Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002465.1 Hibiscus syriacus cultivar Beakdansim tig00005042_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: 135577
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2885 original size:22 final size:22
Alignment explanation
Indices: 2860--2909 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2850 AATAATAAGA
* *
2860 AGAATAATG-AGAAGGAAACAAG
1 AGAA-AATGAAGAAAGAAAAAAG
2882 AGAAAATGAAGAAAGAAAAAAG
1 AGAAAATGAAGAAAGAAAAAAG
2904 AGAAAA
1 AGAAAA
2910 ATACTTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.68, C:0.02, G:0.24, T:0.06
Consensus pattern (22 bp):
AGAAAATGAAGAAAGAAAAAAG
Found at i:6709 original size:2 final size:2
Alignment explanation
Indices: 6702--6728 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6692 AAAGTAAAAC
6702 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
6729 ATAAAAGATA
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:15832 original size:2 final size:2
Alignment explanation
Indices: 15825--15854 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15815 CCACATAAGA
*
15825 AT AT AT AT AT CT 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
15855 CCGCAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17970 original size:31 final size:31
Alignment explanation
Indices: 17914--18000 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
17904 GATACTCATG
* ** *
17914 TGTATTATTTGAATGCAAACCTGACATGCTA
1 TGTATTATCTGAATGCAAATTTGACATACTA
* *
17945 TGTATTATCTAAATGCAAATTTGACATATTA
1 TGTATTATCTGAATGCAAATTTGACATACTA
* *
17976 TGCATTATCTGAATACAAATTTGAC
1 TGTATTATCTGAATGCAAATTTGAC
18001 TAGTATCTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (31 bp):
TGTATTATCTGAATGCAAATTTGACATACTA
Found at i:26455 original size:20 final size:21
Alignment explanation
Indices: 26430--26469 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
26420 TTTTGGTGCA
*
26430 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAACCGATTCCCCCCAT
26450 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGATTCCCCCCA
26470 CAGGGGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCAT
Found at i:26474 original size:20 final size:20
Alignment explanation
Indices: 26431--26474 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
26421 TTTGGTGCAG
* *
26431 AGGGAATCGATCCCCCCATG
1 AGGGAACCGATCCCCCCATC
26451 AGGGAACCGATTCCCCCCA-C
1 AGGGAACCGA-TCCCCCCATC
26471 AGGG
1 AGGG
26475 GAATTGATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.25, C:0.36, G:0.27, T:0.11
Consensus pattern (20 bp):
AGGGAACCGATCCCCCCATC
Found at i:30140 original size:21 final size:21
Alignment explanation
Indices: 30114--30153 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30104 CGTTGTACAA
30114 GGGGGGAATCGGTACCCTCTT
1 GGGGGGAATCGGTACCCTCTT
* *
30135 GGGGGGGATCGGTTCCCTC
1 GGGGGGAATCGGTACCCTC
30154 CGAGCATACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.42, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCTCTT
Found at i:30215 original size:75 final size:76
Alignment explanation
Indices: 30113--30321 Score: 264
Period size: 75 Copynumber: 2.8 Consensus size: 76
30103 CCGTTGTACA
* *
30113 AGGGGGGAATCGGTACC-CTCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCAGTTCCTC-CTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
** *
30176 GCAAAACTGTTT
65 GCAAAACCATTC
* * *
30188 AGGGGGGAATCAGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCAGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
*
30252 CCAAACCATTC
66 CAAAACCATTC
* *
30263 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 AGGGGGGAATCAGTTCCTCCTATGGGGGGG-ATCGGTTCCCTCCGAGCATA-CTGGAATT
30322 TTTGGCTTAG
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
75 84 0.73
76 7 0.06
77 24 0.21
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.24
Consensus pattern (76 bp):
AGGGGGGAATCAGTTCCTCCTATGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
CAAAACCATTC
Found at i:38760 original size:22 final size:21
Alignment explanation
Indices: 38732--38772 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
38722 CCGTTGTACA
38732 AGGGGGGAATCGGTACCCTCTT
1 AGGGGGG-ATCGGTACCCTCTT
*
38754 AGGGGGGATCGGTTCCCTC
1 AGGGGGGATCGGTACCCTC
38773 CGAGCATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.15, C:0.24, G:0.39, T:0.22
Consensus pattern (21 bp):
AGGGGGGATCGGTACCCTCTT
Found at i:38931 original size:77 final size:76
Alignment explanation
Indices: 38732--38939 Score: 278
Period size: 76 Copynumber: 2.7 Consensus size: 76
38722 CCGTTGTACA
* * * *
38732 AGGGGGGAATCGGTACCCTCTTA-GGGGGG-ATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 AGGGGGGAATCGGT-TCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
** *
38795 GCAAAACTGTTT
65 GCAAAACCATTC
38807 AGGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
1 A-GGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGA
*
38871 GCCAAACCATTC
65 GCAAAACCATTC
* *
38883 AGGGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATTCTGGAA
38940 TTTTTGGCTT
Statistics
Matches: 118, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
75 34 0.29
76 54 0.46
77 30 0.25
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
CAAAACCATTC
Found at i:49351 original size:27 final size:27
Alignment explanation
Indices: 49313--49376 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
49303 TTAACAAGAT
49313 TGTCGCAAGCGTCAATATGATACCATA
1 TGTCGCAAGCGTCAATATGATACCATA
*
49340 TGTCGCAAGCGTCAATATGATACTATA
1 TGTCGCAAGCGTCAATATGATACCATA
49367 TGTCGCAAGC
1 TGTCGCAAGC
49377 TGCTCGCGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (27 bp):
TGTCGCAAGCGTCAATATGATACCATA
Found at i:51530 original size:34 final size:34
Alignment explanation
Indices: 51492--51572 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 34
51482 CATAGGTCTC
51492 GTTCGTTCATTTACGTTC-GTGAACGTTCAATTAT
1 GTTCGTTCATTTACGTTCAGT-AACGTTCAATTAT
* * * **
51526 GTTCGTTTATATT-CGTTCAGTTATGTTCGTTTAT
1 GTTCGTTCAT-TTACGTTCAGTAACGTTCAATTAT
51560 GTTCGTTCATTTA
1 GTTCGTTCATTTA
51573 TGTTTAACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
33 2 0.05
34 32 0.84
35 4 0.11
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (34 bp):
GTTCGTTCATTTACGTTCAGTAACGTTCAATTAT
Found at i:51542 original size:24 final size:24
Alignment explanation
Indices: 51515--51576 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
51505 CGTTCGTGAA
51515 CGTTCAATTATGTTCGTTTATATT
1 CGTTCAATTATGTTCGTTTATATT
* *
51539 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTCAATTATGTTCGTTTATATT
*
51563 CGTTCATTTATGTT
1 CGTTCAATTATGTT
51577 TAACCCAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.55
Consensus pattern (24 bp):
CGTTCAATTATGTTCGTTTATATT
Found at i:52669 original size:10 final size:10
Alignment explanation
Indices: 52654--52712 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
52644 GGGTCTCCAA
52654 CGTTTATGTT
1 CGTTTATGTT
52664 CGTTTATGTT
1 CGTTTATGTT
52674 CG----TGTT
1 CGTTTATGTT
52680 CGTTTATGTT
1 CGTTTATGTT
52690 CG----TGTT
1 CGTTTATGTT
52696 CGTTTATGTT
1 CGTTTATGTT
52706 CGTTTAT
1 CGTTTAT
52713 TTATTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 12 0.29
10 29 0.71
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:52681 original size:16 final size:16
Alignment explanation
Indices: 52660--52708 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
52650 CCAACGTTTA
52660 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
52676 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
52692 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
52708 T
1 T
52709 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:52705 original size:26 final size:26
Alignment explanation
Indices: 52654--52712 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
52644 GGGTCTCCAA
* *
52654 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTACGTTCATGTT
*
52680 CGTTTATGTTCGTGTT-CGTTTATGTT
1 CGTTTATGTTCGT-TTACGTTCATGTT
52706 CGTTTAT
1 CGTTTAT
52713 TTATTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (26 bp):
CGTTTATGTTCGTTTACGTTCATGTT
Found at i:54817 original size:108 final size:108
Alignment explanation
Indices: 54628--54839 Score: 379
Period size: 108 Copynumber: 2.0 Consensus size: 108
54618 ACATTCTTGA
*
54628 GCCTACTAAAATCTTCATTCCCCTCCTTAGTTTGAGAGGGTACTTCGGTATGATTAGCAAATGGA
1 GCCTACTAAAATCTTCATTCCCCTCCTTAGTTTGAGAGGGTACTCCGGTATGATTAGCAAATGGA
* *
54693 ATAATAACATTTCCATCTATCCTGTCATGGTCTTTTTTGTTGG
66 ATAAGAACATTTCCATCTATACTGTCATGGTCTTTTTTGTTGG
* *
