Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 68 of 173
Found at i:20461263 original size:32 final size:32
Alignment explanation
Indices: 20461196--20461257 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
20461186 CGTATAACTC
20461196 TTAA-ATGTTTAGAATTTTATAATGGATAAAT
1 TTAAGATGTTTAGAATTTTATAATGGATAAAT
20461227 TTAAGATGTTCTAGAATTTT-T-AT-GATAAAT
1 TTAAGATGTT-TAGAATTTTATAATGGATAAAT
20461257 T
1 T
20461258 ATTAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
30 8 0.28
31 6 0.21
32 6 0.21
33 9 0.31
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.47
Consensus pattern (32 bp):
TTAAGATGTTTAGAATTTTATAATGGATAAAT
Found at i:20473715 original size:51 final size:50
Alignment explanation
Indices: 20473596--20473780 Score: 160
Period size: 51 Copynumber: 3.7 Consensus size: 50
20473586 AAAGTGATGG
* * * * * *
20473596 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTGCCAGA-A-TGATTAG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-A-TAA
* * *
20473646 TCGCACGTGTAGTACTATGTACAGGCTACTATGCGTACCGGATAGCT-TCAA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-AA
* * * * **
20473697 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATAA
*
20473748 TCACATGTGTAGTACTATCTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
20473781 TGAACCGATA
Statistics
Matches: 108, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
50 36 0.33
51 70 0.65
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATAA
Found at i:20474026 original size:16 final size:16
Alignment explanation
Indices: 20474005--20474036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20473995 TGATTGAAAG
*
20474005 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
20474021 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
20474037 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:20487507 original size:30 final size:30
Alignment explanation
Indices: 20487450--20487511 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
20487440 GCTTTTTGAA
* *
20487450 AATATTTACAAAAAAAGGCATCTAATTTTT
1 AATATTTACAAAAAAAGGCACCAAATTTTT
*
20487480 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAAAGGC-ACCAAATTTTT
20487510 AA
1 AA
20487512 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAAAGGCACCAAATTTTT
Found at i:20501046 original size:13 final size:13
Alignment explanation
Indices: 20501004--20501047 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
20500994 CATATTTATA
*
20501004 TTCATATAAATAT
1 TTCATATAAACAT
*
20501017 TTCATATAAACAC
1 TTCATATAAACAT
*
20501030 TTCATATAACCAT
1 TTCATATAAACAT
20501043 TTCAT
1 TTCAT
20501048 TTATTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:20517821 original size:22 final size:21
Alignment explanation
Indices: 20517796--20517863 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
20517786 TACACATTTC
20517796 ATCACATAACATTCAAGCATAT
1 ATCACA-AACATTCAAGCATAT
*
20517818 ATCACAATAC--TC-A-TATA-
1 ATCACAA-ACATTCAAGCATAT
*
20517835 ATCAAACAACATTCAAGCATAT
1 ATCACA-AACATTCAAGCATAT
20517857 ATCACAA
1 ATCACAA
20517864 TACTTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 15
0.65 0.07 0.28
Matches are distributed among these distances:
17 7 0.20
18 4 0.11
19 3 0.09
20 3 0.09
21 5 0.14
22 13 0.37
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.25
Consensus pattern (21 bp):
ATCACAAACATTCAAGCATAT
Found at i:20517867 original size:39 final size:39
Alignment explanation
Indices: 20517774--20517867 Score: 134
Period size: 39 Copynumber: 2.4 Consensus size: 39
20517764 CACTTTTAAA
* * * * * *
20517774 CATATATCACATTACACATTTCATCACATAACATTCAAG
1 CATATATCACAATACTCATATAATCAAACAACATTCAAG
20517813 CATATATCACAATACTCATATAATCAAACAACATTCAAG
1 CATATATCACAATACTCATATAATCAAACAACATTCAAG
20517852 CATATATCACAATACT
1 CATATATCACAATACT
20517868 TAAAAACATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (39 bp):
CATATATCACAATACTCATATAATCAAACAACATTCAAG
Found at i:20530659 original size:19 final size:19
Alignment explanation
Indices: 20530635--20530673 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20530625 TAAAATTAAT
20530635 TTTTCTAAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
20530654 TTTTCTAGAATATTATTTA
1 TTTTCTAAAATATTATTTA
20530673 T
1 T
20530674 CAATCTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:20533999 original size:3 final size:3
Alignment explanation
Indices: 20533991--20534034 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
20533981 GTTACTTTAA
*
20533991 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAA TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
20534035 AGCTTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:20544141 original size:125 final size:125
Alignment explanation
Indices: 20543590--20544230 Score: 889
Period size: 126 Copynumber: 5.1 Consensus size: 125
20543580 AAGGCCAAGC
*
20543590 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
*
20543655 TCCTGCTTGAAGCTTTTTTGACACTATTTTTTCAGAACCATATTCTCAAAATTATTTTTT
66 TCCTGCTTGAAGCTTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
* * ** *
20543715 CAGCAACTACTGTAGAAAAAGAGCGTTCATATGGGAGCTTTTTTTAGTAATTTTGCTGACAGTGC
1 -AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * ***
20543780 ATCCTGCTTGAAGCTTTTTTTTACACTATTTTTTCAGAATCATCTTCTCAAAA-AAAAATTT
65 ATCCTGCTTGAAGC-TTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
*
20543841 AGGAACTAATGTAGAAAAA-AGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
20543905 TCCTGCTTGAAGCGCTTTTT-ACACTATTTTTTCAGAACCGTCTTCTC-AAATT-TTTTTT
66 TCCTGCTTGAAGC-TTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
* *
20543963 AGGAACTAATGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGCA
1 AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
* *
20544028 TTCTGCTTGAAGCATTTTTGACACTA-TTTTTCAGAACCATCTTCTCAAAATTATTTTTT
66 TCCTGCTTGAAGCTTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
* ** * *
20544087 CAGGAACTACTGTAGAAAAAGAGCGTCCATGTGACAGCTTTTTTCAGTACTTTTGCTAACAGTGC
1 -AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
** * * * *
20544152 ATATTGCTTGAAGCGTTTTTGTCACTATTTTTTTAGAACCGTCTTCTCAAAATTAATTTTTT
65 ATCCTGCTTGAAGCTTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATT-ATTTTTT
** *
20544214 AAAAACTACTATAGAAA
1 AGGAACTACTGTAGAAA
20544231 TAAAAACAAA
Statistics
Matches: 459, Mismatches: 47, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
122 49 0.11
123 92 0.20
124 65 0.14
125 97 0.21
126 114 0.25
127 42 0.09
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (125 bp):
AGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCA
TCCTGCTTGAAGCTTTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTT
Found at i:20544329 original size:33 final size:31
Alignment explanation
Indices: 20544292--20544413 Score: 129
Period size: 33 Copynumber: 3.7 Consensus size: 31
20544282 ACCCTTTTAC
*
20544292 AAAAACCCTAAAACCTAAACACAATTATTTTTT
1 AAAAACCCT-AAACCTAAATA-AATTATTTTTT
* *
20544325 AAAAACCCTAAACCTTAATTTAATTAATTTTCTT
1 AAAAACCCTAAACC-TAAATAAATT-ATTTT-TT
*
20544359 AAAAACCCTAAACCTAATTTAAA-TATTTTTT
1 AAAAACCCTAAACCTAA-ATAAATTATTTTTT
*
20544390 AAAATCCCTAAACCCTAAATAAAT
1 AAAAACCCTAAA-CCTAAATAAAT
20544414 AAATTCCTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
31 17 0.22
32 19 0.25
33 21 0.27
34 20 0.26
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAAACCCTAAACCTAAATAAATTATTTTTT
Found at i:20544366 original size:34 final size:31
Alignment explanation
Indices: 20544314--20544403 Score: 135
Period size: 34 Copynumber: 2.8 Consensus size: 31
20544304 ACCTAAACAC
20544314 AATTATTTTTTAAAAACCCTAAACCTTAATTT
1 AATTATTTTTTAAAAACCCTAAACC-TAATTT
20544346 AATTAATTTTCTTAAAAACCCTAAACCTAATTT
1 AATT-ATTTT-TTAAAAACCCTAAACCTAATTT
* *
20544379 AAATATTTTTTAAAATCCCTAAACC
1 AATTATTTTTTAAAAACCCTAAACC
20544404 CTAAATAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
31 15 0.28
32 9 0.17
33 14 0.26
34 16 0.30
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (31 bp):
AATTATTTTTTAAAAACCCTAAACCTAATTT
Found at i:20544481 original size:8 final size:7
Alignment explanation
Indices: 20544436--20544483 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 7
20544426 TATTTTAACA
20544436 AAACCCT
1 AAACCCT
20544443 -AACCCT
1 AAACCCT
20544449 -AACCCT
1 AAACCCT
20544455 AAACCACT
1 AAACC-CT
20544463 AAAACCCT
1 -AAACCCT
20544471 AAACCCAT
1 AAACCC-T
20544479 AAACC
1 AAACC
20544484 ATAGGCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 12 0.32
7 10 0.27
8 10 0.27
9 5 0.14
ACGTcount: A:0.46, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:20547732 original size:15 final size:16
Alignment explanation
Indices: 20547714--20547747 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20547704 AGATTAAATT
20547714 AATTAA-CTAAATACA
1 AATTAACCTAAATACA
*
20547729 AATTAACCTAAATGCA
1 AATTAACCTAAATACA
20547745 AAT
1 AAT
20547748 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATACA
Found at i:20550896 original size:14 final size:15
Alignment explanation
Indices: 20550863--20550896 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
20550853 CGCCTTACGT
20550863 AAAA-CGCCGCTAAA
1 AAAACCGCCGCTAAA
20550877 AAAACCGCCGC-AAA
1 AAAACCGCCGCTAAA
20550891 AAAACC
1 AAAACC
20550897 TAAGCCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.53, C:0.32, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAACCGCCGCTAAA
Found at i:20551005 original size:41 final size:41
Alignment explanation
Indices: 20550931--20551141 Score: 210
Period size: 41 Copynumber: 5.1 Consensus size: 41
20550921 CCTTTCTGGG
* * * *
20550931 CTTTAGCAGCGTTTTTTAAAAAAGCACCGCTAATGCTCAGAT
1 CTTTAGCGGCG-TTTTTGAAAAAGCGCCACTAATGCTCAGAT
* * *
20550973 CTTTAGCGGTGTTTTTGAAAAAGTGCCACTAATGCTTAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAT
* *
20551014 CTTTAG-GAGCGTTTTTGAAAAGGCG-CAGCTAATGCTCAAAT
1 CTTTAGCG-GCGTTTTTGAAAAAGCGCCA-CTAATGCTCAGAT
* * * **
20551055 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAT
* * * * *
20551096 CTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGAG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAT
20551137 CTTTA
1 CTTTA
20551142 ACATTTTATC
Statistics
Matches: 142, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
40 3 0.02
41 128 0.90
42 11 0.08
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAT
Found at i:20551141 original size:82 final size:81
Alignment explanation
Indices: 20550928--20551141 Score: 241
Period size: 82 Copynumber: 2.6 Consensus size: 81
20550918 CTACCTTTCT
* * *
20550928 GGGCTTTAGCAGCGTTTTTTAAAAAAGCACCGCTAATGCTCAGATCTTTAGCGGTGTTTTTGAAA
1 GGGCTTTAGCGGCGTTTTTT--AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAA
* *
20550993 AAGTGCCACTAATGCTTA
64 AAGCGCCACTAATGCTCA
** * * * *
20551011 GATCTTTAG-GAGCGTTTTTGAAAAGGCGCAGCTAATGCTCAAATCTTTAGCGGCGTTTTTGGAA
1 GGGCTTTAGCG-GCGTTTTTTAAAA-GCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAA
* *
20551075 AAGCGCCGCTAATGCTCG
64 AAGCGCCACTAATGCTCA
* *
