Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_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: 2195110
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 9
Found at i:11205 original size:2 final size:2
Alignment explanation
Indices: 11198--11223 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11188 TATCAACTAA
11198 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
11224 TAATAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11488 original size:29 final size:29
Alignment explanation
Indices: 11424--11490 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
11414 ATATACTTAA
* ** *
11424 ATAATATATGTTTACAAAATATATTATAT
1 ATAATATATGTTTACAAAATAAAAGACAT
*
11453 ACT-ATATATGTTTACAAAGTAAAAGACAT
1 A-TAATATATGTTTACAAAATAAAAGACAT
11482 ATAATATAT
1 ATAATATAT
11491 TATGGGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 29 0.94
30 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (29 bp):
ATAATATATGTTTACAAAATAAAAGACAT
Found at i:12653 original size:29 final size:29
Alignment explanation
Indices: 12589--12655 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
12579 ATATACTTAA
* ** *
12589 ATAATATATGTTTACAAAATATATTATAT
1 ATAATATATGTTTACAAAATAAAAGACAT
*
12618 ACT-ATATATGTTTACAAAGTAAAAGACAT
1 A-TAATATATGTTTACAAAATAAAAGACAT
12647 ATAATATAT
1 ATAATATAT
12656 TATGGGAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 29 0.94
30 1 0.03
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (29 bp):
ATAATATATGTTTACAAAATAAAAGACAT
Found at i:14178 original size:3 final size:3
Alignment explanation
Indices: 14165--14194 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
14155 AAATATAAAT
14165 TAA TAA TTAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA
14195 TATTTTTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:16157 original size:25 final size:25
Alignment explanation
Indices: 16129--16182 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
16119 CTAAGCGTCT
*
16129 AAATCTAATTATATAAACAAATGAG
1 AAATCTAATGATATAAACAAATGAG
* * *
16154 AAATGTGATGATATAAACAAATGAT
1 AAATCTAATGATATAAACAAATGAG
16179 AAAT
1 AAAT
16183 GTGCTTTGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (25 bp):
AAATCTAATGATATAAACAAATGAG
Found at i:16328 original size:42 final size:43
Alignment explanation
Indices: 16282--16362 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
16272 AAGAAAAATA
**
16282 TGCAAGAGTAAACACGTAAAAATTGCTAAGGC-AAAAATTAAT
1 TGCAAGAGTAAACAAATAAAAATTGCTAAGGCGAAAAATTAAT
** *
16324 TGCAAGAGTAAGTAAATAAAAGTTGCTAAGGCGAAAAAT
1 TGCAAGAGTAAACAAATAAAAATTGCTAAGGCGAAAAAT
16363 GTTTGGGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 27 0.82
43 6 0.18
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (43 bp):
TGCAAGAGTAAACAAATAAAAATTGCTAAGGCGAAAAATTAAT
Found at i:36285 original size:3 final size:3
Alignment explanation
Indices: 36279--36304 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
36269 TTTGGTGAAG
36279 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
36305 TTTTTGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:37643 original size:31 final size:31
Alignment explanation
Indices: 37608--37672 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
37598 ACTACTAAAT
* *
37608 TTACATTTGAAACATTAACTCATACATTACA
1 TTACATTAGAAACATCAACTCATACATTACA
* * *
37639 TTACATTAGAAGCATCAACTCCTACATTTCA
1 TTACATTAGAAACATCAACTCATACATTACA
37670 TTA
1 TTA
37673 GAATCACTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (31 bp):
TTACATTAGAAACATCAACTCATACATTACA
Found at i:37664 original size:26 final size:26
Alignment explanation
Indices: 37635--37697 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
37625 ACTCATACAT
37635 TACATTACATTAGAAGCA-TCAACTCC
1 TACATTACATTAGAAGCACT-AACTCC
* *
37661 TACATTTCATTAGAATCACTAACTCC
1 TACATTACATTAGAAGCACTAACTCC
37687 TACATTACATT
1 TACATTACATT
37698 GCAATACAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TACATTACATTAGAAGCACTAACTCC
Found at i:38854 original size:21 final size:20
Alignment explanation
Indices: 38815--38864 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
38805 TGGTCAAAAC
* * *
38815 ATCATTCAATGATTTGATAT
1 ATCATTGAATGAGTTGATAA
38835 ATCATTGAATTGAGTTGATAA
1 ATCATTGAA-TGAGTTGATAA
*
38856 ATCACTGAA
1 ATCATTGAA
38865 AAGAAAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (20 bp):
ATCATTGAATGAGTTGATAA
Found at i:45866 original size:139 final size:138
Alignment explanation
Indices: 45616--45957 Score: 490
Period size: 139 Copynumber: 2.5 Consensus size: 138
45606 ATCATGGATG
* * * *
45616 GCCCCTTCGTTGTGAAGTTGAGCATTGAA-TTGAATATCCTTCGTCGTGAAGTTAAAATTCAATA
1 GCCCCTTCGCTGTGAAGTTGAGCATTGAATTTG-ATATCCTTCGTCGTGAAGTTGAAATCCAATC
* * * *
45680 TTGTGTAATTTGTATTGTTTCGAGTCCAATATCCTTCACCGTGAAGTTGAAATTTACTCTAAATG
65 TTGTGTAAGTTGTATTGTTTCGAGTCCAATATCCTTCACCATGAAGTTGAAACTGACTCTAAATG
45745 AAACTGGGAA
130 AAACT-GGAA
* * *
45755 GCCCCTTCACTGTGAAGTTGAGCCTTGAATTTGATATCCTTCTTCGTGAAGTTGAAATCCAATCT
1 GCCCCTTCGCTGTGAAGTTGAGCATTGAATTTGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
* *
45820 TGTGTAAGTTGTATTGTTTCGAGTCCAATATCCTTCTA-CATGAAGTTGAAACTGGCTCTGAATG
66 TGTGTAAGTTGTATTGTTTCGAGTCCAATATCCTTC-ACCATGAAGTTGAAACTGACTCTAAATG
45884 AAACTGGAA
130 AAACTGGAA
* * * *
45893 GCCCTTTCGCAGTGAAGTTGAGCTTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
1 GCCCCTTCGCTGTGAAGTTGAGCATTGAATTTGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
45958 GCTTGTGAGC
Statistics
Matches: 182, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
138 63 0.35
139 115 0.63
140 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (138 bp):
GCCCCTTCGCTGTGAAGTTGAGCATTGAATTTGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
TGTGTAAGTTGTATTGTTTCGAGTCCAATATCCTTCACCATGAAGTTGAAACTGACTCTAAATGA
AACTGGAA
Found at i:46346 original size:22 final size:23
Alignment explanation
Indices: 46293--46347 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
46283 GCCTGTCTTG
46293 TTGA-CTC-TTGATTCTAGAATC
1 TTGAGCTCTTTGATTCTAGAATC
*
46314 TTGAAG-T-TTTGATTCTTG-ATC
1 TTG-AGCTCTTTGATTCTAGAATC
46335 TTGAGCTCTTTGA
1 TTGAGCTCTTTGA
46348 AGGTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
20 2 0.07
21 10 0.36
22 16 0.57
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.47
Consensus pattern (23 bp):
TTGAGCTCTTTGATTCTAGAATC
Found at i:46964 original size:8 final size:7
Alignment explanation
Indices: 46930--46977 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
46920 ACCCACCTTA
46930 TTTTTC-
1 TTTTTCT
46936 TTTTTCT
1 TTTTTCT
*
46943 TTTCTCT
1 TTTTTCT
46950 TTTTTCT
1 TTTTTCT
46957 TTTGTTCT
1 TTT-TTCT
46965 TTTTCTCT
1 TTTT-TCT
46973 TTTTT
1 TTTTT
46978 TCAATTTAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.16
7 17 0.46
8 14 0.38
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:57458 original size:9 final size:9
Alignment explanation
Indices: 57453--57487 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
57443 CCGAAATAAA
*
57453 AAAAATAAAG
1 AAAAA-AAAT
57463 AAAAAAAAT
1 AAAAAAAAT
57472 AAAAAAAAT
1 AAAAAAAAT
57481 AAAAAAA
1 AAAAAAA
57488 GCCAAGAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.09
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:57468 original size:13 final size:12
Alignment explanation
Indices: 57450--57479 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
57440 AAACCGAAAT
57450 AAAAAAAATAAA
1 AAAAAAAATAAA
57462 GAAAAAAAATAAA
1 -AAAAAAAATAAA
57475 AAAAA
1 AAAAA
57480 TAAAAAAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.07
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:57471 original size:22 final size:21
Alignment explanation
Indices: 57446--57487 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
57436 TAAGAAACCG
57446 AAATAAAAAAAATAAAGAAAAA
1 AAATAAAAAAAATAAA-AAAAA
57468 AAATAAAAAAAATAAAAAAA
1 AAATAAAAAAAATAAAAAAA
57488 GCCAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (21 bp):
AAATAAAAAAAATAAAAAAAA
Found at i:57621 original size:2 final size:2
Alignment explanation
Indices: 57608--57652 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
57598 AATAAAAATA
* * *
57608 AT AT AT AG AT AT AT AC AA 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 AT AT
57650 AT A
1 AT A
57653 CTAGAATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:58964 original size:12 final size:12
Alignment explanation
Indices: 58947--58973 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58937 GCATGCTCCT
58947 ATAAATAAATTA
1 ATAAATAAATTA
58959 ATAAATAAATTA
1 ATAAATAAATTA
58971 ATA
1 ATA
58974 TATACTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATAAATAAATTA
Found at i:61112 original size:16 final size:16
Alignment explanation
Indices: 61091--61122 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61081 TATAAAAAAA
61091 ACCATTATGACTGTTG
1 ACCATTATGACTGTTG
61107 ACCATTATGACTGTTG
1 ACCATTATGACTGTTG
61123 GAACTCGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
ACCATTATGACTGTTG
Found at i:65307 original size:20 final size:21
Alignment explanation
Indices: 65223--65305 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
65213 AGCAGAACCC
*
65223 CAGGGGGGTATCGATTCCCAT
1 CAGGGGGGAATCGATTCCCAT
** * *
65244 GTGGGGGGAATCGGTTCCCCTT
1 CAGGGGGGAATCGATT-CCCAT
* *
65266 CAAAGGGGGAATCGGTTCCC-T
1 C-AGGGGGGAATCGATTCCCAT
65287 CAGGGGGGAATCGATTCCC
1 CAGGGGGGAATCGATTCCC
65306 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.32
21 14 0.28
22 7 0.14
23 13 0.26
ACGTcount: A:0.18, C:0.24, G:0.36, T:0.22
Consensus pattern (21 bp):