54736 GCCTACTAAAATCTTCATTCCCCTCCTTAGTTTGTGAGGGTTCTCCGGTATGATTAGCAAATGGA
1 GCCTACTAAAATCTTCATTCCCCTCCTTAGTTTGAGAGGGTACTCCGGTATGATTAGCAAATGGA
54801 ATAAGAACATTTCCATCTATACTGTCATGGTCTTTTTTG
66 ATAAGAACATTTCCATCTATACTGTCATGGTCTTTTTTG
54840 ATGGCCTCAT
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 99 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (108 bp):
GCCTACTAAAATCTTCATTCCCCTCCTTAGTTTGAGAGGGTACTCCGGTATGATTAGCAAATGGA
ATAAGAACATTTCCATCTATACTGTCATGGTCTTTTTTGTTGG
Found at i:62788 original size:39 final size:38
Alignment explanation
Indices: 62730--62865 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 38
62720 CGAGTCAAAT
*
62730 ATATGCACCGTAA-TACTTACACATAAGGTCGTGCCAACC
1 ATATGCACCG-AAGTGCTTACACATAAGGTCGTGCC-ACC
* *
62769 ATATGCACCAAAGTGCTTACACATAAGATCGTGCTCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCGTGC-CACC
62808 ATATGCACCGAAGTGCTTACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCGTG-CCACC
*
62847 ATGTGCACCGAAGTGCTTA
1 ATATGCACCGAAGTGCTTA
62866 ATCGATATGC
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.02
39 84 0.95
40 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (38 bp):
ATATGCACCGAAGTGCTTACACATAAGGTCGTGCCACC
Found at i:62793 original size:22 final size:21
Alignment explanation
Indices: 62768--62832 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 21
62758 TCGTGCCAAC
62768 CATATGCACCAAAGTGCTTACA
1 CATATGCACC-AAGTGCTTACA
* * *
62790 CATAAG-ATC--GTGCTCAC-
1 CATATGCACCAAGTGCTTACA
62807 CATATGCACCGAAGTGCTTACA
1 CATATGCACC-AAGTGCTTACA
62829 CATA
1 CATA
62833 AGGTCGTGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
17 5 0.16
18 9 0.28
21 9 0.28
22 9 0.28
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (21 bp):
CATATGCACCAAGTGCTTACA
Found at i:65828 original size:23 final size:23
Alignment explanation
Indices: 65779--65836 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
65769 TAAGCTACCA
*
65779 AAAGGCAGAGAAAAACTTGTCAC
1 AAAGGCAGAGAAAAACTTGCCAC
* *
65802 AAAGGCAGAGATAAA-TATGCCAT
1 AAAGGCAGAGAAAAACT-TGCCAC
*
65825 AAAGCCAGAGAA
1 AAAGGCAGAGAA
65837 CATGTTACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 1 0.03
23 28 0.97
ACGTcount: A:0.50, C:0.16, G:0.22, T:0.12
Consensus pattern (23 bp):
AAAGGCAGAGAAAAACTTGCCAC
Found at i:67246 original size:24 final size:26
Alignment explanation
Indices: 67214--67263 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
67204 ACCACACATA
* *
67214 TTAACATATAAT-GTACAAACATGAC
1 TTAACATATAATAATAAAAACATGAC
67239 TTAA-ATATAATAATAAAAACATGAC
1 TTAACATATAATAATAAAAACATGAC
67264 ATGCAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (26 bp):
TTAACATATAATAATAAAAACATGAC
Found at i:69441 original size:1 final size:1
Alignment explanation
Indices: 69435--69468 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
69425 ATTCGACCTC
69435 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
69469 ATCCGATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:69753 original size:54 final size:56
Alignment explanation
Indices: 69695--70087 Score: 382
Period size: 55 Copynumber: 7.2 Consensus size: 56
69685 CTACGGGTTC
* * * *
69695 GCTCCCTCTTTCTTCAGGGAGTATAGA-ACTCGAA-AATCTTTTGAA-AA-CGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATC--TTCAACAATCGGGTCT
* *
69749 GCTCCTTATTCCTTCAGAGAGTAT-GAGACTCGAACAATCTTCAACAATCGGGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
* * * * * **
69804 ACTCCCTATTTCTTCAGAGAGTATA-AGAC-C-CACCATCTTCATCCATCGCATCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
* * * *
69857 GCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACGATTGTGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
* * * * *
69912 GCCCCCTATTTCTTCAGAGAGTATA-AGAC-C-CACAATCTTCATCAATTGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
* * * *
69965 GCCCCCTATTTCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACGATTGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
* * * * *
70020 GCCCCCTATTTCTTCAGAGAGTATA-AGACCCGAACAATCTTCAACTATTGCGTCT
1 GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
*
70075 ACTCCCTATTTCT
1 GCTCCCTATTTCT
70088 CTAGGGATTA
Statistics
Matches: 295, Mismatches: 35, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
53 98 0.33
54 33 0.11
55 164 0.56
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (56 bp):
GCTCCCTATTTCTTCAGAGAGTATAGAGACTCGAACAATCTTCAACAATCGGGTCT
Found at i:69893 original size:108 final size:108
Alignment explanation
Indices: 69746--70062 Score: 490
Period size: 108 Copynumber: 2.9 Consensus size: 108
69736 TGAAAACGTG
* * * * * * * * *
69746 TCTGCTCCTTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGGGTCTACTCCCT
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCT
* *
69811 ATTTCTTCAGAGAGTATAAGACCCACCATCTTCATCCATCGCA
66 ATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCA
*
69854 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTGTCTGCCCCCT
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCT
* *
69919 ATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATTGCG
66 ATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCA
69962 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCT
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCT
70027 ATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCA
66 ATTTCTTCAGAGAGTATAAGACCC--ACAATCTTCA
70063 ACTATTGCGT
Statistics
Matches: 193, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 183 0.95
110 10 0.05
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (108 bp):
TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCT
ATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCA
Found at i:70085 original size:163 final size:163
Alignment explanation
Indices: 69745--70087 Score: 474
Period size: 163 Copynumber: 2.1 Consensus size: 163
69735 TTGAAAACGT
* * * * *
69745 GTCTGCTCCTTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGGGTCTACTCCC
1 GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTACCCCC
* * *
69810 TATTTCTTCAGAGAGTATAAGACCCACCATCTTCATCCATCGCATCTGCCCCCTATTTCTTCAGA
66 TATTTCTTCAGAGAGTATAAGACCAACAATCTTCAACCATCGCATCTGCCCCCTATTTCTTCAGA
* *
69875 GAGTATAAGACTCGAACAATCTTCAACGATTGT
131 GAGTATAAGACCCGAACAATCTTCAACGATTGC
* * * * *
69908 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGCGTCTGCCCCC
1 GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTACCCCC
* * *
69971 TATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATTTCTTCA
66 TATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCAACCATCGCATCTGCCCCCTATTTCTTCA
*
70036 GAGAGTATAAGACCCGAACAATCTTCAACTATTGC
129 GAGAGTATAAGACCCGAACAATCTTCAACGATTGC
*
70071 GTCTACTCCCTATTTCT
1 GTCTGCTCCCTATTTCT
70088 CTAGGGATTA
Statistics
Matches: 157, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
161 46 0.29
162 2 0.01
163 109 0.69
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (163 bp):
GTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTACCCCC
TATTTCTTCAGAGAGTATAAGACCAACAATCTTCAACCATCGCATCTGCCCCCTATTTCTTCAGA
GAGTATAAGACCCGAACAATCTTCAACGATTGC
Found at i:70110 original size:55 final size:55
Alignment explanation
Indices: 69745--70087 Score: 451
Period size: 55 Copynumber: 6.3 Consensus size: 55
69735 TTGAAAACGT
* * * * * * *
69745 GTCTGCTCCTTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGG
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
* * * * * * *
69800 GTCTACTCCCTATTTCTTCAGAGAGTATAAGAC-C-CACCATCTTCATCCATCGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
* *
69853 ATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGT
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
* * *
69908 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATTGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
69961 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
* *
70016 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCGAACAATCTTCAACTATTGC
1 GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
* *
70071 GTCTACTCCCTATTTCT
1 GTCTGCCCCCTATTTCT
70088 CTAGGGATTA
Statistics
Matches: 254, Mismatches: 30, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
53 92 0.36
54 4 0.02
55 158 0.62
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (55 bp):
GTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGC
Found at i:70347 original size:51 final size:51
Alignment explanation
Indices: 70182--70748 Score: 451
Period size: 51 Copynumber: 10.8 Consensus size: 51
70172 GTAAGCGAAT
* * * *
70182 TCCCTTTTTCTTTAAGGAGTATAGAACTCGAATAATCTTTTGGAAACGGGTTTGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAAT-ATC--TT-CAAACGGGTTCGC