20551093 GGGCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGAGCTTTA
1 GGGCTTTAGCGGCGTTTTTTAA-AAGCGCCGCTAATGCTCAGATCTTTA
20551142 ACATTTTATC
Statistics
Matches: 107, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
81 4 0.04
82 85 0.79
83 18 0.17
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (81 bp):
GGGCTTTAGCGGCGTTTTTTAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAA
GCGCCACTAATGCTCA
Found at i:20551167 original size:20 final size:19
Alignment explanation
Indices: 20551144--20551185 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
20551134 GAGCTTTAAC
*
20551144 ATTTTATCTGTTTATTTACT
1 ATTTAATCTGTTTATTTA-T
*
20551164 ATTTAATTTGTTTATTTAT
1 ATTTAATCTGTTTATTTAT
20551183 ATT
1 ATT
20551186 AATTAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTAATCTGTTTATTTAT
Found at i:20551599 original size:14 final size:15
Alignment explanation
Indices: 20551582--20551623 Score: 70
Period size: 14 Copynumber: 2.9 Consensus size: 15
20551572 GGGTTGTGAT
20551582 TTAGGGGTTAAGG-G
1 TTAGGGGTTAAGGAG
20551596 TTAGGGGTT-AGGAG
1 TTAGGGGTTAAGGAG
20551610 TTAGGGGTTAAGGA
1 TTAGGGGTTAAGGA
20551624 TTTAAGGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.12
14 19 0.73
15 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.48, T:0.29
Consensus pattern (15 bp):
TTAGGGGTTAAGGAG
Found at i:20551724 original size:75 final size:78
Alignment explanation
Indices: 20551622--20551792 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 78
20551612 AGGGGTTAAG
* * * * * *
20551622 GATTTAAGGTTTATGGATTTAGTGTTAGGTTA-GG-G-TTTAGATTAATTAGTGTGTTTTAATTT
1 GATTTAGGGGTTAGGGATTCAGGGTTAGGTTAGGGTGATTTAGATTAATTACTGTGTTTTAATTT
20551684 ATATATTAAATAA
66 ATATATTAAATAA
* *
20551697 TATTTAGGGGTTAGGGATTCAGGGTTAGGTTAGGGTTTATGATTTAGATTAATTACTGTTTTTTA
1 GATTTAGGGGTTAGGGATTCAGGGTTAGGTTAGGG----TGATTTAGATTAATTACTGTGTTTTA
20551762 ATTTATATATTAAATAA
62 ATTTATATATTAAATAA
*
20551779 GGTTTAGGGGTTAG
1 GATTTAGGGGTTAG
20551793 TGGTTAGGGG
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
75 26 0.33
76 2 0.03
81 1 0.01
82 50 0.63
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (78 bp):
GATTTAGGGGTTAGGGATTCAGGGTTAGGTTAGGGTGATTTAGATTAATTACTGTGTTTTAATTT
ATATATTAAATAA
Found at i:20553077 original size:36 final size:36
Alignment explanation
Indices: 20553031--20553099 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
20553021 AGTGGATCTA
20553031 TTATAGATGTTTTAGATCTTTATGTTATGATTTGAT
1 TTATAGATGTTTTAGATCTTTATGTTATGATTTGAT
*
20553067 TTATGGATGTTTTAGATCTTTATGTTATGATTT
1 TTATAGATGTTTTAGATCTTTATGTTATGATTT
20553100 TAGTTCCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.03, G:0.17, T:0.57
Consensus pattern (36 bp):
TTATAGATGTTTTAGATCTTTATGTTATGATTTGAT
Found at i:20553090 original size:19 final size:19
Alignment explanation
Indices: 20553025--20553090 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
20553015 GGTTTTAGTG
*
20553025 GATCTATTATAGATGTTTTA
1 GATCT-TTATGGATGTTTTA
* *
20553045 GATCTTTATGTTATGATTT-
1 GATCTTTATG-GATGTTTTA
20553064 GA--TTTATGGATGTTTTA
1 GATCTTTATGGATGTTTTA
20553081 GATCTTTATG
1 GATCTTTATG
20553091 TTATGATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
16 6 0.16
17 8 0.22
19 12 0.32
20 11 0.30
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (19 bp):
GATCTTTATGGATGTTTTA
Found at i:20553102 original size:21 final size:21
Alignment explanation
Indices: 20553040--20553102 Score: 75
Period size: 17 Copynumber: 3.3 Consensus size: 21
20553030 ATTATAGATG
20553040 TTTTAGATCTTTATGTTATGA
1 TTTTAGATCTTTATGTTATGA
*
20553061 -TTT-GA--TTTATG-GATG-
1 TTTTAGATCTTTATGTTATGA
20553076 TTTTAGATCTTTATGTTATGA
1 TTTTAGATCTTTATGTTATGA
20553097 TTTTAG
1 TTTTAG
20553103 TTCCTCAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 6 0.18
17 8 0.24
19 8 0.24
20 6 0.18
21 6 0.18
ACGTcount: A:0.22, C:0.03, G:0.17, T:0.57
Consensus pattern (21 bp):
TTTTAGATCTTTATGTTATGA
Found at i:20553655 original size:2 final size:2
Alignment explanation
Indices: 20553648--20553699 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
20553638 AACAAGTATC
20553648 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20553690 AG AG AG AG AG
1 AG AG AG AG AG
20553700 GAATGCCGCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20557466 original size:43 final size:43
Alignment explanation
Indices: 20557350--20557514 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 43
20557340 GTTATGTTTT
* ** * * *
20557350 TAGCGGCGTTTTTTCGAAAAGCGCCGCTAAAGGT-TTGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
*
20557392 TAGCGGCGTTTGTCGG-AAAGCGCCGCTAAAGGTCATGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* ** *
20557434 TAGTGGCAATTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
* * **
20557477 TAGCGGCGTTTTTGGGAAAAACGCTACTAAAGGTCATG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATG
20557515 ACGTTGTCAA
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
41 17 0.17
42 30 0.29
43 55 0.54
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTA
Found at i:20560722 original size:15 final size:16
Alignment explanation
Indices: 20560704--20560737 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
20560694 AGATTCAATT
20560704 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
20560719 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
20560735 AAT
1 AAT
20560738 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:20566337 original size:28 final size:28
Alignment explanation
Indices: 20566260--20566347 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
20566250 TAAACGTAGG
* *
20566260 TACTGTCTCGGCGAACTTACTTCATGTT
1 TACTGTCTCGGCAAACTTACTTCGTGTT
* * *
20566288 TACTGTCACTGTAAACTTACTTCGTGTT
1 TACTGTCTCGGCAAACTTACTTCGTGTT
* * *
20566316 TACTGTCTCGGCAAAATCACTTTGTGTT
1 TACTGTCTCGGCAAACTTACTTCGTGTT
20566344 TACT
1 TACT
20566348 ATCTTGACAG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (28 bp):
TACTGTCTCGGCAAACTTACTTCGTGTT
Found at i:20568956 original size:14 final size:15
Alignment explanation
Indices: 20568937--20568978 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
20568927 ATAAGTATCC
20568937 AAACATATACA-AAT
1 AAACATATACATAAT
20568951 AAACATATTACATAAT
1 AAACATA-TACATAAT
**
20568967 AGCCATATACAT
1 AAACATATACAT
20568979 GTCATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 9 0.38
16 8 0.33
ACGTcount: A:0.55, C:0.17, G:0.02, T:0.26
Consensus pattern (15 bp):
AAACATATACATAAT
Found at i:20577436 original size:42 final size:43
Alignment explanation
Indices: 20577347--20577445 Score: 114
Period size: 42 Copynumber: 2.3 Consensus size: 43
20577337 AAGACAGGGG
* * * **
20577347 ACACATGGCCGTGTCCCAGCCCGTGTAACTCACTGAGTTGGGT
1 ACACACGGCCGTGTCCCAGCCCGTGTAACACACTGACTTGAAT
20577390 -CACACGGCCGTGTCCCAAG-CCGTGTAACACACTGACTT-AAT
1 ACACACGGCCGTGTCCC-AGCCCGTGTAACACACTGACTTGAAT
*
20577431 ACACACGACCGTGTC
1 ACACACGGCCGTGTC
20577446 TTAGACCATG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
41 1 0.02
42 45 0.94
43 2 0.04
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.20
Consensus pattern (43 bp):
ACACACGGCCGTGTCCCAGCCCGTGTAACACACTGACTTGAAT
Found at i:20579455 original size:11 final size:11
Alignment explanation
Indices: 20579440--20579469 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
20579430 TTTATTCTTC
20579440 ATTTAATTTTG
1 ATTTAATTTTG
*
20579451 TTTTAATTTTG
1 ATTTAATTTTG
20579462 ATTTAATT
1 ATTTAATT
20579470 ACAAAATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (11 bp):
ATTTAATTTTG
Found at i:20583928 original size:88 final size:88
Alignment explanation
Indices: 20583779--20583954 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
20583769 GCGCTTTGAC
20583779 GTTTCATTGGTTCAATCTGGACATATCTGTTAAATGCCGTTTGACATGGCATAATATGATTCACC
1 GTTTCATTGGTTCAATCTGGACATATCTGTTAAATGCCGTTTGACATGGCATAATATGATTCACC
20583844 TCAAAGACAAAATTAAAAGGAAG
66 TCAAAGACAAAATTAAAAGGAAG
20583867 GTTTCATTGGTTCAATCTGGACATATCTGTTAAATGCCGTTTGACATGGCATAATATGATTCACC
1 GTTTCATTGGTTCAATCTGGACATATCTGTTAAATGCCGTTTGACATGGCATAATATGATTCACC
20583932 TCAAAGACAAAATTAAAAGGAAG
66 TCAAAGACAAAATTAAAAGGAAG
20583955 ATAAGCAGCG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (88 bp):
GTTTCATTGGTTCAATCTGGACATATCTGTTAAATGCCGTTTGACATGGCATAATATGATTCACC
TCAAAGACAAAATTAAAAGGAAG
Found at i:20585742 original size:25 final size:26
Alignment explanation
Indices: 20585691--20585743 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
20585681 ATTTAAATTA
20585691 AAAAAAATAGATATGATAACTTCTTT
1 AAAAAAATAGATATGATAACTTCTTT
*
20585717 AAAAAAATAGATATGATAA-TTTTTT
1 AAAAAAATAGATATGATAACTTCTTT
20585742 AA
1 AA
20585744 TGTTGTCTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (26 bp):
AAAAAAATAGATATGATAACTTCTTT
Found at i:20586445 original size:17 final size:18
Alignment explanation
Indices: 20586425--20586466 Score: 70
Period size: 16 Copynumber: 2.4 Consensus size: 18
20586415 AGAATTTTTG
20586425 AAAAATAATTATTT-TAT
1 AAAAATAATTATTTATAT
20586442 -AAAATAATTATTTATAT
1 AAAAATAATTATTTATAT
20586459 AAAAATAA
1 AAAAATAA
20586467 ATGGATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.57
17 3 0.13
18 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATAATTATTTATAT
Found at i:20586797 original size:14 final size:15
Alignment explanation
Indices: 20586780--20586808 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20586770 AAATTGAATG
20586780 TTGAAAAA-TAAGTA
1 TTGAAAAATTAAGTA
20586794 TTGAAAAATTAAGTA
1 TTGAAAAATTAAGTA
20586809 CTAAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
TTGAAAAATTAAGTA
Found at i:20587426 original size:86 final size:86
Alignment explanation
Indices: 20587281--20587451 Score: 333
Period size: 86 Copynumber: 2.0 Consensus size: 86
20587271 TAAAATGTTC
*
20587281 ACATTTTTATTTAGAAATTGTTGTTACTAGTGTGATTATTGTAATTGTAAATTTTGTGTTCGAAA
1 ACATTTTTATTTAGAAATTGTTGTTACTAGTGTGATTATTGTAATTGCAAATTTTGTGTTCGAAA
20587346 AAGAAATAGTATATTGCATTA
66 AAGAAATAGTATATTGCATTA
20587367 ACATTTTTATTTAGAAATTGTTGTTACTAGTGTGATTATTGTAATTGCAAATTTTGTGTTCGAAA
1 ACATTTTTATTTAGAAATTGTTGTTACTAGTGTGATTATTGTAATTGCAAATTTTGTGTTCGAAA
20587432 AAGAAATAGTATATTGCATT
66 AAGAAATAGTATATTGCATT
20587452 TCAATGACAC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.45
Consensus pattern (86 bp):
ACATTTTTATTTAGAAATTGTTGTTACTAGTGTGATTATTGTAATTGCAAATTTTGTGTTCGAAA
AAGAAATAGTATATTGCATTA
Found at i:20589044 original size:12 final size:12
Alignment explanation
Indices: 20589027--20589051 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20589017 TGCACCAAGT
20589027 AGGGTCTCAGGA
1 AGGGTCTCAGGA
20589039 AGGGTCTCAGGA
1 AGGGTCTCAGGA
20589051 A
1 A
20589052 AGGGAAGTGA
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:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (12 bp):
AGGGTCTCAGGA
Found at i:20599443 original size:26 final size:26
Alignment explanation
Indices: 20599407--20599457 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
20599397 TTGGATAAAA