CAGGGGGGAATCGATTCCCAT
Found at i:72033 original size:18 final size:20
Alignment explanation
Indices: 72012--72055 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
72002 TTTGGTATCA
72012 ATACTC-ATGG-GAGTATTG
1 ATACTCAATGGAGAGTATTG
72030 ATAC-CAATGGTAGAGTATTG
1 ATACTCAATGG-AGAGTATTG
72050 ATACTC
1 ATACTC
72056 CCCAATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
20 12 0.55
21 1 0.05
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (20 bp):
ATACTCAATGGAGAGTATTG
Found at i:73888 original size:13 final size:13
Alignment explanation
Indices: 73858--73882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73848 TCAAGAAAAT
73858 ATTTTCTATTTTA
1 ATTTTCTATTTTA
73871 ATTTTCTATTTT
1 ATTTTCTATTTT
73883 TGTTTTTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTCTATTTTA
Found at i:73925 original size:33 final size:33
Alignment explanation
Indices: 73866--73929 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
73856 ATATTTTCTA
* **
73866 TTTTAATTTTCTATTTTTGTTTTTAGAAAATAG
1 TTTTAATTTTCAATTTTTGTAATTAGAAAATAG
73899 TTTTAATTTTCAATATTTTG-AATTAGAAAAT
1 TTTTAATTTTCAAT-TTTTGTAATTAGAAAAT
73930 TTGTTTGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (33 bp):
TTTTAATTTTCAATTTTTGTAATTAGAAAATAG
Found at i:77414 original size:13 final size:13
Alignment explanation
Indices: 77398--77422 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77388 CATTTTTAAT
77398 TAAAATTTAAATC
1 TAAAATTTAAATC
77411 TAAAATTTAAAT
1 TAAAATTTAAAT
77423 TTATTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAATTTAAATC
Found at i:80749 original size:16 final size:16
Alignment explanation
Indices: 80713--80751 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
80703 GGTATTACCC
*
80713 GACCTGTTTTCAACTT
1 GACCTGTTTTCAACCT
* *
80729 AACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
80745 GACCTGT
1 GACCTGT
80752 AAATGATCCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.41
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:81029 original size:14 final size:14
Alignment explanation
Indices: 81007--81053 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
80997 TGCAAAGGAA
*
81007 AATTAATATAGTTT
1 AATTTATATAGTTT
81021 AATTTATATA----
1 AATTTATATAGTTT
81031 AA-TTATATAGTTT
1 AATTTATATAGTTT
81044 AATTTATATA
1 AATTTATATA
81054 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:81040 original size:23 final size:24
Alignment explanation
Indices: 81006--81055 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
80996 ATGCAAAGGA
81006 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
81030 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
81053 AAA
1 AAA
81056 GAAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:81541 original size:19 final size:20
Alignment explanation
Indices: 81528--81572 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
81518 AATTTTTCTA
81528 TTCCCTCTAAATTTCCCAAT
1 TTCCCTCTAAATTTCCCAAT
*
81548 TTCCCTCTAAA-TTCTCAAT
1 TTCCCTCTAAATTTCCCAAT
81567 TTCCCT
1 TTCCCT
81573 ATATTCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (20 bp):
TTCCCTCTAAATTTCCCAAT
Found at i:82287 original size:19 final size:20
Alignment explanation
Indices: 82265--82306 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
82255 AGAATATATA
82265 GAAATTGGG-AATTCAGAGG
1 GAAATTGGGAAATTCAGAGG
*
82284 GAAATTGGGAAATTTAGAGG
1 GAAATTGGGAAATTCAGAGG
82304 GAA
1 GAA
82307 TAGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.40, C:0.02, G:0.36, T:0.21
Consensus pattern (20 bp):
GAAATTGGGAAATTCAGAGG
Found at i:82553 original size:7 final size:7
Alignment explanation
Indices: 82543--82600 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
82533 ATATAAACAT
82543 TAAACCC
1 TAAACCC
* *
82550 TAAATCA
1 TAAACCC
82557 TAAACCC
1 TAAACCC
* *
82564 TACACCT
1 TAAACCC
*
82571 TACACCC
1 TAAACCC
*
82578 TAAACCA
1 TAAACCC
*
82585 TAAACCA
1 TAAACCC
82592 TAAACCC
1 TAAACCC
82599 TA
1 TA
82601 GTATATGTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:82560 original size:14 final size:14
Alignment explanation
Indices: 82543--82597 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
82533 ATATAAACAT
*
82543 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* *
82557 TAAACCCTACACCT
1 TAAACCCTAAACCA
*
82571 TACACCCTAAACCA
1 TAAACCCTAAACCA
*
82585 TAAACCATAAACC
1 TAAACCCTAAACC
82598 CTAGTATATG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:82633 original size:20 final size:19
Alignment explanation
Indices: 82602--82650 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
82592 TAAACCCTAG
* *
82602 TATATGTATAAACCATGTA
1 TATATATATAAACCATATA
*
82621 TAGTATATATAAACTATATA
1 TA-TATATATAAACCATATA
82641 TATATATATA
1 TATATATATA
82651 TATATAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (19 bp):
TATATATATAAACCATATA
Found at i:82681 original size:25 final size:25
Alignment explanation
Indices: 82624--82673 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
82614 CCATGTATAG
* *
82624 TATATATAAACTATATATATATATA
1 TATATATAAACTATATAAATAAATA
82649 TATATATAAACTATATAAAGTAAAT
1 TATATATAAACTATATAAA-TAAAT
82674 TACTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
TATATATAAACTATATAAATAAATA
Found at i:82774 original size:2 final size:2
Alignment explanation
Indices: 82767--82863 Score: 51
Period size: 2 Copynumber: 48.5 Consensus size: 2
82757 TAGACTAATG
* * *
82767 TA TA TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A CA TA TA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
82806 CTA TA TA T- TT TA TA TA GTT TA TA CA TA TA TA GTT 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
82848 TA TA TA TA TA CTA TA T
1 TA TA TA TA TA -TA TA T
82864 TAATATAAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
1 5 0.07
2 61 0.84
3 7 0.10
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:82845 original size:17 final size:15
Alignment explanation
Indices: 82816--82863 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
82806 CTATATATTT
82816 TATATAGTTTATACA
1 TATATAGTTTATACA
*
82831 TATATAGTTTATATA
1 TATATAGTTTATACA
*
82846 TATATA-TATATAC-
1 TATATAGTTTATACA
82859 TATAT
1 TATAT
82864 TAATATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 5 0.17
14 5 0.17
15 20 0.67
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:83005 original size:20 final size:19
Alignment explanation
Indices: 82981--83038 Score: 84
Period size: 18 Copynumber: 3.1 Consensus size: 19
82971 AACATAATTT
82981 ATATATATAGTTTATAATA
1 ATATATATAGTTTATAATA
83000 AT-TATATAGTTTATAAT-
1 ATATATATAGTTTATAATA
*
83017 ATAAATATAGTTTATATATA
1 ATATATATAGTTTATA-ATA
83037 AT
1 AT
83039 TTTATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
17 2 0.06
18 27 0.77
19 4 0.11
20 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATATATAGTTTATAATA
Found at i:84034 original size:2 final size:2
Alignment explanation
Indices: 84029--84075 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
84019 CCACATTTTT
* *
84029 TA TA TA TA CA TA TA TA TT 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 TA TA TA TA TA TA TA
84070 TA TA TA
1 TA TA TA
84076 GGTTGCAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84166 original size:36 final size:35
Alignment explanation
Indices: 84101--84509 Score: 271
Period size: 36 Copynumber: 11.6 Consensus size: 35
84091 TTGAAACTAC
*
84101 ATATATAATATATAGTTTTTTTTAAAACATTTTTTGAAA
1 ATATATATTATATAG---TTTTTAAAACA-TTTTTGAAA
84140 ATATATATTATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
84175 ATTATATAATATATAGTTTTTAAAACATTTTAGAAA
1 A-TATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
84211 ATTATATAATATATAGTTTTGAAAACA---TT----
1 A-TATATATTATATAGTTTTTAAAACATTTTTGAAA
*
84240 -TATATATTATATAGTTTTTAAAAC-GTTTTGAAA
1 ATATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
84273 ACTTATATAATATATAGTTTTTTAAAAATATTTTTTGAAA
1 A--TATATATTATATAG-TTTTT-AAAACA-TTTTTGAAA
* * *
84313 A-ATTACATGATATATAGTTTTAAAAATATTTTTGAAAA
1 ATA-TATAT--TATATAGTTTTTAAAACATTTTTG-AAA
*
84351 ATTATATAATATATAG-TTTTAAAACATTTTT---A
1 A-TATATATTATATAGTTTTTAAAACATTTTTGAAA
* *
84383 A-A-A-ATTATATAGTTTTTAAAAAAATATTTTTTAAA
1 ATATATATTATATAGTTTTT---AAAACATTTTTGAAA
* *
84418 A-A-AAATTATATAGTTTTTAAAAAACAGTTTTGAAA
1 ATATATATTATATAGTTTTT--AAAACATTTTTGAAA
* * * * *
84453 TTTTATATAATATATGTTTTTAAAAAATATTTTTAAA
1 ATATATATTATATA-GTTTTTAAAACAT-TTTTGAAA
* *
84490 TTTTATATTATATAGTTTTT
1 ATATATATTATATAGTTTTT
84510 TAAATACTTT
Statistics
Matches: 307, Mismatches: 30, Indels: 69
0.76 0.07 0.17
Matches are distributed among these distances:
27 22 0.07
28 8 0.03
29 7 0.02
30 1 0.00
32 12 0.04
33 1 0.00
35 28 0.09
36 120 0.39
37 47 0.15
38 23 0.07
39 21 0.07
40 17 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (35 bp):
ATATATATTATATAGTTTTTAAAACATTTTTGAAA
Found at i:84242 original size:27 final size:27
Alignment explanation
Indices: 84212--84263 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
84202 TTTTAGAAAA
84212 TTATATAATATATAGTTTTGAAAACAT
1 TTATATAATATATAGTTTTGAAAACAT
* *
84239 TTATATATTATATAGTTTTTAAAAC
1 TTATATAATATATAGTTTTGAAAAC
84264 GTTTTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (27 bp):
TTATATAATATATAGTTTTGAAAACAT
Found at i:84353 original size:37 final size:37
Alignment explanation
Indices: 84227--84508 Score: 207
Period size: 38 Copynumber: 7.8 Consensus size: 37
84217 TAATATATAG
* * **
84227 TTTTGAAAACATTTATATATTATATAGTTTTTAAAA-CG
1 TTTTGAAAA-A-TTATATAATATATAGTTTTAAAAATAT
*
84265 TTTTGAAAACTTATATAATATATAGTTTTTTAAAAATATT