*
70237 TCCCTCTTTCTTTC-AGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCGC
1 TCCCTCTTTC-TTCAAGG-AGTATAGAACTCGAAT-ATCTTC---AAACGGGTTCGC
*
70293 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAAGATCTTCAAACGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGC
* * * * *
70344 TCCCTCTCTC-TCTAGGGAGTATGGAACTCAAATAGTCTTCAAATGGGTTCGC
1 TCCCTCTTTCTTC-AAGGAGTATAGAACTCGAATA-TCTTCAAACGGGTTCGC
* * *
70396 TCCCTCTTTCTTTAGGGAGTATAGAACTCGAACATCTCTTC--ACGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCG-A-ATATCTTCAAACGGGTTCGC
* * * *
70447 TCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTC-AACTGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAAC-GGGTTCGC
* * * * **
70498 TCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTC--GAAT-ATCTTCAAACGGGTTCGC
* * * * * * * * *
70552 TCCTTCTCTCTTTAAAGAGTATAGAGCTTAGACATCTCTTCAAATGGGTTCAC
1 TCCCTCTTTCTTCAAGGAGTATAGAAC-TCGA-ATATCTTCAAACGGGTTCGC
** * * * * *
70605 TCATTCTTTCTTCAAGAAGTATGGGACTCGGATATCTTCACACGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGC
* * * * * *
70656 TCCCTCTTTCTCCAGGGAGTATGGAACTTAGACCTCTCTTCAAACGGGTTCGC
1 TCCCTCTTTCTTCAAGGAGTATAGAAC-TCGA-ATATCTTCAAACGGGTTCGC
* * * *
70709 TCCTTCTTTCTTTAGGGAGTATAGAACTCGTATATCTTCA
1 TCCCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCA
70749 TTTGCTTCAC
Statistics
Matches: 410, Mismatches: 81, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
49 6 0.01
50 5 0.01
51 149 0.36
52 46 0.11
53 82 0.20
54 45 0.11
55 33 0.08
56 44 0.11
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (51 bp):
TCCCTCTTTCTTCAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGC
Found at i:70615 original size:209 final size:204
Alignment explanation
Indices: 70188--70737 Score: 530
Period size: 209 Copynumber: 2.6 Consensus size: 204
70178 GAATTCCCTT
* * *
70188 TTTCTTTAAGGAGTATAGAACTCGAATAATCTTTTGGAAACGGGTTTGCTCCCTCTTTCTTTCAG
1 TTTCTTTAAGGAGTATAGAACTCGAA-AATC-TTT---CACGGGTTCGCTCCCTCTTTCTTTAAG
* * * * *
70253 GAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCGCTCCCTCTTTCTTCAAGGAGTATAGA
61 G-AGTATGGAACTCGAA-CATCTTC---AAACGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGA
* * ** * *
70318 ACTCGAAGATCTTCAAACGGGTTCGCTCCCTCTCTCTCTAGGGAGTATGGAACTCAAATAGTCTT
121 ACTCAAAAATCTTCAAACGGGTTCGCTCCCTCTCTCTCTAAAGAGTATAGAACTCAAATACTCTT
* *
70383 CAAATGGGTTCGCTCCCTC
186 CAAATGGGTTCACTCACTC
* * *
70402 TTTCTTTAGGGAGTATAGAACTCGAACATCTCTTCACGGGTTCGCTCCTTCTTTCTTTAAGGAGT
1 TTTCTTTAAGGAGTATAGAACTCGAAAATCT-TTCACGGGTTCGCTCCCTCTTTCTTTAAGGAGT
70467 ATGGAACTCGAACATCTTC-AACTGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAA
65 ATGGAACTCGAACATCTTCAAAC-GGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAA
** * * * *
70531 ATCTTCTTCTTACGGGTTCGCTCCTTCTCTCTTTAAAGAGTATAGAGCTTAGACAT-CTCTTCAA
129 A---TCTTCAAACGGGTTCGCTCCCTCTCTCTCTAAAGAGTATAGAACTCA-A-ATACTCTTCAA
*
70595 ATGGGTTCACTCATTC
189 ATGGGTTCACTCACTC
* * * * * * * ** *
70611 TTTCTTCAAGAAGTATGGGACTCGGATATCTTCACACGGGTTCGCTCCCTCTTTCTCCAGGGAGT
1 TTTCTTTAAGGAGTATAGAACTCGAAAATCTT-TCACGGGTTCGCTCCCTCTTTCTTTAAGGAGT
* * * *
70676 ATGGAACTTAGACCTCTCTTCAAACGGGTTCGCT-CCTTCTTTCTTTAGGGAGTATAGAACTC
65 ATGGAAC-TCGAAC-ATCTTCAAACGGGTTCGCTCCCTT-TTTCTTCAGGGAGTATAGAACTC
70738 GTATATCTTC
Statistics
Matches: 282, Mismatches: 42, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
204 3 0.01
205 37 0.13
208 45 0.16
209 93 0.33
210 34 0.12
211 36 0.13
212 4 0.01
213 5 0.02
214 25 0.09
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (204 bp):
TTTCTTTAAGGAGTATAGAACTCGAAAATCTTTCACGGGTTCGCTCCCTCTTTCTTTAAGGAGTA
TGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAAT
CTTCAAACGGGTTCGCTCCCTCTCTCTCTAAAGAGTATAGAACTCAAATACTCTTCAAATGGGTT
CACTCACTC
Found at i:70655 original size:158 final size:153
Alignment explanation
Indices: 70182--70736 Score: 522
Period size: 158 Copynumber: 3.5 Consensus size: 153
70172 GTAAGCGAAT
* * * * * * * *
70182 TCCCTTTTTCTTTAAGGAGTATAGAACTCGAATAATCTTTTGGAAACGGGTTTGCTCCCTCTTTC
1 TCCCTCTTTCTTCAGGGAGTATGGAACTC-AA-AATCTCTT-CAAACGGGTTCGCTCCTTCTTTC
* * * ** * * **
70247 TTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCGCTCCCTCTTTCTTCAAGGAG
63 TTT-AGGGAGTATAGAACTAGAA-CATC-TCT--TCACGGGTTCACTCATTCTTTCTTCAAGGAG
* *
70312 TATAGAACTCGAAGATCTTCAAACGGGTTCGC
123 TATGGAACTCGAACATCTTC-AACGGGTTCGC
* * * *
70344 TCCCTCTCTC-TCTAGGGAGTATGGAACTC-AAATAGTCTTCAAATGGGTTCGCTCCCTCTTTCT
1 TCCCTCTTTCTTC-AGGGAGTATGGAACTCAAAAT-CTCTTCAAACGGGTTCGCTCCTTCTTTCT
* * * *
70407 TTAGGGAGTATAGAACTCGAACATCTCTTCACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGA
64 TTAGGGAGTATAGAACTAGAACATCTCTTCACGGGTTCACTCATTCTTTCTTCAAGGAGTATGGA
70472 ACTCGAACATCTTCAACTGGGTTCGC
129 ACTCGAACATCTTCAAC-GGGTTCGC
* * ** *
70498 TCCCTTTTTCTTCAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCCTTCTCTCT
1 TCCCTCTTTCTTCAGGGAGTATGGAACTC-AAAATC-TCTTCAAACGGGTTCGCTCCTTCTTTCT
** * * *
70563 TTAAAGAGTATAGAGCTTAG-ACATCTCTTCAAATGGGTTCACTCATTCTTTCTTCAAGAAGTAT
64 TTAGGGAGTATAGAAC-TAGAACATCTCTTC--ACGGGTTCACTCATTCTTTCTTCAAGGAGTAT
* * *
70627 GGGACTCGGATATCTTCACACGGGTTCGC
126 GGAACTCGAACATCTTCA-ACGGGTTCGC
* * **
70656 TCCCTCTTTCTCCAGGGAGTATGGAACTTAGACCTCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
1 TCCCTCTTTCTTCAGGGAGTATGGAACTCA-AAATCTCTTCAAACGGGTTCGCTCCTTCTTTCTT
70721 TAGGGAGTATAGAACT
65 TAGGGAGTATAGAACT
70737 CGTATATCTT
Statistics
Matches: 329, Mismatches: 52, Indels: 30
0.80 0.13 0.07
Matches are distributed among these distances:
153 3 0.01
154 75 0.23
155 2 0.01
156 54 0.16
157 44 0.13
158 96 0.29
159 28 0.09
160 4 0.01
161 1 0.00
162 22 0.07
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (153 bp):
TCCCTCTTTCTTCAGGGAGTATGGAACTCAAAATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTT
AGGGAGTATAGAACTAGAACATCTCTTCACGGGTTCACTCATTCTTTCTTCAAGGAGTATGGAAC
TCGAACATCTTCAACGGGTTCGC
Found at i:71176 original size:36 final size:36
Alignment explanation
Indices: 71117--71383 Score: 322
Period size: 36 Copynumber: 7.4 Consensus size: 36
71107 ACTCTTCTGA
* * **
71117 GAAGGCTTAAAAATGGATCTGCTTCACTACTT-TTTGGT
1 GAAGGCTT-AAGATGG-TTTGCTTCACTA-TTCTCCGGT
* * *
71155 GAAGACTTAAGATGGTTTGCTTCACTACTCTCTGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
71191 GAAGACTTATGATGGTTTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* * *
71227 GAAGGCTTCAGATTGATTGCTTCACTATTCTCCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
71263 GAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGAT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
71299 GAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGT
1 GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
* *
71335 GAAGGCTTCAGATGGTTTGCTTCACT-TCTCTTCGGT
1 GAAGGCTTAAGATGGTTTGCTTCACTAT-TCTCCGGT
71371 GAAGGCTTAAGAT
1 GAAGGCTTAAGAT
71384 TGACTTTGCT
Statistics
Matches: 202, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
35 2 0.01
36 187 0.93
37 6 0.03
38 7 0.03
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (36 bp):
GAAGGCTTAAGATGGTTTGCTTCACTATTCTCCGGT
Found at i:78292 original size:24 final size:26
Alignment explanation
Indices: 78260--78309 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
78250 ACCACACATA
* *
78260 TTAACATATAAT-GTACAAACATGAC
1 TTAACATATAATAATAAAAACATGAC
78285 TTAA-ATATAATAATAAAAACATGAC
1 TTAACATATAATAATAAAAACATGAC
78310 ATGCAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (26 bp):
TTAACATATAATAATAAAAACATGAC
Found at i:82338 original size:26 final size:26
Alignment explanation
Indices: 82286--82338 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
82276 ATACAATAAG
* *
82286 TGACATTTATTGAAATGTACCATTAA
1 TGACATGTATTGAAATGTACCAGTAA
* *
82312 TGACATGTATTTAAATGTACCGGTAA
1 TGACATGTATTGAAATGTACCAGTAA
82338 T
1 T
82339 TAAAATAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (26 bp):
TGACATGTATTGAAATGTACCAGTAA
Found at i:86403 original size:16 final size:16
Alignment explanation
Indices: 86379--86449 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
86369 GGTATTACCC
*
86379 GACCAGTTTTCAACCT
1 GACCTGTTTTCAACCT
86395 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
86411 GGCCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
* *
86427 GACTTGTTTTTAACCT
1 GACCTGTTTTCAACCT
86443 GACCTGT
1 GACCTGT
86450 AAATGATCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.39
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:86660 original size:13 final size:13
Alignment explanation
Indices: 86644--86670 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
86634 AACCTATTAT
