Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000427.1 Hibiscus syriacus cultivar Beakdansim tig00000786_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: 142580
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:3058 original size:23 final size:23
Alignment explanation
Indices: 2978--3059 Score: 105
Period size: 23 Copynumber: 3.7 Consensus size: 23
2968 ACACTAGCTA
*
2978 GTGCATCGATGCATTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
* * *
3001 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
3022 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
3045 GTGCATCGATGCACT
1 GTGCATCGATGCACT
3060 ATGTTGTGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 16 0.33
23 32 0.67
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:5029 original size:23 final size:23
Alignment explanation
Indices: 4999--5044 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4989 TTTTGAATAA
4999 TTGAATGTTTGGATTTATGCGTT
1 TTGAATGTTTGGATTTATGCGTT
5022 TTGAATGTTTGGATTTATGCGTT
1 TTGAATGTTTGGATTTATGCGTT
5045 GGATGCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.52
Consensus pattern (23 bp):
TTGAATGTTTGGATTTATGCGTT
Found at i:5057 original size:22 final size:22
Alignment explanation
Indices: 4999--5057 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
4989 TTTTGAATAA
4999 TTGAATGTTTGGATTTATGCGTT
1 TTGAATGTTTGGATTTATGCG-T
5022 TTGAATGTTTGGATTTATGCG-
1 TTGAATGTTTGGATTTATGCGT
*
5043 TTGGATGCTTTGGAT
1 TTGAATG-TTTGGAT
5058 ATTTGAACTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 6 0.18
22 7 0.21
23 21 0.62
ACGTcount: A:0.17, C:0.05, G:0.29, T:0.49
Consensus pattern (22 bp):
TTGAATGTTTGGATTTATGCGT
Found at i:5782 original size:64 final size:64
Alignment explanation
Indices: 5685--5849 Score: 192
Period size: 64 Copynumber: 2.6 Consensus size: 64
5675 TTTCAAAGTA
* * ** *
5685 GTGTACCGATGCACCAATCAATGCATCGATGCAC-CCTTGAAT-TAATTGAATTTTGAATGCATT
1 GTGTACCGATGCA-CAAGCCATGCATCGATGCACTCC-TGAATAT-ATTGAACATCGAATGCATT
5748 TT
63 TT
* *
5750 GTGTACCGATGCACAAGGCATGCATCGATGCACTCCTGAATATTTTGAACATCGAATGCATTTT
1 GTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATATTGAACATCGAATGCATTTT
* *
5814 ATGTACCGATGCAC-AGACCATGCATTGATGCACTCC
1 GTGTACCGATGCACAAG-CCATGCATCGATGCACTCC
5850 AGGCTTCTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
63 2 0.02
64 69 0.79
65 16 0.18
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (64 bp):
GTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATATTGAACATCGAATGCATTTT
Found at i:5861 original size:64 final size:65
Alignment explanation
Indices: 5739--5872 Score: 175
Period size: 64 Copynumber: 2.1 Consensus size: 65
5729 ATTGAATTTT
* * *
5739 GAATGCATTTTGTGTACCGATGCACAAGGCATGCATCGATGCACTCCTGAATATTTTG-AACATC
1 GAATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATC
* **
5803 GAATGCATTTTATGTACCGATGCAC-AGACCATGCATTGATGCACTCCAGGCT-TCTTTGAAACA
1 GAATGCATTTTATGTACCGATGCACAAG-CCATGCATCGATGCACTCCAGAATAT-TTTGAAACA
5866 TC
64 TC
5868 GAATG
1 GAATG
5873 TAATTAATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 3 0.05
64 47 0.77
65 11 0.18
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (65 bp):
GAATGCATTTTATGTACCGATGCACAAGCCATGCATCGATGCACTCCAGAATATTTTGAAACATC
Found at i:10212 original size:20 final size:19
Alignment explanation
Indices: 10184--10226 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10174 TAGTTTTCAT
* *
10184 AAAACCAACATAATTAAATC
1 AAAAACAACA-AATTAAAAC
*
10204 AAAAACAACAATTTAAAAC
1 AAAAACAACAAATTAAAAC
10223 AAAA
1 AAAA
10227 TCAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.67, C:0.16, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAAACAACAAATTAAAAC
Found at i:10677 original size:23 final size:22
Alignment explanation
Indices: 10630--10706 Score: 56
Period size: 23 Copynumber: 3.6 Consensus size: 22
10620 ACCCGACGGG
*
10630 TGTATCGGTACAC-TTC--GGA
1 TGTATCGATACACATTCAAGGA
10649 GTGTATCGATACACATTCAAGGAA
1 -TGTATCGATACACATTCAAGG-A
* * *
10673 TGTATTGGTATACATTCATA-G-
1 TGTATCGATACACATTCA-AGGA
10694 TGTATCGATACAC
1 TGTATCGATACAC
10707 TTTGCACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 12 0.27
21 13 0.29
23 18 0.40
24 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (22 bp):
TGTATCGATACACATTCAAGGA
Found at i:16601 original size:19 final size:19
Alignment explanation
Indices: 16577--16628 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
16567 TAATTTAATC
16577 GAATATATAATTTAAAATT
1 GAATATATAATTTAAAATT
*
16596 GAATATAAAATCTTAAAATT
1 GAATATATAAT-TTAAAATT
*
16616 CAATA-ATAATTTA
1 GAATATATAATTTA
16629 TTTGTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 12 0.41
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
GAATATATAATTTAAAATT
Found at i:16613 original size:20 final size:19
Alignment explanation
Indices: 16577--16620 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
16567 TAATTTAATC
*
16577 GAATATATAATTTAAAATT
1 GAATATAAAATTTAAAATT
16596 GAATATAAAATCTTAAAATT
1 GAATATAAAAT-TTAAAATT
*
16616 CAATA
1 GAATA
16621 ATAATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
GAATATAAAATTTAAAATT
Found at i:17714 original size:19 final size:18
Alignment explanation
Indices: 17673--17717 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
17663 ATTTGAAATA
17673 AAAAT-AAAACAGTGACT
1 AAAATAAAAACAGTGACT
**
17690 TGAATAAAAATCAGTGACT
1 AAAATAAAAA-CAGTGACT
17709 AAAATAAAA
1 AAAATAAAA
17718 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 3 0.14
18 4 0.18
19 15 0.68
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (18 bp):
AAAATAAAAACAGTGACT
Found at i:20554 original size:20 final size:20
Alignment explanation
Indices: 20529--20624 Score: 66
Period size: 20 Copynumber: 4.8 Consensus size: 20
20519 AACTCTTTAT
20529 CGGTTTTGTCAAATTGAAAC
1 CGGTTTTGTCAAATTGAAAC
* * ** *
20549 CGGTTTTGTTAATTTCCAAT
1 CGGTTTTGTCAAATTGAAAC
**
20569 CGGTTTTGTCAAATTCGTTAC
1 CGGTTTTGTCAAATT-GAAAC
** * *
20590 ATGTTTTGTCAAATTAAAAT
1 CGGTTTTGTCAAATTGAAAC
**
20610 CGAATTTGTCAAATT
1 CGGTTTTGTCAAATT
20625 TCAACATAAT
Statistics
Matches: 54, Mismatches: 21, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
20 40 0.74
21 14 0.26
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
CGGTTTTGTCAAATTGAAAC
Found at i:20557 original size:197 final size:198
Alignment explanation
Indices: 20155--20557 Score: 630
Period size: 197 Copynumber: 2.0 Consensus size: 198
20145 TCGCTTTACT
* *
20155 GGTTTTGTCAAATTTCAACCTGTTATATTATCATGTATTGATACATGTGTCTAAGGTATCGATAC
1 GGTTTTGTCAAATTTCAACATGTTATATTATCATGTATCGATACATGTGTCTAAGGTATCGATAC
*
20220 TTTATAGGCGCTATTATTACAATTATTTTAAATTCCCTAAAGTACCGATACTTTGGTACATATAC