1 TTTTGAAAAATTATATAATATATAG--TTTTAAAAATA-T
* *
84305 TTTTGAAAAATTACATGATATATAGTTTTAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
*
84342 TTTTGAAAAATTATATAATATATAGTTTT-AAAACAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
* **
84378 TTTT-AAAAATTATATAGT-T-T--TTAAAAAAATAT
1 TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
* * * *
84410 TTTTTAAAAA--A-A-ATTATATAGTTTTTAAAAAACAG
1 TTTTGAAAAATTATATAATATATAG-TTTT-AAAAATAT
**
84445 TTTTGAAATTTTATATAATATAT-GTTTTTAAAAAATAT
1 TTTTGAAAAATTATATAATATATAG-TTTT-AAAAATAT
* *
84483 TTTT---AAATTTTATATTATATAGTTTT
1 TTTTGAAAAATTATATAATATATAGTTTT
84509 TTAAATACTT
Statistics
Matches: 197, Mismatches: 30, Indels: 37
0.75 0.11 0.14
Matches are distributed among these distances:
29 2 0.01
30 2 0.01
31 4 0.02
32 10 0.05
33 6 0.03
34 3 0.02
35 42 0.21
36 25 0.13
37 29 0.15
38 46 0.23
39 6 0.03
40 22 0.11
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (37 bp):
TTTTGAAAAATTATATAATATATAGTTTTAAAAATAT
Found at i:84491 original size:103 final size:103
Alignment explanation
Indices: 84283--84485 Score: 252
Period size: 103 Copynumber: 1.9 Consensus size: 103
84273 ACTTATATAA
* * * *
84283 TATATAGTTTTTTAAAAATATTTTTTGAAAAATTACATGATATATAGTTTTAAAAATATTTTTGA
1 TATATAGTTTTTAAAAAATATTTTTTGAAAAA-TAAAT-ATATATAGTTTTAAAAACAGTTTTGA
*
84348 AAAATTATATAATATATAGTTTTAAAACATTTTTAAAAAT
64 AAAATTATATAATATATAGTTTTAAAAAATTTTTAAAAAT
84388 TATATAGTTTTTAAAAAAATATTTTTT-AAAAA-AAAT-TATATAGTTTTTAAAAAACAGTTTTG
1 TATATAGTTTTT-AAAAAATATTTTTTGAAAAATAAATATATATAG-TTTT-AAAAACAGTTTTG
**
84450 AAATTTTATATAATATAT-GTTTTTAAAAAATATTTT
63 AAAAATTATATAATATATAG-TTTTAAAAAAT-TTTT
84486 TAAATTTTAT
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
101 7 0.08
102 5 0.06
103 40 0.47
104 4 0.05
105 17 0.20
106 13 0.15
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (103 bp):
TATATAGTTTTTAAAAAATATTTTTTGAAAAATAAATATATATAGTTTTAAAAACAGTTTTGAAA
AATTATATAATATATAGTTTTAAAAAATTTTTAAAAAT
Found at i:84510 original size:37 final size:38
Alignment explanation
Indices: 84386--84513 Score: 140
Period size: 37 Copynumber: 3.5 Consensus size: 38
84376 ATTTTTAAAA
* * ** *
84386 ATTATATAGTTTTTAAAAAAATATTTTTTAAA--AAAA
1 ATTATATAGTTTTTTAAAAAATAGTTTTTAAATTTTAT
* *
84422 ATTATATAG-TTTTTAAAAAACAGTTTTGAAATTTTAT
1 ATTATATAGTTTTTTAAAAAATAGTTTTTAAATTTTAT
*
84459 ATAATATA-TGTTTTTAAAAAATA-TTTTTAAATTTTAT
1 ATTATATAGT-TTTTTAAAAAATAGTTTTTAAATTTTAT
84496 ATTATATAGTTTTTTAAA
1 ATTATATAGTTTTTTAAA
84514 TACTTTTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
35 18 0.24
36 9 0.12
37 36 0.47
38 13 0.17
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.50
Consensus pattern (38 bp):
ATTATATAGTTTTTTAAAAAATAGTTTTTAAATTTTAT
Found at i:85028 original size:7 final size:7
Alignment explanation
Indices: 85018--85075 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
85008 GAGAACCATG
85018 AACCACA
1 AACCACA
85025 AACCACA
1 AACCACA
*
85032 AACCATA
1 AACCACA
*
85039 AACAACA
1 AACCACA
85046 AACCACA
1 AACCACA
*
85053 AACAACA
1 AACCACA
*
85060 AACAACA
1 AACCACA
85067 AACCA-A
1 AACCACA
85073 AAC
1 AAC
85076 ATCAAAAACA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
6 4 0.09
7 41 0.91
ACGTcount: A:0.64, C:0.34, G:0.00, T:0.02
Consensus pattern (7 bp):
AACCACA
Found at i:85037 original size:21 final size:21
Alignment explanation
Indices: 85011--85075 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
85001 CAACATAGAG
* *
85011 AACCATGAACCACAAACCACA
1 AACCATAAACAACAAACCACA
85032 AACCATAAACAACAAACCACA
1 AACCATAAACAACAAACCACA
* *
85053 AACAACAAACAACAAACCA-A
1 AACCATAAACAACAAACCACA
85073 AAC
1 AAC
85076 ATCAAAAACA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 4 0.10
21 36 0.90
ACGTcount: A:0.62, C:0.34, G:0.02, T:0.03
Consensus pattern (21 bp):
AACCATAAACAACAAACCACA
Found at i:90464 original size:16 final size:16
Alignment explanation
Indices: 90381--90467 Score: 138
Period size: 16 Copynumber: 5.4 Consensus size: 16
90371 AGTATTACCC
90381 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
*
90397 GACATGTTTTCAACCT
1 GACCTGTTTTCAACCT
90413 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
90429 GACATGTTTTTAACCT
1 GACCTGTTTTCAACCT
*
90445 GACCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
90461 GACCTGT
1 GACCTGT
90468 AAATGATCCG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 66 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:90745 original size:14 final size:14
Alignment explanation
Indices: 90723--90769 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
90713 TGAAAAGGAA
*
90723 AATTAATATAGTTT
1 AATTTATATAGTTT
90737 AATTTATATA----
1 AATTTATATAGTTT
90747 AA-TTATATAGTTT
1 AATTTATATAGTTT
90760 AATTTATATA
1 AATTTATATA
90770 AAGAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:90756 original size:23 final size:24
Alignment explanation
Indices: 90722--90771 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
90712 ATGAAAAGGA
90722 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
90746 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
90769 AAA
1 AAA
90772 GAAAAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:94296 original size:23 final size:24
Alignment explanation
Indices: 94256--94336 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 24
94246 TTTTAGGTTT
** * *
94256 GGGTTTGAATTCATGTTTGAATTT
1 GGGTTTGGGTTCAGGTTTGAATTA
*
94280 GGG-TTGGGTTCAGGTTTGAGTTA
1 GGGTTTGGGTTCAGGTTTGAATTA
** *
94303 GGGTTTGGGTTTGGGTTTG-GTTA
1 GGGTTTGGGTTCAGGTTTGAATTA
*
94326 GGGGTTGGGTT
1 GGGTTTGGGTT
94337 TGAGTTTGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 32 0.67
24 16 0.33
ACGTcount: A:0.11, C:0.02, G:0.42, T:0.44
Consensus pattern (24 bp):
GGGTTTGGGTTCAGGTTTGAATTA
Found at i:94312 original size:6 final size:6
Alignment explanation
Indices: 94277--94427 Score: 101
Period size: 6 Copynumber: 25.3 Consensus size: 6
94267 CATGTTTGAA
** * *
94277 TTTGGG -TTGGG TTCAGG TTTGAG TTAGGG TTTGGG TTTGGG TTT-GG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
* * * *
94323 TTAGGG GTTGGG TTTGAG TTTGGG TTTTGGG TTTGGG TTTGGG TTTTAGG
1 TTTGGG TTTGGG TTTGGG TTTGGG -TTTGGG TTTGGG TTTGGG -TTTGGG
* * * * * * * * *
94373 TTAGGG TTAGGG -TTCGA TTAGGG GTTAGG TTTAGG TTTAGG TTTGGG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
*
94420 TTTAGG TT
1 TTTGGG TT
94428 CAGGTTCAGG
Statistics
Matches: 111, Mismatches: 29, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
5 11 0.10
6 89 0.80
7 11 0.10
ACGTcount: A:0.09, C:0.01, G:0.44, T:0.46
Consensus pattern (6 bp):
TTTGGG
Found at i:94313 original size:18 final size:18
Alignment explanation
Indices: 94292--94422 Score: 72
Period size: 19 Copynumber: 7.3 Consensus size: 18
94282 GTTGGGTTCA
94292 GGTTTGAGTTAGGGTTTG
1 GGTTTGAGTTAGGGTTTG
* * *
94310 GGTTTGGGTT-TGGTTAG
1 GGTTTGAGTTAGGGTTTG
* * * *
94327 GGGTTGGGTTTGAGTTTG
1 GGTTTGAGTTAGGGTTTG
* *
94345 GGTTTTGGGTTTGGGTTTG
1 GG-TTTGAGTTAGGGTTTG
* *
94364 GGTTTTAGGTTAGGGTTAG
1 GGTTTGA-GTTAGGGTTTG
* * *
94383 GGTTCGA-TTAGGGGTTA
1 GGTTTGAGTTAGGGTTTG
94400 GGTTT-AGGTTTA-GGTTTG
1 GGTTTGA-G-TTAGGGTTTG
94418 GGTTT
1 GGTTT
94423 AGGTTCAGGT
Statistics
Matches: 86, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
16 1 0.01
17 25 0.29
18 27 0.31
19 33 0.38
ACGTcount: A:0.09, C:0.01, G:0.44, T:0.46
Consensus pattern (18 bp):
GGTTTGAGTTAGGGTTTG
Found at i:94354 original size:19 final size:17
Alignment explanation
Indices: 94304--94368 Score: 85
Period size: 17 Copynumber: 3.6 Consensus size: 17
94294 TTTGAGTTAG
94304 GGTTTGGGTTTGGGTTT
1 GGTTTGGGTTTGGGTTT
* *
94321 GGTTAGGGGTTGGGTTT
1 GGTTTGGGTTTGGGTTT
94338 GAGTTTGGGTTTTGGGTTT
1 G-GTTTGGG-TTTGGGTTT
94357 GGGTTTGGGTTT
1 -GGTTTGGGTTT
94369 TAGGTTAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 16 0.39
18 9 0.22
19 15 0.37
20 1 0.02
ACGTcount: A:0.03, C:0.00, G:0.48, T:0.49
Consensus pattern (17 bp):
GGTTTGGGTTTGGGTTT
Found at i:94424 original size:24 final size:24
Alignment explanation
Indices: 94304--94469 Score: 88
Period size: 24 Copynumber: 6.7 Consensus size: 24
94294 TTTGAGTTAG
*
94304 GGTTTGGGTTTGGGTTT-GG-TTA
1 GGTTTAGGTTTGGGTTTAGGTTTA
* * * * *
94326 GGGGTTGGGTTTGAGTTTGGGTTTTG
1 -GGTTTAGGTTTGGGTTTAGG-TTTA
*
94352 GGTTTGGGTTTGGGTTTTAGG-TTA
1 GGTTTAGGTTTGGG-TTTAGGTTTA
* *
94376 GGGTTAGGGTTCGATTAGGGGTTAGGTTTA
1 GGTTTA-GG-T---TT-GGGTTTAGGTTTA
*
94406 GGTTTAGGTTTGGGTTTAGGTTCA
1 GGTTTAGGTTTGGGTTTAGGTTTA
* *
94430 GGTTCAGG-TTAGGTTTAGAGTTTA
1 GGTTTAGGTTTGGGTTTAG-GTTTA
* *
94454 GGTTTAAGTTAGGGTT
1 GGTTTAGGTTTGGGTT
94470 GGTGATAGAA
Statistics
Matches: 110, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
23 24 0.22
24 36 0.33
25 21 0.19
26 8 0.07
28 1 0.01
29 9 0.08
30 11 0.10
ACGTcount: A:0.12, C:0.02, G:0.42, T:0.45
Consensus pattern (24 bp):
GGTTTAGGTTTGGGTTTAGGTTTA
Found at i:94454 original size:7 final size:6
Alignment explanation
Indices: 94397--94459 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
94387 CGATTAGGGG
* * *
94397 TTAGGT TTAGGT TTAGGT TTGGGT TTAGGT TCAGGT TCAGG- TTAGGT
1 TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT TTAGGT
94444 TTAGAGT TTAGGT TTA
1 TTAG-GT TTAGGT TTA
94460 AGTTAGGGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.08
6 41 0.80
7 6 0.12
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.46
Consensus pattern (6 bp):
TTAGGT
Found at i:95182 original size:16 final size:15
Alignment explanation
Indices: 95142--95244 Score: 65
Period size: 16 Copynumber: 6.7 Consensus size: 15
95132 TAATTTTTTA
95142 AATTAACTATT-T-AT
