Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 40
Found at i:5043777 original size:177 final size:181
Alignment explanation
Indices: 5043566--5044064 Score: 837
Period size: 178 Copynumber: 2.8 Consensus size: 181
5043556 AACAAAAATC
*
5043566 TTGAGTTTGTTTCTTTGGAAAC-AAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
5043630 CTTTGAGTCTGTTTCTTTGG-AACAAAATTTTGTCTCTCTT-AGATAATTTCTTTTGAAACAAAA
66 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT-ATTTCTTTTGAAACAAAA
5043693 TCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTC-TTCTTAAGATAATTT-T
130 TCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTT-AGATAATTTCT
5043744 TTGAGTCTG-TTCTTT-GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
5043807 CTTTGAGTCTGTTTTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAA
66 CTTTGAGTCTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGAAAC-AAA
5043871 AT-TTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
129 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
5043923 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTC-TTTGAAACG-AAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
5043985 CTTTGAGTCTGTTTC-TTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGGAAA-AAAA
66 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTT-GAAACAAAA
*
5044048 TCTTTGAATCTGTTTCT
130 TCTTTGAGTCTGTTTCT
5044065 CTTAAAATGA
Statistics
Matches: 307, Mismatches: 2, Indels: 25
0.92 0.01 0.07
Matches are distributed among these distances:
176 22 0.07
177 103 0.34
178 104 0.34
179 40 0.13
180 9 0.03
181 29 0.09
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (181 bp):
TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAAT
CTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
Found at i:5043893 original size:178 final size:182
Alignment explanation
Indices: 5043566--5044064 Score: 839
Period size: 177 Copynumber: 2.8 Consensus size: 182
5043556 AACAAAAATC
*
5043566 TTGAGTTTGTTTCTTTGGAAAC-AAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
5043630 CTTTGAGTCTGTTTCTTTGG-AACAAAATTTTGTCTCTCTT-AGATAATTTCTTTTGAAAC-AAA
66 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGAT-ATTTCTTTTGAAACAAAA
5043692 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTC-TTCTTAAGATAATTT-T
130 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTT-AGATAATTTCT
5043744 TTGAGTCTG-TTCTTT-GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
5043807 CTTTGAGTCTGTTTTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAA
66 CTTTGAGTCTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAA
5043871 AT-TTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
130 ATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
5043923 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTC-TTTGAAACG-AAAT
1 TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
*
5043985 CTTTGAGTCTGTTTC-TTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGGAA-AAAAA
66 CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAAA
*
5044048 TCTTTGAATCTGTTTCT
131 TCTTTGAGTCTGTTTCT
5044065 CTTAAAATGA
Statistics
Matches: 307, Mismatches: 3, Indels: 23
0.92 0.01 0.07
Matches are distributed among these distances:
176 23 0.07
177 106 0.35
178 100 0.33
179 40 0.13
180 9 0.03
181 29 0.09
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (182 bp):
TTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAAAT
CTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAAA
TCTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCT
Found at i:5043901 original size:64 final size:65
Alignment explanation
Indices: 5043742--5043924 Score: 293
Period size: 64 Copynumber: 2.8 Consensus size: 65
5043732 TAAGATAATT
*
5043742 TTTTGAGTCTG-TTCTTT-GAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAAACGAAA
1 TTTTGAGTCTGTTTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATAATTTCTTTTGAAACAAAA
5043805 A
65 A
5043806 TCTTTGAGTCTGTTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGAT-ATTTCTTTTGAAACAAA
1 T-TTTGAGTCTG-TTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAACAAA
5043870 AA
64 AA
*
5043872 TTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTTTCTT-AGATAATTTCTTT
1 TTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTT
5043925 GAGTCTGTTT
Statistics
Matches: 112, Mismatches: 2, Indels: 10
0.90 0.02 0.08
Matches are distributed among these distances:
63 4 0.04
64 37 0.33
65 20 0.18
66 19 0.17
67 23 0.21
68 9 0.08
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (65 bp):
TTTTGAGTCTGTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTTCTTTTGAAACAAAAA
Found at i:5043927 original size:49 final size:50
Alignment explanation
Indices: 5043873--5043976 Score: 176
Period size: 49 Copynumber: 2.1 Consensus size: 50
5043863 AAACAAAAAT
*
5043873 TTTGAGTCTGTTTCTTTGGAAACAAAA-TTTGTCTTTCTT-AGATAATTTC
1 TTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTC
5043922 TTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTC
1 TTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTC
5043972 TTTGA
1 TTTGA
5043977 AACGAAATCT
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 27 0.52
50 19 0.37
51 6 0.12
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.48
Consensus pattern (50 bp):
TTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTC
Found at i:5043988 original size:50 final size:49
Alignment explanation
Indices: 5043885--5043989 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 49
5043875 TGAGTCTGTT
* ** **
5043885 TCTTTGGAAACAAAATTTGTCTTTCTTAGATAATTTCTTTGAGTCTGTT
1 TCTTTGGAAACAAAATTTGTCTCTCTTAGATAATTTCTTTGAAACTGAA
5043934 TCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAA-TTCTTTGAAAC-GAAA
1 TCTTTGGAAACAAAA-TTTGTCTCTCTT-AGATAATTTCTTTGAAACTG-AA
5043984 TCTTTG
1 TCTTTG
5043990 AGTCTGTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
49 16 0.33
50 26 0.54
51 6 0.12
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (49 bp):
TCTTTGGAAACAAAATTTGTCTCTCTTAGATAATTTCTTTGAAACTGAA
Found at i:5044001 original size:113 final size:114
Alignment explanation
Indices: 5043806--5044037 Score: 366
Period size: 113 Copynumber: 2.0 Consensus size: 114
5043796 GAAACGAAAA
*
5043806 TCTTTGAGTCTGTTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATATTTCTTTTGAAACAAAA
1 TCTTTGAGTCTGTTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTCTTTTGAAACAAAA
*
5043871 ATTTTGAGTCTGTTTCTTTGGAAACAAAA-TTTGTCTTTCTT-AGATAATT
66 ATTTTGAGTCTGTTTC-TTGGAAACAAAATTTTGTCTCTCTTAAGAT-ATT
*
5043920 TCTTTGAGTCTG-TTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTC-TTTGAAAC-GA
1 TCTTTGAGTCTGTTTTCTTTGGAAACAAAA-TTTGTCTCTCTTAAGATAATTCTTTTGAAACAAA
5043982 AATCTTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATATT
65 AAT-TTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATATT
5044033 TCTTT
1 TCTTT
5044038 TGGAAAAAAA
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
112 16 0.14
113 58 0.52
114 37 0.33
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.46
Consensus pattern (114 bp):
TCTTTGAGTCTGTTTTCTTTGGAAACAAAATTTGTCTCTCTTAAGATAATTCTTTTGAAACAAAA
ATTTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATATT
Found at i:5044020 original size:63 final size:64
Alignment explanation
Indices: 5043920--5044064 Score: 231
Period size: 64 Copynumber: 2.3 Consensus size: 64
5043910 TTAGATAATT
*
5043920 TCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTC-TTT-GAAACGAA
1 TCTTTGAGTCTGTTTC-TTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGGAAA-AAA
5043983 A
64 A
*
5043984 TCTTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATATTTCTTTTGGAAAAAAA
1 TCTTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGGAAAAAAA
*
5044048 TCTTTGAATCTGTTTCT
1 TCTTTGAGTCTGTTTCT
5044065 CTTAAAATGA
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
63 34 0.45
64 38 0.50
65 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (64 bp):
TCTTTGAGTCTGTTTCTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGGAAAAAAA
Found at i:5044313 original size:37 final size:39
Alignment explanation
Indices: 5044263--5044339 Score: 131
Period size: 37 Copynumber: 2.0 Consensus size: 39
5044253 TTGTCTCTCG
5044263 AGACAACTTCTTTT-AAATACCCACC-TTGAGATCGTTT
1 AGACAACTTCTTTTAAAATACCCACCTTTGAGATCGTTT
5044300 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTT-AAAATACCCACCTTTGAGATCGTTT
5044340 CTATTAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
37 14 0.38
39 11 0.30
40 12 0.32
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (39 bp):
AGACAACTTCTTTTAAAATACCCACCTTTGAGATCGTTT
Found at i:5044852 original size:65 final size:64
Alignment explanation
Indices: 5044783--5044914 Score: 142
Period size: 64 Copynumber: 2.0 Consensus size: 64
5044773 CTTTGAGTTT
* * * *
5044783 GTTTCTCTCGAAACACTGATC-TTGAGATCAATTCCCTTTAAACGAATTTTGTCTCATTT-GAGA
1 GTTTCCCTCGAAAC-CTCATCTTTGAG-TCAATTCCCTTAAAACGAATTTTCTCTC-TTTCGAGA
5044846 CA
63 CA
** * **
5044848 GTTTCCCTTTAAACGTCATCTTTGAGTCGTTTCCCTTAAAACGAATTTTCTCTCTTTCGAGACA
1 GTTTCCCTCGAAACCTCATCTTTGAGTCAATTCCCTTAAAACGAATTTTCTCTCTTTCGAGACA
5044912 GTT
1 GTT
5044915 GCTTTTAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 3 0.05
64 37 0.66
65 16 0.29
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (64 bp):
GTTTCCCTCGAAACCTCATCTTTGAGTCAATTCCCTTAAAACGAATTTTCTCTCTTTCGAGACA
Found at i:5044931 original size:64 final size:64
Alignment explanation
Indices: 5044814--5044938 Score: 164
Period size: 64 Copynumber: 2.0 Consensus size: 64
5044804 TTGAGATCAA
* * *
5044814 TTCCCTTTAAACGAATTTTGTCTCATTTGAGACAGTTTCCCTTTAAACGTCATCTTTGAGTCGT
1 TTCCCTTAAAACGAATTTTCTCTCATTTGAGACAGTTTCCCTTTAAACATCATCTTTGAGTCGT
* * *
5044878 TTCCCTTAAAACGAATTTTCTCTC-TTTCGAGACAG-TTGCTTTTAAAATATCATCTTTGAGT
1 TTCCCTTAAAACGAATTTTCTCTCATTT-GAGACAGTTTCCCTTT-AAACATCATCTTTGAGT
5044939 TTATTTTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
63 9 0.17
64 44 0.83
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (64 bp):
TTCCCTTAAAACGAATTTTCTCTCATTTGAGACAGTTTCCCTTTAAACATCATCTTTGAGTCGT
