Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 91
Found at i:7737270 original size:31 final size:30
Alignment explanation
Indices: 7737232--7737301 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 30
7737222 TCGAGGACCA
* *
7737232 TATTGCAACTGGACTAAATGTTGGGGGATTG
1 TATTGCAAC-GAACTAAATGTTGGGAGATTG
7737263 TATTGCAAACGAACTAAATGTTGGGAGATTG
1 TATTGC-AACGAACTAAATGTTGGGAGATTG
7737294 TATTGCAA
1 TATTGCAA
7737302 GTTTTAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.06
31 31 0.86
32 3 0.08
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (30 bp):
TATTGCAACGAACTAAATGTTGGGAGATTG
Found at i:7741867 original size:23 final size:22
Alignment explanation
Indices: 7741841--7741894 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
7741831 GCAAAAGGGA
*
7741841 AAAGAGAAAAAAAGAAAATAAAG
1 AAAGAGAAAAAAAG-AAAGAAAG
*
7741864 AAAGAAAAAAAAAGAAAGAAAG
1 AAAGAGAAAAAAAGAAAGAAAG
*
7741886 AAAGGGAAA
1 AAAGAGAAA
7741895 GAATGGAGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (22 bp):
AAAGAGAAAAAAAGAAAGAAAG
Found at i:7741897 original size:14 final size:14
Alignment explanation
Indices: 7741847--7741884 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7741837 GGGAAAAGAG
7741847 AAAA-AAAG-AAAA
1 AAAAGAAAGAAAAA
*
7741859 TAAAGAAAGAAAAA
1 AAAAGAAAGAAAAA
7741873 AAAAGAAAGAAA
1 AAAAGAAAGAAA
7741885 GAAAGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 3 0.14
13 4 0.18
14 15 0.68
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (14 bp):
AAAAGAAAGAAAAA
Found at i:7741897 original size:18 final size:18
Alignment explanation
Indices: 7741845--7741888 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
7741835 AAGGGAAAAG
*
7741845 AGAAA-AAAAGAAAATAA
1 AGAAAGAAAAGAAAAGAA
*
7741862 AGAAAGAAAAAAAAAGAA
1 AGAAAGAAAAGAAAAGAA
7741880 AGAAAGAAA
1 AGAAAGAAA
7741889 GGGAAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AGAAAGAAAAGAAAAGAA
Found at i:7742833 original size:19 final size:19
Alignment explanation
Indices: 7742804--7742888 Score: 59
Period size: 19 Copynumber: 4.4 Consensus size: 19
7742794 TTAATAAATC
7742804 AAAAAACATAAAAATCAAAG
1 AAAAAA-ATAAAAATCAAAG
* *
7742824 AAAAAAAT-AAAATAGAAAT
1 AAAAAAATAAAAAT-CAAAG
* *
7742843 AAAAAATAGAAAAAT-AAAT
1 AAAAAA-ATAAAAATCAAAG
*
7742862 AAATAAAA-ATAAATCAAAG
1 AAA-AAAATAAAAATCAAAG
7742881 ATAAAAAA
1 A-AAAAAA
7742889 AGATAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
18 10 0.19
19 27 0.50
20 12 0.22
21 5 0.09
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAAAATCAAAG
Found at i:7742846 original size:29 final size:28
Alignment explanation
Indices: 7742814--7742902 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
7742804 AAAAAACATA
*
7742814 AAAATCAAAGAAAAAAATAAAATAGAAAT
1 AAAATCAAAGAAAAAAA-AAAATAAAAAT
7742843 AAAA--AATAGAAAAATAAATAAATAAAAAT
1 AAAATCAA-AGAAAAA-AAA-AAATAAAAAT
* *
7742872 -AAATCAAAGATAAAAAAAGATAAAAAT
1 AAAATCAAAGAAAAAAAAAAATAAAAAT
7742899 AAAA
1 AAAA
7742903 AATAAATAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
27 11 0.22
28 17 0.33
29 21 0.41
30 2 0.04
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.15
Consensus pattern (28 bp):
AAAATCAAAGAAAAAAAAAAATAAAAAT
Found at i:7742848 original size:40 final size:37
Alignment explanation
Indices: 7742799--7742912 Score: 97
Period size: 39 Copynumber: 2.9 Consensus size: 37
7742789 AATGTTTAAT
7742799 AAATCAAAAAACATAAAAATCAAAGAAAAAAATAAAAT-A
1 AAAT-AAAAAACATAAAAAT-AAA-AAAAAAATAAAATCA
* *
7742838 GAAATAAAAAATAGAAAAATAAATAAATAAAA-ATAAATCA
1 -AAATAAAAAACATAAAAATAAA-AAA-AAAATA-AAATCA
* *
7742878 AAGATAAAAAAAGATAAAAATAAAAAATAAATAAA
1 AA-AT-AAAAAACATAAAAATAAAAAAAAAATAAA
7742913 CCAAAAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
38 7 0.11
39 28 0.45
40 11 0.18
41 16 0.26
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (37 bp):
AAATAAAAAACATAAAAATAAAAAAAAAATAAAATCA
Found at i:7742869 original size:23 final size:22
Alignment explanation
Indices: 7742825--7742926 Score: 80
Period size: 23 Copynumber: 4.2 Consensus size: 22
7742815 AAATCAAAGA
7742825 AAAAAATAAAATAGAAATAAAAAAT
1 AAAAAAT-AAAT--AAATAAAAAAT
7742850 AGAAAAATAAATAAAT-AAAAAT
1 A-AAAAATAAATAAATAAAAAAT
* *
7742872 AAATCAAAGATAAAAAAAGATAAAAAT
1 -AA--AAA-ATAAATAAATA-AAAAAT
*
7742899 AAAAAATAAATAAACCAAAAAAT
1 AAAAAATAAATAAA-TAAAAAAT
7742922 AAAAA
1 AAAAA
7742927 GTTAAATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
22 7 0.11
23 24 0.37
24 7 0.11
25 13 0.20
26 8 0.12
27 6 0.09
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAAAATAAATAAATAAAAAAT
Found at i:7742924 original size:39 final size:39
Alignment explanation
Indices: 7742799--7742926 Score: 104
Period size: 40 Copynumber: 3.2 Consensus size: 39
7742789 AATGTTTAAT
* * * *
7742799 AAATCAAAAAACATAAAAATCAAAGAAAAAAATAAA-ATAG
1 AAATAAAAAAAGATAAAAAT-AAAGAAATAAATAAACA-AA
*
7742839 AAATAAAAAATAG--AAAAATAAATAAATAAAAATAAATC-AA
1 AAATAAAAAA-AGATAAAAATAAAGAAAT--AAATAAA-CAAA
*
7742879 AGATAAAAAAAGATAAAAATAAA-AAATAAATAAACCAAA
1 AAATAAAAAAAGATAAAAATAAAGAAATAAATAAA-CAAA
7742918 AAATAAAAA
1 AAATAAAAA
7742927 GTTAAATTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
38 14 0.19
39 18 0.25
40 30 0.42
41 10 0.14
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (39 bp):
AAATAAAAAAAGATAAAAATAAAGAAATAAATAAACAAA
Found at i:7742925 original size:56 final size:57
Alignment explanation
Indices: 7742815--7742926 Score: 149
Period size: 56 Copynumber: 2.0 Consensus size: 57
7742805 AAAAACATAA
* *
7742815 AAATCAAAGAAAAAAATAAAATAGAAATAAAAAATAGAAAAATAAATAAATAAAAAT
1 AAATCAAAGAAAAAAATAAAATAAAAATAAAAAATAGAAAAACAAATAAATAAAAAT
* *
7742872 AAATCAAAGATAAAAA-AAGATAAAAATAAAAAATA-AATAAACCAAA-AAATAAAAA
1 AAATCAAAGAAAAAAATAAAATAAAAATAAAAAATAGAA-AAA-CAAATAAATAAAAA
7742927 GTTAAATTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
55 2 0.04
56 29 0.59
57 18 0.37
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (57 bp):
AAATCAAAGAAAAAAATAAAATAAAAATAAAAAATAGAAAAACAAATAAATAAAAAT
Found at i:7744149 original size:37 final size:36
Alignment explanation
Indices: 7744082--7744433 Score: 165
Period size: 37 Copynumber: 9.5 Consensus size: 36
7744072 ATAATATACG
* *
7744082 ATATATATTTTCAAAAATATTTCCCCAAAACCATATAAT
1 ATATATATTTTCAAAAATATTT---TAAAACTATATAAT
7744121 ATATATATTTTCAAATAATATTTTAAAACTATATATTAT
1 ATATATATTTTCAAA-AATATTTTAAAACTATATA--AT
* * *
7744160 ATATATATTTT-AAAAATGTTTTCAAAATTATATATT
1 ATATATATTTTCAAAAATATTTT-AAAACTATATAAT
* * *
7744196 ATAT-TGTTTTCAAAACGT-TTTAAAAACTATATATTAT
1 ATATATATTTTCAAAA-ATATTTTAAAACTATATA--AT
* * *
7744233 ATATATATATTTC-AAAATGTTTTTAAAAACCATATATT
1 ATATATAT-TTTCAAAAAT-ATTTT-AAAACTATATAAT
* **
7744271 ATATATATATTT--AAAATGTTTTTTAA--A-A-AA-
1 ATATATAT-TTTCAAAAATATTTTAAAACTATATAAT
** * * * **
7744301 CCATATATTGT-ATAAGT-TTACAAAAACTATATAAT
1 ATATATATTTTCAAAAATATT-TTAAAACTATATAAT
*
7744336 ATATACATTTTCAAAAAATAGTTTTCAAAAACTATATATTATAT
1 ATATATATTTTC-AAAAATA-TTTT--AAAAC--TATA-TA-AT
* *
7744380 ATATATATATTTC-AAAATGTTTTCAAAACTATATATT
1 ATATATAT-TTTCAAAAATATTTT-AAAACTATATAAT
7744417 ATATATATTTTCAAAAA
1 ATATATATTTTCAAAAA
7744434 CTGATTTTTA
Statistics
Matches: 241, Mismatches: 40, Indels: 66
0.69 0.12 0.19
Matches are distributed among these distances:
29 4 0.02
30 11 0.05
31 1 0.00
32 2 0.01
33 2 0.01
34 2 0.01
35 24 0.10
36 20 0.08
37 46 0.19
38 33 0.14
39 41 0.17
40 22 0.09
41 5 0.02
42 8 0.03
43 7 0.03
44 9 0.04
45 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.44
Consensus pattern (36 bp):
ATATATATTTTCAAAAATATTTTAAAACTATATAAT
Found at i:7744154 original size:13 final size:12
Alignment explanation
Indices: 7744123--7744192 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 12
7744113 CATATAATAT
*
7744123 ATATATTTTCAA
1 ATATATTTTAAA
7744135 ATAATATTTTAAA
1 AT-ATATTTTAAA
* *
7744148 ACTATATATTATAT
1 A-TATATTTTA-AA
7744162 ATATATTTTAAA
1 ATATATTTTAAA
*
7744174 A-ATGTTTTCAAA
1 ATATATTTT-AAA
7744186 ATTATAT
1 A-TATAT
7744193 ATTATATTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.13
12 8 0.18
13 25 0.56
14 6 0.13
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:7744162 original size:39 final size:38
Alignment explanation
Indices: 7744082--7744282 Score: 184
Period size: 39 Copynumber: 5.3 Consensus size: 38
7744072 ATAATATACG
* *
7744082 ATATATATTTTCAAAAATATTTCCCCAAAACCATATA--AT
1 ATATATATTTTCAAAAATATTT---TAAAACTATATATTAT
7744121 ATATATATTTTCAAATAATATTTTAAAACTATATATTAT
1 ATATATATTTTCAAA-AATATTTTAAAACTATATATTAT
* *
7744160 ATATATATTTT-AAAAATGTTTTCAAAATTATATA-T-T
1 ATATATATTTTCAAAAATATTTT-AAAACTATATATTAT
* * *
7744196 ATAT-TGTTTTCAAAACGT-TTTAAAAACTATATATTAT
1 ATATATATTTTCAAAA-ATATTTTAAAACTATATATTAT
* *
7744233 ATATATATATTTC-AAAATGTTTTTAAAAACCATATATTAT
1 ATATATAT-TTTCAAAAAT-ATTTT-AAAACTATATATTAT
7744273 ATATATATTT
1 ATATATATTT
7744283 AAAATGTTTT
Statistics
Matches: 137, Mismatches: 12, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
35 15 0.11
36 13 0.09
37 25 0.18
