Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 41
Found at i:251 original size:20 final size:20
Alignment explanation
Indices: 226--291 Score: 98
Period size: 20 Copynumber: 3.3 Consensus size: 20
216 ATGTATACTT
226 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
246 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCTAAACTCAAAA
* *
266 TCGCAAAGCGAAAGC-CAAAA
1 TCGCAACGCTAAA-CTCAAAA
286 TCGCAA
1 TCGCAA
292 AGTGAAAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (20 bp):
TCGCAACGCTAAACTCAAAA
Found at i:292 original size:20 final size:21
Alignment explanation
Indices: 226--299 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 21
216 ATGTATACTT
* *
226 TCGCAACGCTAAA-CTCAAAA
1 TCGCAAAGCGAAAGCTCAAAA
* *
246 TCGCAACGCTAAA-CTCAAAA
1 TCGCAAAGCGAAAGCTCAAAA
266 TCGCAAAGCGAAAGC-CAAAA
1 TCGCAAAGCGAAAGCTCAAAA
*
286 TCGCAAAGTGAAAG
1 TCGCAAAGCGAAAG
300 TCATTCGCGT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.46, C:0.26, G:0.16, T:0.12
Consensus pattern (21 bp):
TCGCAAAGCGAAAGCTCAAAA
Found at i:454 original size:20 final size:20
Alignment explanation
Indices: 360--456 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
350 GCGATTTTCT
* *
360 CGTTGCGATAGACAAATTCC
1 CGTTGCGATAGTCAAATTCA
*
380 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCA
* *
400 CGTTGGGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
420 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
440 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
457 GAATGTGTAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:3623 original size:17 final size:17
Alignment explanation
Indices: 3597--3634 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
3587 CGGATGGGGA
3597 AGGATATCGTTGGATAT
1 AGGATATCGTTGGATAT
*
3614 AGGATGTCGTTGGATAT
1 AGGATATCGTTGGATAT
3631 AGGA
1 AGGA
3635 ACAGATGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (17 bp):
AGGATATCGTTGGATAT
Found at i:3806 original size:20 final size:20
Alignment explanation
Indices: 3778--3825 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3768 GAAATTCAGT
*
3778 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCAC
*
3798 GTTGTGATAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCAC
3818 GTTGCGAT
1 GTTGCGAT
3826 TTTGTATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCAC
Found at i:3843 original size:21 final size:21
Alignment explanation
Indices: 3817--3869 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3807 GTCAGAATCA
*
3817 CGTTGCGATTTTGTAT-TATCG
1 CGTTGCGATTTTATATAT-TCG
3838 CGTTGCGA-TTTATATATTCG
1 CGTTGCGATTTTATATATTCG
*
3858 CATTGCGATTTT
1 CGTTGCGATTTT
3870 CTAAAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (21 bp):
CGTTGCGATTTTATATATTCG
Found at i:3886 original size:21 final size:21
Alignment explanation
Indices: 3862--3902 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3852 TATTCGCATT
* *
3862 GCGATTTTCTAAAATCGCAAC
1 GCGAATTTCGAAAATCGCAAC
*
3883 GCGAATTTGGAAAATCGCAA
1 GCGAATTTCGAAAATCGCAA
3903 TGGGATAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
GCGAATTTCGAAAATCGCAAC
Found at i:9548 original size:75 final size:76
Alignment explanation
Indices: 9405--9546 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 76
9395 ATATGATAAA
* *
9405 CACAAATAAAATTTTAGAATAGACATCATCAGTAAAATAGATAATTAATTGAAAAAAACTTGAAT
1 CACAAATAAAATTTCAGAATAGACATCATCAGTAAAATAAATAATTAATTGAAAAAAACTTGAAT
9470 TTTAAGATGAG
66 TTTAAGATGAG
* * *
9481 CACAAATAAAATTTCA-AGTAGATA-CAATCAGTAAAATAAATAATTAATT-AAAGAAAA-TTTA
1 CACAAATAAAATTTCAGAATAGACATC-ATCAGTAAAATAAATAATTAATTGAAA-AAAACTTGA
9542 ATTTT
64 ATTTT
9547 TAGGGTGTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
74 12 0.20
75 32 0.54
76 15 0.25
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (76 bp):
CACAAATAAAATTTCAGAATAGACATCATCAGTAAAATAAATAATTAATTGAAAAAAACTTGAAT
TTTAAGATGAG
Found at i:17966 original size:21 final size:21
Alignment explanation
Indices: 17942--17981 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17932 ATATTAACCT
* *
17942 AAGATAACCAATTTCAAAAGC
1 AAGAAAACCAATTGCAAAAGC
*
17963 AAGAAAACTAATTGCAAAA
1 AAGAAAACCAATTGCAAAA
17982 TAAAATCTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.15, G:0.10, T:0.17
Consensus pattern (21 bp):
AAGAAAACCAATTGCAAAAGC
Found at i:20710 original size:247 final size:243
Alignment explanation
Indices: 20374--20852 Score: 699
Period size: 247 Copynumber: 1.9 Consensus size: 243
20364 CCGACCCGAC
** * * *
20374 CCGACCCGAATATATGAATTAGAAATTCGACCCGACCCGAAATAAAAATATATTTTTTTTCAATA
1 CCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGAAATAAAAAAAAATTTTTTTTCAATA
* * *
20439 AAAACAGTGTCTTAATTGAAAAAAATTATATATAGAGGGGTATTATTATAATTATTCATAAATAT
66 AAAACAGTGACTTAATTGAAAAAAATAATAAATAGAGGGGTATTATTATAATTATTCATAAATAT
* * *
20504 ATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACT-CGACCCG
131 ATAAGGTAAAATTATATATATTTTCGGGTCAGATATTTTTCACCCTAAACACGAACTCCGACCCG
20568 AATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTCA
196 AATATCACACTTAAAAAAA-CGACCCGACCCGACCAAAATAAAGTTTCA
*
20617 CCGACCCGAATATATGAATTAGAAACCCGACCCAACCCTAAATAATAAAAAAATTATTGTTATTC
1 CCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGAAATAA-AAAAAAATT-TT-TT-TTC
* * * *
20682 AATAAAAGCAGTGACTTAATTGAAAAAAATAATAAATATAGGGGTATTATTGTAATTATTCCTAA
62 AATAAAAACAGTGACTTAATTGAAAAAAATAATAAATAGAGGGGTATTATTATAATTATTCATAA
*
20747 ATATATAAGGTAAAATTATATATATTTTCGGGTCAGATATTTTTCACCCTAAACAGGAACTCGAC
127 ATATATAAGGTAAAATTATATATATTTTCGGGTCAGATATTTTTCACCCTAAACACGAACT----
* *
20812 CCGACCCGAATATCATACTTAAAACAACGACCCGACCCGAC
188 CCGACCCGAATATCACACTTAAAAAAACGACCCGACCCGAC
20853 TCGAATATAT
Statistics
Matches: 208, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
243 41 0.20
244 7 0.03
245 2 0.01
246 2 0.01
247 118 0.57
251 14 0.07
252 24 0.12
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (243 bp):
CCGACCCGAATATATGAATTAGAAACCCGACCCAACCCGAAATAAAAAAAAATTTTTTTTCAATA
AAAACAGTGACTTAATTGAAAAAAATAATAAATAGAGGGGTATTATTATAATTATTCATAAATAT
ATAAGGTAAAATTATATATATTTTCGGGTCAGATATTTTTCACCCTAAACACGAACTCCGACCCG
AATATCACACTTAAAAAAACGACCCGACCCGACCAAAATAAAGTTTCA
Found at i:20879 original size:36 final size:36
Alignment explanation
Indices: 20808--20881 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
20798 AACAGGAACT
*
20808 CGACCCGACCCGAATATCATACTTAAAACAACGACC
1 CGACCCGACCCGAATATCATAATTAAAACAACGACC
* *
20844 CGACCCGACTCGAATAT-ATGAATTATAAAC-CCGACC
1 CGACCCGACCCGAATATCAT-AATTA-AAACAACGACC
20880 CG
1 CG
20882 TAATAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 2 0.06
36 27 0.82
37 4 0.12
ACGTcount: A:0.36, C:0.34, G:0.14, T:0.16
Consensus pattern (36 bp):
CGACCCGACCCGAATATCATAATTAAAACAACGACC
Found at i:21943 original size:23 final size:23
Alignment explanation
Indices: 21917--21964 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
21907 CCACATAATA
21917 TTTTTAAATCTACCACCCACCAC
1 TTTTTAAATCTACCACCCACCAC
*
21940 TTTTTAAATCTACCACTCACCAC
1 TTTTTAAATCTACCACCCACCAC
21963 TT
1 TT
21965 ATGATGTATA
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:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (23 bp):
TTTTTAAATCTACCACCCACCAC
Found at i:25306 original size:27 final size:27
Alignment explanation
Indices: 25256--25308 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
25246 CAAGCCTTCA
*
25256 ATCTGCTGAAGCTCCTGCTATTAATTT
1 ATCTGCTGAAGCTACTGCTATTAATTT
* *
25283 ATCTGCTGAAGCTACTGTTCTTAATT
1 ATCTGCTGAAGCTACTGCTATTAATT
25309 ATCCTACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (27 bp):
ATCTGCTGAAGCTACTGCTATTAATTT
Found at i:27131 original size:21 final size:21
Alignment explanation
Indices: 27107--27148 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
27097 ATAATTTTTC
27107 TGCAATGATTACATTCATCCA
1 TGCAATGATTACATTCATCCA
*
27128 TGCAATGATTACATTTATCCA
1 TGCAATGATTACATTCATCCA
27149 GCCTTCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (21 bp):
TGCAATGATTACATTCATCCA
Found at i:33393 original size:7 final size:7
Alignment explanation
Indices: 33381--33406 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33371 AATTCAGGCG
33381 ATTTCAA
1 ATTTCAA
33388 ATTTCAA
1 ATTTCAA
33395 ATTTCAA
1 ATTTCAA
33402 ATTTC
1 ATTTC
33407 CATTCCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTCAA
Found at i:42219 original size:36 final size:34
Alignment explanation
Indices: 42172--42247 Score: 134
Period size: 36 Copynumber: 2.2 Consensus size: 34
42162 ATGTTACAGA
42172 AAAAAAATTATCAATGAAAAATATATAAAAAAAAT
1 AAAAAAATTATCAATGAAAAATATAT-AAAAAAAT
42207 CAAAAAAATTATCAATGAAAAATATATAAAAAAAT
1 -AAAAAAATTATCAATGAAAAATATATAAAAAAAT
42242 AAAAAA
1 AAAAAA
42248 TTTTAGAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 6 0.15
35 8 0.20
36 26 0.65
ACGTcount: A:0.72, C:0.04, G:0.03, T:0.21
Consensus pattern (34 bp):
AAAAAAATTATCAATGAAAAATATATAAAAAAAT
Found at i:42227 original size:13 final size:13
Alignment explanation
Indices: 42173--42239 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 13
42163 TGTTACAGAA
42173 AAAAAATTATCAAT
1 AAAAAA-TATCAAT
*
42187 GAAAAATAT--AT
1 AAAAAATATCAAT
*
42198 AAAAAAAATCAA-
1 AAAAAATATCAAT
*
42210 AAAAATTATCAAT
1 AAAAAATATCAAT
*
42223 GAAAAATAT--AT
1 AAAAAATATCAAT
42234 AAAAAA
1 AAAAAA
42240 ATAAAAAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
11 16 0.38
12 10 0.24
13 11 0.26
14 5 0.12
ACGTcount: A:0.70, C:0.04, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAAAATATCAAT
Found at i:42242 original size:12 final size:12
Alignment explanation
Indices: 42188--42242 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
42178 ATTATCAATG
42188 AAAAATATATAA
1 AAAAATATATAA
*
42200 AAAAA-AT-CAA
1 AAAAATATATAA
42210 AAAAAT-TATCAA
1 AAAAATATAT-AA
42222 TGAAAAATATATAA
1 --AAAAATATATAA
42236 AAAAATA
1 AAAAATA
42243 AAAAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
10 8 0.23
11 2 0.06
12 14 0.40
14 8 0.23
15 3 0.09
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (12 bp):
AAAAATATATAA
Found at i:48774 original size:18 final size:19
Alignment explanation
Indices: 48728--48767 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
48718 TAATTAAATA
* *
48728 AAAATGATATCATATTTTT
1 AAAATAATATCATATATTT
48747 AAAATAATATCATA-ATTT
1 AAAATAATATCATATATTT
48765 AAA
1 AAA
48768 CTCATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
AAAATAATATCATATATTT
Found at i:55831 original size:31 final size:31
Alignment explanation
Indices: 55789--55863 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
55779 CAGTTACGTC
*
55789 AGGGACTATATTGCAAA-AGGACTAAATTTTG
1 AGGGACCATATTGCAAACA-GACTAAATTTTG
55820 AGGGACCATATTGCAAACAGACTAAATTTTG
1 AGGGACCATATTGCAAACAGACTAAATTTTG
*
55851 AGAGACCATATTG
1 AGGGACCATATTG
55864 TAAGTTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (31 bp):
AGGGACCATATTGCAAACAGACTAAATTTTG
Found at i:57838 original size:31 final size:31
Alignment explanation
Indices: 57799--57869 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
57789 CTTTTAAAAC
*
57799 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATAATCCCCCAACATTTAGTCCAT
* ** **
57830 TTGTAATATGGTCCCTTAACATTTAGTCCAT
1 TTGCAATATAATCCCCCAACATTTAGTCCAT
57861 TTGCAATAT
1 TTGCAATAT
57870 GGTCCCTGAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (31 bp):
TTGCAATATAATCCCCCAACATTTAGTCCAT
Found at i:57870 original size:31 final size:31
Alignment explanation
Indices: 57816--57876 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
57806 ATAATCCCCC
* *
57816 AACATTTAGTCCGTTTGTAATATGGTCCCTT
1 AACATTTAGTCCATTTGCAATATGGTCCCTT
57847 AACATTTAGTCCATTTGCAATATGGTCCCT
1 AACATTTAGTCCATTTGCAATATGGTCCCT
57877 GACGTAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (31 bp):
AACATTTAGTCCATTTGCAATATGGTCCCTT
Found at i:69539 original size:28 final size:28
Alignment explanation
Indices: 69507--69590 Score: 168
Period size: 28 Copynumber: 3.0 Consensus size: 28
69497 CTCGATTGAA
69507 GCGAAAGAATGGTTCGCTCTGTGCACAC
1 GCGAAAGAATGGTTCGCTCTGTGCACAC
69535 GCGAAAGAATGGTTCGCTCTGTGCACAC
1 GCGAAAGAATGGTTCGCTCTGTGCACAC
69563 GCGAAAGAATGGTTCGCTCTGTGCACAC
1 GCGAAAGAATGGTTCGCTCTGTGCACAC
69591 CAAAAGGCTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (28 bp):
GCGAAAGAATGGTTCGCTCTGTGCACAC
Found at i:70003 original size:17 final size:15
Alignment explanation
Indices: 69972--70000 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
69962 GTGATATAAA
69972 AAATTATTTTTTATT
1 AAATTATTTTTTATT
69987 AAATTATTTTTTAT
1 AAATTATTTTTTAT
70001 ATTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
AAATTATTTTTTATT
Found at i:70009 original size:23 final size:21
Alignment explanation
Indices: 69975--70018 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
69965 ATATAAAAAA
69975 TTATTTTTTATTAAATTATTTT
1 TTATTTTTTATTAAATT-TTTT
*
69997 TTATATTTTTATTTAATTTTTT
1 TTAT-TTTTTATTAAATTTTTT
70019 AAATAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATTTTTTATTAAATTTTTT
Found at i:70791 original size:38 final size:38
Alignment explanation
Indices: 70748--70829 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
70738 GTATTGATAT
*
70748 CAATTTACACAACCATTGAATGTGTAAGTATTAAAGAC
1 CAATTTACACAACCATTGAATGTGTAAATATTAAAGAC
* *
70786 CAATTTACACAACCATTGAATGTGTAAATATTAAGGAT
1 CAATTTACACAACCATTGAATGTGTAAATATTAAAGAC
70824 CAATTT
1 CAATTT
70830 TAAAATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (38 bp):
CAATTTACACAACCATTGAATGTGTAAATATTAAAGAC
Found at i:74910 original size:2 final size:2
Alignment explanation
Indices: 74903--74938 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
74893 AAATTAACTT
74903 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
74939 AAAGAAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78769 original size:66 final size:66
Alignment explanation
Indices: 78687--78829 Score: 286
Period size: 66 Copynumber: 2.2 Consensus size: 66
78677 ATGACAAAAT
78687 CGGGTATAACATGGAGAAAATTCCAATATTAAACTGCTTATAGAAAAGGAAAACATGGAGAAACT
1 CGGGTATAACATGGAGAAAATTCCAATATTAAACTGCTTATAGAAAAGGAAAACATGGAGAAACT
78752 G
66 G
78753 CGGGTATAACATGGAGAAAATTCCAATATTAAACTGCTTATAGAAAAGGAAAACATGGAGAAACT
1 CGGGTATAACATGGAGAAAATTCCAATATTAAACTGCTTATAGAAAAGGAAAACATGGAGAAACT
78818 G
66 G
78819 CGGGTATAACA
1 CGGGTATAACA
78830 AACCTTTCCG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.21
Consensus pattern (66 bp):
CGGGTATAACATGGAGAAAATTCCAATATTAAACTGCTTATAGAAAAGGAAAACATGGAGAAACT
G
Found at i:83179 original size:10 final size:11
Alignment explanation
Indices: 83164--83202 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
83154 GATCATAGCA
83164 AATAAT-AAAT
1 AATAATAAAAT
83174 AATAATAAAAT
1 AATAATAAAAT
*
83185 AA-AGTAAAAT
1 AATAATAAAAT
83195 AATAATAA
1 AATAATAA
83203 TATATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:85377 original size:211 final size:211
Alignment explanation
Indices: 85078--85643 Score: 943
Period size: 211 Copynumber: 2.7 Consensus size: 211
85068 GCATTGTTCC
* * * * * *
85078 GAGTCCAATACCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
* * * * * * **
85143 CCACCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTTGCAGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
85208 GTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCCGAAATCGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
85273 TGAACTTGCGTTGTCTT
195 TGAACTTGCGTTGTCTG
85290 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
85355 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
85420 TTGAAATTGACTCTGAAATCGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCCGAAATCGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
85485 GAACTTGCGTTGTCTG
196 GAACTTGCGTTGTCTG
85501 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
85566 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
85631 TTGAAATTGGCTC
131 TTGAAATTGGCTC
85644 TCGAGCAAAA
Statistics
Matches: 333, Mismatches: 21, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
211 288 0.86
212 45 0.14
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCCGAAATCGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTG
Found at i:85393 original size:105 final size:106
Alignment explanation
Indices: 85078--85644 Score: 940
Period size: 106 Copynumber: 5.4 Consensus size: 106
85068 GCATTGTTCC
* * * * * *
85078 GAGTCCAATACCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * * * *
85143 CCACCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** * *
85184 GAGTCCAATATCCTTTGCAGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