1 AATTAA-TATTATAAT
95156 AATTAATATTATAAT
1 AATTAATATTATAAT
95171 AATTATATATTATAATT
1 AATTA-ATATTATAA-T
95188 AATATTAATATTA-AATT
1 -A-ATTAATATTATAA-T
*
95205 ATATTAATATAAT-AT
1 A-ATTAATATTATAAT
* *
95220 AGTTTATAATT-T-AT
1 AATTAAT-ATTATAAT
95234 AATTAATATTA
1 AATTAATATTA
95245 ATATAAAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
13 7 0.09
14 19 0.26
15 11 0.15
16 21 0.28
17 5 0.07
18 7 0.09
19 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
AATTAATATTATAAT
Found at i:95184 original size:7 final size:7
Alignment explanation
Indices: 95152--95263 Score: 50
Period size: 6 Copynumber: 17.0 Consensus size: 7
95142 AATTAACTAT
95152 TTATA-A
1 TTATATA
95158 TTA-ATA
1 TTATATA
95164 TTATAATAA
1 TTAT-AT-A
95173 TTATATA
1 TTATATA
95180 TTATA-A
1 TTATATA
95186 TTA-ATA
1 TTATATA
95192 TTA-ATA
1 TTATATA
95198 TTA-A-A
1 TTATATA
95203 TTATAT-
1 TTATATA
*
95209 TAATATA
1 TTATATA
*
95216 ATATAGT-
1 TTATA-TA
95223 TTATA-A
1 TTATATA
95229 TT-TATAA
1 TTATAT-A
95236 TTA-ATA
1 TTATATA
95242 TTAATATA
1 TT-ATATA
**
95250 AAATATA
1 TTATATA
*
95257 GTATATA
1 TTATATA
95264 ACATTAATAT
Statistics
Matches: 83, Mismatches: 8, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
5 8 0.10
6 33 0.40
7 29 0.35
8 8 0.10
9 5 0.06
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (7 bp):
TTATATA
Found at i:95188 original size:28 final size:28
Alignment explanation
Indices: 95152--95244 Score: 94
Period size: 28 Copynumber: 3.5 Consensus size: 28
95142 AATTAACTAT
95152 TTATAATTAATATTATAATAATTATATA
1 TTATAATTAATATTATAATAATTATATA
95180 TTATAATTAATA-T-TAAT-ATTA-A-A
1 TTATAATTAATATTATAATAATTATATA
* *
95203 TTAT-ATTAATATAAT-ATAGTTTATAAT-
1 TTATAATTAATATTATAATA-ATTAT-ATA
95230 TTATAATTAATATTA
1 TTATAATTAATATTA
95245 ATATAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
22 7 0.13
23 7 0.13
24 2 0.04
25 7 0.13
26 4 0.07
27 6 0.11
28 21 0.39
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
TTATAATTAATATTATAATAATTATATA
Found at i:95273 original size:31 final size:29
Alignment explanation
Indices: 95230--95418 Score: 123
Period size: 31 Copynumber: 6.0 Consensus size: 29
95220 AGTTTATAAT
95230 TTAT-AATTAATATTAATATAAAATATAG
1 TTATAAATTAATATTAATATAAAATATAG
*
95258 TATATAACATTAATATTAATATAAACTATATG
1 T-TATAA-ATTAATATTAATATAAAATATA-G
* *
95290 TTATAAATTATATAGTATAGTTTATAAACTATAG
1 TTATAAATTA-ATA-T-TA--ATATAAAATATAG
95324 TTAATATAATTAATATTAATAT--AATATAG
1 TT-ATA-AATTAATATTAATATAAAATATAG
*
95353 TTTATAAACTATATACTATATTAATATAAATTATAG
1 -TTAT-AA--AT-TA--ATATTAATATAAAATATAG
* * *
95389 TTAAGATAATTAACATTAATATAAACTATA
1 TT-ATA-AATTAATATTAATATAAAATATA
95419 TAGTACATTA
Statistics
Matches: 131, Mismatches: 8, Indels: 41
0.73 0.04 0.23
Matches are distributed among these distances:
28 1 0.01
29 12 0.09
30 8 0.06
31 50 0.38
32 5 0.04
33 6 0.05
34 16 0.12
35 20 0.15
36 13 0.10
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (29 bp):
TTATAAATTAATATTAATATAAAATATAG
Found at i:95314 original size:14 final size:14
Alignment explanation
Indices: 95297--95358 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
95287 ATGTTATAAA
*
95297 TTATATAGTATAGT
1 TTATATAATATAGT
95311 TTATA-AACTATAGT
1 TTATATAA-TATAGT
*
95325 TAATATAATTAATA-T
1 TTATATAA-T-ATAGT
*
95340 TAATATAATATAGT
1 TTATATAATATAGT
95354 TTATA
1 TTATA
95359 AACTATATAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.10
14 21 0.52
15 12 0.30
16 3 0.08
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (14 bp):
TTATATAATATAGT
Found at i:95344 original size:15 final size:15
Alignment explanation
Indices: 95324--95412 Score: 56
Period size: 15 Copynumber: 5.6 Consensus size: 15
95314 TAAACTATAG
95324 TTAATATAATTAATA
1 TTAATATAATTAATA
*
95339 TTAATATAATATAGTTTA
1 TTAATATAAT-TA--ATA
* *
95357 TAAACTATATACT-ATA
1 TTAA-TATA-ATTAATA
95373 TTAATATAAATT-ATA
1 TTAATAT-AATTAATA
* *
95388 GTTAAGATAATTAACA
1 -TTAATATAATTAATA
95404 TTAATATAA
1 TTAATATAA
95413 ACTATATAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 16
0.70 0.11 0.20
Matches are distributed among these distances:
15 30 0.53
16 16 0.28
18 5 0.09
19 5 0.09
20 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TTAATATAATTAATA
Found at i:95347 original size:131 final size:133
Alignment explanation
Indices: 95192--95454 Score: 333
Period size: 131 Copynumber: 2.0 Consensus size: 133
95182 ATAATTAATA
** *
95192 TTAATATTAAATTATATTAATATAATATAGTTTATAATTTATA-ATTAATATTAATATAAAATAT
1 TTAATATTAAATTATATTAATATAATATAGTTTATAAACTATATACT-ATATTAATATAAAATAT
* * * * *
95256 AGTATATA-A-CATTAATATTAATATAAACTATAT-GT-TATAAATTATATAGTATAGTTTATAA
65 AGT-TA-AGATAATTAACATTAATATAAACTATATAGTACATAAA-TATAAACTATAGTTTATAA
95317 ACTATAG
127 ACTATAG
*
95324 TTAATA-T-AATTAATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAATTAT
1 TTAATATTAAATT-ATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAAATAT
* *
95387 AGTTAAGATAATTAACATTAATATAAACTATATAGTACATTAATATAAACTATAGTTTATAAATT
65 AGTTAAGATAATTAACATTAATATAAACTATATAGTACATAAATATAAACTATAGTTTATAAACT
95452 ATA
130 ATA
95455 TACCATAGGT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
129 1 0.01
130 7 0.06
131 70 0.61
132 32 0.28
133 4 0.04
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (133 bp):
TTAATATTAAATTATATTAATATAATATAGTTTATAAACTATATACTATATTAATATAAAATATA
GTTAAGATAATTAACATTAATATAAACTATATAGTACATAAATATAAACTATAGTTTATAAACTA
TAG
Found at i:95442 original size:20 final size:21
Alignment explanation
Indices: 95401--95442 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
95391 AAGATAATTA
95401 ACATTAATATAAACTATATAGT
1 ACATTAATATAAAC-ATATAGT
95423 ACATTAATATAAAC-TATAGT
1 ACATTAATATAAACATATAGT
95443 TTATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.36
Consensus pattern (21 bp):
ACATTAATATAAACATATAGT
Found at i:95552 original size:20 final size:22
Alignment explanation
Indices: 95522--95613 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 22
95512 AACTATAGGT
95522 TACATAT--ATAGTT-TATATA
1 TACATATAAATAGTTATATATA
*
95541 -ACATATAAATAGATTGTATATA
1 TACATATAAATAG-TTATATATA
*
95563 TACATATACTATAGGTTATATATA
1 TACATATA-AATA-GTTATATATA
* *
95587 TACACTATACATAGTT-TATACA
1 TACA-TATAAATAGTTATATATA
95609 TACAT
1 TACAT
95614 GATACATGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
18 6 0.10
20 4 0.07
21 3 0.05
22 15 0.25
23 10 0.16
24 18 0.30
25 5 0.08
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (22 bp):
TACATATAAATAGTTATATATA
Found at i:95582 original size:22 final size:23
Alignment explanation
Indices: 95535--95620 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 23
95525 ATATATAGTT
* * *
95535 TATATA-ACATATAAATAGATTG
1 TATATATACATATACATAGGTTA
95557 TATATATACATATACTATAGGTTA
1 TATATATACATATAC-ATAGGTTA
95581 TATATATACACTATACATA-GTT-
1 TATATATACA-TATACATAGGTTA
*
95603 TATACATACATGATACAT
1 TATATATACAT-ATACAT
95621 GTACTATAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
21 1 0.02
22 21 0.38
23 10 0.18
24 19 0.34
25 5 0.09
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.38
Consensus pattern (23 bp):
TATATATACATATACATAGGTTA
Found at i:95657 original size:37 final size:37
Alignment explanation
Indices: 95609--95679 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
95599 AGTTTATACA
*
95609 TACATGATACATGTACTATAAGTTACA-TATATAGTT
1 TACATGATACATATACTATAAGTTACATTATATAGTT
* *
95645 TACATGTATACATATATTATAGGTTACATTATATA
1 TACATG-ATACATATACTATAAGTTACATTATATA
95680 TATTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 6 0.20
37 18 0.60
38 6 0.20
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (37 bp):
TACATGATACATATACTATAAGTTACATTATATAGTT
Found at i:95671 original size:24 final size:23
Alignment explanation
Indices: 95638--95682 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
95628 AAGTTACATA
*
95638 TATAGTTTACATGTATACATATAT
1 TATAGGTTACAT-TATACATATAT
*
95662 TATAGGTTACATTATATATAT
1 TATAGGTTACATTATACATAT
95683 TAAATATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.47
Consensus pattern (23 bp):
TATAGGTTACATTATACATATAT
Found at i:95749 original size:8 final size:7
Alignment explanation
Indices: 95697--95762 Score: 64
Period size: 7 Copynumber: 9.6 Consensus size: 7
95687 TATTGTTTAT
*
95697 GTTTAGT
1 GTTTAGG
*
95704 GTTTAGA
1 GTTTAGG
95711 GTTTAGG
1 GTTTAGG
*
95718 G-TTAAG
1 GTTTAGG
*
95724 TTTTAGG
1 GTTTAGG
*
95731 TTTTA-G
1 GTTTAGG
95737 GTTTAAGG
1 GTTT-AGG
95745 GTTTAGG
1 GTTTAGG
95752 GTTTAGG
1 GTTTAGG
95759 GTTT
1 GTTT
95763 TTATAAACTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
6 8 0.16
7 37 0.74
8 5 0.10
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:95908 original size:35 final size:36
Alignment explanation
Indices: 95868--95941 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
95858 TATACTATAC
*
95868 ATAGTTT-ATACATACATGTACTATAAGTTACATAT
1 ATAGTTTAATACATACATATACTATAAGTTACATAT
**
95903 ATAGTTTACATGTATACATATACTATAAGTTACATAT
1 ATAGTTTA-ATACATACATATACTATAAGTTACATAT
95940 AT
1 AT
95942 TAACTATTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
37 27 0.79
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (36 bp):
ATAGTTTAATACATACATATACTATAAGTTACATAT
Found at i:96243 original size:79 final size:79
Alignment explanation
Indices: 96160--96360 Score: 219
Period size: 79 Copynumber: 2.5 Consensus size: 79
96150 CTTTAATATA
* * *
96160 TATATATATTCTATA-TAT-TACTTATATTTGTTATACATACATACATATACTATATTAATATAA
1 TATATATATTATATAGTATATACATATA-TAGTT-TACATACATACATATACTATATTAATATAA
*
96223 ATTATAACATATAAAC
64 ATAATAACATATAAAC
* * * * *