20599407 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
20599433 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTCGCTAAGTGCAGATTCCCC
20599458 AAATTATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.33, T:0.24
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:20599483 original size:42 final size:42
Alignment explanation
Indices: 20599436--20599662 Score: 214
Period size: 43 Copynumber: 5.4 Consensus size: 42
20599426 TTCCCCGAGG
** *
20599436 GGTTGCTAAGTGCTGATTCCCCAAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
* *
20599478 GGTTGCTAAGTGCTGATTCCATCGTA-TATTTGATTGTGAAAAG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGT-AAAGGT
* * * * *
20599521 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
* *
20599563 AGTTGCTAAGTGCTGATTCCACCATATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGT-AAAGGT
* * *
20599606 GGTTGCTATGTGCTGATTCCCCGTATCAGTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTGTAAAGGT
20599647 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
20599663 ATCCACCGAG
Statistics
Matches: 149, Mismatches: 25, Indels: 23
0.76 0.13 0.12
Matches are distributed among these distances:
40 4 0.03
41 19 0.13
42 57 0.38
43 60 0.40
44 9 0.06
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
Found at i:20599578 original size:85 final size:84
Alignment explanation
Indices: 20599435--20599669 Score: 326
Period size: 85 Copynumber: 2.8 Consensus size: 84
20599425 ATTCCCCGAG
* ** * * * *
20599435 GGGTTGCTAAGTGCTGATTCCCCAAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCCAT
1 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCCAC
*
20599500 CGTATATTTGATTGTGAAAA
65 CATATATTTGATTGTGAAAA
*
20599520 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCCAC
* *
20599585 CATATCTTTGATTGTGAAAG
65 CATATATTTGATTGTGAAAA
* * *
20599605 GGGTTGCTATGTGCTGATTCCCCGTATCAGTGAATTTAAGGTGGTTGCTAAGTGCTGAATCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACC
20599670 GAGTAACGGA
Statistics
Matches: 134, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
84 27 0.20
85 107 0.80
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCACC
ATATATTTGATTGTGAAAA
Found at i:20602890 original size:68 final size:68
Alignment explanation
Indices: 20602777--20602966 Score: 272
Period size: 68 Copynumber: 2.8 Consensus size: 68
20602767 AATCATAGGT
* *
20602777 ACATGACACCATATTGTGTAAGACCATAGCTGGGCTATGACAACAAATGAAGTCTGCCAGGATAG
1 ACATGACACCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAAATGAAGTCTGCCAGGAAAG
20602842 GAA
66 GAA
* * * ** * *
20602845 ACATGAAACCATATTGTGTAATACCATAGTTGATCTATGGTAACAAATGAAGTCTGCTAGGAAAG
1 ACATGACACCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAAATGAAGTCTGCCAGGAAAG
*
20602910 TAA
66 GAA
* *
20602913 ACATGGCACCATATTGTGTAAGACCATAGCTGGGCTATTGCAACAAATGAAGTC
1 ACATGACACCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAAATGAAGTC
20602967 CACTAAAATG
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 104 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (68 bp):
ACATGACACCATATTGTGTAAGACCATAGCTGGGCTATGGCAACAAATGAAGTCTGCCAGGAAAG
GAA
Found at i:20606461 original size:50 final size:52
Alignment explanation
Indices: 20606360--20606548 Score: 158
Period size: 50 Copynumber: 3.6 Consensus size: 52
20606350 TGATGAGATC
*
20606360 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-CGAGA--ATGAGAGG-T
* * *
20606416 CCATGTAAAAACATGTCTGGGACATGGCGTTGGCA-C-CGAG-ATGAGAGGT
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGT
** * **
20606465 CC-TCCGTAAGACCATGTCTGGGACATGGCAAGGGCAT--CGA-TATGAGAACT
1 CCAT--GTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGT
* * *
20606515 CTCATGTAAGACCATATCTGAGATATGGCATTGG
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGG
20606549 TAGTACAGGA
Statistics
Matches: 111, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 69 0.62
51 1 0.01
52 1 0.01
53 3 0.03
55 1 0.01
56 32 0.29
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (52 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCACGAGAATGAGAGGT
Found at i:20613712 original size:28 final size:28
Alignment explanation
Indices: 20613661--20613716 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
20613651 TTTGGATCCA
* *
20613661 TACTTGTAAGATAGTCTTAACGGACTCC
1 TACTTATAAGATAGTCCTAACGGACTCC
**
20613689 TACTTATAAGATAGTCCTGGCGGACTCC
1 TACTTATAAGATAGTCCTAACGGACTCC
20613717 CATATGGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (28 bp):
TACTTATAAGATAGTCCTAACGGACTCC
Found at i:20627497 original size:47 final size:47
Alignment explanation
Indices: 20627440--20628216 Score: 1293
Period size: 47 Copynumber: 16.3 Consensus size: 47
20627430 ATGTGATGTA
20627440 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20627487 TATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20627534 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20627583 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20627630 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20627677 TATATATATGTGATAACGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20627726 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20627773 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20627820 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20627869 TATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20627918 TATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20627965 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
20628014 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20628061 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20628108 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
20628155 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
20628202 TATAAATGTGATAAG
1 TATATATGTGATAAG
20628217 TCCCGAAGGC
Statistics
Matches: 694, Mismatches: 28, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
47 465 0.67
49 229 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:20627544 original size:96 final size:94
Alignment explanation
Indices: 20627440--20628216 Score: 1293
Period size: 96 Copynumber: 8.2 Consensus size: 94
20627430 ATGTGATGTA
20627440 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
20627505 TAATGGCCGATGTGATGGATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
20627534 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
20627599 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
20627630 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAACG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
20627695 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20627726 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
20627791 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
20627820 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
20627885 GGCCTAATGGCTGATGTGATGAATGTGAAAGTG
62 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
20627918 TATATATGTGATAAGGCCGAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
20627983 CCTAATGGCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
20628014 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
20628079 TAATAGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * *
20628108 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
20628173 GAGTGGCCAACGTGATGGATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
*
20628202 TATAAATGTGATAAG
1 TATATATGTGATAAG
20628217 TCCCGAAGGC
Statistics
Matches: 646, Mismatches: 29, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
94 234 0.36
96 367 0.57
98 45 0.07
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:20627593 original size:143 final size:143
Alignment explanation
Indices: 20627440--20628216 Score: 1351
Period size: 143 Copynumber: 5.4 Consensus size: 143
20627430 ATGTGATGTA
20627440 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
20627505 TAATGGCCGATGTGATGGATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
20627570 GAATGTGAAAGTG
131 GAATGTGAAAGTG
20627583 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
20627648 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAACGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
20627713 GAATGTGAAAGTG
131 GAATGTGAAAGTG
* *
20627726 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
20627791 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
20627856 GAATGTGAAAGTG
131 GAATGTGAAAGTG
*
20627869 TATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
* *
20627934 CCGAATGGCTGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
20627999 ATGAATGTGAAAGTG
129 ATGAATGTGAAAGTG
20628014 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
20628079 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
20628142 GAATGTGAAAGTG
131 GAATGTGAAAGTG
* * * * * * * *
20628155 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
20628217 TCCCGAAGGC
Statistics
Matches: 605, Mismatches: 27, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 100 0.17
143 367 0.61
145 138 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAGTG
Found at i:20630477 original size:40 final size:40
Alignment explanation
Indices: 20630440--20630664 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
20630430 GCTACTCGTT
* *
20630440 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
20630480 CAAATGCCTTCGGGACTTAACCTGGACTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
20630520 CGAATGCCTTCGGGACTTAACCCGGATTTAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
20630560 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
20630600 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
20630641 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
20630665 CATCATTCGA
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 140 0.86
41 10 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:20630649 original size:120 final size:119
Alignment explanation
Indices: 20630440--20630664 Score: 264
Period size: 120 Copynumber: 1.9 Consensus size: 119
20630430 GCTACTCGTT
20630440 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
* *
20630505 ACTTAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGCAACTCGCA
66 ACTTAGTAACTAGCACGAAAGCCTTC-GGACTTAACCCGGATTTAGCAACTCGCA
* * * *
20630560 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-AC
* * *
20630622 C-GGA-TATGGTCACCTAGCAC-AAAGCCTTCGGACTTAGCCCGGA
62 CTGGACT-TAGT-AACTAGCACGAAAGCCTTCGGACTTAACCCGGA
20630665 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
119 20 0.22
120 59 0.66
121 11 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGG
ACTTAGTAACTAGCACGAAAGCCTTCGGACTTAACCCGGATTTAGCAACTCGCA
Found at i:20633822 original size:40 final size:40
Alignment explanation
Indices: 20633758--20634065 Score: 433
Period size: 40 Copynumber: 7.7 Consensus size: 40
20633748 AGGTCTCGAC
*
20633758 GATG-ATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
20633797 GATGTA-CCGGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCC-GGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