38 18 0.13
39 37 0.27
40 29 0.21
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (38 bp):
ATATATATTTTCAAAAATATTTTAAAACTATATATTAT
Found at i:7744257 original size:40 final size:39
Alignment explanation
Indices: 7744108--7744314 Score: 177
Period size: 37 Copynumber: 5.4 Consensus size: 39
7744098 ATATTTCCCC
* *
7744108 AAAACCATATA-ATATATATAT-TTTCAAATAAT-ATTTT-
1 AAAACCATATATTTATATATATATTTC-AA-AATGTTTTTA
* * *
7744145 AAAACTATATA-TTATATATATATTTTAAAAATG-TTTTC
1 AAAACCATATATTTATATATATA-TTTCAAAATGTTTTTA
** * *
7744183 AAAATTATATA-TTATAT-TGT-TTTCAAAACG-TTTTA
1 AAAACCATATATTTATATATATATTTCAAAATGTTTTTA
*
7744218 AAAACTATATATTATATATATATATTTCAAAATGTTTTTA
1 AAAACCATATATT-TATATATATATTTCAAAATGTTTTTA
7744258 AAAACCATATA-TTATATATATATTT-AAAATGTTTTTTAA
1 AAAACCATATATTTATATATATATTTCAAAATG-TTTTT-A
7744297 AAAACCATATATTGTATA
1 AAAACCATATATT-TATA
7744315 AGTTTACAAA
Statistics
Matches: 145, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
35 22 0.15
36 1 0.01
37 39 0.27
38 38 0.26
39 25 0.17
40 16 0.11
41 4 0.03
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (39 bp):
AAAACCATATATTTATATATATATTTCAAAATGTTTTTA
Found at i:7744340 original size:26 final size:25
Alignment explanation
Indices: 7744292--7744340 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
7744282 TAAAATGTTT
* *
7744292 TTTAAAAAACCATATATTGTATAAG
1 TTTAAAAAACCATATAATATATAAG
*
7744317 TTTACAAAAACTATATAATATATA
1 TTTA-AAAAACCATATAATATATA
7744341 CATTTTCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (25 bp):
TTTAAAAAACCATATAATATATAAG
Found at i:7744904 original size:21 final size:21
Alignment explanation
Indices: 7744880--7744920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7744870 ATTACTTTGG
7744880 GGTTGCTCCCAATTATCTCGA
1 GGTTGCTCCCAATTATCTCGA
* *
7744901 GGTTGTTCCCGATTATCTCG
1 GGTTGCTCCCAATTATCTCG
7744921 GATGATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (21 bp):
GGTTGCTCCCAATTATCTCGA
Found at i:7745266 original size:3 final size:3
Alignment explanation
Indices: 7745258--7745288 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
7745248 ACATACAATA
7745258 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7745289 TACTATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7745406 original size:35 final size:35
Alignment explanation
Indices: 7745292--7745440 Score: 140
Period size: 37 Copynumber: 4.1 Consensus size: 35
7745282 AATAATATAC
* * *
7745292 TATATATATATATTTTCAAAAATATTTCCCCAAAACCA
1 TATATATATATATTTTTAAAAATATTT---TAAAACTA
*
7745330 TATAATATATATATTTTCAAATAATATTTTAAAACTA
1 TAT-ATATATATATTTTTAAA-AATATTTTAAAACTA
* *
7745367 TATATTATATATATTTTTAAAAATGTTTTCAAAATTA
1 TATA-TATATATATTTTTAAAAATATTTT-AAAACTA
*
7745404 TATAT-TATATAGTTTTAAAAACT-TTTTAAAAACTA
1 TATATATATATATTTTTAAAAA-TATTTT-AAAACTA
7745439 TA
1 TA
7745441 ATGTATAAAT
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
35 27 0.28
36 10 0.10
37 34 0.35
38 3 0.03
39 17 0.17
40 7 0.07
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (35 bp):
TATATATATATATTTTTAAAAATATTTTAAAACTA
Found at i:7745466 original size:15 final size:16
Alignment explanation
Indices: 7745446--7745475 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7745436 CTATAATGTA
7745446 TAAATA-AATTGATTT
1 TAAATATAATTGATTT
7745461 TAAATATAATTGATT
1 TAAATATAATTGATT
7745476 ATTTATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (16 bp):
TAAATATAATTGATTT
Found at i:7748976 original size:41 final size:42
Alignment explanation
Indices: 7748901--7749020 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 42
7748891 TTTATTGTAA
* * * * *
7748901 AAACGCCGCAATAGAGTATAATTTTTGCGGCGTTT-TAGCTC
1 AAACGCCGCAATAGAGTATAATATTAGCGACGTTTATACCAC
*
7748942 AAACGCCGCAATAGAGTGGTAA-ATTAGCGACGTTTATACCAC
1 AAACGCCGCAATAGAGT-ATAATATTAGCGACGTTTATACCAC
** *
7748984 AAACGCCATAATAGAGTATACATA-TAGCGGCGTTTAT
1 AAACGCCGCAATAGAGTATA-ATATTAGCGACGTTTAT
7749021 TCTTCAAACG
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
41 29 0.45
42 35 0.54
43 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
AAACGCCGCAATAGAGTATAATATTAGCGACGTTTATACCAC
Found at i:7748999 original size:42 final size:42
Alignment explanation
Indices: 7748901--7749039 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
7748891 TTTATTGTAA
** * * * * * *
7748901 AAACGCCGCAATAGAGTATAATTTTTGCGGCGTTT-TAGCTC
1 AAACGCCATAATAGAGTATAAATATAGCGACGTTTATACCAC
** *
7748942 AAACGCCGCAATAGAGTGGTAAAT-TAGCGACGTTTATACCAC
1 AAACGCCATAATAGAGT-ATAAATATAGCGACGTTTATACCAC
* * * **
7748984 AAACGCCATAATAGAGTATACATATAGCGGCGTTTATTCTTC
1 AAACGCCATAATAGAGTATAAATATAGCGACGTTTATACCAC
7749026 AAACGCCATAATAG
1 AAACGCCATAATAG
7749040 TGCTAATCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
41 30 0.37
42 51 0.63
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (42 bp):
AAACGCCATAATAGAGTATAAATATAGCGACGTTTATACCAC
Found at i:7749081 original size:41 final size:41
Alignment explanation
Indices: 7749025--7749202 Score: 230
Period size: 41 Copynumber: 4.3 Consensus size: 41
7749015 GTTTATTCTT
* * *
7749025 CAAACGCCATAATAGTGCTAATCAATAATGGCGTTTTTAGA
1 CAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGA
*
7749066 CAAACGTCACAATAGTGTTAATCAATAGTGGCGTTTTTAGA
1 CAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGA
* * * * *
7749107 CAAACGTCGCAATAGAGTTAATCAATAGTGGTGTTTTTTTGA
1 CAAACGCCACAATAGTGTTAATCAATAGTGGCG-TTTTTAGA
* *
7749149 CAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTTGTA
1 CAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAG-A
*
7749191 TAAACGCCACAA
1 CAAACGCCACAA
7749203 AAACATGTGA
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 74 0.62
42 46 0.38
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (41 bp):
CAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGA
Found at i:7749218 original size:83 final size:82
Alignment explanation
Indices: 7749058--7749250 Score: 196
Period size: 83 Copynumber: 2.4 Consensus size: 82
7749048 AATAATGGCG
* * * * * *
7749058 TTTTTAGACAAACGTCACAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGTCGCAATAGA
1 TTTTTTGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGCCACAAAACA
**
7749123 GTTAATCAATAGTGGTGT
66 GTTAAT-AATAGTGGCAT
* * *
7749141 TTTTTTGACAAACGCCATAATAGTGTTAATCAATAGTGGCGTTTTTTGTATAAACGCCACAAAAA
1 TTTTTTGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAG-ACAAACGCCAC-AAAA
*
7749206 CA-TGTGAT-ATAGTGGCAT
64 CAGT-TAATAATAGTGGCAT
* *
7749224 TTTTTT-AAAAACGCCACAA-AATGTTAA
1 TTTTTTGACAAACGCCACAATAGTGTTAA
7749251 ATATATGATC
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
81 7 0.08
82 11 0.12
83 58 0.63
84 9 0.10
85 7 0.08
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (82 bp):
TTTTTTGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGACAAACGCCACAAAACA
GTTAATAATAGTGGCAT
Found at i:7750737 original size:40 final size:42
Alignment explanation
Indices: 7750691--7750784 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
7750681 TTTTTGACAT
* *
7750691 AAACGCCGCAATAGAGTTGT-ATTTAGTGGCGTTTGTT-AAC
1 AAACGCCGCAATAGAGTTATAATTTAGTGGCATTTGTTAAAC
* * *
7750731 AAACGCCACTAA-AGAGTTATAATTTAGTGGCATTTTTTAAAT
1 AAACGCCGC-AATAGAGTTATAATTTAGTGGCATTTGTTAAAC
7750773 AAACGCCGCAAT
1 AAACGCCGCAAT
7750785 TGTTTTCTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
40 15 0.34
41 19 0.43
42 10 0.23
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (42 bp):
AAACGCCGCAATAGAGTTATAATTTAGTGGCATTTGTTAAAC
Found at i:7750799 original size:42 final size:41
Alignment explanation
Indices: 7750753--7751002 Score: 229
Period size: 42 Copynumber: 6.0 Consensus size: 41
7750743 AGAGTTATAA
*
7750753 TTTAGTGGCATTTTTTAAATAAACGCCGCAATTGTTTTCTCC
1 TTTAGTGGCGTTTTTT-AATAAACGCCGCAATTGTTTTCTCC
*
7750795 TTTAGTGGCGTTTTTGTAATAAACGCCACAATTGTTTTCT-C
1 TTTAGTGGCGTTTTT-TAATAAACGCCGCAATTGTTTTCTCC
* *
7750836 TATTAGTGGCGTTTTTGAAATAAACGCCGCAATTATTTTCT-C
1 T-TTAGTGGCGTTTTT-TAATAAACGCCGCAATTGTTTTCTCC
* * * *
7750878 TGTTAGTGGCATTTTCGTAATAAACACCGCAATTGTTTTATCC
1 T-TTAGTGGCGTTTT-TTAATAAACGCCGCAATTGTTTTCTCC
* * * * **
7750921 GTTAGTGACGTTTTCGTAATAAACGTCGCAATAATTTATC-CC
1 TTTAGTGGCGTTTT-TTAATAAACGCCGCAATTGTTT-TCTCC
* * *
7750963 ATT-GTGGCGTTTTTAATATAAACGCCGCCATTGTCTTTCT
1 TTTAGTGGCGTTTTTTA-ATAAACGCCGCAATTGT-TTTCT
7751003 TTTATCAAAT
Statistics
Matches: 172, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
40 1 0.01
41 26 0.15
42 142 0.83
43 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTTAATAAACGCCGCAATTGTTTTCTCC
Found at i:7751002 original size:126 final size:126
Alignment explanation
Indices: 7750754--7750990 Score: 320
Period size: 126 Copynumber: 1.9 Consensus size: 126
7750744 GAGTTATAAT
* * * * * *
7750754 TTAGTGGCATTTTTTAAATAAACGCCGCAATTGTTTTCTCCTTTAGTGGCGTTTTTGTAATAAAC
1 TTAGTGGCATTTTGTAAATAAACACCGCAATTGTTTTATCCGTTAGTGACGTTTTCGTAATAAAC
** *
7750819 GCCACAATTGTTTTCTCTATTAGTGGCGTTTTTGAAATAAACGCCGCAATTATTTTCTCTG
66 GCCACAATAATTTTCTCCATTAGTGGCGTTTTTGAAATAAACGCCGCAATTATTTTCTCTG
