Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 49 of 186
Found at i:15028291 original size:15 final size:15
Alignment explanation
Indices: 15028257--15028290 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15028247 TGGCATAATA
*
15028257 ATTTGCTAACTTTGT
1 ATTTTCTAACTTTGT
15028272 ATTTTCTAACTTT-T
1 ATTTTCTAACTTTGT
15028286 ATTTT
1 ATTTT
15028291 TAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTTTCTAACTTTGT
Found at i:15028446 original size:25 final size:27
Alignment explanation
Indices: 15028399--15028452 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
15028389 TTTTCATATT
* *
15028399 TTAAATAAATTTTTATA-GTTTTTATA
1 TTAAATAAATTTTTACACATTTTTATA
15028425 TTAAAT-AATTTTTACACATTTTTATA
1 TTAAATAAATTTTTACACATTTTTATA
15028451 TT
1 TT
15028453 TTTAAAGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TTAAATAAATTTTTACACATTTTTATA
Found at i:15030307 original size:21 final size:20
Alignment explanation
Indices: 15030283--15030332 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
15030273 TATAAACGTG
* *
15030283 AAACAACACCAAAACAGTGA
1 AAACAACACAAAAACAATGA
15030303 CAAACAACAACAAAAACAATGA
1 -AAACAAC-ACAAAAACAATGA
15030325 AAACAACA
1 AAACAACA
15030333 GCAAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 11 0.42
ACGTcount: A:0.66, C:0.24, G:0.06, T:0.04
Consensus pattern (20 bp):
AAACAACACAAAAACAATGA
Found at i:15033628 original size:22 final size:22
Alignment explanation
Indices: 15033580--15033628 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15033570 TTCCTTGAAA
*
15033580 ATAAAAAACATTGTTGAAAATT
1 ATAAAAAACATTGTTGAAAAAT
* *
15033602 TTAAAAATA-ATTTTTGAAAAAT
1 ATAAAAA-ACATTGTTGAAAAAT
15033624 ATAAA
1 ATAAA
15033629 TGTGAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
ATAAAAAACATTGTTGAAAAAT
Found at i:15038028 original size:16 final size:17
Alignment explanation
Indices: 15037997--15038030 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
15037987 TTTATTTAAT
15037997 TATATTCAATAATTTTA
1 TATATTCAATAATTTTA
*
15038014 TATATTTAA-AATTTTA
1 TATATTCAATAATTTTA
15038030 T
1 T
15038031 TAGTTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTCAATAATTTTA
Found at i:15045147 original size:280 final size:280
Alignment explanation
Indices: 15044642--15045206 Score: 1105
Period size: 280 Copynumber: 2.0 Consensus size: 280
15044632 TACGGCTGAA
15044642 CTTT-GGTGGCTGCATCTTGGGGAAGGGTTTGCTGCTGAAAGATGTTTTAGTTTTTGGGATAGTA
1 CTTTGGGTGGCTGCATCTTGGGGAAGGGTTTGCTGCTGAAAGATGTTTTAGTTTTTGGGATAGTA
15044706 TTTTGAACTGGGCTAGGTTGTTGGGTTAATTTGTAATGGTTTATTTATTTATTGGGTTTTGGGCT
66 TTTTGAACTGGGCTAGGTTGTTGGGTTAATTTGTAATGGTTTATTTATTTATTGGGTTTTGGGCT
15044771 GTTGGGGTTATTGGGCTGAAGGGTTGAGGTCTAAGAGTGGGCAAAATTGGGCTATAACAGTTGCC
131 GTTGGGGTTATTGGGCTGAAGGGTTGAGGTCTAAGAGTGGGCAAAATTGGGCTATAACAGTTGCC
15044836 CCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAAGACACAAAGAAAGGCCAATTTTGCCTG
196 CCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAAGACACAAAGAAAGGCCAATTTTGCCTG
15044901 GTCTTGCTGAGTCTTGACTT
261 GTCTTGCTGAGTCTTGACTT
*
15044921 CTTTGGGTGGCTGCATCTTGGGGAAGGGTTTGCTGCTGAAAGATGTTTTAGTTTTTGGGCTAGTA
1 CTTTGGGTGGCTGCATCTTGGGGAAGGGTTTGCTGCTGAAAGATGTTTTAGTTTTTGGGATAGTA
*
15044986 TTTTGAATTGGGCTAGGTTGTTGGGTTAATTTGTAATGGTTTATTTATTTATTGGGTTTTGGGCT
66 TTTTGAACTGGGCTAGGTTGTTGGGTTAATTTGTAATGGTTTATTTATTTATTGGGTTTTGGGCT
15045051 GTTGGGGTTATTGGGCTGAAGGGTTGAGGTCTAAGAGTGGGCAAAATTGGGCTATAACAGTTGCC
131 GTTGGGGTTATTGGGCTGAAGGGTTGAGGTCTAAGAGTGGGCAAAATTGGGCTATAACAGTTGCC
15045116 CCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAAGACACAAAGAAAGGCCAATTTTGCCTG
196 CCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAAGACACAAAGAAAGGCCAATTTTGCCTG
15045181 GTCTTGCTGAGTCTTGACTT
261 GTCTTGCTGAGTCTTGACTT
15045201 CTTTGG
1 CTTTGG
15045207 TGTTCTTTTT
Statistics
Matches: 283, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
279 4 0.01
280 279 0.99
ACGTcount: A:0.20, C:0.12, G:0.31, T:0.36
Consensus pattern (280 bp):
CTTTGGGTGGCTGCATCTTGGGGAAGGGTTTGCTGCTGAAAGATGTTTTAGTTTTTGGGATAGTA
TTTTGAACTGGGCTAGGTTGTTGGGTTAATTTGTAATGGTTTATTTATTTATTGGGTTTTGGGCT
GTTGGGGTTATTGGGCTGAAGGGTTGAGGTCTAAGAGTGGGCAAAATTGGGCTATAACAGTTGCC
CCTCTTTGCTCATTGTCGTGTAACGGGAATAGAGCAAAGACACAAAGAAAGGCCAATTTTGCCTG
GTCTTGCTGAGTCTTGACTT
Found at i:15045772 original size:89 final size:88
Alignment explanation
Indices: 15045598--15045975 Score: 460
Period size: 88 Copynumber: 4.4 Consensus size: 88
15045588 ACGCGAGTCA
* * * * * **
15045598 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTTTTGAAAACAGAATTTGCAAATCATCAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACAAAAAT
15045663 TGAAAATACCTCAGCGTGTCCTG
66 TGAAAATACCTCAGCGTGTCCTG
*
15045686 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAGGACAGAAATTGAAAAACAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAAACAAAAA
15045751 TTGAAAATACCTCAGCGTGTCCTG
65 TTGAAAATACCTCAGCGTGTCCTG
*
15045775 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAC----A-T---ATA-AAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACAAAAAT
* * * * *
15045828 TTACAATATCTCGGCGTGTCCCG
66 TGAAAATACCTCAGCGTGTCCTG
* *
15045851 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACATAAATTGGAGAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATT-GA-AAAACAAAA
* *
15045914 ATTGAAATTACCTCAGCATGTCCTG
64 ATTGAAAATACCTCAGCGTGTCCTG
*
15045939 AGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
15045976 GACAAATAGT
Statistics
Matches: 250, Mismatches: 25, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
76 62 0.25
77 6 0.02
80 1 0.00
81 2 0.01
82 1 0.00
85 2 0.01
86 1 0.00
87 8 0.03
88 92 0.37
89 72 0.29
90 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAACAAAAAT
TGAAAATACCTCAGCGTGTCCTG
Found at i:15045872 original size:76 final size:76
Alignment explanation
Indices: 15045746--15046048 Score: 335
Period size: 76 Copynumber: 3.9 Consensus size: 76
15045736 ATTGAAAAAC
*
15045746 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
15045811 TGAAACATATA
66 TGAAACATATA
* * * *
15045822 AAAAATTTACAATATCTCGGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
15045887 TGAAAACATAAATTGGAGAAA
66 TG-AAACAT--A-T------A
* * * *
15045908 ACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATT
1 A-A-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
15045973 TTTG--ACAAAT-
64 TTTGAAACATATA
** * *
15045983 AGTAATTGAAAATACCAT-AGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTT
1 AAAAATTGAAAATACC-TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
15046047 TT
65 TT
15046049 TGAACAGAAA
Statistics
Matches: 192, Mismatches: 22, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
73 55 0.29
74 1 0.01
75 1 0.01
76 62 0.32
77 6 0.03
79 1 0.01
80 1 0.01
82 1 0.01
83 1 0.01
85 3 0.02
86 2 0.01
87 1 0.01
88 57 0.30
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (76 bp):
AAAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAACATATA
Found at i:15045959 original size:164 final size:160
Alignment explanation
Indices: 15045660--15046048 Score: 548
Period size: 164 Copynumber: 2.4 Consensus size: 160
15045650 GCAAATCATC
*
15045660 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT
* *
15045725 GAAGGACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
64 GAAGAACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
*
15045790 CTCGCAATATGAGTTGATTTTTGAAACATATAAAA
129 CTCGCAATATGAGTTGATTTTTG--ACAAAT-AAA
* * * *
15045825 AATTTACAATATCTCGGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
* * *
15045890 A-AACATAAATTGGAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCT
66 AGAACAGAAATT-GA-AAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCT
* **
15045954 CTCGCAGTATGAGTTGATTTTTGACAAATAGT
129 CTCGCAATATGAGTTGATTTTTGACAAATAAA
* *
15045986 AATTGAAAATACCAT-AGCGTGCCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AATTGAAAATACC-TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
15046049 TGAACAGAAA
Statistics
Matches: 201, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
161 56 0.28
162 14 0.07
163 10 0.05
164 68 0.34
165 53 0.26
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AGAACAGAAATTGAAAAACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGACAAATAAA
Found at i:15046971 original size:18 final size:19
Alignment explanation
Indices: 15046935--15046975 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
15046925 TCTCTCTCTC
15046935 TTTTTTAAGATGCCTCCCTTT
1 TTTTTTAAGATG-C-CCCTTT
15046956 TTTTTTAAGATG-CCCTTT
1 TTTTTTAAGATGCCCCTTT
15046974 TT
1 TT
15046976 GAGTTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
21 12 0.60
ACGTcount: A:0.15, C:0.20, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTTAAGATGCCCCTTT
Found at i:15054919 original size:15 final size:17
Alignment explanation
Indices: 15054891--15054922 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15054881 TTGTATATAT
15054891 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15054908 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15054923 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15064606 original size:75 final size:74
Alignment explanation
Indices: 15064483--15064886 Score: 584
Period size: 75 Copynumber: 5.5 Consensus size: 74
15064473 NNNNNNNNNN
** * * * *
15064483 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT-T
15064548 TTCAAAAAAA
65 TTCAAAAAAA
*
15064558 TCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTT-
15064623 TT-AAAAAAA
65 TTCAAAAAAA
** * * * *
15064632 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT
15064697 TTCAAAAAAA
65 TTCAAAAAAA
*
15064707 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCTGTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
15064772 TC--AAAAA
66 TCAAAAAAA
* *
15064779 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGACACGCTAAAGTAATTTCAATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATTTCTGTT
15064843 TTC-AAAAAA
65 TTCAAAAAAA
*
15064852 TCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
15064887 ATCACACATG
Statistics
Matches: 299, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
71 1 0.00
72 68 0.23
73 37 0.12
74 71 0.24
75 122 0.41
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTT
TCAAAAAAA
Found at i:15064753 original size:149 final size:147
Alignment explanation
Indices: 15064483--15064886 Score: 650
Period size: 149 Copynumber: 2.7 Consensus size: 147
15064473 NNNNNNNNNN
* *
15064483 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTTGTCT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTGTTT
*
15064548 TTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
15064613 ATTTCTGTTGTTAAAAAAA
131 ATTTCTGTT-TT-AAAAAA
*
15064632 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTTT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTGTTT
*
15064697 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCA
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
*
15064762 ATTTCTGTTTTCAAAAA