66 TTTATAGCCGCTATTATTACAATTATTTTAAATTCCCTAAAGTACCGATACTTTGGTACATATAC
* *
20285 TTATAAAAGTATCAATACAAATTTCAACCATTCCGATAGCTCTTTACCGGTTTTGTCAAATTGAA
131 TTATAAAAGTATCAATACAAATTTCAACAATTCCGATAACTCTTTACCGGTTTTGTCAAATTGAA
20350 ACA
196 ACA
* * *
20353 GGTTTTGTCAAATTTCAACATGTTATATTGTCATGTATCGATACATGTGTGTAAGGTATTGATAC
1 GGTTTTGTCAAATTTCAACATGTTATATTATCATGTATCGATACATGTGTCTAAGGTATCGATAC
* * * *
20418 TTTATAGCCGTTATTATTGCAATTCTTTTAAATT-CCTAAAGTACTGATACTTTGGTACATATAC
66 TTTATAGCCGCTATTATTACAATTATTTTAAATTCCCTAAAGTACCGATACTTTGGTACATATAC
* * * *
20482 TTATAAACA-TATCTATACAAATTTCAACAATTTCGGTAACTCTTTATCGGTTTTGTCAAATTGA
131 TTATAAA-AGTATCAATACAAATTTCAACAATTCCGATAACTCTTTACCGGTTTTGTCAAATTGA
*
20546 AACC
195 AACA
20550 GGTTTTGT
1 GGTTTTGT
20558 TAATTTCCAA
Statistics
Matches: 187, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
197 96 0.51
198 91 0.49
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (198 bp):
GGTTTTGTCAAATTTCAACATGTTATATTATCATGTATCGATACATGTGTCTAAGGTATCGATAC
TTTATAGCCGCTATTATTACAATTATTTTAAATTCCCTAAAGTACCGATACTTTGGTACATATAC
TTATAAAAGTATCAATACAAATTTCAACAATTCCGATAACTCTTTACCGGTTTTGTCAAATTGAA
ACA
Found at i:21365 original size:20 final size:20
Alignment explanation
Indices: 21340--21384 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
21330 TTATCCGGAA
*
21340 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
21360 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
21380 AAAAA
1 AAAAA
21385 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:21860 original size:2 final size:2
Alignment explanation
Indices: 21853--21890 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21843 GTTATAGATA
21853 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
21891 CACAGAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25578 original size:24 final size:23
Alignment explanation
Indices: 25530--25580 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
25520 TTTTTTATAA
* *
25530 ATATTTTTTTTTAAAATAATGTT
1 ATATTTTTTATTAAAATAATATT
25553 ATATTTTTTATTAAAATAATAATT
1 ATATTTTTTATTAAAATAAT-ATT
25577 ATAT
1 ATAT
25581 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATTTTTTATTAAAATAATATT
Found at i:25589 original size:26 final size:23
Alignment explanation
Indices: 25530--25590 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 23
25520 TTTTTTATAA
* * *
25530 ATATTTTTTTTTAAAATAATGTT
1 ATATTTATTATTAAAATAATATT
*
25553 ATATTTTTTATTAAAATAATAATT
1 ATATTTATTATTAAAATAAT-ATT
25577 ATATAATTATTATT
1 ATAT--TTATTATT
25591 TATTTAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.59
24 6 0.19
26 7 0.22
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATTTATTATTAAAATAATATT
Found at i:26754 original size:17 final size:17
Alignment explanation
Indices: 26732--26767 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
26722 GTTTGATATA
26732 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
26749 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
26766 AT
1 AT
26768 GTTTCAGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:27370 original size:42 final size:42
Alignment explanation
Indices: 27308--27429 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
27298 GAGGCCACAT
* * * *
27308 GGGTACATACCCAGTCCACCAGTTCAAATGCCATCTCTGCAA
1 GGGTATATACCCAGCCCACCAGTTCATATGCCATCTCCGCAA
* *
27350 GGGTATATGA-CCATCCCACCAGTTCATATGCCATCTCCGCAG
1 GGGTATAT-ACCCAGCCCACCAGTTCATATGCCATCTCCGCAA
*
27392 GGGTATATACCCAGCCCACCAGTTCATATACCATCTCC
1 GGGTATATACCCAGCCCACCAGTTCATATGCCATCTCC
27430 ACATGGTTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.23
Consensus pattern (42 bp):
GGGTATATACCCAGCCCACCAGTTCATATGCCATCTCCGCAA
Found at i:27431 original size:21 final size:20
Alignment explanation
Indices: 27354--27431 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 20
27344 CTGCAAGGGT
27354 ATATGACCATCCCACCAGTTC
1 ATAT-ACCATCCCACCAGTTC
* * *
27375 ATATGCCATCTCC-GCAGGGGT-
1 ATATACCATC-CCACCA--GTTC
*
27396 ATATACCCAGCCCACCAGTTC
1 ATATA-CCATCCCACCAGTTC
27417 ATATACCATCTCCAC
1 ATATACCATC-CCAC
27432 ATGGTTACAT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
20 13 0.31
21 21 0.50
22 8 0.19
ACGTcount: A:0.27, C:0.37, G:0.13, T:0.23
Consensus pattern (20 bp):
ATATACCATCCCACCAGTTC
Found at i:27450 original size:42 final size:42
Alignment explanation
Indices: 27302--27452 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 42
27292 GATTATGAGG
* * * *
27302 CCACATGGGTACATACCCAGTCCACCAGTTCAAATGCCATCT
1 CCACAGGGGTACATACCCAGCCCACCAGTTCATATACCATCT
** * * * *
27344 CTGCAAGGGTATATGA-CCATCCCACCAGTTCATATGCCATCT
1 CCACAGGGGTACAT-ACCCAGCCCACCAGTTCATATACCATCT
* *
27386 CCGCAGGGGTATATACCCAGCCCACCAGTTCATATACCATCT
1 CCACAGGGGTACATACCCAGCCCACCAGTTCATATACCATCT
* * * *
27428 CCACATGGTTACATTCCTAGCCCAC
1 CCACAGGGGTACATACCCAGCCCAC
27453 AGGGGTACAT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.01
42 88 0.98
43 1 0.01
ACGTcount: A:0.26, C:0.35, G:0.15, T:0.23
Consensus pattern (42 bp):
CCACAGGGGTACATACCCAGCCCACCAGTTCATATACCATCT
Found at i:28292 original size:21 final size:21
Alignment explanation
Indices: 28266--28305 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
28256 TTTTAACTTT
28266 AAATAATAATTAATATATTCA
1 AAATAATAATTAATATATTCA
*
28287 AAATAATATTTAATATATT
1 AAATAATAATTAATATATT
28306 TGAATTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATAATTAATATATTCA
Found at i:28819 original size:136 final size:136
Alignment explanation
Indices: 28462--29201 Score: 831
Period size: 136 Copynumber: 5.4 Consensus size: 136
28452 ATAACACATA
* * * * *
28462 AATTATAACATATTCTCTTATAGAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACCATATGG
1 AATTATAACATATTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACAACATGG
* * * * *
28527 TTACGTCCTCTCAACATAATAGGTGTTGACATGAATAGTGCCTCACTGGGGGACGTCACACATAA
66 TTGCGTCCTCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACATAA
*
28592 TAGGGA
131 TAGGGT
* *
28598 AATTATAACATATTCTCTGTCAAAAAAGGAAAGACTCGTCCCACAAGAAGCGCTTTCACAACATG
1 AATTATAACATATTCTCTGAC-AAAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACAACATG
* * * * *
28663 GTTGTGTCCCCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCGCCGGGGAACACCACACATA
65 GTTGCGTCCTCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACATA
*
28728 ATAGTGT
130 ATAGGGT
* * * * **
28735 AATTATAACATATTCTCTAACAAAAAGGAAAGGCGCATCCCATAAGAAAAGCTTTCACAACATGG
1 AATTATAACATATTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACAACATGG
* ** * * * *
28800 TTGCGTCCCCTCAACATAATAGGTGTTGACGTGAATAGTATCTCACTGGGGAACATCACATATAA
66 TTGCGTCCTCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACATAA
28865 TAGGGT
131 TAGGGT
* * *
28871 AATTATATCATATTCTCTGATAAAAAGGAAAGGA-ACGTCCCACAAGAAGCGCTTTCATC-ACAT
1 AATTATAACATATTCTCTGACAAAAAGGAAA-GACGCGTCCCACAAGAAGCGCTTTCA-CAACAT
* * * * * *
28934 TGTTGCGTCCTATCAAATATAATAGGTTTTGACGTGAATAGTGCCCTACCGGGGGACATCACATA
64 GGTTGCGTCCTCTC-AACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACA
* *
28999 TATTAGGGA
128 TAATAGGGT
* * * * *
29008 AATTATAACATATTATCTGACAAAAAGGAAA-AGCGCGCCCCACAAGAAGCGCGTTCACCACATT
1 AATTATAACATATTCTCTGACAAAAAGGAAAGA-CGCGTCCCACAAGAAGCGCTTTCACAACATG
* * * ** ** *
29072 GTT-TGTCCTATCAAATATAATAGGTGTTGACGTGAATAGTTTCCCGTCGGGGGACATTACACAT
65 GTTGCGTCCTCTC-AACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACAT
*
29136 AGTAGGGT
129 AATAGGGT
* * * * * *
29144 AATTATAACCTATTTTCTGATAAAAAGGAAAGATGCATCCCACAATAAGCGCTTTCAC
1 AATTATAACATATTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCAC
29202 GTTAATAGTG
Statistics
Matches: 513, Mismatches: 83, Indels: 16
0.84 0.14 0.03
Matches are distributed among these distances:
135 1 0.00
136 286 0.56
137 226 0.44
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (136 bp):
AATTATAACATATTCTCTGACAAAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACAACATGG
TTGCGTCCTCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGGACATCACACATAA
TAGGGT
Found at i:28958 original size:273 final size:270
Alignment explanation
Indices: 28461--29201 Score: 887
Period size: 273 Copynumber: 2.7 Consensus size: 270
28451 CATAACACAT
* * * * *
28461 AAATTATAACATATTCTCTTATAGAAAGGAAAGACGCGTCCCACAAGAAGCGCTTTCACCATATG
1 AAATTATAACATATTCTCTAACAAAAAGGAAAGGCGCGTCCCACAAGAAGCGCTTTCACCACATG
* * *
28526 GTTACGTCCTCTCAACATAATAGGTGTTGACATGAATAGTGCCTCACTGGGGGACGTCACACATA
66 GTT-CGTCCTCTCAACATAATAGGTGTTGACGTGAATAGT-TCTCACTGGGGGACATCACACATA
* *
28591 ATAGGGAAATTATAACATATTCTCTG-TCAAAAAAGGAAAGACTCGTCCCACAAGAAGCGCTTTC
129 ATAGGGTAATTATAACATATTCTCTGAT--AAAAAGGAAAGACACGTCCCACAAGAAGCGCTTTC
* * *
28655 ACAACATGGTTGTGTCCCCTCAACATAATAGGTGTTGACGTGAATAGTGCCCCGCCGGGGAACAC
192 ACAACATGGTTGCGTCCCATCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGAACAC
*
28720 CACACATAATAGTG
257 CACACATAATAGGG
* * * ** *
28734 TAATTATAACATATTCTCTAACAAAAAGGAAAGGCGCATCCCATAAGAAAAGCTTTCACAACATG
1 AAATTATAACATATTCTCTAACAAAAAGGAAAGGCGCGTCCCACAAGAAGCGCTTTCACCACATG
* * *
28799 GTTGCGTCCCCTCAACATAATAGGTGTTGACGTGAATAGTATCTCACTGGGGAACATCACATATA
66 GTT-CGTCCTCTCAACATAATAGGTGTTGACGTGAATAGT-TCTCACTGGGGGACATCACACATA
*
28864 ATAGGGTAATTATATCATATTCTCTGATAAAAAGGAAAGGA-ACGTCCCACAAGAAGCGCTTTCA
129 ATAGGGTAATTATAACATATTCTCTGATAAAAAGGAAA-GACACGTCCCACAAGAAGCGCTTTCA
* * * * * *
28928 TC-ACATTGTTGCGTCCTATCAAATATAATAGGTTTTGACGTGAATAGTGCCCTACCGGGGGACA
193 -CAACATGGTTGCGTCCCATC-AACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGAACA
* * *
28992 TCACATATATTAGGG
256 CCACACATAATAGGG
* * * * * *
29007 AAATTATAACATATTATCTGACAAAAAGGAAAAGCGCGCCCCACAAGAAGCGCGTTCACCACATT
1 AAATTATAACATATTCTCTAACAAAAAGGAAAGGCGCGTCCCACAAGAAGCGCTTTCACCACATG
* * * * *
29072 GTTTGTCCTATCAAATATAATAGGTGTTGACGTGAATAGTT-TCCCGTCGGGGGACATTACACAT
66 GTTCGTCCTCTC-AACATAATAGGTGTTGACGTGAATAGTTCTCAC-T-GGGGGACATCACACAT
* * * ** * *
29136 AGTAGGGTAATTATAACCTATTTTCTGATAAAAAGGAAAGATGCATCCCACAATAAGCGCTTTCA
128 AATAGGGTAATTATAACATATTCTCTGATAAAAAGGAAAGACACGTCCCACAAGAAGCGCTTTCA
29201 C
193 C
29202 GTTAATAGTG
Statistics
Matches: 398, Mismatches: 62, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
271 3 0.01
272 57 0.14
273 337 0.85
274 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (270 bp):
AAATTATAACATATTCTCTAACAAAAAGGAAAGGCGCGTCCCACAAGAAGCGCTTTCACCACATG
GTTCGTCCTCTCAACATAATAGGTGTTGACGTGAATAGTTCTCACTGGGGGACATCACACATAAT
AGGGTAATTATAACATATTCTCTGATAAAAAGGAAAGACACGTCCCACAAGAAGCGCTTTCACAA
CATGGTTGCGTCCCATCAACATAATAGGTGTTGACGTGAATAGTGCCCCACCGGGGAACACCACA
CATAATAGGG
Found at i:33730 original size:19 final size:19
Alignment explanation
Indices: 33708--33752 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
33698 TAATCTTTAA
*
33708 AATAAGAATCAATCGGTCT
1 AATAAGAATCAATAGGTCT
*
33727 AATAAGAATCAATAGGTTT
1 AATAAGAATCAATAGGTCT
33746 AATAAGA
1 AATAAGA
33753 TGAGACACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.27
Consensus pattern (19 bp):
AATAAGAATCAATAGGTCT
Found at i:39630 original size:36 final size:36
Alignment explanation
Indices: 39580--39656 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
39570 CCCGTCCATA
* * *
39580 TCCCCGTCCTCGTTTAGCATAAACGGTTTTTCCCCG
1 TCCCCATCCCCGTTTAGCATAAACGATTTTTCCCCG
**
39616 TCCCCATCCCCGTTTAGCATAAACGATTTTTTTCCG
1 TCCCCATCCCCGTTTAGCATAAACGATTTTTCCCCG
39652 TCCCC
1 TCCCC
39657 GTTTAATTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.16, C:0.38, G:0.13, T:0.34
Consensus pattern (36 bp):
TCCCCATCCCCGTTTAGCATAAACGATTTTTCCCCG
Found at i:43576 original size:22 final size:22
Alignment explanation
Indices: 43549--43601 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
43539 ACGTTACCGA
43549 AAATGTTATATGTTTTCAGTAG
1 AAATGTTATATGTTTTCAGTAG
43571 AAATGTTATATGTTTTCAGTAG
1 AAATGTTATATGTTTTCAGTAG
43593 AAATGTTAT
1 AAATGTTAT
43602 TTGTGTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (22 bp):
AAATGTTATATGTTTTCAGTAG
Found at i:43872 original size:107 final size:107
Alignment explanation
Indices: 43738--44009 Score: 350
Period size: 107 Copynumber: 2.5 Consensus size: 107
43728 TGTAACGTTT
*
43738 GTTTAAAGTTGATAGGACCTTAGAAATCTGACGATAACAAAATAAGTTAATTACTTAATTTGTTA
1 GTTT-AAGTTGATGGGA-CTTAGAAATCTGACGATAACAAAATAAGTTAATTACTTAATTTGTTA
* *
43803 TTAATATTATCAACATATTAGGTAGCGCCTAAAATA-TTACCAAA
64 TTAATATTATCAACATATTAGGTAACACCTAAAATATTTA-CAAA
* * * *
43847 GTTTAAGTTGATGGGTCTTAGAAATCTGACGATAACAAAATAGGTTAATTATTTATTTTGTTATT
1 GTTTAAGTTGATGGGACTTAGAAATCTGACGATAACAAAATAAGTTAATTACTTAATTTGTTATT
*
43912 AATATTATGAACATATTAGGTAACACCTAAAATATTTACAAA
66 AATATTATCAACATATTAGGTAACACCTAAAATATTTACAAA
* * * * * * *
43954 ATTTAAGCTGATGGGACATTCGAAGTCTGACGACAATAAAAT-AGATTAATTTCTTA
1 GTTTAAGTTGATGGGAC-TTAGAAATCTGACGATAACAAAATAAG-TTAATTACTTA
44010 TTTTTTGTTA
Statistics
Matches: 142, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
107 96 0.68
108 42 0.30
109 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (107 bp):
GTTTAAGTTGATGGGACTTAGAAATCTGACGATAACAAAATAAGTTAATTACTTAATTTGTTATT
AATATTATCAACATATTAGGTAACACCTAAAATATTTACAAA
Found at i:44715 original size:23 final size:24
Alignment explanation
Indices: 44689--44735 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
44679 CTAGTTTAAC
*
44689 GTAATAGGTAGCG-CTGATTTATT
1 GTAATAGATAGCGTCTGATTTATT
*
44712 GTAATAGATAGCGTCTGTTTTATT
1 GTAATAGATAGCGTCTGATTTATT
44736 TTATCGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (24 bp):