7750880 TTAGTGGCATTTTCGT-AATAAACACCGCAATTGTTTTATCCGTTAGTGACGTTTTCGTAATAAA
1 TTAGTGGCATTTT-GTAAATAAACACCGCAATTGTTTTATCCGTTAGTGACGTTTTCGTAATAAA
* *
7750944 CGTCGCAATAATTTATC-CCATT-GTGGCGTTTTT-AATATAAACGCCGC
65 CGCCACAATAATTT-TCTCCATTAGTGGCGTTTTTGAA-ATAAACGCCGC
7750991 CATTGTCTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
124 2 0.02
125 22 0.23
126 70 0.72
127 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.17, T:0.40
Consensus pattern (126 bp):
TTAGTGGCATTTTGTAAATAAACACCGCAATTGTTTTATCCGTTAGTGACGTTTTCGTAATAAAC
GCCACAATAATTTTCTCCATTAGTGGCGTTTTTGAAATAAACGCCGCAATTATTTTCTCTG
Found at i:7754134 original size:23 final size:23
Alignment explanation
Indices: 7754104--7754151 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
7754094 TATGATCTTT
*
7754104 TAATTTAGGAGTGATTAGTTCTA
1 TAATTTAGGAGTGATTAGTTATA
7754127 TAATTTAGGAGTGATTAGTTATA
1 TAATTTAGGAGTGATTAGTTATA
7754150 TA
1 TA
7754152 CTATGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (23 bp):
TAATTTAGGAGTGATTAGTTATA
Found at i:7759708 original size:23 final size:22
Alignment explanation
Indices: 7759637--7759710 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 22
7759627 GCAGCGGAAG
* *
7759637 CAGAAAGATAAGCAACGACAACA
1 CAGAGAGA-AAGCAACGGCAACA
*
7759660 TAGAGAGAAA-CAACGGCAACA
1 CAGAGAGAAAGCAACGGCAACA
*
7759681 TAGAGAG-AAGCAACGGCAACA
1 CAGAGAGAAAGCAACGGCAACA
7759702 CAGAGAGAA
1 CAGAGAGAA
7759711 GCAGCATATC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 2 0.04
21 34 0.76
22 3 0.07
23 6 0.13
ACGTcount: A:0.53, C:0.19, G:0.24, T:0.04
Consensus pattern (22 bp):
CAGAGAGAAAGCAACGGCAACA
Found at i:7759711 original size:21 final size:21
Alignment explanation
Indices: 7759646--7759713 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
7759636 GCAGAAAGAT
*
7759646 AAGCAACGACAACATAGAGAG
1 AAGCAACGGCAACATAGAGAG
*
7759667 AAACAACGGCAACATAGAGAG
1 AAGCAACGGCAACATAGAGAG
*
7759688 AAGCAACGGCAACACAGAGAG
1 AAGCAACGGCAACATAGAGAG
7759709 AAGCA
1 AAGCA
7759714 GCATATCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.03
Consensus pattern (21 bp):
AAGCAACGGCAACATAGAGAG
Found at i:7760444 original size:43 final size:43
Alignment explanation
Indices: 7760244--7760446 Score: 172
Period size: 43 Copynumber: 4.7 Consensus size: 43
7760234 GCGACATTTT
* * * * * ** *
7760244 TGAGAAAAAGGCCTCTAATTCTCAACACTTATTGTGGCGTCTG
1 TGAGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTG
* * * * *
7760287 TGAGAAAAGCGCTGCTAAATCTTAACACTTATTACGGCGTTTG
1 TGAGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTG
* * * * *
7760330 TGATAAAAGCGCCGCTAAATATCAACACCTACTACGACTTTTG
1 TGAGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTG
* * * *
7760373 TGGGAAAAACGCCGCTAAACAACAACACCTATTGCGGCGTTTG
1 TGAGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTG
* ** *
7760416 TAAGAAAAATACTGCTAAATATCAACACCTA
1 TGAGAAAAACGCCGCTAAATATCAACACCTA
7760447 ACAAACGCCG
Statistics
Matches: 127, Mismatches: 33, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 127 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (43 bp):
TGAGAAAAACGCCGCTAAATATCAACACCTATTACGGCGTTTG
Found at i:7760978 original size:31 final size:31
Alignment explanation
Indices: 7760936--7761006 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
7760926 TTAATGTCAT
*
7760936 AGTGACTACATCTTAATTAAAACGAAACGAA
1 AGTGACCACATCTTAATTAAAACGAAACGAA
*
7760967 AGTGACCACATCTTAATTAAAATGAAACGAA
1 AGTGACCACATCTTAATTAAAACGAAACGAA
7760998 AGTGACCAC
1 AGTGACCAC
7761007 GAATTAAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (31 bp):
AGTGACCACATCTTAATTAAAACGAAACGAA
Found at i:7762164 original size:19 final size:16
Alignment explanation
Indices: 7762124--7762154 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7762114 AAAATATTTA
7762124 TTTAA-TTTTTAAAAT
1 TTTAATTTTTTAAAAT
7762139 TTTAATTTTTTAAAAT
1 TTTAATTTTTTAAAAT
7762155 AATATTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTTTTTAAAAT
Found at i:7765403 original size:2 final size:2
Alignment explanation
Indices: 7765396--7765427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7765386 TGTGCACATG
7765396 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
7765428 CACACCAGGA
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:7771658 original size:17 final size:17
Alignment explanation
Indices: 7771636--7771699 Score: 92
Period size: 17 Copynumber: 3.7 Consensus size: 17
7771626 TATGGAATTG
7771636 GATTCCAATTCCTGACA
1 GATTCCAATTCCTGACA
7771653 GATTCCAATTCCTGACA
1 GATTCCAATTCCTGACA
* *
7771670 GATTCTAATTCCTTCACA
1 GATTCCAATTCC-TGACA
*
7771688 GATTTCAATTCC
1 GATTCCAATTCC
7771700 CTCATAAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 28 0.67
18 14 0.33
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (17 bp):
GATTCCAATTCCTGACA
Found at i:7772018 original size:45 final size:45
Alignment explanation
Indices: 7771959--7772046 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
7771949 AACCTCATTT
* * * *
7771959 CTTATTTCTATTTTAATTTGTATGATAAAATTGCGTTCAAACCCC
1 CTTATTTCTATTTTAATATATATGATAAAATTGCATGCAAACCCC
* * *
7772004 CTTATTTTTGTTTTAATATATATGATTAAATTGCATGCAAACC
1 CTTATTTCTATTTTAATATATATGATAAAATTGCATGCAAACC
7772047 TCTTATATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (45 bp):
CTTATTTCTATTTTAATATATATGATAAAATTGCATGCAAACCCC
Found at i:7772067 original size:45 final size:45
Alignment explanation
Indices: 7771979--7772069 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
7771969 TTTTAATTTG
* * *
7771979 TATGATAAAATTGCGTTCAAACCCCCTTATTTTTGTTTTAATATA
1 TATGATAAAATTGCATGCAAACCCCCTTATTTTTGTTTCAATATA
* *
7772024 TATGATTAAATTGCATGCAAA-CCTCTTATATTTT-TCTTCAATATA
1 TATGATAAAATTGCATGCAAACCCCCTTAT-TTTTGT-TTCAATATA
7772069 T
1 T
7772070 TTTAGACTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
44 8 0.21
45 31 0.79
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (45 bp):
TATGATAAAATTGCATGCAAACCCCCTTATTTTTGTTTCAATATA
Found at i:7773195 original size:35 final size:35
Alignment explanation
Indices: 7773149--7773219 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
7773139 AATCATTGTC
7773149 ATAAAATGATAAAGCCAAAACAAGTGACATATATT
1 ATAAAATGATAAAGCCAAAACAAGTGACATATATT
*
7773184 ATAAAATGATAAAGCCAACACAAGTGACATATATT
1 ATAAAATGATAAAGCCAAAACAAGTGACATATATT
7773219 A
1 A
7773220 GGTAAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.13, G:0.11, T:0.23
Consensus pattern (35 bp):
ATAAAATGATAAAGCCAAAACAAGTGACATATATT
Found at i:7784973 original size:22 final size:22
Alignment explanation
Indices: 7784948--7785002 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
7784938 TCAGGAGTTA
* *
7784948 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
7784970 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
7784992 CGGGAGTTATA
1 CAGGAGTTATA
7785003 ACAACTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:7796642 original size:22 final size:22
Alignment explanation
Indices: 7796617--7796658 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7796607 AGGATTTATT
* *
7796617 TGATTTAATTCCAGGGGTTACA
1 TGATATAATTCCAGGAGTTACA
*
7796639 TGATATAATTTCAGGAGTTA
1 TGATATAATTCCAGGAGTTA
7796659 TAACAGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (22 bp):
TGATATAATTCCAGGAGTTACA
Found at i:7802259 original size:3 final size:3
Alignment explanation
Indices: 7802251--7802352 Score: 163
Period size: 3 Copynumber: 34.7 Consensus size: 3
7802241 TCCAATAGTA
* * *
7802251 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7802297 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7802345 TAT TAT TA
1 TAT TAT TA
7802353 CAAATATTAC
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
2 3 0.03
3 88 0.97
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7806173 original size:46 final size:47
Alignment explanation
Indices: 7806083--7806175 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 47
7806073 TTAATATTAC
* * * *
7806083 TTTATTTTCCGAACAAATGTATGTGAACTAGAAATCATGCAGTTAGG
1 TTTATTTTCCAAACAAATGCATGTGAACTAGAAAGCATGAAGTTAGG
7806130 TTTATTTTTCCAAACAAA-GCATG-GAACTAGAAAGCATGAAGTTAGG
1 TTTA-TTTTCCAAACAAATGCATGTGAACTAGAAAGCATGAAGTTAGG
7806176 ATTTTTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
46 21 0.51
47 8 0.20
48 12 0.29
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (47 bp):
TTTATTTTCCAAACAAATGCATGTGAACTAGAAAGCATGAAGTTAGG
Found at i:7813515 original size:99 final size:99
Alignment explanation
Indices: 7813381--7813606 Score: 362
Period size: 99 Copynumber: 2.3 Consensus size: 99
7813371 CACAAATTTG
* *
7813381 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTTGCATGAAAATGAGAAAGTGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
7813446 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * * *
7813480 TAAATCCTCTGGGTCATCTGTAAAAGCTCATGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
*
7813545 TTACCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * *
7813579 TAAAACCTCCGGGTAATTTGTAAAACCT
1 TAAATCCTCCGGGTCATCTGTAAAACCT
7813607 TCGGGTCATC
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 115 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (99 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGCATGAAAATGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:7813604 original size:20 final size:20
Alignment explanation
Indices: 7813579--7813633 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
7813569 TCTAGAAAAT
*
7813579 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTG
* *
7813599 TAAAACCTTCGGGTCATCTG
1 TAAAACCTCCGGGTAATCTG
*
7813619 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
7813634 TGATGTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTG
Found at i:7813701 original size:119 final size:119
Alignment explanation
Indices: 7813490--7813725 Score: 382
Period size: 119 Copynumber: 2.0 Consensus size: 119
7813480 TAAATCCTCT
* * * *
7813490 GGGTCATCTGTAAAAGCTCATGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGATTACCAAAGT
1 GGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAAAGCGATTACCAAAGT
* *
7813555 TTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTGTAAAACCTTC
66 TTCTCATTTAATGTTCAAGAAAATTAAAACCTCCGGGTAATCTGTAAAACCTTC
* *
7813609 GGGTCATCTGTAAAACCTCAGGGTATGATGTTTTAGCATGAAAATGAGAAAGTGATTACCAAAGT
1 GGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAAAGCGATTACCAAAGT
* *
7813674 TTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAAACCT
66 TTCTCATTTAATGTTCAAGAAAATTAAAACCTCCGGGTAATCTGTAAAACCT
7813726 CAGGGAAGGA
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 107 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (119 bp):
GGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGAAAGCGATTACCAAAGT
TTCTCATTTAATGTTCAAGAAAATTAAAACCTCCGGGTAATCTGTAAAACCTTC
Found at i:7813805 original size:98 final size:99
Alignment explanation
Indices: 7813599--7813824 Score: 346
Period size: 98 Copynumber: 2.3 Consensus size: 99
7813589 GGGTAATTTG
* * * * *
7813599 TAAAACCTTCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTAGCATGAAAATGAGAAAGTGA
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGAAGGATATTTTAGCATGAAAATGAGAAAGCGA
7813664 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
66 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
* *
7813698 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCG-
1 TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGAAGGATATTTTAGCATGAAAATGAGAAAGCGA
*
7813762 TTACCAAAGTTTCTCATTTAATGTTCTAGAAAAT
66 TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
* * *
7813796 TAAAACCTCCGGGTAATTTGTAAATCCTC
1 TAAAACCTCCGGGTCATCTGTAAAACCTC
7813825 TGGGTCATCA
Statistics
Matches: 115, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 58 0.50
99 57 0.50
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (99 bp):
TAAAACCTCCGGGTCATCTGTAAAACCTCAGGGAAGGATATTTTAGCATGAAAATGAGAAAGCGA
TTACCAAAGTTTCTCATTTAATGTTCAAGAAAAT
Found at i:7813943 original size:217 final size:218
Alignment explanation
Indices: 7813375--7813926 Score: 928
Period size: 218 Copynumber: 2.5 Consensus size: 218
7813365 ATTTCCCACA
* *
7813375 AATTTGTAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTTGCATGAAAATGAGA
1 AATTTGTAAATCCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGA
*
7813440 AAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCTGGGTCATCTGTAAAA
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAAA
* * * * *
7813505 GCTCATGGTAGGATGTTTTCGTATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTT
131 CCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTT
7813570 CTAGAAAATTAAAACCTCCGGGT
196 CTAGAAAATTAAAACCTCCGGGT
* *
7813593 AATTTGTAAAACCT-TCGGGTCATCTGTAAAACCTCAGGGTATGATGTTTTAGCATGAAAATGAG
1 AATTTGTAAATCCTCT-GGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAG
7813657 AAAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAA
65 AAAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAA
7813722 ACCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCG-TTACCAAAGTTTCTCATTTAATGT
130 ACCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGT
7813786 TCTAGAAAATTAAAACCTCCGGGT
195 TCTAGAAAATTAAAACCTCCGGGT
* * *
7813810 AATTTGTAAATCCTCTGGGTCATCAGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGA
1 AATTTGTAAATCCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGA
*** *
7813875 AAACAATTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGG
66 AAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGG
7813927 TTGATTTATA
Statistics
Matches: 313, Mismatches: 19, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
217 154 0.49
218 159 0.51
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (218 bp):
AATTTGTAAATCCTCTGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTAGCATGAAAATGAGA
AAGTGATTACCAAAGTTTCTCATTTAATGTTCAAGAAAATTAAATCCTCCGGGTCATCTGTAAAA
CCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTT
CTAGAAAATTAAAACCTCCGGGT
Found at i:7813949 original size:119 final size:118
Alignment explanation
Indices: 7813698--7813978 Score: 427
Period size: 119 Copynumber: 2.4 Consensus size: 118
7813688 TCAAGAAAAT
* * * * *
7813698 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGAAGGATATTTTCGCATGAAAATGAGAAAGCGT
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGAAAACAT
*
7813763 TACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTG
66 TACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTA
* *
7813816 TAAATCCTCTGGGTCATCAGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGAAAACAA
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGAAAAC-A
* * *
7813881 TTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAATCCTCCGGTTGATTTA
65 TTACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTA
* * *
7813935 TAAAACCTCCGGGTCATCTGTAAAACCTCCGGGTATGATGTTTT
1 TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTT
7813979 TACTTTAATT
Statistics
Matches: 146, Mismatches: 16, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
118 57 0.39
119 89 0.61
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (118 bp):
TAAATCCTCCGGGTCATCTGTAAAACCTCAGGGTAGGATGTTTTCGAATGAAAATGAGAAAACAT
TACCAAAGTTTCTCATTTAATGTTCTAGAAAATTAAAACCTCCGGGTAATTTA
Found at i:7814116 original size:3 final size:3
Alignment explanation
Indices: 7814110--7814175 Score: 91
Period size: 3 Copynumber: 22.7 Consensus size: 3
7814100 TCTAATAATA
* * *
7814110 TAT TAT TAT TAT TA- TAT TAC AAT TAT TAT TAT CA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7814156 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
7814176 CAAATATTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 3 0.05
3 52 0.95
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:7814136 original size:20 final size:20
Alignment explanation
Indices: 7814111--7814169 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
7814101 CTAATAATAT
7814111 ATTATTATTATTATATTACA
1 ATTATTATTATTATATTACA
* **
7814131 ATTATTATTATCATATTATT
1 ATTATTATTATTATATTACA
7814151 ATTATTATTATTATTATTA
1 ATTATTATTATTA-TATTA
7814170 TTATTACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 29 0.85
21 5 0.15
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTATTATTATTATATTACA
Found at i:7817368 original size:22 final size:22
Alignment explanation
Indices: 7817340--7817390 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7817330 AGACGACCTA
7817340 AGAACTTATGTATTGATCCACT
1 AGAACTTATGTATTGATCCACT
7817362 AGAACTTATGTATTGATCCACT
1 AGAACTTATGTATTGATCCACT
*
7817384 TGAACTT
1 AGAACTT
7817391 TGGAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (22 bp):
AGAACTTATGTATTGATCCACT
Found at i:7818903 original size:2 final size:2
Alignment explanation
Indices: 7818896--7818926 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7818886 AATAATTATT
7818896 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7818927 AATTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7818957 original size:19 final size:19
Alignment explanation
Indices: 7818933--7818972 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7818923 TATAAATTTA
7818933 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
7818952 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
7818971 AT
1 AT
7818973 ATATACCCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:7820061 original size:19 final size:17
Alignment explanation
Indices: 7820045--7820088 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
7820035 GCTAAAAAGT
7820045 TAAATATATTTTAAAAA
1 TAAATATATTTTAAAAA
7820062 T-AATATAATTTTAAAAAA
1 TAAATAT-ATTTT-AAAAA
7820080 TAAATATAT
1 TAAATATAT
7820089 ATCATAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 6 0.25
18 8 0.33
19 5 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATTTTAAAAA
Found at i:7820078 original size:18 final size:18
Alignment explanation
Indices: 7820045--7820087 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