131 ATTTCTGTTTTAAAAAA
** * * * * *
15064779 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTAAAGTAATTTCAATTTCTG-TT
1 TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTGTTT
*
15064843 TTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
15064887 ATCACACATG
Statistics
Matches: 239, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
145 39 0.16
146 5 0.02
147 59 0.25
148 2 0.01
149 134 0.56
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (147 bp):
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTTTGTTT
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTTTTAAAAAA
Found at i:15066692 original size:15 final size:17
Alignment explanation
Indices: 15066664--15066695 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15066654 TTGTATATAT
15066664 TATATTTATATTATGTA
1 TATATTTATATTATGTA
15066681 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
15066696 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:15074032 original size:39 final size:40
Alignment explanation
Indices: 15073976--15074066 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
15073966 AAATTAATAA
*
15073976 ATAAAAAATTTAAAATAAGTATGAAAAATAATTAT-TTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
15074015 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
1 ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
15074055 -T-AT-AATTTAAAA
1 ATAATAAATTTAAAA
15074067 AATGAAACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
37 9 0.18
38 2 0.04
39 35 0.70
40 4 0.08
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (40 bp):
ATAATAAATTTAAAATAAGTATGAAAAATAATTATCTTTT
Found at i:15075138 original size:26 final size:25
Alignment explanation
Indices: 15075109--15075172 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 25
15075099 CCCTCCCAAA
15075109 AAAAAACCTAACCAAAAAAAAAGAAG
1 AAAAAACCTAACCAAAAAAAAA-AAG
*
15075135 AAAAAACCTAACCCAAAAAGAAAAAG
1 AAAAAACCTAA-CCAAAAAAAAAAAG
15075161 -AAAAACCTAACC
1 AAAAAACCTAACC
15075173 CCCTCCCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
24 2 0.06
25 10 0.28
26 14 0.39
27 10 0.28
ACGTcount: A:0.69, C:0.20, G:0.06, T:0.05
Consensus pattern (25 bp):
AAAAAACCTAACCAAAAAAAAAAAG
Found at i:15075173 original size:25 final size:25
Alignment explanation
Indices: 15075106--15075173 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
15075096 AAGCCCTCCC
15075106 AAAA-AAAAACCTAA-CCAAAAAAA
1 AAAAGAAAAACCTAACCCAAAAAAA
*
15075129 AAGAAGAAAAAACCTAACCCAAAAAGA
1 AA-AAG-AAAAACCTAACCCAAAAAAA
15075156 AAAAGAAAAACCTAACCC
1 AAAAGAAAAACCTAACCC
15075174 CCTCCCCAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
23 2 0.05
24 2 0.05
25 13 0.32
26 13 0.32
27 10 0.25
ACGTcount: A:0.69, C:0.21, G:0.06, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAACCTAACCCAAAAAAA
Found at i:15087893 original size:71 final size:69
Alignment explanation
Indices: 15087795--15087969 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 69
15087785 TTTTCAAGGG
* *
15087795 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
15087859 GTTTT
65 GTTTT
** * *
15087864 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
15087929 TGTTTT
64 TGTTTT
** * *
15087935 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
15087970 TTTAATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
69 31 0.33
71 60 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:15088090 original size:72 final size:71
Alignment explanation
Indices: 15087969--15088163 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 71
15087959 GAGTTAAGCC
* *
15087969 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGG-CATG
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACG
*
15088032 CTGAGGTA
64 ATGAGGTA
**
15088040 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
15088105 TGAGGTA
65 TGAGGTA
* * * * *
15088112 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
15088164 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
71 9 0.08
72 67 0.63
73 31 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:15088220 original size:199 final size:192
Alignment explanation
Indices: 15087795--15088261 Score: 612
Period size: 199 Copynumber: 2.4 Consensus size: 192
15087785 TTTTCAAGGG
* * * *
15087795 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATTTTTG
** * * * * * * *
15087860 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
65 TTTTCAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAA
** **
15087925 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCA
130 TTTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCA
* *
15087988 AAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGAGGCATGCTGAGGTATTTTCAATTTTTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAATTTTTG
* *
15088053 TGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCA
65 T-TTTCAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCA
* *
15088118 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTT
129 ATTTATGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACTT
15088182 TTTCA
188 TTTCA
* *
15088187 AAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTCAATTTTTG
15088252 TTTTCAATTT
65 TTTTCAATTT
15088262 ACGTTGTTCA
Statistics
Matches: 237, Mismatches: 29, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
193 59 0.25
194 61 0.26
195 1 0.00
197 1 0.00
198 47 0.20
199 68 0.29
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (192 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAATTTTTGT
TTTCAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAAT
TTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCA
Found at i:15088289 original size:140 final size:141
Alignment explanation
Indices: 15088129--15088445 Score: 492
Period size: 140 Copynumber: 2.2 Consensus size: 141
15088119 TTTCTGTTTG
15088129 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
1 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
** *
15088194 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGTCTTCAA
15088259 T-TTACGTTGT
131 TATTACGTTGT
15088269 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
1 TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
* * * * *
15088334 CTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCATGCCAATGTATTTTTAATTTCTGTCTTCAT
66 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGTCTTCAA
* *
15088399 TATTATGTTTT
131 TATTACGTTGT
* * * *
15088410 TGAAAGAATCAGCTTATATTGCGAGAGGTGAGTTGA
1 T-CAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
15088446 GCCTCAGGTC
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
140 123 0.76
141 8 0.05
142 30 0.19
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (141 bp):
TCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGTCTTCAA
TATTACGTTGT
Found at i:15088606 original size:81 final size:79
Alignment explanation
Indices: 15088416--15088710 Score: 339
Period size: 79 Copynumber: 3.8 Consensus size: 79
15088406 TTTTTGAAAG
* * ** * * *
15088416 AATCAGCTTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTTAATTTCTG-
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCTGT
*
15088480 TTGTC----AAAAA
66 TTTTCAAAAAAAAA
* **** *
15088490 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCCGAGGTATTTTCAATTTCT
15088555 GTTTTTCAAAAAAAAA
64 GTTTTTCAAAAAAAAA
* * *
15088571 AATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCTGT
*
15088636 CTTTCAAAAAAAAA
66 TTTTCAAAAAAAAA
* ** *
15088650 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTT
15088711 NNNNNNNNNN
Statistics
Matches: 191, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
74 33 0.17
76 24 0.13
77 4 0.02
79 94 0.49
81 36 0.19
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (79 bp):
AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTCAATTTCTGT
TTTTCAAAAAAAAA
Found at i:15101264 original size:14 final size:14
Alignment explanation
Indices: 15101245--15101271 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15101235 TCAAATTTCC
15101245 AAAAGAAGAAGAAA
1 AAAAGAAGAAGAAA
15101259 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
15101272 GAAGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAGAAA
Found at i:15103210 original size:64 final size:64
Alignment explanation
Indices: 15103131--15103258 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
15103121 TCATTCATAA
* *
15103131 TACATCTAGTTAGGAGCATTTGATTTATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 TACATCTAGTTAGGAGCATTTGATTCACTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
* **
15103195 TACATCTAGTTAGGAGCATTTGATTCACTTCGATCATATTATCCTAATTATTTGGCATAAGCAT
1 TACATCTAGTTAGGAGCATTTGATTCACTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
15103259 AGATACATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (64 bp):
TACATCTAGTTAGGAGCATTTGATTCACTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
Found at i:15103378 original size:45 final size:44
Alignment explanation
Indices: 15103328--15104047 Score: 144
Period size: 45 Copynumber: 16.4 Consensus size: 44
15103318 GAATTTGCAG
*
15103328 ATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATCGAAGACGGCGA
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGC-A
* * ** ** * * *
15103373 ATCTTGTCTCTCTGAAGTTGCAGTGGAGTAGATTTAAGTC-ACC
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
* * ** * ** * * **
15103416 ATCCTATCTCCCTAAA-CAGTAGTGGAGTAG-GCTAAAGATTGCA
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC-GAAGACGGCA
* * *
15103459 GATCTTGTCTCCCTGAAGTTGCAGTGAAACAGATCGAAGACGGCGG
1 -ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGC-A
* * * * ** ** ** *
15103505 ATCTTATTTCTCTAAAGTTACAGTGGAGTAGATTTAAG-CCACC
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
* * * * * ** * **
15103548 ATCGTATCCCCCT-AAGTAGTAGTGGAGTAG-GCTGAAGATTGCA
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC-GAAGACGGCA
*
15103591 GATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGCGA
1 -ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGC-A
** * ** ** *
15103637 ATCTTGTCTCTTTGAAGTTGCAGTGGAACAGATTTAAG-CCACC
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
* * * * * * ** * * ** *
15103680 TTCCTATCTTCCT-AAGTAGTAGTGGAGTAGGTTGAAGATTGTA
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
* * * * * *
15103723 GATCTTGTCTCCCTGAATTTCCAGTGGAACAGATCAAAAACGGTGA
1 -ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGG-CA
* * ** ** ** *
15103769 ATCTTGTCTCTCTGAAGTTGCAGTGGAGTAGATTTAAG-CCACC
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
* * * ** ** * **
15103812 GTCCTATCTCCCT-AAG-CACTAGTGGAGTAG-GCTGAAGATTGCA
1 ATCTTGTCTCCCTAAAGTTGC-AGTGGAACAGATC-GAAGACGGCA
*
15103855 GATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGA
1 -ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGC-A
* * ** ** *
15103901 ATCTTGTCTCCCTAACCAG-T--AGCGGAATAGATTTAAG-CCACC
1 ATCTTGTCTCCCTAA--AGTTGCAGTGGAACAGATCGAAGACGGCA
* * ** * ** * ***
