6 0.14
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (13 bp):
TTATCATGAAACA
Found at i:20510609 original size:23 final size:25
Alignment explanation
Indices: 20510583--20510633 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
20510573 TTATTATTCC
* *
20510583 AATTT-TATAAATAAAAAATAA-AA
1 AATTTATATAAAGAAAAAAAAACAA
20510606 AATTTATATAAAGAAAAAAAAACAA
1 AATTTATATAAAGAAAAAAAAACAA
20510631 AAT
1 AAT
20510634 AATTAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (25 bp):
AATTTATATAAAGAAAAAAAAACAA
Found at i:20519301 original size:22 final size:22
Alignment explanation
Indices: 20519261--20519321 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
20519251 GATTCATGCT
20519261 AAGA-GTTCGCACAACGCATAG
1 AAGAGGTTCGCACAACGCATAG
* * * *
20519282 ATGAGGTTTGCACAATGCATGG
1 AAGAGGTTCGCACAACGCATAG
20519304 AAGAGGTTCGCAC-ACGCA
1 AAGAGGTTCGCACAACGCA
20519322 CATGTTCAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (22 bp):
AAGAGGTTCGCACAACGCATAG
Found at i:20521001 original size:2 final size:2
Alignment explanation
Indices: 20520996--20521033 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20520986 TGAATTTCAA
*
20520996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20521034 TGAGCGTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20521935 original size:22 final size:22
Alignment explanation
Indices: 20521909--20521954 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
20521899 TTATGCCAAT
*
20521909 TTTATAAATAAAAAATAAAA-AA
1 TTTATAAAGAAAAAA-AAAATAA
*
20521931 TTTATATAGAAAAAAAAAATAA
1 TTTATAAAGAAAAAAAAAATAA
20521953 TT
1 TT
20521955 AAATAGTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TTTATAAAGAAAAAAAAAATAA
Found at i:20527372 original size:47 final size:47
Alignment explanation
Indices: 20527253--20527408 Score: 231
Period size: 47 Copynumber: 3.3 Consensus size: 47
20527243 TACATGATAG
20527253 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
20527302 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * *
20527349 TATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
20527396 TAAATGTGATAAG
1 TATATGTGATAAG
20527409 TCCCGAAGGG
Statistics
Matches: 99, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 54 0.55
49 45 0.45
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:20529641 original size:20 final size:20
Alignment explanation
Indices: 20529616--20529657 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
20529606 CAAACAATGC
20529616 AATATTATGTTGGAAAAGAG
1 AATATTATGTTGGAAAAGAG
20529636 AATATTATGTTGGAAAAGAG
1 AATATTATGTTGGAAAAGAG
20529656 AA
1 AA
20529658 GGCTCATTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
AATATTATGTTGGAAAAGAG
Found at i:20540350 original size:29 final size:29
Alignment explanation
Indices: 20540316--20540476 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
20540306 TACTCGATTT
** * *
20540316 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
20540345 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
20540374 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20540403 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20540432 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20540461 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20540477 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20545959 original size:25 final size:22
Alignment explanation
Indices: 20545901--20545961 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 22
20545891 TTAATCCTTT
*
20545901 TTTATATATTTCTAAATTTTTTA
1 TTTATTTATTT-TAAATTTTTTA
20545924 TTTATTTATTTTAAATATTTTATA
1 TTTATTTATTTTAAAT-TTTT-TA
20545948 TATTATTTATTTTA
1 T-TTATTTATTTTA
20545962 CTATAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 5 0.15
23 14 0.41
24 3 0.09
25 12 0.35
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTATTTTAAATTTTTTA
Found at i:20546074 original size:29 final size:30
Alignment explanation
Indices: 20545988--20546104 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
20545978 TATATAAAAA
*
20545988 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
20546019 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
20546052 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
20546084 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
20546105 CTTTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:20560761 original size:30 final size:27
Alignment explanation
Indices: 20560727--20560785 Score: 73
Period size: 30 Copynumber: 2.1 Consensus size: 27
20560717 ATGTAATATA
20560727 AACATATAAGAAAAATAATAGATATAAAGT
1 AACATATAA-AAAAAT-ATAGATAT-AAGT
* *
20560757 AACATATAAAACAATATATATATAAGT
1 AACATATAAAAAAATATAGATATAAGT
20560784 AA
1 AA
20560786 TAAATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 7 0.26
29 5 0.19
30 9 0.33
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (27 bp):
AACATATAAAAAAATATAGATATAAGT
Found at i:20560876 original size:20 final size:21