GTAATAGATAGCGTCTGATTTATT
Found at i:44832 original size:98 final size:97
Alignment explanation
Indices: 44635--44814 Score: 254
Period size: 98 Copynumber: 1.8 Consensus size: 97
44625 GGTTGTATAC
* *
44635 ATTTTACCGTTTATATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTAG
1 ATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAG
* *** *
44700 CGCTGATTTATTGTAATAGATAGCGTCTGTTTT
66 CACTGATTTAACATAATAGATAACG-CTGTTTT
* *
44733 ATTTTATCGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACATAATAGGTAG
1 ATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAG
44798 CACAT-ATTTAACATAAT
66 CAC-TGATTTAACATAAT
44815 TGTTGAACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 72 0.99
99 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (97 bp):
ATTTTACCGTTTACATTATTATTAACCTTTAAACAAACCGGTAGCTAGTTTAACATAATAGGTAG
CACTGATTTAACATAATAGATAACGCTGTTTT
Found at i:45094 original size:20 final size:20
Alignment explanation
Indices: 45056--45094 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45046 GTAAAAAAAA
*
45056 ATCCCCAACGGCTCCAAATC
1 ATCCCCAACGGCTACAAATC
* *
45076 ATCCCTAACGGCTAGAAAT
1 ATCCCCAACGGCTACAAAT
45095 GACCACAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.36, G:0.13, T:0.18
Consensus pattern (20 bp):
ATCCCCAACGGCTACAAATC
Found at i:48003 original size:106 final size:105
Alignment explanation
Indices: 47881--48083 Score: 318
Period size: 106 Copynumber: 1.9 Consensus size: 105
47871 TATAGGTTTG
* * * * *
47881 AAAAATTCAATTTCTCAATGAAAAGGGGGGGCTTTAATATTTTTCAAATATTTTTCTTTTTCATG
1 AAAAATTCAAATTCTCAATAAAAAGGGGGAGCTTTAATATTTTCCAAATATTTCTCTTTTTCATG
47946 AAATATTTTTATTAAGGG-GAGTTTTACCAAAAATGTTTTCA
66 AAATA-TTTTATTAAGGGTGAGTTTT-CCAAAAATGTTTTCA
* *
47987 AAAAATTCAAATTCTCAATAAAAATGGGGAGTTTTAATATTTTCCAAATATTTCTCTTTTTCATG
1 AAAAATTCAAATTCTCAATAAAAAGGGGGAGCTTTAATATTTTCCAAATATTTCTCTTTTTCATG
48052 AAATATTTTATTAAGGGTGAGTTTTCCAAAAA
66 AAATATTTTATTAAGGGTGAGTTTTCCAAAAA
48084 CTATTTTTCA
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 19 0.21
106 70 0.79
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (105 bp):
AAAAATTCAAATTCTCAATAAAAAGGGGGAGCTTTAATATTTTCCAAATATTTCTCTTTTTCATG
AAATATTTTATTAAGGGTGAGTTTTCCAAAAATGTTTTCA
Found at i:51935 original size:18 final size:18
Alignment explanation
Indices: 51912--51980 Score: 68
Period size: 18 Copynumber: 3.7 Consensus size: 18
51902 ATTATCAGTG
51912 GTTCTTCGGGACATAGTT
1 GTTCTTCGGGACATAGTT
*
51930 GTTCTTCGGAACAATCAG-T
1 GTTCTTCGGGAC-AT-AGTT
* *
51949 GGTCTTTCGGGACATAGTG
1 GTTC-TTCGGGACATAGTT
*
51968 GTCCTTCGGGACA
1 GTTCTTCGGGACA
51981 AATAATCAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
18 22 0.54
19 10 0.24
20 9 0.22
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (18 bp):
GTTCTTCGGGACATAGTT
Found at i:51958 original size:38 final size:38
Alignment explanation
Indices: 51905--51981 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
51895 TCGAGGGATT
* *
51905 ATCAGTGGTTCTTCGGGACATAGTTGTTCTTCGGAACA
1 ATCAGTGGTTCTTCGGGACATAGTGGTCCTTCGGAACA
*
51943 ATCAGTGG-TCTTTCGGGACATAGTGGTCCTTCGGGACA
1 ATCAGTGGTTC-TTCGGGACATAGTGGTCCTTCGGAACA
51981 A
1 A
51982 ATAATCAGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 33 0.94
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (38 bp):
ATCAGTGGTTCTTCGGGACATAGTGGTCCTTCGGAACA
Found at i:58824 original size:18 final size:18
Alignment explanation
Indices: 58753--58825 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
58743 AGGGATTATC
*
58753 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
58771 AGTGGTTCTTCGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
58790 CAGTGGTCCTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
*
58809 AGTGGTCATTCGGGACA
1 AGTGGTCCTTCGGGACA
58826 AATATTCAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
18 29 0.62
19 4 0.09
20 14 0.30
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:59992 original size:77 final size:76
Alignment explanation
Indices: 59883--60044 Score: 199
Period size: 77 Copynumber: 2.1 Consensus size: 76
59873 TATTTACGCT
* * *
59883 TATTTTA--TTTTACCGTTTTCATTATTAGTAACCTTTAAACAAACTGATAGGTATTTTAGT-GT
1 TATTTTATTTTTTACCGTTTTCATTATTAATAACCTTTAAACAAACTGATAGGTA-ATTA-TCAT
59945 AATAGGTAGCT-CC
64 AATAGGTAG-TGCC
* * *
59958 TATTTTATTTTTTACTGTTTAT-ATTATTAATAACCTTTAAACAAACTGGTATGTAATTATCATA
1 TATTTTATTTTTTACCGTTT-TCATTATTAATAACCTTTAAACAAACTGATAGGTAATTATCATA
60022 ATAGGTAGTGCC
65 ATAGGTAGTGCC
60034 TATTTTATTTT
1 TATTTTATTTT
60045 AACCAGTTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
75 9 0.12
76 26 0.34
77 40 0.53
78 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (76 bp):
TATTTTATTTTTTACCGTTTTCATTATTAATAACCTTTAAACAAACTGATAGGTAATTATCATAA
TAGGTAGTGCC
Found at i:61389 original size:73 final size:73
Alignment explanation
Indices: 61269--61465 Score: 236
Period size: 73 Copynumber: 2.7 Consensus size: 73
61259 AAAAAAATAT
* * **
61269 ACCTTTAAAGAAATCGGTAGGTAGTTTAACGTAATAGGTAGTGCCTATTTTTTTACCGTTTACAT
1 ACCTTTAAAAAAATCGGTAGATAGTTTAACGTAATAGGTAGCACCTATTTTTTTACCGTTTACAT
61334 TATTATTA
66 TATTATTA
* *
61342 ACCTTTAAACAAAAT-GGTAGATAGTTTAACGTAATATGTAGCACCTATTTTTTTACCGTTTATA
1 ACCTTTAAA-AAAATCGGTAGATAGTTTAACGTAATAGGTAGCACCTATTTTTTTACCGTTTACA
61406 TTATTATTA
65 TTATTATTA
* * * * ** * *
61415 TCCATTAAAGAAATCGATATCTATTTTAATGTAATAGGTAGCGA-CTATTTT
1 ACCTTTAAAAAAATCGGTAGATAGTTTAACGTAATAGGTAGC-ACCTATTTT
61466 ATTTTAACCG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
72 4 0.04
73 97 0.92
74 5 0.05
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (73 bp):
ACCTTTAAAAAAATCGGTAGATAGTTTAACGTAATAGGTAGCACCTATTTTTTTACCGTTTACAT
TATTATTA
Found at i:65868 original size:59 final size:59
Alignment explanation
Indices: 65769--65905 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
65759 CAGCAGGCTG
** * *
65769 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
65828 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
65887 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
65906 CGGTGCTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:66100 original size:47 final size:45
Alignment explanation
Indices: 66006--66131 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
65996 GTAAGCATAC
* *
66006 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
66050 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
66097 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
66132 GAATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 40 0.53
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:73386 original size:59 final size:59
Alignment explanation