85249 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
85290 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
85354 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
85395 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATCGAGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
85460 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
85501 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
85565 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
85606 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
85645 CGAGCAAAAT
Statistics
Matches: 435, Mismatches: 25, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
105 194 0.45
106 241 0.55
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:89466 original size:10 final size:11
Alignment explanation
Indices: 89451--89494 Score: 56
Period size: 10 Copynumber: 4.2 Consensus size: 11
89441 GATCATAGCA
89451 AATAAT-AAAT
1 AATAATAAAAT
89461 AATAATAAAAT
1 AATAATAAAAT
*
89472 AA-AGTAAAAT
1 AATAATAAAAT
*
89482 AATAATAATAT
1 AATAATAAAAT
89493 AA
1 AA
89495 AAGGTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
10 15 0.52
11 14 0.48
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:98625 original size:20 final size:20
Alignment explanation
Indices: 98611--98683 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 20
98601 TATTAAATTT
98611 TTTAATATTATATTATAAATA
1 TTTAAT-TTATATTATAAATA
98632 TTTAATTTATATCATATAAATTA
1 TTTAATTTATAT--TATAAA-TA
*
98655 TTTGA--TATATTATTAAA-A
1 TTTAATTTATATTA-TAAATA
98673 TTTATATTTAT
1 TTTA-ATTTAT
98684 TTTAATTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
18 4 0.09
19 3 0.07
20 10 0.23
21 14 0.33
22 6 0.14
23 6 0.14
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTAATTTATATTATAAATA
Found at i:98629 original size:22 final size:22
Alignment explanation
Indices: 98604--98674 Score: 69
Period size: 21 Copynumber: 3.3 Consensus size: 22
98594 AATTAAATAT
*
98604 TAAATTTTTTAATATTATATTA
1 TAAATTATTTAATATTATATTA
98626 TAAA-TATTTAAT-TTATATCATA
1 TAAATTATTTAATATTATAT--TA
*
98648 TAAATTATTTGATA-TATTATTA
1 TAAATTATTTAATATTA-TATTA
98670 -AAATT
1 TAAATT
98675 TATATTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
20 6 0.14
21 12 0.29
22 12 0.29
23 9 0.21
24 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (22 bp):
TAAATTATTTAATATTATATTA
Found at i:101442 original size:24 final size:25
Alignment explanation
Indices: 101412--101461 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
101402 TGTTTTTTTA
101412 TAAAATAAAAATT-TATTTTAAATC
1 TAAAATAAAAATTATATTTTAAATC
**
101436 TAAAATAATTATTAATATTTTAAATC
1 TAAAATAAAAATT-ATATTTTAAATC
101462 ATAAGAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TAAAATAAAAATTATATTTTAAATC
Found at i:104342 original size:2 final size:2
Alignment explanation
Indices: 104335--104359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
104325 TACCCTATGT
104335 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
104360 ATTGAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:126663 original size:151 final size:151
Alignment explanation
Indices: 126352--126732 Score: 565
Period size: 151 Copynumber: 2.5 Consensus size: 151
126342 TTATTAAAAT
* * *
126352 TTAACATTTTAAACTCAA--ACTAATTTAAAATATAAAA-AGAAGAAATAAATTAAACGTTAACA
1 TTAACATTTTAAACTTAAGTACTAATTTAAAATATAAAAGA-AAAAAATAAATTAAACATTAACA
* * *
126414 TTTTAAACTTAGGGACTACTTTAAAAGCTTTTCATTAGTTGGGGACTTATGTATAATTAGACCAC
65 TTTTAAACTTAGGGACTACTTTAAAAGCTTTTCAGTAGTTGAGGACTTACGTATAATTAGACCAC
126479 GTAAAGAAAAATAAATTATATA
130 GTAAAGAAAAATAAATTATATA
*
126501 TTAACATTTTAAACTTAAGTACTAA-TTAAAATATAAAAGAAAAAAATAAATTAAACATTAAAAT
1 TTAACATTTTAAACTTAAGTACTAATTTAAAATATAAAAGAAAAAAATAAATTAAACATTAACAT
* *
126565 TCTAAACTTAGGGACTACTTTAAAAGCTTTTCCGTAGTTTGAGGACTTACGTATAATTAGACCAC
66 TTTAAACTTAGGGACTACTTTAAAAGCTTTTCAGTAG-TTGAGGACTTACGTATAATTAGACCAC
*
126630 TTAAAGAAAAATAAATTATATA
130 GTAAAGAAAAATAAATTATATA
* * * * *
126652 TTAGCATTTTAAACTTAGGTACTAATTTAAAATAT-AAAGGAAAAAATAAATTATATATTAACAT
1 TTAACATTTTAAACTTAAGTACTAATTTAAAATATAAAAGAAAAAAATAAATTAAACATTAACAT
*
126716 TTTAAACTTAGGTACTA
66 TTTAAACTTAGGGACTA
126733 ATTGAAAATA
Statistics
Matches: 209, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
149 17 0.08
150 68 0.33
151 115 0.55
152 9 0.04
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (151 bp):
TTAACATTTTAAACTTAAGTACTAATTTAAAATATAAAAGAAAAAAATAAATTAAACATTAACAT
TTTAAACTTAGGGACTACTTTAAAAGCTTTTCAGTAGTTGAGGACTTACGTATAATTAGACCACG
TAAAGAAAAATAAATTATATA
Found at i:126703 original size:57 final size:58
Alignment explanation
Indices: 126636--126798 Score: 238
Period size: 57 Copynumber: 2.8 Consensus size: 58
126626 CCACTTAAAG
* *
126636 AAAAATAAATTATATATTAGCATTTTAAACTTAGGTACTAATTTAAAATAT-AAAGGA
1 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTTAAAATATAAAAGAA
*
126693 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTGAAAATATAAAAGAA
1 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTTAAAATATAAAAGAA
* ** * *
126751 AATAAATAAATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAA
1 AA-AAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTTAAA
126799 GGCTTTTCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 49 0.52
58 7 0.07
59 39 0.41
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.34
Consensus pattern (58 bp):
AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTTAAAATATAAAAGAA
Found at i:126850 original size:210 final size:202
Alignment explanation
Indices: 126481--126936 Score: 648
Period size: 210 Copynumber: 2.2 Consensus size: 202
126471 TAGACCACGT
*
126481 AAAG-AAAAATAAATTATATATTAACATTTTAAACTTAAGTACTAATTAAAATATAAAAGAAAAA
1 AAAGAAAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTAAAATATAAAAGAAAAA
126545 AATAAATTAAACATTAAAATTCTAAACTTAGGGACTACTTTAAAAGCTTTTCCGTAGTTTGAGGA
66 AATAAATTAAACATTAAAATTCTAAACTTAGGGACTACTTTAAAAGCTTTTCCGTAGTTTGAGGA
* *
126610 CTTACGTATAATTAGACCACTTAAAGAAAAATAAATTATATATTAGCATTTTAAACTTAGGTACT
131 CTTACGTATAATTAGACCACATAAAGAAAAATAAATTATATATTAACA--TT----TTAGGTACT
*
126675 AATTTAAAATATA
190 AATTTAAAATACA
*
126688 AAGGAAAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTGAAAATATAAAAGAAAA
1 AAAGAAAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATT-AAAATATAAAAGAAAA
* * * * **
126753 TAAATAAATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAGGCTTTTCTTTAGTTTG-G
65 -AAATAAATTAAACATTAAAATTCTAAACTTAGGGACTACTTTAAAAGCTTTTCCGTAGTTTGAG
* *
126817 AGACTT-CTTTATAATTAGACCACATACAGAAAAATAAATTATATATTAACATTTTAGGTACTAA
129 -GACTTAC-GTATAATTAGACCACATAAAGAAAAATAAATTATATATTAACATTTTAGGTACTAA
126881 TTTAAAATACA
192 TTTAAAATACA
* ** *
126892 AAAGAAAAAATAAATTAAACGTTAACATTTTAAACTTAGGGACTA
1 AAAGAAAAAATAAATTATATATTAACATTTTAAACTTAGGTACTA
126937 CTTTAAAAGC
Statistics
Matches: 226, Mismatches: 18, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
204 61 0.27
207 3 0.01
208 44 0.19
209 18 0.08
210 100 0.44
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (202 bp):
AAAGAAAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTAAAATATAAAAGAAAAA
AATAAATTAAACATTAAAATTCTAAACTTAGGGACTACTTTAAAAGCTTTTCCGTAGTTTGAGGA
CTTACGTATAATTAGACCACATAAAGAAAAATAAATTATATATTAACATTTTAGGTACTAATTTA
AAATACA
Found at i:127092 original size:152 final size:151
Alignment explanation
Indices: 126693--127151 Score: 666
Period size: 152 Copynumber: 3.1 Consensus size: 151
126683 ATATAAAGGA
126693 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTGAAAATATAAAAGAAAATAAAT
1 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATT-AAAATATAAAAG-AAA-AAAT
* *
126758 AAATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAGGCTTTTCTTTAGTTTGGAG-ACT
63 AAATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAAGCTTTTCTTTAGTTTGGGGAACT
*
126822 TCTTTATAATTAGACCACATACAG
128 TCTGTATAATTAGACCACATACAG
*
126846 AAAAATAAATTATATATTAACA--TT----TTAGGTACTAATTTAAAATACAAAAGAAAAAATAA
1 AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAA-TTAAAATATAAAAGAAAAAATAA
*
126905 ATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAAGCTTTTATTTAGTTTGGGGAAC-TC
65 ATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAAGCTTTTCTTTAGTTTGGGGAACTTC
*
126969 TGTATAATTATACCACATACAG
130 TGTATAATTAGACCACATACAG
*