Alignment explanation
Indices: 20560829--20560889 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
20560819 TAATTTAAGG
*
20560829 AAAATAATGTATATAATAAGTA
1 AAAATAAT-AATATAATAAGTA
* *
20560851 ATAATAATAATAT-ATAATTA
1 AAAATAATAATATAATAAGTA
*
20560871 AAAATAATACTCATAATAA
1 AAAATAATAAT-ATAATAA
20560890 AACAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 15 0.47
21 6 0.19
22 11 0.34
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATAATAATATAATAAGTA
Found at i:20560957 original size:17 final size:17
Alignment explanation
Indices: 20560935--20560970 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20560925 AAAATAAACA
*
20560935 AATAATACAATATATAT
1 AATAATACAATAAATAT
*
20560952 AATAATATAATAAATAT
1 AATAATACAATAAATAT
20560969 AA
1 AA
20560971 GACTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATACAATAAATAT
Found at i:20562645 original size:81 final size:81
Alignment explanation
Indices: 20562510--20562831 Score: 518
Period size: 81 Copynumber: 4.0 Consensus size: 81
20562500 CAAATCATCT
* * *
20562510 TGAGTCTGCTTGAGAACATTTGAGAGTCATATCTGCAATGTTCTCGATTTGTTCCTTGTAAGTAC
1 TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
20562575 AAGGATGCCAAACCAA
66 AAGGATGCCAAACCAA
20562591 TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
1 TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
20562656 AAGGATGCCAAACCAA
66 AAGGATGCCAAACCAA
*
20562672 TGAGTCTGTTTGAGAACATTTGGGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
1 TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
* *
20562737 AAGGATACCAAACCATCT
66 AAGGATGCCAAACCA--A
* * * *
20562755 TGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTGTAAACAC
1 TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
* *
20562820 AAGAATACCAAA
66 AAGGATGCCAAA
20562832 TCATCTTGGA
Statistics
Matches: 227, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
81 156 0.69
83 71 0.31
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (81 bp):
TGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCAC
AAGGATGCCAAACCAA
Found at i:20562976 original size:119 final size:119
Alignment explanation
Indices: 20562761--20563077 Score: 474
Period size: 119 Copynumber: 2.7 Consensus size: 119
20562751 ATCTTGAGTC
* * * * * * * *
20562761 TATTTGAGAACATTTGAGAGTCATATCTGCAACGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
* *
20562826 ACCAAATCATCTTGGATCTGCTTCAGCATAAACATCTGAAGGT-TAGATCTACTA
66 GCCAAATCATCTTGGATCTACTTCAGCATAAACATCTGAA-GTCTAGATCTACTA
* *
20562880 TATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAGTACAAGGAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
* * *
20562945 GCCAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGTCTAGATCTGCTG
66 GCCAAATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTA
*
20562999 TCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
20563064 GCCAAATCATCTTG
66 GCCAAATCATCTTG
20563078 AGTCTGTTTT
Statistics
Matches: 179, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
118 2 0.01
119 177 0.99
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (119 bp):
TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGAT
GCCAAATCATCTTGGATCTACTTCAGCATAAACATCTGAAGTCTAGATCTACTA
Found at i:20563143 original size:84 final size:85
Alignment explanation
Indices: 20562996--20563161 Score: 244
Period size: 84 Copynumber: 2.0 Consensus size: 85
20562986 TCTAGATCTG
* * * * *
20562996 CTGTCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAG
1 CTGTCTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAG
* *
20563061 GATGCCAAATCATCTTGAGT
66 AATACCAAATCATCTTGAGT
* *
20563081 CTGT-TTTGAGAACATCTGAGAGTCATATCTGCAACGTCCTCGATTTATTTCTTGTAAACACAAG
1 CTGTCTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAG
20563145 AATACCAAATCATCTTG
66 AATACCAAATCATCTTG
20563162 GATCTGCTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 68 0.94
85 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (85 bp):
CTGTCTTTGAGAACATCTGAGAGTCAAATCTGCAACGTCCTCGATTTATTCCTTGTAAACACAAG
AATACCAAATCATCTTGAGT
Found at i:20573124 original size:20 final size:20
Alignment explanation
Indices: 20573099--20573136 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20573089 ATTTACACCT
20573099 TTGACCCATTACAATTACCC
1 TTGACCCATTACAATTACCC
20573119 TTGACCCATTACAATTAC
1 TTGACCCATTACAATTAC
20573137 AAAATAGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (20 bp):
TTGACCCATTACAATTACCC
Found at i:20574256 original size:16 final size:17
Alignment explanation
Indices: 20574216--20574259 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
20574206 TTTAGTCCTA
20574216 TATTTATTTTATTATTC
1 TATTTATTTTATTATTC
*
20574233 TATATATTTT-TTATT-
1 TATTTATTTTATTATTC
20574248 TGATTTATTTTA
1 T-ATTTATTTTA
20574260 ATTTTACTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 9 0.39
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTTATTTTATTATTC
Found at i:20574370 original size:20 final size:19