Found at i:5045008 original size:28 final size:27
Alignment explanation
Indices: 5044946--5045009 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
5044936 AGTTTATTTT
* **
5044946 TCTTGAAACAAATCTTGGGTTTGTTTC
1 TCTTGAAACAAATATTGAATTTGTTTC
* *
5044973 TTTTGAAACAAATATTTAATTTGGTTTC
1 TCTTGAAACAAATATTGAATTT-GTTTC
5045001 TCTTGAAAC
1 TCTTGAAAC
5045010 CATAACTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 17 0.57
28 13 0.43
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.45
Consensus pattern (27 bp):
TCTTGAAACAAATATTGAATTTGTTTC
Found at i:5045172 original size:42 final size:41
Alignment explanation
Indices: 5045113--5045308 Score: 139
Period size: 42 Copynumber: 4.6 Consensus size: 41
5045103 CATTTCCCAG
*
5045113 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACATAGAT
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACATAGAT
* * *
5045154 AACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGAT
1 -ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCAAC-ATAGAT
* * * * * **
5045200 GGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCAG--
1 -ACCAGACCTCCTCATCACGTAGGAGCCGTGTCA--ACATAGAT
*
5045242 ACCAGATCTCCTCATCATCGTAGGAGCCGTGTCAACCATAGAT
1 ACCAGACCTCCTCATCA-CGTAGGAGCCGTGTCAA-CATAGAT
*
5045285 ACCAG-CTGTCCTCATCACGTAGGA
1 ACCAGAC-CTCCTCATCACGTAGGA
5045309 ACGTGTTATC
Statistics
Matches: 120, Mismatches: 21, Indels: 26
0.72 0.13 0.16
Matches are distributed among these distances:
41 18 0.15
42 48 0.40
43 17 0.14
44 2 0.02
45 6 0.05
46 28 0.23
47 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (41 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACATAGAT
Found at i:5045363 original size:130 final size:129
Alignment explanation
Indices: 5045022--5045363 Score: 600
Period size: 129 Copynumber: 2.7 Consensus size: 129
5045012 TAACTCCTAA
5045022 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAG-ACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
5045086 TCACGTATGAGCCGTGTCATTTCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACAT
66 TCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACAT
5045150 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
5045215 TCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCATCGTAGGAGCCGTGTCAACCA
66 TCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCA-CGTAGGAGCCGTGTCAA-CA
5045280 T
129 T
* *
5045281 AGAT-ACCAGCTGTCCTCATCACGTAGGAA-CGTGTTATCACCTTAAGATGGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
*
5045344 ATCACGTATGAGCAGTGTCA
65 ATCACGTATGAGCCGTGTCA
5045364 ACCCTCGCCA
Statistics
Matches: 206, Mismatches: 4, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
128 56 0.27
129 73 0.35
130 70 0.34
131 7 0.03
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACAT
Found at i:5045614 original size:3 final size:3
Alignment explanation
Indices: 5045606--5045662 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
5045596 TCTAATTGTA
5045606 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5045654 ATT ATT ATT
1 ATT ATT ATT
5045663 GTTGTTGTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:5045879 original size:25 final size:22
Alignment explanation
Indices: 5045834--5045879 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 22
5045824 CTAAATATCA
5045834 TCAACTCCATCAGCCGCCGCCT
1 TCAACTCCATCAGCCGCCGCCT
5045856 TCAACTTCTCATCTAGCCGCCGCC
1 TCAAC-TC-CATC-AGCCGCCGCC
5045880 GCCAACAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 4 0.19
25 10 0.48
ACGTcount: A:0.17, C:0.48, G:0.13, T:0.22
Consensus pattern (22 bp):
TCAACTCCATCAGCCGCCGCCT
Found at i:5051126 original size:31 final size:31
Alignment explanation
Indices: 5051091--5051164 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
5051081 TCAAACGATC
*
5051091 GGGGACCATATTGCAAACAGACTAAATGTTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
* * *
5051122 GGGGACCATTTTGCAAATATACTAAATATTG
1 GGGGACCATATTGCAAACAGACTAAATATTG
*
5051153 GGGGACTATATT
1 GGGGACCATATT
5051165 ATAAGTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (31 bp):
GGGGACCATATTGCAAACAGACTAAATATTG
Found at i:5057352 original size:49 final size:48
Alignment explanation
Indices: 5057275--5057368 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 48
5057265 TTGATGTGTT
5057275 TATGATTAAAAAATATATAGTATAAAAATTATAAAATTTTTATGGGTCC
1 TATGATTAAAAAATATATAGTATAAAAATTATAAAA-TTTTATGGGTCC
*
5057324 TATGTTTAAAAAATATATAGTATAAAAATTATAAAATTTTATGGG
1 TATGATTAAAAAATATATAGTATAAAAATTATAAAATTTTATGGG
5057369 CCTTGGGCGG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 9 0.20
49 35 0.80
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.39
Consensus pattern (48 bp):
TATGATTAAAAAATATATAGTATAAAAATTATAAAATTTTATGGGTCC
Found at i:5059727 original size:26 final size:26
Alignment explanation
Indices: 5059691--5059772 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
5059681 CATTGTATTA
* * *
5059691 TAATATAATGTAGGAGTTAATGCTTC
1 TAATGTAATGTACGAGTTAATGTTTC
* * *
5059717 TAATGTAATGTACTAGTTATTATTTC
1 TAATGTAATGTACGAGTTAATGTTTC
* *
5059743 TGATGTAA-GTATGAGTTAATGTTTC
1 TAATGTAATGTACGAGTTAATGTTTC
*
5059768 GAATG
1 TAATG
5059773 AAAAAATTAA
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
25 16 0.37
26 27 0.63
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.43
Consensus pattern (26 bp):
TAATGTAATGTACGAGTTAATGTTTC
Found at i:5063565 original size:84 final size:84
Alignment explanation
Indices: 5063440--5063805 Score: 525
Period size: 84 Copynumber: 4.4 Consensus size: 84
5063430 GACAGTTTCC
* * * *
5063440 TGTTGGCAGATAGCTCTTCTCGCCTTGAGTTATGTTGCAAATGATGTGCGTTTGAGCTGAGTGTA
1 TGTTGGCAGATAACTCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
*
5063505 ATCGAACTCGAATGTCTTT
66 ATCGAACTCGAAGGTCTTT
* * * * * *
5063524 TGTTGGCAGATAGCCCTTCTTGCCTTGAGCTAAGCTGCAAATAATGTGCCTTTCAGCTGAGTGTA
1 TGTTGGCAGATAACTCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
*
5063589 ATCGAACTCGAAGGTTTTT
66 ATCGAACTCGAAGGTCTTT
* * *
5063608 TGTTGGCAGATAATTCTTCTCGCCTTAAGCTATGCTGCAAATGATGTACCTTTGAGCTGAGTGTA
1 TGTTGGCAGATAACTCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
5063673 ATCGAACTCGAAGGTCTTT
66 ATCGAACTCGAAGGTCTTT
* * ** * *
5063692 TGCTGGCAGATAACTCTTCTCGCCTTAAGCTATGCTATAAATGATGTGCCTTTGAGTTGAGCGTA
1 TGTTGGCAGATAACTCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
5063757 ATCGAACTCGAAGGTCTTT
66 ATCGAACTCGAAGGTCTTT
* *
5063776 TATTGGCAGATAACTCTTCTTGCCTTGAGC
1 TGTTGGCAGATAACTCTTCTCGCCTTGAGC
5063806 AATGATGTGC
Statistics
Matches: 251, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 251 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (84 bp):
TGTTGGCAGATAACTCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTA
ATCGAACTCGAAGGTCTTT
Found at i:5064126 original size:124 final size:124
Alignment explanation
Indices: 5063905--5064293 Score: 500
Period size: 124 Copynumber: 3.1 Consensus size: 124
5063895 CACGATATCC
* * * * * * *
5063905 TTCGTCGTGAAGTTGAAATCGTGGAGGGCCCATTCGTTGTGAAGTTGAGCCTTTATTTAGATATA
1 TTCGTCGTGAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
* * *
5063970 CTTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATGTTGTTGGT-AGGCGCAATTCCA
66 CTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGA-GCACAATTCCA
*
5064029 TTCGTCGTGAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCATTGAATTGGATATC
1 TTCGTCGTGAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
* * * * *
5064094 CTTCGTCGTGAAGTTGAAATCCAATATAAAGATAAATGTTACTGGTGAGCACGATTCCC
66 CTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACAATTCCA
* * *
5064153 TTCGTAGTGAAGTTAAAACCGTGGATGACCCATTCGGTGTGAAGTTGAGCCTTGAATTGGATATC
1 TTCGTCGTGAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
* * *
5064218 ATTCGTCGTGAAGTTGAAATTCAATCTCAAGATGAATGTTGCT--TCGAGTCA-AATATCC-
66 CTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT-GAG-CACAAT-TCCA
*
5064276 TTCGTCGGGAAGTTGAAA
1 TTCGTCGTGAAGTTGAAA
5064294 TTGATTCTGA
Statistics
Matches: 231, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
122 1 0.00
123 20 0.09
124 209 0.90
125 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (124 bp):
TTCGTCGTGAAGTTGAAACCGTGGATGACCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATATC
CTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACAATTCCA
Found at i:5064402 original size:61 final size:63
Alignment explanation
Indices: 5064284--5064490 Score: 249
Period size: 64 Copynumber: 3.3 Consensus size: 63
5064274 CCTTCGTCGG
* * * * *
5064284 GAAGTTGAAATTGATTCTGAATGAAACTGGGAAGCCGTTTGTTTAGTTCAATATCATTCGCTGT
1 GAAGTTGAAATTGACTCTGAATGAAACT-GAAAGTCGTTTGTTGAGTCCAATATCATTCGCTGT
* *
5064348 GAAGTTGAAA-TGACTCTGAAT-TAACTAGAAAGTCG-TTGTTGAGTCCAATATCATTCACTGT
1 GAAGTTGAAATTGACTCTGAATGAAACT-GAAAGTCGTTTGTTGAGTCCAATATCATTCGCTGT
* * * * * *
5064409 GAAGTTAAAATTGACTTTGAATGAAACTGAAAAGTTGTTTATTGAGTCCAATATCCTTCGTTGT
1 GAAGTTGAAATTGACTCTGAATGAAACTG-AAAGTCGTTTGTTGAGTCCAATATCATTCGCTGT
5064473 GAAGTTGAAATTGACTCT
1 GAAGTTGAAATTGACTCT
5064491 AAAAACTGCA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
61 32 0.26
62 21 0.17
63 20 0.17
64 48 0.40
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (63 bp):
GAAGTTGAAATTGACTCTGAATGAAACTGAAAGTCGTTTGTTGAGTCCAATATCATTCGCTGT
Found at i:5065684 original size:12 final size:12
Alignment explanation
Indices: 5065667--5065691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5065657 ACTGCCACAA
5065667 TTTCAAACATAT
1 TTTCAAACATAT
5065679 TTTCAAACATAT
1 TTTCAAACATAT
5065691 T
1 T
5065692 GAAAAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TTTCAAACATAT
Found at i:5066435 original size:20 final size:19
Alignment explanation
Indices: 5066382--5066431 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
5066372 GTTGATGTTG
5066382 TTTTATTTTATTTAGTCAC
1 TTTTATTTTATTTAGTCAC
* *
5066401 TGTTAATTTTGATTTAGTTAC
1 T-TTTATTTT-ATTTAGTCAC
5066422 TTTTATTTTA
1 TTTTATTTTA
5066432 ATTTTTGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 10 0.38
ACGTcount: A:0.22, C:0.06, G:0.08, T:0.64