15103943 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAG-GCTGAAGATTACA
1 ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATC-GAAGACGGCA
*
15103986 GATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGA
1 -ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGG-CA
15104032 ATCTTGTCTCCCTAAA
1 ATCTTGTCTCCCTAAA
15104048 CAGTAGTTGA
Statistics
Matches: 457, Mismatches: 183, Indels: 70
0.64 0.26 0.10
Matches are distributed among these distances:
39 2 0.00
41 2 0.00
42 87 0.19
43 44 0.10
44 72 0.16
45 238 0.52
46 10 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGCA
Found at i:15103561 original size:132 final size:132
Alignment explanation
Indices: 15103322--15104151 Score: 1137
Period size: 132 Copynumber: 6.3 Consensus size: 132
15103312 ATCGGTGAAT
* * *
15103322 TTGCAGATCTTGTCTCCCTAAAGTTGTAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
* * *
15103387 AAGTTGCAGTGGAGTAGATTTAAGTCACCATCCTATCTCCCTAAACAGTAGTGGAGTAGGCTAAA
66 AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
15103452 GA
131 GA
* * * *
15103454 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGAAACAGATCGAAGACGGCGGATCTTATTTCTCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
* * * *
15103519 AAGTTACAGTGGAGTAGATTTAAGCCACCATCGTATCCCCCTAAGTAGTAGTGGAGTAGGCTGAA
66 AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
15103584 GA
131 GA
* * * *
15103586 TTGCAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACAGCGAATCTTGTCTCTTTG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
** * * * *
15103651 AAGTTGCAGTGGAACAGATTTAAGCCACCTTCCTATCTTCCTAAGTAGTAGTGGAGTAGGTTGAA
66 AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
15103716 GA
131 GA
* * * * * * *
15103718 TTGTAGATCTTGTCTCCCTGAATTTCCAGTGGAACAGATCAAAAACGGTGAATCTTGTCTCTCTG
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
* *
15103783 AAGTTGCAGTGGAGTAGATTTAAGCCACCGTCCTATCTCCCTAAGCACTAGTGGAGTAGGCTGAA
66 AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
15103848 GA
131 GA
*
15103850 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCCCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
* *
15103915 ACCAG-T--AGCGGAATAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTG
66 A--AGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTG
15103977 AAGA
129 AAGA
* * * *
15103981 TTACAGATCTTGTCTCCCTAAAGTTGCAGTGGAACAGATCGAAGACGGTGAATCTTGTCTCCCTA
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
** * * * * *
15104046 AA-CAGTAGTTGAGCAAATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAA
66 AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
15104110 GA
131 GA
** * * * *
15104112 TTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATC
15104152 AAAACAAACC
Statistics
Matches: 619, Mismatches: 74, Indels: 11
0.88 0.11 0.02
Matches are distributed among these distances:
129 1 0.00
131 207 0.33
132 408 0.66
133 1 0.00
134 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (132 bp):
TTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCGAATCTTGTCTCTCTA
AAGTTGCAGTGGAGTAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA
GA
Found at i:15104228 original size:44 final size:44
Alignment explanation
Indices: 15104094--15104318 Score: 156
Period size: 44 Copynumber: 5.2 Consensus size: 44
15104084 CCTAAGCAGT
* * * * *
15104094 AGTGGAGTAGGTTGAAGATTATAGATCTTATCTCTCTGAAGTTGC
1 AGTGGAGCAGGTTGAA-ATTACAAATCTTATCTCCCTAAAGTTGC
* * * * **
15104139 AGTAGAGCA-GATCAAA--ACAAACCTTATCTCATTGAAA-TTGC
1 AGTGGAGCAGGTTGAAATTACAAATCTTATCTCCCT-AAAGTTGC
* *
15104180 AGTGGAGCAGGTTGAAATTACGAATCTTATCTCCCTAAAGTTGT
1 AGTGGAGCAGGTTGAAATTACAAATCTTATCTCCCTAAAGTTGC
* * * * *
15104224 AGTGGAGTAGGTTGAAGA-CACAAACCTTATCCCCCTGAAGTTGC
1 AGTGGAGCAGGTTGAA-ATTACAAATCTTATCTCCCTAAAGTTGC
* * * * * *
15104268 AGTGGGGCAAGTTGAAGTTACAAGTCTTACCTCCCTGAAA-TTAC
1 AGTGGAGCAGGTTGAAATTACAAATCTTATCTCCCT-AAAGTTGC
15104312 AGTGGAG
1 AGTGGAG
15104319 TAGACTAAAG
Statistics
Matches: 135, Mismatches: 37, Indels: 17
0.71 0.20 0.09
Matches are distributed among these distances:
41 24 0.18
42 7 0.05
43 4 0.03
44 90 0.67
45 10 0.07
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTGGAGCAGGTTGAAATTACAAATCTTATCTCCCTAAAGTTGC
Found at i:15104268 original size:88 final size:88
Alignment explanation
Indices: 15104155--15104321 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 88
15104145 GCAGATCAAA
* * * *
15104155 ACAAACCTTATCTCATTGAAATTGCAGTGGAGCAGGTTGAAATTACGAA-TCTTATCTCCCT-AA
1 ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTAC-AAGTCTTACCTCCCTGAA
**
15104218 AGTTGTAGTGGAGTAGGTTGAAGAC
65 A-TTACAGTGGAGTAGGTTGAAGAC
* * * *
15104243 ACAAACCTTATCCCCCTGAAGTTGCAGTGGGGCAAGTTGAAGTTACAAGTCTTACCTCCCTGAAA
1 ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTACAAGTCTTACCTCCCTGAAA
15104308 TTACAGTGGAGTAG
66 TTACAGTGGAGTAG
15104322 ACTAAAGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.03
88 62 0.93
89 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
ACAAACCTTATCCCACTGAAATTGCAGTGGAGCAAGTTGAAATTACAAGTCTTACCTCCCTGAAA
TTACAGTGGAGTAGGTTGAAGAC
Found at i:15106174 original size:105 final size:101
Alignment explanation
Indices: 15106056--15106344 Score: 238
Period size: 103 Copynumber: 2.8 Consensus size: 101
15106046 CTTTTCCAGA
*
15106056 TTATTTATATACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATT
1 TTATTAATATACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATT
* **
15106121 ATTTTAAAGTTCTCTTTTA-ATCTTAATGGTTTATTTTAT
66 ATTTTAAAGTTCTCTTTTACAT-TT-ATCGTTTA-CAT-T
** * * * * *
15106160 TTATTAATTATACCTTTTAATTTGA-TT---TTA-TTTCAGTTAAGTTTTTATTTCAATTTATAT
1 TTATTAA-TATACCTTTGGAGTT-ACTTGGATAAGTTT-ACTT-CGTTTTT-TTT-AA-TTATAA
* * * * *
15106220 AATTCATTATTTT-TA--T-TCATTGAGCATTTATCTTTTACATT
59 AACT-ATTATTTTAAAGTTCTCTTTTA-CATTTATCGTTTACATT
*
15106261 TTATTTATATACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATT
1 TTATTAATATACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATT
15106326 ATTTTAAAGTTCTCTTTTA
66 ATTTTAAAGTTCTCTTTTA
15106345 TATCATATTA
Statistics
Matches: 138, Mismatches: 28, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
98 8 0.06
99 10 0.07
100 16 0.12
101 14 0.10
102 17 0.12
103 22 0.16
104 15 0.11
105 18 0.13
106 10 0.07
107 8 0.06
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (101 bp):
TTATTAATATACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATT
ATTTTAAAGTTCTCTTTTACATTTATCGTTTACATT
Found at i:15106287 original size:205 final size:205
Alignment explanation
Indices: 15105935--15106344 Score: 766
Period size: 205 Copynumber: 2.0 Consensus size: 205
15105925 CCTTATTTCT
15105935 ATCTTAATGGTTTATTTTATTTATTAATTATACCTTTTAATTTGATTTTATTTCAGTTAAGTTTT
1 ATCTTAATGGTTTATTTTATTTATTAATTATACCTTTTAATTTGATTTTATTTCAGTTAAGTTTT
* *
15106000 TACTTCAATTTCTATAATCCATTATTTTTATTCATTGAGCATTTATCTTTTCCAGATTATTTATA
66 TACTTCAATTTATATAATCCATTATTTTTATTCATTGAGCATTTATCTTTTACAGATTATTTATA
15106065 TACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATTATTTTAAAG
131 TACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATTATTTTAAAG
15106130 TTCTCTTTTA
196 TTCTCTTTTA
15106140 ATCTTAATGGTTTATTTTATTTATTAATTATACCTTTTAATTTGATTTTATTTCAGTTAAGTTTT
1 ATCTTAATGGTTTATTTTATTTATTAATTATACCTTTTAATTTGATTTTATTTCAGTTAAGTTTT
* * **
15106205 TATTTCAATTTATATAATTCATTATTTTTATTCATTGAGCATTTATCTTTTACATTTTATTTATA
66 TACTTCAATTTATATAATCCATTATTTTTATTCATTGAGCATTTATCTTTTACAGATTATTTATA
15106270 TACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATTATTTTAAAG
131 TACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATTATTTTAAAG
15106335 TTCTCTTTTA
196 TTCTCTTTTA
15106345 TATCATATTA
Statistics
Matches: 199, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 199 1.00
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.56
Consensus pattern (205 bp):
ATCTTAATGGTTTATTTTATTTATTAATTATACCTTTTAATTTGATTTTATTTCAGTTAAGTTTT
TACTTCAATTTATATAATCCATTATTTTTATTCATTGAGCATTTATCTTTTACAGATTATTTATA
TACCTTTGGAGTTACTTGGATAAGTTTACTTCGTTTTTTTTAATTATAAAACTATTATTTTAAAG
TTCTCTTTTA
Found at i:15118836 original size:9 final size:9
Alignment explanation
Indices: 15118822--15119015 Score: 92
Period size: 10 Copynumber: 20.4 Consensus size: 9
15118812 GTTCTAGTTT
15118822 TTTTTATAA
1 TTTTTATAA
15118831 TTTTTATAA
1 TTTTTATAA
*
15118840 GTTTATATCAA
1 -TTTTTAT-AA
* *
15118851 TTTTAATAC
1 TTTTTATAA
*
15118860 TTTTTATGA
1 TTTTTATAA
15118869 TTTTTATAGAA
1 TTTTTAT--AA
* *
15118880 TTTTAATATG
1 TTTTTATA-A
15118890 TTTTTATAAA
1 TTTTTAT-AA
*
15118900 ATTTTA-AA
1 TTTTTATAA
* *
15118908 CATTTTAAACA
1 -TTTTTATA-A
15118919 TTTTTATTAA
1 TTTTTA-TAA
*
15118929 -TTTTGTAA
1 TTTTTATAA
15118937 TTTTTAATAA
1 TTTTT-ATAA
15118947 TTTATTAT--
1 TTT-TTATAA
15118955 TTTTTATATA
1 TTTTTATA-A
15118965 TTTTTATAA
1 TTTTTATAA
* *
15118974 TATTTAT-T
1 TTTTTATAA
15118982 TTTTTATAA
1 TTTTTATAA
*
15118991 GTTTATATCAA
1 -TTTTTAT-AA
*
15119002 TTTTCATATA
1 TTTTTATA-A
15119012 TTTT
1 TTTT
15119016 AATATTTAAT
Statistics
Matches: 141, Mismatches: 24, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
7 4 0.03
8 14 0.10
9 46 0.33
10 61 0.43
11 16 0.11
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:15118864 original size:29 final size:29
Alignment explanation
Indices: 15118822--15118964 Score: 82
Period size: 29 Copynumber: 4.9 Consensus size: 29
15118812 GTTCTAGTTT
*
15118822 TTTTTATAATTTTTATAAGTTTATAT-CAA
1 TTTTAATAATTTTTATAA-TTTATATACAA
* * * *
15118851 TTTTAATACTTTTTATGATTTTTATAGAA
1 TTTTAATAATTTTTATAATTTATATACAA
* *
15118880 TTTTAATATGTTTTTATAAAATTT-TAAAC-A
1 TTTTAATA-ATTTTTAT--AATTTATATACAA
* *
15118910 TTTTAA-ACATTTTTATTAATTT-TGTA-AT
1 TTTTAATA-ATTTTTA-TAATTTATATACAA
**
15118938 TTTTAATAATTTATTATTTTTTATATA
1 TTTTAATAATTT-TTATAATTTATATA
15118965 TTTTTATAAT
Statistics
Matches: 88, Mismatches: 17, Indels: 18
0.72 0.14 0.15
Matches are distributed among these distances:
28 27 0.31
29 39 0.44
30 15 0.17
31 3 0.03
32 4 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TTTTAATAATTTTTATAATTTATATACAA
Found at i:15118895 original size:21 final size:22
Alignment explanation
Indices: 15118864--15118906 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
15118854 TAATACTTTT
*
15118864 TATGATTTTTATAGAATTTTAA
1 TATGATTTTTATAAAATTTTAA
15118886 TATG-TTTTTATAAAATTTTAA
1 TATGATTTTTATAAAATTTTAA
15118907 ACATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
TATGATTTTTATAAAATTTTAA
Found at i:15118939 original size:18 final size:17
Alignment explanation
Indices: 15118918--15118981 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
15118908 CATTTTAAAC
15118918 ATTTTTATTAATTTTGTA
1 ATTTTTATTAATTTT-TA
*
15118936 ATTTTTAATAATTTATTA
1 ATTTTTATTAATTT-TTA
* *
15118954 TTTTTTATATATTTTTATA
1 ATTTTTAT-TAATTTT-TA
*
15118973 ATATTTATT
1 ATTTTTATT
15118982 TTTTTATAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 23 0.62
19 14 0.38
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTTATTAATTTTTA
Found at i:15118986 original size:27 final size:28
Alignment explanation