7820035 GCTAAAAAGT
7820045 TAAATAT-ATTTTAAAAA
1 TAAATATAATTTTAAAAA
7820062 T-AATATAATTTTAAAAAA
1 TAAATATAATTTT-AAAAA
7820080 TAAATATA
1 TAAATATA
7820088 TATCATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 6 0.26
18 6 0.26
19 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATATAATTTTAAAAA
Found at i:7820611 original size:16 final size:15
Alignment explanation
Indices: 7820590--7820647 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
7820580 TTATCTTGTA
7820590 ATTTAAGTATTTTTAT
1 ATTTAA-TATTTTTAT
*
7820606 ATTTAAT-TTTTAAAT
1 ATTTAATATTTT-TAT
*
7820621 TTTTAAATATTTTTAT
1 ATTT-AATATTTTTAT
*
7820637 ATTTAAAATTT
1 ATTTAATATTT
7820648 AAATAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 4 0.12
15 12 0.35
16 14 0.41
17 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (15 bp):
ATTTAATATTTTTAT
Found at i:7820632 original size:31 final size:31
Alignment explanation
Indices: 7820591--7820651 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
7820581 TATCTTGTAA
* **
7820591 TTTAAGTATTTTTATATTTAATTTTTAAATT
1 TTTAAATATTTTTATATTTAAAATTTAAATT
7820622 TTTAAATATTTTTATATTTAAAATTTAAAT
1 TTTAAATATTTTTATATTTAAAATTTAAAT
7820652 AATTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTAAATATTTTTATATTTAAAATTTAAATT
Found at i:7820664 original size:22 final size:23
Alignment explanation
Indices: 7820622--7820675 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
7820612 TTTTTAAATT
*
7820622 TTTAAATATTTTTATATTTAAAA
1 TTTAAATAATTTTATATTTAAAA
7820645 TTTAAATAATTTT-TATTTAAAA
1 TTTAAATAATTTTATATTTAAAA
**
7820667 AATAAATAA
1 TTTAAATAA
7820676 GCTCTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TTTAAATAATTTTATATTTAAAA
Found at i:7820669 original size:24 final size:23
Alignment explanation
Indices: 7820622--7820667 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
7820612 TTTTTAAATT
*
7820622 TTTAAATATTTTTATATTTAAAA
1 TTTAAATATTTTTATATTAAAAA
7820645 TTTAAATAATTTTTAT-TTAAAAA
1 TTTAAAT-ATTTTTATATTAAAAA
7820668 ATAAATAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAATATTTTTATATTAAAAA
Found at i:7822595 original size:14 final size:14
Alignment explanation
Indices: 7822578--7822604 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7822568 TGACCAGTCC
7822578 GACCCGACCCGACT
1 GACCCGACCCGACT
7822592 GACCCGACCCGAC
1 GACCCGACCCGAC
7822605 CGTTGACCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.52, G:0.22, T:0.04
Consensus pattern (14 bp):
GACCCGACCCGACT
Found at i:7822600 original size:19 final size:17
Alignment explanation
Indices: 7822576--7822617 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7822566 TTTGACCAGT
7822576 CCGACCCGACCCGACTGAC
1 CCGACCCGA-CCG-CTGAC
*
7822595 CCGACCCGACCGTTGAC
1 CCGACCCGACCGCTGAC
7822612 CCGACC
1 CCGACC
7822618 GTTGACCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
18 3 0.14
19 9 0.41
ACGTcount: A:0.19, C:0.52, G:0.21, T:0.07
Consensus pattern (17 bp):
CCGACCCGACCGCTGAC
Found at i:7822624 original size:7 final size:7
Alignment explanation
Indices: 7822602--7822671 Score: 101
Period size: 7 Copynumber: 10.4 Consensus size: 7
7822592 GACCCGACCC
7822602 GACCGTT
1 GACCGTT
*
7822609 GACC--C
1 GACCGTT
7822614 GACCGTT
1 GACCGTT
*
7822621 GACCATT
1 GACCGTT
7822628 GACCGTT
1 GACCGTT
7822635 GACCGTT
1 GACCGTT
7822642 GACCGTT
1 GACCGTT
7822649 GACCG-T
1 GACCGTT
7822655 GACCGTT
1 GACCGTT
7822662 GACCGTT
1 GACCGTT
7822669 GAC
1 GAC
7822672 TTCCTTTGAC
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.07
6 6 0.11
7 46 0.82
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:7822664 original size:27 final size:28
Alignment explanation
Indices: 7822602--7822671 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
7822592 GACCCGACCC
* *
7822602 GACCGTTGACC--CGACCGTTGACCATT
1 GACCGTTGACCGTTGACCGTTGACCAGT
7822628 GACCGTTGACCGTTGACCGTTGACC-GT
1 GACCGTTGACCGTTGACCGTTGACCAGT
7822655 GACCGTTGACCGTTGAC
1 GACCGTTGACCGTTGAC
7822672 TTCCTTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 11 0.28
27 18 0.45
28 11 0.28
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.24
Consensus pattern (28 bp):
GACCGTTGACCGTTGACCGTTGACCAGT
Found at i:7829680 original size:19 final size:20
Alignment explanation
Indices: 7829658--7829708 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
7829648 CGGTTTTGAT
*
7829658 CGGTATGACCGGTTC-GAAC
1 CGGTTTGACCGGTTCTGAAC
*
7829677 CGGTTTGACCAG-TCTGAAC
1 CGGTTTGACCGGTTCTGAAC
7829696 CGGTTTGACCGGT
1 CGGTTTGACCGGT
7829709 CAGACCTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (20 bp):
CGGTTTGACCGGTTCTGAAC
Found at i:7829708 original size:9 final size:9
Alignment explanation
Indices: 7829646--7829708 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
7829636 CTGCTGGAAA
7829646 ACCGGTTTTG
1 ACCGG-TTTG
* *
7829656 ATCGGTATG
1 ACCGGTTTG
*
7829665 ACCGGTTCG
1 ACCGGTTTG
7829674 AACCGGTTTG
1 -ACCGGTTTG
* *
7829684 ACCAGTCTG
1 ACCGGTTTG
7829693 AACCGGTTTG
1 -ACCGGTTTG
7829703 ACCGGT
1 ACCGGT
7829709 CAGACCTGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
9 22 0.54
10 19 0.46
ACGTcount: A:0.17, C:0.24, G:0.30, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:7829738 original size:10 final size:10
Alignment explanation
Indices: 7829711--7829743 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
7829701 TGACCGGTCA
7829711 GACCTGACCC
1 GACCTGACCC
7829721 GA-CTGACCC
1 GACCTGACCC
7829730 GACCTGACCC
1 GACCTGACCC
7829740 GACC
1 GACC
7829744 GTTGACCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.21, C:0.48, G:0.21, T:0.09
Consensus pattern (10 bp):
GACCTGACCC
Found at i:7829752 original size:7 final size:7
Alignment explanation
Indices: 7829740--7829776 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
7829730 GACCTGACCC
7829740 GACCGTT
1 GACCGTT
7829747 GACCGTT
1 GACCGTT
7829754 GACCGTT
1 GACCGTT
7829761 GACCG-T
1 GACCGTT
7829767 GACCGTT
1 GACCGTT
7829774 GAC
1 GAC
7829777 TTCCTTTGAC
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:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:7834878 original size:31 final size:32
Alignment explanation
Indices: 7834843--7834919 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 32
7834833 TAAGGCAAGC
*
7834843 CTTGGGTAGGCTCTG-GGACCCCGAG-ATTTTT
1 CTTGGGTAGGCTCTGTGG-CCCCGAGAATTATT
*
7834874 CTTGGGTAAGCTTCTGTGGCCCCGAGAATTATT
1 CTTGGGTAGGC-TCTGTGGCCCCGAGAATTATT
7834907 -TTGGGTAGGCTCT
1 CTTGGGTAGGCTCT
7834920 CAGGCCCCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 13 0.32
32 20 0.50
33 7 0.17
ACGTcount: A:0.14, C:0.21, G:0.31, T:0.34
Consensus pattern (32 bp):
CTTGGGTAGGCTCTGTGGCCCCGAGAATTATT
Found at i:7838452 original size:15 final size:15
Alignment explanation
Indices: 7838432--7838467 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7838422 ATAAGAACCG
*
7838432 TTAAATTCTATCGCT
1 TTAAATTCTATCACT
*
7838447 TTAAATTCTATTACT
1 TTAAATTCTATCACT
7838462 TTAAAT
1 TTAAAT
7838468 CACTTTACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (15 bp):
TTAAATTCTATCACT
Found at i:7838896 original size:3 final size:3
Alignment explanation
Indices: 7838888--7838969 Score: 65
Period size: 3 Copynumber: 27.3 Consensus size: 3
7838878 TTTCGTCTCG
* * * * * *
7838888 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAC TAC TAC TAC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
7838936 TAT TAT CAG TAT TAT TAA TAT TAA TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
7838970 TTTTTACAGG
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.34, C:0.09, G:0.01, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:7841516 original size:131 final size:131
Alignment explanation
Indices: 7841020--7841520 Score: 657
Period size: 131 Copynumber: 3.8 Consensus size: 131
7841010 ATCGATATTG
* * *
7841020 AGAATAATAATATCTTTTCATTTCAG-TTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTA
1 AGAATAATGATATCTCTTCATTT-AGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTA
*
7841084 ATTTATTCTCGACTAGAAATCATTAGATATTATCGTTCTCTCTCGAATTAATATTGATTTTTAAG
65 ATTTATTCTCGACTAGAAATCATTAGATATTATCGTTCTCACTCGAATTAATATTGATTTTTAAG
7841149 AT
130 AT
* * *
7841151 AGAATAATGATATCTCTTCATTTCGA-TAGGAGCAATAAATGATTGCTTTAAGGTATGAAAGGTA
1 AGAATAATGATATCTCTTCATTTAGATTA-GAGCAATAAATGACTGCTTTAAGGTATGAGAGGTA
* * *
7841215 ATTTATTCTCGGCTGGAAATCATTAGATATTATCGTTCTCTCTCGAATTAATATTGATTTTTAAG
65 ATTTATTCTCGACTAGAAATCATTAGATATTATCGTTCTCACTCGAATTAATATTGATTTTTAAG
7841280 AT
130 AT
* * *
7841282 AGAATAATGATATCTCTTCATTTTGATTGGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTCA
1 AGAATAATGATATCTCTTCATTTAGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTAA
* * * * * ** * *
7841347 TTTATTCTC-AATTGTAAATCATTATATATTATCATTTTCACTCGAATCGATATTAAATTTTAAG
66 TTTATTCTCGACTAG-AAATCATTAGATATTATCGTTCTCACTCGAATTAATATTGATTTTTAAG
*
7841411 AC
130 AT
* * * * * *
7841413 GGAATAGTGATATCTCTTCATTTAGATTAGAGTAATAAATGATTGCTTTAAGGTATGATAGGTCA