Consensus pattern (19 bp):
TTTTATTTTATTTAGTCAC
Found at i:5066703 original size:26 final size:26
Alignment explanation
Indices: 5066667--5066724 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
5066657 ATTTTTATAT
*
5066667 ATTTTGTTATTTCTTTTAGATATAAC
1 ATTTTCTTATTTCTTTTAGATATAAC
* ** *
5066693 ATTTTCTTATTTTTTTTATTTTTAAC
1 ATTTTCTTATTTCTTTTAGATATAAC
5066719 ATTTTC
1 ATTTTC
5066725 ATCATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (26 bp):
ATTTTCTTATTTCTTTTAGATATAAC
Found at i:5066742 original size:26 final size:25
Alignment explanation
Indices: 5066689--5066741 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
5066679 CTTTTAGATA
*
5066689 TAACATTTTCTTATTTTTTTTATTTT
1 TAACATTTTCTCATTTTTTTTA-TTT
5066715 TAACATTTTCATCATTTTTATTTATTT
1 TAACATTTTC-TCATTTTT-TTTATTT
5066742 ATATTGTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 10 0.42
27 10 0.42
28 4 0.17
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (25 bp):
TAACATTTTCTCATTTTTTTTATTT
Found at i:5068966 original size:22 final size:20
Alignment explanation
Indices: 5068909--5068962 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
5068899 AAAATGAAAA
5068909 AAATTAAAATAACAGTAGCT
1 AAATTAAAATAACAGTAGCT
*
5068929 AAATCAGAAATTAACAGT-GACT
1 AAATTA-AAA-TAACAGTAG-CT
5068951 AAATTAAAATAA
1 AAATTAAAATAA
5068963 AACAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.24
Consensus pattern (20 bp):
AAATTAAAATAACAGTAGCT
Found at i:5070164 original size:81 final size:83
Alignment explanation
Indices: 5070012--5070164 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 83
5070002 GAAAGTAGTT
* * * * *
5070012 GCTGAGTGTAATCGAACTCGAAGGTGTTTTATTGGCAGATGACCCTTCTTGCCTTGACTATGCTG
1 GCTGAGTGTAATAGAACTCGAAGGTGTTTTATTGGCAGATAACCCTTCTAGCCTTAACTATGCTA
5070077 CAAATGATGTGTCTTTGA
66 CAAATGATGTGTCTTTGA
* * *
5070095 GCTGAGTGTAATAGAACTCGAA-G-GTTTTGTTGGCAG-TAACCTTTCTAGCCTTAATTTATGCT
1 GCTGAGTGTAATAGAACTCGAAGGTGTTTTATTGGCAGATAACCCTTCTAGCCTTAA-CTATGCT
*
5070157 ATAAATGA
65 ACAAATGA
5070165 ACAATATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
80 14 0.23
81 24 0.40
82 1 0.02
83 21 0.35
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (83 bp):
GCTGAGTGTAATAGAACTCGAAGGTGTTTTATTGGCAGATAACCCTTCTAGCCTTAACTATGCTA
CAAATGATGTGTCTTTGA
Found at i:5070419 original size:124 final size:122
Alignment explanation
Indices: 5070209--5070437 Score: 318
Period size: 124 Copynumber: 1.9 Consensus size: 122
5070199 GGCCCCTTTG
* * *
5070209 TTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTAAAATCCAATCTGAAAATGAA
1 TTGTGAAGTTGAGCATTGAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATCTCAAAATGAA
* * **
5070274 TGTTGCTGGTGGGCACGATTCCCTTGGTTGTGAAGTTGAAACCGTGGATAACCTCTTCA
66 TGTTGCT-GTGGGCACAATT-CCTTCGTCATGAAGTTGAAACCGTGGATAACCTCTTCA
*
5070333 TTGTGAAGTTGAGCATTGAATTGGATATCATTCGTCGTGAAGTTGAAATCCAATCTCAAAGATGA
1 TTGTGAAGTTGAGCATTGAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATCTCAAA-ATGA
*
5070398 ATGTTGCT-TCGAGTC-CAATTCCTTCGTCATGAAGTTGAAA
65 ATGTTGCTGT-G-GGCACAATTCCTTCGTCATGAAGTTGAAA
5070438 TTAGTTTTGA
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
123 18 0.19
124 61 0.66
125 14 0.15
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (122 bp):
TTGTGAAGTTGAGCATTGAATTGGATATCATTCGTCGTGAAGTTAAAATCCAATCTCAAAATGAA
TGTTGCTGTGGGCACAATTCCTTCGTCATGAAGTTGAAACCGTGGATAACCTCTTCA
Found at i:5070551 original size:64 final size:64
Alignment explanation
Indices: 5070427--5070636 Score: 307
Period size: 64 Copynumber: 3.3 Consensus size: 64
5070417 TCCTTCGTCA
* * * *
5070427 TGAAGTTGAAATT-AGTTTTGAATGAAACTGG-AAGCCGTTTGTTGAGTCCAATATCCTTCGCTG
1 TGAAGTTGAAATTGA-CTCTGAATGAAACTGGAAAGTCGTTTGTTGAGTCCAATATCATTCGCTG
* * *
5070490 TGAATTTGAAATTGACTCTGAATGAAATTGGAAAGTCGTTTGTTGAGTTCAATATCATTCGCTG
1 TGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTTGAGTCCAATATCATTCGCTG
* *
5070554 TGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTTGAGTCCAATATCATTCGTTG
1 TGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTTGAGTCCAATATCATTCGCTG
*
5070618 TGAAGTTGAAATTAACTCT
1 TGAAGTTGAAATTGACTCT
5070637 AAAAACTGCA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
63 25 0.19
64 107 0.81
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (64 bp):
TGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTCGTTTGTTGAGTCCAATATCATTCGCTG
Found at i:5072869 original size:93 final size:92
Alignment explanation
Indices: 5072750--5072935 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 92
5072740 ACTCGTTCAA
*
5072750 TTATTCCACCTTAGAAGGTAACATAAATTCATTCGTTTAAAGGATTAAGCAAATATGAAAAATCA
1 TTATTCCACCTTAGAAGGTAACATAAATTCATTCGTTTAAAAGATTAAGCAAATATGAAAAATCA
*
5072815 TAAACGTGTTCAAACAAAAACAATACTC
66 AAAACGTGTTCAAAC-AAAACAATACTC
* *
5072843 TTATTCCACCTTAGAATGTAATATAAATTCATTCGTTTAAAAGATTAAGCAAATATGAAAAATCA
1 TTATTCCACCTTAGAAGGTAACATAAATTCATTCGTTTAAAAGATTAAGCAAATATGAAAAATCA
5072908 AAAACGTGTTCAAACAAAACAATACTC
66 AAAACGTGTTCAAACAAAACAATACTC
5072935 T
1 T
5072936 CAGTGCAAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 13 0.15
93 76 0.85
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.29
Consensus pattern (92 bp):
TTATTCCACCTTAGAAGGTAACATAAATTCATTCGTTTAAAAGATTAAGCAAATATGAAAAATCA
AAAACGTGTTCAAACAAAACAATACTC
Found at i:5074745 original size:7 final size:7
Alignment explanation
Indices: 5074733--5074758 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5074723 CAAATAAATA
5074733 AATTTAT
1 AATTTAT
5074740 AATTTAT
1 AATTTAT
5074747 AATTTAT
1 AATTTAT
5074754 AATTT
1 AATTT
5074759 TCGCTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:5078628 original size:37 final size:37
Alignment explanation
Indices: 5078538--5078642 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
5078528 TCTTTTCGTC
5078538 ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* **
5078575 TTGTTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * * *
5078612 ATACTATTATTTAAACTCATAAAGATAGGAT
1 ATACTAGGATTCAAACTCCTAAAAATAGGAT
5078643 TCACAAACAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (37 bp):
ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:5079118 original size:21 final size:21
Alignment explanation
Indices: 5079093--5079132 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5079083 TATATGTATA
5079093 TATATATATATATATATTAAT
1 TATATATATATATATATTAAT
* * *
5079114 TATATTTATTTATTTATTA
1 TATATATATATATATATTA
5079133 TAGTTCTCTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATATATATATATTAAT
Found at i:5079127 original size:17 final size:17
Alignment explanation
Indices: 5079076--5079134 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
5079066 AATTAACCCT
* *
5079076 TATTATTTATATGTATA
1 TATTAATTATATATATA
5079093 TA-T-A-TATATATATA
1 TATTAATTATATATATA
* *
5079107 TATTAATTATATTTATT
1 TATTAATTATATATATA
*
5079124 TATTTATTATA
1 TATTAATTATA
5079135 GTTCTCTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 11 0.32
15 1 0.03
16 2 0.06
17 20 0.59
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTAATTATATATATA
Found at i:5079398 original size:2 final size:2
Alignment explanation
Indices: 5079386--5079491 Score: 191
Period size: 2 Copynumber: 54.5 Consensus size: 2
5079376 TACATACTTT
5079386 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5079427 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5079468 TA TA TA TA TA TA -A TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
5079492 TTTATTTATT
Statistics
Matches: 101, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
1 3 0.03
2 98 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5084219 original size:7 final size:7
Alignment explanation
Indices: 5084207--5084288 Score: 69
Period size: 7 Copynumber: 11.6 Consensus size: 7
5084197 CAATAAGAAC
5084207 AAAAAGA
1 AAAAAGA
5084214 AAAAAGAA
1 AAAAAG-A
5084222 AAAAAGA
1 AAAAAGA
5084229 AAAGAAGCA
1 AAA-AAG-A
5084238 AAAAAGA
1 AAAAAGA
*
5084245 AGAAA-A
1 AAAAAGA
*
5084251 CAAAAGA
1 AAAAAGA
5084258 AAAAAGA
1 AAAAAGA
* *
5084265 AAGAA-C
1 AAAAAGA
**
5084271 AAAAATC
1 AAAAAGA
5084278 AAAAAGA
1 AAAAAGA
5084285 AAAA
1 AAAA
5084289 GGGATAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
6 8 0.13
7 36 0.59
8 13 0.21
9 4 0.07
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:5084233 original size:20 final size:19
Alignment explanation
Indices: 5084207--5084288 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 19
5084197 CAATAAGAAC
5084207 AAAAAGAAAAAAGAAAAAAAGA
1 AAAAAGAAAAAAG--AAAAA-A
5084229 AAAGAAGCAAAAAAGAAGAAAA
1 AAA-AAG-AAAAAAGAA-AAAA
* *
5084251 CAAAAGAAAAAAGAAAGAAC
1 AAAAAGAAAAAAGAAA-AAA
**
5084271 AAAAATCAAAAAGAAAAA
1 AAAAAGAAAAAAGAAAAA
5084289 GGGATAAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
19 3 0.06
20 24 0.47
21 3 0.06
22 8 0.16
23 6 0.12
24 7 0.14
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.01
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAAAAA
Found at i:5084240 original size:24 final size:23
Alignment explanation
Indices: 5084213--5084288 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 23
5084203 GAACAAAAAG
* *
5084213 AAAAAAGAAAAAAAGAAAAGAAGC
1 AAAAAAGAAAAAAACAAAAGAA-A
*
5084237 AAAAAAGAAGAAAACAAAAGAAA
1 AAAAAAGAAAAAAACAAAAGAAA
5084260 AAAGAAAGAACAAAAATCAAAAAGAAA
1 AAA-AAAGAA-AAAAA-C-AAAAGAAA
5084287 AA
1 AA
5084289 GGGATAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 3 0.07
24 26 0.59
25 4 0.09
26 1 0.02
27 10 0.23
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.01
Consensus pattern (23 bp):
AAAAAAGAAAAAAACAAAAGAAA
Found at i:5084244 original size:11 final size:10
Alignment explanation
Indices: 5084201--5084265 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
5084191 AAGATTCAAT
*
5084201 AAGAACAAA-
1 AAGAAAAAAG
5084210 AAGAAAAAAG
1 AAGAAAAAAG
*
5084220 AAAAAAAGAAAAG
1 --AAGAA-AAAAG
5084233 AAGCAAAAAAG
1 AAG-AAAAAAG
5084244 AAGAAAACAA-
1 AAGAAAA-AAG
5084254 AAGAAAAAAG
1 AAGAAAAAAG
5084264 AA
1 AA
5084266 AGAACAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