Indices: 15118936--15118989 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
15118926 TAATTTTGTA
*
15118936 ATTTTTAATAATTTATTATTTTTTATAT
1 ATTTTTAATAATATATTATTTTTTATAT
15118964 ATTTTT-ATAATAT-TTATTTTTT-TAT
1 ATTTTTAATAATATATTATTTTTTATAT
15118989 A
1 A
15118990 AGTTTATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 9 0.36
27 6 0.24
28 6 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTTTAATAATATATTATTTTTTATAT
Found at i:15119031 original size:9 final size:9
Alignment explanation
Indices: 15118938--15119042 Score: 67
Period size: 8 Copynumber: 11.4 Consensus size: 9
15118928 ATTTTGTAAT
15118938 TTTTA-ATA
1 TTTTATATA
* *
15118946 ATTTATTATT
1 TTTTA-TATA
15118956 TTTTATATA
1 TTTTATATA
15118965 TTTT-TATAA
1 TTTTATAT-A
*
15118974 TATTTAT-TT
1 T-TTTATATA
15118983 TTTTATA-A
1 TTTTATATA
*
15118991 GTTTATATCAA
1 TTTTATAT--A
15119002 TTTTCATATA
1 TTTT-ATATA
15119012 TTTTA-ATA
1 TTTTATATA
*
15119020 TTTAATATA
1 TTTTATATA
15119029 TTTTATATGA
1 TTTTATAT-A
15119039 TTTT
1 TTTT
15119043 TTCCGATGTT
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
8 25 0.33
9 21 0.28
10 20 0.27
11 5 0.07
12 4 0.05
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTATATA
Found at i:15119778 original size:17 final size:19
Alignment explanation
Indices: 15119720--15119778 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 19
15119710 ATCAGCTAAT
15119720 TTTAAAAAATA-A-AAATA
1 TTTAAAAAATATATAAATA
15119737 TTTAAAAAA-AT-TAAATA
1 TTTAAAAAATATATAAATA
*
15119754 TTTTAAAAATATATAAA-A
1 TTTAAAAAATATATAAATA
15119772 -TTAAAAA
1 TTTAAAAA
15119779 TTTCAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
16 1 0.03
17 28 0.78
18 3 0.08
19 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTTAAAAAATATATAAATA
Found at i:15120798 original size:31 final size:31
Alignment explanation
Indices: 15120756--15120819 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
15120746 CCTTTTCATA
*
15120756 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
15120787 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
15120818 TT
1 TT
15120820 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:15122622 original size:27 final size:27
Alignment explanation
Indices: 15122560--15122637 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
15122550 GGGCATATTC
15122560 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
15122587 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
15122614 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
15122638 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:15122708 original size:27 final size:27
Alignment explanation
Indices: 15122678--15122898 Score: 192
Period size: 27 Copynumber: 8.1 Consensus size: 27
15122668 CTAAATCTAC
* *
15122678 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * ** *
15122705 AAACCAATGGTATTTCTATAATTTTTAA
1 AAACTAAGGGTATTTCGGTAA-TTTTAT
* * * * *
15122733 AAAGTCAAGGGTATTCCTGTAACTTTGT
1 AAACT-AAGGGTATTTCGGTAATTTTAT
*
15122761 AAA-TCAAGGGTATTTTGGTAATTTTAT
1 AAACT-AAGGGTATTTCGGTAATTTTAT
* * *
15122788 AAATTAAGGGTATTTCGGTAATTTCAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
* *
15122815 AAACTAAGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
* * *
15122842 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCGGTAATTTTAT
** *
15122869 AAACTAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTCGGTAATTTTAT
15122896 AAA
1 AAA
15122899 TCGAGGGTAA
Statistics
Matches: 161, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
27 134 0.83
28 14 0.09
29 13 0.08
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (27 bp):
AAACTAAGGGTATTTCGGTAATTTTAT
Found at i:15122905 original size:27 final size:27
Alignment explanation
Indices: 15122683--15122961 Score: 172
Period size: 27 Copynumber: 10.3 Consensus size: 27
15122673 TCTACAAACT
* * *
15122683 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
15122710 AATGGTATTTCTA-TAATTTTTAAAAAGTC
1 AAGGGTATTT-TAGTAA-TTTTATAAA-TC
* * *
15122739 AAGGGTATTCCT-GTAACTTTGTAAATC
1 AAGGGTATT-TTAGTAATTTTATAAATC
* *
15122766 AAGGGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTTAGTAATTTTATAAATC
** * *
15122793 AAGGGTATTTCGGTAATTTCACAAA-C
1 AAGGGTATTTTAGTAATTTTATAAATC
* *
15122819 TAAGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTATAAATC
* * *
15122846 TAGGGGTATTTTGGTAATTTTACAAA-C
1 -AAGGGTATTTTAGTAATTTTATAAATC
*
15122873 TAAGGGTATTTTAGTAATTTTGTAAATC
1 -AAGGGTATTTTAGTAATTTTATAAATC
* **** * *
15122901 GAGGGTAAAACAGTAATTCTGTAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*** *
15122928 AAGGGTAAAATAGTAATTCTATAAATC
1 AAGGGTATTTTAGTAATTTTATAAATC
*
15122955 GAGGGTA
1 AAGGGTA
15122962 AAACGGTAAT
Statistics
Matches: 209, Mismatches: 35, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
26 1 0.00
27 180 0.86
28 15 0.07
29 13 0.06
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTTAGTAATTTTATAAATC
Found at i:15122962 original size:27 final size:27
Alignment explanation
Indices: 15122885--15123042 Score: 201
Period size: 27 Copynumber: 5.9 Consensus size: 27
15122875 AGGGTATTTT
*
15122885 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
15122912 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15122939 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
15122966 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
15122993 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
15123020 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
15123043 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 116 0.99
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:15123025 original size:81 final size:81
Alignment explanation
Indices: 15122886--15123042 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
15122876 GGGTATTTTA
* * * *
15122886 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATATA
15122951 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * * * *
15122967 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATATA
*
15123032 AATCGGGGGTA
66 AATCGAGGGTA
15123043 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACAGTAATTATATA
AATCGAGGGTAAAACG
Found at i:15123051 original size:81 final size:81
Alignment explanation
Indices: 15122875--15123053 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 81
15122865 TTACAAACTA
* * * * *
15122875 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAATA
1 AGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACA
*
15122940 GTAATTCTATAAATCG
66 GTAATTATATAAATCG
*** * * * *
15122956 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATTAGGGGTAAAACG
1 AGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACA
*
15123021 GTAATTATGTAAATCG
66 GTAATTATATAAATCG
* *
15123037 GGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
15123054 TTACAAGTCG
Statistics
Matches: 79, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (81 bp):
AGGGTAATTTGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAACA
GTAATTATATAAATCG
Found at i:15123096 original size:27 final size:27
Alignment explanation
Indices: 15123048--15123137 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
15123038 GGGTACTTTG
** *
15123048 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAACCGAGGGTATTTCA
15123075 GTAATTTTACAAACCGAGGGTATTTCA
1 GTAATTTTACAAACCGAGGGTATTTCA
* * **
15123102 ATATTTTTACAAACTAAGGGTATTTCA
1 GTAATTTTACAAACCGAGGGTATTTCA
15123129 GTAATTTTA
1 GTAATTTTA
15123138 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACCGAGGGTATTTCA
Found at i:15123151 original size:27 final size:26
Alignment explanation
Indices: 15123048--15123152 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
15123038 GGGTACTTTG
* *
15123048 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAA-ACTAAGGTATTTCA
* *
15123075 GTAATTTTACAAACCGAGGGTATTTCA
1 GTAATTTTACAAA-CTAAGGTATTTCA
* *
15123102 ATATTTTTACAAACTAAGGGTATTTCA
1 GTAATTTTACAAACTAA-GGTATTTCA
* *
15123129 GTAATTTTAGTAAACTAAAGTATT
1 GTAATTTTA-CAAACTAAGGTATT
15123153 CTAAACATGG
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.03
27 56 0.86
28 7 0.11
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAAACTAAGGTATTTCA
Found at i:15124396 original size:13 final size:13
Alignment explanation
Indices: 15124378--15124402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15124368 CTTTATATTT
15124378 TTTAAAACAATTG
1 TTTAAAACAATTG
15124391 TTTAAAACAATT
1 TTTAAAACAATT
15124403 TTTTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TTTAAAACAATTG
Found at i:15124411 original size:15 final size:15
Alignment explanation
Indices: 15124375--15124425 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
15124365 AATCTTTATA
15124375 TTTTTTAAAACAA--
1 TTTTTTAAAACAATT
*
15124388 TTGTTTAAAACAATT
1 TTTTTTAAAACAATT
*
15124403 TTTTTTAAAA-TATT
1 TTTTTTAAAACAATT
15124417 TATTTTTAA
1 T-TTTTTAA
15124426 CTTTATAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 12 0.38
14 4 0.12
15 16 0.50
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (15 bp):
TTTTTTAAAACAATT
Found at i:15124499 original size:30 final size:30
Alignment explanation
Indices: 15124464--15124532 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
15124454 TATTATTATT
*
15124464 AAAATTAAG-AATATTTTTTAATTTTTAAA
1 AAAATTAAGCAATAATTTTTAATTTTTAAA
** *
15124493 ACAAATTTTGCAATAATTTTTACTTTTTAAA
1 A-AAATTAAGCAATAATTTTTAATTTTTAAA
*
15124524 AAAAGTAAG
1 AAAATTAAG
15124533 GATTAAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 1 0.03
30 11 0.35
31 19 0.61
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (30 bp):
AAAATTAAGCAATAATTTTTAATTTTTAAA
Found at i:15126058 original size:18 final size:17
Alignment explanation
Indices: 15126031--15126064 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15126021 GATTCACACC
*
15126031 AAAATTATAAATATATA
1 AAAATTATAAAAATATA
15126048 AAAACTTATAAAAATAT
1 AAAA-TTATAAAAATAT
15126065 TAGAAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATAAAAATATA
Found at i:15128486 original size:9 final size:9
Alignment explanation
Indices: 15128472--15128510 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
15128462 ATTTTAATAT
15128472 TTATATTTA
1 TTATATTTA
*
15128481 TTATATTAA
1 TTATATTTA
*
15128490 ATATATTTA
1 TTATATTTA
*
15128499 TTATATGTA
1 TTATATTTA
15128508 TTA
1 TTA
15128511 ATGTATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATATTTA
Found at i:15128613 original size:25 final size:29
Alignment explanation
Indices: 15128583--15128643 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 29
15128573 TTATATATCA
*
15128583 TATATATATGTGTTTTAAATATTA-T-GT
1 TATATATATATGTTTTAAATATTATTAGT
*
15128610 TATATATATATTTTTTAAATATTATTAGT
1 TATATATATATGTTTTAAATATTATTAGT
15128639 TATAT
1 TATAT
15128644 TTTCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 22 0.73
28 1 0.03
29 7 0.23
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (29 bp):
TATATATATATGTTTTAAATATTATTAGT
Found at i:15128625 original size:27 final size:31