126991 AAAAATAAACTACTATATTAACATTTTAAACTTAGGTACTAAGTTAAAATATAAAAGAAAAAATA
1 AAAAATAAATTA-TATATTAACATTTTAAACTTAGGTACTAA-TTAAAATATAAAAGAAAAAATA
* * * * **
127056 AATTAAACATTAATATTTTAAACTTTGGGACCACTTTAAAATATTTTCTTTAGTTT-GGGAACTT
64 AATTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAAGCTTTTCTTTAGTTTGGGGAACTT
*
127120 CTGTATAATTAGACCACTTACAG
129 CTGTATAATTAGACCACATACAG
*
127143 AAAATTAAA
1 AAAAATAAA
127152 ACAATTGCGG
Statistics
Matches: 277, Mismatches: 19, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
145 95 0.34
146 15 0.05
147 22 0.08
148 4 0.01
151 8 0.03
152 111 0.40
153 22 0.08
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (151 bp):
AAAAATAAATTATATATTAACATTTTAAACTTAGGTACTAATTAAAATATAAAAGAAAAAATAAA
TTAAACGTTAACATTTTAAACTTAGGGACTACTTTAAAAGCTTTTCTTTAGTTTGGGGAACTTCT
GTATAATTAGACCACATACAG
Found at i:128146 original size:23 final size:22
Alignment explanation
Indices: 128103--128146 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
128093 AAGTCTTCTT
128103 CACTGTTTTCCATCACTATCTC
1 CACTGTTTTCCATCACTATCTC
*
128125 CACTGCTTCTTCCCTCA-TATCT
1 CACTG-TT-TTCCATCACTATCT
128147 TCAGTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.16, C:0.39, G:0.05, T:0.41
Consensus pattern (22 bp):
CACTGTTTTCCATCACTATCTC
Found at i:129824 original size:3 final size:3
Alignment explanation
Indices: 129816--129840 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
129806 GTAGTTTACC
129816 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
129841 AAGCTAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:130293 original size:20 final size:20
Alignment explanation
Indices: 130265--130316 Score: 86
Period size: 20 Copynumber: 2.5 Consensus size: 20
130255 ACTCAGTTTC
130265 TAAATTCGCAACGCGAATATG
1 TAAA-TCGCAACGCGAATATG
*
130286 TAAATCGCAACGCGAATCTG
1 TAAATCGCAACGCGAATATG
130306 TAAATCGCAAC
1 TAAATCGCAAC
130317 ACAGAAGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 26 0.87
21 4 0.13
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGAATATG
Found at i:130333 original size:20 final size:21
Alignment explanation
Indices: 130310--130358 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
130300 AATCTGTAAA
*
130310 TCGCAACACAGAA-GTCAAAT
1 TCGCAACACAGAATGTAAAAT
* *
130330 TCGCAACACTGAATTTAAAAT
1 TCGCAACACAGAATGTAAAAT
130351 TCGCAACA
1 TCGCAACA
130359 GGTTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.43, C:0.24, G:0.12, T:0.20
Consensus pattern (21 bp):
TCGCAACACAGAATGTAAAAT
Found at i:130533 original size:14 final size:15
Alignment explanation
Indices: 130514--130551 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
130504 TCCTCATCTC
130514 TAATTTTTTT-TACA
1 TAATTTTTTTATACA
*
130528 TAATTTTATTTATATA
1 TAATTTT-TTTATACA
130544 TAATTTTT
1 TAATTTTT
130552 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTATACA
Found at i:131356 original size:24 final size:24
Alignment explanation
Indices: 131305--131358 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
131295 ATAATCAAAA
*
131305 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* * *
131329 TTTGATCTTGGTTAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
131353 TTTGAT
1 TTTGAT
131359 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:133643 original size:18 final size:18
Alignment explanation
Indices: 133620--133655 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
133610 ATGCAAAAGG
133620 AAATCAAAATCACAATCA
1 AAATCAAAATCACAATCA
*
133638 AAATCAAAATCCCAATCA
1 AAATCAAAATCACAATCA
133656 TAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.25, G:0.00, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCACAATCA
Found at i:133973 original size:20 final size:20
Alignment explanation
Indices: 133950--134021 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
133940 AAAAGTCAAA
*
133950 TTCGCGTTGCGATTTTGATT
1 TTCGCGTTGCAATTTTGATT
133970 TTCGCGTTGCAATTTTGATT
1 TTCGCGTTGCAATTTTGATT
133990 TTCGCGTTGCAATTTTGATT
1 TTCGCGTTGCAATTTTGATT
134010 TTCGCGTTGCAA
1 TTCGCGTTGCAA
134022 AAGTGTACCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (20 bp):
TTCGCGTTGCAATTTTGATT
Found at i:135517 original size:21 final size:21
Alignment explanation
Indices: 135493--135586 Score: 113
Period size: 21 Copynumber: 4.6 Consensus size: 21
135483 GTGAATCGGG
* *
135493 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
135514 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* *
135535 CTCTTGAACGGT-AGGAAGGGC
1 CTCTTGAACGATGA-GAGGGGC
*
135556 CTCTTGAAAGAT-AG-GGGGC
1 CTCTTGAACGATGAGAGGGGC
135575 CTCTTGAACGAT
1 CTCTTGAACGAT
135587 AACAGGTGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.23
20 2 0.03
21 47 0.73
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:135556 original size:42 final size:40
Alignment explanation
Indices: 135493--135584 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 40
135483 GTGAATCGGG
* * *
135493 CTCTTGAACGGTGGGAGGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTAGGAAGGGCCTCTTGAAAGAT-AG-GGGGC
135535 CTCTTGAACGGTAGGAAGGGCCTCTTGAAAGATAGGGGGC
1 CTCTTGAACGGTAGGAAGGGCCTCTTGAAAGATAGGGGGC
135575 CTCTTGAACG
1 CTCTTGAACG
135585 ATAACAGGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 15 0.32
41 2 0.04
42 30 0.64
ACGTcount: A:0.22, C:0.20, G:0.38, T:0.21
Consensus pattern (40 bp):
CTCTTGAACGGTAGGAAGGGCCTCTTGAAAGATAGGGGGC
Found at i:135908 original size:21 final size:21
Alignment explanation
Indices: 135884--135942 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
135874 GTAGAGCGCC
* *
135884 TACCTCATCACATAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
135905 TACCTCACCACGTAAAGTAGA
1 TACCTCACCACGTAAAGTAGA
135926 TACCTCACCACGTAAAG
1 TACCTCACCACGTAAAG
135943 CACCACTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (21 bp):
TACCTCACCACGTAAAGTAGA
Found at i:135972 original size:63 final size:63
Alignment explanation
Indices: 135905--136025 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
135895 ATAAAGTAGA
*
135905 TACCTCACCACGTAAAG-TAGATACCTCACCACGTAAAGCACCACTGTCATCGCGTAAAACCTC
1 TACCTCACCACGTAAAGATAG-TACCTCACCACGTAAAGCACCACTGTCATCACGTAAAACCTC
* * * * * * *
135968 TACCTTACCACGTAAAGATCGTACCTCATCACGTCATGCACCATTGTCGTCACGTAAA
1 TACCTCACCACGTAAAGATAGTACCTCACCACGTAAAGCACCACTGTCATCACGTAAA
136026 GTACTGACCT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 47 0.96
64 2 0.04
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.22
Consensus pattern (63 bp):
TACCTCACCACGTAAAGATAGTACCTCACCACGTAAAGCACCACTGTCATCACGTAAAACCTC
Found at i:136041 original size:21 final size:21
Alignment explanation
Indices: 136017--136065 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
136007 ACCATTGTCG
* *
136017 TCACGTAAAGTACTGACCTCC
1 TCACGTAAAGCACTGACCTCA
*
136038 TCACGCAAAGCACTGACCTCA
1 TCACGTAAAGCACTGACCTCA
136059 TCACGTA
1 TCACGTA
136066 TCTCCCCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (21 bp):
TCACGTAAAGCACTGACCTCA
Found at i:137783 original size:20 final size:19
Alignment explanation
Indices: 137751--137800 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
137741 TCGCAACGCG
* *
137751 ATTTTAGTTTCGCGTTGCA
1 ATTTTATTTTCGCGTTACA
*
137770 ATTTTCATTTTCGCGTTACG
1 ATTTT-ATTTTCGCGTTACA
137790 ATTTTATTTTC
1 ATTTTATTTTC
137801 AAAAACTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.16, C:0.16, G:0.14, T:0.54
Consensus pattern (19 bp):
ATTTTATTTTCGCGTTACA
Found at i:138157 original size:22 final size:22
Alignment explanation
Indices: 138131--138181 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
138121 GATGGAGATA
138131 GACGGATTTCACCGGAGACGGG
1 GACGGATTTCACCGGAGACGGG
** *
138153 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGACGGG
138175 GACGGAT
1 GACGGAT
138182 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.43, T:0.18
Consensus pattern (22 bp):
GACGGATTTCACCGGAGACGGG
Found at i:138314 original size:19 final size:20
Alignment explanation
Indices: 138292--138329 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
138282 AATATTGTGT
138292 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
138311 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
138330 CGCACTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:138378 original size:20 final size:20