96239 TATATATTTTATATAGTTTATACATATATAGTTTATATATATATATATACTATATTAATATAAAT
1 TATATATATTATATAGTATATACATATATAGTTTACATACATACATATACTATATTAATATAAAT
***
96304 AATATTTTATAAAC
66 AATAACATATAAAC
* * *
96318 TATATACT-TTTTATAGTTTATACATATATAGTTTATATACATA
1 TATATA-TATTATATAGTATATACATATATAGTTTACATACATA
96361 GTTTATATGT
Statistics
Matches: 105, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
79 91 0.87
80 7 0.07
81 7 0.07
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (79 bp):
TATATATATTATATAGTATATACATATATAGTTTACATACATACATATACTATATTAATATAAAT
AATAACATATAAAC
Found at i:96285 original size:17 final size:15
Alignment explanation
Indices: 96248--96283 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
96238 CTATATATTT
96248 TATATAGTTTATACA
1 TATATAGTTTATACA
*
96263 TATATAGTTTATATA
1 TATATAGTTTATACA
96278 TATATA
1 TATATA
96284 TATACTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:96349 original size:15 final size:14
Alignment explanation
Indices: 96329--96431 Score: 70
Period size: 13 Copynumber: 7.1 Consensus size: 14
96319 ATATACTTTT
96329 TATAGTTTATACATA
1 TATAGTTTATA-ATA
96344 TATAGTTTAT-ATA
1 TATAGTTTATAATA
* *
96357 CATAGTTTAT-ATG
1 TATAGTTTATAATA
*
96370 TATAGTTCACATAA-A
1 TATAGTT--TATAATA
* *
96385 CATAATTTAT-ATA
1 TATAGTTTATAATA
96398 TATAGCTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
96416 TATAGTTTATAATA
1 TATAGTTTATAATA
96430 TA
1 TA
96432 AATATAGTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 19
0.70 0.10 0.19
Matches are distributed among these distances:
12 1 0.01
13 26 0.38
14 6 0.09
15 22 0.32
16 4 0.06
17 3 0.04
18 7 0.10
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:96436 original size:18 final size:18
Alignment explanation
Indices: 96392--96513 Score: 77
Period size: 18 Copynumber: 7.2 Consensus size: 18
96382 AAACATAATT
*
96392 TATATATATAGCTTATAA
1 TATATATATAGTTTATAA
96410 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
96428 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
* * * *
96446 TTTTATATACAGTTGA-CA
1 -TATATATATAGTTTATAA
*
96464 TA-A-ATATA-ATT-T-A
1 TATATATATAGTTTATAA
96477 TA-A-ATATAGTTTATAA
1 TATATATATAGTTTATAA
96493 TA-ATTATATAGTTTAT-A
1 TATA-TATATAGTTTATAA
96510 TATA
1 TATA
96514 ATTTTATATT
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
13 9 0.11
14 3 0.04
15 5 0.06
16 5 0.06
17 5 0.06
18 43 0.52
19 12 0.15
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:96481 original size:13 final size:13
Alignment explanation
Indices: 96463--96492 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
96453 TACAGTTGAC
96463 ATAAATATAATTT
1 ATAAATATAATTT
*
96476 ATAAATATAGTTT
1 ATAAATATAATTT
96489 ATAA
1 ATAA
96493 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
ATAAATATAATTT
Found at i:96525 original size:18 final size:19
Alignment explanation
Indices: 96480--96537 Score: 86
Period size: 18 Copynumber: 3.2 Consensus size: 19
96470 TAATTTATAA
96480 ATATAGTTTATA-ATAATT
1 ATATAGTTTATATATAATT
96498 ATATAGTTTATATATAATT
1 ATATAGTTTATATATAATT
*
96517 TTATA-TTTATATAT-ATT
1 ATATAGTTTATATATAATT
96534 ATAT
1 ATAT
96538 TTTTTTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 6 0.16
18 21 0.57
19 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATATAGTTTATATATAATT
Found at i:96526 original size:83 final size:84
Alignment explanation
Indices: 96373--96537 Score: 237
Period size: 83 Copynumber: 2.0 Consensus size: 84
96363 TTATATGTAT
*
96373 AGTTCACATAAACATAATTTATATATATAGCTTATAATAATTATATAGTTTATAATATAAATATA
1 AGTTCACATAAACATAATTTATAAATATAGCTTATAATAATTATATAGTTTATAATATAAATATA
*
96438 GTTTATA-ATTTTATATAC
66 GTTTATATATATTATATAC
* * * *
96456 AGTTGACATAAATATAATTTATAAATATAGTTTATAATAATTATATAGTTTAT-ATATAATTTTA
1 AGTTCACATAAACATAATTTATAAATATAGCTTATAATAATTATATAGTTTATAATATAA--ATA
96520 TA-TTTATATATATTATAT
64 TAGTTTATATATATTATAT
96538 TTTTTTCAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
82 6 0.08
83 55 0.75
84 12 0.16
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (84 bp):
AGTTCACATAAACATAATTTATAAATATAGCTTATAATAATTATATAGTTTATAATATAAATATA
GTTTATATATATTATATAC
Found at i:98755 original size:20 final size:20
Alignment explanation
Indices: 98732--98775 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
98722 AAATTTTAAG
98732 TTTTTGA-TATTTTTCTGTAA
1 TTTTTGATTATTTTTCTG-AA
*
98752 TTTTTTATTATTTTTCTGAA
1 TTTTTGATTATTTTTCTGAA
98772 TTTT
1 TTTT
98776 CATACTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTGATTATTTTTCTGAA
Found at i:102298 original size:185 final size:185
Alignment explanation
Indices: 102082--102451 Score: 561
Period size: 184 Copynumber: 2.0 Consensus size: 185
102072 AATTAAATGT
*
102082 TTTTAATTCAAAAAAAAAAGTTTCTAATTAATTTAAATAATATATAATTATAAAATAAAAATTTC
1 TTTTAATT-AAAAAAAAAAGTTTCTAATTAATTTAAATAATATATAAATATAAAAT-AAAATTTC
*
102147 AGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATAAA
64 AGATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATAAA
*
102212 TT-AGATTTTAAATAGTTT-GGACTTAG-TCCATATGTTATATATAATATATATAATATA
129 TTGAG-TTTTAAATAGTTTAGG-CTGAGCT-CATATGTTATATATAATATATATAATATA
*
102269 TTTTAATT-AAAAAAACAGTTTAC-AATTAATTTAAATAATATATAAATATAAAATAAAATTTCA
1 TTTTAATTAAAAAAAAAAGTTT-CTAATTAATTTAAATAATATATAAATATAAAATAAAATTTCA
* * * *
102332 TATAATTTTTTTAATTAATTAATATTGATTTAGGTTTAAAATTTATTGGATATTAAATTATTAAT
65 GATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATAAAT
* *
102397 TGAGTTTTAAATGGTTTAGGCTGAGCTCATATGTTATATATAATATATTTAATAT
130 TGAGTTTTAAATAGTTTAGGCTGAGCTCATATGTTATATATAATATATATAATAT
102452 TTAAAATTTA
Statistics
Matches: 169, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
184 113 0.67
185 47 0.28
186 1 0.01
187 8 0.05
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (185 bp):
TTTTAATTAAAAAAAAAAGTTTCTAATTAATTTAAATAATATATAAATATAAAATAAAATTTCAG
ATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATAAATT
GAGTTTTAAATAGTTTAGGCTGAGCTCATATGTTATATATAATATATATAATATA
Found at i:102482 original size:9 final size:9
Alignment explanation
Indices: 102459--102492 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
102449 TATTTAAAAT
102459 TTAATTTCGG
1 TTAA-TTCGG
*
102469 TTAATTCTG
1 TTAATTCGG
102478 TTAATTCGG
1 TTAATTCGG
102487 TTAATT
1 TTAATT
102493 AACCGAATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (9 bp):
TTAATTCGG
Found at i:103568 original size:10 final size:10
Alignment explanation
Indices: 103553--103577 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
103543 GAGCTTATAA
103553 TTAGACTTCT
1 TTAGACTTCT
103563 TTAGACTTCT
1 TTAGACTTCT
103573 TTAGA
1 TTAGA
103578 TTTAGTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (10 bp):
TTAGACTTCT
Found at i:105132 original size:16 final size:16
Alignment explanation
Indices: 105111--105141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105101 TGGAAGGAGT
*
105111 AAATATTACTTCAAAA
1 AAATATTAATTCAAAA
105127 AAATATTAATTCAAA
1 AAATATTAATTCAAA
105142 TGATTTAATT
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:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATTAATTCAAAA
Found at i:105202 original size:17 final size:15
Alignment explanation
Indices: 105182--105215 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
105172 TTGATGGAGA
105182 TTATTTAATTATTAATT
1 TTATTTAA-TATT-ATT
105199 TTATTTAATATTATT
1 TTATTTAATATTATT
105214 TT
1 TT
105216 GATATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTAATATTATT
Found at i:106025 original size:12 final size:12
Alignment explanation
Indices: 105997--106033 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
105987 TTCGGTAATC
105997 CCCGCCCCGATTA
1 CCCGCCCCGA-TA
106010 CCCGCCCCGATA
1 CCCGCCCCGATA
*
106022 CCCGACCCGATA
1 CCCGCCCCGATA
106034 AATATTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.19, C:0.54, G:0.16, T:0.11
Consensus pattern (12 bp):
CCCGCCCCGATA
Found at i:108274 original size:32 final size:32
Alignment explanation
Indices: 108187--108266 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
108177 TAACTACTAC
* * * * *
108187 GCATTATTTGAATGC-ACACTAACACTCTTGT
1 GCATTATCTGAATGCAACAATGACTCTGTTGT
*
108218 GCATTATCTGAATGTAACAATGACTCTGTTGT
1 GCATTATCTGAATGCAACAATGACTCTGTTGT
108250 GCATTATCT-AGATGCAA
1 GCATTATCTGA-ATGCAA
108267 TACTGACTAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (32 bp):
GCATTATCTGAATGCAACAATGACTCTGTTGT
Found at i:116199 original size:25 final size:25
Alignment explanation
Indices: 116165--116214 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
116155 TTTATTGATT
116165 GATTTTTATTTCAATAAATTATAAA
1 GATTTTTATTTCAATAAATTATAAA
116190 GATTTTTATTTCAATAAATTATAAA
1 GATTTTTATTTCAATAAATTATAAA
116215 AATCATACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
GATTTTTATTTCAATAAATTATAAA
Found at i:116768 original size:21 final size:21
Alignment explanation
Indices: 116743--116784 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
116733 CCCCCTAATT
116743 CTAATGGATTCCAGCGAACCA
1 CTAATGGATTCCAGCGAACCA
116764 CTAATGGATTCCAGCGAACCA
1 CTAATGGATTCCAGCGAACCA
116785 AACGCCATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (21 bp):
CTAATGGATTCCAGCGAACCA
Found at i:118640 original size:23 final size:22
Alignment explanation
Indices: 118614--118656 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
118604 TATAAAAAAT
118614 TATTTGTTATTAAATATTTTTGA
1 TATTTGTTATTAAAT-TTTTTGA
* *
118637 TATTTTTTATTTAATTTTTT
1 TATTTGTTATTAAATTTTTT
118657 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (22 bp):
TATTTGTTATTAAATTTTTTGA
Found at i:123562 original size:65 final size:64