1 AGAATAATGATATCTCTTCATTTAGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTAA
* * * *
7841478 TTTATTCTCGATTATAAATAATTAGATATTATCGTTTTCACTC
66 TTTATTCTCGACTAGAAATCATTAGATATTATCGTTCTCACTC
7841521 TTAAAATTAT
Statistics
Matches: 327, Mismatches: 38, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
130 4 0.01
131 320 0.98
132 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (131 bp):
AGAATAATGATATCTCTTCATTTAGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTAA
TTTATTCTCGACTAGAAATCATTAGATATTATCGTTCTCACTCGAATTAATATTGATTTTTAAGA
T
Found at i:7844373 original size:15 final size:15
Alignment explanation
Indices: 7844353--7844383 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7844343 AATATCAATA
7844353 TTTTAAATTATTTTT
1 TTTTAAATTATTTTT
7844368 TTTTAAATTATTTTT
1 TTTTAAATTATTTTT
7844383 T
1 T
7844384 GATAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTAAATTATTTTT
Found at i:7846872 original size:2 final size:2
Alignment explanation
Indices: 7846860--7846909 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
7846850 ATTTAAAGAG
*
7846860 TA TA AA 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
7846902 TA TA TA TA
1 TA TA TA TA
7846910 AATACATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:7848601 original size:3 final size:3
Alignment explanation
Indices: 7848569--7848657 Score: 88
Period size: 3 Copynumber: 29.0 Consensus size: 3
7848559 TTGTAATATT
* * * *
7848569 TAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TTA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** **
7848616 TAA TAA TTT TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7848658 ATTTAAATTT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
3 64 0.91
4 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:7848616 original size:18 final size:18
Alignment explanation
Indices: 7848569--7848657 Score: 117
Period size: 18 Copynumber: 4.8 Consensus size: 18
7848559 TTGTAATATT
7848569 TAATAAATAAT-ATATATTA
1 TAAT-AATAATAATA-ATTA
*
7848588 TTAATATTAATAATAATTA
1 -TAATAATAATAATAATTA
*
7848607 TAATAATAATAATAATTT
1 TAATAATAATAATAATTA
*
7848625 TAATAATAATAATAATTT
1 TAATAATAATAATAATTA
7848643 TAATAATAATAATAA
1 TAATAATAATAATAA
7848658 ATTTAAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
18 49 0.75
19 9 0.14
20 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATAATAATAATAATTA
Found at i:7848840 original size:45 final size:45
Alignment explanation
Indices: 7848789--7848890 Score: 159
Period size: 45 Copynumber: 2.3 Consensus size: 45
7848779 GATGGAAATG
* * **
7848789 TTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGTTT
1 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
*
7848834 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCT
1 TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
7848879 TTGAAAACATCA
1 TTGAAAACATCA
7848891 AAAAGCTCCC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (45 bp):
TTGAAAACATCATGCACTAAAGGACTTACAGATGACCCGAAGGCT
Found at i:7849015 original size:75 final size:75
Alignment explanation
Indices: 7848824--7849164 Score: 568
Period size: 74 Copynumber: 4.6 Consensus size: 75
7848814 TTACAGATGA
* ** *
7848824 CCCGAA-G-TTTTTGAAAACATCATGCACTAAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
7848887 ATCAAAAAGCT
65 ATCAAAAAGCT
7848898 CCCGAAGGCTTTTTGGAAACATCATGCACTGTA-GACTTACAGATGACCCGAAGGTTTGAAAACA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACA
7848962 TCAAAAAGCT
66 TCAAAAAGCT
7848972 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACA
7849037 TC-AAAAGCT
66 TCAAAAAGCT
* * *
7849046 CCCGAAGGC-TTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGCTTTGAAAACA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACA
7849110 TCAAAAAGCT
66 TCAAAAAGCT
7849120 CCCGAAGGCTTTTTGGAAACATCATGCACTGTA-GACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
7849165 TGGGAAAAGT
Statistics
Matches: 254, Mismatches: 8, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
73 54 0.21
74 103 0.41
75 76 0.30
76 21 0.08
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (75 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACA
TCAAAAAGCT
Found at i:7849868 original size:22 final size:22
Alignment explanation
Indices: 7849840--7849916 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
7849830 CATAAAGCTT
7849840 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
7849862 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7849884 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7849906 TCATCTTTGAA
1 TCATCTTTGAA
7849917 GAGTGTAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:7858184 original size:20 final size:20
Alignment explanation
Indices: 7858146--7858184 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7858136 ATAAATAATG
*
7858146 AAAATAAAATACTTGAAAAT
1 AAAATAAAATACTTAAAAAT
7858166 AAAATAAAAATA-TTAAAAA
1 AAAAT-AAAATACTTAAAAA
7858185 ATAATATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAATACTTAAAAAT
Found at i:7858237 original size:28 final size:28
Alignment explanation
Indices: 7858180--7858239 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
7858170 TAAAAATATT
*
7858180 AAAAAATAATATACATATAAATTTTATG
1 AAAAAATAATATACATATAAAGTTTATG
*
7858208 AAAATAATAAGTATATATA-AAAGTTT-TG
1 AAAA-AATAA-TATACATATAAAGTTTATG
7858236 AAAA
1 AAAA
7858240 GAAAGAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.36
29 11 0.39
30 7 0.25
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (28 bp):
AAAAAATAATATACATATAAAGTTTATG
Found at i:7858718 original size:2 final size:2
Alignment explanation
Indices: 7858711--7858748 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7858701 TTTAAAGAAA
7858711 AT AT AT 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 AT AT AT
7858749 TAAATAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7860464 original size:3 final size:3
Alignment explanation
Indices: 7860432--7860499 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
7860422 TTGTAATATT
* * *
7860432 TAA TAAA TAA TATA TAT TAT TAA TAT TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
7860479 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
7860500 ATTTAAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:7863193 original size:21 final size:21
Alignment explanation
Indices: 7863169--7863210 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7863159 ATGAAATAGC
* *
7863169 AGCTGATAATTCCATGATGGA
1 AGCTAATAATTCCACGATGGA
7863190 AGCTAATAATTCCACGATGGA
1 AGCTAATAATTCCACGATGGA
7863211 TGCTTCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (21 bp):
AGCTAATAATTCCACGATGGA
Found at i:7866867 original size:29 final size:29
Alignment explanation
Indices: 7866846--7866902 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
7866836 TTTATTTCTA
*
7866846 ATTAACCATTAACTTTCATTTTATTGCAT
1 ATTAACCACTAACTTTCATTTTATTGCAT
* *
7866875 ATTAACCGCTAACTTTTATTTTATTGCA
1 ATTAACCACTAACTTTCATTTTATTGCA
7866903 CTCTAACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (29 bp):
ATTAACCACTAACTTTCATTTTATTGCAT
Found at i:7866909 original size:29 final size:29
Alignment explanation
Indices: 7866855--7866910 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
7866845 AATTAACCAT
*
7866855 TAACTTTCATTTTATTGCATATTAACCGC
1 TAACTTTCATTTTATTGCATACTAACCGC
*
7866884 TAACTTTTATTTTATTGCACT-CTAACC
1 TAACTTTCATTTTATTGCA-TACTAACC
7866911 ACTATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.27, C:0.21, G:0.05, T:0.46
Consensus pattern (29 bp):
TAACTTTCATTTTATTGCATACTAACCGC
Found at i:7867381 original size:14 final size:14
Alignment explanation
Indices: 7867362--7867397 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7867352 TTTTTATTTA
*
7867362 TTTAATTTCAATCC
1 TTTAATTTCAATAC
*
7867376 TTTAATTTCATTAC
1 TTTAATTTCAATAC
7867390 TTTAATTT
1 TTTAATTT
7867398 ACTATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAATAC
Found at i:7870102 original size:2 final size:2
Alignment explanation
Indices: 7870095--7870126 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7870085 CAGATTTTCG
7870095 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
7870127 TATTTAATTT
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:7870441 original size:11 final size:11
Alignment explanation
Indices: 7870425--7870451 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
7870415 TGAGCAAAAG
7870425 GAGGATTTAGA
1 GAGGATTTAGA
7870436 GAGGATTTAGA
1 GAGGATTTAGA
7870447 GAGGA
1 GAGGA
7870452 AGAGAGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (11 bp):
GAGGATTTAGA
Found at i:7870586 original size:23 final size:22
Alignment explanation
Indices: 7870556--7870637 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
7870546 GCATGGCCTT
7870556 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
7870578 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