20633837 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
20633877 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
20633917 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
20633957 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
20633997 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGT
* * * *
20634037 GTTATATCCAGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
20634066 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
39 7 0.03
40 232 0.95
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:20637457 original size:49 final size:49
Alignment explanation
Indices: 20637397--20638429 Score: 1816
Period size: 49 Copynumber: 21.5 Consensus size: 49
20637387 GATAATTGTG
20637397 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637444 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637493 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20637542 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637588 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20637637 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20637686 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20637733 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637780 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637829 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637878 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20637927 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637974 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20638023 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20638072 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20638119 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGTCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638166 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638215 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20638264 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20638311 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638358 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638407 ATGTGAAAGTGTATATATATGTG
1 ATGTGAAAGTGTATATATATGTG
20638430 GCAGCCAAGT
Statistics
Matches: 949, Mismatches: 24, Indels: 24
0.95 0.02 0.02
Matches are distributed among these distances:
46 20 0.02
47 346 0.36
48 27 0.03
49 556 0.59
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20637499 original size:96 final size:98
Alignment explanation
Indices: 20637397--20638429 Score: 1816
Period size: 96 Copynumber: 10.7 Consensus size: 98
20637387 GATAATTGTG
20637397 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20637460 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637493 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20637556 ATATGTGATAAGGCCGAATGGCC-ATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637588 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20637653 ATATGTGATAAGGCCTAATGGCCAATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20637686 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20637747 ATATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637780 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20637845 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637878 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
20637941 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20637974 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
20638039 ATATGTGATAAGGCCTAATGGCCAATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20638072 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
20638133 ATATGTGATGAGGCCTAATGGTCGATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638166 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20638231 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20638264 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
20638325 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
20638358 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20638423 ATATGTG
66 ATATGTG
20638430 GCAGCCAAGT
Statistics
Matches: 897, Mismatches: 21, Indels: 36
0.94 0.02 0.04
Matches are distributed among these distances:
94 134 0.15
95 69 0.08
96 400 0.45
97 27 0.03
98 267 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (98 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20643443 original size:28 final size:28
Alignment explanation
Indices: 20643410--20643649 Score: 169
Period size: 28 Copynumber: 8.6 Consensus size: 28
20643400 TCGAATGTTT
* * *
20643410 CCATAATGGCTTCCTTCATTAGAGCTTG
1 CCATAATGGCTTCCTTCATCAGAGATCG
** *
20643438 CCATAATGGCAACCTTCATCAGTGATCG
1 CCATAATGGCTTCCTTCATCAGAGATCG
* * * *
20643466 CCACAAAGGCATCCTTCATCAGGGATCG
1 CCATAATGGCTTCCTTCATCAGAGATCG
* * * *
20643494 CCACAAAGGCTCCCTTCATCAGAGATCA
1 CCATAATGGCTTCCTTCATCAGAGATCG
** * *
20643522 CCATAATGGCTTCCTTCATTGGGGATTG
1 CCATAATGGCTTCCTTCATCAGAGATCG
* * * **
20643550 CCACAAAGGCTTCCTTCAACAGAGATTT
1 CCATAATGGCTTCCTTCATCAGAGATCG
* *
20643578 CCATAATGGCTTCCATT-ATCA-AGGGTCA
1 CCATAATGGCTTCC-TTCATCAGA-GATCG
* * * *
20643606 CCACAAAGGCTTCCTTCATCAAAGATCA
1 CCATAATGGCTTCCTTCATCAGAGATCG
* *
20643634 CCAAAAAGGCTTCCTT
1 CCATAATGGCTTCCTT
20643650 TTCTTGGTGT
Statistics
Matches: 169, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
27 3 0.02
28 163 0.96
29 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
CCATAATGGCTTCCTTCATCAGAGATCG
Found at i:20643514 original size:56 final size:56
Alignment explanation
Indices: 20643450--20643649 Score: 224
Period size: 56 Copynumber: 3.6 Consensus size: 56
20643440 ATAATGGCAA
* * * * *
20643450 CCTTCATCAGTGATCGCCACAAAGGCATCCTTCATCAGGGATCGCCACAAAGGCTC
1 CCTTCATCAGAGATCACCATAAAGGCTTCCTTCATCAGGGATCGCCACAAAGGCTT
* ** *
20643506 CCTTCATCAGAGATCACCATAATGGCTTCCTTCATTGGGGATTGCCACAAAGGCTT
1 CCTTCATCAGAGATCACCATAAAGGCTTCCTTCATCAGGGATCGCCACAAAGGCTT
* ** * *
20643562 CCTTCAACAGAGATTTCCATAATGGCTTCCATT-ATCAAGGG-TCACCACAAAGGCTT
1 CCTTCATCAGAGATCACCATAAAGGCTTCC-TTCATC-AGGGATCGCCACAAAGGCTT
* *
20643618 CCTTCATCAAAGATCACCAAAAAGGCTTCCTT
1 CCTTCATCAGAGATCACCATAAAGGCTTCCTT
20643650 TTCTTGGTGT
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
55 2 0.02
56 113 0.94
57 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (56 bp):
CCTTCATCAGAGATCACCATAAAGGCTTCCTTCATCAGGGATCGCCACAAAGGCTT
Found at i:20648150 original size:20 final size:20
Alignment explanation
Indices: 20648115--20648163 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
20648105 ATCATAGTCT
*
20648115 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
20648134 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
20648154 TTGCTTACTT
1 TTGCTTACTT
20648164 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:20648490 original size:50 final size:50
Alignment explanation
Indices: 20648377--20648606 Score: 169
Period size: 50 Copynumber: 4.5 Consensus size: 50
20648367 TCAAAGCTAA
* * *
20648377 GTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC--TACCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTGCCAATGCCAT
* * * * *
20648426 ATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCGT
1 GTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCCAT
** ** * *
20648476 GTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCCAT
* * ** * **
20648526 GCCCCAGACATGGTCTTACGTGGGACCTATCATAAACTCAATAATGCCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGTTCTCAT--A-TC---GGTGCCAATGCCAT
*
20648582 GTCCTAGACATGGTCTTACATGGGA
1 GTCCCAGACATGGTCTTACATGGGA
20648607 TCTCATCCCC
Statistics
Matches: 143, Mismatches: 29, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.03
49 26 0.18
50 78 0.55
53 1 0.01
56 34 0.24
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.27
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTGCCAATGCCAT
Found at i:20653126 original size:23 final size:21
Alignment explanation
Indices: 20653087--20653128 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
20653077 GTACTTAAAT
20653087 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
20653108 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
20653129 ATATGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:20660145 original size:23 final size:21
Alignment explanation
Indices: 20660106--20660147 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
20660096 TTACTTAAGT
20660106 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
20660127 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
20660148 ATATGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:20661729 original size:46 final size:46
Alignment explanation
Indices: 20661676--20661852 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
20661666 CATGTGAAAG
20661676 TAATAGTGCCTAGTTACCCGCTT-GGGTTAAACCTACACGAATCGAA
1 TAATAGTGCCTAGTTACCCG-TTAGGGTTAAACCTACACGAATCGAA
** * * * * *
20661722 TAATAGTGTTTGGTCT-CCCATTAGGGTTAAACCTACTCAAATTGGAA
1 TAATAGTGCCTAGT-TACCCGTTAGGGTTAAACCTACACGAA-TCGAA
* * * *
20661769 AAATGGTGCCTAGTTACCCGTTAGGGTTGAACCTACACGAATCGGA
1 TAATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATCGAA
** * * *
20661815 TAATAGTGTTTGGTCACCCGTTAGGGTTGAACCTACAC
1 TAATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACAC
20661853 AAAAAATAGC
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
45 2 0.02
46 66 0.64
47 35 0.34
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (46 bp):
TAATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACACGAATCGAA
Found at i:20661840 original size:93 final size:93
Alignment explanation
Indices: 20661681--20661855 Score: 280
Period size: 93 Copynumber: 1.9 Consensus size: 93
20661671 GAAAGTAATA
*
20661681 GTGCCTAGTTACCCGCTTGGGTTAAACCTACACGAATCGAATAATAGTGTTTGGTCTCCCATTAG
1 GTGCCTAGTTACCCGCTTGGGTTAAACCTACACGAATCGAATAATAGTGTTTGGTCACCCATTAG
*
20661746 GGTTAAACCTACTCAAATTGGAAAAATG
66 GGTTAAACCTACACAAATTGGAAAAATG
* * *
20661774 GTGCCTAGTTACCCG-TTAGGGTTGAACCTACACGAATCGGATAATAGTGTTTGGTCACCCGTTA
1 GTGCCTAGTTACCCGCTT-GGGTTAAACCTACACGAATCGAATAATAGTGTTTGGTCACCCATTA
*
20661838 GGGTTGAACCTACACAAA
65 GGGTTAAACCTACACAAA
20661856 AAATAGCCTG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (93 bp):
GTGCCTAGTTACCCGCTTGGGTTAAACCTACACGAATCGAATAATAGTGTTTGGTCACCCATTAG
GGTTAAACCTACACAAATTGGAAAAATG
Found at i:20662750 original size:102 final size:101
Alignment explanation
Indices: 20662620--20662909 Score: 333
Period size: 102 Copynumber: 2.9 Consensus size: 101
20662610 TATCGATGAA
20662620 CACGTGTGTAGTACTGTATG-AAGCCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTATGAAAG-CTACTACGTGTATCG-TAAATAATGGTCACATGTGTAGTA
*
20662684 CTAAGTGAAGGCTACTATGTGTACC-GAGAAGTTTTGAG-
64 CTAAGTGAAGGCTACTATGTGTACCGGA-AAGCTTTG-GT
* * *
20662722 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTA
1 CACGTGTGTAGTACTGTATGAAAGCTACTACGTGTATC-GTAAA-TAATGGTCACATGTGTAGTA
20662786 CTAAGTGAAGGCTACTATG-GATACCGGAAAGCTTTGGT
64 CTAAGTGAAGGCTACTATGTG-TACCGGAAAGCTTTGGT
