Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 51 of 255
Found at i:14353740 original size:12 final size:12
Alignment explanation
Indices: 14353684--14353757 Score: 62
Period size: 12 Copynumber: 6.1 Consensus size: 12
14353674 TTTTTTTTGC
*
14353684 TCGATTTTTTTT
1 TCGAATTTTTTT
*
14353696 TC-ACTTTTTTT
1 TCGAATTTTTTT
*
14353707 TTGAATTTTTTT
1 TCGAATTTTTTT
*
14353719 TCAATCAATTTTTTT
1 TC---GAATTTTTTT
14353734 TCGAATTTTTTT
1 TCGAATTTTTTT
*
14353746 TTG-ATTTTTTT
1 TCGAATTTTTTT
14353757 T
1 T
14353758 GTTACTCCAA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
11 18 0.35
12 22 0.43
15 11 0.22
ACGTcount: A:0.15, C:0.08, G:0.05, T:0.72
Consensus pattern (12 bp):
TCGAATTTTTTT
Found at i:14355396 original size:20 final size:19
Alignment explanation
Indices: 14355373--14355437 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
14355363 AAGCTCAAAC
14355373 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
14355393 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
14355413 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
14355433 GAGCT
1 GAGCT
14355438 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:14356901 original size:20 final size:20
Alignment explanation
Indices: 14356855--14356901 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14356845 AGCTCGTTTC
*
14356855 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
14356875 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
14356895 CAGCTCA
1 CAGCTCA
14356902 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:14358496 original size:28 final size:29
Alignment explanation
Indices: 14358430--14358501 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
14358420 AAAAAAATCG
14358430 AAAAAAAG-GAAAAAAAAGAAGTGACAAAA
1 AAAAAAAGTGAAAAAAAAGAAG-GACAAAA
* *
14358459 AAAATCAAGTTAAAAAAAAGAA-GA-AAGAA
1 AAAA-AAAGTGAAAAAAAAGAAGGACAA-AA
14358488 AAAAAAAGTGAAAA
1 AAAAAAAGTGAAAA
14358502 GTCTTGCGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
28 10 0.28
29 12 0.33
30 3 0.08
31 11 0.31
ACGTcount: A:0.75, C:0.03, G:0.15, T:0.07
Consensus pattern (29 bp):
AAAAAAAGTGAAAAAAAAGAAGGACAAAA
Found at i:14359600 original size:48 final size:47
Alignment explanation
Indices: 14359521--14359626 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
14359511 GAGTGTCATG
*
14359521 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
14359569 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
14359617 GAAAAAGAAA
1 GAAAAAGAAA
14359627 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:14360053 original size:20 final size:20
Alignment explanation
Indices: 14360030--14360083 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
14360020 AGTTTTTCCC
*
14360030 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
14360050 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
14360070 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
14360084 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:14360065 original size:30 final size:30
Alignment explanation
Indices: 14360030--14360103 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
14360020 AGTTTTTCCC
14360030 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
14360060 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
14360090 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
14360104 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:14360093 original size:20 final size:20
Alignment explanation
Indices: 14360030--14360094 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
14360020 AGTTTTTCCC
* * * *
14360030 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
14360050 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
14360069 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
14360090 AGCTC
1 AGCTC
14360095 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:14361727 original size:14 final size:14
Alignment explanation
Indices: 14361708--14361767 Score: 54
Period size: 13 Copynumber: 4.4 Consensus size: 14
14361698 AAAAATCAAG
14361708 AAAATTTCGAAAAA
1 AAAATTTCGAAAAA
*
14361722 AAAATTGATTGAAAAA
1 AAAATT--TCGAAAAA
14361738 AAAA-TTC-AAAAA
1 AAAATTTCGAAAAA
**
14361750 AAAAAGT-GAAAAA
1 AAAATTTCGAAAAA
14361763 AAAAT
1 AAAAT
14361768 CGAGCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
12 9 0.24
13 11 0.29
14 6 0.16
15 1 0.03
16 11 0.29
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.18
Consensus pattern (14 bp):
AAAATTTCGAAAAA
Found at i:14361809 original size:31 final size:29
Alignment explanation
Indices: 14361745--14361819 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
14361735 AAAAAAATTC
*
14361745 AAAAAAAAAAGTGAAAAAAAAATCGAGCA
1 AAAAAAAAAAGTGAAAAAAAAATCAAGCA
*
14361774 AAAAAAAAAGGTGACCAAAAAAAATCAAG--
1 AAAAAAAAAAGTGA--AAAAAAAATCAAGCA
**
14361803 TTAAAAAAAAGTGAAAA
1 AAAAAAAAAAGTGAAAA
14361820 GTCTTGCGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.08
29 24 0.62
31 12 0.31
ACGTcount: A:0.71, C:0.07, G:0.13, T:0.09
Consensus pattern (29 bp):
AAAAAAAAAAGTGAAAAAAAAATCAAGCA