Alignment explanation
Indices: 20574336--20574387 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
20574326 TTAATTCTCT
20574336 CATA-ATTAT-TATTTTTA
1 CATATATTATATATTTTTA
*
20574353 TATATATTATCATATTTTTA
1 CATATATTAT-ATATTTTTA
20574373 CATATATTATATATT
1 CATATATTATATATT
20574388 CATTTACGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 5 0.17
20 17 0.57
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
CATATATTATATATTTTTA
Found at i:20576297 original size:30 final size:29
Alignment explanation
Indices: 20576263--20576323 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
20576253 ATGTAATATA
20576263 AACATATAAGAAAAATAATAGATATA-AAGT
1 AACATATAA-AAAAAT-ATAGATATATAAGT
* *
20576293 AACATATAAAACAATATATATATATAAGT
1 AACATATAAAAAAATATAGATATATAAGT
20576322 AA
1 AA
20576324 TAAATATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 11 0.39
30 9 0.32
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (29 bp):
AACATATAAAAAAATATAGATATATAAGT
Found at i:20576414 original size:20 final size:22
Alignment explanation
Indices: 20576367--20576417 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
20576357 TAATTTAAGG
20576367 AAAATAATATATATAATAAGTA
1 AAAATAATATATATAATAAGTA
* *
20576389 ATAATAATA-ATAT-ATAATTA
1 AAAATAATATATATAATAAGTA
20576409 AAAATAATA
1 AAAATAATA
20576418 CTCATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
21 4 0.15
22 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATAATATATATAATAAGTA
Found at i:20576414 original size:23 final size:22
Alignment explanation
Indices: 20576369--20576417 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
20576359 ATTTAAGGAA
*
20576369 AATAATATATATAATAAGTAAT
1 AATAATATATATAATAAGAAAT
20576391 AATAATAATATATAATTAA-AAAT
1 AATAAT-ATATATAA-TAAGAAAT
20576414 AATA
1 AATA
20576418 CTCATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AATAATATATATAATAAGAAAT
Found at i:20578737 original size:44 final size:44
Alignment explanation
Indices: 20578436--20578730 Score: 430
Period size: 44 Copynumber: 6.7 Consensus size: 44
20578426 CATTTACAAG
* *
20578436 GAGCATATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
20578480 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTATATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
20578524 GAGCAGATTGAAGATAGCAGATTTGGCGTCTTTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
20578568 GAGC-GAATCGAAGATAGTAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAG-ATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
20578612 GAGCAGATCGAAGATAGCAGATTTGACATCTCAGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
** * *
20578656 GAATAGATCGAAGATAGCAGATTTGGCCTCTCTGTATTATCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
20578700 GAGCAGATCGAAGATAGTAGATTTGGCATCT
1 GAGCAGATCGAAGATAGCAGATTTGGCATCT
20578731 TCGTATTTTG
Statistics
Matches: 223, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 1 0.00
44 221 0.99
45 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:20579083 original size:17 final size:17
Alignment explanation
Indices: 20579061--20579093 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20579051 ACAAAAATTA
*
20579061 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
20579078 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
20579094 AGTCCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:20579723 original size:17 final size:17
Alignment explanation
Indices: 20579686--20579722 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20579676 AAAGGTGATA
20579686 TTTTGTTTATTGTTATT
1 TTTTGTTTATTGTTATT
20579703 TTTTCGTTT-TTGTT-TT
1 TTTT-GTTTATTGTTATT
20579719 TTTT
1 TTTT
20579723 TTTCAATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.05, C:0.03, G:0.11, T:0.81
Consensus pattern (17 bp):
TTTTGTTTATTGTTATT
Found at i:20580541 original size:29 final size:28
Alignment explanation
Indices: 20580468--20580562 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 28
20580458 ATTTATCGTA
*
20580468 TATTATTTTAT-TATA-TATTTATATTAT
1 TATTA-TTTATGTATATTATATATATTAT
* *
20580495 TATGTTATGT-TGTCTATTATATATATTAT
1 TA--TTATTTATGTATATTATATATATTAT
20580524 CTATTATTTATGTATATTTTATCATATATTATT
1 -TATTATTTATGTATA--TTAT-ATATATTA-T
20580557 TATTAT
1 TATTAT
20580563 GTTGTTTATC
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
27 3 0.06
28 10 0.19
29 19 0.36
30 2 0.04
31 4 0.08
32 14 0.26
33 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (28 bp):
TATTATTTATGTATATTATATATATTAT
Found at i:20580551 original size:32 final size:31
Alignment explanation
Indices: 20580470--20580587 Score: 105
Period size: 32 Copynumber: 3.6 Consensus size: 31
20580460 TTATCGTATA
20580470 TTATTTTATTATATATTTATATTATTATGTTATG
1 TTATTTTA-TATATA-TTAT-TTATTATGTTATG
* *
20580504 TTGTCTATTATATATATTATCTATTAT-TTATG
1 TTAT-T-TTATATATATTATTTATTATGTTATG
*
20580536 TATATTTTATCATATATTATTTATTATGTTGT-
1 T-TATTTTAT-ATATATTATTTATTATGTTATG
* *