86644 ATAAAATTATTTA
1 ATAAAATTATTTA
86657 ATAAAATTATTTA
1 ATAAAATTATTTA
86670 A
1 A
86671 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:86744 original size:14 final size:14
Alignment explanation
Indices: 86722--86768 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
86712 TAAAAATAAA
*
86722 AATTAATATAGTTT
1 AATTTATATAGTTT
86736 AATTTATATA----
1 AATTTATATAGTTT
86746 AA-TTATATAGTTT
1 AATTTATATAGTTT
86759 AATTTATATA
1 AATTTATATA
86769 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:86755 original size:23 final size:24
Alignment explanation
Indices: 86721--86770 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
86711 ATAAAAATAA
86721 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
86745 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
86768 AAA
1 AAA
86771 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:86975 original size:49 final size:50
Alignment explanation
Indices: 86922--87024 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 50
86912 AGTGCTTATG
** * ** *
86922 GTTTAAAGTTTAGGGTTTCTATAAACTATATACTTTA-TTACTTTATATA
1 GTTTAAAGCATAGGATTTCTATAAACTATATAAGTAATTTACTTTATATA
* * *
86971 GTTT-ATGCATAGTATTTCTATAAATTATATAAGTAATTTACTTTATATA
1 GTTTAAAGCATAGGATTTCTATAAACTATATAAGTAATTTACTTTATATA
87020 GTTTA
1 GTTTA
87025 TATATATATA
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
48 23 0.53
49 20 0.47
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.50
Consensus pattern (50 bp):
GTTTAAAGCATAGGATTTCTATAAACTATATAAGTAATTTACTTTATATA
Found at i:87034 original size:15 final size:15
Alignment explanation
Indices: 87014--87050 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
87004 TAATTTACTT
87014 TATATAGTTTATATA
1 TATATAGTTTATATA
87029 TATATAGTTTATATA
1 TATATAGTTTATATA
87044 TACTATA
1 TA-TATA
87051 TATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:87052 original size:20 final size:20
Alignment explanation
Indices: 87023--87076 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
87013 TTATATAGTT
87023 TATA-TATATATAGTTTATA
1 TATACTATATATAGTTTATA
*
87042 TATACTATATATGGTTTATA
1 TATACTATATATAGTTTATA
*
87062 CATACATATTATATA
1 TATAC-TA-TATATA
87077 AAATTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 18 0.62
21 2 0.07
22 5 0.17
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (20 bp):
TATACTATATATAGTTTATA
Found at i:88641 original size:19 final size:18
Alignment explanation
Indices: 88601--88667 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 18
88591 CAAGGATTGA
*
88601 TTTAGGGTTTAAAGTTTAGG
1 TTTAGGGTTT-GAGTTT-GG
88621 TTTAGGGTTTGAGTTTGGG
1 TTTAGGGTTTGAGTTT-GG
*
88640 TTTA-GGTTTGAGTTCTAG
1 TTTAGGGTTTGAGTT-TGG
88658 TTTAGGGTTT
1 TTTAGGGTTT
88668 AGAATTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 15 0.36
19 17 0.40
20 10 0.24
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.49
Consensus pattern (18 bp):
TTTAGGGTTTGAGTTTGG
Found at i:88660 original size:18 final size:18
Alignment explanation
Indices: 88620--88663 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
88610 TAAAGTTTAG
*
88620 GTTTAGGGTTTGAGTTTGG
1 GTTTA-GGTTTGAGTTTGA
88639 GTTTAGGTTTGAGTTCT-A
1 GTTTAGGTTTGAGTT-TGA
88657 GTTTAGG
1 GTTTAGG
88664 GTTTAGAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.14, C:0.02, G:0.36, T:0.48
Consensus pattern (18 bp):
GTTTAGGTTTGAGTTTGA
Found at i:88767 original size:2 final size:2
Alignment explanation
Indices: 88760--88805 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
88750 ATATGGTTTT
88760 TA TA TA TA -A 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
88801 T- TA TA
1 TA TA TA
88806 CATAGTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89101 original size:2 final size:2
Alignment explanation
Indices: 89094--89430 Score: 117
Period size: 2 Copynumber: 172.0 Consensus size: 2
89084 TGTTTCTTTA
* *
89094 AT AT AT AT AT AT AT AT AT -T A- AT -T AT AC AT AC 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
* *
89133 AT AT ACT AT AT -T AGT AT AA AT -T AT A- AT AT AT AA ACT AT AT
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * * * *
89173 AT -T TT AT AT A- AT TT AT AC AT AT AT AGT TT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* * * *
89214 TT AT AT AT AT ACT AT AT A- AT AT AA AT A- AT AT -T TT AT AA ACT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* * * * *
89255 AT AT ACT -T TT AT AGT TT AT AC AT AT AT AGT TT AT AT AC AT AGT
1 AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT A-T
* * *
89298 TT AT AT AT AT AGT -T CAC AT A- AT CAT A- AT TT AT AT AT AT AT
1 AT AT AT AT AT A-T AT -AT AT AT AT -AT AT AT AT AT AT AT AT AT
* * *
89338 AT AT AT AT AT AG CT -T AT A- AT A- AT -T AT AT AGT TT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
89376 AT AA AT AT AGT TT AT AT GT AA ACT -T AT AT -T AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
89418 AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT
89431 TTTTTCAATT
Statistics
Matches: 244, Mismatches: 52, Indels: 78
0.65 0.14 0.21
Matches are distributed among these distances:
1 23 0.09
2 203 0.83
3 18 0.07
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89161 original size:29 final size:32
Alignment explanation
Indices: 89094--89172 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 32
89084 TGTTTCTTTA
* *
89094 ATATATATATATA-TATATTAATTATACATAC
1 ATATATATATATACTATATTAAGTATAAATAC
*
89125 ATATATATATATACTATATT-AGTATAAAT-T
1 ATATATATATATACTATATTAAGTATAAATAC
*
89155 ATA-ATATATAAACTATAT
1 ATATATATATATACTATAT
89173 ATTTTATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 14 0.33
30 3 0.07
31 20 0.47
32 6 0.14
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (32 bp):
ATATATATATATACTATATTAAGTATAAATAC
Found at i:89197 original size:15 final size:15
Alignment explanation
Indices: 89092--89348 Score: 72
Period size: 15 Copynumber: 16.9 Consensus size: 15
89082 AGTGTTTCTT
*
89092 TAATATATATATATA
1 TAATTTATATATATA
* *
89107 TATATTAAT-TATACA
1 TA-ATTTATATATATA
89122 TACA--TATATATATA
1 TA-ATTTATATATATA
*
89136 T-A-CTATAT-TAGTA
1 TAATTTATATATA-TA
*
89149 TAAATTATA-ATATA
1 TAATTTATATATATA
* *
89163 TAAACTATATATTTTATA
1 T-AA-TTTATA-TATATA
*
89181 TAATTTATACATATA
1 TAATTTATATATATA
* *
89196 TAGTTTATATACATA
1 TAATTTATATATATA
89211 T-ATTTATATATATA
1 TAATTTATATATATA
* *
89225 CT-ATATAATATAAATAA
1 -TAAT-TTATATATAT-A
* *
89242 TATTTTATAAACTATA
1 TAATTTATATA-TATA
* *
89258 TACTTT-TATAGTTTA
1 TAATTTATATA-TATA
* *
89273 TACATATATAGTTTATA
1 TA-ATTTATA-TATATA
89290 TACATAGTT-TATATATA
1 TA-AT--TTATATATATA
* * *
89307 TAGTTCACATA-ATCA
1 TAATTTATATATAT-A
89322 TAATTTATATATATA
1 TAATTTATATATATA
*
89337 T-ATATATATATA
1 TAATTTATATATA
89349 GCTTATAATA
Statistics
Matches: 177, Mismatches: 41, Indels: 49
0.66 0.15 0.18
Matches are distributed among these distances:
12 3 0.02
13 10 0.06
14 34 0.19
15 60 0.34
16 38 0.21
17 23 0.13
18 8 0.05
19 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (15 bp):
TAATTTATATATATA
Found at i:89206 original size:17 final size:17
Alignment explanation
Indices: 89186--89295 Score: 59
Period size: 17 Copynumber: 6.5 Consensus size: 17
89176 TTATATAATT
89186 TATACATATATAGTTTA
1 TATACATATATAGTTTA
89203 TATACATATAT--TTATA
1 TATACATATATAGTT-TA
* * *
89219 TATATACTATATAATATA
1 TATACA-TATATAGTTTA
* ***
89237 AATA-ATATTTTATAAACTA
1 TATACATA---TATAGTTTA
* *
89256 TATACTTTTATAG-TT-
1 TATACATATATAGTTTA
89271 TATACATATATAGTTTA
1 TATACATATATAGTTTA
89288 TATACATA
1 TATACATA
89296 GTTTATATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
15 13 0.18
16 12 0.17
17 29 0.41
18 5 0.07
19 11 0.15
20 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TATACATATATAGTTTA
Found at i:89213 original size:70 final size:71
Alignment explanation
Indices: 89092--89289 Score: 175
Period size: 70 Copynumber: 2.8 Consensus size: 71
89082 AGTGTTTCTT
* * *
89092 TAATATATATATATA-TATAT-TAA-TTATACATACATATA-TATATATAC-TATATTAGTATAA
1 TAATATAAATATATATTTTATATAATTTATACAT--ATATAGTTTATATACATATATT--TATAA
89152 AT-TA-TA-A
62 ATATACTATA
*
89159 T-ATATAAACTATATATTTTATATAATTTATACATATATAGTTTATATACATATATTTATATATA
1 TAATATAAA-TATATATTTTATATAATTTATACATATATAGTTTATATACATATATTTATAAATA
89223 TACTATA
65 TACTATA
* * * * *
89230 TAATATAAATA-ATATTTTATA-AACTATATACTTTTATAGTTTATACATATATAGTTTATA
1 TAATATAAATATATATTTTATATAA-TTTATACATATATAGTTTATATACATATA-TTTATA
89290 TACATAGTTT
Statistics
Matches: 110, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
66 6 0.05
67 7 0.06
68 15 0.14
69 15 0.14
70 50 0.45
71 10 0.09
