Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 132 of 199
Found at i:44191966 original size:20 final size:20
Alignment explanation
Indices: 44191928--44192037 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
44191918 CATTCGTACC
*
44191928 CCTGATAGCACATTC-GTGCT
1 CCTGATAGCAC-TACGGTGCT
* *
44191948 CCTGATAGTATTACGGTGCT
1 CCTGATAGCACTACGGTGCT
* * *
44191968 TCTGATAACACTACGATGCT
1 CCTGATAGCACTACGGTGCT
**
44191988 CCTGATAGCAC-ATTTGTGCT
1 CCTGATAGCACTA-CGGTGCT
** *
44192008 TTTGTTAGCACTACGGTGC-
1 CCTGATAGCACTACGGTGCT
44192027 CTCTGATAGCA
1 C-CTGATAGCA
44192038 TAATCATGCT
Statistics
Matches: 65, Mismatches: 21, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 61 0.94
21 1 0.02
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (20 bp):
CCTGATAGCACTACGGTGCT
Found at i:44193715 original size:21 final size:21
Alignment explanation
Indices: 44193686--44193755 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
44193676 AGAAAGAAAG
*
44193686 AAAAGAAACAGAGAGCAAAAC
1 AAAACAAACAGAGAGCAAAAC
*
44193707 AAAACAAACAGAGAAGGAGAAA-
1 AAAACAAACAGAG-AGCA-AAAC
* *
44193729 GAAAGAAACAGAGAGCAAAAC
1 AAAACAAACAGAGAGCAAAAC
*
44193750 GAAACA
1 AAAACA
44193756 GAGAAGGAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 3 0.08
21 20 0.50
22 14 0.35
23 3 0.08
ACGTcount: A:0.66, C:0.13, G:0.21, T:0.00
Consensus pattern (21 bp):
AAAACAAACAGAGAGCAAAAC
Found at i:44193730 original size:39 final size:39
Alignment explanation
Indices: 44193687--44193763 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
44193677 GAAAGAAAGA
* *
44193687 AAAGAAACAGAGAGCAAAACAAAAC-AAACAGAGAAGGAG
1 AAAGAAACAAACAG-AAAACAAAACGAAACAGAGAAGGAG
* * *
44193726 AAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGA
1 AAAGAAACAAACAGAAAACAAAACGAAACAGAGAAGGA
44193764 AGGAAGGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 8 0.25
39 24 0.75
ACGTcount: A:0.64, C:0.12, G:0.25, T:0.00
Consensus pattern (39 bp):
AAAGAAACAAACAGAAAACAAAACGAAACAGAGAAGGAG
Found at i:44193740 original size:22 final size:22
Alignment explanation
Indices: 44193680--44193742 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
44193670 TGACAAAGAA
44193680 AGAAAGAAAAGAAACAGAG-AGC
1 AGAAAG-AAAGAAACAGAGAAGC
* * *
44193702 A-AAACAAAACAAACAGAGAAGG
1 AGAAA-GAAAGAAACAGAGAAGC
44193724 AGAAAGAAAGAAACAGAGA
1 AGAAAGAAAGAAACAGAGA
44193743 GCAAAACGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 14 0.42
22 16 0.48
23 3 0.09
ACGTcount: A:0.67, C:0.10, G:0.24, T:0.00
Consensus pattern (22 bp):
AGAAAGAAAGAAACAGAGAAGC
Found at i:44193742 original size:43 final size:44
Alignment explanation
Indices: 44193679--44193781 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 44
44193669 ATGACAAAGA
44193679 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACA-A-ACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGA-AG-GAAGG
*
44193724 -AGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGAAGG
44193767 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
44193782 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
43 30 0.57
44 10 0.19
45 13 0.25
ACGTcount: A:0.65, C:0.09, G:0.26, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGGAAGG
Found at i:44194336 original size:29 final size:30
Alignment explanation
Indices: 44194277--44194334 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44194267 TCCGAGCCTT
*
44194277 GGGGCAAAAATGCAATTATGTAAAAGTTTA
1 GGGGCAAAAATGCAATTATGAAAAAGTTTA
* * *
44194307 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGCAATTATGAAAAAGTT
44194335 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGCAATTATGAAAAAGTTTA
Found at i:44194564 original size:13 final size:13
Alignment explanation
Indices: 44194546--44194577 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44194536 TTTTCAGCAA
44194546 TTATGAATTTATT
1 TTATGAATTTATT
44194559 TTATGAATTTATT
1 TTATGAATTTATT
*
44194572 TGATGA
1 TTATGA
44194578 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:44194785 original size:50 final size:50
Alignment explanation
Indices: 44194672--44194912 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
44194662 ATTTGGGTAA
* * *
44194672 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
44194728 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44194778 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* *
44194828 AGAGGTCCC-TATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
44194877 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
44194913 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.21
50 61 0.37
51 24 0.14
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:44194878 original size:99 final size:103
Alignment explanation
Indices: 44194672--44194920 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
44194662 ATTTGGGTAA
44194672 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
44194737 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
* * *
44194778 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
44194839 TAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCGA-CACG
* *
44194877 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44194921 GTTATTATCA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 41 0.31
100 46 0.35
101 2 0.02
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCGACACG
Found at i:44197375 original size:13 final size:13
Alignment explanation
Indices: 44197357--44197384 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44197347 TGATCTCTTC
44197357 TGGGTATTCTATA
1 TGGGTATTCTATA
44197370 TGGGTATTCTATA
1 TGGGTATTCTATA
44197383 TG
1 TG
44197385 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:44199433 original size:45 final size:44
Alignment explanation
Indices: 44199367--44199471 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 44
44199357 ATGACAAAGA
44199367 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACA-AAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAAA-AG-GAAGG
* * *
44199413 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
44199457 AAGGAAAGAAAGAAA
1 AA-GAAAGAAAGAAA
44199472 GAAAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
44 6 0.11
45 39 0.74
46 8 0.15
ACGTcount: A:0.65, C:0.09, G:0.27, T:0.00
Consensus pattern (44 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAAAAGGAAGG
Found at i:44200026 original size:29 final size:30
Alignment explanation
Indices: 44199967--44200024 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
44199957 TCCGAGCCTT
*
44199967 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
44199997 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
44200025 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:44200253 original size:13 final size:13
Alignment explanation
Indices: 44200235--44200266 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44200225 ATTTCAGCAA
44200235 TTATGAATTTATT
1 TTATGAATTTATT
44200248 TTATGAATTTATT
1 TTATGAATTTATT
*
44200261 TGATGA
1 TTATGA
44200267 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:44200474 original size:50 final size:50
Alignment explanation
Indices: 44200361--44200601 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
44200351 ATTTGGGTAA
* * *
44200361 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
44200417 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44200467 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
44200517 AGAGGTCCCCTATAAGACCATGT-TGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
44200566 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
44200602 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 22 0.13
50 85 0.52
51 11 0.07
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:44200582 original size:100 final size:103
Alignment explanation
Indices: 44200365--44200609 Score: 347
Period size: 100 Copynumber: 2.4 Consensus size: 103
44200355 GGGTAAAGAG
*
44200365 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCCTAT
* *
44200430 AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAG
63 AAGACCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
* * *
44200471 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTATAAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
44200533 ACCATGT-TGGGACATGGCATGGGCACC-ATCACGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCGA-CACGAG-AC
*
44200571 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44200610 GTTATTATCA
Statistics
Matches: 128, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
98 1 0.01
99 25 0.20
100 62 0.48
101 2 0.02
105 2 0.02
106 36 0.28
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTATAAG
ACCATGTCTGGGACATGGCATGGGCACCGACACGAGAC
Found at i:44203949 original size:25 final size:24
Alignment explanation
Indices: 44203920--44203972 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
44203910 TAATAATATT
* *
44203920 TTAATCCTATTAAGTGTAAATAAAA
1 TTAATCCTAGTAAAT-TAAATAAAA
**
44203945 TTAATGTTAGTAAATTAAATAAAA
1 TTAATCCTAGTAAATTAAATAAAA
44203969 TTAA
1 TTAA
44203973 CAAATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.38
Consensus pattern (24 bp):
TTAATCCTAGTAAATTAAATAAAA
Found at i:44210896 original size:27 final size:28
Alignment explanation
Indices: 44210856--44210916 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
44210846 GCTAACGTGT
*
44210856 TGGCGAGCTGGGGGTTCACTAGTCTGTC
1 TGGCGAGCTGGGGGTTCACCAGTCTGTC
*
44210884 TGGCGAGCT-GGGGTTCACCAGTCTGTT
1 TGGCGAGCTGGGGGTTCACCAGTCTGTC
44210911 TGGCGA
1 TGGCGA
44210917 ATAGGGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 22 0.71
28 9 0.29
ACGTcount: A:0.11, C:0.21, G:0.39, T:0.28
Consensus pattern (28 bp):
TGGCGAGCTGGGGGTTCACCAGTCTGTC
Found at i:44213494 original size:40 final size:40
Alignment explanation
Indices: 44213384--44213522 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 40
44213374 TAGTTCTATC
** * *
44213384 AGAGGCACCGAAGTGCAAATTGAGGCACGATTATGAAATT
1 AGAGGCACCGAAGTGCAAACAGAGGCACAATTATGCAATT
* * * *
44213424 AGAGGCATCAAAGTGC-AACGGAGGCACAATTTTGCAATT
1 AGAGGCACCGAAGTGCAAACAGAGGCACAATTATGCAATT
* * *
44213463 AGAGGCACCGAAGTCCAAACAGAGGCACAATTGTGCAATC
1 AGAGGCACCGAAGTGCAAACAGAGGCACAATTATGCAATT
** *
44213503 AGAGGCTTCGAAGTACAAAC
1 AGAGGCACCGAAGTGCAAAC
44213523 CTATACAAGC
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 31 0.38
40 51 0.62
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.17
Consensus pattern (40 bp):
AGAGGCACCGAAGTGCAAACAGAGGCACAATTATGCAATT
Found at i:44213505 original size:20 final size:20
Alignment explanation