20580568 TTATCTTTATCTTTATTATT
1 TTAT-TTTATATATATTATT
20580588 ATAATTTTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
31 15 0.21
32 28 0.39
33 11 0.15
34 7 0.10
35 7 0.10
36 3 0.04
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (31 bp):
TTATTTTATATATATTATTTATTATGTTATG
Found at i:20594662 original size:44 final size:44
Alignment explanation
Indices: 20594614--20594999 Score: 553
Period size: 44 Copynumber: 8.8 Consensus size: 44
20594604 CATTTACAAG
*
20594614 GAGCAGATCGAAGATAGCAGATTTGGCATCTTTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
20594658 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * ** *
20594702 GAGCAGATTGAAGATAGGAGATTTGGTGTCTCTGTATTGGCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
20594746 GAGC-GAATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAG-ATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
20594790 GAGCAGATCGAAGATAGCAGATTTGACATCTCAGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
** *
20594834 GAATAGATCGAAGATAGCAGATTTGGCATCTCTGTATTATCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
20594878 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
20594922 GAGCAGATCGAAGATAGTAGATTTGGCATCT-TCGTATTTTGACGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCT-GTATTGTCA-GA
* * *
20594967 GGAGCAAATCCAAGA-AGCATATTTGGCATCTCT
1 -GAGCAGATCGAAGATAGCAGATTTGGCATCTCT
20595000 AGATCCAAGA
Statistics
Matches: 308, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
43 2 0.01
44 276 0.90
45 17 0.06
46 13 0.04
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:20595305 original size:17 final size:17
Alignment explanation
Indices: 20595283--20595315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20595273 ACAAAAATTA
*
20595283 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
20595300 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
20595316 AGTCCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:20597246 original size:27 final size:28
Alignment explanation
Indices: 20597216--20597285 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
20597206 ATAGTGAGTC
20597216 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20597243 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20597271 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20597286 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20604313 original size:28 final size:27
Alignment explanation
Indices: 20604250--20604317 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
20604240 ATAGTGAGTC
20604250 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
20604277 TGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
20604305 CGCACACTTAGTG
1 CGCACACTTAGTG
20604318 TTGTACAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:20605375 original size:17 final size:17
Alignment explanation
Indices: 20605346--20605383 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
20605336 AAAGGTGATA
20605346 TTTT-GTTTATTGTTATT
1 TTTTCGTTTATTGTT-TT
20605363 TTTTCGTTT-TTGTTTT
1 TTTTCGTTTATTGTTTT
20605379 TTTTC
1 TTTTC
20605384 AATACATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.05, C:0.05, G:0.11, T:0.79
Consensus pattern (17 bp):
TTTTCGTTTATTGTTTT
Found at i:20606199 original size:29 final size:30
Alignment explanation
Indices: 20606113--20606229 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
20606103 TATATAAAAA
*
20606113 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
20606144 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
20606177 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
20606209 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
20606230 CTTTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:20607679 original size:16 final size:16
Alignment explanation
Indices: 20607658--20607689 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
20607648 CTTAGTCGAA
20607658 GTGGGAGCGAATAATG
1 GTGGGAGCGAATAATG
20607674 GTGGGAGCGAATAATG
1 GTGGGAGCGAATAATG
20607690 ATGGACATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.44, T:0.19
Consensus pattern (16 bp):
GTGGGAGCGAATAATG
Found at i:20609732 original size:22 final size:22
Alignment explanation
Indices: 20609697--20609752 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
20609687 ATGCTAAGAA
* * *
20609697 TTCGAACAACGCATAGATGAGG
1 TTCGCACAATGCATAGAAGAGG
* *
20609719 TTTGCACAATGCATGGAAGAGG
1 TTCGCACAATGCATAGAAGAGG
20609741 TTCGCAC-ATGCA
1 TTCGCACAATGCA
20609753 CATGTTCAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (22 bp):
TTCGCACAATGCATAGAAGAGG
Found at i:20612154 original size:13 final size:14
Alignment explanation
Indices: 20612130--20612158 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
20612120 TAATATATTT
20612130 TTGATCAAATTTAA
1 TTGATCAAATTTAA
20612144 TTGAT-AAATTTAA
1 TTGATCAAATTTAA
20612157 TT
1 TT
20612159 TTTTAGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (14 bp):
TTGATCAAATTTAA
Done.