72 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (71 bp):
TAATATAAATATATATTTTATATAATTTATACATATATAGTTTATATACATATATTTATAAATAT
ACTATA
Found at i:89280 original size:85 final size:86
Alignment explanation
Indices: 89099--89308 Score: 282
Period size: 87 Copynumber: 2.4 Consensus size: 86
89089 CTTTAATATA
* * * * *
89099 TATATATATATA-TTAATTATACATACATATATATATATACTATATTAGTATAAATTATAATATA
1 TATACATATATAGTTTA-TATACATA-ATTTATATATATACTATATTAATATAAATAATAATATA
*
89163 TAAACTATATATTTTATATAATT
64 TAAACTATATACTTTATATAATT
* *
89186 TATACATATATAGTTTATATACATATATTTATATATATACTATA-TAATATAAATAATATTTTAT
1 TATACATATATAGTTTATATACATA-ATTTATATATATACTATATTAATATAAATAATAATATAT
*
89250 AAACTATATACTTT-TATAGTT
65 AAACTATATACTTTATATAATT
*
89271 TATACATATATAGTTTATATACATAGTTTATATATATA
1 TATACATATATAGTTTATATACATAATTTATATATATA
89309 GTTCACATAA
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
84 12 0.11
85 31 0.28
86 29 0.26
87 36 0.32
88 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (86 bp):
TATACATATATAGTTTATATACATAATTTATATATATACTATATTAATATAAATAATAATATATA
AACTATATACTTTATATAATT
Found at i:89296 original size:13 final size:13
Alignment explanation
Indices: 89264--89378 Score: 90
Period size: 13 Copynumber: 8.3 Consensus size: 13
89254 TATATACTTT
89264 TATAGTTTATACATA
1 TATAGTTTAT--ATA
89279 TATAGTTTATATA
1 TATAGTTTATATA
*
89292 CATAGTTTATATA
1 TATAGTTTATATA
* *
89305 TATAGTTCACATAA
1 TATAGTTTATAT-A
*
89319 TCATAATTTATATA
1 T-ATAGTTTATATA
*
89333 TATA-TATATATA
1 TATAGTTTATATA
89345 TATAGCTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
89363 TATAGTTTATA-A
1 TATAGTTTATATA
89375 TATA
1 TATA
89379 AATATAGTTT
Statistics
Matches: 83, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
12 16 0.19
13 27 0.33
14 6 0.07
15 21 0.25
16 3 0.04
17 3 0.04
18 7 0.08
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:89306 original size:70 final size:71
Alignment explanation
Indices: 89158--89306 Score: 178
Period size: 70 Copynumber: 2.1 Consensus size: 71
89148 ATAAATTATA
* * *
89158 ATATATAAACTATATATTTTATATAATTTATACATATATAGTTTATATACATATATTTATATATA
1 ATATATAAACTATATATTTTATATAATATATACATATATAGTTTATACACATATATTTATATACA
89223 TACTAT
66 TACTAT
* * *
89229 ATAATATAAA-TA-ATATTTTATA-AACTATATACTTTTATAGTTTATACATATATAGTTTATAT
1 AT-ATATAAACTATATATTTTATATAA-TATATACATATATAGTTTATACACATATA-TTTATAT
* *
89291 ACATAGTTT
63 ACATACTAT
89300 ATATATA
1 ATATATA
89307 TAGTTCACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
69 2 0.03
70 39 0.58
71 19 0.28
72 7 0.10
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (71 bp):
ATATATAAACTATATATTTTATATAATATATACATATATAGTTTATACACATATATTTATATACA
TACTAT
Found at i:89343 original size:85 final size:85
Alignment explanation
Indices: 89099--89344 Score: 266
Period size: 87 Copynumber: 2.9 Consensus size: 85
89089 CTTTAATATA
* * * * * *
89099 TATATATATATA-TTAATTATACATACATATATATATATACTATATTAGTATAAATTATAATATA
1 TATACATATATAGTTTA-TATACATATATTTATATATATACTACA-TAATATAAATTAT-ATATA
*
89163 TAAACTATATATTTTATATAATT
63 TAAACTATATACTTTATATAATT
* * *
89186 TATACATATATAGTTTATATACATATATTTATATATATACTATATAATATAAATAATATTTTATA
1 TATACATATATAGTTTATATACATATATTTATATATATACTACATAATATAAATTATA-TATATA
*
89251 AACTATATACTTT-TATAGTT
65 AACTATATACTTTATATAATT
* * *
89271 TATACATATATAGTTTATATACATA-GTTTATATATATAGTTCACATAATCATAATTTATATATA
1 TATACATATATAGTTTATATACATATATTTATATATATA-CT-ACATAAT-ATAAATTATATATA
*
89335 TATA-TATATA
63 TAAACTATATA
89345 TATAGCTTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
84 12 0.09
85 39 0.28
86 40 0.29
87 44 0.32
88 3 0.02
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (85 bp):
TATACATATATAGTTTATATACATATATTTATATATATACTACATAATATAAATTATATATATAA
ACTATATACTTTATATAATT
Found at i:99652 original size:47 final size:47
Alignment explanation
Indices: 99538--99653 Score: 115
Period size: 47 Copynumber: 2.4 Consensus size: 47
99528 ATTCATTTAA
* * * * *
99538 AAGATAAACGAACACAAATGAACAAACATAAACGAACGGATGTAAACG
1 AAGATAAACAAACAC-AATAAACAAACAAAAACGAACGAACGTAAACG
* * * * *
99586 AACATAAACAAATATAATAAACAAACAAAAACGAGCGAACGTAAATG
1 AAGATAAACAAACACAATAAACAAACAAAAACGAACGAACGTAAACG
* *
99633 AAGATAAACTAGCACAATAAA
1 AAGATAAACAAACACAATAAA
99654 TGAACATAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
47 42 0.79
48 11 0.21
ACGTcount: A:0.59, C:0.16, G:0.13, T:0.12
Consensus pattern (47 bp):
AAGATAAACAAACACAATAAACAAACAAAAACGAACGAACGTAAACG
Found at i:100107 original size:24 final size:24
Alignment explanation
Indices: 100053--100110 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
100043 ACTTAAACTT
*
100053 AAATGAACGAACATAAACGAACGA
1 AAATAAACGAACATAAACGAACGA
* *
100077 AAGTAAACGAACATAAATGAAC-A
1 AAATAAACGAACATAAACGAACGA
100100 AATATAAACGA
1 AA-ATAAACGA
100111 TCGAATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.60, C:0.14, G:0.14, T:0.12
Consensus pattern (24 bp):
AAATAAACGAACATAAACGAACGA
Found at i:101594 original size:2 final size:2
Alignment explanation
Indices: 101587--101626 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
101577 TTGATAAATG
101587 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
101627 AACTTATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:103543 original size:63 final size:64
Alignment explanation
Indices: 103444--103583 Score: 248
Period size: 63 Copynumber: 2.2 Consensus size: 64
103434 AAGACTCCGG
103444 GGTTGGAGGATCA-CAGGGATTACCCCAACACTCTGCGGTTGGAGTAGAGCAGGCATCCTTTGC
1 GGTTGGAGGATCACCAGGGATTACCCCAACACTCTGCGGTTGGAGTAGAGCAGGCATCCTTTGC
* *
103507 GGTTGGAGGATCACCA-GGATTACCCCAAGACTCTGCGGTTGGAGTTGAGCAGGCATCCTTTGC
1 GGTTGGAGGATCACCAGGGATTACCCCAACACTCTGCGGTTGGAGTAGAGCAGGCATCCTTTGC
103570 GGTTGGAGGATCAC
1 GGTTGGAGGATCAC
103584 AGGCATCCTT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 72 0.97
64 2 0.03
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (64 bp):
GGTTGGAGGATCACCAGGGATTACCCCAACACTCTGCGGTTGGAGTAGAGCAGGCATCCTTTGC
Found at i:103615 original size:27 final size:27
Alignment explanation
Indices: 103540--103620 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
103530 CCCAAGACTC
*
103540 TGCGGTTGGAGTTGAGCAGGCATCCTT
1 TGCGGTTGGAGTGGAGCAGGCATCCTT
*
103567 TGCGGTTGGA--GGATCACAGGCATCCTT
1 TGCGGTTGGAGTGGA--GCAGGCATCCTT
*
103594 TGCGGTTGGAGTGGAGCGGGCATCCTT
1 TGCGGTTGGAGTGGAGCAGGCATCCTT
103621 GGTAACACTC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 2 0.04
27 41 0.89
29 3 0.07
ACGTcount: A:0.15, C:0.20, G:0.38, T:0.27
Consensus pattern (27 bp):
TGCGGTTGGAGTGGAGCAGGCATCCTT
Found at i:109646 original size:144 final size:147
Alignment explanation
Indices: 109389--109670 Score: 498
Period size: 144 Copynumber: 1.9 Consensus size: 147
109379 GTTGGGGGGG
109389 GGGGGGGTTTCAGAATTGGGCCAATCTGTGCTCATGGCTACCACACATGTTGAGGGTTAAAACTT
1 GGGGGGGTTTCAGAATTGGGCCAATCTGTGCTCATGGCTACCACACA--TT-AGGGTTAAAACTT
109454 GTAGAGAATAGAAGTAGCTTGTGAATGCCTTAGGTTCACGTGAATTTTAAATCTTTTACCAGTTA
63 GTAGAGAATAGAAGTAGCTTGTGAATGCCTTAGGTTCACGTGAATTTTAAATCTTTTACCAGTTA
109519 TTATGAATGTGTGTTGTGTT
128 TTATGAATGTGTGTTGTGTT
109539 GGGGGGGTTTCAGAATTGGGCCAATCTGTGCTCATGGCTACCACACA-T-GGGTT-AAACTTGTA
1 GGGGGGGTTTCAGAATTGGGCCAATCTGTGCTCATGGCTACCACACATTAGGGTTAAAACTTGTA
* *
109601 GAGAATAGAAGTAGCTTGTTAATGCCTTAGGTTCACGTGAATTTTAAATCTTTTACCAGTTATTT
66 GAGAATAGAAGTAGCTTGTGAATGCCTTAGGTTCACGTGAATTTTAAATCTTTTACCAGTTATTA
109666 TGAAT
131 TGAAT
109671 TTATAGCAGC
Statistics
Matches: 130, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
144 77 0.59
145 5 0.04
147 1 0.01
150 47 0.36
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (147 bp):
GGGGGGGTTTCAGAATTGGGCCAATCTGTGCTCATGGCTACCACACATTAGGGTTAAAACTTGTA
GAGAATAGAAGTAGCTTGTGAATGCCTTAGGTTCACGTGAATTTTAAATCTTTTACCAGTTATTA
TGAATGTGTGTTGTGTT
Found at i:111055 original size:6 final size:6
Alignment explanation
Indices: 111044--111076 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
111034 AAAGAAAAGC
111044 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAG
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAG
111077 AAGACCGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:111742 original size:21 final size:20
Alignment explanation
Indices: 111656--111813 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
111646 AAATGACCAA
**
111656 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
111675 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
111695 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
111715 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
111736 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