Alignment explanation
Indices: 138355--138404 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
138345 TGACTTCTGT
*
138355 GTTGCGAATTACAAATTCGC
1 GTTGCGAATTACAAATTCAC
* *
138375 GTTGCGATTTACATATTCAC
1 GTTGCGAATTACAAATTCAC
138395 GTTGCGAATT
1 GTTGCGAATT
138405 TTGGAAACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
GTTGCGAATTACAAATTCAC
Found at i:150837 original size:15 final size:15
Alignment explanation
Indices: 150817--150847 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
150807 CAACAAATAG
150817 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
150832 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
150847 A
1 A
150848 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:151043 original size:20 final size:20
Alignment explanation
Indices: 151007--151044 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
150997 ATCCTATTCC
**
151007 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
151027 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
151045 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:173576 original size:23 final size:23
Alignment explanation
Indices: 173527--173576 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
173517 CAAATAATAA
* * *
173527 TATTTATATTTATTTTTTATCTT
1 TATTTATAGTTATTTTTTAACTC
173550 TATTTAT-GTTATTTTTTAACATC
1 TATTTATAGTTATTTTTTAAC-TC
173573 TATT
1 TATT
173577 AGAACTAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (23 bp):
TATTTATAGTTATTTTTTAACTC
Found at i:175522 original size:2 final size:2
Alignment explanation
Indices: 175515--175553 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
175505 CCCATCATGT
175515 TA TA TA TA TA 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 TA TA TA TA TA T
175554 TAAAAATCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:177529 original size:43 final size:42
Alignment explanation
Indices: 177368--177586 Score: 216
Period size: 42 Copynumber: 5.3 Consensus size: 42
177358 TTAGATCTTA
* * * *
177368 ACCTTTTACGGCATTTGTTCCAAAAACGCCGCTATAGATCTA
1 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATG
** *
177410 ATTTTTTGCGTCGTTTGTTCCAAAAACGCCGCTATAGATATCG
1 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATAT-G
* * * **
177453 A-CATTTGTGGCGTTTGTTCCAAAAATGTTGCTATAGATATCG
1 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATAT-G
*
177495 ACCTTTTGCGGCGTTTGTTCCATAAACGCCGCTATAGATAT-
1 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATG
* * *
177536 --CTTTT--GGCGTTTGATACAAAAACGCCGCTATAGATCTTG
1 ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGAT-ATG
*
177575 ACCTATTGCGGC
1 ACCTTTTGCGGC
177587 ATTTTTTGTT
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
37 27 0.19
38 1 0.01
39 5 0.03
41 4 0.03
42 70 0.49
43 37 0.26
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (42 bp):
ACCTTTTGCGGCGTTTGTTCCAAAAACGCCGCTATAGATATG
Found at i:178984 original size:2 final size:2
Alignment explanation
Indices: 178979--179010 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
178969 CACTGAAGCA
178979 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
179011 TAAAAATGCT
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:179034 original size:21 final size:22
Alignment explanation
Indices: 179003--179048 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
178993 ATATATATAT
179003 ATATATATTAAAAATGCTAAAA
1 ATATATATTAAAAATGCTAAAA
**
179025 ATATA-ATTAAAAATTTTAAAA
1 ATATATATTAAAAATGCTAAAA
179046 ATA
1 ATA
179049 AAAGTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATATATTAAAAATGCTAAAA
Found at i:179051 original size:26 final size:29
Alignment explanation
Indices: 179020--179080 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 29
179010 TTAAAAATGC
*
179020 TAAAAATATAATTAAAAATT-TT-AAAAA-
1 TAAAAGTA-AATTAAAAATTATTGAAAAAT
*
179047 TAAAAGTAAATTATAAATTATTGAAAAAT
1 TAAAAGTAAATTAAAAATTATTGAAAAAT
179076 TAAAA
1 TAAAA
179081 ATACCTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.34
27 9 0.31
28 5 0.17
29 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAAGTAAATTAAAAATTATTGAAAAAT
Found at i:179056 original size:21 final size:21
Alignment explanation
Indices: 179011--179056 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
179001 ATATATATAT
* *
179011 TAAAAATGCTAAAAATATAAT
1 TAAAAATGCTAAAAATAAAAG
**
179032 TAAAAATTTTAAAAATAAAAG
1 TAAAAATGCTAAAAATAAAAG
179053 TAAA
1 TAAA
179057 TTATAAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAAAATGCTAAAAATAAAAG
Found at i:179927 original size:89 final size:90
Alignment explanation
Indices: 179770--179950 Score: 310
Period size: 89 Copynumber: 2.0 Consensus size: 90
179760 TAACAGTGAA
*
179770 TAATAAAAATTATTAGTTAAAAAAGTATATTTATTAATTTTTAGTTTGAAAATCATATTAAATGT
1 TAATAAAAATCATTAGTTAAAAAAGTATATTTATTAATTTTTAGTTTGAAAATCATATTAAATGT
*
179835 AAAAACAATTAATAGTCACATTAAT
66 AAAAAAAATTAATAGTCACATTAAT
* * *
179860 TAATGAAAATCATTAGTT-AAAAATTATATTTATTAATTTTTAGTTTGAAATTCATATTAAATGT
1 TAATAAAAATCATTAGTTAAAAAAGTATATTTATTAATTTTTAGTTTGAAAATCATATTAAATGT
179924 AAAAAAAATTAATAGTCACATTAAT
66 AAAAAAAATTAATAGTCACATTAAT
179949 TA
1 TA
179951 TTTTGAAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 70 0.81
90 16 0.19
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (90 bp):
TAATAAAAATCATTAGTTAAAAAAGTATATTTATTAATTTTTAGTTTGAAAATCATATTAAATGT
AAAAAAAATTAATAGTCACATTAAT
Found at i:180200 original size:21 final size:21
Alignment explanation
Indices: 180176--180221 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
180166 AATGATAAAA
*
180176 TTTATTTAAAAAATTATTATT
1 TTTATTTAAAAAATTAATATT
*
180197 TTTATTTAAAATATTAATATT
1 TTTATTTAAAAAATTAATATT
180218 TTTA
1 TTTA
180222 GTAAAGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATTTAAAAAATTAATATT
Found at i:180966 original size:14 final size:14
Alignment explanation
Indices: 180947--181009 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
180937 TTTAGATTTT
* *
180947 TTAAAATTACATTA
1 TTAAAAATAAATTA
180961 TTAAAAATAAATTA
1 TTAAAAATAAATTA
* *
180975 TTGATAATTATAAATTT
1 TT-A-AA-AATAAATTA
180992 TTAAAAATAAATT-
1 TTAAAAATAAATTA
181005 TTAAA
1 TTAAA
181010 TGTAATATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
13 5 0.12
14 21 0.51
15 3 0.07
16 3 0.07
17 9 0.22
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (14 bp):
TTAAAAATAAATTA
Found at i:190778 original size:2 final size:2
Alignment explanation
Indices: 190771--190799 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
190761 TATACACTAG
190771 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
190800 CTGATCTGAA
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:196685 original size:239 final size:242
Alignment explanation
Indices: 196301--196790 Score: 765
Period size: 239 Copynumber: 2.0 Consensus size: 242
196291 ACTTTATTTT
**
196301 GGTCGGGTCAGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGA
1 GGTCGGGTCAGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGA
* * *
196366 AAAATACCCGACCCGACCCGAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAAT
66 AAAATACCAGACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAAT
* *
196431 AATAGCCCTCTATATATAATTTTTTTTTCAATTAAGTCACT-ATTTTTATTGAATAAAAATAATT
131 AATACCCCTCTATATATAA-TTTTTTTTCAATTAAGTCACTGATTTTTATTGAATAAAAACAATT
* *
196495 TTTTTATTATTTCGGGTC-GG-G-TTTCTAATTCATATATTCGGGTCG
195 TTTTTATTATTTCGGGTCTGGCGAGTTCTAATTCATATATTCAGGTCG
* * * *
196540 GGTCGGGTC-GGTCGGTTTTTTTAAAGTGTGGTATTCGGGTCGGGTCGGGTTCAAGTTTATGGTG
1 GGTCGGGTCAGGTCGATTTTTTT-AAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTG
*
196604 AAAAATACCAGACCCGGCCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAA
65 AAAAATACCAGACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAA
* * *
196669 TAATACCCCTCTATATATAATTTTTTTTCAATTAAGTCATTGTTTTTTATTGTATAAAAACAATT
130 TAATACCCCTCTATATATAATTTTTTTTCAATTAAGTCACTGATTTTTATTGAATAAAAACAATT
196734 TTTTTATTATTTCGGGTCTGGTCGAGTTCTAATTCATATATTCAGGTCG
195 TTTTTATTATTTCGGGTCTGG-CGAGTTCTAATTCATATATTCAGGTCG
196783 GGTCGGGT
1 GGTCGGGT
196791 GAAACTTTAT
Statistics
Matches: 228, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
238 32 0.14
239 163 0.71
240 2 0.01
242 1 0.00
243 30 0.13
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (242 bp):
GGTCGGGTCAGGTCGATTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCAAGTTTAGGGTGA
AAAATACCAGACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGGAATAATTACAAT
AATACCCCTCTATATATAATTTTTTTTCAATTAAGTCACTGATTTTTATTGAATAAAAACAATTT
TTTTATTATTTCGGGTCTGGCGAGTTCTAATTCATATATTCAGGTCG
Found at i:197154 original size:18 final size:17
Alignment explanation
Indices: 197101--197163 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
197091 ATGAAATTGA
* * *
197101 ATTCCAATTCCTGACAG
1 ATTCTAATTCCTAACAT
*
197118 ATTCCAATTCCTAACAT
1 ATTCTAATTCCTAACAT
*
197135 ATTCTAATTCCTTCACAT
1 ATTCTAATTCC-TAACAT
197153 ATTCTAATTCC
1 ATTCTAATTCC
197164 CTCAGAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 25 0.61
18 16 0.39
ACGTcount: A:0.30, C:0.29, G:0.03, T:0.38
Consensus pattern (17 bp):
ATTCTAATTCCTAACAT
Found at i:198595 original size:21 final size:21
Alignment explanation
Indices: 198571--198611 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
198561 TTTAATAATC
*
198571 ATATCTTTATGATATTTTTTA
1 ATATCTTTATGACATTTTTTA
198592 ATATCTTTATGACATTTTTT
1 ATATCTTTATGACATTTTTT
198612 CATCTGTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (21 bp):
ATATCTTTATGACATTTTTTA
Found at i:199129 original size:16 final size:15
Alignment explanation
Indices: 199098--199131 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
199088 AACCGCTTCT
199098 ATTAAAAAAATAATA
1 ATTAAAAAAATAATA
*
199113 ATTAAACAAAGTAATA
1 ATTAAA-AAAATAATA
199129 ATT
1 ATT
199132 TATATTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
ATTAAAAAAATAATA
Found at i:209442 original size:20 final size:20
Alignment explanation
Indices: 209419--209456 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
209409 TTTATGTTAG
* *
209419 AAAAATGAATTTTTAAATAT
1 AAAAACGAATTTATAAATAT
209439 AAAAACGAATTTATAAAT
1 AAAAACGAATTTATAAAT
209457 TTTTAGAAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAACGAATTTATAAATAT
Found at i:211964 original size:31 final size:31
Alignment explanation
Indices: 211926--211997 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
211916 ATTTATACTT
211926 ATTTAATTCTTTGCATATACACATTCAATTA
1 ATTTAATTCTTTGCATATACACATTCAATTA
* *
211957 ATTTAATTCTTTGCGTATACACATTCAATTG
1 ATTTAATTCTTTGCATATACACATTCAATTA
211988 ATTTAATTCT
1 ATTTAATTCT
211998 AATTAAAAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (31 bp):
ATTTAATTCTTTGCATATACACATTCAATTA
Found at i:212935 original size:23 final size:24
Alignment explanation
Indices: 212891--212937 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
212881 ATACATTGAC
*
212891 AAATTATATAAATACAATAACATT
1 AAATTATATAAATACAAAAACATT
212915 AAATTAT-TAGAA-ACAAAAACATT
1 AAATTATATA-AATACAAAAACATT
212938 CATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
AAATTATATAAATACAAAAACATT
Found at i:216440 original size:30 final size:32
Alignment explanation
Indices: 216376--216454 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 32
216366 TTAATAATTC
*
216376 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTACATAAATATTA-TTTAA
*
216410 TAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAATAATAATTACATAAATATTATTTAA
216440 TATAAAATATAATAA
1 TA-AAAA-ATAATAA
216455 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.15
31 4 0.10
32 8 0.20
33 18 0.45
34 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAAAAATAATAATTACATAAATATTATTTAA
Found at i:216756 original size:50 final size:50
Alignment explanation
Indices: 216658--216759 Score: 127
Period size: 50 Copynumber: 2.0 Consensus size: 50
216648 CATTTAATAA
* * * *
216658 AAGGCGCATCCCCGGGGATGCGCTTTCCACACGTGTAAGTCGAGTCAGTG
1 AAGGCGCATCCCCGGAGATGCGCCTTCCACACGTGTAAGTCAACTCAGTG
*
216708 AAGGCGCGTCCCCGGAGATGCGCCTTCCACACGTG-ACA-TCCAACTCAGTG
1 AAGGCGCATCCCCGGAGATGCGCCTTCCACACGTGTA-AGT-CAACTCAGTG
216758 AA
1 AA
216760 AACACGGATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
49 2 0.04
50 43 0.96
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (50 bp):
AAGGCGCATCCCCGGAGATGCGCCTTCCACACGTGTAAGTCAACTCAGTG
Found at i:217099 original size:2 final size:2
Alignment explanation
Indices: 217092--217117 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
217082 GAACCACATT
217092 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
217118 CACATATATA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:217126 original size:2 final size:2
Alignment explanation
Indices: 217121--217162 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
217111 CTCTCTCCAC
217121 AT AT 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 AT AT
217163 TTTGAAGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:217579 original size:15 final size:15
Alignment explanation
Indices: 217538--217585 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
217528 TTCCATAAAT
*
217538 AATAACTATCTATAA
1 AATAACTATGTATAA
*
217553 AATAACTATGTATAT
1 AATAACTATGTATAA
217568 AATAA-TATTGTA-AA
1 AATAACTA-TGTATAA
217582 AATA
1 AATA
217586 TGTATTTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (15 bp):
AATAACTATGTATAA
Found at i:218576 original size:20 final size:20
Alignment explanation
Indices: 218551--218604 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
218541 GGCCATCCGA
218551 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
218571 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAGAGCAT
218591 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
218605 CCGAGGCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.37, G:0.30, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAGAGCAT
Found at i:218592 original size:30 final size:32
Alignment explanation
Indices: 218532--218604 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 32
218522 CAACACGCTG
*
218532 GGCATCTGAGGCCATCCGACCGAGGCCATCCGA
1 GGCATCCGAGGCCATCCGA-CGAGGCCATCCGA
218565 GAGCATCCGAGGCCATCCGA-GA-G-CATCCGA
1 G-GCATCCGAGGCCATCCGACGAGGCCATCCGA
218595 GGCCATCCGA
1 GG-CATCCGA
218605 CCGAGGCCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 1 0.03
30 15 0.41
31 1 0.03
32 2 0.05
33 1 0.03
34 17 0.46
ACGTcount: A:0.23, C:0.36, G:0.30, T:0.11
Consensus pattern (32 bp):
GGCATCCGAGGCCATCCGACGAGGCCATCCGA
Found at i:218610 original size:14 final size:14
Alignment explanation
Indices: 218591--218623 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
218581 CCGAGAGCAT
218591 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
218605 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
218619 ACGAG
1 CCGAG
218624 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:218615 original size:54 final size:57
Alignment explanation
Indices: 218533--218642 Score: 172
Period size: 54 Copynumber: 2.0 Consensus size: 57
218523 AACACGCTGG
*
218533 GCATCTGAGGCCATCCGACCGAGGCCATCCG-A-GAGC-ATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTATCCGAGGCCATCCGAGA
* *
218587 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTATGCGAGGGCATCCGAG
1 GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTATCCGAGGCCATCCGAG
218643 GACAACTGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 30 0.60
55 1 0.02
56 4 0.08
57 15 0.30
ACGTcount: A:0.24, C:0.35, G:0.31, T:0.11
Consensus pattern (57 bp):
GCATCCGAGGCCATCCGACCGAGGCCATCCGAACGAGCTATCCGAGGCCATCCGAGA
Found at i:218618 original size:10 final size:10
Alignment explanation
Indices: 218551--218604 Score: 76
Period size: 10 Copynumber: 5.4 Consensus size: 10
218541 GGCCATCCGA
218551 CCGAGGCCAT
1 CCGAGGCCAT
218561 CCGAGAG-CAT
1 CCGAG-GCCAT
218571 CCGAGGCCAT
1 CCGAGGCCAT
218581 CCGAGAG-CAT
1 CCGAG-GCCAT
218591 CCGAGGCCAT
1 CCGAGGCCAT
218601 CCGA
1 CCGA
218605 CCGAGGCCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.24, C:0.37, G:0.30, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:218657 original size:33 final size:33
Alignment explanation
Indices: 218620--218689 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
218610 GCCATCCGAA
*
218620 CGAGCTATGCGAGGGCATCCGA-GGACAACTGAG
1 CGAGCTATGCGAGGGAATCCGAGGGA-AACTGAG
*
218653 CGAGCTATGCGAGGGAATCCGAGGGAAGCTGAG
1 CGAGCTATGCGAGGGAATCCGAGGGAAACTGAG
218686 CGAG
1 CGAG
218690 GGTAGGTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 31 0.91
34 3 0.09
ACGTcount: A:0.27, C:0.21, G:0.40, T:0.11
Consensus pattern (33 bp):