Alignment explanation
Indices: 123448--123591 Score: 179
Period size: 65 Copynumber: 2.2 Consensus size: 64
123438 TGCACTAAGA
123448 GTGCATCGATGCATAAAATGCATTCGATGTTTTGAAATAGCCTGAGTGCATCGATGCATGG-TCT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTT-AAATAGCCTGAGTGCATCGATGCATGGAT-T
*
123512 T
64 G
*
123513 GTGCATCGATGCATAAAATGCATTCGATGTTCAATT-AAT-TCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTT---TTAAATAGCC-TGAGTGCATCGATGCATGGA
123575 TTG
62 TTG
*
123578 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
123592 CACTTTGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
65 63 0.89
66 6 0.08
68 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTAAATAGCCTGAGTGCATCGATGCATGGATTG
Found at i:126316 original size:21 final size:23
Alignment explanation
Indices: 126261--126316 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
126251 CTGTGTATCG
*
126261 ATGCACATTCAAGGCATGCATCA
1 ATGCACATTCAAGGCATGAATCA
*
126284 GTGCATCA-TCAA-G-ATGAATCA
1 ATGCA-CATTCAAGGCATGAATCA
126305 ATGCACATTCAA
1 ATGCACATTCAA
126317 AGGGATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 2 0.07
21 15 0.54
22 1 0.04
23 8 0.29
24 2 0.07
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (23 bp):
ATGCACATTCAAGGCATGAATCA
Found at i:128365 original size:7 final size:7
Alignment explanation
Indices: 128331--128368 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
128321 GTCAAAGGAA
*
128331 GTCAACA
1 GTCAACG
*
128338 GTCAACA
1 GTCAACG
128345 GTCAACG
1 GTCAACG
128352 GTCAACG
1 GTCAACG
128359 GTCAACG
1 GTCAACG
128366 GTC
1 GTC
128369 GGGTCGGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.32, C:0.29, G:0.24, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:128385 original size:22 final size:24
Alignment explanation
Indices: 128358--128409 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
128348 AACGGTCAAC
*
128358 GGTCAACGGTCGGGTC-G-GGTCG
1 GGTCAACGGTCGAGTCAGCGGTCG
128380 GGTCAACGGTCGAGTCAGTCGGTCG
1 GGTCAACGGTCGAGTCAG-CGGTCG
128405 GGTCA
1 GGTCA
128410 GACCGGTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 15 0.58
23 1 0.04
25 10 0.38
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.19
Consensus pattern (24 bp):
GGTCAACGGTCGAGTCAGCGGTCG
Found at i:135348 original size:17 final size:17
Alignment explanation
Indices: 135326--135359 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
135316 GTCAACTACT
*
135326 TTGACCGTCGATTTGGA
1 TTGACCGTCAATTTGGA
135343 TTGACCGTCAATTTGGA
1 TTGACCGTCAATTTGGA
135360 GGCCTTCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (17 bp):
TTGACCGTCAATTTGGA
Found at i:135530 original size:5 final size:5
Alignment explanation
Indices: 135520--135604 Score: 68
Period size: 5 Copynumber: 16.8 Consensus size: 5
135510 AACGGTCAAC
* *
135520 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
* * *
135569 GGTCG GGTC- GGTC- AGTCG GGT-T GGTCA GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
135605 AGACCGGTTC
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 10 0.15
5 47 0.72
7 8 0.12
ACGTcount: A:0.07, C:0.21, G:0.51, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:135541 original size:22 final size:22
Alignment explanation
Indices: 135513--135579 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
135503 AACGGTCAAC
135513 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
135535 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
135557 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
135579 G
1 G
135580 TCAGTCGGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.09, C:0.22, G:0.51, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:135588 original size:13 final size:14
Alignment explanation
Indices: 135519--135604 Score: 61
Period size: 17 Copynumber: 6.1 Consensus size: 14
135509 CAACGGTCAA
*
135519 CGGTCGGGTCGGGT
1 CGGTCAGGTCGGGT
135533 CGGGTCAACGGTCGGGT
1 C-GGTC-A-GGTCGGGT
* **
135550 CGGGTCGGGTC--AA
1 C-GGTCAGGTCGGGT
*
135563 CGGTCGGGTCGGGT
1 CGGTCAGGTCGGGT
135577 CGGTCA-GTCGGGT
1 CGGTCAGGTCGGGT
*
135590 TGGTCAGGTCGGGT
1 CGGTCAGGTCGGGT
135604 C
1 C
135605 AGACCGGTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
12 9 0.16
13 13 0.23
14 13 0.23
15 8 0.14
17 14 0.25
ACGTcount: A:0.07, C:0.22, G:0.50, T:0.21
Consensus pattern (14 bp):
CGGTCAGGTCGGGT
Found at i:135600 original size:44 final size:44
Alignment explanation
Indices: 135513--135605 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
135503 AACGGTCAAC
*
135513 GGTCAACGGTCGGGTCGGGTCGGGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCGGGTCAACGGTCGGGTCAGGTCG
* *
135557 GGTCAACGGTCGGGTCGGGTC-GGTCAGTCGGGT-TGGTCAGGTCG
1 GGTCAACGGTCGGGTCGGGTCGGGTCA-AC-GGTCGGGTCAGGTCG
135601 GGTCA
1 GGTCA
135606 GACCGGTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 5 0.11
44 36 0.82
45 3 0.07
ACGTcount: A:0.10, C:0.22, G:0.48, T:0.20
Consensus pattern (44 bp):
GGTCAACGGTCGGGTCGGGTCGGGTCAACGGTCGGGTCAGGTCG
Found at i:139782 original size:22 final size:21
Alignment explanation
Indices: 139740--139779 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
139730 GAGTTTATTT
*
139740 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
139761 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
139780 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:141856 original size:45 final size:46
Alignment explanation
Indices: 141771--141858 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
141761 AAATAGCCTG
* * *
141771 AGTGCATCGATGCATGGTCTTGTGCATTGATGCACCAAATGCACTA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCACAAAATGCACTA
* *
141817 AGTGCATTGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCACAAAATGCA
141859 TTCGATGTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 20 0.54
46 17 0.46
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (46 bp):
AGTGCATCGATGCATGGTCATGTGCATCGATGCACAAAATGCACTA
Found at i:143324 original size:23 final size:24
Alignment explanation
Indices: 143285--143329 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
143275 TTAATTACAC
*
143285 AAATAAATCAACGATTT-TTACGA
1 AAATAAATCAACAATTTATTACGA
143308 AAATCAAATCAA-AATTTATTAC
1 AAAT-AAATCAACAATTTATTAC
143330 TGATTTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAATCAACAATTTATTACGA
Found at i:144311 original size:18 final size:17
Alignment explanation
Indices: 144266--144316 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
144256 ATGAAAATAT
*
144266 AAAATTAAGAGATTATTG
1 AAAA-TAAGAAATTATTG
144284 AAAA-AAGAAATTAATTG
1 AAAATAAGAAATT-ATTG
*
144301 AAAATAAGAAAATATT
1 AAAATAAGAAATTATT
144317 ACTTTGAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 7 0.24
17 11 0.38
18 11 0.38
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.27
Consensus pattern (17 bp):
AAAATAAGAAATTATTG
Found at i:148116 original size:136 final size:136
Alignment explanation
Indices: 147872--148140 Score: 493
Period size: 136 Copynumber: 2.0 Consensus size: 136
147862 TGAAGGATAA
147872 ATAGATTCATTTGATTTTTACTTTGGCAGCAAAAGTATTAGTTTTAGTATTGGTAGTCAATCGTC
1 ATAGATTCATTTGATTTTTACTTTGGCAGCAAAAGTATTAGTTTTAGTATTGGTAGTCAATCGTC
*
147937 AACACTTCTTGTTCTTTTGTTTATTTTTTATATTACATTTTTGTTTATAATTCGATATTTAGTTT
66 AACACTTCTTGTTCTTTTGTTTATTTTTTATATTAAATTTTTGTTTATAATTCGATATTTAGTTT
148002 TTAGTT
131 TTAGTT
* *
148008 ATAGATTCATTTGATTTTTACTTTGGCAGCGAAAGTATTAGTTTTAGTATTGGTTGTCAATCGTC
1 ATAGATTCATTTGATTTTTACTTTGGCAGCAAAAGTATTAGTTTTAGTATTGGTAGTCAATCGTC
* *
148073 AACCCTTCTTGTTCTTTTGTTTATTTTTTATATTAAATTTTTGTTTATAATTCGATTTTTAGTTT
66 AACACTTCTTGTTCTTTTGTTTATTTTTTATATTAAATTTTTGTTTATAATTCGATATTTAGTTT
148138 TTA
131 TTA
148141 ATAATTCCAC
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
136 128 1.00
ACGTcount: A:0.23, C:0.10, G:0.13, T:0.54
Consensus pattern (136 bp):
ATAGATTCATTTGATTTTTACTTTGGCAGCAAAAGTATTAGTTTTAGTATTGGTAGTCAATCGTC
AACACTTCTTGTTCTTTTGTTTATTTTTTATATTAAATTTTTGTTTATAATTCGATATTTAGTTT
TTAGTT
Found at i:151242 original size:47 final size:47
Alignment explanation
Indices: 151156--151254 Score: 135
Period size: 47 Copynumber: 2.1 Consensus size: 47
151146 CTATAGTATA
151156 TGTTACTGACAGTTTATACTACATACTGGACACTAAATGTGTCATAC
1 TGTTACTGACAGTTTATACTACATACTGGACACTAAATGTGTCATAC
* * * * * * *
151203 TGTTACTGACAGTTTATACTGCATATTGGGCATTGAATGTGTTATAT
1 TGTTACTGACAGTTTATACTACATACTGGACACTAAATGTGTCATAC
151250 TGTTA
1 TGTTA
151255 TTGGTGGTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (47 bp):
TGTTACTGACAGTTTATACTACATACTGGACACTAAATGTGTCATAC
Found at i:155793 original size:74 final size:73
Alignment explanation
Indices: 155651--155947 Score: 411
Period size: 74 Copynumber: 4.0 Consensus size: 73
155641 GTGAGGCATG
* * *
155651 TTACCTGACCGATATGATGTTTTTAAATA-AATTTTTAAAAGAAGTCAAGTTTGATTTTCAAAGT
1 TTACC-GACCGATATGATGTTTTCAAA-AGAATTTTT-AAAGAAGCCAAGTTTGATTTTCAAAGG
155715 TTTCTTGATGA
63 TTTCTTGATGA
* *
155726 TTACCAGACCGATATGATGTTTTCAAAAGAATCTTTAAAGAAGTCAAGTTTGATTTTCAAAGGTT
1 TTACC-GACCGATATGATGTTTTCAAAAGAATTTTTAAAGAAGCCAAGTTTGATTTTCAAAGGTT
155791 TCTTGATGA
65 TCTTGATGA
* *
155800 TTACTCGACCGGTATGATGTTTTCAAATGAATTTTTAAAGAAGCCAAGTTTGATTTTCAAAGGTT
1 TTAC-CGACCGATATGATGTTTTCAAAAGAATTTTTAAAGAAGCCAAGTTTGATTTTCAAAGGTT
*
155865 TCTTGATAA
65 TCTTGATGA
* *
155874 TTACCCTACCGATATGATG-TTTCAAATGAATTTTGTTAAAGAAGCCAAGTTTGATTTT-AAAGG
1 TTA-CCGACCGATATGATGTTTTCAAAAGAA-TTT-TTAAAGAAGCCAAGTTTGATTTTCAAAGG
155937 TTTCTTGATGA
63 TTTCTTGATGA
155948 GAAAGTCCTT
Statistics
Matches: 205, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
73 11 0.05
74 138 0.67