111757 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
111777 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
111798 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
111814 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:111875 original size:20 final size:20
Alignment explanation
Indices: 111781--112009 Score: 248
Period size: 20 Copynumber: 11.4 Consensus size: 20
111771 GATTTTCCAG
* ** *
111781 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
111801 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
111821 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
111841 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
111861 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
111881 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
111901 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
111921 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
111941 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
111961 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
111981 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
112001 AATCACAAC
1 AATCGCAAC
112010 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:112740 original size:24 final size:24
Alignment explanation
Indices: 112701--112747 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
112691 AAATTTGGTC
112701 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
112725 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
112748 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:115281 original size:33 final size:34
Alignment explanation
Indices: 115230--115441 Score: 222
Period size: 33 Copynumber: 6.2 Consensus size: 34
115220 CGGAAATTAC
*
115230 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
115263 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
* * *
115297 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--CG--ATGAAAATCGCAATGCGA-AAT-GAA
*
115336 AATGCGGAA--ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACGATGAAAATCGCAATGCGAAATGAA
*
115369 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
* *
115402 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
115435 AATCGCA
1 AATCGCA
115442 TTGCGATTCT
Statistics
Matches: 153, Mismatches: 13, Indels: 26
0.80 0.07 0.14
Matches are distributed among these distances:
32 6 0.04
33 87 0.57
34 32 0.21
36 1 0.01
38 2 0.01
39 20 0.13
40 5 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:115307 original size:53 final size:53
Alignment explanation
Indices: 115244--115409 Score: 291
Period size: 53 Copynumber: 3.2 Consensus size: 53
115234 GCAACGAGAG
* *
115244 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
115297 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
115350 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
115402 AATCGCAA
1 AATCGCAA
115410 CGAGAGAATC
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
52 16 0.15
53 93 0.85
54 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:115387 original size:86 final size:88
Alignment explanation
Indices: 115230--115447 Score: 308
Period size: 86 Copynumber: 2.5 Consensus size: 88
115220 CGGAAATTAC
*
115230 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--ATGAAAATCGCAATGCGGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAA-GCGG-
115291 AATGAAAATCGCAATGCGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
115316 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCG-AATGAAAATCGCAAGCGG
*
115379 -A-GAGAATCGCAATGCGAAATGAA
64 AATGAAAATCGCAATGCGAAATGAA
* *
115402 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
115448 TTCTCTCGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
84 1 0.01
85 18 0.15
86 71 0.58
87 16 0.13
89 2 0.02
90 1 0.01
92 13 0.11
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.14
Consensus pattern (88 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAGCGGAA
TGAAAATCGCAATGCGAAATGAA
Found at i:115388 original size:14 final size:14
Alignment explanation
Indices: 115369--115423 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
115359 GCGAAATGAA
115369 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
115383 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
115402 AATCGCAACGAGAG
1 AATCGCAACGAGAG
115416 AATCGCAA
1 AATCGCAA
115424 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:115550 original size:52 final size:53
Alignment explanation
Indices: 115437--115553 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
115427 GAAATTAAAA
115437 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
*
115490 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
115542 TCGCATTGCGAT
1 TCGCATTGCGAT
115554 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
Found at i:115561 original size:19 final size:19
Alignment explanation
Indices: 115456--115553 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
115446 GATTCTCTCG
115456 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
115476 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
115495 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
115509 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115528 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
115547 TTGCGAT
1 TTGCGAT
115554 AGTCATTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 6 0.09
19 36 0.52
20 14 0.20
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:115679 original size:14 final size:14
Alignment explanation
Indices: 115651--115696 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
115641 TTATGTTCGC
*
115651 ATCAA-TTTCACAA
1 ATCAACTTTTACAA
115664 ATCAACTTTTACAA
1 ATCAACTTTTACAA
*
115678 ATCATCTTTTACAA
1 ATCAACTTTTACAA
115692 ATCAA
1 ATCAA
115697 TTAAACAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.43, C:0.22, G:0.00, T:0.35
Consensus pattern (14 bp):
ATCAACTTTTACAA
Found at i:117659 original size:19 final size:19
Alignment explanation
Indices: 117619--117734 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
117609 TAGTTTACTT
* *
117619 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
117639 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
117658 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
117672 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
117691 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
117705 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
117724 TCGCAATGCGA
1 TCGCAACGCGA
117735 TTTTGGTTTC
Statistics
Matches: 81, Mismatches: 5, Indels: 21
0.76 0.05 0.20
Matches are distributed among these distances:
14 16 0.20
16 11 0.14
17 11 0.14
19 31 0.38
20 12 0.15
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:117675 original size:14 final size:14
Alignment explanation
Indices: 117656--117712 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
117646 GCGAAATGAA
*
117656 AATCGCAACGACAG
1 AATCGCAACGAAAG
117670 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
117687 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
117703 AATCGCAACG
1 AATCGCAACG
117713 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:117683 original size:33 final size:33
Alignment explanation
Indices: 117637--117729 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
117627 CGAAACTTAA
*
117637 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
117670 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
117703 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
117730 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:117765 original size:14 final size:14
Alignment explanation
Indices: 117746--117772 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
117736 TTTGGTTTCG
117746 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
117760 CGTTGCGATTTTG
1 CGTTGCGATTTTG
117773 GTTTCGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:117772 original size:33 final size:33
Alignment explanation
Indices: 117730--117824 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
117720 AAAATCGCAA
117730 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
*
117763 TGCGATTTTGGTTTCGCGTTGCGATTCTT-TTGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTGTCGT
**
117796 TGCGATTTTCATTTCGCGTTGCGATTTTG
1 TGCGATTTTGGTTTCGCGTTGCGATTTTG
117825 GTTTCGCGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
32 2 0.04
33 53 0.93
34 2 0.04
ACGTcount: A:0.07, C:0.16, G:0.27, T:0.49
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:117784 original size:19 final size:19
Alignment explanation