Found at i:14362867 original size:17 final size:18
Alignment explanation
Indices: 14362835--14362868 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14362825 AAAAGAGAGT
*
14362835 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
14362853 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
14362869 GGGGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:14364155 original size:20 final size:20
Alignment explanation
Indices: 14364132--14364185 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
14364122 AGTTTTTCCC
*
14364132 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
14364152 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
14364172 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
14364186 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:14364167 original size:30 final size:30
Alignment explanation
Indices: 14364132--14364205 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
14364122 AGTTTTTCCC
14364132 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
14364162 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
14364192 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
14364206 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:14364195 original size:20 final size:20
Alignment explanation
Indices: 14364132--14364196 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
14364122 AGTTTTTCCC
* * * *
14364132 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
14364152 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
14364171 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
14364192 AGCTC
1 AGCTC
14364197 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:14367089 original size:20 final size:20
Alignment explanation
Indices: 14367043--14367089 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
14367033 AGCTCGTTTC
14367043 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCGAGCTCAAGT
* *
14367063 CAACTCACTCGAGCTCAATT
1 CAGCTCACTCGAGCTCAAGT
14367083 CAGCTCA
1 CAGCTCA
14367090 ATCTTAACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.36, G:0.15, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCGAGCTCAAGT
Found at i:14367885 original size:30 final size:30
Alignment explanation
Indices: 14367851--14367947 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
14367841 AGCTCACTCC
14367851 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
14367881 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
14367911 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
14367941 TAGCTCA
1 TAGCTCA
14367948 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:14370698 original size:37 final size:37
Alignment explanation
Indices: 14370647--14370717 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
14370637 CATTCTTGTA
14370647 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
14370684 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
14370718 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:14370717 original size:6 final size:6
Alignment explanation
Indices: 14370657--14370706 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
14370647 AAGAGAAAAC
*
14370657 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
14370706 A
1 A
14370707 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:14370799 original size:11 final size:12
Alignment explanation
Indices: 14370767--14370797 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
14370757 TTGAGAGAAC
14370767 TTGAAAAAGCCT
1 TTGAAAAAGCCT
14370779 TTGAAAAAGCCT
1 TTGAAAAAGCCT
14370791 TTGAAAA
1 TTGAAAA
14370798 GCAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:14373011 original size:30 final size:30
Alignment explanation
Indices: 14372977--14373073 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
14372967 AGCTCACTCC
14372977 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
14373007 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
14373037 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
14373067 TAGCTCA
1 TAGCTCA
14373074 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:14382232 original size:13 final size:13
Alignment explanation
Indices: 14382214--14382287 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
14382204 ATACAAGTAT
14382214 AAAAAAAATTC--
1 AAAAAAAATTCAA
14382225 AAAAAAAATTCAGA
1 AAAAAAAATTCA-A
* * *
14382239 AAAGAAATTTGAAAA
1 AAAAAAAATT--CAA
14382254 ACAAAAAAATTCAA
1 A-AAAAAAATTCAA
**
14382268 AAAAAAGTTTCAA
1 AAAAAAAATTCAA
14382281 AAAAAAA
1 AAAAAAA
14382288 TGATTTGTGC
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
11 11 0.23
13 16 0.33
14 11 0.23
15 2 0.04
16 8 0.17
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:14382262 original size:30 final size:28
Alignment explanation
Indices: 14382225--14382287 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
14382215 AAAAAAATTC
*
14382225 AAAAAAAATTCAGAAAAGAAA-TTTGAAAA
1 AAAAAAAATTCA-AAAA-AAAGTTTCAAAA
14382254 ACAAAAAAATTCAAAAAAAAGTTTCAAAA
1 A-AAAAAAATTCAAAAAAAAGTTTCAAAA
14382283 AAAAA
1 AAAAA