* * * * * * *
20662824 CACGTATGTAGTACTATATGAAGGCTACTATGTG-AGTCGTAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTATGAAAGCTACTACGTGTA-TCGTAAATA-ATGGTCACATGTGTAGTA
* *
20662887 CTATGTGAAGGCTACTACGTGTA
64 CTAAGTGAAGGCTACTATGTGTA
20662910 TCAAATGATA
Statistics
Matches: 162, Mismatches: 16, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
101 40 0.25
102 115 0.71
103 7 0.04
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTGTATGAAAGCTACTACGTGTATCGTAAATAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGTACCGGAAAGCTTTGGT
Found at i:20662794 original size:51 final size:50
Alignment explanation
Indices: 20662624--20662911 Score: 198
Period size: 51 Copynumber: 5.7 Consensus size: 50
20662614 GATGAACACG
* * *
20662624 TGTGTAGTACTGTA-TGAAGCCTACTACGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACT-AAGTGAAGGCTACTACGTGTATCGGTAAAT-ATGGTCACA
* * * * *
20662675 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAG-AAGTTTTGAG-CACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCG-GTAA-ATATG-GTCACA
** * *
20662726 TGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGGTAAA-TATGGTCACA
* * * * *
20662777 TGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGG-AAAGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTG-TATCGGTAAA--TATGGTCACA
* * * *
20662828 TATGTAGTACTATA-TGAAGGCTACTATGTG-AGTC-GTAAA-ACTTGATCACG
1 TGTGTAGTACTA-AGTGAAGGCTACTACGTGTA-TCGGTAAATA--TGGTCACA
*
20662878 TGTGTAGTACTATGTGAAGGCTACTACGTGTATC
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC
20662912 AAATGATAAA
Statistics
Matches: 186, Mismatches: 34, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
50 44 0.24
51 138 0.74
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGGTAAATATGGTCACA
Found at i:20669785 original size:51 final size:51
Alignment explanation
Indices: 20669671--20669960 Score: 236
Period size: 51 Copynumber: 5.7 Consensus size: 51
20669661 TATCGATGAA
* * * * * *
20669671 CACGTGTGTAATACTGTGTGAGGGCTACTACGTGTATC-GATAA-ATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGA-AAGCT-TTGGT
* * * * *
20669722 CACATGTATAGTACTAAGTGAAGGCTACTATGTGTACC-GAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGA-AAGCTTTG-GT
* * * *
20669773 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAA-CTATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGG-AAAGCTTTGGT
* * * * * *
20669824 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACAGGAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TACCGGAAAGCTTTGGT
* * * *
20669875 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAAC-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGGAAAGCTTTGGT
20669925 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
20669961 ATGAATGATA
Statistics
Matches: 188, Mismatches: 41, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
50 43 0.23
51 138 0.73
52 6 0.03
53 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAGCTTTGGT
Found at i:20669847 original size:102 final size:102
Alignment explanation
Indices: 20669671--20669960 Score: 340
Period size: 102 Copynumber: 2.9 Consensus size: 102
20669661 TATCGATGAA
* * * *
20669671 CACGTGTGTAATACTGTGTGAGGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTATAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
* *
20669735 CTAAGTGAAGGCTACTATGTGTAC-CGAGAAGTTTTGAG-
65 CTAAGTGAAGGCTACTATGTGTACAGGA-AAGCTTTG-GT
* * *
20669773 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
20669838 TAAGTGAAGGCTACTATG-GATACAGGAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTG-TACAGGAAAGCTTTGGT
* * * * * *
20669875 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTA
* *
20669938 CTATGTGAAGGCTACTACGTGTA
65 CTAAGTGAAGGCTACTATGTGTA
20669961 ATGAATGATA
Statistics
Matches: 162, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
101 38 0.23
102 121 0.75
103 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACAGGAAAGCTTTGGT
Found at i:20673342 original size:25 final size:26
Alignment explanation
Indices: 20673294--20673352 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
20673284 TCTCATCATT
** **
20673294 ATTTTACCCCCAATAACATTTTGATG
1 ATTTTACCCCCAATAACAAATTGACC
*
20673320 ATTTTACCCCCGAT-ACAAATTGACC
1 ATTTTACCCCCAATAACAAATTGACC
20673345 ATTTTACC
1 ATTTTACC
20673353 TCTAGTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (26 bp):
ATTTTACCCCCAATAACAAATTGACC
Found at i:20683647 original size:26 final size:26
Alignment explanation
Indices: 20683605--20683678 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
20683595 TCTCATCATT
* * **
20683605 ATTTTACCCCCAATAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACA
* * * *
20683631 ATTTTATCTCTGGTAAAAATTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
20683657 ATTTTACCCCTAGTAAAATTTT
1 ATTTTACCCCTAGTAAAATTTT
20683679 TAGAAAATAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:20697223 original size:20 final size:20
Alignment explanation
Indices: 20697200--20697258 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
20697190 ATGTCCCTGT
20697200 TTGCACTATGGTGCCTCTGC
1 TTGCACTATGGTGCCTCTGC
* * * * *
20697220 TTGCACAATCGTGTCACTGT
1 TTGCACTATGGTGCCTCTGC
**
20697240 TTGCACTCCGGTGCCTCTG
1 TTGCACTATGGTGCCTCTG
20697259 TTAGCATATA
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.34
Consensus pattern (20 bp):
TTGCACTATGGTGCCTCTGC
Found at i:20699245 original size:18 final size:18
Alignment explanation
Indices: 20699206--20699247 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20699196 ATTGTGTTTC
20699206 CTTAAAATTTGATTTCTT
1 CTTAAAATTTGATTTCTT
*
20699224 -TTAAAATTATTATTT-TT
1 CTTAAAATT-TGATTTCTT
20699241 CTTAAAA
1 CTTAAAA
20699248 ACTTGAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (18 bp):
CTTAAAATTTGATTTCTT
Found at i:20712633 original size:21 final size:19
Alignment explanation
Indices: 20712604--20712642 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
20712594 ACAGTTGCAT
20712604 TTCAATTTTCATTTGGCAATA
1 TTCAATTTT-ATTT-GCAATA
*
20712625 TTCATTTTTATTTGCAAT
1 TTCAATTTTATTTGCAAT
20712643 TACAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (19 bp):
TTCAATTTTATTTGCAATA
Found at i:20737856 original size:20 final size:20
Alignment explanation
Indices: 20737831--20737870 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20737821 GTAGTGTCTG
20737831 TCAAAAATAACCAAAATTCA
1 TCAAAAATAACCAAAATTCA
* **
20737851 TCAAAATTAATTAAAATTCA
1 TCAAAAATAACCAAAATTCA
20737871 ACATGTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (20 bp):
TCAAAAATAACCAAAATTCA
Found at i:20742448 original size:63 final size:62
Alignment explanation
Indices: 20742349--20742643 Score: 317
Period size: 63 Copynumber: 4.7 Consensus size: 62
20742339 TATGTTACAT
* * *
20742349 ATAAATAAATTATGGATTTGCGGAGGTTCGGTGGATGAGTACAGGAATCAAAATTGAAAATTG
1 ATAAATAAATTATGGCTTTGTGAAGGTTCGGTGGATGAGTAC-GGAATCAAAATTGAAAATTG
* * **
20742412 ATAAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACGGTAATCAAAATTG-AAATCA
1 ATAAATAAATTATGGCTTTGTGAAGGTTCGGTGGATGAGTACGG-AATCAAAATTGAAAATTG
* * * * * * * *
20742474 ATGAATAAATTATGGCTTTGTGGAGGTTCCGTGTATAAGCACGAAAATCAAAATTGAAATTTG
1 ATAAATAAATTATGGCTTTGTGAAGGTTCGGTGGATGAGTACG-GAATCAAAATTGAAAATTG
* * * *
20742537 ATAAATAAATTATGGCTTTG-CAGAGGTTCGGTGGATGAGTACAAGAATCAAAACTGAAATTTG
1 ATAAATAAATTATGGCTTTGTGA-AGGTTCGGTGGATGAGTAC-GGAATCAAAATTGAAAATTG
* * *
20742600 ATAAATAAATTATGGCTTTG-CAGAGGATCGATGGATGAGTACGG
1 ATAAATAAATTATGGCTTTGTGA-AGGTTCGGTGGATGAGTACGG
20742644 GAATTAGAAT
Statistics
Matches: 196, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
62 54 0.28
63 142 0.72
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (62 bp):
ATAAATAAATTATGGCTTTGTGAAGGTTCGGTGGATGAGTACGGAATCAAAATTGAAAATTG
Found at i:20742546 original size:125 final size:126
Alignment explanation
Indices: 20742349--20742625 Score: 346
Period size: 125 Copynumber: 2.2 Consensus size: 126
20742339 TATGTTACAT
* * * * *
20742349 ATAAATAAATTATGGATTTGCGGAGGTTCGGTGGATGAGTACAGGAATCAAAATTGAAAATTGAT
1 ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATAAGCACAGAAATCAAAATTGAAAATTGAT
* * *
20742414 AAATAAATTATGGCTTTG-TGAAAGTTCAGTGGATGAGTAC-GGTAATCAAAATTGAAA-TCA
66 AAATAAATTATGGCTTTGCAG-AAGTTCAGTGGATGAGTACAAG-AATCAAAACTGAAATTCA
* * * *
20742474 ATGAATAAATTATGGCTTTGTGGAGGTTCCGTGTATAAGCAC-GAAAATCAAAATTGAAATTTGA
1 ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATAAGCACAG-AAATCAAAATTGAAAATTGA
* * **
20742538 TAAATAAATTATGGCTTTGCAGAGGTTCGGTGGATGAGTACAAGAATCAAAACTGAAATTTG
65 TAAATAAATTATGGCTTTGCAGAAGTTCAGTGGATGAGTACAAGAATCAAAACTGAAATTCA
*
20742600 ATAAATAAATTATGGCTTTGCAGAGG
1 ATAAATAAATTATGGCTTTGCGGAGG
20742626 ATCGATGGAT
Statistics
Matches: 129, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
124 1 0.01
125 102 0.79
126 26 0.20
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (126 bp):
ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATAAGCACAGAAATCAAAATTGAAAATTGAT
AAATAAATTATGGCTTTGCAGAAGTTCAGTGGATGAGTACAAGAATCAAAACTGAAATTCA
Found at i:20757028 original size:34 final size:35
Alignment explanation
Indices: 20756990--20757057 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
20756980 TTGAGAGAAC
**
20756990 TCTATGAGAGTTAGGG-TTTTATTTTT-GGGTTTGT
1 TCTATGAGAACTAGGGCTTTT-TTTTTGGGGTTTGT
20757024 TCTATGAGAACTAGGGCTTTTTTTTTGGGGTTTG
1 TCTATGAGAACTAGGGCTTTTTTTTTGGGGTTTG
20757058 GTTTTATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 19 0.63
35 11 0.37
ACGTcount: A:0.15, C:0.06, G:0.29, T:0.50
Consensus pattern (35 bp):
TCTATGAGAACTAGGGCTTTTTTTTTGGGGTTTGT
Found at i:20771284 original size:27 final size:27
Alignment explanation
Indices: 20771225--20771277 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20771215 GGGCATTACG
*
20771225 GTCATTTTACCTTACAGGGGTATTTCA
1 GTCATTTTACCTTACAGGGGTACTTCA
*
20771252 GTCATTTTACCCTT-CGGGGGTACTTC
1 GTCATTTTA-CCTTACAGGGGTACTTC
20771278 GATCATTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCTTACAGGGGTACTTCA
Found at i:20773559 original size:16 final size:16
Alignment explanation
Indices: 20773538--20773571 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20773528 GCAACAACTC
*
20773538 TTGTTTAAAATAGTTG
1 TTGTTTAAAACAGTTG
*
20773554 TTGTTTAGAACAGTTG
1 TTGTTTAAAACAGTTG
20773570 TT
1 TT
20773572 CTTCGGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (16 bp):
TTGTTTAAAACAGTTG
Found at i:20774047 original size:20 final size:19
Alignment explanation
Indices: 20774022--20774062 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
20774012 TTAGAAATTA
20774022 TTATTCCAAGAAAATAGAAT
1 TTATTCCAAGAAAATA-AAT
*
20774042 TTATTCTAAGAAAATAAAT
1 TTATTCCAAGAAAATAAAT
20774061 TT
1 TT
20774063 CCACTTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (19 bp):
TTATTCCAAGAAAATAAAT
Found at i:20774398 original size:4 final size:4
Alignment explanation
Indices: 20774389--20774429 Score: 55
Period size: 4 Copynumber: 9.8 Consensus size: 4
20774379 CAAATTAAAT