9 10 0.22
10 13 0.28
11 12 0.26
12 6 0.13
13 5 0.11
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:5084260 original size:19 final size:19
Alignment explanation
Indices: 5084215--5084274 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
5084205 ACAAAAAGAA
*
5084215 AAAAGAAAAA-AAGAAAAG
1 AAAAGAAAAAGAAGAAAAC
*
5084233 AAGCA-AAAAAGAAGAAAAC
1 AA-AAGAAAAAGAAGAAAAC
*
5084252 AAAAGAAAAAAGAA-AGAAC
1 AAAAG-AAAAAGAAGAAAAC
5084271 AAAA
1 AAAA
5084275 ATCAAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
18 8 0.24
19 18 0.53
20 8 0.24
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAAGAAAAC
Found at i:5084287 original size:13 final size:13
Alignment explanation
Indices: 5084204--5084288 Score: 64
Period size: 13 Copynumber: 6.1 Consensus size: 13
5084194 ATTCAATAAG
5084204 AACAAAAAGAAAAA
1 AACAAAAAG-AAAA
*
5084218 AGAAAAAAAGAAAA
1 A-ACAAAAAGAAAA
5084232 GAAGCAAAAAAGAAGAA
1 -AA-C-AAAAAGAA-AA
5084249 AAC-AAAAGAAAA
1 AACAAAAAGAAAA
* *
5084261 AAGAAAGAACAAAA
1 AACAAA-AAGAAAA
*
5084275 ATCAAAAAGAAAA
1 AACAAAAAGAAAA
5084288 A
1 A
5084289 GGGATAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
12 4 0.07
13 16 0.28
14 16 0.28
15 9 0.16
16 10 0.18
17 2 0.04
ACGTcount: A:0.80, C:0.06, G:0.13, T:0.01
Consensus pattern (13 bp):
AACAAAAAGAAAA
Found at i:5085980 original size:105 final size:105
Alignment explanation
Indices: 5085847--5086431 Score: 943
Period size: 105 Copynumber: 5.6 Consensus size: 105
5085837 GAATCGTGCC
* * *
5085847 ACTCGAGACAACACAAGTTCAACCTCACGACGAAGGGA-CGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5085911 AATTTTTAGAGCCAATTTCAACTTCACACGAAGGATATTGG
66 AA-TTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGG
* * *
5085952 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGAGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
5086017 AATTTCAGAGCCAATTTCAAC-TCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCAC-ACGAAGGATATTGG
*
5086057 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAAACAACTTCC
5086122 CAATTT-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGG
*
5086163 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG-TGTCAACAAAC-ACTT-TC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
5086225 AATTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGG
* * *
5086265 ACTCCAGACAACACAAGTTCAACTTCACGACG-AGGGACCGCTGGTTGTTAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
5086329 AATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACA-CGAAGGATATTGG
*
5086370 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAAC-AACAACTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC
5086432 TCAACGCTGG
Statistics
Matches: 447, Mismatches: 22, Indels: 22
0.91 0.04 0.04
Matches are distributed among these distances:
101 12 0.03
102 59 0.13
103 29 0.06
104 35 0.08
105 190 0.43
106 122 0.27
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACACGAAGGATATTGG
Found at i:5086440 original size:27 final size:28
Alignment explanation
Indices: 5086409--5086463 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
5086399 ATGAAGGGAC
5086409 CGCTGGTTGTCAAC-AACAACTTCTCAA
1 CGCTGGTTGTCAACAAACAACTTCTCAA
*
5086436 CGCTGGTTGTCAACAAACAACTTTTCAA
1 CGCTGGTTGTCAACAAACAACTTCTCAA
5086464 TTTCAGAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCTGGTTGTCAACAAACAACTTCTCAA
Found at i:5086558 original size:131 final size:132
Alignment explanation
Indices: 5086303--5086562 Score: 398
Period size: 131 Copynumber: 2.0 Consensus size: 132
5086293 GACGAGGGAC
* * * *
5086303 CGCTGGTTGTTAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGGATATT
1 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA-ATT
* * *
5086368 GGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAACAACTTCT
65 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCT
5086433 CAA
130 CAA
**
5086436 CGCTGGTTGTCAACAAACAACTTTTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG-ATTG
1 CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAATTG
*
5086500 GACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGG-TGTTAATAAACAACTTC
66 GACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-AAACAACTTC
5086563 CCAATTTCAG
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
130 5 0.04
131 57 0.49
133 54 0.47
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (132 bp):
CGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAATTG
GACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAAAACAACTTCTC
AA
Found at i:5086702 original size:97 final size:103
Alignment explanation
Indices: 5086436--5086721 Score: 390
Period size: 103 Copynumber: 2.8 Consensus size: 103
5086426 AACTTCTCAA
* * *
5086436 CGCTGGTTGTCAACAAACAACTTTTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG--ATT
1 CGCTGG-TGTTAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATT
*
5086499 GGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGAC
65 GGACTCCAGACAACGCAAGTTCAA--TCACGACGAAGGGAC
* * **
5086540 CGCTGGTGTTAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCATAGTGAAGGATATTG
1 CGCTGGTGTTAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
5086605 GACTCCAGACAACGCAAGTTCAA-CACGACGAAGGGAC
66 GACTCCAGACAACGCAAGTTCAATCACGACGAAGGGAC
* * *
5086642 CGCT-G-GTT-GTCAACAACTTCTCAATTTCAGAG-CAA-TTCAACTTCACAACAAAGGATATTG
1 CGCTGGTGTTAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
5086702 GACTCCAGACAACGCAAGTT
66 GACTCCAGACAACGCAAGTT
5086722 TCAGAGCCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
97 41 0.25
98 3 0.02
99 21 0.13
100 3 0.02
101 1 0.01
102 18 0.11
103 46 0.28
104 6 0.04
105 26 0.16
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (103 bp):
CGCTGGTGTTAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAATCACGACGAAGGGAC
Found at i:5086724 original size:54 final size:56
Alignment explanation
Indices: 5086666--5086778 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 56
5086656 AACTTCTCAA
*
5086666 TTTCAGAG-CAA-TTCAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAG
1 TTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAG
* *
5086720 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
1 TTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAG
5086776 TTT
1 TTT
5086779 AACTTCACAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 8 0.15
55 3 0.06
56 43 0.80
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (56 bp):
TTTCAGAGCCAATTTCAACTTCACAACAAAGGATATTGGACTCCAGACAACACAAG
Found at i:5086860 original size:105 final size:99
Alignment explanation
Indices: 5086720--5086967 Score: 311
Period size: 105 Copynumber: 2.4 Consensus size: 99
5086710 ACAACGCAAG
*
5086720 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTTAACTTC
1 TTTC-GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAG---ACACAA--TTAACTTC
5086785 ACAACGAAGGGACAGCTGGTTGTCAACAAAC-ATTTCCCAA
60 ACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCC-A
* * *
5086825 TTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAGTCGAGATACAATTCACTTCACAAC
1 TTTC-GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACAATTAACTTCACAAC
* * *
5086890 TAAGGGACGGCTGGTTGTCAATAAACAATTTCCCA
65 GAAGGGACAGCTGGTTGTCAACAAACAATTTCCCA
* * *
5086925 GTTCCAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTCG
1 TTTCGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGACTCG
5086968 GAACAAGGCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
98 1 0.01
99 34 0.26
100 39 0.30
101 7 0.05
102 5 0.04
105 43 0.33
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (99 bp):
TTTCGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACACAATTAACTTCACAACG
AAGGGACAGCTGGTTGTCAACAAACAATTTCCCA
Found at i:5087735 original size:36 final size:37
Alignment explanation
Indices: 5087686--5087780 Score: 140
Period size: 36 Copynumber: 2.6 Consensus size: 37
5087676 CATTTTCGTC
5087686 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* *
5087723 TTACTA-GATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
**
5087759 CTACTATTATT-AAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
5087781 TATGATCCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 45 0.85
37 8 0.15
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:5088454 original size:29 final size:26
Alignment explanation
Indices: 5088405--5088497 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 26
5088395 TTTCATTTTT
*
5088405 TTATATT-TTATGATTACTATTT-TTTA
1 TTATATTATTATTA-TA-TATTTATTTA
5088431 GTTAATATTATATATATATATATTTCATTTA
1 -TT-ATATTAT-TAT-TATATATTT-ATTTA
5088462 TTATATTATTATTATAT-TTAATATTTA
1 TTATATTATTATTATATATT--TATTTA
5088489 TTATATTAT
1 TTATATTAT
5088498 ACATACATTT
Statistics
Matches: 57, Mismatches: 1, Indels: 16
0.77 0.01 0.22
Matches are distributed among these distances:
26 2 0.04
27 21 0.37
28 9 0.16
29 13 0.23
30 7 0.12
31 5 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTATATTATTATTATATATTTATTTA
Found at i:5088486 original size:32 final size:32
Alignment explanation
Indices: 5088436--5088498 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
5088426 TTTTAGTTAA
5088436 TATTATATATATATATATTTCATT-TATTATAT
1 TATTATATATATATATATTT-ATTATATTATAT
*
5088468 TATTAT-TATATTTAATATTTATTATATTATA
1 TATTATATATATAT-ATATTTATTATATTATA
5088499 CATACATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 9 0.32
32 19 0.68
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (32 bp):
TATTATATATATATATATTTATTATATTATAT
Found at i:5088507 original size:27 final size:26
Alignment explanation
Indices: 5088457--5088526 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 26
5088447 TATATATTTC
* *
5088457 ATTTATTATATTATTATTATATTTAAT
1 ATTTATTATATTA-TAATACATTTAAT
*
5088484 ATTTATTATATTATACATACATTTTAT
1 ATTTATTATATTATA-ATACATTTAAT
*
5088511 ATTTTTTATATATATA
1 ATTTATTATAT-TATA
5088527 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.05
27 31 0.84
28 4 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATATTATAATACATTTAAT
Found at i:5088529 original size:22 final size:22