Alignment explanation
Indices: 15128582--15128643 Score: 96
Period size: 29 Copynumber: 2.1 Consensus size: 31
15128572 TTTATATATC
15128582 ATATATATATGTGTTTTAAATATTA-T-GTT
1 ATATATATATGTGTTTTAAATATTATTAGTT
15128611 ATATATATAT-T-TTTTAAATATTATTAGTT
1 ATATATATATGTGTTTTAAATATTATTAGTT
15128640 ATAT
1 ATAT
15128644 TTTCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 12 0.39
28 2 0.06
29 17 0.55
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.56
Consensus pattern (31 bp):
ATATATATATGTGTTTTAAATATTATTAGTT
Found at i:15141493 original size:107 final size:108
Alignment explanation
Indices: 15141281--15141602 Score: 538
Period size: 107 Copynumber: 3.0 Consensus size: 108
15141271 AATTTCTATT
* * * *
15141281 CTTTCAATTTATATTTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT
1 CTTTTAATTTAT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTT
*
15141346 CTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
65 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
15141390 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTTAATTTC
1 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTC
15141454 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
* * * *
15141497 ATTTTAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTC
1 CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTC
*
15141562 TGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
15141603 GCCTCGGATC
Statistics
Matches: 202, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
107 102 0.50
108 89 0.44
109 11 0.05
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (108 bp):
CTTTTAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
Found at i:15141572 original size:161 final size:161
Alignment explanation
Indices: 15141295--15141602 Score: 544
Period size: 161 Copynumber: 1.9 Consensus size: 161
15141285 CAATTTATAT
* *
15141295 TTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTTTTTTTCAAAAA
1 TTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAAA
*
15141360 TCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATAT
66 TCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATAT
*
15141425 TGCGAGAGGTGAGTTGAACCTTTAATTTCTG
131 TACGAGAGGTGAGTTGAACCTTTAATTTCTG
* *
15141456 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAAA
1 TTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAAA
* *
15141521 TCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAATCAACTCATAT
66 TCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATAT
15141586 TACGAGAGGTGAGTTGA
131 TACGAGAGGTGAGTTGA
15141603 GCCTCGGATC
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
161 139 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (161 bp):
TTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTGTTTTTCAAAAA
TCAACTCATATTACGAGAGGTGAGTTGAACCTTTTAATTTATGTTTTTCAAAAATCAACTCATAT
TACGAGAGGTGAGTTGAACCTTTAATTTCTG
Found at i:15141606 original size:54 final size:54
Alignment explanation
Indices: 15141295--15141602 Score: 537
Period size: 54 Copynumber: 5.7 Consensus size: 54
15141285 CAATTTATAT
* * *
15141295 TTTTTAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTT
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
15141349 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTATG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
15141403 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
15141456 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACATTTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
* *
15141510 TTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTG
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
*
15141564 TTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
15141603 GCCTCGGATC
Statistics
Matches: 244, Mismatches: 9, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
53 51 0.21
54 193 0.79
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (54 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTG
Found at i:15142783 original size:14 final size:15
Alignment explanation
Indices: 15142766--15142794 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15142756 TAAAATATAG
15142766 TACAAAAAA-AAGAA
1 TACAAAAAATAAGAA
15142780 TACAAAAAATAAGAA
1 TACAAAAAATAAGAA
15142795 AAAAAGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
TACAAAAAATAAGAA
Found at i:15143418 original size:9 final size:9
Alignment explanation
Indices: 15143400--15143442 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
15143390 GTTAATTTTA
15143400 ATTT-TTAT
1 ATTTATTAT
15143408 ATTTATTAT
1 ATTTATTAT
* *
15143417 ATTAAATAT
1 ATTTATTAT
15143426 ATTTATTAT
1 ATTTATTAT
*
15143435 ATGTATTA
1 ATTTATTA
15143443 ATGTATAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
8 4 0.14
9 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (9 bp):
ATTTATTAT
Found at i:15143510 original size:13 final size:13
Alignment explanation
Indices: 15143492--15143557 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
15143482 ATATAGTGTA
15143492 TTATATATAATTT
1 TTATATATAATTT
* *
15143505 TTATATATCATAT
1 TTATATATAATTT
* *
15143518 ATATATAT-GTGTT
1 TTATATATAAT-TT
* *
15143531 TTAAATATTATGTT
1 TTATATATAAT-TT
15143545 TTATATATAATTT
1 TTATATATAATTT
15143558 CAATATTATT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 1 0.02
13 27 0.66
14 13 0.32
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (13 bp):
TTATATATAATTT
Found at i:15144951 original size:24 final size:23
Alignment explanation
Indices: 15144914--15144960 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
15144904 TTTAAATATG
* *
15144914 TTTTTATATGTTTTATTAGTTTTT
1 TTTTTATATATTTT-TAAGTTTTT
*
15144938 TTTTTCTATATTTTTAAGTTTTT
1 TTTTTATATATTTTTAAGTTTTT
15144961 ATGGATTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (23 bp):
TTTTTATATATTTTTAAGTTTTT
Found at i:15144957 original size:23 final size:24
Alignment explanation
Indices: 15144914--15144960 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
15144904 TTTAAATATG
15144914 TTTTTATATGTTTTATTAGTTTTTT
1 TTTTTATATGTTTTA-TAGTTTTTT
15144939 TTTTCTATAT-TTTTA-AGTTTTT
1 TTTT-TATATGTTTTATAGTTTTT
15144961 ATGGATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.33
25 9 0.43
26 5 0.24
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.74
Consensus pattern (24 bp):
TTTTTATATGTTTTATAGTTTTTT
Found at i:15145039 original size:10 final size:10
Alignment explanation
Indices: 15144938--15145063 Score: 73
Period size: 10 Copynumber: 12.7 Consensus size: 10
15144928 ATTAGTTTTT
*
15144938 TTTTTCTATA
1 TTTTTATATA
*
15144948 TTTTTA-A-G
1 TTTTTATATA
**
15144956 TTTTTATGGA
1 TTTTTATATA
*
15144966 TTCTTTAAATA
1 TT-TTTATATA
*
15144977 TTTTTTTATCA
1 TTTTTATAT-A
*
15144988 TTTTTCTATA
1 TTTTTATATA
15144998 TTTTT-TATA
1 TTTTTATATA
** *
15145007 AGTTTATTTA
1 TTTTTATATA
15145017 TTTTTA-ATA
1 TTTTTATATA
15145026 -TTTTATATA
1 TTTTTATATA
*
15145035 TTTTTATGATTT
1 TTTTTAT-A-TA
*
15145047 TTTTTATAAA
1 TTTTTATATA
15145057 TTTTTAT
1 TTTTTAT
15145064 GATTATATGA
Statistics
Matches: 88, Mismatches: 19, Indels: 18
0.70 0.15 0.14
Matches are distributed among these distances:
8 11 0.12
9 13 0.15
10 38 0.43
11 18 0.20
12 8 0.09
ACGTcount: A:0.25, C:0.03, G:0.04, T:0.67
Consensus pattern (10 bp):
TTTTTATATA
Found at i:15145046 original size:18 final size:17
Alignment explanation
Indices: 15144974--15145047 Score: 58
Period size: 18 Copynumber: 4.0 Consensus size: 17
15144964 GATTCTTTAA
*
15144974 ATATTTTTTTATCATTTTT
1 ATATATTTTTAT-A-TTTT
* *
15144993 CTATATTTTTTATAAGTTT
1 ATATA-TTTTTAT-ATTTT
*
15145012 ATTTATTTTTAATATTTT
1 ATATATTTTT-ATATTTT
15145030 ATATATTTTTATGATTTT
1 ATATATTTTTAT-ATTTT
15145048 TTTTATAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
17 2 0.05
18 23 0.52
19 11 0.25
20 8 0.18
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
ATATATTTTTATATTTT
Found at i:15145048 original size:28 final size:26
Alignment explanation
Indices: 15144974--15145049 Score: 64
Period size: 28 Copynumber: 2.7 Consensus size: 26
15144964 GATTCTTTAA
*
15144974 ATATTTTTTTATCATTTTTCTATATTTT
1 ATATATTTTTAT-ATTTTT-TATATTTT
* *
15145002 TTATAAGTTTATT-TATTTTTAATATTTT
1 ATAT-A-TTT-TTATATTTTTTATATTTT
15145030 ATATATTTTTATGATTTTTT
1 ATATATTTTTAT-ATTTTTT
15145050 TTATAAATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
25 2 0.05
26 4 0.11
27 7 0.18
28 13 0.34
29 6 0.16
30 4 0.11
31 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (26 bp):
ATATATTTTTATATTTTTTATATTTT
Found at i:15145051 original size:22 final size:22
Alignment explanation
Indices: 15145026--15145067 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15145016 ATTTTTAATA
*
15145026 TTTTATATATTTTTATGATTTT
1 TTTTATAAATTTTTATGATTTT
15145048 TTTTATAAATTTTTATGATT
1 TTTTATAAATTTTTATGATT
15145068 ATATGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TTTTATAAATTTTTATGATTTT
Found at i:15147719 original size:21 final size:22
Alignment explanation
Indices: 15147693--15147733 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15147683 TACAAGGGTG
* *
15147693 TTTGGATGGTGGTGG-AGAGTC
1 TTTGGAAGATGGTGGTAGAGTC
15147714 TTTGGAAGATGGTGGTAGAG
1 TTTGGAAGATGGTGGTAGAG
15147734 AGTATGGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.02, G:0.46, T:0.32
Consensus pattern (22 bp):
TTTGGAAGATGGTGGTAGAGTC
Found at i:15148776 original size:16 final size:16
Alignment explanation
Indices: 15148740--15148781 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
15148730 AAACACGAAT
15148740 TTTTTAAAATACAAGA
1 TTTTTAAAATACAAGA
*
15148756 ATTTTAGAAATACAA-A
1 TTTTTA-AAATACAAGA
15148772 TTTTTTAAAA
1 -TTTTTAAAA
15148782 AAACACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (16 bp):
TTTTTAAAATACAAGA
Found at i:15148836 original size:17 final size:17
Alignment explanation
Indices: 15148782--15149133 Score: 196
Period size: 17 Copynumber: 19.9 Consensus size: 17
15148772 TTTTTTAAAA
15148782 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
* *
15148798 AAACACGAGATTTCTTTG
1 AAACACGAAAATT-TTTG
*
15148816 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
** *
15148833 AAACACGGTCAATTTCTTA
1 AAACAC-GAAAATTT-TTG
* *
15148852 AAACGCGAAAGTTTTTGG
1 AAACACGAAAATTTTT-G
**
15148870 AAA-ACGGGAATTTTTTTTTG
1 AAACAC--GAA--AATTTTTG
*
15148890 AAACACGAAAAATTTTG
1 AAACACGAAAATTTTTG
*
15148907 AAACACTG-GAA-TTTTG
1 AAACAC-GAAAATTTTTG
** *
15148923 AAAACACGAGGATTTTTT
1 -AAACACGAAAATTTTTG
* *
15148941 AAATACGAAAA-ATTTG
1 AAACACGAAAATTTTTG
*
15148957 AAAACAAGAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
15148975 AAATACGAAAATTTTAG
1 AAACACGAAAATTTTTG
15148992 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
15149009 AAACAC-AGAAGTTTTTAG
1 AAACACGA-AAATTTTT-G
*
15149027 AAAACACGAAAAATTTTG
1 -AAACACGAAAATTTTTG
* **
15149045 AAA-ATTGGAATTTTTTTG
1 AAACA--CGAAAATTTTTG
*
15149063 AAAACACGAGAATTTTTG
1 -AAACACGAAAATTTTTG
*
15149081 AAAAACATGAAAATTTTTG
1 --AAACACGAAAATTTTTG
* **