Indices: 117730--117858 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
117720 AAAATCGCAA
117730 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
117749 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
117763 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
117782 TGCGATTCT--TTT---GT
1 TGCGATTTTGGTTTCGCGT
**
117796 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
117815 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
117834 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
117854 TGCGA
1 TGCGA
117859 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 6, Indels: 21
0.77 0.05 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 4 0.04
17 4 0.04
18 1 0.01
19 48 0.52
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.48
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:118166 original size:93 final size:93
Alignment explanation
Indices: 117903--118184 Score: 541
Period size: 92 Copynumber: 3.1 Consensus size: 93
117893 ATGGATTGCA
117903 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
117967 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
117995 TTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
118059 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
118087 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
118152 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
118180 TTACT
1 TTACT
118185 AAGCAATCTA
Statistics
Matches: 187, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
92 96 0.51
93 91 0.49
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:119915 original size:20 final size:20
Alignment explanation
Indices: 119884--119947 Score: 83
Period size: 20 Copynumber: 3.1 Consensus size: 20
119874 TTTTGGTTGA
119884 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*** *
119904 AATGACTGTCGCAACGAGATA
1 AATGAAAATCGCAACGAGA-G
119925 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
119945 AAT
1 AAT
119948 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:119936 original size:21 final size:20
Alignment explanation
Indices: 119883--120004 Score: 83
Period size: 14 Copynumber: 6.8 Consensus size: 20
119873 CTTTTGGTTG
119883 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* ***
119903 GAATGACTGTCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
119923 TAAATGAAAATCGCAACGAG-
1 -AAATGAAAATCGCAACGAGA
*
119943 --A-G--AATCGCAACGCG-
1 AAATGAAAATCGCAACGAGA
119957 AAATGAAAATCGCAAC--G-
1 AAATGAAAATCGCAACGAGA
*
119974 AAA-G--AATCGCAACGCG-
1 AAATGAAAATCGCAACGAGA
119990 AAATGAAAATCGCAA
1 AAATGAAAATCGCAA
120005 TGCGATTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
14 20 0.24
16 7 0.09
17 7 0.09
19 17 0.21
20 16 0.20
21 15 0.18
ACGTcount: A:0.48, C:0.19, G:0.22, T:0.11
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:119964 original size:33 final size:33
Alignment explanation
Indices: 119882--120004 Score: 156
Period size: 33 Copynumber: 3.5 Consensus size: 33
119872 TCTTTTGGTT
*
119882 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
119921 GATAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 G--AAATGAAAATCGCAACGAGAGAATCGCAACGC
*
119956 GAAATGAAAATCGCAACGAAAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
119989 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
120005 TGCGATTTTG
Statistics
Matches: 80, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
33 47 0.59
35 9 0.11
38 1 0.01
39 1 0.01
40 1 0.01
41 21 0.26
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:120040 original size:14 final size:14
Alignment explanation
Indices: 120021--120077 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
120011 TTTGGTTTCG
120021 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
120035 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
120054 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
120068 CGTTACGATT
1 CGTTGCGATT
120078 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:120058 original size:33 final size:33
Alignment explanation
Indices: 120005--120085 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
119995 AAAATCGCAA
** *
120005 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
120038 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
*
120071 TACGATTTTCATTTC
1 TGCGATTTTCATTTC
120086 TCTCGTTGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
Found at i:120088 original size:21 final size:21
Alignment explanation
Indices: 120062--120137 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
120052 CACGTTGCGA
*
120062 TTCTCTCGTTACGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
120083 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
120103 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
120124 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
120138 CTCTTCTGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.37
21 29 0.63
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:120118 original size:41 final size:41
Alignment explanation
Indices: 120061--120138 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
120051 TCACGTTGCG
*
120061 ATTCTCTCGTTACGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGACAGTC
*
120102 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGAC
120139 TCTTCTGCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.14, C:0.26, G:0.15, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTACGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:120259 original size:33 final size:33
Alignment explanation
Indices: 120217--120287 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
120207 AATACTAACT
120217 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
120250 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
120283 TGAAA
1 TGAAA
120288 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:120692 original size:20 final size:20
Alignment explanation
Indices: 120667--120859 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
120657 CTTTAAATAT
120667 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
120687 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
120709 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
120728 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
120748 CGCATTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
120768 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
120788 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
120808 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
120828 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
120848 CGCGTTGCGATT
1 CGCGTTGCGATT
120860 CTTGAAAATC
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.01
20 129 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:120854 original size:60 final size:60
Alignment explanation
Indices: 120667--120859 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
120657 CTTTAAATAT
**
120667 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * * *
120728 CGCGTTGCGATATACGGATACGCATTGCGATTTACAG-ATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTA-TGTATTCGCGTTGCGATTTACGGATA
* * * ** *
120788 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
120848 CGCGTTGCGATT
1 CGCGTTGCGATT
120860 CTTGAAAATC
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.01
60 83 0.73
61 29 0.26
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:120912 original size:21 final size:20
Alignment explanation
Indices: 120827--120924 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
120817 ATTTATGTGT
* *
120827 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
120847 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
120868 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
120889 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
120910 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
120925 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:120920 original size:42 final size:43
Alignment explanation
Indices: 120827--120925 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
120817 ATTTATGTGT
* *
120827 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
120868 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
120910 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
120926 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Found at i:132346 original size:22 final size:21
Alignment explanation
Indices: 132315--132355 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
132305 TTAGGTTAGG
*
132315 GTGTAGGGTTTATGGTTTAAA
1 GTGTAGGGTTTAAGGTTTAAA
132336 GTGTAAGGGTTTAAGGTTTA