*
20774389 ATTA ATTA ATTA ATTA ATTA ATTTA ATTA ACTAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA A-TTA ATTA A-TTA ATTA ATT
20774430 TCCCAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 26 0.79
5 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:20774416 original size:13 final size:12
Alignment explanation
Indices: 20774389--20774429 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
20774379 CAAATTAAAT
20774389 ATTAATTAATTA
1 ATTAATTAATTA
20774401 ATTAATTAATTTA
1 ATTAATTAA-TTA
*
20774414 ATTAACTAAATTA
1 ATTAA-TTAATTA
20774427 ATT
1 ATT
20774430 TCCCAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 14 0.54
14 3 0.12
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTAATTAATTA
Found at i:20774445 original size:8 final size:8
Alignment explanation
Indices: 20774389--20774429 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 8
20774379 CAAATTAAAT
20774389 ATTAATTA
1 ATTAATTA
20774397 ATTAATTA
1 ATTAATTA
20774405 ATTAATTTA
1 ATTAA-TTA
*
20774414 ATTAACTAA
1 ATTAA-TTA
20774423 ATTAATT
1 ATTAATT
20774430 TCCCAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
ATTAATTA
Found at i:20794014 original size:20 final size:19
Alignment explanation
Indices: 20793974--20794014 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
20793964 AAATAGTGAG
*
20793974 AAATTTATTTTCTAAGTAT
1 AAATTTATTTTCTAAGAAT
*
20793993 AAATTATATTTTCTGAGAAT
1 AAATT-TATTTTCTAAGAAT
20794013 AA
1 AA
20794015 TAATTCTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (19 bp):
AAATTTATTTTCTAAGAAT
Found at i:20815561 original size:15 final size:15
Alignment explanation
Indices: 20815541--20815573 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
20815531 TTAAATTTTT
20815541 AATTAAGATTTCTAA
1 AATTAAGATTTCTAA
20815556 AATTAAGATTTCTAA
1 AATTAAGATTTCTAA
20815571 AAT
1 AAT
20815574 ATGTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTAAGATTTCTAA
Found at i:20822258 original size:18 final size:18
Alignment explanation
Indices: 20822225--20822259 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20822215 AGGGAAATCG
* *
20822225 AAAGAAAAATATAAAAAA
1 AAAGAAAAACAGAAAAAA
20822243 AAAGAAAAACAGAAAAA
1 AAAGAAAAACAGAAAAA
20822260 TGGGCGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.03, G:0.09, T:0.06
Consensus pattern (18 bp):
AAAGAAAAACAGAAAAAA
Found at i:20841011 original size:12 final size:12
Alignment explanation
Indices: 20840996--20841025 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
20840986 TTATGGCAAC
20840996 TCTTATAATAAT
1 TCTTATAATAAT
20841008 TCTTATAATAAT
1 TCTTATAATAAT
*
20841020 TTTTAT
1 TCTTAT
20841026 GTCAGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTTATAATAAT
Found at i:20846415 original size:20 final size:20
Alignment explanation
Indices: 20846390--20846427 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20846380 CCCTCTCAAC
*
20846390 CCTTTTCTTCAAAATCTTCA
1 CCTTTTCTGCAAAATCTTCA
20846410 CCTTTTCTGCAAAATCTT
1 CCTTTTCTGCAAAATCTT
20846428 GGCACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.29, G:0.03, T:0.45
Consensus pattern (20 bp):
CCTTTTCTGCAAAATCTTCA
Found at i:20851298 original size:50 final size:51
Alignment explanation
Indices: 20851198--20851437 Score: 227
Period size: 50 Copynumber: 4.7 Consensus size: 51
20851188 TAAAGTGATA
* *
20851198 CCATGTAAGACCATGTCTGGGGCATGGCATTGGCATCATTGAAATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG-AA-TATGAGAGGTC
*
20851254 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATATGAGAGGTC
** * * **
20851304 CCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCG-ATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATATGAGAGGTC
* * * * * * * **
20851354 CCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATATGAGAGGTC
* *
20851403 CCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
20851438 TGTTATTATC
Statistics
Matches: 156, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 81 0.52
51 1 0.01
53 1 0.01
55 1 0.01
56 34 0.22
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (51 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAATATGAGAGGTC
Found at i:20857935 original size:50 final size:50
Alignment explanation
Indices: 20857807--20858048 Score: 177
Period size: 50 Copynumber: 4.7 Consensus size: 50
20857797 GGTAAAGAGA
* * * *
20857807 TCCCATGTAAGACCATGTCTGGGAGATGGCATTGGCATCATTGAGGTTATGA-AAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGAA-C
* * * **
20857863 TCCCATGGAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * *
20857913 TCCCCCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * ** * *
20857963 TCCCATGTAAGACCATATCTGGGATATGGCATTGG--TTGTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* *
20858011 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
20858049 TGTTGTTATC
Statistics
Matches: 154, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
48 4 0.03
49 36 0.23
50 75 0.49
51 1 0.01
52 1 0.01
53 2 0.01
55 1 0.01
56 34 0.22
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:20858329 original size:58 final size:58
Alignment explanation
Indices: 20858262--20858377 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
20858252 TAAATAGGTA
20858262 AGTAAATAAACAAGTAAATAAGAGTAAGTATAGAGGAAACTTAAGAACATGATACTTG
1 AGTAAATAAACAAGTAAATAAGAGTAAGTATAGAGGAAACTTAAGAACATGATACTTG
20858320 AGTAAATAAACAAGTAAATAAGAGTAAGTATAGAGGAAACTTAAGAACATGATACTTG
1 AGTAAATAAACAAGTAAATAAGAGTAAGTATAGAGGAAACTTAAGAACATGATACTTG
20858378 CATATTATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (58 bp):
AGTAAATAAACAAGTAAATAAGAGTAAGTATAGAGGAAACTTAAGAACATGATACTTG
Found at i:20865064 original size:20 final size:18
Alignment explanation
Indices: 20865017--20865123 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
20865007 CAAGGTAAAC
20865017 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
20865034 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
20865054 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
20865073 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* *
20865092 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
20865110 ATTAAAATAATATT
1 ATTAAATTAATATT
20865124 ATTTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 9 0.13
19 27 0.39
20 18 0.26
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:20872040 original size:28 final size:28
Alignment explanation
Indices: 20871995--20872193 Score: 196
Period size: 28 Copynumber: 7.3 Consensus size: 28
20871985 CTATTCAGTA
* **
20871995 ACAGT-ACAATGT-GGCCTTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
20872021 ACAGTAATAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
20872049 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* ** **
20872077 ACAGTAAC--TAGT--ACAGTA-CAAAAAT
1 ACAGTAACAGT-GTGGGCCTTAGC-CCAAT
*
20872102 GCAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
20872130 ACAGTAACACTGTGGGCCTTAGCCTAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
20872158 ACTGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
20872186 ATAGTAAC
1 ACAGTAAC
20872194 TAGTACAGTG
Statistics
Matches: 140, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.01
25 13 0.09
26 8 0.06
27 8 0.06
28 109 0.78
29 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:20872121 original size:53 final size:53
Alignment explanation
Indices: 20872050--20872213 Score: 188
Period size: 53 Copynumber: 3.0 Consensus size: 53
20872040 TAGCCCGATA
*
20872050 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACTAGTACAGTACAAAAATG
1 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACTAGTACAGTACAATAATG
* ** * *
20872103 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAAC-ACTGTGGGCCTTAGC-CTAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACTA--GT--ACAGTA-CAATAATG
* * *
20872159 CTGTAACAGTGTGGGCCTTAGCCCAATATAGTAACTAGTACAGTGCAATAATG
1 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACTAGTACAGTACAATAATG
20872212 CA
1 CA
20872214 ACCCATCCCA
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
52 2 0.02
53 42 0.47
54 2 0.02
55 2 0.02
56 39 0.44
57 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (53 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATACAGTAACTAGTACAGTACAATAATG
Found at i:20872132 original size:109 final size:109
Alignment explanation
Indices: 20872007--20872213 Score: 324
Period size: 109 Copynumber: 1.9 Consensus size: 109
20871997 AGTACAATGT
** * * *
20872007 GGCCTTAGCCTGATACAGTAATAGTGTGGGCCTTAGCCCGATACAGTAACAGTGTGGGCCTTAGC
1 GGCCTTAGCCCAATACAGTAACACTGTGGGCCTTAGCCCAATACAGTAACAGTGTGGGCCTTAGC
20872072 CCAATACAGTAACTAGTACAGTACAAAAATGCAGTAACAGTGTG
66 CCAATACAGTAACTAGTACAGTACAAAAATGCAGTAACAGTGTG
* *
20872116 GGCCTTAGCCCAATACAGTAACACTGTGGGCCTTAGCCTAATACTGTAACAGTGTGGGCCTTAGC
1 GGCCTTAGCCCAATACAGTAACACTGTGGGCCTTAGCCCAATACAGTAACAGTGTGGGCCTTAGC
* * *
20872181 CCAATATAGTAACTAGTACAGTGCAATAATGCA
66 CCAATACAGTAACTAGTACAGTACAAAAATGCA
20872214 ACCCATCCCA
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
109 88 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (109 bp):
GGCCTTAGCCCAATACAGTAACACTGTGGGCCTTAGCCCAATACAGTAACAGTGTGGGCCTTAGC
CCAATACAGTAACTAGTACAGTACAAAAATGCAGTAACAGTGTG
Found at i:20875376 original size:51 final size:50
Alignment explanation
Indices: 20875316--20875480 Score: 127
Period size: 51 Copynumber: 3.2 Consensus size: 50
20875306 GACTGTGTTT
* * *
20875316 AGGCCACTATGTAAAACTGAAAGTGATTGTCACGTGTGTAGTACTATGTGC
1 AGGCTACTATGTAAAACCGAAAGT-ATCGTCACGTGTGTAGTACTATGTGC
*** *
20875367 AGGCTACTATG-CGTACCGAATAGCT-TCGATCACGTGTGTAGTACTATGTGT
1 AGGCTACTATGTAAAACCGAA-AG-TATCG-TCACGTGTGTAGTACTATGTGC
** * * ** * * *
20875418 AGGCTACTATGTGTATCGGATGGAAATGGTCACATGTGTAGTACTATGTGC
1 AGGCTACTATGTAAAACCGAAAG-TATCGTCACGTGTGTAGTACTATGTGC
20875469 AGGCTACTATGT
1 AGGCTACTATGT
20875481 GAACCGGGTA
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
50 7 0.08
51 77 0.86
52 6 0.07
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
AGGCTACTATGTAAAACCGAAAGTATCGTCACGTGTGTAGTACTATGTGC
Found at i:20875481 original size:51 final size:51
Alignment explanation
Indices: 20875344--20875486 Score: 180
Period size: 51 Copynumber: 2.8 Consensus size: 51
20875334 GAAAGTGATT
* **
20875344 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCG
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGAATCG
* * * * *
20875395 ATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATGGAAAT-G
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAG-AATCG
* *
20875446 GTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCG
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCG
20875487 GGTACCATTG
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 77 0.99
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGAATCG
Found at i:20877646 original size:25 final size:23
Alignment explanation
Indices: 20877601--20877647 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
20877591 TAGTTTATTA
*
20877601 ATATTTTAATTTGATTTTTAATG