Indices: 44213405--44213508 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
44213395 AGTGCAAATT
* * * *
44213405 GAGGCACGATTATGAAATTA
1 GAGGCACAATTGTGCAATCA
* *
44213425 GAGGCATCAA-AGTGCAA-CG
1 GAGGCA-CAATTGTGCAATCA
* *
44213444 GAGGCACAATTTTGCAATTA
1 GAGGCACAATTGTGCAATCA
* *
44213464 GAGGCACCGAA--GTCCAAACA
1 GAGGCA-C-AATTGTGCAATCA
44213484 GAGGCACAATTGTGCAATCA
1 GAGGCACAATTGTGCAATCA
44213504 GAGGC
1 GAGGC
44213509 TTCGAAGTAC
Statistics
Matches: 61, Mismatches: 16, Indels: 14
0.67 0.18 0.15
Matches are distributed among these distances:
18 5 0.08
19 12 0.20
20 39 0.64
21 3 0.05
22 2 0.03
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.17
Consensus pattern (20 bp):
GAGGCACAATTGTGCAATCA
Found at i:44214529 original size:18 final size:18
Alignment explanation
Indices: 44214484--44214530 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
44214474 CGTTCGTTTC
*
44214484 CAAAACATTATTCATTTA
1 CAAAACATTTTTCATTTA
*
44214502 CAAATCATTTTTCAATTT-
1 CAAAACATTTTTC-ATTTA
44214520 CAAAACATTTT
1 CAAAACATTTT
44214531 CTTATTGCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (18 bp):
CAAAACATTTTTCATTTA
Found at i:44215085 original size:23 final size:24
Alignment explanation
Indices: 44215041--44215085 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44215031 AAAATCCTAC
44215041 CCATCCAACCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
* *
44215065 CCATCTAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
44215086 GTAGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:44220187 original size:37 final size:36
Alignment explanation
Indices: 44220107--44220177 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 36
44220097 ATATATTAAT
* * * *
44220107 TATAT-AATATTAAAATAAATAAATAAAATTTAAAG
1 TATATAAATTTTAAAAAAAATAAAAAAAAGTTAAAG
44220142 TATATAAATTTTAAAAAAAATTAAAAAAAAGTTAAA
1 TATATAAATTTTAAAAAAAA-TAAAAAAAAGTTAAA
44220178 TGTTCTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (36 bp):
TATATAAATTTTAAAAAAAATAAAAAAAAGTTAAAG
Found at i:44227008 original size:52 final size:51
Alignment explanation
Indices: 44226931--44227030 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 51
44226921 AAATGGTAAG
* * *
44226931 AAAATATTATTAATTATTTAATTTTAAACCGTTAATTGTTATGATGTTAAT
1 AAAATATTATAAATTATTTAATTTTAAACAGTTAATTATTATGATGTTAAT
*
44226982 AAAATATTATCAAATTATTTAATTTTAAACAGTTAATTATTATGCTGTT
1 AAAATATTAT-AAATTATTTAATTTTAAACAGTTAATTATTATGATGTT
44227031 TAGATTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 10 0.23
52 34 0.77
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (51 bp):
AAAATATTATAAATTATTTAATTTTAAACAGTTAATTATTATGATGTTAAT
Found at i:44235417 original size:79 final size:82
Alignment explanation
Indices: 44235299--44235483 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
44235289 GCTACTCGTT
* *
44235299 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
44235362 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
44235379 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
44235442 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
44235459 CAAA-GCCTTCGGGATTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44235484 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:44235483 original size:40 final size:40
Alignment explanation
Indices: 44235280--44235483 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
44235270 TGAAATTTAA
** *
44235280 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44235320 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
44235360 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
44235399 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
44235439 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGATTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
44235479 CCGGA
1 CCGGA
44235484 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:44243356 original size:39 final size:40
Alignment explanation
Indices: 44243285--44243468 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
44243275 GCTACTCGTT
*
44243285 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
44243325 CAAATGCCTT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
44243364 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
44243403 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
44243444 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44243469 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 67 0.54
40 45 0.36
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:44247592 original size:29 final size:28
Alignment explanation
Indices: 44247545--44247605 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
44247535 TAGGAAAAGA
*
44247545 AAAACCTTTATGGAAAACCTTTGCAAAT
1 AAAACCTTTATGGAAAACCTTTGAAAAT
* **
44247573 GAAAACCTTTGTGGTGAACCTTTGAAAAT
1 -AAAACCTTTATGGAAAACCTTTGAAAAT
44247602 AAAA
1 AAAA
44247606 GTGTAACACC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (28 bp):
AAAACCTTTATGGAAAACCTTTGAAAAT
Found at i:44249202 original size:22 final size:21
Alignment explanation
Indices: 44249159--44249202 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
44249149 GTAAAGTGTG
*
44249159 TAATTTTATGAAATTTAGTAT
1 TAATTTTATGAAATTTACTAT
* *
44249180 TAATTTTACTTAATTTTACTAT
1 TAATTTTA-TGAAATTTACTAT
44249202 T
1 T
44249203 TTATGCTACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TAATTTTATGAAATTTACTAT
Found at i:44254922 original size:28 final size:28
Alignment explanation
Indices: 44254788--44255124 Score: 250
Period size: 29 Copynumber: 11.9 Consensus size: 28
44254778 GTTGTTATAA
*
44254788 AAAGCCTTTGTGGCCAACCTCTGTAAAGG
1 AAAGCCTTTGTGGCAAACCTCTG-AAAGG
* * * * **
44254817 AAAGCCTTTATGACGAACCTCTAAAAATA
1 AAAGCCTTTGTGGCAAACCTCT-GAAAGG
* * *
44254846 AAAGCTTTTGTGG-AAATCCTCTACAAATG
1 AAAGCCTTTGTGGCAAA-CCTCT-GAAAGG
* * * **
44254875 AGAGTCTTTATGGTGAACCTCTGAAAGG
1 AAAGCCTTTGTGGCAAACCTCTGAAAGG
* * *
44254903 AAAGCCTTTGTGGCAGACCT-TTATAAAG
1 AAAGCCTTTGTGGCAAACCTCTGA-AAGG
* * *
44254931 AGAGCCTTTGTGGTAAACCTCTGAAAAG
1 AAAGCCTTTGTGGCAAACCTCTGAAAGG
** *
44254959 AAGAGCCTTTGTGGTGAACCTCTAAAAGG
1 AA-AGCCTTTGTGGCAAACCTCTGAAAGG
* * *
44254988 AAATCCTTTGTGGCAAACCTCTGGAATGA
1 AAAGCCTTTGTGGCAAACCTCT-GAAAGG
**
44255017 AAAGCCTTTGTGGCAAACCTCTGCAAATT
1 AAAGCCTTTGTGGCAAACCTCTG-AAAGG
* * ** *
44255046 AGATCCTTTGTGGTGAACCTCTAAAAGG
1 AAAGCCTTTGTGGCAAACCTCTGAAAGG
*
44255074 AAAGCCTTTGTGGTAAACCTCTGTAAA-G
1 AAAGCCTTTGTGGCAAACCTCTG-AAAGG
44255102 AAAGCCTTTGTGGC-AACCTCTGA
1 AAAGCCTTTGTGGCAAACCTCTGA
44255125 TAAAGGAAGT
Statistics
Matches: 242, Mismatches: 57, Indels: 21
0.76 0.18 0.07
Matches are distributed among these distances:
26 1 0.00
27 10 0.04
28 99 0.41
29 130 0.54
30 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (28 bp):
AAAGCCTTTGTGGCAAACCTCTGAAAGG
Found at i:44254970 original size:57 final size:57
Alignment explanation
Indices: 44254788--44255144 Score: 278
Period size: 57 Copynumber: 6.3 Consensus size: 57
44254778 GTTGTTATAA
* * * * *** * *
44254788 AAAGCCTTTGTGGCCAACCTCTGTAAAGGAAAGCCTTTATGACGAACCTCTAAAAATA
1 AAAGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAA-G
* * * * * * *
44254846 AAAGCTTTTGTGG-AAATCCTCTACAAATGAGAGTCTTTATGGTGAACCTCTGAAAGG
1 AAAGCCTTTGTGGCAAA-CCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAAG
* *
44254903 AAAGCCTTTGTGGCAGACCTTTATAAA-GAGAGCCTTTGTGGTAAACCTCTGAAAAG
1 AAAGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAAG
** * * * * *
44254959 AAGAGCCTTTGTGGTGAACCTCTA-AAAGGAAATCCTTTGTGGCAAACCTCTGGAATG
1 AA-AGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAAG
** ** * *
44255016 AAAAGCCTTTGTGGCAAACCTCTGCAAATTAGATCCTTTGTGGTGAACCTCT-AAAAGG
1 -AAAGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAA-G
* * * *
44255074 AAAGCCTTTGTGGTAAACCTCTGTAAA-GAAAGCCTTTGTGG-CAACCTCTGATAAAG
1 AAAGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGA-AAAG
* *
44255130 GAAGTC-TTGTGGCAA
1 AAAGCCTTTGTGGCAA
44255145 TCTCTAAAAT
Statistics
Matches: 242, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
55 15 0.06
56 47 0.19
57 111 0.46
58 69 0.29
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (57 bp):
AAAGCCTTTGTGGCAAACCTCTATAAAGGAGAGCCTTTGTGGTAAACCTCTGAAAAG
Found at i:44255060 original size:86 final size:85
Alignment explanation
Indices: 44254792--44255123 Score: 355
Period size: 86 Copynumber: 3.9 Consensus size: 85
44254782 TTATAAAAAG
** * * * * * * *
44254792 CCTTTGTGGCCAACCTCTGTAAAGGAAAGCCTTTATGACGAACCTCTAAAAATAAAAGCTTTTGT
1 CCTTTGTGGTGAACCTCT-AAAAGGAAAGCCTTTGTGGCAAACCTCTATAAA-GAAAGCCTTTGT
* *
44254857 GG-AAATCCTCTACAAATGAGAGT
64 GGCAAA-CCTCTGCAAATAAGA-T
* * * * *
44254880 -CTTTATGGTGAACCTCTGAAAGGAAAGCCTTTGTGGCAGACCTTTATAAAGAGAGCCTTTGTGG
1 CCTTTGTGGTGAACCTCTAAAAGGAAAGCCTTTGTGGCAAACCTCTATAAAGAAAGCCTTTGTGG
* * * *
44254944 TAAACCTCTGAAAAGAAGAG
66 CAAACCTCTGCAAATAAGAT
* ** *
44254964 CCTTTGTGGTGAACCTCTAAAAGGAAATCCTTTGTGGCAAACCTCTGGAATGAAAAGCCTTTGTG
1 CCTTTGTGGTGAACCTCTAAAAGGAAAGCCTTTGTGGCAAACCTCTATAAAG-AAAGCCTTTGTG
*
44255029 GCAAACCTCTGCAAATTAGAT
65 GCAAACCTCTGCAAATAAGAT
* *
44255050 CCTTTGTGGTGAACCTCTAAAAGGAAAGCCTTTGTGGTAAACCTCTGTAAAGAAAGCCTTTGTGG
1 CCTTTGTGGTGAACCTCTAAAAGGAAAGCCTTTGTGGCAAACCTCTATAAAGAAAGCCTTTGTGG
44255115 C-AACCTCTG
66 CAAACCTCTG
44255124 ATAAAGGAAG
Statistics
Matches: 205, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
84 8 0.04
85 79 0.39
86 104 0.51
87 14 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (85 bp):
CCTTTGTGGTGAACCTCTAAAAGGAAAGCCTTTGTGGCAAACCTCTATAAAGAAAGCCTTTGTGG
CAAACCTCTGCAAATAAGAT
Found at i:44255128 original size:28 final size:27
Alignment explanation
Indices: 44254788--44255169 Score: 236
Period size: 29 Copynumber: 13.5 Consensus size: 27
44254778 GTTGTTATAA
*
44254788 AAAGCCTTTGTGGCCAACCTCTGTAAAGG
1 AAAGCCTTTGTGG-CAACCTCTG-AAAAG
* * * *
44254817 AAAGCCTTTATGACGAACCTCTAAAAATA
1 AAAGCCTTTGTGGC-AACCTCTGAAAA-G
* *
44254846 AAAGCTTTTGTGGAAATCCTCT-ACAAATG
1 AAAGCCTTTGTGGCAA-CCTCTGA-AAA-G
* * * * *
44254875 AGAGTCTTTATGGTGAACCTCTGAAAGG
1 AAAGCCTTTGTGG-CAACCTCTGAAAAG
*
44254903 AAAGCCTTTGTGGCAGACCT-TTATAAAG
1 AAAGCCTTTGTGGCA-ACCTCTGA-AAAG
* *
44254931 AGAGCCTTTGTGGTAAACCTCTGAAAAG
1 AAAGCCTTTGTGG-CAACCTCTGAAAAG
*
44254959 AAGAGCCTTTGTGGTGAACCTCT-AAAAGG
1 AA-AGCCTTTGTGG-CAACCTCTGAAAA-G
* * *
44254988 AAATCCTTTGTGGCAAACCTCTGGAATG
1 AAAGCCTTTGTGGC-AACCTCTGAAAAG
**
44255016 AAAAGCCTTTGTGGCAAACCTCTGCAAATT
1 -AAAGCCTTTGTGGC-AACCTCTG-AAAAG
* * *
44255046 AGATCCTTTGTGGTGAACCTCT-AAAAGG
1 AAAGCCTTTGTGG-CAACCTCTGAAAA-G
* *
44255074 AAAGCCTTTGTGGTAAACCTCTGTAAAG