Indices: 73288--73423 Score: 175
Period size: 59 Copynumber: 2.3 Consensus size: 59
73278 AGCAGGCTGT
** * * *
73288 ATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCATGACCTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGTC
* ** *
73347 ATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGTC
1 ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGTC
73406 ATATTCGGG-ATAGCACTA
1 ATATTCGGGAATA-CACTA
73424 CGGTGCTTAT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
58 1 0.02
59 62 0.98
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (59 bp):
ATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGTC
Found at i:73616 original size:47 final size:45
Alignment explanation
Indices: 73524--73650 Score: 184
Period size: 47 Copynumber: 2.8 Consensus size: 45
73514 GTAAGCATAC
* *
73524 AAATAAGCTTACGAAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACG-AGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
73569 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
73616 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
73651 GAATTTTATA
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
44 10 0.13
45 24 0.32
46 1 0.01
47 40 0.53
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:75010 original size:29 final size:29
Alignment explanation
Indices: 74984--75044 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
74974 AGTCCATTAT
74984 TCTTTTACTCAACAATGTTTAACCATTCA
1 TCTTTTACTCAACAATGTTTAACCATTCA
* * * *
75013 TCTTTTAGTCAACAGTTTTTAACCGTTCA
1 TCTTTTACTCAACAATGTTTAACCATTCA
75042 TCT
1 TCT
75045 AACTGGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (29 bp):
TCTTTTACTCAACAATGTTTAACCATTCA
Found at i:75160 original size:81 final size:81
Alignment explanation
Indices: 75013--75169 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 81
75003 TAACCATTCA
* * * *
75013 TCTTTTAGTCAACAGTTTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTTCCAATTGC
1 TCTTTTAGTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGC
75078 ACAATTAGGCCATTAT
66 ACAATTAGGCCATTAT
* * *
75094 TCTTTTACGT-AACAGTATTTAACTGTTCATCTAACTGGCATAATTGACACCTTCCTGCTAAATG
1 TCTTTTA-GTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATG
*
75158 CACAGTTAGGCC
65 CACAATTAGGCC
75170 TCAAAGGCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 65 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (81 bp):
TCTTTTAGTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTCCTGCCAAATGC
ACAATTAGGCCATTAT
Found at i:75528 original size:59 final size:59
Alignment explanation
Indices: 75455--76030 Score: 866
Period size: 59 Copynumber: 9.8 Consensus size: 59
75445 TATATTTTCC
* * * * * *
75455 ATATAGAAATTCATACACTTAGTATGAATTTCTTAATATTTTAGCATACTAGGTGCCCA
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
75514 ATATGGAAATTCATACACTTAGTATGAAGTTT-TTAACATTTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAA-TTTCTTAACATTTTAGCACACGAAGTGCCCT
* **
75573 ATATGGAAGTTCATACACTTAGTATGAATTTCTTAACATTTTAGCACATTAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
*
75632 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * *
75691 ATATGGAAGTTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGGAGTGCCTT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
75750 ATATGGAAGTTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTTCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * * *
75809 ATACGGAAGTTCATACATTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGTCCT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * * *
75868 ATAAGGAAATTCATACACTTAGTATGAATTTCTTAACATTTCAGCACACGATGTGTCCT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * * *
75927 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAGATTTTAGCACACGAAGTACCAT
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * *
75986 ATACGAAAATTCATACACTTAGTATGAATTTTTTAACATTTTAGC
1 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGC
76031 GCACTTAGTT
Statistics
Matches: 476, Mismatches: 39, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
58 3 0.01
59 470 0.99
60 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (59 bp):
ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
Found at i:76446 original size:39 final size:40
Alignment explanation
Indices: 76398--76474 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
76388 CAATACTTCT
* * *
76398 ATACTATGGTATTGATACCCCCTT-CCGGTATCGATACCC
1 ATACCATGGTATCGATACCACCTTGCCGGTATCGATACCC
* *
76437 ATACCATGGTATCGATACTACCTTGTCGGTATCGATAC
1 ATACCATGGTATCGATACCACCTTGCCGGTATCGATAC
76475 TGATTGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
39 20 0.62
40 12 0.38
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (40 bp):
ATACCATGGTATCGATACCACCTTGCCGGTATCGATACCC
Found at i:89012 original size:21 final size:19
Alignment explanation
Indices: 88984--89029 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
88974 TCATTGAATC
88984 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
89004 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
89023 AGTTAGT
1 A-TTAGT
89030 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:89932 original size:20 final size:20
Alignment explanation
Indices: 89907--89945 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
89897 CCTTGTCAAT
*
89907 AATATTTAA-AAATAAATTAC
1 AATA-TTAATAAAAAAATTAC
89927 AATATTAATAAAAAAATTA
1 AATATTAATAAAAAAATTA
89946 AATCCTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTAATAAAAAAATTAC
Found at i:92239 original size:198 final size:197
Alignment explanation
Indices: 91869--92509 Score: 804
Period size: 198 Copynumber: 3.3 Consensus size: 197
91859 TTTTTTCATT
* * *
91869 TTTTAAATTCCTAAAGTATCGATACTCTGGTACATATACTTATAAAAGTATCGAT---AGTTTCA
1 TTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCAATACAAATTTCA
* * * * *
91931 ACAATT-ATGATATCGCTTTATCGGTTTTGTCAAATTGAAACAAGTTTTGTCAAATTTCAAC-TC
66 ACAATTCATG-TAGCTCTTTACCGTTTTTGTCAAATTGAAACAGGTTTTGTCAAATTTCAACAT-
* * * * * *
91994 TTTATATTGTCATATATTGATACATGTATCTAAGGTATCGATACTTTATAGGCGCTATTATTGTA
129 GTTATATTGTCATGTATAGATACATGTGTGTAAGGTATCGATACTTTATAGGCGCTATTATTGCA
92059 ATTC
194 ATTC
* * *
92063 TTTTAAATTCCTAAAGTATTGATACTTTGGTACATATACTTATAAAAGTATCGATACAAATTTTA
1 TTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCAATACAAATTTCA
* * * * *
92128 ACTATTCCTGTAGCTCTTTACCATTTTTGTCAAATTGAAACTGGTTTTTTCAAAATTTCAACATG
66 ACAATTCATGTAGCTCTTTACCGTTTTTGTCAAATTGAAACAGGTTTTGTC-AAATTTCAACATG
* *
92193 TTATATTGTCATGTATAAATACATGTGTGTAAGGTATCGATACTTTATAGCCGCTATTATTGCAA
130 TTATATTGTCATGTATAGATACATGTGTGTAAGGTATCGATACTTTATAGGCGCTATTATTGCAA
92258 TTC
195 TTC
*