75 56 0.27
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (73 bp):
TTACCGACCGATATGATGTTTTCAAAAGAATTTTTAAAGAAGCCAAGTTTGATTTTCAAAGGTTT
CTTGATGA
Found at i:155975 original size:20 final size:20
Alignment explanation
Indices: 155950--156014 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
155940 CTTGATGAGA
*
155950 AAGTCCTTCGGGAAATAAGT
1 AAGTCCTTCGGGCAATAAGT
155970 AAGTCCTTCGGGCAATAAGT
1 AAGTCCTTCGGGCAATAAGT
*
155990 AAGTCCTTCAGGCAATAAGT
1 AAGTCCTTCGGGCAATAAGT
156010 AAGTC
1 AAGTC
156015 TTCCGAGCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (20 bp):
AAGTCCTTCGGGCAATAAGT
Found at i:156474 original size:245 final size:240
Alignment explanation
Indices: 155987--156495 Score: 682
Period size: 240 Copynumber: 2.1 Consensus size: 240
155977 TCGGGCAATA
* * * *
155987 AGTAAGTCCTTCAGGCAAT-AAGTAAGTCTTCCGAGCATGATGATTAAATCCTTTGGATCATCTG
1 AGTAAGTCCTCCAGGCCATCAA-TAAGTCTTACGAGCATGATGATTAAATCCTTCGGATCATCTG
* *
156051 AAAGTATTCCGAGCAAGATTATAAGGCCTTCAGACCATCTGTAAGACCTATAGGCATGATGTTTT
65 AAAGTATTCCGAGCAAGATGATAAGGCCTTCAGACCATCTATAAGACCTATAGGCATGATGTTTT
* *
156116 CATATGATATTTGAAAAAAACGAGAAAGCGATTTTTAAAGTTTCTCATTTAATCTTTTCTAAAAA
130 CATATGATATTTGAAAAAAACGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCTAAAAA
* *
156181 TGAAATTATTGAAAATTAAGAAAGTGATTTCTAAAGTTTCTTACTT
195 TGAAATTATTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTT
* * * *
156227 AGTAAGTCCTCCGGGCCATCAATAAGTCTTACGAGCATGATGATTAAATTCTTCGGGTCATCTGT
1 AGTAAGTCCTCCAGGCCATCAATAAGTCTTACGAGCATGATGATTAAATCCTTCGGATCATCTGA
* * * * * * * *
156292 AAGTCTTCTGAGTAAGATGATAAGTCCTTTAGGCCATCTATAAGACCTCTGGGCATGATGTTTTC
66 AAGTATTCCGAGCAAGATGATAAGGCCTTCAGACCATCTATAAGACCTATAGGCATGATGTTTTC
* * *
156357 ATATGATTTTTGAGAAAAAAAAAATGAGAAAGTGATTTTCAAAGTTTCTCATTTAATATTTTCTA
131 ATATGATATTT--G---AAAAAAACGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCTA
*
156422 AAAGTGAAAGTT-TTGAAAAGTAAGAAA-TCGATTTCCAAAGTTTCTTACTT
191 AAAATGAAA-TTATTGAAAAGTAAGAAAGT-GATTTCCAAAGTTTCTTACTT
*
156472 AGTAAGTCCTCAAGGCCATCAATA
1 AGTAAGTCCTCCAGGCCATCAATA
156496 GAGGACTAGT
Statistics
Matches: 233, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
240 119 0.51
241 2 0.01
242 1 0.00
244 1 0.00
245 108 0.46
246 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (240 bp):
AGTAAGTCCTCCAGGCCATCAATAAGTCTTACGAGCATGATGATTAAATCCTTCGGATCATCTGA
AAGTATTCCGAGCAAGATGATAAGGCCTTCAGACCATCTATAAGACCTATAGGCATGATGTTTTC
ATATGATATTTGAAAAAAACGAGAAAGCGATTTTCAAAGTTTCTCATTTAATATTTTCTAAAAAT
GAAATTATTGAAAAGTAAGAAAGTGATTTCCAAAGTTTCTTACTT
Found at i:156920 original size:44 final size:44
Alignment explanation
Indices: 156821--156973 Score: 180
Period size: 44 Copynumber: 3.5 Consensus size: 44
156811 TCTTGACTCA
* * * * * * * * *
156821 TCCATCACATAAGGAGTTGAATCAAAATTATCACTTCACTTGAT
1 TCCATCACATAAGAAGTTGGATCGAAATCACCATTTCGCTCGTT
*
156865 TCAATCACATAAGAAGTTGGATCGAAATCACCATTTCGCTCGTT
1 TCCATCACATAAGAAGTTGGATCGAAATCACCATTTCGCTCGTT
* *
156909 TCCATCTCATAAGAAGTTGGATCGACATCACCATTTCGCTCGTT
1 TCCATCACATAAGAAGTTGGATCGAAATCACCATTTCGCTCGTT
* *
156953 TCCATCACATATGGAGTTGGA
1 TCCATCACATAAGAAGTTGGA
156974 ACAACATCGA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
TCCATCACATAAGAAGTTGGATCGAAATCACCATTTCGCTCGTT
Found at i:158411 original size:9 final size:10
Alignment explanation
Indices: 158397--158445 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
158387 TTATGTTATA
158397 TATATTATTT
1 TATATTATTT
158407 T-TATTATTT
1 TATATTATTT
158416 TATATT-TCTT
1 TATATTAT-TT
*
158426 TGTATCTATTT
1 TATAT-TATTT
158437 TAT-TTATTT
1 TATATTATTT
158446 ATCTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
9 15 0.45
10 12 0.36
11 5 0.15
12 1 0.03
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (10 bp):
TATATTATTT
Found at i:158421 original size:19 final size:21
Alignment explanation
Indices: 158397--158445 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
158387 TTATGTTATA
158397 TATATTATTTT-TAT-TATTT
1 TATATTATTTTGTATCTATTT
158416 TATATT-TCTTTGTATCTATTT
1 TATATTAT-TTTGTATCTATTT
158437 TAT-TTATTT
1 TATATTATTT
158446 ATCTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 7 0.27
21 9 0.35
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (21 bp):
TATATTATTTTGTATCTATTT
Found at i:158528 original size:25 final size:24
Alignment explanation
Indices: 158491--158537 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
158481 TTATTACGTA
158491 TATATTATTTTTACTATCATTTTCC
1 TATATTATTTTTA-TATCATTTTCC
*
158516 TATATT-TTATTTATTTCATTTT
1 TATATTATT-TTTATATCATTTT
158538 TTGTCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (24 bp):
TATATTATTTTTATATCATTTTCC
Found at i:158552 original size:15 final size:14
Alignment explanation
Indices: 158534--158627 Score: 50
Period size: 14 Copynumber: 6.6 Consensus size: 14
158524 ATTTATTTCA
*
158534 TTTTTTGTCTTTAT
1 TTTTTTTTCTTTAT
*
158548 TTTTTATTCTTTTAT
1 TTTTTTTTC-TTTAT
*
158563 TTTATTTTGT-TTTGT
1 TTT-TTTT-TCTTTAT
* *
158578 TTTATTTTATTT-T
1 TTTTTTTTCTTTAT
* *
158591 CTTTTTTAT-TTTCT
1 -TTTTTTTTCTTTAT
*
158605 TTTTGTTTCTTTAT
1 TTTTTTTTCTTTAT
158619 TTTTATTTT
1 TTTT-TTTT
158628 GTTCATTTTA
Statistics
Matches: 61, Mismatches: 11, Indels: 15
0.70 0.13 0.17
Matches are distributed among these distances:
13 11 0.18
14 28 0.46
15 18 0.30
16 3 0.05
17 1 0.02
ACGTcount: A:0.10, C:0.05, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTAT
Found at i:158581 original size:57 final size:57
Alignment explanation
Indices: 158520--158630 Score: 140
Period size: 57 Copynumber: 1.9 Consensus size: 57
158510 TTTTCCTATA
*
158520 TTTTA-TTTA-TTTCATTTTTTGTCTTTATTTTT-TATTCTTT-TATTTTATTTTGTTTTG
1 TTTTATTTTATTTTC-TTTTTTAT-TTTATTTTTGT-TTCTTTAT-TTTTATTTTGTTTTG
*
158577 TTTTATTTTATTTTCTTTTTTATTTTCTTTTTGTTTCTTTATTTTTATTTTGTT
1 TTTTATTTTATTTTCTTTTTTATTTTATTTTTGTTTCTTTATTTTTATTTTGTT
158631 CATTTTATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
57 31 0.65
58 13 0.27
59 4 0.08
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (57 bp):
TTTTATTTTATTTTCTTTTTTATTTTATTTTTGTTTCTTTATTTTTATTTTGTTTTG
Found at i:158607 original size:5 final size:5
Alignment explanation
Indices: 158518--158595 Score: 56
Period size: 5 Copynumber: 16.2 Consensus size: 5
158508 CATTTTCCTA
* * * *
158518 TATTT TA-TT TATTT CATTT T-TTG T-CTT TATTT T-TTAT TCTTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATT-T TATTT TATTT
* * *
158565 TATTT TGTTT TGTTT TATTT TATTT TCTTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
158596 TTATTTTCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
4 11 0.19
5 46 0.78
6 2 0.03
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:158607 original size:11 final size:12
Alignment explanation
Indices: 158582--158608 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
158572 TTTTGTTTTA
158582 TTTTATTTTCTT
1 TTTTATTTTCTT
158594 TTTTATTTTCTT
1 TTTTATTTTCTT
158606 TTT
1 TTT
158609 GTTTCTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTCTT
Found at i:158619 original size:19 final size:17
Alignment explanation
Indices: 158534--158640 Score: 76
Period size: 19 Copynumber: 6.0 Consensus size: 17
158524 ATTTATTTCA
*
158534 TTTTTTG-TCTTTATTT
1 TTTTTTGTTTTTTATTT
*
158550 TTTATTCTTTTATTTTATTT
1 TTT-TT-TGTT-TTTTATTT
*
158570 TGTTTTG--TTTTATTT
1 TTTTTTGTTTTTTATTT
* *
158585 TATTTTCTTTTTTATTT
1 TTTTTTGTTTTTTATTT
158602 TCTTTTTGTTTCTTTATTT
1 T-TTTTTGTTT-TTTATTT
158621 TTATTTTGTTCATTTTATTT
1 TT-TTTTGTT--TTTTATTT
158641 ACTTTTAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
15 13 0.18
16 3 0.04
17 11 0.15
18 10 0.14
19 18 0.25
20 16 0.22
21 1 0.01
ACGTcount: A:0.10, C:0.06, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTTGTTTTTTATTT
Found at i:162508 original size:84 final size:84
Alignment explanation
Indices: 162367--162599 Score: 385
Period size: 84 Copynumber: 2.8 Consensus size: 84
162357 AAAGCACCTT
*
162367 CAACAAAAGTCCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
162432 GGCAAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
*
162451 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGTGTCATTTGCATCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
162516 GGCAAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * ** * *
162535 CAATAAAATACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
162600 AGGCGCATCA
Statistics
Matches: 139, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 139 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (84 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
GGCAAGAAGGGCTATCTGC
Found at i:162608 original size:27 final size:27
Alignment explanation
Indices: 162568--162626 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
162558 TTACACTCAA
162568 CTCAAAGGAACATCATTTGCAACATAG
1 CTCAAAGGAACATCATTTGCAACATAG
**
162595 CTCAAAGGCGCATCATTTGCAACATAG
1 CTCAAAGGAACATCATTTGCAACATAG
162622 CTCAA
1 CTCAA
162627 GGCAAGAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.22
Consensus pattern (27 bp):
CTCAAAGGAACATCATTTGCAACATAG
Found at i:162683 original size:111 final size:111
Alignment explanation
Indices: 162482--162697 Score: 360
Period size: 111 Copynumber: 1.9 Consensus size: 111
162472 GATTACACTC
** * * *
162482 AGCTCAAAGGCGTGTCATTTGCATCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAATACC
1 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
162547 TTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
66 TTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
162593 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