1 AAAGCCTTTGTGG-CAACCTCTGAAAAG
44255102 AAAGCCTTTGTGGCAACCTCTGATAAAG
1 AAAGCCTTTGTGGCAACCTCTGA-AAAG
* * *
44255130 GAAGTC-TTGTGGCAATCTCT-AAAATG
1 AAAGCCTTTGTGGCAACCTCTGAAAA-G
*
44255156 AAAAGCCTCTGTGG
1 -AAAGCCTTTGTGG
44255170 TAATTCATGA
Statistics
Matches: 279, Mismatches: 51, Indels: 47
0.74 0.14 0.12
Matches are distributed among these distances:
25 3 0.01
26 2 0.01
27 31 0.11
28 114 0.41
29 123 0.44
30 6 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (27 bp):
AAAGCCTTTGTGGCAACCTCTGAAAAG
Found at i:44257240 original size:26 final size:26
Alignment explanation
Indices: 44257179--44257240 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
44257169 AACTAAACTA
44257179 TTCAAAAGCATTTCTCAAAATCACTT
1 TTCAAAAGCATTTCTCAAAATCACTT
* * *
44257205 TTCCATAGCACTTT-TTAAAAGT-ACTT
1 TTCAAAAGCA-TTTCTCAAAA-TCACTT
44257231 TTCAAAAGCA
1 TTCAAAAGCA
44257241 ATGAAGAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.35
Consensus pattern (26 bp):
TTCAAAAGCATTTCTCAAAATCACTT
Found at i:44257385 original size:68 final size:71
Alignment explanation
Indices: 44257264--44257394 Score: 187
Period size: 68 Copynumber: 1.9 Consensus size: 71
44257254 CCTTAATCAC
* *
44257264 TTTAATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATAAAATTTAATATTAAGA
1 TTTAATATTAAATTAATAAAATATCTATCTA-AAGATAAATATTAAATAAAATTTAATATTAAGA
44257329 TATTCAA
65 TATTCAA
* * *
44257336 TTTAATATTAAATTAATAAAATA-CTAT-T-AAGATAAGTATTAAATTAAATTTATTATTAA
1 TTTAATATTAAATTAATAAAATATCTATCTAAAGATAAATATTAAATAAAATTTAATATTAA
44257395 ACCTATTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 28 0.52
70 1 0.02
71 3 0.06
72 22 0.41
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTTAATATTAAATTAATAAAATATCTATCTAAAGATAAATATTAAATAAAATTTAATATTAAGAT
ATTCAA
Found at i:44257798 original size:9 final size:9
Alignment explanation
Indices: 44257784--44257813 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
44257774 AAAATATCAT
44257784 ATTAATTTA
1 ATTAATTTA
*
44257793 ATTAATTTG
1 ATTAATTTA
44257802 ATTAATTTA
1 ATTAATTTA
44257811 ATT
1 ATT
44257814 TTACCTGGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:44266250 original size:21 final size:21
Alignment explanation
Indices: 44266224--44266264 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44266214 ATCAATTATA
44266224 AAAAAGTATCCACACCTTTTC
1 AAAAAGTATCCACACCTTTTC
* *
44266245 AAAAAGTATCGATACCTTTT
1 AAAAAGTATCCACACCTTTT
44266265 ACCAGTTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAAGTATCCACACCTTTTC
Found at i:44270855 original size:23 final size:23
Alignment explanation
Indices: 44270829--44270873 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
44270819 TCTATTATTT
* *
44270829 TTTATTAATTAAATATTGATAAA
1 TTTATTAACTAAATATTCATAAA
44270852 TTTATTAACTAAATATTCATAA
1 TTTATTAACTAAATATTCATAA
44270874 TGCAAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTATTAACTAAATATTCATAAA
Found at i:44271042 original size:3 final size:3
Alignment explanation
Indices: 44271034--44271058 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44271024 ACTTTCTAAA
44271034 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
44271059 GTGGCATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44271563 original size:11 final size:11
Alignment explanation
Indices: 44271547--44271593 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
44271537 AAAGTACAAG
44271547 TAAAAATTCCA
1 TAAAAATTCCA
44271558 TAAAAATT--A
1 TAAAAATTCCA
44271567 -AAAAATTCCA
1 TAAAAATTCCA
44271577 TAAAAATTCCAA
1 TAAAAATTCC-A
44271589 TAAAA
1 TAAAA
44271594 CCATTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.22
9 1 0.03
10 1 0.03
11 17 0.53
12 6 0.19
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAATTCCA
Found at i:44271570 original size:19 final size:19
Alignment explanation
Indices: 44271548--44271584 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
44271538 AAGTACAAGT
44271548 AAAAATTCCATAAAAATTA
1 AAAAATTCCATAAAAATTA
44271567 AAAAATTCCATAAAAATT
1 AAAAATTCCATAAAAATT
44271585 CCAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATTCCATAAAAATTA
Found at i:44277699 original size:55 final size:55
Alignment explanation
Indices: 44277635--44277745 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
44277625 TTTTACCCGG
* *
44277635 GTGTATATTTGAAATAAGGCCACACGACCGTGTCACAGGCCATGTGCCAAATCGT
1 GTGTATATTTGAAATAAGGCCACACGACCATGTCACAGGCCATGTGCCAAACCGT
* ** ** * * *
44277690 GTGTGTATTTGATGTTGGGTCACACGACCATGTCATAGGCCGTGTGCCAAACCGT
1 GTGTATATTTGAAATAAGGCCACACGACCATGTCACAGGCCATGTGCCAAACCGT
44277745 G
1 G
44277746 CTACTTACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (55 bp):
GTGTATATTTGAAATAAGGCCACACGACCATGTCACAGGCCATGTGCCAAACCGT
Found at i:44278841 original size:39 final size:39
Alignment explanation
Indices: 44278788--44278874 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
44278778 AGGCATCAAA
* * * *
44278788 AATGTGTAACAGAGGCACCGAGGTGCAGACAGAGGCA-C
1 AATGTGCAACAGAGGCACCGAAGTCCAAACAGAGGCACC
44278826 AATGTGCAATCAGAGGCACCGAAGTCCAAACAGAGGCACC
1 AATGTGCAA-CAGAGGCACCGAAGTCCAAACAGAGGCACC
*
44278866 AAAGTGCAA
1 AATGTGCAA
44278875 ACAGGTACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 8 0.19
39 25 0.60
40 9 0.21
ACGTcount: A:0.38, C:0.23, G:0.29, T:0.10
Consensus pattern (39 bp):
AATGTGCAACAGAGGCACCGAAGTCCAAACAGAGGCACC
Found at i:44278875 original size:20 final size:20
Alignment explanation
Indices: 44278795--44278878 Score: 98
Period size: 20 Copynumber: 4.2 Consensus size: 20
44278785 AAAAATGTGT
* *
44278795 AACAGAGGCACCGAGGTGCA
1 AACAGAGGCACCAAAGTGCA
* *
44278815 GACAGAGGCA-CAATGTGCA
1 AACAGAGGCACCAAAGTGCA
* * *
44278834 ATCAGAGGCACCGAAGTCCA
1 AACAGAGGCACCAAAGTGCA
44278854 AACAGAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
44278874 AACAG
1 AACAG
44278879 GTACAAGCGC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 15 0.29
20 37 0.71
ACGTcount: A:0.39, C:0.25, G:0.29, T:0.07
Consensus pattern (20 bp):
AACAGAGGCACCAAAGTGCA
Found at i:44281118 original size:16 final size:17
Alignment explanation
Indices: 44281091--44281125 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
44281081 TAGAATTGGG
*
44281091 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
44281108 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
44281124 TT
1 TT
44281126 TGTTTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:44281151 original size:20 final size:19
Alignment explanation
Indices: 44281113--44281151 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44281103 TTTAATTGAG
*
44281113 AAATTAATTAATTTGTTTA
1 AAATTAATTAATATGTTTA
*
44281132 AAATTAATTTATGATGTTTA
1 AAATTAATTAAT-ATGTTTA
44281152 TTATGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (19 bp):
AAATTAATTAATATGTTTA
Found at i:44293653 original size:26 final size:26
Alignment explanation
Indices: 44293595--44293646 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
44293585 TACCTACAGT
44293595 AGTTTCAAAATATCATAACATATATC
1 AGTTTCAAAATATCATAACATATATC
* *
44293621 AGTTTCACAATATCATAGCATATATC
1 AGTTTCAAAATATCATAACATATATC
44293647 CATTTCAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (26 bp):
AGTTTCAAAATATCATAACATATATC
Found at i:44305785 original size:84 final size:84
Alignment explanation
Indices: 44305629--44305785 Score: 242
Period size: 84 Copynumber: 1.9 Consensus size: 84
44305619 ATACTCTAAC
* * * *
44305629 ACAAATTACATGTCATTAGGGTTACTGATTCTCAATTCGAGAGAGCTTACCAGTATTCAGCTTGC
1 ACAAATAACATGTCATTACGGTTACTGATTCTCAATTCGAGAGAGCTTACCAATATTCAGCTCGC
*
44305694 ATGAGCTTACCGATAGGAT
66 ATAAGCTTACCGATAGGAT
* * *
44305713 ACAAATAACATGTCCTTACGGTTACTGATTCTCAGTTCGAGAGAGCTTACCAATATTCAGCTCGT
1 ACAAATAACATGTCATTACGGTTACTGATTCTCAATTCGAGAGAGCTTACCAATATTCAGCTCGC
44305778 ATAAGCTT
66 ATAAGCTT
44305786 GCCATTTACA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (84 bp):
ACAAATAACATGTCATTACGGTTACTGATTCTCAATTCGAGAGAGCTTACCAATATTCAGCTCGC
ATAAGCTTACCGATAGGAT
Found at i:44306135 original size:50 final size:50
Alignment explanation
Indices: 44306060--44306161 Score: 168
Period size: 50 Copynumber: 2.0 Consensus size: 50
44306050 TGATGTGTAG
* *
44306060 ATTGATTTGTGGTTGAAGGATGAAAGGTAAAATAGTAGTTGAATATGCAT
1 ATTGATTTGTGGTCGAAGGATGAAAGGTAAAATAGTAGTTAAATATGCAT
* *
44306110 ATTGATTTGTGGTCGGAGGATGAAAGGTAAAATAGTAGTTAAATTTGCAT
1 ATTGATTTGTGGTCGAAGGATGAAAGGTAAAATAGTAGTTAAATATGCAT
44306160 AT
1 AT
44306162 GAGGTATGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.34
Consensus pattern (50 bp):
ATTGATTTGTGGTCGAAGGATGAAAGGTAAAATAGTAGTTAAATATGCAT
Found at i:44308348 original size:21 final size:20
Alignment explanation
Indices: 44308315--44308357 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
44308305 AGTGAGATTT
44308315 TATTTTCTAAATATA-AATTC
1 TATTTTCTAAATA-ACAATTC
*
44308335 TATTTTTTAGAATAACAATTC
1 TATTTTCTA-AATAACAATTC
44308356 TA
1 TA
44308358 CCGATTTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTTTCTAAATAACAATTC
Found at i:44310981 original size:14 final size:15
Alignment explanation
Indices: 44310957--44310992 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
44310947 AGAAATTCAT
44310957 GAAAA-AAAGAAAA-
1 GAAAAGAAAGAAAAG
44310970 GAAAAGAAAGAAAAG
1 GAAAAGAAAGAAAAG
44310985 GAAAAGAA
1 GAAAAGAA
44310993 CGATGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
GAAAAGAAAGAAAAG
Found at i:44314182 original size:19 final size:19
Alignment explanation
Indices: 44314128--44314195 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
44314118 AGTTGTTGAT
*
44314128 AAAAGAAAATGAGAGAAAAA
1 AAAAG-AAATGAGAGAAGAA
* * *
44314148 TAAAAGAATTCAAGAGGAGAA
1 -AAAAGAAAT-GAGAGAAGAA
44314169 AAAAGAAATGAGAGAATG-A
1 AAAAGAAATGAGAGAA-GAA
44314188 AAAAGAAA
1 AAAAGAAA
44314196 AAGAAATTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 14 0.37
20 12 0.32
21 12 0.32
ACGTcount: A:0.68, C:0.01, G:0.22, T:0.09
Consensus pattern (19 bp):
AAAAGAAATGAGAGAAGAA
Found at i:44333542 original size:12 final size:13
Alignment explanation
Indices: 44333525--44333557 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
44333515 AAAAATTTAT
44333525 TTTAATTTTTC-A
1 TTTAATTTTTCTA
44333537 TTTAATTTTTCTA
1 TTTAATTTTTCTA
44333550 TTTGAATT
1 TTT-AATT
44333558 GTTTGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTAATTTTTCTA
Found at i:44333970 original size:30 final size:30
Alignment explanation
Indices: 44333936--44334000 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
44333926 CAACTTAACA
*
44333936 AACAAATGCCTCTAAAATAATAACGAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