15149100 CAACACGGGAATTTTTG
1 AAACACGAAAATTTTTG
15149117 AAAACACGAAAAATTTT
1 -AAACACG-AAAATTTT
15149134 CCGATTTTTA
Statistics
Matches: 253, Mismatches: 56, Indels: 51
0.70 0.16 0.14
Matches are distributed among these distances:
16 20 0.08
17 109 0.43
18 62 0.25
19 49 0.19
20 6 0.02
21 7 0.03
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:15149872 original size:3 final size:3
Alignment explanation
Indices: 15149864--15149909 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
15149854 NNNNNTTTCT
*
15149864 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
15149910 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:15149893 original size:10 final size:10
Alignment explanation
Indices: 15149878--15149906 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
15149868 TCTTCCTCTT
15149878 TTCTTCTTCC
1 TTCTTCTTCC
15149888 TTCTTCTTCC
1 TTCTTCTTCC
15149898 TTCTTCTTC
1 TTCTTCTTC
15149907 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:15149894 original size:13 final size:13
Alignment explanation
Indices: 15149864--15149909 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
15149854 NNNNNTTTCT
15149864 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
15149876 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
15149888 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
15149901 TTCTTCTTC
1 TTCTTCTTC
15149910 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:15150316 original size:29 final size:29
Alignment explanation
Indices: 15150283--15150399 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
15150273 TGTAATTTTT
*
15150283 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
15150312 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
15150342 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
15150371 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
15150400 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:15150338 original size:30 final size:30
Alignment explanation
Indices: 15150298--15150399 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
15150288 ATTTAGGATT
*
15150298 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
15150328 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
15150358 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
15150388 AAAATGCAATTT
1 AAAATGAAATTT
15150400 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:15150419 original size:13 final size:14
Alignment explanation
Indices: 15150395--15150427 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15150385 GTCAAAATGC
*
15150395 AATTTTTATTTTTA
1 AATTTTTATTTTGA
15150409 AATTTTT-TTTTGA
1 AATTTTTATTTTGA
15150422 AATTTT
1 AATTTT
15150428 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
AATTTTTATTTTGA
Found at i:15151948 original size:23 final size:22
Alignment explanation
Indices: 15151922--15151975 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
15151912 GTAAATCGCC
15151922 TTATATACTTTTCAAA-ATTCTAT
1 TTATATA-TTTT-AAAGATTCTAT
*
15151945 TTATTTATTTTAAAGTATTCTAT
1 TTATATATTTTAAAG-ATTCTAT
15151968 TTAT-TATT
1 TTATATATT
15151976 CATTATAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 8 0.29
23 17 0.61
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATATATTTTAAAGATTCTAT
Found at i:15152076 original size:27 final size:27
Alignment explanation
Indices: 15152020--15152074 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
15152010 TTTATGTACA
* *
15152020 TATATGTATATTACTTGTTCTAAAATT
1 TATATATATATCACTTGTTCTAAAATT
* *
15152047 TATATATATATCATCTTTTTCTTAAATT
1 TATATATATATCA-CTTGTTCTAAAATT
15152075 ATTTTATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.55
Consensus pattern (27 bp):
TATATATATATCACTTGTTCTAAAATT
Found at i:15165372 original size:22 final size:21
Alignment explanation
Indices: 15165336--15165378 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15165326 AACCCACAAG
* *
15165336 GTTAGGGTACGGACTCGGCAT
1 GTTAGGATACAGACTCGGCAT
15165357 NGTTAGGATACAGACTCGGCAT
1 -GTTAGGATACAGACTCGGCAT
15165379 TCGGAAGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.23
Consensus pattern (21 bp):
GTTAGGATACAGACTCGGCAT
Found at i:15166688 original size:16 final size:17
Alignment explanation
Indices: 15166654--15166697 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
15166644 ATGATTTTCT
15166654 CTAAACCC-T-AATGCA
1 CTAAACCCTTAAATGCA
15166669 CTAAACCCTTAAAT-CA
1 CTAAACCCTTAAATGCA
*
15166685 CTAAACCTTTAAA
1 CTAAACCCTTAAA
15166698 CCCTTAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 15 0.58
17 3 0.12
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (17 bp):
CTAAACCCTTAAATGCA
Found at i:15166773 original size:14 final size:14
Alignment explanation
Indices: 15166749--15166782 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15166739 AACCCATTAA
*
15166749 CCCTGACTCCTAAC
1 CCCTAACTCCTAAC
*
15166763 TCCTAACTCCTAAC
1 CCCTAACTCCTAAC
15166777 CCCTAA
1 CCCTAA
15166783 ACCCTAAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.47, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:15166788 original size:14 final size:15
Alignment explanation
Indices: 15166754--15166800 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
15166744 ATTAACCCTG
*
15166754 ACTCCTAACTCCT-A
1 ACTCCTAACCCCTAA
15166768 ACTCCTAACCCCTAA
1 ACTCCTAACCCCTAA
*
15166783 AC-CCTAAACCCATAA
1 ACTCCT-AACCCCTAA
15166798 ACT
1 ACT
15166801 ATAGGCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (15 bp):
ACTCCTAACCCCTAA
Found at i:15166832 original size:28 final size:29
Alignment explanation
Indices: 15166788--15166855 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
15166778 CCTAAACCCT
*
15166788 AAACCCATAAACTATAGGCTTTAAATCTC
1 AAACCCATAAACTATAGGCCTTAAATCTC
15166817 AAACCC-TAAACTATAGGCCTTAAATCTC
1 AAACCCATAAACTATAGGCCTTAAATCTC
*
15166845 AAA-TCATAAAC
1 AAACCCATAAAC
15166856 CTTAAAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 1 0.03
28 29 0.81
29 6 0.17
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (29 bp):
AAACCCATAAACTATAGGCCTTAAATCTC
Found at i:15167380 original size:42 final size:42
Alignment explanation
Indices: 15167315--15167454 Score: 122
Period size: 42 Copynumber: 3.5 Consensus size: 42
15167305 TAAAATTTAT
*
15167315 GTTTAAGGT-TTAGGGTATT-GGGTTCAGGATTTAGTTTATAAG
1 GTTTAAGGTATTAGGGTATTAGGGTT-AGG-TTTAGTCTATAAG
15167357 GTTTAAGGTATT-GGGT-TTA--G---GGTTTAGTCTATAAG
1 GTTTAAGGTATTAGGGTATTAGGGTTAGGTTTAGTCTATAAG
* * *
15167392 GTTTAGGGTATT-GGGTATTAGGTTTAAGGTTTAGTCTATATG
1 GTTTAAGGTATTAGGGTATTAGGGTT-AGGTTTAGTCTATAAG
* *
15167434 GTTTATGGTATTGGGGT-TTAG
1 GTTTAAGGTATTAGGGTATTAG
15167455 TCTATTGGTT
Statistics
Matches: 83, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
35 27 0.33
36 5 0.06
40 1 0.01
41 2 0.02
42 42 0.51
43 6 0.07
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.44
Consensus pattern (42 bp):
GTTTAAGGTATTAGGGTATTAGGGTTAGGTTTAGTCTATAAG
Found at i:15167394 original size:21 final size:21
Alignment explanation
Indices: 15167370--15167438 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
15167360 TAAGGTATTG
15167370 GGTTTAGGGTTTAGTCTATAA
1 GGTTTAGGGTTTAGTCTATAA
** *
15167391 GGTTTAGGGTATT-GGGTATTA
1 GGTTTAGGGT-TTAGTCTATAA
* *
15167412 GGTTTAAGGTTTAGTCTATAT
1 GGTTTAGGGTTTAGTCTATAA
15167433 GGTTTA
1 GGTTTA
15167439 TGGTATTGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTCTATAA
Found at i:15167400 original size:28 final size:28
Alignment explanation
Indices: 15167355--15167425 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
15167345 TTAGTTTATA
15167355 AGGTTTAAGGTATT-GGGT-TTAGGGT-TT
1 AGGTTTAAGGT-TTAGGGTATT-GGGTATT
15167382 A-GTCTATAAGGTTTAGGGTATTGGGTATT
1 AGGT-T-TAAGGTTTAGGGTATTGGGTATT
15167411 AGGTTTAAGGTTTAG
1 AGGTTTAAGGTTTAG
15167426 TCTATATGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 24 0.63
29 6 0.16
30 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (28 bp):
AGGTTTAAGGTTTAGGGTATTGGGTATT
Found at i:15167416 original size:35 final size:34
Alignment explanation
Indices: 15167318--15167417 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 34
15167308 AATTTATGTT
* *
15167318 TAAGGTTTAGGGTATTGGGTTCAGGATTTAGTTTA
1 TAAGGTTTAGGGTATTGGGTTTAGG-TTTAGTCTA
*
15167353 TAAGGTTTAAGGTATTGGGTTTAGGGTTTAGTCTA
1 TAAGGTTTAGGGTATTGGGTTTA-GGTTTAGTCTA
15167388 TAAGGTTTAGGGTATTGGGTATTAGGTTTA
1 TAAGGTTTAGGGTATTGGGT-TTAGGTTTA
15167418 AGGTTTAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 54 0.92
36 5 0.08
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.43
Consensus pattern (34 bp):
TAAGGTTTAGGGTATTGGGTTTAGGTTTAGTCTA
Found at i:15167860 original size:84 final size:84
Alignment explanation
Indices: 15167653--15167852 Score: 224
Period size: 84 Copynumber: 2.4 Consensus size: 84
15167643 TTGGAGGGAC
* ** * * * * *
15167653 AGTGGAGTTAGTGGCGCTAGGTCATAAACGCCACTAAAAGTATGAGAAATTGTATTGAAACGTCG
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCG
* * *
15167718 TCGTTTTATTTGGCGGGGT
66 TCATTTTATGTGGCGCGGT
* * *
15167737 AGTGGATTTAGTGGCGTTATCTTATAAATGCCACTAAAAATATGAGAAATCGAATGGAAAC-TAC
1 AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGT-C
15167801 GTCATTTTATGTGGCGCGGT
65 GTCATTTTATGTGGCGCGGT
* *
15167821 -TTAGGAATTAGTGGCGCTATCTTAGAAACGCC
1 AGT-GGAATTAGTGGCGCTATCTTATAAACGCC
15167853 GCAAAAAAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
83 2 0.02
84 94 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (84 bp):
AGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAATCGAATGGAAACGTCG
TCATTTTATGTGGCGCGGT
Found at i:15170940 original size:3 final size:3
Alignment explanation
Indices: 15170934--15170960 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15170924 TTAAGCTTTA
15170934 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
15170961 GTTTGTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:15171406 original size:13 final size:13
Alignment explanation
Indices: 15171388--15171413 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15171378 CCACATAATA
15171388 CATAAATATATAT
1 CATAAATATATAT
15171401 CATAAATATATAT
1 CATAAATATATAT
15171414 ATCATATCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:15171476 original size:9 final size:9
Alignment explanation
Indices: 15171464--15171540 Score: 84
Period size: 9 Copynumber: 8.6 Consensus size: 9
15171454 TATATCATAT
15171464 CATAACTTA
1 CATAACTTA
*
15171473 CATATCTTA
1 CATAACTTA
15171482 CATAACTGTA
1 CATAACT-TA
* * *
15171492 TATCA-TAA
1 CATAACTTA
15171500 CATAACTTA
1 CATAACTTA
15171509 CATAACTTA
1 CATAACTTA
*
15171518 CAAAACTTA
1 CATAACTTA
*
15171527 CTTAACTTA
1 CATAACTTA
15171536 CATAA
1 CATAA
15171541 TACATAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 4 0.07
9 45 0.83
10 5 0.09
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:15171494 original size:36 final size:36
Alignment explanation
Indices: 15171444--15171524 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
15171434 CCTTACATAG
* * *