Alignment explanation
Indices: 5088494--5088537 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5088484 ATTTATTATA
5088494 TTATACATACATTTTATATTTT
1 TTATACATACATTTTATATTTT
* * *
5088516 TTATATATATATTTTTTATTTT
1 TTATACATACATTTTATATTTT
5088538 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATACATACATTTTATATTTT
Found at i:5089363 original size:38 final size:40
Alignment explanation
Indices: 5089248--5089373 Score: 159
Period size: 39 Copynumber: 3.2 Consensus size: 40
5089238 GAAGCAGCAG
5089248 TTATAACACTAAGTTGGACACAACATTTCACCCTCCAATT
1 TTATAACACTAAGTTGGACACAACATTTCACCCTCCAATT
* *
5089288 TTATAATAC-AAGTTGGAGACAACATTTCACCCTCCAATT
1 TTATAACACTAAGTTGGACACAACATTTCACCCTCCAATT
* * * *
5089327 TTATCACACTAAGTT-G-CATAACATTTCACACGCCAATT
1 TTATAACACTAAGTTGGACACAACATTTCACCCTCCAATT
*
5089365 CTAATAACA
1 -TTATAACA
5089374 AACCCAAGGC
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
38 18 0.24
39 43 0.58
40 13 0.18
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.30
Consensus pattern (40 bp):
TTATAACACTAAGTTGGACACAACATTTCACCCTCCAATT
Found at i:5093861 original size:13 final size:13
Alignment explanation
Indices: 5093843--5093868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5093833 AATAAAGTCA
5093843 ACGGTCAACGGTC
1 ACGGTCAACGGTC
5093856 ACGGTCAACGGTC
1 ACGGTCAACGGTC
5093869 GGGTCGGGTC
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:5093880 original size:17 final size:17
Alignment explanation
Indices: 5093858--5093890 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5093848 CAACGGTCAC
5093858 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
5093875 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
5093891 AACAGTCGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:5093885 original size:7 final size:7
Alignment explanation
Indices: 5093839--5093868 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
5093829 GTCAAATAAA
5093839 GTCAACG
1 GTCAACG
5093846 GTCAACG
1 GTCAACG
5093853 GTC-ACG
1 GTCAACG
5093859 GTCAACG
1 GTCAACG
5093866 GTC
1 GTC
5093869 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:5093885 original size:12 final size:12
Alignment explanation
Indices: 5093870--5093902 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5093860 TCAACGGTCG
5093870 GGTCGGGTCAAC
1 GGTCGGGTCAAC
5093882 GGTCGGGTCAAC
1 GGTCGGGTCAAC
*
5093894 AGTCGGGTC
1 GGTCGGGTC
5093903 GGGTCAACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:5093898 original size:29 final size:30
Alignment explanation
Indices: 5093845--5093910 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
5093835 TAAAGTCAAC
*
5093845 GGTCAACGGTCACGGTCAACGGTCGGGTCG
1 GGTCAACGGTCACGGTCAACAGTCGGGTCG
*
5093875 GGTCAACGGTC-GGGTCAACAGTCGGGTCG
1 GGTCAACGGTCACGGTCAACAGTCGGGTCG
5093904 GGTCAAC
1 GGTCAAC
5093911 CCGGTTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 23 0.68
30 11 0.32
ACGTcount: A:0.18, C:0.26, G:0.39, T:0.17
Consensus pattern (30 bp):
GGTCAACGGTCACGGTCAACAGTCGGGTCG
Found at i:5093902 original size:17 final size:17
Alignment explanation
Indices: 5093858--5093910 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
5093848 CAACGGTCAC
*
5093858 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
5093875 GGTC-A-A--C-GGTCG
1 GGTCAACAGTCGGGTCG
5093887 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
5093904 GGTCAAC
1 GGTCAAC
5093911 CCGGTTCAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
12 9 0.30
13 2 0.07
14 1 0.03
16 2 0.07
17 16 0.53
ACGTcount: A:0.17, C:0.25, G:0.42, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:5093928 original size:19 final size:19
Alignment explanation
Indices: 5093904--5093994 Score: 121
Period size: 19 Copynumber: 4.7 Consensus size: 19
5093894 AGTCGGGTCG
*
5093904 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
5093923 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
5093942 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* *
5093961 GGTCAAAACCGGTTCAAAACT
1 GGTC-AAACCGGTTC-AGACC
5093982 GGTCAAACCGGTT
1 GGTCAAACCGGTT
5093995 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.02
19 39 0.60
20 19 0.29
21 6 0.09
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:5093942 original size:10 final size:10
Alignment explanation
Indices: 5093906--5093994 Score: 87
Period size: 10 Copynumber: 9.1 Consensus size: 10
5093896 TCGGGTCGGG
*
5093906 TCAACCCGGT
1 TCAAACCGGT
*
5093916 TCAGACCGG-
1 TCAAACCGGT
5093925 TCAAACCGGT
1 TCAAACCGGT
*
5093935 TCAGACCGG-
1 TCAAACCGGT
5093944 TCAAACCGGT
1 TCAAACCGGT
*
5093954 TCGAACCGG-
1 TCAAACCGGT
5093963 TCAAAACCGGT
1 TC-AAACCGGT
*
5093974 TCAAAACTGG-
1 TC-AAACCGGT
5093984 TCAAACCGGT
1 TCAAACCGGT
5093994 T
1 T
5093995 TTCCAGCAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
9 24 0.37
10 32 0.49
11 9 0.14
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:5101192 original size:13 final size:14
Alignment explanation
Indices: 5101170--5101206 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
5101160 GTCAAAGAAA
5101170 GTCAACGGTCAACG
1 GTCAACGGTCAACG
5101184 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
5101197 GTCAACGGTC
1 GTCAACGGTC
5101207 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:5101218 original size:17 final size:17
Alignment explanation
Indices: 5101196--5101253 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
5101186 CACGGTCAAC
5101196 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
5101213 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
5101230 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
5101247 GGTCAAC
1 GGTCAAC
5101254 CCGATTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:5101223 original size:7 final size:7
Alignment explanation
Indices: 5101170--5101206 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
5101160 GTCAAAGAAA
5101170 GTCAACG
1 GTCAACG
5101177 GTCAACG
1 GTCAACG
5101184 GTC-ACG
1 GTCAACG
5101190 GTCAACG
1 GTCAACG
5101197 GTCAACG
1 GTCAACG
5101204 GTC
1 GTC
5101207 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:5101277 original size:9 final size:9
Alignment explanation
Indices: 5101263--5101316 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
5101253 CCCGATTCAG
5101263 ACCGGTCAA
1 ACCGGTCAA
*
5101272 ACCGGTTCGA
1 ACCGG-TCAA
5101282 ACCGGTCAA
1 ACCGGTCAA
5101291 ACCGGTTCAAA
1 ACCGG-TC-AA
*
5101302 ACTGGTCAA
1 ACCGGTCAA
5101311 ACCGGT
1 ACCGGT
5101317 TTTCCAGCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 20 0.53
10 12 0.32
11 6 0.16
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.17
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:5101310 original size:20 final size:19
Alignment explanation
Indices: 5101247--5101317 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
5101237 AGTCGGGTCG
* * *
5101247 GGTCAACCCGATTCAGACC
1 GGTCAAACCGGTTCAAACC
*
5101266 GGTCAAACCGGTTCGAACC
1 GGTCAAACCGGTTCAAACC
*
5101285 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
5101305 GGTCAAACCGGTT
1 GGTCAAACCGGTT
5101318 TTCCAGCAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 29 0.64
20 16 0.36
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:5104463 original size:2 final size:2
Alignment explanation
Indices: 5104456--5104485 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5104446 ATGGGTGTTA
5104456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5104486 TAAAGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5105312 original size:26 final size:25
Alignment explanation
Indices: 5105249--5105307 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
5105239 AATATATTTT
*
5105249 TATTTTTTGATTAACTTAAAAGAATA
1 TATTTTTTTATTAAC-TAAAAGAATA
*
5105275 TATTTTGTTATTAA-TAAAAGAATA
1 TATTTTTTTATTAACTAAAAGAATA
5105299 -ATTCTTTTT
1 TATT-TTTTT
5105308 TTATTGACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 14 0.48
26 12 0.41
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (25 bp):
TATTTTTTTATTAACTAAAAGAATA
Found at i:5106254 original size:3 final size:3
Alignment explanation
Indices: 5106246--5106293 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
5106236 AATTTTTTCT
* *
5106246 TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5106294 CCCATTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5106254 original size:18 final size:19
Alignment explanation
Indices: 5106231--5106288 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
5106221 AATATAGTAT
5106231 TTATTAATT-TT-TTCTTTA
1 TTATTAATTATTATT-TTTA
5106249 TTATT-ATTATTATTTTTA
1 TTATTAATTATTATTTTTA
*
5106267 TTATT-ATTATTATTATTA
1 TTATTAATTATTATTTTTA
5106285 TTAT
1 TTAT
5106289 CATTACCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
17 3 0.08
18 32 0.86
19 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTATTAATTATTATTTTTA
Found at i:5106374 original size:13 final size:13
Alignment explanation
Indices: 5106358--5106399 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
5106348 CTCATTTTAC
5106358 ATTTTAAATTATT
1 ATTTTAAATTATT
5106371 ATTTTAAATTTATT
1 ATTTTAAA-TTATT
*
5106385 A-TTCAAATTATT
1 ATTTTAAATTATT
5106397 ATT
1 ATT
5106400 ATTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 6 0.23
13 14 0.54
14 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:5108074 original size:2 final size:2
Alignment explanation
Indices: 5108067--5108101 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5108057 AGTGAATCGC
5108067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5108102 ATGAAGTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5113531 original size:28 final size:28
Alignment explanation
Indices: 5113499--5113582 Score: 159
Period size: 28 Copynumber: 3.0 Consensus size: 28
5113489 ATATATTTAT
*
5113499 ATGGTTATATGATTGATGATTCAAGTGA
1 ATGGTTATATGATTGATGATACAAGTGA
5113527 ATGGTTATATGATTGATGATACAAGTGA
1 ATGGTTATATGATTGATGATACAAGTGA
5113555 ATGGTTATATGATTGATGATACAAGTGA
1 ATGGTTATATGATTGATGATACAAGTGA
5113583 GTCACTTTCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (28 bp):
ATGGTTATATGATTGATGATACAAGTGA