44333966 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
44333996 AACAA
1 AACAA
44334001 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.05, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:44334913 original size:19 final size:18
Alignment explanation
Indices: 44334891--44334941 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
44334881 TTTTTATACT
44334891 TTTTTAATTTTAAAAATAA
1 TTTTTAATTTTAAAAA-AA
* *
44334910 TTTTT-ATATTGAAAAAA
1 TTTTTAATTTTAAAAAAA
44334927 TTATTTAATTGTTAA
1 TT-TTTAATT-TTAA
44334942 CGTGACATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 7 0.28
20 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (18 bp):
TTTTTAATTTTAAAAAAA
Found at i:44334990 original size:3 final size:3
Alignment explanation
Indices: 44334982--44335017 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
44334972 TAGTTAAGAG
*
44334982 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
44335018 TAAGGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44342795 original size:18 final size:18
Alignment explanation
Indices: 44342768--44342805 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44342758 TGCATCACCA
*
44342768 TTCTTATCTATTATTTCT
1 TTCTTATCTATCATTTCT
*
44342786 TTCTTTTCTATCATTTCT
1 TTCTTATCTATCATTTCT
44342804 TT
1 TT
44342806 TCTTCTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTTATCTATCATTTCT
Found at i:44348954 original size:30 final size:30
Alignment explanation
Indices: 44348897--44348955 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
44348887 GCCTTTTGAA
* *
44348897 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACACCAAATTTTT
44348927 AATATTTACAAAAAGAGTA-ACCAAATTTT
1 AATATTTACAAAAAGAG-ACACCAAATTTT
44348956 GAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACACCAAATTTTT
Found at i:44356319 original size:21 final size:22
Alignment explanation
Indices: 44356295--44356354 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
44356285 ATCAGCACCC
*
44356295 TCAGATGCAACCACAACAA-AG
1 TCAGATGCAACCACAACAAGAA
*
44356316 TCAGATGCATCCAC-ACAAGAA
1 TCAGATGCAACCACAACAAGAA
* *
44356337 TCAGATGTAGCCACAACA
1 TCAGATGCAACCACAACA
44356355 CTCTTCAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 26 0.79
22 3 0.09
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.13
Consensus pattern (22 bp):
TCAGATGCAACCACAACAAGAA
Found at i:44364383 original size:6 final size:6
Alignment explanation
Indices: 44364372--44364402 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
44364362 GTCGAAACCA
44364372 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
44364403 ACATAGATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:44364868 original size:16 final size:17
Alignment explanation
Indices: 44364837--44364870 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44364827 CAATTCAGTC
*
44364837 CAAAATTCACACTTTTA
1 CAAAATTCAAACTTTTA
44364854 CAAAATT-AAACTTTTA
1 CAAAATTCAAACTTTTA
44364870 C
1 C
44364871 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (17 bp):
CAAAATTCAAACTTTTA
Found at i:44373125 original size:3 final size:3
Alignment explanation
Indices: 44373117--44373152 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
44373107 TTTTACTTTC
44373117 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44373153 AAAACATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44378630 original size:27 final size:28
Alignment explanation
Indices: 44378591--44378665 Score: 116
Period size: 27 Copynumber: 2.7 Consensus size: 28
44378581 AACAGTACAG
44378591 TGTGGGCCTTAGCCCAATACAATAACAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
* *
44378619 TGT-GGCCTTAGCCCAATACAGTAATAA
1 TGTGGGCCTTAGCCCAATACAATAACAA
*
44378646 TGTGGGCCTTAACCCAATAC
1 TGTGGGCCTTAGCCCAATAC
44378666 GATATTGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAATAACAA
Found at i:44378935 original size:27 final size:26
Alignment explanation
Indices: 44378888--44379089 Score: 215
Period size: 27 Copynumber: 7.5 Consensus size: 26
44378878 AACAGTCATT
* *
44378888 ATTTTACCCCACAGGGGTAATTTGGTC
1 ATTTTACCCTAC-GGGGTAATTCGGTC
*
44378915 ATTTTACCCTACGGGGCTAATTTGGTC
1 ATTTTACCCTACGGGG-TAATTCGGTC
** **
44378942 ATTTTACCCTATAAGGGTAATTCAATC
1 ATTTTACCCTA-CGGGGTAATTCGGTC
** *
44378969 ATTTTACCCTACGACAGTAATTCAGTC
1 ATTTTACCCTACG-GGGTAATTCGGTC
* *
44378996 ATTTTTCCCTACAGGGGTAATTCGATC
1 ATTTTACCCTAC-GGGGTAATTCGGTC
* *
44379023 ATTTTACCTTATAGGGGTAATTCGGTC
1 ATTTTACCCTA-CGGGGTAATTCGGTC
44379050 ATTTTACCCTACGGGGATAATTCGGTC
1 ATTTTACCCTACGGGG-TAATTCGGTC
44379077 ATTTTACCCTACG
1 ATTTTACCCTACG
44379090 AAAGGTCTGC
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
26 8 0.05
27 135 0.92
28 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (26 bp):
ATTTTACCCTACGGGGTAATTCGGTC
Found at i:44382083 original size:113 final size:113
Alignment explanation
Indices: 44381711--44382325 Score: 544
Period size: 114 Copynumber: 5.4 Consensus size: 113
44381701 TACCTAAACA
* * * * *
44381711 CAACGACGCCATTTTTTGAGCTTTTCGGGGATTTAGCGGCGTTTTAAGGAAAGCGCCGCTAATGC
1 CAACGACGCCGTTTTCTGAGC-TTTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGC
* * * *
44381776 TCTGGGCTTTTGCGGCGTTTTCGAGAAAGCTCCACAAAAAAACTAAAGCC
65 TC-AGGCTTTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCC
* * * ** *
44381826 CAACGATGCTGTTTTCTGAGCTTTCGGGGATTTAGTGGCATTTTTTCGTAAACGCCGCTAATGCT
1 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCT
* * * *
44381891 CAGGGCTTTAGCGGCGTTTTCGGGAAAGTGCCGA-AAAAATACCTAAGCC
66 CA-GGCTTTAGCGGCGTTTTCGAGAAAGCGCC-ACAAAAAAACCAAAGCC
* *
44381940 CAACAACGCCGTTTTCTGAGCATTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCT
1 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCT
* * *
44382005 CAGGCTTTAGCAGCACTATT-GAGAAAGCGCCACAAAAAAACCAAAGCC
66 CAGGCTTTAGCGGC-GTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCC
* * * * * *
44382053 CAACGACGCTGTTTTTTGAGCTTTCAGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGTT
1 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCT
* ** * * *
44382118 CTGGCCTTTAGCGGTATTTTTGAGAAAGCGCCGCAACAAAAA-CTAAGCC
66 CAGG-CTTTAGCGGCGTTTTCGAGAAAGCGCCACAA-AAAAACCAAAGCC
* * * * * * * *
44382167 AAACTACACCATTTTCTGA-CAATTCGTGGACTTTAGCGGCG-TTTTAAG-AATGCGCCGCTAAT
1 CAACGACGCCGTTTTCTGAGC-TTTCGGGGA-TTTAGTGGCGTTTTTAGGTAA-GCGCCGCTAAT
* * * * * * *
44382229 GCTTAGGGCTTTAGCGGTGTTTTTGTTG-AAGCGTCGC-AAAAAACCTAAGCC
63 GCTCA-GGCTTTAGCGGCGTTTTCG-AGAAAGCGCCACAAAAAAACCAAAGCC
* * * ** * *
44382280 CAACGACGTCGTTTTCTAAACTTTTAGGGCTTTAGCGGCGTTTTTA
1 CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTA
44382326 AAAAGTGCCG
Statistics
Matches: 408, Mismatches: 77, Indels: 32
0.79 0.15 0.06
Matches are distributed among these distances:
112 16 0.04
113 129 0.32
114 229 0.56
115 34 0.08
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (113 bp):
CAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAGGTAAGCGCCGCTAATGCT
CAGGCTTTAGCGGCGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCC
Found at i:44382130 original size:227 final size:229
Alignment explanation
Indices: 44381696--44382243 Score: 635
Period size: 227 Copynumber: 2.4 Consensus size: 229
44381686 TAAAGCACCG
* * * * ** *
44381696 CAAAATACCTAAACACAACGACGCCATTTTTTGAGCTTTTCGGGGATTTAGCGGCGTTTTAAGGA
1 CAAAATACCTAAGCCCAACAACGCCATTTTCTGAGCAATTCGGGGATTTAGCGGCGTTTTTAGG-
* * * * * * *
44381761 AAGCGCCGCTAATGCTCTGGGCTTTTGCGGCGTTTTCGAGAAAGCTCCACAAAAAAACTAAAGCC
65 AAGCGCCGCTAATGCTC-AGGCTTTAGCAGCCTATTCGAGAAAGCGCCACAAAAAAACCAAAGCC
* * **
44381826 CAACGATGCTGTTTTCTGAGCTTTCGGGGATTTAGTGGCATTTTTTCGTAAACGCCGCTAATGCT
129 CAACGACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATGCT
* * * *
44381891 CAGGGCTTTAGCGGCGTTTTCGGGAAAGTGCCG-AA
194 CAGGCCTTTAGCGGCATTTTCGAGAAAGCGCCGCAA
* *
44381926 -AAAATACCTAAGCCCAACAACGCCGTTTTCTGAGC-ATTCGGGGATTTAGTGGCGTTTTTAGGT
1 CAAAATACCTAAGCCCAACAACGCCATTTTCTGAGCAATTCGGGGATTTAGCGGCGTTTTTAGG-
44381989 AAGCGCCGCTAATGCTCAGGCTTTAGCAGCACTATT-GAGAAAGCGCCACAAAAAAACCAAAGCC
65 AAGCGCCGCTAATGCTCAGGCTTTAGCAGC-CTATTCGAGAAAGCGCCACAAAAAAACCAAAGCC
* ** * *
44382053 CAACGACGCTGTTTTTTGAGCTTTCAGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGTT
129 CAACGACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATGCT
* * *
44382118 CTGGCCTTTAGCGGTATTTTTGAGAAAGCGCCGCAA
194 CAGGCCTTTAGCGGCATTTTCGAGAAAGCGCCGCAA
* * * * *
44382154 CAAAA-A-CTAAGCCAAACTACACCATTTTCTGA-CAATTCGTGGACTTTAGCGGCG-TTTTAAG
1 CAAAATACCTAAGCCCAACAACGCCATTTTCTGAGCAATTCGGGGA-TTTAGCGGCGTTTTTAGG
*
44382215 AATGCGCCGCTAATGCTTAGGGCTTTAGC
65 AA-GCGCCGCTAATGCTCA-GGCTTTAGC
44382244 GGTGTTTTTG
Statistics
Matches: 271, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
226 3 0.01
227 169 0.62
228 65 0.24
229 34 0.13
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (229 bp):
CAAAATACCTAAGCCCAACAACGCCATTTTCTGAGCAATTCGGGGATTTAGCGGCGTTTTTAGGA
AGCGCCGCTAATGCTCAGGCTTTAGCAGCCTATTCGAGAAAGCGCCACAAAAAAACCAAAGCCCA
ACGACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATGCTCA
GGCCTTTAGCGGCATTTTCGAGAAAGCGCCGCAA
Found at i:44382272 original size:227 final size:226
Alignment explanation
Indices: 44381697--44382326 Score: 632
Period size: 227 Copynumber: 2.8 Consensus size: 226
44381687 AAAGCACCGC
* * * * *
44381697 AAAATACCTAA-ACACAACGACGCCATTTTTTGAGCTTTTCGGGGATTTAGCGGCGTTTTAAGGA
1 AAAATACCTAAGCCA-AACAACACCATTTTCTGAGC-ATTCGGGGATTTAGCGGCGTTTTAA-G-
* * *
44381761 AAGCGCCGCTAATGCTCT-GGGCTTTTGCGGCGTTTTCGAGAAAGC-TCCACAAAAAAACTAAAG
62 AAGCGCCGCTAATGCT-TAGGGCTTTAGCGGCGTTTTTGAGAAAGCGT-CACAAAAAAACCAAAG
* * **
44381824 CCCAACGATGCTGTTTTCTGAGCTTTCGGGGATTTAGTGGCATTTTTTCGTAAACGCCGCTAATG
125 CCCAACGACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATG
* * * *
44381889 CTCAGGGCTTTAGCGGCGTTTTCGGGAAAGTGCCGAA
190 CTCAGGCCTTTAGCGGCATTTTCGAGAAAGCGCCGAA
* * * * *
44381926 AAAATACCTAAGCCCAACAACGCCGTTTTCTGAGCATTCGGGGATTTAGTGGCGTTTTTAGGTAA
1 AAAATACCTAAGCCAAACAACACCATTTTCTGAGCATTCGGGGATTTAGCGGCG-TTTTAAG-AA
* * ** * *
44381991 GCGCCGCTAATGCTCA-GGCTTTAGCAGCACTATTGAGAAAGCGCCACAAAAAAACCAAAGCCCA
64 GCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAGAAAGCGTCACAAAAAAACCAAAGCCCA
* ** * * *
44382055 ACGACGCTGTTTTTTGAGCTTTCAGGGATTTAGTGGTGTTTTTAAGTAAGCGCCGCTAATGTTCT
129 ACGACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATGCTCA
* *
44382120 GGCCTTTAGCGGTATTTTTGAGAAAGCGCCGCAA
194 GGCCTTTAGCGGCATTTTCGAGAAAGCGCCG-AA
* *
44382154 CAAAA-A-CTAAGCCAAACTACACCATTTTCTGA-CAATTCGTGGACTTTAGCGGCGTTTTAAGA
1 -AAAATACCTAAGCCAAACAACACCATTTTCTGAGC-ATTCGGGGA-TTTAGCGGCGTTTTAAGA
* * * *