CGAGCTATGCGAGGGAATCCGAGGGAAACTGAG
Found at i:218729 original size:29 final size:29
Alignment explanation
Indices: 218696--218777 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
218686 CGAGGGTAGG
* *
218696 TCGCCTGGAGTGCATGGCGACCTACAAGA
1 TCGCCCGGAGGGCATGGCGACCTACAAGA
*
218725 TCGCCCGGAGGGCATGGCGACCTACAAGG
1 TCGCCCGGAGGGCATGGCGACCTACAAGA
* *
218754 TTGCCCGGAGGGCATGTCGACCTA
1 TCGCCCGGAGGGCATGGCGACCTA
218778 TGTGTTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (29 bp):
TCGCCCGGAGGGCATGGCGACCTACAAGA
Found at i:219164 original size:2 final size:2
Alignment explanation
Indices: 219159--219194 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
219149 GAAGTTAAAG
219159 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
219195 CACCAACAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:226896 original size:24 final size:23
Alignment explanation
Indices: 226842--226901 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
226832 ATATTTTATA
*
226842 TAAATTATTTAATTTTATACCCCT
1 TAAATT-TTTAATCTTATACCCCT
* * *
226866 GAGATTTTATAATCTTATACCTCT
1 TAAATTTT-TAATCTTATACCCCT
226890 TAAATTTTTAAT
1 TAAATTTTTAAT
226902 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.50
Consensus pattern (23 bp):
TAAATTTTTAATCTTATACCCCT
Found at i:228792 original size:27 final size:26
Alignment explanation
Indices: 228762--228824 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 26
228752 AAAAATGGGA
*
228762 TCGGGTCGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGG-TTTTTTAAGTGTAATAT
228789 TCGGGTCGAGTTTTTTAAGTGTAATAT
1 TCGGGTCG-GTTTTTTAAGTGTAATAT
228816 TCGGGTCGG
1 TCGGGTCGG
228825 GATCGATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 32 0.94
28 1 0.03
ACGTcount: A:0.16, C:0.10, G:0.32, T:0.43
Consensus pattern (26 bp):
TCGGGTCGGTTTTTTAAGTGTAATAT
Found at i:236185 original size:22 final size:21
Alignment explanation
Indices: 236160--236201 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
236150 TTAAACTGAT
236160 ATCATATTA-ATAATTATAAAAA
1 ATCA-ATTATATAATTA-AAAAA
236182 ATCAATTATATAATTAAAAA
1 ATCAATTATATAATTAAAAA
236202 TTTAGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (21 bp):
ATCAATTATATAATTAAAAAA
Found at i:239329 original size:66 final size:66
Alignment explanation
Indices: 239223--239353 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
239213 TAAGGTTTAT
* * *
239223 ATAAAATACCAATTTAAAATTAATGACATTTAACGTTTCAATAACTAAAACGTTATAAAACATTA
1 ATAAAATACCAATTTAAAATGAACGACATTTAACATTTCAATAACTAAAACGTTATAAAACATTA
239288 G
66 G
239289 ATAAAATACCAATTTAAAATGAACGACATTTAACATTTCAATAACTAAAACGTTATAAAACATTA
1 ATAAAATACCAATTTAAAATGAACGACATTTAACATTTCAATAACTAAAACGTTATAAAACATTA
239354 ACATAAATAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (66 bp):
ATAAAATACCAATTTAAAATGAACGACATTTAACATTTCAATAACTAAAACGTTATAAAACATTA
G
Found at i:253404 original size:29 final size:28
Alignment explanation
Indices: 253372--253443 Score: 74
Period size: 31 Copynumber: 2.5 Consensus size: 28
253362 AATAATTTAT
* * *
253372 TTAAATTTTTAAATACAAAATTAGAGAGA
1 TTAAATTTTTAAATAAAAAATAAGA-AAA
*
253401 TTAAATTTTCAAAAATAAAAAATAAGAAAA
1 TTAAATTTT--TAAATAAAAAATAAGAAAA
253431 TTAAA-TTTTAAAT
1 TTAAATTTTTAAAT
253444 GTAAAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
27 4 0.11
29 12 0.33
30 7 0.19
31 13 0.36
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (28 bp):
TTAAATTTTTAAATAAAAAATAAGAAAA
Found at i:253436 original size:30 final size:31
Alignment explanation
Indices: 253382--253439 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
253372 TTAAATTTTT
* * *
253382 AAATACAAAATTAGAGAGATTAAATTTTCAA
1 AAATAAAAAATAAGAGAAATTAAATTTTCAA
253413 AAATAAAAAATAAGA-AAATTAAATTTT
1 AAATAAAAAATAAGAGAAATTAAATTTT
253440 AAATGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (31 bp):
AAATAAAAAATAAGAGAAATTAAATTTTCAA
Found at i:256041 original size:2 final size:2
Alignment explanation
Indices: 256034--256060 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
256024 GAAGCTGAAG
256034 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
256061 CAAACTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:268716 original size:3 final size:3
Alignment explanation
Indices: 268708--268734 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
268698 TAGTGTGTCA
268708 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
268735 CATTCTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:275797 original size:22 final size:22
Alignment explanation
Indices: 275770--275888 Score: 80
Period size: 24 Copynumber: 5.0 Consensus size: 22
275760 ATTTAAATGT
275770 ATATATAA-TATTATTAATTATTAA
1 ATATATAATTA-TA-TAA-TATTAA
275794 ATATATAATTATATAATATTATTA
1 ATATATAATTATATAATATTA--A
* *
275818 ATA-ATTAATAATATAATATTTTAT
1 ATATA-TAATTATATAATA--TTAA
*
275842 ATATAAAATATATTATTAATAATTAA
1 ATATATAAT-TA-TA-TAAT-ATTAA
*
275868 ATATATAATAATATAATATTA
1 ATATATAATTATATAATATTA
275889 TTTTATGTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 24
0.71 0.06 0.22
Matches are distributed among these distances:
22 9 0.12
23 8 0.10
24 34 0.44
25 5 0.06
26 16 0.21
27 4 0.05
28 1 0.01
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATAATTATATAATATTAA
Found at i:275812 original size:32 final size:32
Alignment explanation
Indices: 275771--275890 Score: 123
Period size: 32 Copynumber: 3.4 Consensus size: 32
275761 TTTAAATGTA
*
275771 TATATAATATTATTAATTATTAAATATATAAT
1 TATATAATATTATTAATAATTAAATATATAAT
275803 TATATAATATTATTAATAATTAATAATATAATATTTTAT
1 TATATAATATTATTAATAATT-A-AATAT-ATA----AT
*
275842 ATATAAAATATATTATTAATAATTAAATATATAAT
1 -TAT-ATA-ATATTATTAATAATTAAATATATAAT
*
275877 AATATAATATTATT
1 TATATAATATTATT
275891 TTATGTATAA
Statistics
Matches: 74, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
32 28 0.38
33 3 0.04
34 7 0.09
35 5 0.07
39 5 0.07
40 8 0.11
41 3 0.04
42 15 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TATATAATATTATTAATAATTAAATATATAAT
Found at i:276070 original size:2 final size:2
Alignment explanation
Indices: 276063--276093 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
276053 TAAGTATTCG
276063 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
276094 CTTGGGTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:277651 original size:27 final size:29
Alignment explanation
Indices: 277594--277655 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
277584 AAATATATTC
**
277594 TAATATATATCTTCTTATTTTATTAAAAA
1 TAATATATATCTTCTTATAATATTAAAAA
277623 TAATATATATCTTCTTA-AATATTATAATAA
1 TAATATATATCTTCTTATAATATTA-AA-AA
277653 TAA
1 TAA
277656 ATGTATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.17
29 19 0.66
30 5 0.17
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (29 bp):
TAATATATATCTTCTTATAATATTAAAAA
Found at i:278162 original size:6 final size:6
Alignment explanation
Indices: 278151--278206 Score: 76
Period size: 6 Copynumber: 9.2 Consensus size: 6
278141 ATTCTTCACG
* *
278151 CCATCC CCATCC CCATCC CCATCC CCATCC CCAATCC CAATCC CAATCC
1 CCATCC CCATCC CCATCC CCATCC CCATCC CC-ATCC CCATCC CCATCC
*
278200 CAATCC C
1 CCATCC C
278207 AATCTTCATC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
6 43 0.90
7 5 0.10
ACGTcount: A:0.23, C:0.61, G:0.00, T:0.16
Consensus pattern (6 bp):
CCATCC
Found at i:281940 original size:2 final size:2
Alignment explanation
Indices: 281933--281992 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
281923 TTTAGACATT
281933 TA TA TA 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
*
281975 TA TA T- TA -A TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA
281993 AAGTAACAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
1 2 0.04
2 52 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:282225 original size:14 final size:15
Alignment explanation
Indices: 282188--282229 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
282178 TGGTTTTTCA
282188 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
282203 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
282217 GAAAATGAATTAC
1 GAAAATGAATTAC
282230 ATTTCTGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:282235 original size:20 final size:20
Alignment explanation
Indices: 282212--282262 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