Found at i:5122281 original size:2 final size:2
Alignment explanation
Indices: 5122274--5122305 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5122264 ATTCACCGAG
5122274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5122306 GAGATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5123926 original size:30 final size:30
Alignment explanation
Indices: 5123890--5123961 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
5123880 GGGAAGATAA
*
5123890 GAAGATGAGAGGGAAGAGAAGAAACGGAGT
1 GAAGATGAGAGGGAAGAGAAGAAACAGAGT
5123920 GAAGATGAGAGGGAAGAGAAGAAACAGAGT
1 GAAGATGAGAGGGAAGAGAAGAAACAGAGT
5123950 GAAGATGAGAGG
1 GAAGATGAGAGG
5123962 AAAAATCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.47, C:0.03, G:0.43, T:0.07
Consensus pattern (30 bp):
GAAGATGAGAGGGAAGAGAAGAAACAGAGT
Found at i:5128778 original size:10 final size:11
Alignment explanation
Indices: 5128765--5128800 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
5128755 TTGCAAAAGG
5128765 TTATAA-AAAA
1 TTATAATAAAA
5128775 TTATAATAAAA
1 TTATAATAAAA
5128786 TT-TAATAAAA
1 TTATAATAAAA
5128796 -TATAA
1 TTATAA
5128801 ATTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 17 0.71
11 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TTATAATAAAA
Found at i:5129524 original size:20 final size:21
Alignment explanation
Indices: 5129491--5129529 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5129481 ATTACAGGTA
5129491 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
*
5129512 CAAA-ATGATAAAACCGGT
1 CAAATATGACAAAACCGGT
5129530 AAAACGCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:5129882 original size:182 final size:183
Alignment explanation
Indices: 5129458--5130115 Score: 932
Period size: 182 Copynumber: 3.6 Consensus size: 183
5129448 ATACAAATGA
* * * * * * * * *
5129458 AAAATGGATCGCTCCATAGCAATATTACAGGTACAAATATGACAAAACCGGTC-CCAAAATGATA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
5129522 AAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
66 AAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * * *
5129587 CTGAATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGCGTCGATACTTTA-A
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
** * *
5129639 AAAAAATATCGATCCACAACAATATTACAGGTAAAAATATGATAAAACCA-GTCTCAAAAATGAC
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTCAAAAATGAC
*
5129703 AAAACCGG-AAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTT
65 AAAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
5129767 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
130 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * *
5129821 AAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAACAGGTCTAAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *
5129886 AAACCGG-AAAAAGATACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* *
5129950 CTTAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGTGTCGACACTTTATG
131 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* *
5130003 AAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-AAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
5130067 AAGCCGGTAAATAGTTACCGGATATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATA
5130116 AGTACGCGTA
Statistics
Matches: 428, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
181 158 0.37
182 270 0.63
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.26
Consensus pattern (183 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
AAACCGGTAAAAAGTTACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
Found at i:5130527 original size:18 final size:19
Alignment explanation
Indices: 5130504--5130548 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
5130494 TAGTTAATAT
5130504 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
5130522 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
*
5130541 TTTTAGGT
1 TTATAGGT
5130549 TGTATAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:5130834 original size:18 final size:18
Alignment explanation
Indices: 5130799--5130837 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5130789 TTGAAATGAT
5130799 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
5130817 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
5130835 AAT
1 AAT
5130838 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:5131850 original size:22 final size:22
Alignment explanation
Indices: 5131799--5131854 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
5131789 AATGTTTTTG
*
5131799 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
5131822 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
5131844 CTTTTATTATA
1 -TTTTATTATA
5131855 AATGCAGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:5132564 original size:18 final size:18
Alignment explanation
Indices: 5132541--5132588 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
5132531 GAAAAAATTT
5132541 GAAGAAGAGGAGATGGAG
1 GAAGAAGAGGAGATGGAG
**
5132559 GAAGAAGAAAAGATGGAG
1 GAAGAAGAGGAGATGGAG
*
5132577 GAA-ATGAGGAGA
1 GAAGAAGAGGAGA
5132589 AAGGATGTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (18 bp):
GAAGAAGAGGAGATGGAG
Found at i:5133619 original size:14 final size:14
Alignment explanation
Indices: 5133600--5133631 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5133590 CGTGTTGCAA
5133600 CTGTATATGATAGT
1 CTGTATATGATAGT
5133614 CTGTATATGATAGT
1 CTGTATATGATAGT
5133628 CTGT
1 CTGT
5133632 TTCCATCGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.44
Consensus pattern (14 bp):
CTGTATATGATAGT
Found at i:5134657 original size:199 final size:199
Alignment explanation
Indices: 5134317--5134875 Score: 1019
Period size: 199 Copynumber: 2.8 Consensus size: 199
5134307 GGTTTTTGAG
*
5134317 AAAACAAATGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
1 AAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
* *
5134382 CCATAATTATAATGTAATAGGTGAATTATTCATGTAAACGGTCTAAATATACTGGTTTTTGAGAA
66 CCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAA
* *
5134447 AACATGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTTTCCAGAATGTAT
131 AACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTAT
5134512 TTCA
196 TTCA
*
5134516 AAAACAAGTGCCCTAAAAAGTGTTGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
1 AAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
*
5134581 CCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGGA
66 CCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAA
5134646 AACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTAT
131 AACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTAT
5134711 TTCA
196 TTCA
*
5134715 AAAACAAGTGCCCTAAAAAGTGTCGATACATTTGCAACAAGTGTCGATCCCAAAAACATCGAAAA
1 AAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
* *
5134780 TCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATATCGGTTTTTGAGAA
66 CCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAA
*
5134845 AACAGGTGTACAAAAAGTATCGACATAAATA
131 AACAGGTGTACAAAAAGTATCGACACAAATA
5134876 TAAGCGCTAC
Statistics
Matches: 347, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
199 347 1.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (199 bp):
AAAACAAGTGCCCTAAAAAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAA
CCATAATTATAATGTAATAGGTAAATTATTCATGTAAACGGTCTAAATATACCGGTTTTTGAGAA
AACAGGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTAT
TTCA
Found at i:5136072 original size:16 final size:17
Alignment explanation
Indices: 5136034--5136079 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
5136024 TGTTTACGAG
*
5136034 GGAATTGGAATTTGTGAA
1 GGAATTGGAATCTGT-AA
5136052 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
*
5136068 GGAATTAGAATC
1 GGAATTGGAATC
5136080 CAATTCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 12 0.46
18 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.30, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:5136730 original size:27 final size:28
Alignment explanation
Indices: 5136673--5136734 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
5136663 AACCCGACCT
*
5136673 GACCCGAATATCACACTTAAAAAAACTC
1 GACCCGAATATCACACTTAAAAAAACCC
5136701 GACCCGAATATCACACTT-AAAAAACCC
1 GACCCGAATATCACACTTAAAAAAACCC
5136728 GACCCGA
1 GACCCGA
5136735 CCCAAACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.45
28 18 0.55
ACGTcount: A:0.44, C:0.32, G:0.10, T:0.15
Consensus pattern (28 bp):
GACCCGAATATCACACTTAAAAAAACCC
Found at i:5136986 original size:211 final size:213
Alignment explanation
Indices: 5136636--5137131 Score: 687
Period size: 211 Copynumber: 2.3 Consensus size: 213
5136626 TTTTTGGGTT
5136636 GGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCTGACCCGAATATCACACTT--AAAAA---
1 GGTCCGGTTTTTTTCACCCTAAACCCGAA--C--CC-GACCCGAATATCACACTTAAAAAAACCC
5136696 -A---ACTCGACCCGAATATCACACTTAAAAAACCCGACCCGACCCAAACAAAATAAAGTTTCAT
61 GACCGACTCGACCCGAATATCACACTTAAAAAA--C-ACCCGACCCAAACAAAATAAAGTTTCAT
* *
5136757 CCGACCCAACCCGAAATAATAAAAAA-TATTTTTATTTAATAGGAACAGTGACTTAATCCGACCC
123 CCGACCCAACCCGAAATAATAAAAAATTATTTTTATTTAATA-AAAAAGTGACTTAATCCGACCC
5136821 GACC-CGAATTATATATATTTTCGAGTC
187 GACCTC-AATTATATATATTTTCGAGTC
5136848 GGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGACCG
1 GGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGACCG
* **
5136913 ACTTGACCCGAATATCACACTT-AAAAA-ACCCGACCCAAACAAAATAAAGTTTCATCCGACCTG
66 ACTCGACCCGAATATCACACTTAAAAAACACCCGACCCAAACAAAATAAAGTTTCATCCGACCCA
* *
5136976 ACCTGAAATAATAAAAAATTATTTTTATTTTATAAAAAAGTGACTTAATCCGACCCGACCTCAAT
131 ACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAAAGTGACTTAATCCGACCCGACCTCAAT
*
5137041 TATATATATTTTCGGGTC
196 TATATATATTTTCGAGTC
* * *
5137059 GGTTCAG-TTTTTTCACCCTAAACCCAAACCCGACCCGAATATCACACTTAAAAAAACCCGATCC
1 GGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGA-CC
*
5137123 GACCCGACC
65 GACTCGACC
5137132 AAAATAAAGT
Statistics
Matches: 259, Mismatches: 13, Indels: 25
0.87 0.04 0.08
Matches are distributed among these distances:
207 18 0.07