44382216 ATGCGCCGCTAATGCTTAGGGCTTTAGCGGTGTTTTTGTTG-AAGCGTCGC-AAAAAACCTAAGC
63 A-GCGCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTG-AGAAAGCGTCACAAAAAAACCAAAGC
* * * * * *
44382279 CCAACGACG-TCGTTTTCTAAACTTTTAGGGCTTTAGCGGCGTTTTTAA
126 CCAACGACGCT-GTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAA
44382327 AAAGTGCCGC
Statistics
Matches: 331, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
226 4 0.01
227 221 0.67
228 67 0.20
229 38 0.11
230 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (226 bp):
AAAATACCTAAGCCAAACAACACCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTAAGAAGC
GCCGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGAGAAAGCGTCACAAAAAAACCAAAGCCCAAC
GACGCTGTTTTCTGAGCTTTCAGGGATTTAGTGGCATTTTTAAGTAAACGCCGCTAATGCTCAGG
CCTTTAGCGGCATTTTCGAGAAAGCGCCGAA
Found at i:44382731 original size:14 final size:15
Alignment explanation
Indices: 44382699--44382748 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
44382689 TGAATTTTGG
44382699 TTTAAGGGTT-GTA-A
1 TTTAAGGGTTAG-AGA
44382713 TTTAAGGGTTAGAGA
1 TTTAAGGGTTAGAGA
* *
44382728 -TTAAGAGTTAGGGA
1 TTTAAGGGTTAGAGA
44382742 TTTAAGG
1 TTTAAGG
44382749 TTTATGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 23 0.77
15 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (15 bp):
TTTAAGGGTTAGAGA
Found at i:44382858 original size:81 final size:81
Alignment explanation
Indices: 44382767--44382923 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
44382757 TTCGGTGTCA
* *
44382767 GGTTAGGATTTAGGGTTTAGATTAATTAGTGTGTTTTAATTT-T-TATGAAATAAGGTTTAAGGG
1 GGTTAGGATTTAGGGTTTAGATTAATTAATAT-TTTTAATTTGTATATGAAATAAGGTTT-AGGG
*
44382830 TTAGGGGTTAGGGATTTG
64 TTAGGAGTTAGGGATTTG
* *
44382848 GGTTAGGATTTAGGGTTTTGATTAATTAATATTTTTAATTTGTATATTAAATAAGGTTTAGGGTT
1 GGTTAGGATTTAGGGTTTAGATTAATTAATATTTTTAATTTGTATATGAAATAAGGTTTAGGGTT
*
44382913 AGTAGTTAGGG
66 AGGAGTTAGGG
44382924 GTTAGTGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 9 0.13
81 45 0.66
82 14 0.21
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (81 bp):
GGTTAGGATTTAGGGTTTAGATTAATTAATATTTTTAATTTGTATATGAAATAAGGTTTAGGGTT
AGGAGTTAGGGATTTG
Found at i:44382860 original size:20 final size:20
Alignment explanation
Indices: 44382827--44382867 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44382817 TAAGGTTTAA
*
44382827 GGGTTAGGGGTTAGGGATTT
1 GGGTTAGGAGTTAGGGATTT
* *
44382847 GGGTTAGGATTTAGGGTTTT
1 GGGTTAGGAGTTAGGGATTT
44382867 G
1 G
44382868 ATTAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (20 bp):
GGGTTAGGAGTTAGGGATTT
Found at i:44382947 original size:14 final size:14
Alignment explanation
Indices: 44382902--44382941 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44382892 TATTAAATAA
*
44382902 GGTTTAGGGTTAGT
1 GGTTTGGGGTTAGT
* *
44382916 AGTTAGGGGTTAGT
1 GGTTTGGGGTTAGT
44382930 GGTTTGGGGTTA
1 GGTTTGGGGTTA
44382942 AGGGTTAGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.40
Consensus pattern (14 bp):
GGTTTGGGGTTAGT
Found at i:44383331 original size:20 final size:20
Alignment explanation
Indices: 44383298--44383353 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
44383288 ATATTACGGT
*
44383298 TTGGGATTTAGGGTTTAGG-G
1 TTGGGGTTTAGGGTTT-GGTG
* *
44383318 TTGGGGTTTGGGGTTTGGTT
1 TTGGGGTTTAGGGTTTGGTG
*
44383338 TTGGGGTTTAAGGTTT
1 TTGGGGTTTAGGGTTT
44383354 AGAATTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.09, C:0.00, G:0.45, T:0.46
Consensus pattern (20 bp):
TTGGGGTTTAGGGTTTGGTG
Found at i:44385441 original size:15 final size:15
Alignment explanation
Indices: 44385417--44385448 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44385407 AGTGTTGAAG
*
44385417 TATTTGGTACTAATT
1 TATTTAGTACTAATT
44385432 TATTTAGTACTAATT
1 TATTTAGTACTAATT
44385447 TA
1 TA
44385449 CTATTATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (15 bp):
TATTTAGTACTAATT
Found at i:44386429 original size:13 final size:13
Alignment explanation
Indices: 44386413--44386630 Score: 145
Period size: 13 Copynumber: 16.5 Consensus size: 13
44386403 TTACTAAAAT
*
44386413 TTACTTTAATATA
1 TTACTTAAATATA
*
44386426 TTACTTGAATATA
1 TTACTTAAATATA
*
44386439 TTACTTAAATAAA
1 TTACTTAAATATA
* *
44386452 TTACTTAAACACA
1 TTACTTAAATATA
*
44386465 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** * *
44386479 TTGGTTAAATTTC
1 TTACTTAAATATA
*
44386492 TTACTTAAATATG
1 TTACTTAAATATA
*
44386505 TTACTTAAATACA
1 TTACTTAAATATA
*
44386518 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
44386532 TTGTTTAAATTTA
1 TTACTTAAATATA
*
44386545 TTACTTAAATATG
1 TTACTTAAATATA
*
44386558 TTACTTAAATACA
1 TTACTTAAATATA
*
44386571 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
44386585 TTGGTTAAATTTA
1 TTACTTAAATATA
*
44386598 TTACTTAAATATG
1 TTACTTAAATATA
*
44386611 TTACTTAAATACA
1 TTACTTAAATATA
44386624 TTACTTA
1 TTACTTA
44386631 CTAAAATTTA
Statistics
Matches: 155, Mismatches: 41, Indels: 18
0.72 0.19 0.08
Matches are distributed among these distances:
12 9 0.06
13 122 0.79
14 15 0.10
15 9 0.06
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:44386497 original size:53 final size:53
Alignment explanation
Indices: 44386437--44386639 Score: 361
Period size: 53 Copynumber: 3.8 Consensus size: 53
44386427 TACTTGAATA
** *
44386437 TATTACTTAAATAAATTACTTAAACACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
* *
44386490 TCTTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
44386543 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
44386596 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
44386640 AAGTATATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 143 1.00
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:44386928 original size:28 final size:28
Alignment explanation
Indices: 44386897--44387041 Score: 114
Period size: 28 Copynumber: 5.0 Consensus size: 28
44386887 AATTTTTTTT
*
44386897 ATATAAACTTACATAATACATTACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* * **
44386925 ATATTAACTTACATAACTTA-TTAA-TATTT
1 ATATAAACTTACATAA--TACATAACT-TAC
*
44386954 ATATAAACTTACATAACTATCACATAAACTTAT
1 ATATAAACTTACAT-A--AT-ACAT-AACTTAC
* *
44386987 ATGTAAACTTACACAATACATAACTTAC
1 ATATAAACTTACATAATACATAACTTAC
* *
44387015 ATGTTAACTTACATAATACATAACTTA
1 ATATAAACTTACATAATACATAACTTA
44387042 TAAAAAAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
28 47 0.50
29 20 0.21
30 6 0.06
31 1 0.01
32 3 0.03
33 16 0.17
34 1 0.01
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (28 bp):
ATATAAACTTACATAATACATAACTTAC
Found at i:44386940 original size:158 final size:157
Alignment explanation
Indices: 44386772--44387172 Score: 705
Period size: 157 Copynumber: 2.5 Consensus size: 157
44386762 TATGTACAAG
44386772 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
* ****
44386837 TTACATAATACATAACTTATATGTAAACTTACATATAATACATAGCTTAT-AATTTTTTTTATAT
66 TTACATAATACATAACTTATATGTAAACTTAC--ATAATACATAACTTATAAAAAAATTTTATAT
44386901 AAACTTACATAATACATTACTTACATATT
129 AAACTTACATAATACATTACTTACATATT
44386930 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
* * *
44386995 TTACACAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAAAAAATTTTATATAA
66 TTACATAATACATAACTTATATGTAAACTTACATAATACATAACTTATAAAAAAATTTTATATAA
44387060 ACTTACATAATACATTACTTACATATT
131 ACTTACATAATACATTACTTACATATT
44387087 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
1 AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
44387152 TTACATAATACATAACTTATA
66 TTACATAATACATAACTTATA
44387173 AAATTTTTTT
Statistics
Matches: 232, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
156 15 0.06
157 123 0.53
158 94 0.41
ACGTcount: A:0.45, C:0.15, G:0.01, T:0.38
Consensus pattern (157 bp):
AACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTAAAC
TTACATAATACATAACTTATATGTAAACTTACATAATACATAACTTATAAAAAAATTTTATATAA
ACTTACATAATACATTACTTACATATT
Found at i:44387040 original size:16 final size:16
Alignment explanation
Indices: 44386992--44387041 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
44386982 CTTATATGTA
*
44386992 AACTTACACAATACAT
1 AACTTACATAATACAT
*
44387008 AACTTACAT-GT---T
1 AACTTACATAATACAT
44387020 AACTTACATAATACAT
1 AACTTACATAATACAT
44387036 AACTTA
1 AACTTA
44387042 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 10 0.37
13 1 0.04
15 1 0.04
16 15 0.56
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:44387063 original size:129 final size:128
Alignment explanation
Indices: 44386925--44387226 Score: 330
Period size: 129 Copynumber: 2.4 Consensus size: 128
44386915 CATTACTTAC
* * **
44386925 ATATTAACTTACATAACT-TATTAATATTTATATAAACTTACATAACTATCACATAA-ACTTATA
1 ATATAAACTTACATAACTACATTAAT-TACATATAAACTTACATAACT-T-A-ATAATA-TT-TA
* *
44386988 TGTAAACTTAC-ACAAT-ACAT-AACTTACATGTTAACTTACATAATACATAACTTATAAAAAAA
60 TATAAACTTACAACAATCACATAAACTTACATGTAAACTTACATAATACATAACTTATAAAAAAA
44387050 TTTT
125 TTTT
* * *
44387054 ATATAAACTTACATAA-TACATTACTTACATATTAACTTACATAACTTATTAATATTTATATAAA
1 ATATAAACTTACATAACTACATTAATTACATATAAACTTACATAACTTAATAATATTTATATAAA
* * ***
44387118 CTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTATAAAATTTTTTT
66 CTTAC--AACAATCACATAAACTTACATGTAAACTTACATAATACATAACTTATAAAAAAATTTT
* * *
44387183 ACATAAACTTACATAAC-ACATTACTTACATATTAACTTACATAA
1 ATATAAACTTACATAACTACATTAATTACATATAAACTTACATAA
44387227 GTTATCTACA
Statistics
Matches: 150, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
124 12 0.08
125 5 0.03
126 2 0.01
127 5 0.03
128 23 0.15
129 103 0.69
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (128 bp):
ATATAAACTTACATAACTACATTAATTACATATAAACTTACATAACTTAATAATATTTATATAAA
CTTACAACAATCACATAAACTTACATGTAAACTTACATAATACATAACTTATAAAAAAATTTT
Found at i:44387074 original size:67 final size:67
Alignment explanation
Indices: 44386990--44387226 Score: 242
Period size: 67 Copynumber: 3.6 Consensus size: 67
44386980 AACTTATATG
* * *
44386990 TAAACTTACACAATACATAACTTACATGTTAACTTACATAATACATAACTTATAAAAAAATTTTA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAAAATATTTTA
44387055 TA
66 TA
* *
44387057 TAAACTTACATAATACATTACTTACATATT-A---AC-T--TACATAACTTAT--TAATA-TTTA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAAAATATTTTA
44387112 TA
66 TA
* * * * *
44387114 TAAACTTACATAACTATCACATAAACTTATATGTAAACTTACATAATACATAACTTATAAAATTT
1 TAAACTTACAT-A--AT-ACAT-AACTTACATATTAACTTACATAATACATAACTTATAAAAATA
*
44387179 TTTTACA
61 TTTTATA
* *
44387186 TAAACTTACATAACACATTACTTACATATTAACTTACATAA
1 TAAACTTACATAATACATAACTTACATATTAACTTACATAA
44387227 GTTATCTACA
Statistics
Matches: 137, Mismatches: 18, Indels: 30