1 GTGT-AGGGTTTAAGGTTTA
132356 TAATTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (21 bp):
GTGTAGGGTTTAAGGTTTAAA
Found at i:132757 original size:21 final size:20
Alignment explanation
Indices: 132733--132772 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
132723 TTAACAAAAT
132733 AATAATATT-TTTATATATTAG
1 AATAAT-TTATTTA-ATATTAG
132754 AATAATTTATTTAATATTA
1 AATAATTTATTTAATATTA
132773 TTTATGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AATAATTTATTTAATATTAG
Found at i:133281 original size:16 final size:16
Alignment explanation
Indices: 133260--133292 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
133250 AGATCCTCAC
133260 GTGACAAGCTTCCTCT
1 GTGACAAGCTTCCTCT
133276 GTGACAAGCTTCCTCT
1 GTGACAAGCTTCCTCT
133292 G
1 G
133293 GAATAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (16 bp):
GTGACAAGCTTCCTCT
Found at i:133798 original size:11 final size:11
Alignment explanation
Indices: 133782--133808 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
133772 AAAATATAGT
133782 TTAAACAAACA
1 TTAAACAAACA
133793 TTAAACAAACA
1 TTAAACAAACA
133804 TTAAA
1 TTAAA
133809 TCATCGTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (11 bp):
TTAAACAAACA
Found at i:134296 original size:21 final size:20
Alignment explanation
Indices: 134243--134305 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
134233 CTTTTGGTTG
134243 AAATGAAAATCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
* ***
134263 GAATGACTGTCGCAACGAGA
1 AAATGAAAATCGCAACGAGA
134283 TAAATGAAAATCGCAACGAGA
1 -AAATGAAAATCGCAACGAGA
134304 AA
1 AA
134306 TCGCAACGCG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
20 18 0.53
21 16 0.47
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (20 bp):
AAATGAAAATCGCAACGAGA
Found at i:134308 original size:13 final size:13
Alignment explanation
Indices: 134290--134319 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
134280 AGATAAATGA
134290 AAATCGCAACGAG
1 AAATCGCAACGAG
*
134303 AAATCGCAACGCG
1 AAATCGCAACGAG
134316 AAAT
1 AAAT
134320 GAAAATCGCA
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:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (13 bp):
AAATCGCAACGAG
Found at i:134323 original size:32 final size:33
Alignment explanation
Indices: 134284--134363 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
134274 GCAACGAGAT
*
134284 AAATGAAAATCGCAACGAGA-AATCGCAACGCG
1 AAATGAAAATCGCAACGAAAGAATCGCAACGCG
134316 AAATGAAAATCGCAACGAAAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAAAGAATCGCAACGCG
134349 AAATGAAAATCGCAA
1 AAATGAAAATCGCAA
134364 TGCGATTTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 19 0.41
33 27 0.59
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAAAGAATCGCAACGCG
Found at i:134325 original size:19 final size:19
Alignment explanation
Indices: 134242--134368 Score: 96
Period size: 19 Copynumber: 7.1 Consensus size: 19
134232 TCTTTTGGTT
*
134242 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*** *
134261 GAGAATGACTGTCGCAACGA
1 GA-AATGAAAATCGCAACGC
134281 GATAAATGAAAATCGCAA--C
1 G--AAATGAAAATCGCAACGC
134300 G--A-G-AAATCGCAACGC
1 GAAATGAAAATCGCAACGC
134315 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
134332 GAAA-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
134348 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
134367 GA
1 GA
134369 TTTTGGTTTC
Statistics
Matches: 86, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
13 9 0.10
14 9 0.10
15 3 0.03
16 6 0.07
17 7 0.08
18 1 0.01
19 24 0.28
20 15 0.17
21 11 0.13
22 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:134399 original size:14 final size:14
Alignment explanation
Indices: 134380--134436 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
134370 TTTGGTTTCG
134380 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
134394 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
134413 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
134427 CGTTGCGATT
1 CGTTGCGATT
134437 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:134417 original size:33 final size:33
Alignment explanation
Indices: 134364--134444 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
134354 AAAATCGCAA
** *
134364 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
134397 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
134430 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
134445 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCACGTTGCGATTCTCTCGT
Found at i:134447 original size:21 final size:21
Alignment explanation
Indices: 134421--134496 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
134411 CACGTTGCGA
134421 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
134442 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
134462 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
134483 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
134497 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:134477 original size:41 final size:41
Alignment explanation
Indices: 134420--134497 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
134410 TCACGTTGCG
*
134420 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
134461 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
134498 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:134618 original size:33 final size:33
Alignment explanation
Indices: 134576--134646 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
134566 AATACTAACT
134576 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
134609 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
134642 TGAAA
1 TGAAA
134647 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:135074 original size:41 final size:38
Alignment explanation
Indices: 135020--135155 Score: 184
Period size: 41 Copynumber: 3.4 Consensus size: 38
135010 TTTAATATCG
* *
135020 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTA
1 CGTTGCGATTTACGGATACGCGTTGCGA-TTTACGGA-TA
*
135060 TCGTTGCGATTTACGGATACGCGTTGCGATATACGGATA
1 -CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA
135099 CGCATTGCGATTTAC-GATACGCGTTGCGATTTACGGATAA
1 CG--TTGCGATTTACGGATACGCGTTGCGATTTACGGAT-A
135139 CGTTGCGATTTACGGAT
1 CGTTGCGATTTACGGAT
135156 TTGCGATTTA
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
38 13 0.15
39 27 0.31
40 19 0.22
41 28 0.32
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (38 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTACGGATA
Found at i:135119 original size:19 final size:20
Alignment explanation
Indices: 135018--135155 Score: 183
Period size: 20 Copynumber: 7.0 Consensus size: 20
135008 GCTTTAATAT
135018 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
135038 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
135060 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
135079 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
135099 CGCATTGCGATTTAC-GATA
1 CGCGTTGCGATTTACGGATA
135118 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
135138 -ACGTTGCGATTTACGGAT
1 CGCGTTGCGATTTACGGAT
135156 TTGCGATTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
19 37 0.36
20 50 0.49
21 14 0.14
22 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:135256 original size:21 final size:20
Alignment explanation
Indices: 135171--135268 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
135161 ATTTATGTGT
* *
135171 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
*
135191 TCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGATT-TTCAAAA
** **
135212 TCGCAATGCGAATTTGT-ACTA
1 TCGCGTTGCG-ATTT-TCAAAA
*
135233 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
135254 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
135269 GGAAACTGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
19 1 0.02
20 18 0.29
21 39 0.63
22 4 0.06
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:135264 original size:42 final size:43
Alignment explanation
Indices: 135171--135269 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
135161 ATTTATGTGT
* *
135171 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTCTTGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
**
135212 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATT-TTCAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTCTTCAA-AA
*
135254 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
135270 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.26
42 32 0.68
43 3 0.06
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTCTTCAAAA
Done.