282202 GGAATTTGAA
282212 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
282232 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
282252 TTCTGGAAAAT
1 TTCTGGAAAAT
282263 ATCTAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:282643 original size:30 final size:28
Alignment explanation
Indices: 282586--282753 Score: 98
Period size: 30 Copynumber: 5.9 Consensus size: 28
282576 CTTTACTAAA
*
282586 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
282615 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
282645 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATATATAAA-A-AATAT-TAT
** ** *
282674 ATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTA-AATAT-ATAAAAAATATTAT
* * *
282704 ATAATATTAAA-A-ATATATAATATTAT
1 ATATTATTAAATATATAAAAAATATTAT
*
282730 ATTATTA-TAAATAT-TAATAAATAT
1 A-TATTATTAAATATATAAAAAATAT
282754 ATTTTAAATA
Statistics
Matches: 108, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
26 15 0.14
27 12 0.11
28 15 0.14
29 28 0.26
30 31 0.29
31 5 0.05
32 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:282658 original size:59 final size:59
Alignment explanation
Indices: 282586--282737 Score: 150
Period size: 59 Copynumber: 2.6 Consensus size: 59
282576 CTTTACTAAA
*
282586 ATATTATTGAAATATATAA-ATAATATTATTCATTATTAAATATATAAAAAATT-TATTAT
1 ATATTATTAAAATATATAATATAATATTATT-ATTATTAAA-ATATAAAAAATTATATTAT
* * *** *
282645 ATATTATTAAAATA-AAAATATAATATCT-TATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTAAAATATATAATATAATAT-TAT-TATTATTAAAATATAAAAAATTATATTAT
* *
282704 ATAATATTAAAAATATATAATATTATATTATTAT
1 ATATTATT-AAAATATATAATATAATATTATTAT
282738 AAATATTAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
58 12 0.16
59 41 0.54
60 12 0.16
61 11 0.14
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (59 bp):
ATATTATTAAAATATATAATATAATATTATTATTATTAAAATATAAAAAATTATATTAT
Found at i:282722 original size:16 final size:16
Alignment explanation
Indices: 282701--282755 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
282691 TTGATTATTT
282701 TATATAATATTAAAAA
1 TATATAATATTAAAAA
* *
282717 TATATAATATT-ATAT
1 TATATAATATTAAAAA
282732 TATTATAAATATTAATAAA
1 TA-TAT-AATATTAA-AAA
282751 TATAT
1 TATAT
282756 TTTAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 4 0.13
16 14 0.45
17 6 0.19
18 4 0.13
19 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATAATATTAAAAA
Found at i:282735 original size:24 final size:24
Alignment explanation
Indices: 282702--282772 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 24
282692 TGATTATTTT
*
282702 ATATAATATTAAAAATATATAAT-A
1 ATATATTATTAAAAATAT-TAATAA
* *
282726 TTATATTATTATAAATATTAATAA
1 ATATATTATTAAAAATATTAATAA
* *
282750 ATATATT-TTAAATATTTTAATAA
1 ATATATTATTAAAAATATTAATAA
282773 TTAATATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATATTATTAAAAATATTAATAA
Found at i:282764 original size:54 final size:52
Alignment explanation
Indices: 282643--282765 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 52
282633 AAAATTTATT
* **
282643 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATATATTATATTATTATAATATAATAA
282694 AT-TATTTTATATAATATTAAAAATAT-ATAATATTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAAT-ATATTATATTATTAT-AATA-TAATAA
282750 ATATATTTTAAATATT
1 ATATATTTTAAATATT
282766 TTAATAATTA
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 2 0.03
53 3 0.05
54 29 0.48
55 6 0.10
56 9 0.15
57 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (52 bp):
ATATATTTTAAATATTAAAAATATAATATATTATATTATTATAATATAATAA
Found at i:283013 original size:42 final size:42
Alignment explanation
Indices: 282954--283073 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
282944 ATAAATTACA
*
282954 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
282996 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
283038 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
283074 TTCAGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:287332 original size:37 final size:36
Alignment explanation
Indices: 287278--287350 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 36
287268 TAAAACTAAA
287278 GAAAGAAAGTAAACCAAACTAACTAAACATCTCGAT
1 GAAAGAAAGTAAACCAAACTAACTAAACATCTCGAT
287314 GAAAGAAAGCTAAACCAAACTAACTAAACATCTCGAT
1 GAAAGAAAG-TAAACCAAACTAACTAAACATCTCGAT
287351 TCAGTCATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 9 0.25
37 27 0.75
ACGTcount: A:0.52, C:0.21, G:0.11, T:0.16
Consensus pattern (36 bp):
GAAAGAAAGTAAACCAAACTAACTAAACATCTCGAT
Found at i:298726 original size:23 final size:23
Alignment explanation
Indices: 298708--298760 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
298698 AATGCATCGA
298708 AGTGCCACATAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
* *
298731 AGTGCCGCGTAGAATTGCACCGT
1 AGTGCCACATAGAATTGCACCGT
298754 AGTGCCA
1 AGTGCCA
298761 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCGT
Found at i:298894 original size:18 final size:18
Alignment explanation
Indices: 298871--298906 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
298861 GAATACATAT
298871 ATGTCCCAAAGGACCACA
1 ATGTCCCAAAGGACCACA
*
298889 ATGTCCCGAAGGACCACA
1 ATGTCCCAAAGGACCACA
298907 TATCATTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.19, T:0.11
Consensus pattern (18 bp):
ATGTCCCAAAGGACCACA
Found at i:298981 original size:121 final size:121
Alignment explanation
Indices: 298767--299130 Score: 638
Period size: 121 Copynumber: 3.0 Consensus size: 121
298757 GCCATATAAT
** * *
298767 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGC
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
298832 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCAC
298888 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
*
298953 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATATCCCAAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCAC
* * *
299009 AATATCCCGAAGGACAAAATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
* *
299074 GTCTCACCAGACTTCACACATGTTCCAAAGAATATATATATGTCCCGAAGGACCAC
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCAC
299130 A
1 A
299131 TAGACCCTCG
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 232 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (121 bp):
AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCAAAGGACCAC
Found at i:299031 original size:17 final size:18
Alignment explanation
Indices: 298992--299031 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
298982 GAATACATAT
*
298992 ATATCCCAAAGGACCACA
1 ATATCCCAAAGGACCAAA
*
299010 ATATCCCGAAGGA-CAAA
1 ATATCCCAAAGGACCAAA
299027 ATATC
1 ATATC
299032 ATTCCTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.45, C:0.28, G:0.12, T:0.15
Consensus pattern (18 bp):
ATATCCCAAAGGACCAAA
Found at i:300452 original size:63 final size:63
Alignment explanation
Indices: 300346--300504 Score: 212
Period size: 63 Copynumber: 2.5 Consensus size: 63
300336 TAATGGAGGC
* * * *
300346 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
** **
300409 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* *
300472 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
300505 CTTCAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
63 81 0.95
64 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:300496 original size:19 final size:20
Alignment explanation
Indices: 300472--300509 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
300462 ATTTAAATTA
300472 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
300491 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
300510 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:304800 original size:9 final size:9
Alignment explanation
Indices: 304788--304850 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 9
304778 AGAAAAAAAT
304788 AAAAATAAA
1 AAAAATAAA
304797 AAAAATAAA
1 AAAAATAAA
*
304806 AGAAATAGAA
1 AAAAATA-AA
304816 AAAAA-ACAGA
1 AAAAATA-A-A
304826 AAAACATAAA
1 AAAA-ATAAA
304836 AAAGAGATAAA
1 AAA-A-ATAAA
304847 AAAA
1 AAAA
304851 GAAATTGAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
9 17 0.38
10 16 0.36
11 11 0.24
12 1 0.02
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (9 bp):
AAAAATAAA
Done.