0.74 0.10 0.16
Matches are distributed among these distances:
57 17 0.12
58 4 0.03
60 14 0.10
61 4 0.03
62 9 0.07
63 3 0.02
66 3 0.02
67 47 0.34
68 4 0.03
69 13 0.09
71 3 0.02
72 16 0.12
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.37
Consensus pattern (67 bp):
TAAACTTACATAATACATAACTTACATATTAACTTACATAATACATAACTTATAAAAATATTTTA
TA
Found at i:44387164 original size:29 final size:28
Alignment explanation
Indices: 44387053--44387172 Score: 100
Period size: 28 Copynumber: 4.1 Consensus size: 28
44387043 AAAAAAATTT
*
44387053 TATATAAACTTACATAATACATTACTTA
1 TATATAAACTTACATAATACATAACTTA
* * * *
44387081 CATATTAACTTACATAACTTA-TTAA-TATT
1 TATATAAACTTACATAA--TACATAACT-TA
44387110 TATATAAACTTACATAACTATCACATAAACTTA
1 TATATAAACTTACAT-A--AT-ACAT-AACTTA
*
44387143 TATGTAAACTTACATAATACATAACTTA
1 TATATAAACTTACATAATACATAACTTA
44387171 TA
1 TA
44387173 AAATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
28 24 0.33
29 20 0.28
30 6 0.08
31 1 0.01
32 3 0.04
33 17 0.24
34 1 0.01
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (28 bp):
TATATAAACTTACATAATACATAACTTA
Found at i:44387282 original size:129 final size:129
Alignment explanation
Indices: 44387020--44387294 Score: 355
Period size: 129 Copynumber: 2.1 Consensus size: 129
44387010 CTTACATGTT
* *
44387020 AACTTACATAATACATAACTTATAAAAAAATTTTATATAAACTTACATAATACATTACTTACATA
1 AACTTACATAATACATAACTTATAAAAAAATTTTACATAAACTTACATAACACATTACTTACATA
* * *
44387085 TTAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTTATATGTA
66 TTAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAA
***
44387149 AACTTACATAATACATAACTTATAAAATTTTTTTACATAAACTTACATAACACATTACTTACATA
1 AACTTACATAATACATAACTTATAAAAAAATTTTACATAAACTTACATAACACATTACTTACATA
* * *
44387214 TTAACTTACATAAGTTATCTACA-AGCTTATATATAAACTTCCATAACT-T-ACGT-AA-TAACA
66 TTAACTTACATAACTTAT-TA-ATA--TT-TATATAAACTTACATAACTATCACATAAACTAACA
44387274 T-AA
126 TGAA
44387277 CAACTTACATAATACATA
1 -AACTTACATAATACATA
44387295 GCATACATAA
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
128 1 0.01
129 98 0.76
130 5 0.04
131 4 0.03
132 3 0.02
133 18 0.14
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (129 bp):
AACTTACATAATACATAACTTATAAAAAAATTTTACATAAACTTACATAACACATTACTTACATA
TTAACTTACATAACTTATTAATATTTATATAAACTTACATAACTATCACATAAACTAACATGAA
Found at i:44387312 original size:9 final size:9
Alignment explanation
Indices: 44387278--44387533 Score: 195
Period size: 9 Copynumber: 29.8 Consensus size: 9
44387268 ATAACATAAC
44387278 AACTTACAT
1 AACTTACAT
44387287 AA--TACAT
1 AACTTACAT
* *
44387294 AGCATACAT
1 AACTTACAT
*
44387303 AACTTGCAT
1 AACTTACAT
*
44387312 AA--TACAA
1 AACTTACAT
44387319 AACTTACAT
1 AACTTACAT
44387328 AACTTACAT
1 AACTTACAT
*
44387337 AA--TACAA
1 AACTTACAT
44387344 AACTTACAT
1 AACTTACAT
44387353 AACTTACAT
1 AACTTACAT
*
44387362 AACCTACAT
1 AACTTACAT
44387371 AA--TACATTT
1 AACTTACA--T
44387380 AACTTACAT
1 AACTTACAT
44387389 AACTTACAT
1 AACTTACAT
*
44387398 AATACATA-AT
1 -A-ACTTACAT
44387408 AACTTAC--
1 AACTTACAT
*
44387415 AACTTAAAT
1 AACTTACAT
*
44387424 AACATACAT
1 AACTTACAT
* **
44387433 TACTTTGAT
1 AACTTACAT
44387442 AACTTACAT
1 AACTTACAT
44387451 AACTTACAT
1 AACTTACAT
*
44387460 AA--TACAC
1 AACTTACAT
44387467 AACTTACAT
1 AACTTACAT
* *
44387476 AGCTTACTT
1 AACTTACAT
44387485 AA--TACAT
1 AACTTACAT
44387492 AACTTACAT
1 AACTTACAT
44387501 AACTT--AT
1 AACTTACAT
*
44387508 ACACATACAT
1 A-ACTTACAT
44387518 AACTTACAT
1 AACTTACAT
*
44387527 AATTTAC
1 AACTTAC
44387534 TTAATAAATA
Statistics
Matches: 194, Mismatches: 31, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
7 42 0.22
8 7 0.04
9 131 0.68
10 6 0.03
11 8 0.04
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:44387312 original size:25 final size:25
Alignment explanation
Indices: 44387278--44387363 Score: 136
Period size: 25 Copynumber: 3.4 Consensus size: 25
44387268 ATAACATAAC
* * *
44387278 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACAAAACTTACAT
*
44387303 AACTTGCATAATACAAAACTTACAT
1 AACTTACATAATACAAAACTTACAT
44387328 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACAAAACTTACAT
44387353 AACTTACATAA
1 AACTTACATAA
44387364 CCTACATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.50, C:0.20, G:0.02, T:0.28
Consensus pattern (25 bp):
AACTTACATAATACAAAACTTACAT
Found at i:44387316 original size:16 final size:16
Alignment explanation
Indices: 44387297--44387390 Score: 58
Period size: 16 Copynumber: 6.1 Consensus size: 16
44387287 AATACATAGC
* *
44387297 ATACATAACTTGCATA
1 ATACAAAACTTACATA
44387313 ATACAAAACTTACAT-
1 ATACAAAACTTACATA
44387328 A-AC-----TTACATA
1 ATACAAAACTTACATA
44387338 ATACAAAACTTACATA
1 ATACAAAACTTACATA
* *
44387354 ACTTACATAACCTACATA
1 A--TACAAAACTTACATA
*
44387372 ATACATTTAACTTACATA
1 ATACA--AAACTTACATA
44387390 A
1 A
44387391 CTTACATAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
9 6 0.10
10 1 0.02
11 2 0.03
14 2 0.03
15 1 0.02
16 25 0.40
18 25 0.40
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (16 bp):
ATACAAAACTTACATA
Found at i:44387357 original size:34 final size:34
Alignment explanation
Indices: 44387249--44387533 Score: 176
Period size: 34 Copynumber: 8.2 Consensus size: 34
44387239 CTTATATATA
* *
44387249 AACTTCCATAACTTACGTAATAACATAACAACTTACAT
1 AACTTACATAACTTACATAAT-ACAT---AACTTACAT
* * * *
44387287 AA--TACATAGCATACATAACTTGCATAA--TACAA
1 AACTTACATAACTTACATAA--TACATAACTTACAT
*
44387319 AACTTACATAACTTACATAATACAAAACTTACAT
1 AACTTACATAACTTACATAATACATAACTTACAT
*
44387353 AACTTACATAACCTACATAATACATTTAACTTACAT
1 AACTTACATAACTTACATAATACA--TAACTTACAT
* *
44387389 AACTTACATAA--TACATAATAACTTACAACTTAAAT
1 AACTTACATAACTTACATAAT-AC--ATAACTTACAT
* * **
44387424 AACATACATTACTTTGATAACTTACATAACTTACAT
1 AACTTACATAACTTACATAA--TACATAACTTACAT
* * *
44387460 AA--TACACAACTTACATAGCTTACTTAA--TACAT
1 AACTTACATAACTTACATA--ATACATAACTTACAT
* *
44387492 AACTTACATAACTTATACACATACATAACTTACAT
1 AACTTACATAACTTACATA-ATACATAACTTACAT
*
44387527 AATTTAC
1 AACTTAC
44387534 TTAATAAATA
Statistics
Matches: 193, Mismatches: 33, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
32 18 0.09
33 7 0.04
34 80 0.41
35 30 0.16
36 43 0.22
37 9 0.05
38 5 0.03
39 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (34 bp):
AACTTACATAACTTACATAATACATAACTTACAT
Found at i:44387376 original size:25 final size:23
Alignment explanation
Indices: 44387255--44387544 Score: 123
Period size: 25 Copynumber: 11.9 Consensus size: 23
44387245 TATAAACTTC
*
44387255 CATAACTTACGTAATAACAT-A-A
1 CATAACTTACATAAT-ACATAATA
44387277 C--AACTTACATAATACATAGCATA
1 CATAACTTACATAATACATA--ATA
* *
44387300 CATAACTTGCATAATACAAAACTTA
1 CATAACTTACATAATACATAA--TA
*
44387325 CATAACTTACATAATACAAAACTTA
1 CATAACTTACATAATACATAA--TA
44387350 CATAACTTACATAACCTACATAATA
1 CATAACTTACATAA--TACATAATA
44387375 CATTTAACTTACATAACTTACATAATA
1 CA--TAACTTACATAA--TACATAATA
* * *
44387402 CATAA-TAACTTACA-ACTTAAATAA
1 CATAACTTACATA-ATACAT-AAT-A
**
44387426 CAT-ACATTAC-T--TTGATAACTTA
1 CATAAC-TTACATAATACATAA--TA
*
44387448 CATAACTTACATAATACACAACTTA
1 CATAACTTACATAATACATAA--TA
* *
44387473 CATAGCTTACTTAATACATAACTTA
1 CATAACTTACATAATACATAA--TA
* *
44387498 CATAACTTATACACATACATAACTTA
1 CATAACTTACATA-ATACATAA--TA
* * *
44387524 CATAATTTACTTAATAAATAA
1 CATAACTTACATAATACATAA
44387545 ATATATATCA
Statistics
Matches: 215, Mismatches: 28, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
19 4 0.02
20 11 0.05
21 2 0.01
22 14 0.07
23 11 0.05
24 10 0.05
25 112 0.52
26 21 0.10
27 30 0.14
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (23 bp):
CATAACTTACATAATACATAATA
Found at i:44387546 original size:123 final size:120
Alignment explanation
Indices: 44387319--44387547 Score: 277
Period size: 123 Copynumber: 1.9 Consensus size: 120
44387309 CATAATACAA
44387319 AACTTACATAACTTACATAATACAAAACTTACATAACTTACATAACCTACATAATACATTTAACT
1 AACTTACATAACTTACATAATACAAAACTTACATAACTTACATAA-CTACATAATACA-TTAACT
* **
44387384 TACATAACTTACATAATACATAATAACTTACAACTTAAATAACATACATTACTTTGAT
64 TA-ATAACATACATAATACATAATAACTTACAAAATAAATAACATACATTACTTTGAT
* * *
44387442 AACTTACATAACTTACATAATACACAACTTACATAGCTTACTTAA-TACATAACTTACA-TAACT
1 AACTTACATAACTTACATAATACAAAACTTACATAACTTACATAACTACATAA--TACATTAACT
*
44387505 T-ATACACATACATAACTTACATAATTTACTTA-ATAAATAAATA
64 TAATA-ACATACATAA--TACATAA-TAACTTACA-AAATAAATA
44387548 TATATCATGT
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
119 3 0.03
120 9 0.10
121 13 0.14
122 8 0.09
123 59 0.64
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (120 bp):
AACTTACATAACTTACATAATACAAAACTTACATAACTTACATAACTACATAATACATTAACTTA
ATAACATACATAATACATAATAACTTACAAAATAAATAACATACATTACTTTGAT
Found at i:44393651 original size:42 final size:41
Alignment explanation
Indices: 44393555--44393848 Score: 385
Period size: 42 Copynumber: 7.0 Consensus size: 41
44393545 TTCGCGATGA
* *
44393555 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--T
*
44393598 AAGCGCCGCTAAAGAACATTATCTTTAGCGGCGTTTTTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTT
* *
44393640 AAGCGCAGCTAAAGAACATTATCTTTAGCGGC-TATTTTTTGT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTT-T
*
44393682 AACCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG--TTTTTTTT
* * *
44393725 AAGTGTCGCTAAAGAACATGTTCTTTAGCAGG-GTTTTTTGTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGC-GGCGTTTTTT-TT
44393767 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTT
* *
44393809 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
44393849 CTGTAAACGC
Statistics
Matches: 225, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
41 17 0.08
42 129 0.57
43 68 0.30
44 10 0.04
45 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTT
Found at i:44393671 original size:85 final size:83
Alignment explanation
Indices: 44393555--44393848 Score: 396
Period size: 85 Copynumber: 3.5 Consensus size: 83
44393545 TTCGCGATGA
* * *
44393555 AAGCGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACATTAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT--TAAGCGCCGCTAAAGAACATGAT
44393620 CTTTAGCGGCGT-TTTTCTTT
64 CTTTAGCGGCGTCTTTT-TTT
* * *
44393640 AAGCGCAGCTAAAGAACATTATCTTTAGCGGC-TATTTTTTGTAACCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTT-TAAGCGCCGCTAAAGAACATGAT
44393704 CTTTAGCGGCGTCTTTTTTTT
64 CTTTAGCGGCGTC-TTTTTTT
* * *
44393725 AAGTGTCGCTAAAGAACATGTTCTTTAGCAGG-GTTTTTTGTTAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGC-GGCGTTTTTT-TTAAGCGCCGCTAAAGAACATGAT
44393789 CTTTAGCGGCGTCTTTTTTT
64 CTTTAGCGGCGTCTTTTTTT