208 2 0.01
209 5 0.02
210 54 0.21
211 109 0.42
212 44 0.17
213 1 0.00
215 5 0.02
216 21 0.08
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.24
Consensus pattern (213 bp):
GGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGAATATCACACTTAAAAAAACCCGACCG
ACTCGACCCGAATATCACACTTAAAAAACACCCGACCCAAACAAAATAAAGTTTCATCCGACCCA
ACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAAAGTGACTTAATCCGACCCGACCTCAAT
TATATATATTTTCGAGTC
Found at i:5137621 original size:14 final size:14
Alignment explanation
Indices: 5137602--5137635 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
5137592 TTGATTATGC
5137602 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
5137616 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
5137630 TTTTTT
1 TTTTTT
5137636 CTCTAAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:5138883 original size:3 final size:3
Alignment explanation
Indices: 5138875--5138908 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
5138865 CGAACCATCC
*
5138875 CTT CTT CTT CTT CTT CTT CTT CTT CGT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
5138909 ATATTCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:5140374 original size:20 final size:21
Alignment explanation
Indices: 5140341--5140385 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
5140331 TAATTCTAAC
5140341 AAATATATTTTATA-CTATTA
1 AAATATATTTTATATCTATTA
*
5140361 AAAT-TATTTGTATATCTGTTA
1 AAATATATTT-TATATCTATTA
5140382 AAAT
1 AAAT
5140386 GTAATTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
AAATATATTTTATATCTATTA
Found at i:5141730 original size:70 final size:70
Alignment explanation
Indices: 5141617--5141757 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
5141607 CTTTATTGAG
5141617 ATAACCCACAACCTCTTGGGGTTGTCCTGCACTCGGAAGAATGACTAGAAAAAAGAATAAATATA
1 ATAACCCACAACCTCTTGGGGTTGTCCTGCACTCGGAAGAATGACTAGAAAAAAGAATAAATATA
5141682 GTGAT
66 GTGAT
5141687 ATAACCCACAACCTCTTGGGGTTGTCCTGCACTCGGAAGAATGACTAGAAAAAAGAATAAATATA
1 ATAACCCACAACCTCTTGGGGTTGTCCTGCACTCGGAAGAATGACTAGAAAAAAGAATAAATATA
5141752 GTGAT
66 GTGAT
5141757 A
1 A
5141758 ATTTGATTAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (70 bp):
ATAACCCACAACCTCTTGGGGTTGTCCTGCACTCGGAAGAATGACTAGAAAAAAGAATAAATATA
GTGAT
Found at i:5142247 original size:7 final size:7
Alignment explanation
Indices: 5142235--5142260 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5142225 GAAAAATAAA
5142235 TAAATTC
1 TAAATTC
5142242 TAAATTC
1 TAAATTC
5142249 TAAATTC
1 TAAATTC
5142256 TAAAT
1 TAAAT
5142261 AAAAGAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATTC
Found at i:5143203 original size:183 final size:184
Alignment explanation
Indices: 5142836--5143203 Score: 605
Period size: 184 Copynumber: 2.0 Consensus size: 184
5142826 GTTTTTAATT
* *
5142836 AAAAAAAGTTTATAATTAGTTTAAATAATATATAATTATAAAATAAAAATTTCAGATAAATTTTT
1 AAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGATAAATTTTT
* **
5142901 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGATTTTAAA
66 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATTAAATTTTAAA
** **
5142966 TGGTTTGGGCTTAACCTATATGTTATATATAATATATTTAATATTTTTAATTTA
131 TGGTTTGGGCGGAACCTATATGTTATATATAATATATTTAATATTTAAAATTTA
* *
5143020 AAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTT-ATATAATTTTT
1 AAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGATAAATTTT
5143084 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATTAAATTTTAA
65 TTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATTAAATTTTAA
*
5143149 ATGGTTTGGGCGGAGCC-ATATGTTATATATAATATATTTAATATTTAAAATTTA
130 ATGGTTTGGGCGGAACCTATATGTTATATATAATATATTTAATATTTAAAATTTA
5143203 A
1 A
5143204 TTTAGATTAA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
183 36 0.21
184 91 0.53
185 44 0.26
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (184 bp):
AAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAGATAAATTTTT
TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTAGATCTTAAATTATTAATTAAATTTTAAA
TGGTTTGGGCGGAACCTATATGTTATATATAATATATTTAATATTTAAAATTTA
Found at i:5146778 original size:29 final size:30
Alignment explanation
Indices: 5146745--5146801 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
5146735 TATGTCTTTG
5146745 GTTCTAGTTTAGTGTTGAACG-TTCATTTC
1 GTTCTAGTTTAGTGTTGAACGTTTCATTTC
* *
5146774 GTTCTAGTTTGGTGTTTAACGTTTCATT
1 GTTCTAGTTTAGTGTTGAACGTTTCATT
5146802 ATGTTATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.16, C:0.12, G:0.21, T:0.51
Consensus pattern (30 bp):
GTTCTAGTTTAGTGTTGAACGTTTCATTTC
Found at i:5150361 original size:69 final size:70
Alignment explanation
Indices: 5150286--5150419 Score: 207
Period size: 69 Copynumber: 1.9 Consensus size: 70
5150276 TACTTCATTC
* *
5150286 AAAAAATTACTAATTTATTAATAGCCAATAAAAAATAATAAATTACTAATATATAATTTT-TAAT
1 AAAAAATTAATAATTTATTAATAGACAATAAAAAATAATAAATTACTAATATATAATTTTCTAAT
5150350 AGATA
66 AGATA
* * * *
5150355 AAAAAATTAATAATTTATTAATAGATAATAAAAAATGATAAATTACTATTCTATAATTTTCTAAT
1 AAAAAATTAATAATTTATTAATAGACAATAAAAAATAATAAATTACTAATATATAATTTTCTAAT
5150420 GAAAAATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 54 0.93
70 4 0.07
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (70 bp):
AAAAAATTAATAATTTATTAATAGACAATAAAAAATAATAAATTACTAATATATAATTTTCTAAT
AGATA
Found at i:5150366 original size:41 final size:43
Alignment explanation
Indices: 5150296--5150383 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 43
5150286 AAAAAATTAC
* *
5150296 TAATTTATTAATAGCCAATAAAAAATAATAAATTACTAATATA
1 TAATTTATTAATAGACAATAAAAAATAATAAATTACTAATAGA
* * * *
5150339 TAATTT-TTAATAGATAA-AAAAATTAATAATTTATTAATAGA
1 TAATTTATTAATAGACAATAAAAAATAATAAATTACTAATAGA
5150380 TAAT
1 TAAT
5150384 AAAAAATGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 24 0.62
42 9 0.23
43 6 0.15
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (43 bp):
TAATTTATTAATAGACAATAAAAAATAATAAATTACTAATAGA
Found at i:5157697 original size:12 final size:13
Alignment explanation
Indices: 5157671--5157711 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
5157661 TATTATGTGT
5157671 ATATGTGATATGA
1 ATATGTGATATGA
5157684 ATATGTGA-ATGA
1 ATATGTGATATGA
* *
5157696 ATA-ATAATATGA
1 ATATGTGATATGA
5157708 ATAT
1 ATAT
5157712 TACTGCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 14 0.58
13 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (13 bp):
ATATGTGATATGA
Found at i:5157937 original size:23 final size:23
Alignment explanation
Indices: 5157904--5157948 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5157894 GGACATCTTA
* *
5157904 GGCACTTCGGTGCATTTCTACGC
1 GGCACTACGGTGCAATTCTACGC
5157927 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTCTACG
5157949 TAGCACTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.29, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:5157954 original size:23 final size:23
Alignment explanation
Indices: 5157905--5157955 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
5157895 GACATCTTAG
* * *
5157905 GCACTTCGGTGCATTTCTACGCG
1 GCACTACGGTGCAATTCTACGCA
*
5157928 GCACTACGGTGCAATTCTACGTA
1 GCACTACGGTGCAATTCTACGCA
5157951 GCACT
1 GCACT
5157956 TCGATACATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (23 bp):
GCACTACGGTGCAATTCTACGCA
Found at i:5163502 original size:14 final size:14
Alignment explanation
Indices: 5163464--5163508 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
5163454 CTAATTATTT
5163464 TACAATAAAATAATA
1 TACAATAAAA-AATA
*
5163479 TTAAAATAAAAAATA
1 -TACAATAAAAAATA
*
5163494 TACAATAAAGAATA
1 TACAATAAAAAATA
5163508 T
1 T
5163509 TATTTTAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 13 0.50
15 4 0.15
16 9 0.35
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (14 bp):
TACAATAAAAAATA
Found at i:5164003 original size:15 final size:14
Alignment explanation
Indices: 5163948--5164005 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
5163938 TTCTTCTTAT
* *
5163948 TATAAAATTATCAC
1 TATAAAATTATTAA
*
5163962 TATAAAATTATTGA
1 TATAAAATTATTAA
*
5163976 TACAAAA-TA-TAA
1 TATAAAATTATTAA
5163988 TGATAAAATTATTAA
1 T-ATAAAATTATTAA
5164003 TAT
1 TAT
5164006 TAATATTAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 21 0.60
15 4 0.11
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (14 bp):
TATAAAATTATTAA
Found at i:5169416 original size:222 final size:220
Alignment explanation
Indices: 5169008--5169476 Score: 770
Period size: 222 Copynumber: 2.1 Consensus size: 220
5168998 GTAAAGTATC
* *
5169008 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTATTATTATCTTTGGTT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATTATCTTTGGTT
5169073 AATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATAAAATAATTTGTGTG
66 AATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATAAAATAATTTGTGTG
*
5169138 TAAATGAAATTATTAAATTATATTGTAGGTGGAAAACATGAAACACTTTTAAAAAAAATTGAAAC
131 TAAATGAAATTATTAAATTATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
5169203 ATAAATTACATAACTTTAAAAAAAGTA
196 ATAAATTACAT-ACTTT-AAAAAAGTA
5169230 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTAGAAAACATATTTATTATTATCTTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATA-TTATTATTATCTTTGG
* *
5169295 TTAATA-TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTT
64 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA-AATAAAATAA-TTTG
5169359 TGTGTAAATGAAATTATT-AATTAATATTGTAGGTGG-AAA-ATGAAA-ACTATTAAAAAAAATT
127 TGTGTAAATGAAATTATTAAATT-ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
5169420 GAAACATAAATTACATACTTTAAAAAAGTA
191 GAAACATAAATTACATACTTTAAAAAAGTA
5169450 TAT-ATCATTTTATAAAAGTGTCCATAC
1 TATCAT--TTTTATAAAAGTGTCCATAC
5169477 GTATAAAAGT
Statistics
Matches: 235, Mismatches: 5, Indels: 15
0.92 0.02 0.06
Matches are distributed among these distances:
219 2 0.01
220 12 0.05
221 25 0.11
222 68 0.29
223 56 0.24
224 38 0.16
225 34 0.14
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (220 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTATTATTATCTTTGGTT
AATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAATAAAATAATTTGTGTG
TAAATGAAATTATTAAATTATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAAC
ATAAATTACATACTTTAAAAAAGTA
Found at i:5169548 original size:20 final size:19
Alignment explanation
Indices: 5169525--5169571 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
5169515 CGATATACCA
5169525 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
5169545 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
5169565 GGTAAAA
1 GGTAAAA
5169572 CGTTACCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:5169723 original size:20 final size:19
Alignment explanation
Indices: 5169695--5169750 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5169685 GATCCACAAC
*
5169695 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
* *
5169715 GATAAAACATGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
5169735 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
5169751 TGATACCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:5171986 original size:21 final size:21
Alignment explanation
Indices: 5171962--5172005 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
5171952 AAGACAATCA
5171962 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
5171983 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
5172004 AG
1 AG
5172006 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:5173893 original size:19 final size:19
Alignment explanation
Indices: 5173869--5173917 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
5173859 AATGTAGGGT
5173869 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5173888 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
5173907 TATTTTTGTAT
1 TAATTTTGTAT
5173918 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5174737 original size:198 final size:199
Alignment explanation
Indices: 5174036--5175003 Score: 1770
Period size: 199 Copynumber: 4.9 Consensus size: 199
5174026 CAATATGGCC
*
5174036 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
5174100 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
5174165 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
5174230 TGGAA
195 TGGAA
*
5174235 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
5174300 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
5174365 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
5174430 TGGAA
195 TGGAA
*
5174435 AATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
5174500 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
5174565 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTAT-TTCCAGAATGAA
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTT-TGTTCCAGAATGAA
*
5174629 TGAAA
195 TGGAA
5174634 AACAGGGTGC-ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
**
5174698 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAAAATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
5174763 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
5174828 GGAA
196 GGAA
*
5174832 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
5174897 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
5174961 AATATGTCTAAATAA--TGTCGACACT-TTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATA
5175004 CTAATTTAAA
Statistics
Matches: 752, Mismatches: 13, Indels: 12
0.97 0.02 0.02
Matches are distributed among these distances:
195 18 0.02
196 10 0.01
197 1 0.00
198 233 0.31
199 267 0.36
200 223 0.30
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:5176469 original size:12 final size:12
Alignment explanation
Indices: 5176452--5176482 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
5176442 AGCGGTGAGA
5176452 GATGAAGCTGAC
1 GATGAAGCTGAC
5176464 GATGAAGCTGAC
1 GATGAAGCTGAC
5176476 GATGAAG
1 GATGAAG
5176483 ATGATGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.35, T:0.16
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:5176497 original size:3 final size:3
Alignment explanation
Indices: 5176476--5176517 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
5176466 TGAAGCTGAC
* * *
5176476 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5176518 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:5176517 original size:12 final size:12
Alignment explanation
Indices: 5176452--5176516 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
5176442 AGCGGTGAGA
*
5176452 GATGAAGCTGAC
1 GATGAAGATGAC
*
5176464 GATGAAGCTGAC
1 GATGAAGATGAC
*
5176476 GATGAAGATGAT
1 GATGAAGATGAC
* * *
5176488 GACGATGATGAT
1 GATGAAGATGAC
* *
5176500 GATGATGATGAA
1 GATGAAGATGAC
5176512 GATGA
1 GATGA
5176517 TCCAAACAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:5177734 original size:16 final size:16
Alignment explanation
Indices: 5177702--5177735 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5177692 TATCCACAAC
* *
5177702 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
5177718 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
5177734 AA
1 AA
5177736 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:5178466 original size:179 final size:179
Alignment explanation
Indices: 5178119--5178594 Score: 736
Period size: 179 Copynumber: 2.7 Consensus size: 179
5178109 ATGCTATCGG
5178119 TAAATATACCGGTTTTATGCGCGAATAGGTCTACGAA-C--TATCGACACTTTT-TAATTGTGTC
1 TAAATATACCGGTTTTATGCGCGAATAGGTCTAC-AACCTATATCGACACTTTTAT-ATTGTGTC
*
5178180 GGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACATTTAC
64 GGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACATTTAC
* *
5178245 ACATTGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
128 ACATCGGAACCCAGAATTATAATGTAATA-ATAATTTTGTAATATAACCGGTA
*
5178298 TAAATATACCGGTTTTATGCGTGAATAGGTCTACAACCTATATCGACACTTTTAATATTGTGTCG
1 TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTT-ATATTGTGTCG
5178363 GTACTTTA-GTCCAGATTGGAA-AAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACA
65 GTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTTACA
*
5178426 CATCGGAAACCCAGATTTATAATGTAAT-ATAATTTTGTAATATAACCGGTA
129 CATCGG-AACCCAGAATTATAATGTAATAATAATTTTGTAATATAACCGGTA
* * * *
5178477 TAAATATACCGGTTTTATGAGCGAATAGGTTTACAACCTATATCGACACTTCTATATTGTGTCGA
1 TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTATATTGTGTCGG
5178542 TACTTTATGTCCAGATTGGAAGAAAAA--TGTCGATACCATTTAAAAAAGTGTCG
66 TACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
5178595 GTAATTTTAA
Statistics
Matches: 277, Mismatches: 10, Indels: 21
0.90 0.03 0.07
Matches are distributed among these distances:
178 44 0.16
179 120 0.43
180 47 0.17
181 48 0.17
182 17 0.06
183 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (179 bp):
TAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTATATTGTGTCGG
TACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACATTTACACA
TCGGAACCCAGAATTATAATGTAATAATAATTTTGTAATATAACCGGTA
Found at i:5181076 original size:25 final size:25
Alignment explanation
Indices: 5181042--5181106 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
5181032 TTATCATTAA
5181042 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
5181067 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
5181092 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
5181107 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:5181469 original size:23 final size:23
Alignment explanation
Indices: 5181443--5181515 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
5181433 AATAGGTAAC
*
5181443 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
5181466 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5181489 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
5181512 ATAT
1 ATAT
5181516 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5181816 original size:23 final size:24
Alignment explanation
Indices: 5181770--5181821 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
5181760 ACAACAAATC
* *
5181770 AATTAAACATTGTTGTGGGTACAT
1 AATTGAACATTGTTGAGGGTACAT
5181794 AATTGAACATTGTT-AGGGTACAT
1 AATTGAACATTGTTGAGGGTACAT
*
5181817 TATTG
1 AATTG
5181822 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (24 bp):
AATTGAACATTGTTGAGGGTACAT
Found at i:5182220 original size:18 final size:18
Alignment explanation
Indices: 5182199--5182235 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5182189 GTAATTGGAG
5182199 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
5182217 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
5182235 T
1 T
5182236 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:5182243 original size:24 final size:24
Alignment explanation
Indices: 5182191--5182237 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5182181 TTTCATATGT
* *
5182191 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
5182215 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
5182238 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:5182530 original size:39 final size:39
Alignment explanation
Indices: 5182487--5182573 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
5182477 TCCGATGCTC
* *
5182487 ATCAAAATTCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
5182526 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
5182565 ATCAAAATC
1 ATCAAAATC
5182574 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:5183037 original size:22 final size:23
Alignment explanation
Indices: 5182988--5183045 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
5182978 ATAGGTAAAA
*
5182988 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
5183011 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
5183033 ATATAATGTAATA
1 ATATAATGTAATA
5183046 TGTAAACTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5183432 original size:23 final size:23
Alignment explanation
Indices: 5183401--5183459 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
5183391 ATAGGTAAAA
*
5183401 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5183424 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
5183447 ATATAATGTAATA
1 ATATAATGTAATA
5183460 TGTAAAGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Done.