1 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
* * *
162658 TTCGAGTTCGATTACACTTAGCTCAAAGGTACATCATTTG
66 TTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTG
162698 TAGCATACTT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 97 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (111 bp):
AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
TTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
Found at i:162733 original size:84 final size:84
Alignment explanation
Indices: 162593--164023 Score: 1795
Period size: 84 Copynumber: 17.1 Consensus size: 84
162583 TTTGCAACAT
* * * *
162593 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
162658 TTCGAGTTCGATTACACTT
66 TTCGAGTTCGATTACACTC
* * * *
162677 AGCTCAAAGGTACATCATTTGTAGCATA-CTTTAAGGCAAGAAGGGCTATCTACCAACAAAAGAC
1 AGCTCAAAGGCACATCATTTGCAGCATAGC-TCAAGGCAAGAAGGGCTATCTGCCAACAAAAGAC
*
162741 CTTCGAGTTTGATTACACTC
65 CTTCGAGTTCGATTACACTC
* ** * *
162761 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAAAGAAGGTATATATGCCATCAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
162826 TTTGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* * * *
162845 AGCTCAAAGGCAAATCATTTGCATCATATCTCAAGGCAAGAAGGACTATCTGCCAACAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
162910 TTCGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* * * * *
162929 AGCTAAAAGGTACATCATTTGTAGCATAGCTCAAGGCAATAAGGGTTATCTGCCAACAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
162994 TTTGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* * * * * *
163013 AGCTCAAAGGCACATTATTTGCAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-CAAGACG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
163077 TTCGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* * * * * * *
163096 AACTCAAAGCCGCATCATTTGCAGCATAGCTTAAGGCGAGAAGGGATATCTGCCAACGAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
163161 TTCGAGTTCGATTACATTC
66 TTCGAGTTCGATTACACTC
* * * ** * * *
163180 AGCTCCAAGGCACATCATTTACAGCATAACTCAAGGTGAGAAGGGTTATCTGTCAAC-CAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
163244 TTTGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* ** * * * * * * *
163263 AACTCAAAGGTGCGTCATTTACAGTATAGCTTAAGGCGAGAAAGGCTATATGCCAACAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
163328 TTCGAGTTCGATTATACTC
66 TTCGAGTTCGATTACACTC
* * * *
163347 AGCTCAAAGGCACATCATTTGTAGTATAACTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
* *
163412 TTTGAGTTCGATTACACTT
66 TTCGAGTTCGATTACACTC
* * * *
163431 AGCTCAAAGGTACATCATTTACAGCATAGCTCAAAGCAAGAAACGGCTATCTG-C--C-AAAGAC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAG-AAGGGCTATCTGCCAACAAAAGAC
*
163492 CTTAGAGTTCGATTACACTC
65 CTTCGAGTTCGATTACACTC
* * * * * * *
163512 AGCTCAAAGGTACATCATTTGCAGTATAACTCAATGCAAGAAGGGCTATCTGCAAATAAAAGACG
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
163577 TTCGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
* * * * * * * * *
163596 AGATCAAAGGCAAAACATCTACATCATAGCTAAAGGCAAGAAGGGCTATCTACCAACAAAAGACT
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
* *
163661 TTCAAGTTCGATCACACTC
66 TTCGAGTTCGATTACACTC
* *
163680 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAAAGAAGGGCTATCTG-C--C-AAAGACA
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
163741 TTCGAGTTTGATTACACTC
66 TTCGAGTTCGATTACACTC
* * *
163760 AGCTCAAAGGTACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAATACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
* *
163825 TTCTAGTTCGATTAGACTC
66 TTCGAGTTCGATTACACTC
* * * *
163844 AACTCAAAGGAACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTTCCAACAAAAGACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
* *
163909 TTCAAGTTCGATTACTCTC
66 TTCGAGTTCGATTACACTC
* * *
163928 AGCTCAAAGACACATCATTTGCAGCATAGTTCAAGGCAAGAAGGGCTATCTGCCAACAAAATACC
1 AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
*
163993 TCCGAGTTCGATTACACTC
66 TTCGAGTTCGATTACACTC
*
164012 AGCTCTAAGGCA
1 AGCTCAAAGGCA
164024 TAACTCAAGG
Statistics
Matches: 1154, Mismatches: 180, Indels: 26
0.85 0.13 0.02
Matches are distributed among these distances:
80 82 0.07
81 62 0.05
82 1 0.00
83 143 0.12
84 855 0.74
85 11 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (84 bp):
AGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
TTCGAGTTCGATTACACTC
Found at i:162745 original size:195 final size:195
Alignment explanation
Indices: 162398--162794 Score: 607
Period size: 195 Copynumber: 2.0 Consensus size: 195
162388 GATTACACTC
* * *
162398 AGCTCAAAGGCGCGTCATTTGCATCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACC
1 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAAGACC
*** *
162463 TTCGAGTTCGATTACACTCAGCTCAAAGGCGTGTCATTTGCATCATAGCTCAAGGCAAGAAGGGC
66 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGC
* * *
162528 TATCTGCCAATAAAATACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
131 TATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
*
162593 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAATACC
1 AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAAGACC
* * * *
162658 TTCGAGTTCGATTACACTTAGCTCAAAGGTACATCATTTGTAGCATA-CTTTAAGGCAAGAAGGG
66 TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGC-TCAAGGCAAGAAGGG
* * * *
162722 CTATCTACCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCA
130 CTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACA
162787 T
195 T
162788 AGCTCAA
1 AGCTCAA
162795 GGAAAGAAGG
Statistics
Matches: 182, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
194 1 0.01
195 181 0.99
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (195 bp):
AGCTCAAAGGCGCATCATTTGCAACATAGCTCAAGGCAAGAAGGGCTATCTACCAACAAAAGACC
TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGC
TATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTGCAACAT
Found at i:162867 original size:279 final size:279
Alignment explanation
Indices: 162367--162878 Score: 762
Period size: 279 Copynumber: 1.8 Consensus size: 279
162357 AAAGCACCTT
* * *
162367 CAACAAAAGTCCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCGTCATTTGCATCATAGCTCAA
1 CAACAAAAGTCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* ***
162432 GGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGTGT
66 GGCAAGAAGGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * *
162497 CATTTGCATCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAATACCTTCGAGTTCGATTAC
131 CATTTGCAGCATAGCTCAAGGAAAGAAGGGATATATGCCAATAAAAGACCTTCGAGTTCGATTAC
162562 ACTCAACTCAAAGGAACATCATTTGCAACATAGCTCAAAGGCGCATCATTTGCAACATAGCTCAA
196 ACTCAACTCAAAGGAACATCATTTGCAACATAGCTCAAAGGCGCATCATTTGCAACATAGCTCAA
162627 GGCAAGAAGGGCTATCTAC
261 GGCAAGAAGGGCTATCTAC
* * * *
162646 CAACAAAA-TACCTTCGAGTTCGATTACACTTAGCTCAAAGGTACATCATTTGTAGCATA-CTTT
1 CAACAAAAGT-CCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGC-TC
*
162709 AAGGCAAGAAGGGCTATCTACCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCAC
64 AAGGCAAGAAGGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC
* *
162774 ATCATTTGCAGCATAGCTCAAGGAAAGAAGGTATATATGCC-ATCAAAAGACCTTTGAGTTCGAT
129 ATCATTTGCAGCATAGCTCAAGGAAAGAAGGGATATATGCCAAT-AAAAGACCTTCGAGTTCGAT
* * *
162838 TACACTCAGCTCAAAGGCAA-ATCATTTGCATCATATCTCAA
193 TACACTCAACTCAAAGG-AACATCATTTGCAACATAGCTCAA
162879 GGCAAGAAGG
Statistics
Matches: 207, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
278 4 0.02
279 201 0.97
280 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (279 bp):
CAACAAAAGTCCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
GGCAAGAAGGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
CATTTGCAGCATAGCTCAAGGAAAGAAGGGATATATGCCAATAAAAGACCTTCGAGTTCGATTAC
ACTCAACTCAAAGGAACATCATTTGCAACATAGCTCAAAGGCGCATCATTTGCAACATAGCTCAA
GGCAAGAAGGGCTATCTAC
Found at i:165746 original size:14 final size:14
Alignment explanation
Indices: 165729--165966 Score: 103
Period size: 14 Copynumber: 16.5 Consensus size: 14
165719 GTTATAAATA
165729 TTATTTTTTTTATT
1 TTATTTTTTTTATT
165743 TTATTTTTCTTTATAT
1 TTATTTTT-TTTAT-T
* *
165759 CTATTTTATTTATT
1 TTATTTTTTTTATT
*
165773 TATCTATTTTTTTATCT
1 T-TAT-TTTTTTTAT-T
165790 TCT-TCTTTCTTTTA-T
1 T-TAT-TTT-TTTTATT
*
165805 TTA-TTTATTTA-T
1 TTATTTTTTTTATT
* * * * *
165817 TAATTATGTATATA
1 TTATTTTTTTTATT
**
165831 TTATTTTTACTATT
1 TTATTTTTTTTATT
* * *
165845 ATCATTTTCCTATATT
1 -TTATTTT-TTTTATT
* *
165861 TTATTTATTTCATT
1 TTATTTTTTTTATT
*
165875 TT-TTTGTCTTTATTTT
1 TTATTT-T-TTT-TATT
*
165891 TTATTCTTTTTATT
1 TTATTTTTTTTATT
*
165905 TTATTTTGTTTATT
1 TTATTTTTTTTATT
*
165919 TTATTTTGTTTATT
1 TTATTTTTTTTATT
*
165933 TTA-TTTCTTTATT
1 TTATTTTTTTTATT
*
165946 TTATTTTTGTTT-CT
1 TTATTTTT-TTTATT
165960 TTATTTT
1 TTATTTT
165967 CATTTTGTTC
Statistics
Matches: 169, Mismatches: 38, Indels: 34
0.70 0.16 0.14
Matches are distributed among these distances:
12 7 0.04
13 23 0.14
14 67 0.40
15 34 0.20
16 28 0.17
17 10 0.06
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTTTTTTTATT
Found at i:165778 original size:17 final size:16
Alignment explanation
Indices: 165756--165814 Score: 57
Period size: 17 Copynumber: 3.6 Consensus size: 16
165746 TTTTTCTTTA
165756 TATCTATTTTATTTATT
1 TATCTATTTT-TTTATT
165773 TATCTATTTTTTTATCT
1 TATCTATTTTTTTAT-T
* *
165790 TCTTCT-TTCTTTTATT
1 T-ATCTATTTTTTTATT
*
165806 TATTTATTT
1 TATCTATTT
165815 ATTAATTATG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 20 0.59
18 3 0.09
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
TATCTATTTTTTTATT
Done.