* *
44393809 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
44393849 CTGTAAACGC
Statistics
Matches: 184, Mismatches: 18, Indels: 16
0.84 0.08 0.07
Matches are distributed among these distances:
83 3 0.02
84 71 0.39
85 102 0.55
86 8 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (83 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTCTTTTTTT
Found at i:44393735 original size:127 final size:127
Alignment explanation
Indices: 44393558--44393848 Score: 412
Period size: 127 Copynumber: 2.3 Consensus size: 127
44393548 GCGATGAAAG
*
44393558 CGCCGCTAAAGAACATGATCTATAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACAT-TATCT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACATGT-TCT
*
44393622 TTAGC-GGCGTTTTTCT-TTAAGCGCAGCTAAAGAACATTATCTTTAGCGGC-TATTTTTTGTAA
65 TTAGCAGG-GTTTTT-TGTTAAGCGCAGCTAAAGAACATGATCTTTAGCGGCGTATTTTTT-TAA
*
44393684 C
127 A
** * *
44393685 CGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTT-TTAAGTGTCGCTAAAGAACATGTTCT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTACCAAGCGCCGCTAAAGAACATGTTCT
* *
44393749 TTAGCAGGGTTTTTTGTTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTAAA
65 TTAGCAGGGTTTTTTGTTAAGCGCAGCTAAAGAACATGATCTTTAGCGGCGTATTTTTTTAAA
*
44393812 CGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
44393849 CTGTAAACGC
Statistics
Matches: 149, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
126 7 0.05
127 126 0.85
128 16 0.11
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (127 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTACCAAGCGCCGCTAAAGAACATGTTCTT
TAGCAGGGTTTTTTGTTAAGCGCAGCTAAAGAACATGATCTTTAGCGGCGTATTTTTTTAAA
Found at i:44396133 original size:26 final size:26
Alignment explanation
Indices: 44396097--44396151 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
44396087 CATGTCACTT
44396097 ATAACTATATATATAACCAACGAAAC
1 ATAACTATATATATAACCAACGAAAC
44396123 ATAACTATATATATAACCAACGAAAC
1 ATAACTATATATATAACCAACGAAAC
44396149 ATA
1 ATA
44396152 CCTAAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.55, C:0.18, G:0.04, T:0.24
Consensus pattern (26 bp):
ATAACTATATATATAACCAACGAAAC
Found at i:44404818 original size:19 final size:19
Alignment explanation
Indices: 44404796--44404833 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44404786 TTCATCATCC
44404796 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
44404815 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
44404834 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:44405831 original size:34 final size:34
Alignment explanation
Indices: 44405751--44405833 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
44405741 GACCTTTCCC
* **
44405751 GTAACAGTAATCAGTAGGGCCTTTGCCCAATTTTA
1 GTAACAGT-ATCAGTAGGGCCTTGGCCCAATAATA
* *
44405786 GTAATAGTATCAGTGGGGCCTTGGCCC-ATAATA
1 GTAACAGTATCAGTAGGGCCTTGGCCCAATAATA
44405819 GTAACAGATATCAGT
1 GTAACAG-TATCAGT
44405834 CATGCAGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.24
34 24 0.59
35 7 0.17
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (34 bp):
GTAACAGTATCAGTAGGGCCTTGGCCCAATAATA
Found at i:44406311 original size:27 final size:27
Alignment explanation
Indices: 44406283--44406551 Score: 283
Period size: 27 Copynumber: 10.0 Consensus size: 27
44406273 TCATCTCCTA
** * *
44406283 GGGGTATAACAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTCTACCCTATG
*
44406310 GGGGTATTTC-GATCATTCTACCCTGTG
1 GGGGTATTTCAG-TCATTCTACCCTATG
*
44406337 GGGGTATTTCAATCATTCTACCCTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
* * *
44406364 GAGGTATTTCGGTCATTCTACCTTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
** *
44406391 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
*
44406418 GGGGTATTT-AGGTCATTCTACCCTATA
1 GGGGTATTTCA-GTCATTCTACCCTATG
* * *
44406445 GGGGTATTTCAGTTATTCTACTCTGTG
1 GGGGTATTTCAGTCATTCTACCCTATG
* *
44406472 GGGGTATTTCAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
* * *
44406499 AGGGTATTTCAGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
** *
44406526 GGGGTATTTTGGTCATTTTA-CCTATG
1 GGGGTATTTCAGTCATTCTACCCTATG
44406552 TTAGGGTCTT
Statistics
Matches: 206, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
26 6 0.03
27 199 0.97
28 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTCTACCCTATG
Found at i:44406836 original size:20 final size:20
Alignment explanation
Indices: 44406801--44406838 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44406791 TGAGCCCACA
*
44406801 TGGCCCATTTCAGCCTAATG
1 TGGCCCATTACAGCCTAATG
*
44406821 TGGCCCATTACGGCCTAA
1 TGGCCCATTACAGCCTAA
44406839 GCTCGTGGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (20 bp):
TGGCCCATTACAGCCTAATG
Found at i:44410930 original size:45 final size:45
Alignment explanation
Indices: 44410832--44411013 Score: 224
Period size: 45 Copynumber: 4.1 Consensus size: 45
44410822 AACAGATACA
* * * * *
44410832 CGGTGG-ATCAACACACAG-TACCACCTTTATAGTTAATGATACT
1 CGGTGGAATCAACACACAGCAACCACCTTTATAATCAATGGTACC
* * * *
44410875 AGGTGGAATCATCACATAGCAACCACCTTCATAATCAATGGTACC
1 CGGTGGAATCAACACACAGCAACCACCTTTATAATCAATGGTACC
* * *
44410920 CGGTGTAATCAGCACACAGCAACCACCTTTATAATCAATGATACC
1 CGGTGGAATCAACACACAGCAACCACCTTTATAATCAATGGTACC
* *
44410965 CGGTGGAATTAACACACAACAACCACCTTTATAATCAATGGTACC
1 CGGTGGAATCAACACACAGCAACCACCTTTATAATCAATGGTACC
44411010 CGGT
1 CGGT
44411014 ACACGTAGTA
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
43 5 0.04
44 10 0.09
45 102 0.87
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAACACACAGCAACCACCTTTATAATCAATGGTACC
Found at i:44412923 original size:26 final size:26
Alignment explanation
Indices: 44412887--44412942 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
44412877 CAGCCGACAC
*
44412887 AACAATATCGCAGCAAAGCTGCCAGT
1 AACAATATCGCAGCAAAGCTACCAGT
44412913 AACAATATCGCAGCAAAGCTACCAGT
1 AACAATATCGCAGCAAAGCTACCAGT
44412939 AACA
1 AACA
44412943 GTATACTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.27, G:0.16, T:0.14
Consensus pattern (26 bp):
AACAATATCGCAGCAAAGCTACCAGT
Found at i:44413180 original size:27 final size:26
Alignment explanation
Indices: 44413100--44413432 Score: 381
Period size: 27 Copynumber: 12.4 Consensus size: 26
44413090 AACAGTCATT
44413100 ATTTTACCCTATCG-GGGTAATTCAGTC
1 ATTTTACCCTA-CGAGGGTAATTC-GTC
44413127 ATTTTACCCTA-GAGGGTAATTCGGTC
1 ATTTTACCCTACGAGGGTAATTC-GTC
*
44413153 ATTTTACCCTACGGGGGTAATTCAGTC
1 ATTTTACCCTACGAGGGTAATTC-GTC
*
44413180 ATTTTACTCTAC-AGGGGTAATTCGATC
1 ATTTTACCCTACGA-GGGTAATTCG-TC
44413207 ATTTTACCCTACGAGGGTAATTCAGTC
1 ATTTTACCCTACGAGGGTAATTC-GTC
*
44413234 ATTTTACCCTACGAGGGTAATTCGGTA
1 ATTTTACCCTACGAGGGTAATTC-GTC
* **
44413261 ATTTTATCCTATAAGGGTAATTCGATC
1 ATTTTACCCTACGAGGGTAATTCG-TC
44413288 ATTTTACCCTATC-AGGGTAATTCGATC
1 ATTTTACCCTA-CGAGGGTAATTCG-TC
* *
44413315 ATTTTACCCTAC-TGGGTAATTTGGTC
1 ATTTTACCCTACGAGGGTAA-TTCGTC
44413341 ATTTTACCCTACG-GGGCTAATTCGATC
1 ATTTTACCCTACGAGGG-TAATTCG-TC
* *
44413368 ATTTTACCTTACGAGGGTAATTTAGTC
1 ATTTTACCCTACGAGGGTAA-TTCGTC
*
44413395 ATTTTACCCTACGAGGGTAATTTGATC
1 ATTTTACCCTACGAGGGTAATTCG-TC
44413422 ATTTTACCCTA
1 ATTTTACCCTA
44413433 TGAAAGGTCC
Statistics
Matches: 270, Mismatches: 21, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.00
26 55 0.20
27 206 0.76
28 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTTTACCCTACGAGGGTAATTCGTC
Found at i:44413216 original size:54 final size:53
Alignment explanation
Indices: 44413100--44413432 Score: 431
Period size: 54 Copynumber: 6.2 Consensus size: 53
44413090 AACAGTCATT
*
44413100 ATTTTACCCTATCG-GGGTAATTCAGTCATTTTACCCTA-GAGGGTAATTCGGTC
1 ATTTTACCCTA-CGAGGGTAATTCAGTCATTTTACCCTACG-GGGTAATTCGATC
* *
44413153 ATTTTACCCTACGGGGGTAATTCAGTCATTTTACTCTACAGGGGTAATTCGATC
1 ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTAC-GGGGTAATTCGATC
* *
44413207 ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTACGAGGGTAATTCGGTA
1 ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTACG-GGGTAATTCGATC
* ** *
44413261 ATTTTATCCTATAAGGGTAATTC-GATCATTTTACCCTATCAGGGTAATTCGATC
1 ATTTTACCCTACGAGGGTAATTCAG-TCATTTTACCCTA-CGGGGTAATTCGATC
* **
44413315 ATTTTACCCTAC-TGGGTAATTTGGTCATTTTACCCTACGGGGCTAATTCGATC
1 ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTACGGGG-TAATTCGATC
* * *
44413368 ATTTTACCTTACGAGGGTAATTTAGTCATTTTACCCTACGAGGGTAATTTGATC
1 ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTACG-GGGTAATTCGATC
44413422 ATTTTACCCTA
1 ATTTTACCCTA
44413433 TGAAAGGTCC
Statistics
Matches: 248, Mismatches: 22, Indels: 19
0.86 0.08 0.07
Matches are distributed among these distances:
52 6 0.02
53 78 0.31
54 159 0.64
55 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (53 bp):
ATTTTACCCTACGAGGGTAATTCAGTCATTTTACCCTACGGGGTAATTCGATC
Found at i:44413383 original size:161 final size:161
Alignment explanation
Indices: 44413100--44413433 Score: 494
Period size: 161 Copynumber: 2.1 Consensus size: 161
44413090 AACAGTCATT
** * *
44413100 ATTTTACCCTATCGGGGTAATTCAGTCATTTTACCCTAGAGGGTAATTCGGTCATTTTACCCTAC
1 ATTTTACCCTATAAGGGTAATTCAGTCATTTTACCCTACAGGGTAATTCGATCATTTTACCCTAC
*
44413165 GGGGGTAATTCAGTCATTTTACTCTACAGGGGTAATTCGATCATTTTACCCTACGAGGGTAATTC
66 GGGGGTAATTCAGTCATTTTACCCTACAGGGGTAATTCGATCATTTTACCCTACGAGGGTAATTC
44413230 AGTCATTTTACCCTACGAGGGTAATTCGGTA
131 AGTCATTTTACCCTACGAGGGTAATTCGGTA
*
44413261 ATTTTATCCTATAAGGGTAATTC-GATCATTTTACCCTATCAGGGTAATTCGATCATTTTACCCT
1 ATTTTACCCTATAAGGGTAATTCAG-TCATTTTACCCTA-CAGGGTAATTCGATCATTTTACCCT
* ** *
44413325 AC-TGGGTAATTTGGTCATTTTACCCTAC-GGGGCTAATTCGATCATTTTACCTTACGAGGGTAA
64 ACGGGGGTAATTCAGTCATTTTACCCTACAGGGG-TAATTCGATCATTTTACCCTACGAGGGTAA
* * * *
44413388 TTTAGTCATTTTACCCTACGAGGGTAATTTGATC
128 TTCAGTCATTTTACCCTACGAGGGTAATTCGGTA
44413422 ATTTTACCCTAT
1 ATTTTACCCTAT
44413434 GAAAGGTCCG
Statistics
Matches: 155, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
160 5 0.03
161 125 0.81
162 25 0.16
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (161 bp):
ATTTTACCCTATAAGGGTAATTCAGTCATTTTACCCTACAGGGTAATTCGATCATTTTACCCTAC
GGGGGTAATTCAGTCATTTTACCCTACAGGGGTAATTCGATCATTTTACCCTACGAGGGTAATTC
AGTCATTTTACCCTACGAGGGTAATTCGGTA
Found at i:44421399 original size:19 final size:19
Alignment explanation
Indices: 44421377--44421414 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44421367 TCAAGCATCC
44421377 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
44421396 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
44421415 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:44428255 original size:43 final size:43