1 ATATTTTAATTTGATTATTAATG
*
20877624 ATATTTTATTATTTTATTATTAAT
1 ATATTTTA--ATTTGATTATTAAT
20877648 TTATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
25 12 0.60
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (23 bp):
ATATTTTAATTTGATTATTAATG
Found at i:20879510 original size:26 final size:26
Alignment explanation
Indices: 20879479--20879585 Score: 126
Period size: 26 Copynumber: 4.1 Consensus size: 26
20879469 AACACACCAA
* * * *
20879479 TATCGCAAAAAAGTTTCCAGTAATAG
1 TATCGCAGAAAAGCTGCCAGTAACAG
*
20879505 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGAAAAGCTGCCAGTAACAG
*
20879531 TATCGCAGCAAAA-CTACCAGTAACAG
1 TATCGCAG-AAAAGCTGCCAGTAACAG
* *
20879557 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGAAAAGCTGCCAGTAACAG
20879583 TAT
1 TAT
20879586 ATGTGGCAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
25 3 0.04
26 63 0.91
27 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGAAAAGCTGCCAGTAACAG
Found at i:20879867 original size:27 final size:27
Alignment explanation
Indices: 20879837--20880176 Score: 301
Period size: 27 Copynumber: 12.6 Consensus size: 27
20879827 ATCCTATGGT
*
20879837 GGTATTTCAGTCATTTTACCCTTCGAG
1 GGTATTTCGGTCATTTTACCCTTCGAG
* * *
20879864 GGTATTCCGATCATTTCACCCTTCG-G
1 GGTATTTCGGTCATTTTACCCTTCGAG
* * * *
20879890 GGATATTTTGATCATTTGACCCTTCGGG
1 GG-TATTTCGGTCATTTTACCCTTCGAG
* *
20879918 GGTATTTTGATCATTTTACCCTTCG-G
1 GGTATTTCGGTCATTTTACCCTTCGAG
* * *
20879944 GGATATTTCGATCATTTCACCCTTCGGG
1 GG-TATTTCGGTCATTTTACCCTTCGAG
* *
20879972 GGTATTTTGGTCATTTTACCCTTCGAT
1 GGTATTTCGGTCATTTTACCCTTCGAG
** **
20879999 GGTATTTAAGTCATTTTACCAATCGAG
1 GGTATTTCGGTCATTTTACCCTTCGAG
* ** *
20880026 GGTATTTCGATCATTTTATGCTTCTAG
1 GGTATTTCGGTCATTTTACCCTTCGAG
* * *
20880053 GATATTTTGGTCATTTTACCCATCGAG
1 GGTATTTCGGTCATTTTACCCTTCGAG
* * *
20880080 GGTATTTCAGTTATTTTAACCATT-GAG
1 GGTATTTCGGTCATTTT-ACCCTTCGAG
* **
20880107 GGTATTTCGGTCATTTTACCCATAAAG
1 GGTATTTCGGTCATTTTACCCTTCGAG
*
20880134 GGTATTTCGGTCATTTTA-CCTATCAAG
1 GGTATTTCGGTCATTTTACCCT-TCGAG
* *
20880161 GTTATTTCGATCATTT
1 GGTATTTCGGTCATTT
20880177 GCCCACAAAT
Statistics
Matches: 256, Mismatches: 50, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
26 12 0.05
27 234 0.91
28 10 0.04
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
GGTATTTCGGTCATTTTACCCTTCGAG
Found at i:20879941 original size:81 final size:82
Alignment explanation
Indices: 20879837--20880153 Score: 333
Period size: 81 Copynumber: 3.9 Consensus size: 82
20879827 ATCCTATGGT
* * *
20879837 GGTA-TTTCAGTCATTTTACCCTTCGAGGGTATTCCGATCATTTCACCCTTCGGGGATATTTTGA
1 GGTATTTTAAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTCACCCTTCGGGGATATTTTGG
* *
20879901 TCATTTGACCCTTCGGG
66 TCATTTTACCCTTCGAG
* *
20879918 GGTATTTTGA-TCATTTTACCCTTCG-GGGATATTTCGATCATTTCACCCTTCGGGGGTATTTTG
1 GGTATTTTAAGTCATTTTACCCTTCGAGGG-TATTTCGATCATTTCACCCTTCGGGGATATTTTG
*
20879981 GTCATTTTACCCTTCGAT
65 GTCATTTTACCCTTCGAG
** * ** **
20879999 GGTA-TTTAAGTCATTTTACCAATCGAGGGTATTTCGATCATTTTATGCTTCTAGGATATTTTGG
1 GGTATTTTAAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTCACCCTTCGGGGATATTTTGG
*
20880063 TCATTTTACCCATCGAG
66 TCATTTTACCCTTCGAG
* * * * * *** *
20880080 GGTA-TTTCAGTTATTTTAACCATT-GAGGGTATTTCGGTCATTTTACCCATAAAGGG-TATTTC
1 GGTATTTTAAGTCATTTT-ACCCTTCGAGGGTATTTCGATCATTTCACCC-TTCGGGGATATTTT
20880142 GGTCATTTTACC
64 GGTCATTTTACC
20880154 TATCAAGGTT
Statistics
Matches: 201, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
80 7 0.03
81 179 0.89
82 15 0.07
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (82 bp):
GGTATTTTAAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTCACCCTTCGGGGATATTTTGG
TCATTTTACCCTTCGAG
Found at i:20880706 original size:19 final size:19
Alignment explanation
Indices: 20880664--20880706 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
20880654 AGAGTTGACT
** *
20880664 AGAGGAGAAATCGAAAAGA
1 AGAGGAGAAAAAGAAAACA
*
20880683 TGAGGAGAAAAAGAAAACA
1 AGAGGAGAAAAAGAAAACA
20880702 AGAGG
1 AGAGG
20880707 TGGGGGTGGA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.33, T:0.05
Consensus pattern (19 bp):
AGAGGAGAAAAAGAAAACA
Found at i:20886063 original size:41 final size:40
Alignment explanation
Indices: 20886014--20886143 Score: 158
Period size: 41 Copynumber: 3.1 Consensus size: 40
20886004 TCCGGATGTC
*
20886014 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGAATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
*
20886054 ATTCTCAGCACGAAGTCTGCGGG-CTGTTAAGCCGCGGATGACGA
1 ATTC-CAGCACGAAGCCTGCGGGTCT-TTAAGCC-CGGAT-AC-A
20886098 GATTCCAGCACGAAGCCCTGC-GGTCTTTAAGCCCGGA-ACA
1 -ATTCCAGCACGAAG-CCTGCGGGTCTTTAAGCCCGGATACA
20886138 ATTCCA
1 ATTCCA
20886144 CATCAAATAA
Statistics
Matches: 79, Mismatches: 3, Indels: 17
0.80 0.03 0.17
Matches are distributed among these distances:
39 6 0.08
40 7 0.09
41 26 0.33
42 4 0.05
43 6 0.08
44 20 0.25
45 10 0.13
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.20
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
Found at i:20887914 original size:42 final size:41
Alignment explanation
Indices: 20887781--20887950 Score: 126
Period size: 38 Copynumber: 4.1 Consensus size: 41
20887771 GGACATATGC
*
20887781 CCGG-TTTATAGTAA-TCGCACAAATG-CTTCGGGA-CTTA-A
1 CCGGATTTA-AGTAACTCGCACAAATGCCTTC-GGATCTTAGT
* **
20887819 CCTGGA--TAAGTAACTCGCACAAATGCCCTCGGA-CTTACC
1 CC-GGATTTAAGTAACTCGCACAAATGCCTTCGGATCTTAGT
*
20887858 CCGAATTTTAAGTAAGCTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGA-TTTAAGTAA-CTCGCACAAATGCCTTCGGATCTTAGT
*
20887901 CGCGGATTT-AGTAACTCGTAACCCAAATGCCTTC-GATCTTAAGT
1 C-CGGATTTAAGTAACTCG---CACAAATGCCTTCGGATCTT-AGT
20887945 CCGGAT
1 CCGGAT
20887951 ACTGGTCACC
Statistics
Matches: 109, Mismatches: 8, Indels: 25
0.77 0.06 0.18
Matches are distributed among these distances:
37 5 0.05
38 24 0.22
39 7 0.06
41 11 0.10
42 24 0.22
43 19 0.17
44 19 0.17
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (41 bp):
CCGGATTTAAGTAACTCGCACAAATGCCTTCGGATCTTAGT
Found at i:20896074 original size:39 final size:38
Alignment explanation
Indices: 20895957--20896133 Score: 152
Period size: 39 Copynumber: 4.7 Consensus size: 38
20895947 GCCCGGTTAA
* *
20895957 TAGTAACTCGCACACATGCC-TCGGA-TTACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGACTTATCCGGATT
*
20895993 TAGTAACTCGCACAAGATGCCTTCTGGGACTTAACC-GA-T
1 TAGTAACTCGCACAA-ATGCCTTC--GGACTTATCCGGATT
* *
20896032 TAGTAACTCGCACAAATGCCTTCGAATCTTATCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTATCCGGATT
* *
20896071 TAGTAAACTCGTAC-AATG-CTTCGGATCTTAGTCCGGATA
1 TAGT-AACTCGCACAAATGCCTTCGGA-CTTA-TCCGGATT
* * *
20896110 TGGTCACTAGCACAAA-GCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
20896134 GACTAGCCGG
Statistics
Matches: 117, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
36 16 0.14
37 11 0.09
38 30 0.26
39 42 0.36
40 13 0.11
41 5 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (38 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTATCCGGATT
Found at i:20900767 original size:47 final size:45
Alignment explanation
Indices: 20900656--20900787 Score: 221
Period size: 45 Copynumber: 2.9 Consensus size: 45
20900646 TCGCTGTCAA
*
20900656 ATATACACTTTCACATTCATCAATCTGGCTATTAGG-CTTATCCAT
1 ATATACACTTTCACATTCATCAATC-GGCTATTAGGCCTTATCCAC
20900701 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAC
1 ATATACACTTTCACATTCATCA-ATCGGCTATTAGGCCTTATC-CAC
20900748 ATATACACTTTCACATTCATCAATCGGCTATTAGGCCTTA
1 ATATACACTTTCACATTCATCAATCGGCTATTAGGCCTTA
20900788 CTATCATTTC
Statistics
Matches: 83, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
45 32 0.39
46 27 0.33
47 24 0.29
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (45 bp):
ATATACACTTTCACATTCATCAATCGGCTATTAGGCCTTATCCAC
Found at i:20905490 original size:41 final size:43
Alignment explanation
Indices: 20905421--20905517 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 43
20905411 TGCATTTCAA
20905421 GCCGCAC-C-TAGTGCCAATCTCACAACCGTGAAC-ACTTATT
1 GCCGCACACTTAGTGCCAATCTCACAACCGTGAACTACTTATT
20905461 GCCGCACACTTAGTGCCAAT-TCACAACCGTGAACTACTTATT
1 GCCGCACACTTAGTGCCAATCTCACAACCGTGAACTACTTATT
20905503 GCCGCACACTT-GTGC
1 GCCGCACACTTAGTGC
20905518 TGAAAACAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
40 7 0.13
41 19 0.35
42 28 0.52
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCACACTTAGTGCCAATCTCACAACCGTGAACTACTTATT
Found at i:20907355 original size:37 final size:37
Alignment explanation
Indices: 20907305--20907383 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
20907295 TATTACGAAA
* *
20907305 GTCTTCCCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTCCCTGGACAAAATTC-CCACACGAAGTCATCGG
*
20907342 GTCTTACCC-GGACAAAATTCCCACACGTAGTCATCGG
1 GTCTT-CCCTGGACAAAATTCCCACACGAAGTCATCGG
20907379 GTCTT
1 GTCTT
20907384 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 32 0.86
38 5 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTCCCTGGACAAAATTCCCACACGAAGTCATCGG
Found at i:20907641 original size:47 final size:47
Alignment explanation
Indices: 20907552--20907688 Score: 219
Period size: 47 Copynumber: 3.0 Consensus size: 47
20907542 CGGCCTGTCA
20907552 ACTATAT-ACACTTTCACATTCATCA-ATCGGCTATTAGGCCTTATC
1 ACTATATAACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
20907597 ACTATATAACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
1 ACTATATAACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
*
20907644 AC-ACATATACACTTTCACATTCATCACATCGGCTTATTA-GCCTTA
1 ACTATATA-ACACTTTCACATTCATCACATCGGC-TATTAGGCCTTA
20907689 CTATCATTTC
Statistics
Matches: 87, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
45 7 0.08
46 22 0.25
47 53 0.61
48 5 0.06
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
ACTATATAACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC
Found at i:20912515 original size:49 final size:47
Alignment explanation
Indices: 20912386--20913078 Score: 1131
Period size: 47 Copynumber: 14.6 Consensus size: 47
20912376 GATAATTGTG
* *
20912386 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20912432 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912479 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912528 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20912577 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912624 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912673 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912722 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20912769 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGG-CAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912815 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
20912864 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20912911 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20912958 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
20913005 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGTGATG-