15171444 TACATAAATATATATCATATCATAACTTACATATCT
1 TACATAACTATATATCATAACATAACTTACATAACT
*
15171480 TACATAACTGTATATCATAACATAACTTACATAACT
1 TACATAACTATATATCATAACATAACTTACATAACT
*
15171516 TACAAAACT
1 TACATAACT
15171525 TACTTAACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.35
Consensus pattern (36 bp):
TACATAACTATATATCATAACATAACTTACATAACT
Found at i:15176677 original size:13 final size:14
Alignment explanation
Indices: 15176661--15176689 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15176651 TTATAAGTAT
15176661 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
15176674 TTATAATGGTTTAA
1 TTATAATGGTTTAA
15176688 TT
1 TT
15176690 CGTCAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:15177125 original size:21 final size:21
Alignment explanation
Indices: 15177096--15177145 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
15177086 ATAACTTAGA
15177096 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
* *
15177117 GCAGCGGCAGCAGCGAGGGAG
1 GCAGAGGCAGCAGAGAGGGAG
15177138 GCA-AGGCA
1 GCAGAGGCA
15177146 ACAGTGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGGGAG
Found at i:15177553 original size:43 final size:44
Alignment explanation
Indices: 15177505--15177696 Score: 164
Period size: 43 Copynumber: 4.4 Consensus size: 44
15177495 AAAAAGTGCA
* *
15177505 GCTAAAAGTCATGACTTTTAGCGGCGCTTTT-TTAACAAATGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
* * ** * **
15177548 GCTAAAAGCCATGACTTATAGCGGCACTTCAC-CATTAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
* ** *
15177591 GTTAAAAGCTACA--ACTTTTAGCGGTGCTTCTTCATAAC--ACGCC
1 GCTAAAAG-T-CATGACTTTTAGCGGCACTT-TTCTTAACAAACGCC
*
15177634 GCTAAAAGCCATGACTTTTAGCGGCACTTTTCTT-ACAAACGCC
1 GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
*
15177677 GCTAAAAGTCTTGATCTTTT
1 GCTAAAAGTCATGA-CTTTT
15177697 GTGGCATTTT
Statistics
Matches: 113, Mismatches: 26, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
41 4 0.04
42 4 0.04
43 96 0.85
44 6 0.05
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
GCTAAAAGTCATGACTTTTAGCGGCACTTTTCTTAACAAACGCC
Found at i:15179537 original size:81 final size:81
Alignment explanation
Indices: 15179327--15179519 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 81
15179317 CCTTGGTTTA
* * * * **
15179327 TAAAATTACCAAAATACCCCTAATTTGTA-AAATTACCAAAATACCCCTG-TTTGTAAAATTATC
1 TAAAATTACCAAAATACCCCTGATTT-CAGAAATTACTAAAATACCCTTGACCTGTAAAATTATC
**
15179390 AAAATACCCCTAGTTTG
65 AAAATACCCCTAACTTG
** *
15179407 TAAAATTACCAAAATACCCCTGATTTTTGAAATTACTAAAATACCCTTGACCTGTAAAATTATTA
1 TAAAATTACCAAAATACCCCTGATTTCAGAAATTACTAAAATACCCTTGACCTGTAAAATTATCA
15179472 AAATA-CCCTCAACTTG
66 AAATACCCCT-AACTTG
* *
15179488 TAAAATTACCAAAGTACCCTTGATTTACAGAA
1 TAAAATTACCAAAATACCCCTGATTT-CAGAA
15179520 TTATCATTTT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
79 1 0.01
80 47 0.49
81 45 0.47
82 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTGATTTCAGAAATTACTAAAATACCCTTGACCTGTAAAATTATCA
AAATACCCCTAACTTG
Found at i:15179561 original size:27 final size:27
Alignment explanation
Indices: 15179302--15179563 Score: 240
Period size: 27 Copynumber: 9.7 Consensus size: 27
15179292 TTAGTTTACC
* * *
15179302 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
15179329 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
15179356 AAATTACCAAAATACCCCTG-TTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* *
15179382 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* * *
15179409 AAATTACCAAAATACCCCTGATTTTTG
1 AAATTACCAAAATACCCTTGATTTGTA
* **
15179436 AAATTACTAAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
** ** *
15179463 AAATTATTAAAATACCCTCAACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
15179490 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *** *
15179517 GAATTATCATTTTACCCTTGATTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
15179544 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
15179564 TAGGGTAGAA
Statistics
Matches: 192, Mismatches: 40, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
26 24 0.12
27 167 0.87
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:15179578 original size:27 final size:27
Alignment explanation
Indices: 15179548--15179682 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
15179538 TTTATAAAAT
*
15179548 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
15179575 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* *
15179602 TATCGAAATACCCCTGTAAGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
15179629 TACCGAAATACCCCTGTAAGATAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * * *
15179656 TACTGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
15179682 T
1 T
15179683 TATCATTTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 3 0.03
27 92 0.97
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Found at i:15180004 original size:27 final size:26
Alignment explanation
Indices: 15179964--15180023 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
15179954 ACATATATAT
* *
15179964 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
15179990 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
15180017 ATATCTG
1 ATATCTG
15180024 GCAGTCTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:15180184 original size:6 final size:6
Alignment explanation
Indices: 15180142--15180229 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
15180132 TTGCATTCAC
* * * *
15180142 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
15180191 -TCACCTG ATCCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
15180230 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:15180187 original size:31 final size:31
Alignment explanation
Indices: 15180142--15180220 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
15180132 TTGCATTCAC
* * *
15180142 ATTCTAATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
* *
15180173 ATTCTGATTCTGATTCTGTCACCTGATCCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTA
15180204 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
15180221 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTA
Found at i:15194385 original size:3 final size:3
Alignment explanation
Indices: 15194371--15194421 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
15194361 ACACTAGTAC
* * * * *
15194371 ATA ATT ATA ATA ATA GTA ATA CTA ATA ATA CTA ATA AT- ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15194418 ATA A
1 ATA A
15194422 GGATATTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15196177 original size:88 final size:89
Alignment explanation
Indices: 15196022--15196205 Score: 203
Period size: 88 Copynumber: 2.1 Consensus size: 89
15196012 CGCCATTATC
** * **
15196022 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGATCCAC
1 GATCTGCTACCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGTATCTTGGATCCAC
* * * *
15196087 TTC-CTATCAATATAGGAAGATAG
66 TTCGCCACCAATATAGGAAGACAA
* * * *
15196110 GATCTGCTACCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTTC-TGCGATCT
1 GATCTGCTACCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTG-TATCTTG-GATCC
*
15196173 ACTTCGCCACCAATATGGGAAGACAA
64 ACTTCGCCACCAATATAGGAAGACAA
15196199 GATCTGC
1 GATCTGC
15196206 AATCTTCAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
87 22 0.28
88 35 0.44
89 22 0.28
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (89 bp):
GATCTGCTACCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGTATCTTGGATCCAC
TTCGCCACCAATATAGGAAGACAA
Found at i:15196258 original size:45 final size:45
Alignment explanation
Indices: 15196209--15196368 Score: 110
Period size: 45 Copynumber: 3.4 Consensus size: 45
15196199 GATCTGCAAT
*
15196209 CTTCAATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
* * * * * * *
15196254 CTTCAATGTACTCCACTG--TAGTCACAT-GGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-AC-TGGGAGATAGAGT-T---ATC---G-G
* *
15196306 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
*
15196351 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
15196369 TAGTCAGGGA
Statistics
Matches: 83, Mismatches: 19, Indels: 26
0.65 0.15 0.20
Matches are distributed among these distances:
43 2 0.02
44 10 0.12
45 34 0.41
46 1 0.01
48 3 0.04
49 3 0.04
51 1 0.01
52 17 0.20
53 10 0.12
54 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACTGGGAGATAGAGTTATCGG
Found at i:15196319 original size:97 final size:96
Alignment explanation
Indices: 15196207--15196403 Score: 351
Period size: 97 Copynumber: 2.0 Consensus size: 96
15196197 AAGATCTGCA
*
15196207 ATCTTCAATCTATTCCACTGCCAAATACTGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
15196272 TAGTCACATGGAGGTAAAATCTGCCATC-TTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTTG
15196304 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
15196369 TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
15196400 ATCT
1 ATCT
15196404 GCTTCGCTGC
Statistics
Matches: 97, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
95 21 0.22
96 8 0.08
97 68 0.70
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (96 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTTG
Found at i:15196908 original size:344 final size:345
Alignment explanation
Indices: 15196236--15196919 Score: 1307
Period size: 344 Copynumber: 2.0 Consensus size: 345
15196226 GCCAAATACT
*
15196236 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT-ACAGGGAGGTAAAATCTGCCATCT
15196301 TTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
65 TTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
15196366 CTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
130 CTGTAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAA
15196431 GATCTGCAATCTTCAATCTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCG
195 GATCTGCAATCTTCAATCTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCG
15196496 TTAAACCGAGTCACCAAAATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGT
260 TTAAACCGAGTCACCAAAATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGT
15196561 GTGAAAATTTCAAGCGATGCA
325 GTGAAAATTTCAAGCGATGCA
*
15196582 GGGAGGTAGAGTTATCGGCTTCAATGTACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATCTT
1 GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTT
* * *
15196646 TGATCTTCAATCTATTCCACTGCCAGATGCAGGGAGGTAGAGTTATCGGCTTCAATGTACTCCAC
66 TGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC
15196711 TGTAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
131 TGTAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
15196776 ATCTGCAATCTTCAATCTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCGT
196 ATCTGCAATCTTCAATCTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCGT
15196841 TAAACCGAGTCACCAAAATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGTG
261 TAAACCGAGTCACCAAAATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGTG
15196906 TGAAAATTTCAAGC
326 TGAAAATTTCAAGC
15196920 TTCGATTTAG
Statistics