7870600 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
7870623 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
7870638 TGTTAAGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 2 0.04
23 19 0.40
24 12 0.25
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:7870648 original size:44 final size:44
Alignment explanation
Indices: 7870560--7870656 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
7870550 GGCCTTGTGC
* *
7870560 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
*
7870604 ATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGATGCACCT-TCATAGTGT
7870648 ATCGATGCA
1 ATCGATGCA
7870657 TGAAGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 30 0.64
45 17 0.36
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATAGTGT
Found at i:7876521 original size:65 final size:65
Alignment explanation
Indices: 7876388--7876547 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 65
7876378 TGCACTAAGA
*
7876388 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
* * *
7876452 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATTGATGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGC
*
7876514 TAT
64 T-G
*
7876517 GTGCATCGGTGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
7876548 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 30 0.35
65 52 0.61
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTG
Found at i:7879401 original size:131 final size:125
Alignment explanation
Indices: 7879089--7879440 Score: 434
Period size: 131 Copynumber: 2.7 Consensus size: 125
7879079 TTCAAGAGTA
* *
7879089 AAAACGATAATATCTAATTATTTTTAATCGAGAATAAATAACCTCTCATACCTTAAAGCATTCAT
1 AAAATGATAATATCTAA-T-TTTTTAATCGAGAATAAATGACCTCTCATACCTTAAAGCATTCAT
* * * * *
7879154 TTATTACTCCAATTGAAATGAAGAGATATATTTTTTCTTAAAATTCAATATCCATTCGAGTG
64 TTATTACTCCAATCGAAATGAAGAGATATATTTTATCTTAAAAATCAATATCAATTCGAGGG
*
7879216 AAAATGATAATATCTAATGATTTTTAATCGAGAATAAATGATCTCTCATACCTTAAAGCATTCAT
1 AAAATGATAATATCTAAT--TTTTTAATCGAGAATAAATGACCTCTCATACCTTAAAGCATTCAT
*
7879281 TTATTACTCCAATCGAAATGAAGAGATATCATTATTCCATCTTAAAAATCAATATTAATTCGAGG
64 TTATTACTCCAATCGAAATGAAGAGATAT-ATT-TT--ATCTTAAAAATCAATATCAATTCGAGG
7879346 G
125 G
* * * * * * *
7879347 AGAATGATAATATCGAATTTTTTCCAATCGAGAATAAATGACCTCTAATGCCTTAGAGTAGTCAT
1 AAAATGATAATATCTAATTTTTT--AATCGAGAATAAATGACCTCTCATACCTTAAAGCATTCAT
* * * *
7879412 TTATTACTCAAACCGAAATTAATAGATAT
64 TTATTACTCCAATCGAAATGAAGAGATAT
7879441 TACTATTCTC
Statistics
Matches: 197, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
126 1 0.01
127 88 0.45
128 3 0.02
129 7 0.04
131 98 0.50
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (125 bp):
AAAATGATAATATCTAATTTTTTAATCGAGAATAAATGACCTCTCATACCTTAAAGCATTCATTT
ATTACTCCAATCGAAATGAAGAGATATATTTTATCTTAAAAATCAATATCAATTCGAGGG
Found at i:7880082 original size:28 final size:27
Alignment explanation
Indices: 7880050--7880120 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 27
7880040 ACAAAGAATA
*
7880050 AAAATAAATAAAACATGGA-GACTAAATT
1 AAAATAAATAAAA-ATGAAGGAC-AAATT
*
7880078 AAAATAAACTAAAATTGAATGGACAAATT
1 AAAATAAA-TAAAAATGAA-GGACAAATT
7880107 AAAATAAATAAAAA
1 AAAATAAATAAAAA
7880121 GACATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 16 0.43
29 18 0.49
30 3 0.08
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (27 bp):
AAAATAAATAAAAATGAAGGACAAATT
Found at i:7881538 original size:3 final size:3
Alignment explanation
Indices: 7881530--7881586 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
7881520 AATGGCATGA
7881530 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7881577 AAT AAT AAT A
1 AAT AAT AAT A
7881587 GCAAGACAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7889067 original size:23 final size:25
Alignment explanation
Indices: 7889035--7889081 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
7889025 TCAAAACAAA
*
7889035 ATAAATAAG-ATAGAATA-AAACAC
1 ATAAAGAAGAATAGAATATAAACAC
*
7889058 ATAAAGAAGAATAGTATATAAACA
1 ATAAAGAAGAATAGAATATAAACA
7889082 TACCAGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.64, C:0.06, G:0.11, T:0.19
Consensus pattern (25 bp):
ATAAAGAAGAATAGAATATAAACAC
Found at i:7894818 original size:21 final size:21
Alignment explanation
Indices: 7894794--7894838 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7894784 TTTGGGTGGC
7894794 CATTATTGTCCACTGACTATG
1 CATTATTGTCCACTGACTATG
7894815 CATTATTGTCCACTGACTATG
1 CATTATTGTCCACTGACTATG
7894836 CAT
1 CAT
7894839 ACAAGTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (21 bp):
CATTATTGTCCACTGACTATG
Found at i:7899773 original size:22 final size:21
Alignment explanation
Indices: 7899721--7899773 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
7899711 TTCGATCCGA
*
7899721 AATAAATATATTTATAAAAAT
1 AATATATATATTTATAAAAAT
** *
7899742 GTTATTTATATTTAATAAAAAT
1 AATATATATATTT-ATAAAAAT
7899764 AATATATATA
1 AATATATATA
7899774 GTATTATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AATATATATATTTATAAAAAT
Found at i:7901678 original size:105 final size:105
Alignment explanation
Indices: 7901496--7901812 Score: 553
Period size: 105 Copynumber: 3.0 Consensus size: 105
7901486 AAATTACGGG
* * * * *
7901496 CAGCAGCCACCCATGAACAACAGAGATTATCCTCCTAGAGGAGGTGATCCTCCATACCAGGGCGG
1 CAGCAGCCACCAATGAACAACAGAGATTATGCTCCTAGAGGAGGTGATCCTTCGTACCAGGGCAG
7901561 TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
66 TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
*
7901601 CAGCAGCCACCAATGAACAACAGAGATTATGCTCCTAGAGGAGGTGATCCTTTGTACCAGGGCAG
1 CAGCAGCCACCAATGAACAACAGAGATTATGCTCCTAGAGGAGGTGATCCTTCGTACCAGGGCAG
7901666 TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
66 TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
* *
7901706 CAGCAGCCACCAATGAACAACAGAGATTATGCTCTTAGAGGAGGTGATCCCTCGTACCAGGGCAG
1 CAGCAGCCACCAATGAACAACAGAGATTATGCTCCTAGAGGAGGTGATCCTTCGTACCAGGGCAG
*
7901771 TTACAACCAAGGAGGGCAGGGAAACTATAATTCTGGACGA
66 TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
7901811 CA
1 CA
7901813 AAGGGACTTC
Statistics
Matches: 202, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 202 1.00
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (105 bp):
CAGCAGCCACCAATGAACAACAGAGATTATGCTCCTAGAGGAGGTGATCCTTCGTACCAGGGCAG
TTACAACCAAGGAGGGCAGGGAAATTATAATTCTGGACGA
Found at i:7901945 original size:24 final size:24
Alignment explanation
Indices: 7901913--7901969 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
7901903 AAGTGGGAGT
* * * *
7901913 TATGAGCAGGGGCCGAATCCTGGC
1 TATGGGCAGGGACCAAATCCTAGC
7901937 TATGGGCAGGGACCAAATCCTAGC
1 TATGGGCAGGGACCAAATCCTAGC
7901961 TATGGGCAG
1 TATGGGCAG
7901970 AATTTCGAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.18
Consensus pattern (24 bp):
TATGGGCAGGGACCAAATCCTAGC
Found at i:7902538 original size:33 final size:33
Alignment explanation
Indices: 7902495--7902557 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
7902485 TATCTAAACA
*
7902495 TTTAACAATAATCTTTTAACCATTAAAGTTATT
1 TTTAACAATAATATTTTAACCATTAAAGTTATT
*
7902528 TTTAATAATAATATTTTAACCATTAAAGTT
1 TTTAACAATAATATTTTAACCATTAAAGTT
7902558 TTTATTTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (33 bp):
TTTAACAATAATATTTTAACCATTAAAGTTATT
Found at i:7904700 original size:30 final size:30
Alignment explanation
Indices: 7904658--7904773 Score: 178
Period size: 30 Copynumber: 3.9 Consensus size: 30
7904648 AAAGAAACCC
7904658 AAGGCCTCTAGCATTAAGTCCTCTGGCAGT
1 AAGGCCTCTAGCATTAAGTCCTCTGGCAGT
* * **
7904688 ATGGCTTCTAGCACCAAGTCCTCTGGCAGT
1 AAGGCCTCTAGCATTAAGTCCTCTGGCAGT
*
7904718 AAGGCCTCTAGCATTAAGTCCTCTGGCCGT
1 AAGGCCTCTAGCATTAAGTCCTCTGGCAGT
*
7904748 AAGGCCTCTAGCATTAAGCCCTCTGG
1 AAGGCCTCTAGCATTAAGTCCTCTGG
7904774 AAGGCAGTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 76 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (30 bp):
AAGGCCTCTAGCATTAAGTCCTCTGGCAGT
Found at i:7904735 original size:15 final size:15
Alignment explanation
Indices: 7904658--7904771 Score: 93
Period size: 15 Copynumber: 7.6 Consensus size: 15
7904648 AAAGAAACCC
*
7904658 AAGGCCTCTAGCATT
1 AAGGCCTCTAGCAGT
* *
7904673 AAGTCCTCTGGCAGT
1 AAGGCCTCTAGCAGT
* * **
7904688 ATGGCTTCTAGCACC
1 AAGGCCTCTAGCAGT
* *
7904703 AAGTCCTCTGGCAGT
1 AAGGCCTCTAGCAGT
*
7904718 AAGGCCTCTAGCATT
1 AAGGCCTCTAGCAGT
* * *
7904733 AAGTCCTCTGGCCGT
1 AAGGCCTCTAGCAGT
*
7904748 AAGGCCTCTAGCATT
1 AAGGCCTCTAGCAGT
*
7904763 AAGCCCTCT
1 AAGGCCTCT
7904772 GGAAGGCAGT
Statistics
Matches: 72, Mismatches: 27, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 72 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (15 bp):
AAGGCCTCTAGCAGT
Found at i:7907322 original size:19 final size:21
Alignment explanation
Indices: 7907282--7907324 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
7907272 CCCTAATAGC
7907282 TAAATAATATATATAATATCT
1 TAAATAATATATATAATATCT
*
7907303 TAAATAAT-TA-ATAATTTCT
1 TAAATAATATATATAATATCT
7907322 TAA
1 TAA
7907325 TTCGATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATAATATATATAATATCT
Found at i:7925639 original size:28 final size:27
Alignment explanation
Indices: 7925602--7925699 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 27
7925592 ATAAAATCAA
*
7925602 TTATTATAATATATAAGATATTATATTT
1 TTATTTTAATATATAA-ATATTATATTT
*
7925630 TTATTTTAATAATATAATAAATT-T-TTT
1 TTATTTTAAT-ATATAA-ATATTATATTT
* *
7925657 TTATATTTAATA-ATGAATAATATATTT
1 TTAT-TTTAATATATAAATATTATATTT
*
7925684 TATATTTAAATTATAT
1 T-TATTTTAA-TATAT
7925700 TTTAATAAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
25 3 0.05
26 4 0.07
27 16 0.29
28 21 0.38
29 12 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TTATTTTAATATATAAATATTATATTT
Found at i:7925691 original size:26 final size:28
Alignment explanation
Indices: 7925623--7925692 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 28
7925613 TATAAGATAT
*
7925623 TATATTTT-TATTTTAATAATATAATAAA
1 TATATTTTATA-TTTAATAATAGAATAAA
* *
7925651 TTTTTTTTATATTTAATAAT-GAAT-AA
1 TATATTTTATATTTAATAATAGAATAAA
7925677 TATATTTTATATTTAA
1 TATATTTTATATTTAA
7925693 ATTATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 16 0.44
27 3 0.08
28 15 0.42
29 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (28 bp):
TATATTTTATATTTAATAATAGAATAAA
Found at i:7925848 original size:32 final size:35
Alignment explanation
Indices: 7925775--7925849 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 35
7925765 AATAATTAAT
*
7925775 ATAATTTTATATTTTATTTCACTAAAATATACAAA
1 ATAATATTATATTTTATTTCACTAAAATATACAAA
*
7925810 AAAATATTAT-TTTTATTT-A-TAAAATTATA-AAA
1 ATAATATTATATTTTATTTCACTAAAA-TATACAAA
7925842 ATAATATT
1 ATAATATT
7925850 TAATAATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
32 15 0.42
33 5 0.14
34 8 0.22
35 8 0.22
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (35 bp):
ATAATATTATATTTTATTTCACTAAAATATACAAA
Found at i:7926070 original size:14 final size:14
Alignment explanation
Indices: 7926036--7926076 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
7926026 AAATGTAATT
* *
7926036 CATTTTACGAAAAA
1 CATTTTCCGGAAAA
7926050 CATTTTCCGGAAAA
1 CATTTTCCGGAAAA
*
7926064 CATTTTCCAGAAA
1 CATTTTCCGGAAA
7926077 TATAATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (14 bp):
CATTTTCCGGAAAA
Found at i:7926099 original size:14 final size:14
Alignment explanation
Indices: 7926080--7926111 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7926070 CCAGAAATAT
7926080 AATTCATTTTCAAG
1 AATTCATTTTCAAG
7926094 AATTCATTTTCAAG
1 AATTCATTTTCAAG
7926108 AATT
1 AATT
7926112 TAAACCAGTA
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:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (14 bp):
AATTCATTTTCAAG
Found at i:7927649 original size:160 final size:162
Alignment explanation
Indices: 7927293--7927678 Score: 652
Period size: 160 Copynumber: 2.4 Consensus size: 162
7927283 TTTTTTTTTG
* * * * *
7927293 TTGAAAGGAGCATTGACAAATTCTTAGCTT-TGCTTTGCTCATCTCGTCTTTTTAAATTATCATA
1 TTGAAACGAGCATTGACAAATTCTTAG-TTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATA
* *
7927357 ATCAAACATTCTTTTATACGATCACGATAATTAGTTTATTTTATGGATAGCAATCCCCTCCGGCC
65 ATCAAACATTCCTTTATAAGATCACGATAATTAGTTTATTTTATGGATAGCAATCCCCTCCGGCC
7927422 CCAACACACCTCCAAATGAAGGCCAATGGTAGA
130 CCAACACACCTCCAAATGAAGGCCAATGGTAGA
*
7927455 TTGAAACGAGCATTGACAAATTCTTAGCTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATAA
1 TTGAAACGAGCATTGACAAATTCTTAGTTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATAA
* *
7927520 TCAAACATTCCTTTATAAGATTACGATAATTAGTTTATTTTATGGA-ATCAATCCCC-CCGGCCC
66 TCAAACATTCCTTTATAAGATCACGATAATTAGTTTATTTTATGGATAGCAATCCCCTCCGGCCC
7927583 CAACACACCTCCAAATGAAGGCCAATGGTAGA
131 CAACACACCTCCAAATGAAGGCCAATGGTAGA
7927615 TTGAAACGAGCATTGACAAATTCTTAGTTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATA
1 TTGAAACGAGCATTGACAAATTCTTAGTTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATA
7927679 TTATGTTTTC
Statistics
Matches: 212, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
160 102 0.48
161 10 0.05
162 100 0.47
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (162 bp):
TTGAAACGAGCATTGACAAATTCTTAGTTCTCCTTTGCTCATCTCGCCTTCTCAAATTATCATAA
TCAAACATTCCTTTATAAGATCACGATAATTAGTTTATTTTATGGATAGCAATCCCCTCCGGCCC
CAACACACCTCCAAATGAAGGCCAATGGTAGA
Found at i:7931565 original size:12 final size:12
Alignment explanation
Indices: 7931550--7931575 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7931540 TCCGGAACAC
7931550 TTAGGGGAAAGT
1 TTAGGGGAAAGT
7931562 TTAGGGGAAAGT
1 TTAGGGGAAAGT
7931574 TT
1 TT
7931576 GAGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (12 bp):
TTAGGGGAAAGT
Found at i:7932360 original size:2 final size:2
Alignment explanation
Indices: 7932312--7932340 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7932302 ATATCGTATG
7932312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7932341 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7935463 original size:16 final size:16
Alignment explanation
Indices: 7935439--7935469 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7935429 TAATATTGAA
7935439 ACTTAAACTCAAAAAG
1 ACTTAAACTCAAAAAG
*
7935455 ACTTGAACTCAAAAA
1 ACTTAAACTCAAAAA
7935470 AAAAAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
ACTTAAACTCAAAAAG
Found at i:7936703 original size:17 final size:17
Alignment explanation
Indices: 7936681--7936713 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7936671 CAAACAACTT
*
7936681 TATTTTTTTTTCTTTTC
1 TATTTTCTTTTCTTTTC
7936698 TATTTTCTTTTCTTTT
1 TATTTTCTTTTCTTTT
7936714 TCGAAACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTTTCTTTTCTTTTC
Found at i:7936705 original size:12 final size:11
Alignment explanation
Indices: 7936683--7936715 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
7936673 AACAACTTTA
7936683 TTTT-TTTTTC
1 TTTTCTTTTTC
7936693 TTTTCTATTTTC
1 TTTTCT-TTTTC
7936705 TTTTCTTTTTC
1 TTTTCTTTTTC
7936716 GAAACTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 6 0.29
12 11 0.52
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:7942890 original size:18 final size:19
Alignment explanation
Indices: 7942867--7942909 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
7942857 GTAAAAATAT
*
7942867 TCAAAT-AAAATTTTAAAA
1 TCAAATGAAAATTCTAAAA
* *
7942885 TCAAATGATAATTCTAAAT
1 TCAAATGAAAATTCTAAAA
7942904 TCAAAT
1 TCAAAT
7942910 TTAAACTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (19 bp):
TCAAATGAAAATTCTAAAA
Found at i:7945964 original size:22 final size:22
Alignment explanation
Indices: 7945937--7945980 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7945927 AACTCTAATG
*
7945937 ACTCTTGCTCAACTGGAAGCTA
1 ACTCTTGCTCAACTGAAAGCTA
*
7945959 ACTCTTGCTCAATTGAAAGCTA
1 ACTCTTGCTCAACTGAAAGCTA
7945981 GATTTGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (22 bp):
ACTCTTGCTCAACTGAAAGCTA
Found at i:7951459 original size:13 final size:13
Alignment explanation
Indices: 7951436--7951474 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7951426 AATGATGCGC
*
7951436 AATGCGCGTCATA
1 AATGCGTGTCATA
*
7951449 AATGTGTGTCATA
1 AATGCGTGTCATA
7951462 AATGCGTGTCATA
1 AATGCGTGTCATA
7951475 GATTTATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:7953049 original size:2 final size:2
Alignment explanation
Indices: 7953042--7953074 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7953032 CGGAGTTATC
*
7953042 AT AT AT AT AT AT AT AT GT 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 A
7953075 ATGTTCAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7955859 original size:2 final size:2
Alignment explanation
Indices: 7955852--7955911 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
7955842 TAATAGGTTA
7955852 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7955893 AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
7955912 GTGTGCACGC
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 54 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7961323 original size:25 final size:25
Alignment explanation
Indices: 7961295--7961352 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
7961285 AAAAGACTCT
7961295 AAAACATTTTTAAACAACGTTTTGA
1 AAAACATTTTTAAACAACGTTTTGA
*
7961320 AAAACATTTTTAAACAAGGTTTTGA
1 AAAACATTTTTAAACAACGTTTTGA
7961345 AAAACATT
1 AAAACATT
7961353 AGCCAATTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (25 bp):
AAAACATTTTTAAACAACGTTTTGA
Found at i:7961329 original size:12 final size:12
Alignment explanation
Indices: 7961295--7961352 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
7961285 AAAAGACTCT
*
7961295 AAAACATTTTTA
1 AAAACATTTTGA
*
7961307 AACAACGTTTTGA
1 AA-AACATTTTGA
*
7961320 AAAACATTTTTA
1 AAAACATTTTGA
**
7961332 AACAAGGTTTTGA
1 AA-AACATTTTGA
7961345 AAAACATT
1 AAAACATT
7961353 AGCCAATTGA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 16 0.46
13 19 0.54
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (12 bp):
AAAACATTTTGA
Done.