92261 TTTTAAATTCCTAAAGTATCGATACTTTGGTAC----A--TATAAATGTATCAATACAAATTTCA
1 TTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCAATACAAATTTCA
* * *
92320 ACAATTCAAGTAGCTCTTTACCGGTTTTT-TCAAATTGAAACCGGATTTGTCAAATTTCAACATG
66 ACAATTCATGTAGCTCTTTACC-GTTTTTGTCAAATTGAAACAGGTTTTGTCAAATTTCAACATG
* * * * *
92384 TTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGAAACTTTATAGGCGTTTTTATTACAA
130 TTATATTGTCATGTATAGATACATGTGTGTAAGGTATCGATACTTTATAGGCGCTATTATTGCAA
92449 TTC
195 TTC
* ** * *
92452 TTTTAAATTACTAAAGTA-CTGATACTTTTATGCATATACTTATAAAGGTATCAATACA
1 TTTTAAATTCCTAAAGTATC-GATACTTTGGTACATATACTTATAAAAGTATCAATACA
92510 TGTCTACTTG
Statistics
Matches: 388, Mismatches: 45, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
190 1 0.00
191 101 0.26
192 60 0.15
193 5 0.01
194 54 0.14
195 1 0.00
197 60 0.15
198 105 0.27
199 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (197 bp):
TTTTAAATTCCTAAAGTATCGATACTTTGGTACATATACTTATAAAAGTATCAATACAAATTTCA
ACAATTCATGTAGCTCTTTACCGTTTTTGTCAAATTGAAACAGGTTTTGTCAAATTTCAACATGT
TATATTGTCATGTATAGATACATGTGTGTAAGGTATCGATACTTTATAGGCGCTATTATTGCAAT
TC
Found at i:98882 original size:35 final size:34
Alignment explanation
Indices: 98797--98883 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
98787 AAAATAATTT
*
98797 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
98831 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
98869 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
98884 ACTGAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:101239 original size:17 final size:18
Alignment explanation
Indices: 101199--101236 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
101189 TTATATAAGC
101199 AAAATA-TTAAATAAATT
1 AAAATACTTAAATAAATT
101216 AAAATACTTAAATAAATT
1 AAAATACTTAAATAAATT
101234 AAA
1 AAA
101237 TACAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATACTTAAATAAATT
Found at i:104333 original size:21 final size:20
Alignment explanation
Indices: 104273--104333 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
104263 TGGTACTTGT
*
104273 CCAGCCCACCAGTTCATATG
1 CCAGCCCACAAGTTCATATG
* * *
104293 CCATCTCCGCAAGGGT-ATATG
1 CCAGC-CCACAA-GTTCATATG
104314 CCCAGCCCACAAGTTCATAT
1 -CCAGCCCACAAGTTCATAT
104334 ATCATCTCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
20 6 0.20
21 18 0.60
22 6 0.20
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.21
Consensus pattern (20 bp):
CCAGCCCACAAGTTCATATG
Found at i:104411 original size:21 final size:21
Alignment explanation
Indices: 104341--104413 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
104331 TATATCATCT
*
104341 CCACAGGTTTACATTCCTAGC
1 CCACAGGGTTACATTCCTAGC
* * *
104362 CCACAGTGG-TACATACCCAGT
1 CCACAG-GGTTACATTCCTAGC
*
104383 CCATAGGGTTACATTCCTAGC
1 CCACAGGGTTACATTCCTAGC
*
104404 CCGCAGGGTT
1 CCACAGGGTT
104414 TTATAACACC
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.05
21 37 0.93
22 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (21 bp):
CCACAGGGTTACATTCCTAGC
Found at i:105616 original size:137 final size:138
Alignment explanation
Indices: 105320--106119 Score: 901
Period size: 137 Copynumber: 5.9 Consensus size: 138
105310 AATCCCATAA
* * * **
105320 AACATAATAGGTGTTGACGTGAATAATATCCTGTCGGGGGACATCACACATAATAGAACAATTAT
1 AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTAT
* * * **
105385 AACATATTCTCTTAC-AAAAAACAAA-TGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTAC
66 AACATATTCTCTGACAAAAAAAGAAAGAGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTGT
*
105448 GTCCTCTC
131 GTCCCCTC
* ** *
105456 AACATAATAGGTGTTGACGTGAATAGTGCCATGCCGGGGGACATCACACATAATAGGGCAATTAT
1 AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTAT
* **
105521 AACATATTCTCTGACAAAAAAAGAAAGACT-CATCCCACAAGAAGCGCTTTCAAAACATGGTTGT
66 AACATATTCTCTGACAAAAAAAGAAAGAGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTGT
105585 GTCCCCTC
131 GTCCCCTC
* * * *
105593 AACATAATAAGTGTTAACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAGGCCATTAT
1 AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTAT
* * * * * *
105658 AACATATTCTTTAACAAAAAGA-AAAG-GTGCATCCCACAAGAAGCACTTTCACAACATGGTTGC
66 AACATATTCTCTGACAAAAAAAGAAAGAGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTGT
*
105721 GTTCCCTC
131 GTCCCCTC
* * * *
105729 AACATAATAGGTGTTGATGTGAATAGTTCCCCGTCGGGGGACATCACACATAATAGTGCACTTAT
1 AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTAT
* * *
105794 AACATATTCTCTTAC-AAAAAGGAAAGGAGTG--TCCCACAAGAAGCGCTTTCACCACATTGTTG
66 AACATATTCTCTGACAAAAAAAGAAA-GAGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTG
*
105856 TGTCCCATC
130 TGTCCCCTC
* * * *
105865 AAACATAATAGGTGTTGACATGAATAGTACCACGTCGGGAGACATCACACATAGTAGGGCAATTA
1 -AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTA
* * * * *
105930 TAAGATATTATCTGAC-AAAAAAGAAA-A--GCATGTCCCACAAGAAGTGCTTTCATCACATTGT
65 TAACATATTCTCTGACAAAAAAAGAAAGAGTGCA--TCCCACAAGAAGCGCTTTCACCACATGGT
* * *
105991 TGTATTCCATC
128 TGTGTCCCCTC
* * *** * * *
106002 AAACATAATAGGTGTTGACATGAATAGTGCCCTACCGGGGGACATTATACATAGTAGGGCAATTA
1 -AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTA
* * *
106067 TAACCTATTTTCTG--AAAAAAAGAAA-AGGTACATCCCACAAGAAGCGCTTTCAC
65 TAACATATTCTCTGACAAAAAAAGAAAGA-GTGCATCCCACAAGAAGCGCTTTCAC
106120 GTAAATAGTA
Statistics
Matches: 569, Mismatches: 80, Indels: 29
0.84 0.12 0.04
Matches are distributed among these distances:
133 1 0.00
135 6 0.01
136 232 0.41
137 324 0.57
138 4 0.01
139 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (138 bp):
AACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAGGGCAATTAT
AACATATTCTCTGACAAAAAAAGAAAGAGTGCATCCCACAAGAAGCGCTTTCACCACATGGTTGT
GTCCCCTC
Found at i:105813 original size:273 final size:272
Alignment explanation
Indices: 105312--106118 Score: 970
Period size: 273 Copynumber: 3.0 Consensus size: 272
105302 TTACTTCTAA
* * * *
105312 TCCCATAAAACATAATAGGTGTTGACGTGAATAATATCCTGTCGGGGGACATCACACATAAT-AG
1 TCCCATCAAACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAG
* *
105376 AACAATTATAACATATTCTCTTACAAAAA-ACAAATGTGCATCCCACAAGAAGCGCTTTCACCAC
66 -GCAATTATAACATATTCT-TTACAAAAAGA-AAAGGTGCATCCCACAAGAAGCGCTTTCA-CAC
* *
105440 ATGGTTACG-TCCTCTCAACATAATAGGTGTTGACGTGAATAGTGCCATGCCGGGGGACATCACA
127 ATGGTTGCGTTCC-CTCAACATAATAGGTGTTGACGTGAATAGTGCCCTGCCGGGGGACATCACA
* *
105504 CATAATAGGGCAATTATAACATATTCTCTGACAAAAAAAGAAAGACTCATCCCACAAGAAGCGCT
191 CATAATAGGGCAATTATAACATATTCTCTTACAAAAAAAGAAAGAGTCATCCCACAAGAAGCGCT
105569 TTCAAAACATGGTTGTG
256 TTCAAAACATGGTTGTG
* * *
105586 TCCCCTC-AACATAATAAGTGTTAACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAG
1 TCCCATCAAACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAG
* *
105650 GCCATTATAACATATTCTTTAACAAAAAGAAAAGGTGCATCCCACAAGAAGCACTTTCACAACAT
66 GCAATTATAACATATTCTTT-ACAAAAAGAAAAGGTGCATCCCACAAGAAGCGCTTTCAC-ACAT
* * * *
105715 GGTTGCGTTCCCTCAACATAATAGGTGTTGATGTGAATAGTTCCCCGTCGGGGGACATCACACAT
129 GGTTGCGTTCCCTCAACATAATAGGTGTTGACGTGAATAGTGCCCTGCCGGGGGACATCACACAT
* * * *
105780 AATAGTGCACTTATAACATATTCTCTTAC-AAAAAGGAAAGGAGT-GTCCCACAAGAAGCGCTTT
194 AATAGGGCAATTATAACATATTCTCTTACAAAAAAAGAAA-GAGTCATCCCACAAGAAGCGCTTT
** *
105843 CACCACATTGTTGTG
258 CAAAACATGGTTGTG
* * * * *
105858 TCCCATCAAACATAATAGGTGTTGACATGAATAGTACCACGTCGGGAGACATCACACATAGTAGG
1 TCCCATCAAACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAG
* * * * *
105923 GCAATTATAAGATATTATCTGACAAAAAAGAAAAGCATG--TCCCACAAGAAGTGCTTTCATCAC
66 GCAATTATAACATATTCT-TTAC-AAAAAGAAAAG-GTGCATCCCACAAGAAGCGCTTTCA-CAC
* ** * * * * *
105986 ATTGTTGTATTCCATCAAACATAATAGGTGTTGACATGAATAGTGCCCTACCGGGGGACATTATA
127 ATGGTTGCGTTCCCTC-AACATAATAGGTGTTGACGTGAATAGTGCCCTGCCGGGGGACATCACA
* * * *
106051 CATAGTAGGGCAATTATAACCTATTTTC-T-GAAAAAAAGAAA-AGGTACATCCCACAAGAAGCG
191 CATAATAGGGCAATTATAACATATTCTCTTACAAAAAAAGAAAGA-GT-CATCCCACAAGAAGCG
106113 CTTTCA
254 CTTTCA
106119 CGTAAATAGT
Statistics
Matches: 456, Mismatches: 61, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
271 1 0.00
272 50 0.11
273 296 0.65
274 107 0.23
275 2 0.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (272 bp):
TCCCATCAAACATAATAGGTGTTGACGTGAATAGTACCCCGTCGGGGGACATCACACATAATAAG
GCAATTATAACATATTCTTTACAAAAAGAAAAGGTGCATCCCACAAGAAGCGCTTTCACACATGG
TTGCGTTCCCTCAACATAATAGGTGTTGACGTGAATAGTGCCCTGCCGGGGGACATCACACATAA
TAGGGCAATTATAACATATTCTCTTACAAAAAAAGAAAGAGTCATCCCACAAGAAGCGCTTTCAA
AACATGGTTGTG
Found at i:109482 original size:20 final size:21
Alignment explanation
Indices: 109439--109482 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
109429 AACTTCTAAT
*
109439 AACCTTAAACCCTAATCCATA
1 AACCTTAAACCCTAATCCAAA
*
109460 AACC-TAAACCCTAATTCAAA
1 AACCTTAAACCCTAATCCAAA
109480 AAC
1 AAC
109483 AGGTGAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCTTAAACCCTAATCCAAA
Found at i:114005 original size:105 final size:107
Alignment explanation
Indices: 113873--114092 Score: 282
Period size: 105 Copynumber: 2.1 Consensus size: 107
113863 GGTAACACTT
* * *
113873 GTTTAAAGTTGATGGGGTCTTAAAAATCTGACGATAACAAAATAAATTAATTACTTAATTTATTA
1 GTTT-AAGTTGATAGAGCCTTAAAAATCTGACGATAACAAAATAAATTAATTACTTAATTTATTA
* *
113938 TCAATATTATC-AC-ATTAGGTAGCGCCTAAAATATTACTAAA
65 TCAATATTATCAACAATTAGGTAGCACCTAAAATATTACCAAA
* * ** * *
113979 GTTTAAGTTGATAGAGCCTTAGAAATCTGACGATAATAAAATAGGTTAATTACTTATTTTGTTAT
1 GTTTAAGTTGATAGAGCCTTAAAAATCTGACGATAACAAAATAAATTAATTACTTAATTTATTAT
* *
114044 TAATATTATCAACATATTAGGTAGCATCTAAAATATTACCAAA
66 CAATATTATCAACA-ATTAGGTAGCACCTAAAATATTACCAAA
*
114087 ATTTAA
1 GTTTAA
114093 ACTGATGGGA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
105 61 0.63
106 6 0.06
108 30 0.31
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (107 bp):
GTTTAAGTTGATAGAGCCTTAAAAATCTGACGATAACAAAATAAATTAATTACTTAATTTATTAT
CAATATTATCAACAATTAGGTAGCACCTAAAATATTACCAAA
Found at i:114128 original size:108 final size:105
Alignment explanation
Indices: 113908--114156 Score: 275
Period size: 108 Copynumber: 2.3 Consensus size: 105
113898 ATCTGACGAT
** * * * *
113908 AACAAAATAAATTAATTACTTAATTTATTATCAATATTATCACATTAGGTAGCGCCTAAAATATT
1 AACAAAATAGGTTAATTACTTATTTTGTTATAAATATTATCACATTAGGTAGCACCTAAAATATT
* * ** * * * *
113973 ACTAAAGTTTAAGTTGATAGAGCCTTAGAAATCTGACGAT
66 ACCAAAATTTAAACTGATAGAGCATTAGAAATCCGAAGAC
* * *
114013 AATAAAATAGGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTAGCATCTAAAAT
1 AACAAAATAGGTTAATTACTTATTTTGTTATAAATATTATC-AC--ATTAGGTAGCACCTAAAAT
* *
114078 ATTACCAAAATTTAAACTGAT-GGGACATTCGAAATCCGAAGAC
63 ATTACCAAAATTTAAACTGATAGAG-CATTAGAAATCCGAAGAC
*
114121 AACAAAATAGGTTAATTTCTTATTTTGTTATAAATA
1 AACAAAATAGGTTAATTACTTATTTTGTTATAAATA
114157 AATATTAACA
Statistics
Matches: 119, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
105 35 0.29
106 2 0.02
107 2 0.02
108 80 0.67
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (105 bp):
AACAAAATAGGTTAATTACTTATTTTGTTATAAATATTATCACATTAGGTAGCACCTAAAATATT
ACCAAAATTTAAACTGATAGAGCATTAGAAATCCGAAGAC
Found at i:114497 original size:31 final size:30
Alignment explanation
Indices: 114462--114524 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
114452 TAAAAATATT
114462 TGTAAA-AATATCGATACTTAGTGTAGATGTA
1 TGTAAATAATAT--ATACTTAGTGTAGATGTA
* *
114493 TGTAAATTATTATATACTTAGTGTATATGTA
1 TGTAAA-TAATATATACTTAGTGTAGATGTA
114524 T
1 T
114525 TAGTATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 24 0.86
33 4 0.14
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.43
Consensus pattern (30 bp):
TGTAAATAATATATACTTAGTGTAGATGTA
Found at i:114844 original size:22 final size:23
Alignment explanation
Indices: 114814--114861 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
114804 CGGTAGCTAG
*
114814 TTTAACGTAATAGGTAG-GCTTA
1 TTTAACGTAATAGGTAGCGCCTA
*
114836 TTTATCGTAATAGGTAGCGCCTA
1 TTTAACGTAATAGGTAGCGCCTA
114859 TTT
1 TTT
114862 TAATTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (23 bp):
TTTAACGTAATAGGTAGCGCCTA
Found at i:115381 original size:21 final size:22
Alignment explanation
Indices: 115348--115388 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
115338 TTAAAAATTA
115348 TAAAGGTAGTATCGATACTCAT
1 TAAAGGTAGTATCGATACTCAT
115370 TAAAGG-AGTATCGATACTC
1 TAAAGGTAGTATCGATACTC
115389 CTTGTACTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (22 bp):
TAAAGGTAGTATCGATACTCAT
Found at i:118303 original size:108 final size:109
Alignment explanation
Indices: 118213--118409 Score: 262
Period size: 109 Copynumber: 1.9 Consensus size: 109
118203 AATATATGTT
118213 TGAAAAATGAGGAGCTTT-AATATTTTCCAAATA-TT-T-TTTT-CATGAAAAATTTTATTAAG-
1 TGAAAAA-GAGGAGCTTTAAATATTTTCCAAATATTTCTCTTTTACATGAAAAATTTTATTAAGT
* * * * *
118272 GGGAATTTTGCCAAAAATAATTTTTCAAAAAATTCAGTTTCTCAA
65 GAGAATTTTGCCAAAAACAATTTTTCAAAAAATGCAGTATATCAA
* *
118317 TGAAAAAGGGGAGCTTTAAATATTTTCCAAATATTTCTCTTTTACATGAAATATTTTATTAAGTG
1 TGAAAAAGAGGAGCTTTAAATATTTTCCAAATATTTCTCTTTTACATGAAAAATTTTATTAAGTG
* *
118382 AGAGTTTTGTCAAAAACAATTTTTCAAA
66 AGAATTTTGCCAAAAACAATTTTTCAAA
118410 TGTCTTGTTA
Statistics
Matches: 81, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
103 9 0.11
104 22 0.27
105 2 0.02
106 1 0.01
107 4 0.05
108 18 0.22
109 25 0.31
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.40
Consensus pattern (109 bp):
TGAAAAAGAGGAGCTTTAAATATTTTCCAAATATTTCTCTTTTACATGAAAAATTTTATTAAGTG
AGAATTTTGCCAAAAACAATTTTTCAAAAAATGCAGTATATCAA