Matches: 333, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
344 294 0.88
346 39 0.12
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (345 bp):
GGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTACAGGGAGGTAAAATCTGCCATCTT
TGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCAC
TGTAGTCAGGGAGGTAAAATCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
ATCTGCAATCTTCAATCTGTGACAGCCCAAAATTGACCCTAGTCGGGAAGTGGTTTTGGGACCGT
TAAACCGAGTCACCAAAATGTTTGAATGTGATATTTATTGTCTAGAATATGTAATTATGAATGTG
TGAAAATTTCAAGCGATGCA
Found at i:15199072 original size:40 final size:40
Alignment explanation
Indices: 15199015--15199204 Score: 238
Period size: 40 Copynumber: 4.8 Consensus size: 40
15199005 ATTAGAATAC
* * * *
15199015 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGA-TAT
* *
15199055 ATCCGGGCTAAGACCCGAAGGAATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
*
15199095 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * * *
15199135 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * *
15199175 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
15199205 TTGTGGTTAT
Statistics
Matches: 134, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 131 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
Found at i:15199148 original size:80 final size:80
Alignment explanation
Indices: 15199015--15199224 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 80
15199005 ATTAGAATAC
* * * *
15199015 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGAATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGAATT
*
15199080 TGTGCAAGTTGATAT
66 CGTGCAAGTTGATAT
*
15199095 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATGA-TATATCCGGGCTAAGACCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGAAT
* *
15199159 TCGTGCGAGTTGCTAT
65 TCGTGCAAGTTGATAT
* * * ** *
15199175 ACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
15199225 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
79 8 0.07
80 103 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGAATT
CGTGCAAGTTGATAT
Found at i:15203927 original size:46 final size:46
Alignment explanation
Indices: 15203043--15203907 Score: 1563
Period size: 46 Copynumber: 18.8 Consensus size: 46
15203033 TGTAACCCGC
15203043 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203089 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203135 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203181 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203227 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203273 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203365 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203411 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203457 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203503 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203549 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203595 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203641 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203687 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
15203733 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
15203779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * * * * *
15203825 ACATCTCTCGAACTCGGAATCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
15203872 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
15203908 ATGCTCAACC
Statistics
Matches: 796, Mismatches: 18, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
45 1 0.00
46 759 0.95
47 34 0.04
48 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:15205588 original size:13 final size:13
Alignment explanation
Indices: 15205570--15205597 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15205560 GCACACACTT
15205570 ACCATACCCGTTC
1 ACCATACCCGTTC
15205583 ACCATACCCGTTC
1 ACCATACCCGTTC
15205596 AC
1 AC
15205598 TCGCACAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.46, G:0.07, T:0.21
Consensus pattern (13 bp):
ACCATACCCGTTC
Found at i:15212946 original size:23 final size:23
Alignment explanation
Indices: 15212919--15212968 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15212909 CTCATAAGTC
15212919 AATTGTAACAATC-TTAAGTACTT
1 AATTGTAACAA-CATTAAGTACTT
15212942 AATTGTAACAACATTAAGTACTT
1 AATTGTAACAACATTAAGTACTT
15212965 AATT
1 AATT
15212969 ACCTTATCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (23 bp):
AATTGTAACAACATTAAGTACTT
Found at i:15244702 original size:93 final size:93
Alignment explanation
Indices: 15244595--15244764 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
15244585 CCCCTAAGTG
* * *
15244595 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAAT
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
*
15244660 GAGTTTGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* * *
15244688 AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
15244753 GAGTTCGGATGC
66 GAGTTCGGATGC
15244765 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:15244750 original size:46 final size:46
Alignment explanation
Indices: 15244589--15244761 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
15244579 AACCCGCCCC
* * * *
15244589 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * * *
15244635 TAAGTGAACTCAGACTCAACTCAATGAGTTTGGATGCCTAGTTACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCA-TCCA
*
15244686 -CA---AACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
15244728 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15244762 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 1 0.01
46 57 0.57
47 25 0.25
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:15245218 original size:30 final size:30
Alignment explanation
Indices: 15245184--15245243 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15245174 ATTTAATACG
15245184 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15245214 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15245244 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15264467 original size:30 final size:30
Alignment explanation
Indices: 15264433--15264492 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15264423 ATTTAATACG
15264433 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15264463 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15264493 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15264838 original size:74 final size:74
Alignment explanation
Indices: 15264750--15264896 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
15264740 GACCCTAGTC
15264750 GGGAAGTGGTTTCGGGACCACAAAACCTAGTAAAAAATTTTGTAAAATATTAATTTCAGTGTTTA
1 GGGAAGTGGTTTCGGGACCACAAAACCTAGTAAAAAATTTTGTAAAATATTAATTTCAGTGTTTA
15264815 TGTTATGTT
66 TGTTATGTT
* *
15264824 GGGAAGTGGTTTCGGGACCACAAAACCTAGTCAAAAATTTTGTAAAATATTAATTTCAGTGTTTT
1 GGGAAGTGGTTTCGGGACCACAAAACCTAGTAAAAAATTTTGTAAAATATTAATTTCAGTGTTTA
15264889 TGTTATGT
66 TGTTATGT
15264897 GAATTACCTA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (74 bp):
GGGAAGTGGTTTCGGGACCACAAAACCTAGTAAAAAATTTTGTAAAATATTAATTTCAGTGTTTA
TGTTATGTT
Found at i:15269655 original size:26 final size:26
Alignment explanation
Indices: 15269626--15269729 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
15269616 TGGTACAAAT
15269626 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
15269652 TGATAGTGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15269678 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15269704 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15269730 AGATGGGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15273143 original size:17 final size:17
Alignment explanation
Indices: 15273123--15273238 Score: 76
Period size: 17 Copynumber: 6.8 Consensus size: 17
15273113 CCAAAGGTAC
15273123 GAGCTCATCAAAGATGT
1 GAGCTCATCAAAGATGT
* * * *
15273140 GAGCTTACCCAAAGTTGA
1 GAGCTCA-TCAAAGATGT
*
15273158 GAGCTCA-CTAAGATTGT
1 GAGCTCATCAAAGA-TGT
15273175 GAGCTCATC-AA-ATGT
1 GAGCTCATCAAAGATGT
***
15273190 ACGAGCTCATCAATTTTGT
1 --GAGCTCATCAAAGATGT
* * *
15273209 GAGCTCACCAAGGCTGT
1 GAGCTCATCAAAGATGT
15273226 GAGCTCATCAAAG
1 GAGCTCATCAAAG
15273239 TTGCGAAGTC
Statistics
Matches: 76, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
15 3 0.04
16 5 0.07
17 50 0.66
18 15 0.20
19 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (17 bp):
GAGCTCATCAAAGATGT
Found at i:15273153 original size:35 final size:35
Alignment explanation
Indices: 15273098--15273202 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 35
15273088 CACAAGTCGT
* *
15273098 AAAGATGCGAACTT-CCCAAAGGTACGAGCTCATC
1 AAAGATGTGAGCTTACCCAAAGGTACGAGCTCATC
*
15273132 AAAGATGTGAGCTTACCCAAAGTTGA-GAGCTCA-C
1 AAAGATGTGAGCTTACCCAAAGGT-ACGAGCTCATC
* * * *
15273166 TAAGATTGTGAGCTCA-TCAAATGTACGAGCTCATC
1 AAAGA-TGTGAGCTTACCCAAAGGTACGAGCTCATC
15273201 AA
1 AA
15273203 TTTTGTGAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
33 1 0.02
34 29 0.51
35 26 0.46
36 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (35 bp):
AAAGATGTGAGCTTACCCAAAGGTACGAGCTCATC
Found at i:15273264 original size:34 final size:34
Alignment explanation
Indices: 15273113--15273264 Score: 130
Period size: 34 Copynumber: 4.4 Consensus size: 34
15273103 TGCGAACTTC
* * *
15273113 CCAAAGGTACGAGCTCATCAAAGATGTGAGCTTA
1 CCAAAGGTGCGAGCTCATCAAAGTTGTGAGCTCA
* * *
15273147 CCCAAAGTTGAGAGCTCA-CTAAGATTGTGAGCTCA
1 -CCAAAGGTGCGAGCTCATCAAAG-TTGTGAGCTCA
* * * **
15273182 TCAAATGTACGAGCTCATCAATTTTGTGAGCTCA
1 CCAAAGGTGCGAGCTCATCAAAGTTGTGAGCTCA
* *
15273216 CC-AAGGCTGTGAGCTCATCAAAGTTGCGAAG-TCA
1 CCAAAGG-TGCGAGCTCATCAAAGTTGTG-AGCTCA
15273250 CCAAAGGTGCGAGCT
1 CCAAAGGTGCGAGCT
15273265 GTGTTAGGCG
Statistics
Matches: 90, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
33 3 0.03
34 56 0.62
35 31 0.34
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (34 bp):
CCAAAGGTGCGAGCTCATCAAAGTTGTGAGCTCA
Found at i:15278534 original size:47 final size:47
Alignment explanation
Indices: 15278468--15278595 Score: 184
Period size: 47 Copynumber: 2.7 Consensus size: 47
15278458 GTGAATAATG
* * * *
15278468 CCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGAGAGGAGCTA
1 CCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGAGAGAAGCTA
* * * *
15278515 CCTTGATTTGGCTATGGGCCATTGTATAGGTACTCTGGGATAAGTTA
1 CCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGAGAGAAGCTA
15278562 CCTTGATTTGGCTATGGGCCATGGTATAGGTACT
1 CCTTGATTTGGCTATGGGCCATGGTATAGGTACT
15278596 TATCAATTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (47 bp):
CCTTGATTTGGCTATGGGCCATGGTATAGGTACTCTGAGAGAAGCTA
Found at i:15279639 original size:26 final size:26
Alignment explanation
Indices: 15279600--15279655 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
15279590 TGATACAAAT
15279600 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15279626 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15279652 TGAT
1 TGAT
15279656 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.