Alignment explanation
Indices: 44428122--44428268 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 43
44428112 CAATGTCATA
* * * * * * **
44428122 TCCCAGATATGGTTTTACATGTTATCACATATCGATACCTCTG
1 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
* * *
44428165 TCTCAGACAGGGTCTTACACG-AAT-T-ATATACGGTGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCATAT-CGATGCCAATG
44428206 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
44428249 TCCCAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
44428269 AAAATTACTG
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.05
41 26 0.30
42 5 0.06
43 47 0.55
44 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCTCATATCGATGCCAATG
Found at i:44432632 original size:27 final size:27
Alignment explanation
Indices: 44432602--44432687 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
44432592 TGAACATGCC
* * *
44432602 ATGAAATAGAAACCTTTATTGTTATTT
1 ATGAAATAGAAGCCTTTATGGCTATTT
* * *
44432629 ATGAAATGGAAGCCTTTGTGGCTGTTT
1 ATGAAATAGAAGCCTTTATGGCTATTT
* * * *
44432656 ATGAAATTGAAGCCTTTGTGACGATTT
1 ATGAAATAGAAGCCTTTATGGCTATTT
44432683 ATGAA
1 ATGAA
44432688 GTGGAAGTCT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
ATGAAATAGAAGCCTTTATGGCTATTT
Found at i:44432694 original size:27 final size:28
Alignment explanation
Indices: 44432625--44432699 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
44432615 CTTTATTGTT
*
44432625 ATTTATGAAATGGAAGCCTTTGTGGCTG
1 ATTTATGAAATGGAAGCCTTTGTGACTG
*
44432653 -TTTATGAAATTGAAGCCTTTGTGAC-G
1 ATTTATGAAATGGAAGCCTTTGTGACTG
* *
44432679 ATTTATGAAGTGGAAGTCTTT
1 ATTTATGAAATGGAAGCCTTT
44432700 TTGTCAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 40 0.98
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (28 bp):
ATTTATGAAATGGAAGCCTTTGTGACTG
Found at i:44432910 original size:27 final size:27
Alignment explanation
Indices: 44432847--44432911 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
44432837 GTTCTCAAAG
* * *
44432847 AACTCTAAAGGGATAGTATGTGTGGTA
1 AACTCTGAAGGGATAGTATGTATGGCA
* * * *
44432874 AGCACAGAAGGGCTAGTATGTATGGCA
1 AACTCTGAAGGGATAGTATGTATGGCA
44432901 AACTCTGAAGG
1 AACTCTGAAGG
44432912 AATGGAGGCA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (27 bp):
AACTCTGAAGGGATAGTATGTATGGCA
Found at i:44438342 original size:19 final size:20
Alignment explanation
Indices: 44438300--44438342 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
44438290 TCATGCTTTC
*
44438300 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
44438320 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
44438338 TATTC
1 TATTC
44438343 CACTATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:44439531 original size:16 final size:17
Alignment explanation
Indices: 44439510--44439553 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
44439500 CTTTTTCTCC
44439510 CTGTTTTGTTTCTA-TT
1 CTGTTTTGTTTCTATTT
*
44439526 CTG-TTTCTTTCTATTT
1 CTGTTTTGTTTCTATTT
44439542 CT-TTTTGTTTCT
1 CTGTTTTGTTTCT
44439554 TTTTATGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
CTGTTTTGTTTCTATTT
Found at i:44440060 original size:9 final size:9
Alignment explanation
Indices: 44440043--44440072 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44440033 AATTTAATTT
44440043 ATAAC-ATA
1 ATAACAATA
44440051 ATAACAATA
1 ATAACAATA
44440060 ATAACAATA
1 ATAACAATA
44440069 ATAA
1 ATAA
44440073 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAACAATA
Found at i:44442345 original size:35 final size:35
Alignment explanation
Indices: 44442299--44442398 Score: 128
Period size: 35 Copynumber: 2.9 Consensus size: 35
44442289 TTCGAGGTGC
*
44442299 CGCCCCGAAGGACCTATGTACCGTTTACACGTTGT
1 CGCCCCAAAGGACCTATGTACCGTTTACACGTTGT
* *
44442334 CGCCCCAAAGGACCTATGTACCATTTACATGTTGT
1 CGCCCCAAAGGACCTATGTACCGTTTACACGTTGT
* * * * *
44442369 TGCCCCAAATGATCTATATATCGTTTACAC
1 CGCCCCAAAGGACCTATGTACCGTTTACAC
44442399 AGTGTCACTC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (35 bp):
CGCCCCAAAGGACCTATGTACCGTTTACACGTTGT
Found at i:44445474 original size:33 final size:33
Alignment explanation
Indices: 44445437--44445506 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
44445427 ATTTATTTAG
44445437 TTTTTAAAT-TATTATTTTAGAATATTTTTAAAA
1 TTTTTAAATATA-TATTTTAGAATATTTTTAAAA
* *
44445470 TTTTTATATATATATTTTAGAATTTTTTTAAAA
1 TTTTTAAATATATATTTTAGAATATTTTTAAAA
44445503 TTTT
1 TTTT
44445507 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (33 bp):
TTTTTAAATATATATTTTAGAATATTTTTAAAA
Found at i:44447288 original size:17 final size:17
Alignment explanation
Indices: 44447266--44447298 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44447256 AGATTACCCT
44447266 TTGAAGGTTTAGCTTAA
1 TTGAAGGTTTAGCTTAA
44447283 TTGAAGGTTTAGCTTA
1 TTGAAGGTTTAGCTTA
44447299 GTGATTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.24, T:0.42
Consensus pattern (17 bp):
TTGAAGGTTTAGCTTAA
Found at i:44449642 original size:11 final size:10
Alignment explanation
Indices: 44449617--44449641 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44449607 ATCCGATTGG
44449617 TTTTTCTTTT
1 TTTTTCTTTT
44449627 TTTTTCTTTT
1 TTTTTCTTTT
44449637 TTTTT
1 TTTTT
44449642 TGCGATTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:44451739 original size:51 final size:51
Alignment explanation
Indices: 44451596--44451778 Score: 156
Period size: 51 Copynumber: 3.6 Consensus size: 51
44451586 AAAGTGATGG
* *
44451596 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATGATAGA
* * ** * * * *
44451646 TCGCATGTGTAGTACTATGCACAGGCTACTATGCGTACCAGATA-GTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATG-ATAGA
* * * * * *
44451697 TCACGTGTGTAGTACTATGTGTAGACTACTACGTGTATCAGATGGTAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-ATGATAGA
** *
44451748 TCATATGTATAGTACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
44451779 TGTGAACCGA
Statistics
Matches: 101, Mismatches: 28, Indels: 7
0.74 0.21 0.05
Matches are distributed among these distances:
50 36 0.36
51 64 0.63
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATATGATAGA
Found at i:44451840 original size:45 final size:45
Alignment explanation
Indices: 44451789--44451876 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
44451779 TGTGAACCGA
* * *
44451789 ACATCATTAATTAGTAAGGTGGTTGCTATGTGCTGATTCCATCGG
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTAAATCCATCGG
*
44451834 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTAAATCCATC
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTAAATCCATC
44451877 AAGTATCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTTGCTATGTGCTAAATCCATCGG
Found at i:44459991 original size:42 final size:43
Alignment explanation
Indices: 44459894--44460007 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
44459884 ATTATGTGTC
*
44459894 TTATCCAATGGTAAACCAACCAGTTGGAACAAATGTTTTGTCAA
1 TTATCCAATGGTAAACCAACCA-TTGGAACAAATGTTTTGTAAA
* * *
44459938 --ATCCAAAGGTAAAACAACCGACTGGAACAAATG-TTT-TAAA
1 TTATCCAATGGTAAACCAACC-ATTGGAACAAATGTTTTGTAAA
*
44459978 TTATCTAATGGTAAACCAACCAATTGGAAC
1 TTATCCAATGGTAAACCAACC-ATTGGAAC
44460008 TTCTTTTTCA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.05
41 3 0.05
42 51 0.88
43 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (43 bp):
TTATCCAATGGTAAACCAACCATTGGAACAAATGTTTTGTAAA
Found at i:44466846 original size:42 final size:43
Alignment explanation
Indices: 44466799--44466912 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
44466789 TGAAAAAGAA
* *
44466799 GTTCCAATTGGTTGATTTAACATTGGATAATT-TAAAACATTT
1 GTTCCAATTGGTTGATTTACCATTGGATAATTACAAAACATTT
* * * *
44466841 GTTCCAATCGGTTGTTTTACCGTTGGAT--TTGACAAAATATTT
1 GTTCCAATTGGTTGATTTACCATTGGATAATT-ACAAAACATTT
* *
44466883 GTTCCAAGTGGTTGGTTTACCATTGGATAA
1 GTTCCAATTGGTTGATTTACCATTGGATAA
44466913 GACACAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.03
42 56 0.97
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.41
Consensus pattern (43 bp):
GTTCCAATTGGTTGATTTACCATTGGATAATTACAAAACATTT
Found at i:44473471 original size:79 final size:81
Alignment explanation
Indices: 44473369--44473553 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
44473359 GCTCCTCGTT
* *
44473369 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTT-GGGATCTTAACCC
* *
44473432 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* * **
44473449 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTTGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGG
* *
44473513 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
44473529 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44473554 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTGGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:44473553 original size:40 final size:40
Alignment explanation
Indices: 44473369--44473553 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
44473359 GCTCCTCGTT
* *
44473369 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
44473409 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
44473449 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
44473488 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
44473529 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44473554 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:44482610 original size:10 final size:10
Alignment explanation
Indices: 44482595--44482630 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
44482585 GAAAATGATG
*
44482595 AAAATTAATC
1 AAAATTAATT
*
44482605 AAAATTTATT
1 AAAATTAATT
44482615 AAAATTAATT
1 AAAATTAATT
44482625 AAAATT
1 AAAATT
44482631 CAACATGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTAATT
Found at i:44488697 original size:49 final size:50
Alignment explanation
Indices: 44488636--44488817 Score: 145
Period size: 50 Copynumber: 3.7 Consensus size: 50
44488626 CATACTTGGG
*
44488636 TCCCAAACATGGTCTTACATGGGATGTT-TC-T-TGTACTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-TACTGCCAATGCCATA
* ** * *
44488685 TCCCAGATATGGTCTTACATGGGAGTTCTCATATTGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATTACTGCCAATGCCATA
** ** * * *** * *
44488735 TCCCAGACATGGTCTTACGGGGGACCTGTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATATTACTGCCAATGCCATA
* **
44488785 TCCTAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTTACATGGGAGTTCTCATA
44488818 ACCTCAATGA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
48 3 0.03
49 24 0.22
50 81 0.74
51 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGAGTTCTCATATTACTGCCAATGCCATA
Done.