Found at i:118907 original size:21 final size:22
Alignment explanation
Indices: 118868--118908 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
118858 TTAAAAATTA
* *
118868 TAAAGGGAGTACTGGTACTCAT
1 TAAAGGGAGTACCGATACTCAT
118890 TAAA-GGAGTACCGATACTC
1 TAAAGGGAGTACCGATACTC
118909 CCTGTCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
TAAAGGGAGTACCGATACTCAT
Found at i:126204 original size:22 final size:21
Alignment explanation
Indices: 126178--126258 Score: 58
Period size: 23 Copynumber: 3.8 Consensus size: 21
126168 ATAGGACAGA
126178 GGGAATCGATACCCCCATGAAG
1 GGGAATCGATACCCCC-TGAAG
* *
126200 GGGAA-CTGATTCCCCCTTTGAAT
1 GGGAATC-GATACCCCC--TGAAG
* * *
126223 GGGAACCGATTCCCCCT-TAG
1 GGGAATCGATACCCCCTGAAG
*
126243 GGGAATTGATACCCCC
1 GGGAATCGATACCCCC
126259 CAAGGGTTCT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 14 0.29
21 2 0.04
22 13 0.27
23 18 0.38
24 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (21 bp):
GGGAATCGATACCCCCTGAAG
Found at i:126221 original size:23 final size:23
Alignment explanation
Indices: 126178--126240 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
126168 ATAGGACAGA
* * *
126178 GGGAATCGATACCCCC-ATGAAG
1 GGGAACCGATTCCCCCTTTGAAG
* *
126200 GGGAACTGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAG
126223 GGGAACCGATTCCCCCTT
1 GGGAACCGATTCCCCCTT
126241 AGGGGAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:128811 original size:21 final size:22
Alignment explanation
Indices: 128777--128827 Score: 95
Period size: 21 Copynumber: 2.4 Consensus size: 22
128767 AGAGGGAACC
128777 GATTCCCCCTTAAGGGGGTACT
1 GATTCCCCCTTAAGGGGGTACT
128799 GATTCCCCC-TAAGGGGGTACT
1 GATTCCCCCTTAAGGGGGTACT
128820 GATTCCCC
1 GATTCCCC
128828 TGAATGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.25
Consensus pattern (22 bp):
GATTCCCCCTTAAGGGGGTACT
Found at i:130799 original size:23 final size:23
Alignment explanation
Indices: 130740--130792 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
130730 GGTTCTACGC
* *
130740 GGTCCTTCTGGATAATTCTATAT
1 GGTCCTTCTGGACAATTCTACAT
130763 GGTCCTTCTGGACAATTCTACAT
1 GGTCCTTCTGGACAATTCTACAT
130786 GGTCCTT
1 GGTCCTT
130793 TGAGACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (23 bp):
GGTCCTTCTGGACAATTCTACAT
Found at i:132665 original size:20 final size:20
Alignment explanation
Indices: 132640--132683 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
132630 ATTTTCTCTT
* *
132640 AAAAGCAAAATTAGATTTTG
1 AAAAGCAAAATGAAATTTTG
132660 AAAAGCAAAATGAAATTTTG
1 AAAAGCAAAATGAAATTTTG
132680 AAAA
1 AAAA
132684 ATGATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.25
Consensus pattern (20 bp):
AAAAGCAAAATGAAATTTTG
Found at i:133800 original size:106 final size:108
Alignment explanation
Indices: 133682--133893 Score: 329
Period size: 106 Copynumber: 2.0 Consensus size: 108
133672 ATATGTTTGC
* * *
133682 AAAATTCAATTTCTCAATGAAAAAGGAGGAGCTTTAATATTTTTCAAATATTTCTCTTTTTCATG
1 AAAATTCAATTTCTCAATGAAAAAGGAGGAGCTTTAATATTTTCCAAATACTTCTCTTTTTAATG
*
133747 AAATATTTTATTAAGG-GG-GTTTTGCCAAAAATAAATTTTAA
66 AAATATTTTATTAAGGAGGAGTTTTGCCAAAAACAAATTTTAA
* * *
133788 AAAATTCAATTTCTCATTGAAGAATGAGGAGCTTTAATATTTTCCAAATACTTCTCTTTTTAATG
1 AAAATTCAATTTCTCAATGAAAAAGGAGGAGCTTTAATATTTTCCAAATACTTCTCTTTTTAATG
* *
133853 AAATATTTTATTATGGAGGAGTTTTGCTAAAAACAAATTTT
66 AAATATTTTATTAAGGAGGAGTTTTGCCAAAAACAAATTTT
133894 CAAATGTTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 74 0.78
107 2 0.02
108 19 0.20
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (108 bp):
AAAATTCAATTTCTCAATGAAAAAGGAGGAGCTTTAATATTTTCCAAATACTTCTCTTTTTAATG
AAATATTTTATTAAGGAGGAGTTTTGCCAAAAACAAATTTTAA
Found at i:135095 original size:75 final size:75
Alignment explanation
Indices: 135008--135315 Score: 402
Period size: 75 Copynumber: 4.1 Consensus size: 75
134998 TAGAACCCAC
* * * * * * *
135008 TTTATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAATGTAATAAG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGGTAGTTTAACGTAATAGG
135073 TAGCGCCTAT
66 TAGCGCCTAT
* * *
135083 TTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAACTGATAGATAGTTTAACGTAATAGG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGGTAGTTTAACGTAATAGG
**
135148 TAATGCCTAT
66 TAGCGCCTAT
* * * *
135158 TTTATTTTACTATTTACATTATTAGTAACCTTTAAACAAACCGATAGGTATTTTAACGTAATATG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGGTAGTTTAACGTAATAGG
* *
135223 TATCACCTA-
66 TAGCGCCTAT
* * *
135232 TTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAACCGATAGGTAGTTTAACATAATAGG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGGTAGTTTAACGTAATAGG
* *
135297 TAGTGCATAT
66 TAGCGCCTAT
135307 TTTATTTTA
1 TTTATTTTA
135316 ACCGATTAAC
Statistics
Matches: 206, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
74 65 0.32
75 141 0.68
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (75 bp):
TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGGTAGTTTAACGTAATAGG
TAGCGCCTAT
Found at i:135297 original size:149 final size:150
Alignment explanation
Indices: 135008--135315 Score: 429
Period size: 149 Copynumber: 2.1 Consensus size: 150
134998 TAGAACCCAC
* * * * *
135008 TTTATTTTACCGTTTACATTATTATTAACATTTAAACAAACTGGTAGCTAGTTTAATGTAATAAG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGCTAGTTTAACGTAATAAG
* * * *
135073 TAGCGCCTATTTTATTTTACCGTTTACATTATTAGTAACATTTAAACAAACTGATAGATAGTTTA
66 TAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTCAAACAAACCGATAGATAGTTTA
* *
135138 ACGTAATAGGTAATGCCTAT
131 ACATAATAGGTAATGCATAT
* * * * *
135158 TTTATTTTACTATTTACATTATTAGTAACCTTTAAACAAACCGATAGGTATTTTAACGTAATATG
1 TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGCTAGTTTAACGTAATAAG
* * *
135223 TATCACCTA-TTTATTTTACCATTTACATTATTAGTAACCTTCAAACAAACCGATAGGTAGTTTA
66 TAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTCAAACAAACCGATAGATAGTTTA
*
135287 ACATAATAGGTAGTGCATAT
131 ACATAATAGGTAATGCATAT
135307 TTTATTTTA
1 TTTATTTTA
135316 ACCGATTAAC
Statistics
Matches: 138, Mismatches: 20, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
149 76 0.55
150 62 0.45
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (150 bp):
TTTATTTTACCATTTACATTATTAGTAACATTTAAACAAACCGATAGCTAGTTTAACGTAATAAG
TAGCACCTATTTTATTTTACCATTTACATTATTAGTAACATTCAAACAAACCGATAGATAGTTTA
ACATAATAGGTAATGCATAT
Found at i:136700 original size:4 final size:4
Alignment explanation
Indices: 136691--136720 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
136681 AAAATAACAT
*
136691 TTTA TTTA TTTA TTTA TTTA ATTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
136721 AAAAATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Done.