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA--TGTGATGA
*
20913053 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
20913079 TCCCGAAGGG
Statistics
Matches: 615, Mismatches: 22, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
46 56 0.09
47 295 0.48
48 46 0.07
49 218 0.35
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20912598 original size:96 final size:94
Alignment explanation
Indices: 20912386--20913078 Score: 1131
Period size: 96 Copynumber: 7.3 Consensus size: 94
20912376 GATAATTGTG
* *
20912386 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCG-TGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
20912450 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
20912479 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
20912544 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
62 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
20912577 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
20912642 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
20912673 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
20912738 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
20912769 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
20912833 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
20912864 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
20912929 GTGATAAGGCCTAATAGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
20912958 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
20913023 GTGACAGGGCCGAGTGGCCAACGTGTGATG-
66 GTGATAAGGCCTAATGGCCGA--TGTGATGA
*
20913053 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
20913079 TCCCGAAGGG
Statistics
Matches: 569, Mismatches: 19, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
93 30 0.05
94 137 0.24
95 121 0.21
96 189 0.33
98 92 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:20920748 original size:14 final size:14
Alignment explanation
Indices: 20920729--20920758 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20920719 TTCGCTAATA
*
20920729 TGTCTTTTGTATTT
1 TGTCTTTTATATTT
20920743 TGTCTTTTATATTT
1 TGTCTTTTATATTT
20920757 TG
1 TG
20920759 CATGCATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (14 bp):
TGTCTTTTATATTT
Found at i:20922541 original size:16 final size:16
Alignment explanation
Indices: 20922513--20922572 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
20922503 AATATTAAAT
20922513 TAATATAATATTTATC
1 TAATATAATATTTATC
*
20922529 TAATATAATATTTCTC
1 TAATATAATATTTATC
*
20922545 TTGATA-AATATTATAT-
1 -TAATATAATATT-TATC
*
20922561 TAATTTAATATT
1 TAATATAATATT
20922573 AAAGTGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 3 0.08
16 27 0.75
17 6 0.17
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (16 bp):
TAATATAATATTTATC
Found at i:20922573 original size:16 final size:16
Alignment explanation
Indices: 20922499--20922573 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
20922489 TTTTAATAAT
*
20922499 ATTTAATATTAAATTA
1 ATTTAATATTATATTA
*
20922515 ATATAATATT-TATCTA
1 ATTTAATATTATAT-TA
* * * *
20922531 ATATAATATTTCTCTTG
1 ATTTAATA-TTATATTA
*
20922548 A-TAAATATTATATTA
1 ATTTAATATTATATTA
20922563 ATTTAATATTA
1 ATTTAATATTA
20922574 AAGTGATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
15 8 0.18
16 31 0.69
17 4 0.09
18 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:20927068 original size:102 final size:101
Alignment explanation
Indices: 20926892--20927234 Score: 451
Period size: 102 Copynumber: 3.4 Consensus size: 101
20926882 ATCAATGAAT
*
20926892 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
20926957 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGA-AAGCTTTGGTC
*
20926994 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
* * *
20927059 AAGTGAAGGCTACTATGTGTACTGAAAAGCTTTGGTG
66 AAGTGAAGGCTACAATGTGTACCG-AAAGCTTTGGTC
* * ** * *
20927096 ACGTGTGTAGTCCTATGTGAAGGCTACTACGTGAACCGCA-AAACT--TAATCACGTGTGCAGTA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-ATAAA-TGATGGTCACATGTGTAGTA
* * * * * *
20927158 CTATGTGAAGGCTACCACGTGAACCGTAAAAC-TTGATC
64 CTAAGTGAAGGCTACAATGTGTACCG-AAAGCTTTGGTC
*
20927196 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
20927235 ATGATAAAAG
Statistics
Matches: 216, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
99 1 0.00
100 39 0.18
101 38 0.18
102 135 0.62
103 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (101 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACT
AAGTGAAGGCTACAATGTGTACCGAAAGCTTTGGTC
Found at i:20927163 original size:50 final size:50
Alignment explanation
Indices: 20926892--20927228 Score: 351
Period size: 51 Copynumber: 6.7 Consensus size: 50
20926882 ATCAATGAAT
* *
20926892 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA-TGATGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAACT--TGGTC
* * * * * * *
20926943 ACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAC-TTGGTC
* *
20926994 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA-TGATGGTC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAACT--TGGTC
* * * * * *
20927045 ACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACTGA-AAAGCTTTGGTG
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-C-TTGGTC
* **
20927096 ACGTGTGTAGTCCTATGTGAAGGCTACTACGTGAACCGCA-AAACTTAATC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-ATAAACTTGGTC
* * *
20927146 ACGTGTGCAGTACTATGTGAAGGCTACCACGTGAACCG-TAAAACTTGATC
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAT-AAACTTGGTC
20927196 ACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTG
20927229 TATCGAATGA
Statistics
Matches: 235, Mismatches: 41, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.00
50 81 0.34
51 147 0.63
52 4 0.02
53 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (50 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAACTTGGTC
Found at i:20927495 original size:37 final size:38
Alignment explanation
Indices: 20927426--20927498 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
20927416 ATGTGTGGAA
* **
20927426 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
20927464 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
20927499 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:20931616 original size:19 final size:19
Alignment explanation
Indices: 20931568--20931616 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
20931558 GAAAATTTTT
* *
20931568 GAGTGAATAAAAGCATGGT
1 GAGTGAATAAAAGCATAGC
*
20931587 GAG-GGATAAAAGCATAGC
1 GAGTGAATAAAAGCATAGC
20931605 GAGTGAATAAAA
1 GAGTGAATAAAA
20931617 AACATTGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.47, C:0.06, G:0.31, T:0.16
Consensus pattern (19 bp):
GAGTGAATAAAAGCATAGC
Found at i:20937592 original size:17 final size:17
Alignment explanation
Indices: 20937570--20937603 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20937560 TCGGCCTGAA
20937570 TTGCGACATACTATTCG
1 TTGCGACATACTATTCG
20937587 TTGCGACATACTATTCG
1 TTGCGACATACTATTCG
20937604 AAGCATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (17 bp):
TTGCGACATACTATTCG
Found at i:20948390 original size:18 final size:19
Alignment explanation
Indices: 20948369--20948410 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
20948359 ATGTTGCATC
20948369 ATTTGAGGAAAG-GAGAAG
1 ATTTGAGGAAAGTGAGAAG
** *
20948387 ATTTGTTGAAGGTGAGAAG
1 ATTTGAGGAAAGTGAGAAG
20948406 ATTTG
1 ATTTG
20948411 TTGAAGGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (19 bp):
ATTTGAGGAAAGTGAGAAG
Found at i:20948405 original size:19 final size:19
Alignment explanation
Indices: 20948381--20948419 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20948371 TTGAGGAAAG
20948381 GAGAAGATTTGTTGAAGGT
1 GAGAAGATTTGTTGAAGGT
20948400 GAGAAGATTTGTTGAAGGT
1 GAGAAGATTTGTTGAAGGT
20948419 G
1 G
20948420 CCCCTAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (19 bp):
GAGAAGATTTGTTGAAGGT
Found at i:20955220 original size:30 final size:30
Alignment explanation
Indices: 20955151--20955220 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
20955141 ATAGGGGGAT
* *
20955151 GAAAAATGGCAGCTCCGTTAAGTTTGTAAC
1 GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
* ** *
20955181 GGAAAATGGTAGCTTTGTTACGTCTGTAAC
1 GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
20955211 GAAAAATGGT
1 GAAAAATGGT
20955221 TAGTGGTGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.29
Consensus pattern (30 bp):
GAAAAATGGTAGCTCCGTTAAGTCTGTAAC
Found at i:20956828 original size:39 final size:38
Alignment explanation
Indices: 20956784--20956885 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 38
20956774 CCACCAGCCA
*
20956784 CCACCATCGTCGTTCACTAGTTAGGTAGTCACCACCTAT
1 CCACCATCATCGTTCACTAGTTAGGTAGTCACCA-CTAT
* * * *
20956823 CCACCATCATTGTTCA-TCAGTCAAGTAGTCACCACTGT
1 CCACCATCATCGTTCACT-AGTTAGGTAGTCACCACTAT
*
20956861 CCACCATCATCATTCAGC-AGTTAGG
1 CCACCATCATCGTTCA-CTAGTTAGG
20956886 GCTAATCTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
38 23 0.45
39 28 0.55
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (38 bp):
CCACCATCATCGTTCACTAGTTAGGTAGTCACCACTAT
Found at i:20958331 original size:23 final size:22
Alignment explanation
Indices: 20958288--20958331 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
20958278 TTTCAAGTCA
20958288 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
20958311 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
20958332 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:20958456 original size:23 final size:23
Alignment explanation
Indices: 20958430--20958574 Score: 236
Period size: 23 Copynumber: 6.3 Consensus size: 23
20958420 ATAAGTGCCA
*
20958430 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
20958453 CACTGAAATGTACCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20958476 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20958499 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20958522 GACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20958545 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
20958568 CACTGAT
1 CACTGAT
20958575 CAATAACACT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 111 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20963537 original size:58 final size:54
Alignment explanation
Indices: 20963475--20963584 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
20963465 GAAATTATTA
* *
20963475 TGGTTTTCTCCAAAATGAAAATGAAGATGGAGAAAATGGAATCATTTGGAAATGAATG
1 TGGTTTTCT-CAAAATGAAAATAAAAAT-GAG-AAAT-GAATCATTTGGAAATGAATG
*
20963533 TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGATTCATTTGGAAATGAA
1 TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGAATCATTTGGAAATGAA
20963585 AAAGGATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 17 0.35
55 4 0.08
56 3 0.06
57 16 0.33
58 9 0.18
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (54 bp):
TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGAATCATTTGGAAATGAATG
Done.