14382288 TGATTTGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 7 0.23
29 13 0.42
30 11 0.35
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.16
Consensus pattern (28 bp):
AAAAAAAATTCAAAAAAAAGTTTCAAAA
Found at i:14383225 original size:6 final size:5
Alignment explanation
Indices: 14383201--14383256 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
14383191 AAGAGAAAAC
* *
14383201 AAAGA AAAGA AAAGTA AAAGCA AAAGA AGA-A AAAGA AATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AA-AGA
14383247 AAAGA AAAGA
1 AAAGA AAAGA
14383257 GAGGCAAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
4 4 0.10
5 28 0.67
6 10 0.24
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:14383225 original size:26 final size:26
Alignment explanation
Indices: 14383188--14383238 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
14383178 GTACATTCTT
14383188 GTAAAGAGAAAACAAAG-AAAAGAAAA
1 GTAAAGAGAAAA-AAAGAAAAAGAAAA
*
14383214 GTAAA-AGCAAAAGAAGAAAAAGAAA
1 GTAAAGAG-AAAAAAAGAAAAAGAAA
14383239 TGAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.04
Consensus pattern (26 bp):
GTAAAGAGAAAAAAAGAAAAAGAAAA
Found at i:14383334 original size:11 final size:12
Alignment explanation
Indices: 14383304--14383334 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14383294 TTGAGAGAAC
14383304 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
14383316 TTGAAAAAACCT
1 TTGAAAAAGCCT
14383328 TTGAAAA
1 TTGAAAA
14383335 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:14383345 original size:12 final size:12
Alignment explanation
Indices: 14383337--14383361 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14383327 TTTGAAAAGC
14383337 AAAAAGAAAATG
1 AAAAAGAAAATG
14383349 AAAAAGAAAATG
1 AAAAAGAAAATG
14383361 A
1 A
14383362 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:14383358 original size:18 final size:18
Alignment explanation
Indices: 14383331--14383386 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
14383321 AAAACCTTTG
14383331 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
14383350 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
14383368 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
14383385 AA
1 AA
14383387 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:14383371 original size:30 final size:31
Alignment explanation
Indices: 14383337--14383418 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
14383327 TTTGAAAAGC
*
14383337 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
14383367 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
14383397 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
14383419 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:14388933 original size:20 final size:20
Alignment explanation
Indices: 14388899--14388958 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
14388889 CAACTCCGAC
14388899 CAGCTCAAT-GAGCTCATTT
1 CAGCTCAATCGAGCTCATTT
14388918 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATCGAGCTC-ATTT
14388939 -AGCTACAATTC-AGCTCATTT
1 CAGCT-CAA-TCGAGCTCATTT
14388959 ATTTATTGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.24
20 14 0.38
21 12 0.32
22 2 0.05
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (20 bp):
CAGCTCAATCGAGCTCATTT
Found at i:14388953 original size:11 final size:10
Alignment explanation
Indices: 14388899--14388955 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
14388889 CAACTCCGAC
14388899 CAGCTCAA-T
1 CAGCTCAATT
* *
14388908 GAGCTCATTT
1 CAGCTCAATT
14388918 CAGCTCAA-T
1 CAGCTCAATT
14388927 CGAGCTCAATT
1 C-AGCTCAATT
*
14388938 TAGCTACAATT
1 CAGCT-CAATT
14388949 CAGCTCA
1 CAGCTCA
14388956 TTTATTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
9 8 0.21
10 20 0.53
11 10 0.26
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:14389997 original size:20 final size:20
Alignment explanation
Indices: 14389950--14389997 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
14389940 TAGCTCGTTC
*
14389950 CAGCTCACTCGAGCTCAAGT
1 CAGCTCATTCGAGCTCAAGT
*
14389970 CAGCTCATTCGAGCTCAATT
1 CAGCTCATTCGAGCTCAAGT
14389990 CAGCTCAT
1 CAGCTCAT
14389998 CTTAACCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (20 bp):
CAGCTCATTCGAGCTCAAGT
Found at i:14391493 original size:29 final size:29
Alignment explanation
Indices: 14391461--14391521 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
14391451 AAAAAAATTC
*
14391461 AAAAAA-AATGAAAAAAAA-ATCGAGCAAA
1 AAAAAAGAAAGAAAAAAAAGAT-GAGCAAA
*
14391489 AAAAAAGAAAGAAAAAAAAGGTGAGCAAA
1 AAAAAAGAAAGAAAAAAAAGATGAGCAAA
14391518 AAAA
1 AAAA
14391522 TCAAGTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 6 0.21
29 22 0.76
30 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (29 bp):
AAAAAAGAAAGAAAAAAAAGATGAGCAAA
Found at i:14391493 original size:39 final size:38
Alignment explanation
Indices: 14391413--14391494 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 38
14391403 TGGGAGTAAC
* *
14391413 AAAAAAATCAAAAAAATCGAAAAAAAAATTGATTG-AGAA
1 AAAAAAATCAAAAAAATCGAAAAAAAAATCGA--GCAAAA
*
14391452 AAAAAATTCAAAAAAAAT-GAAAAAAAAATCGAGCAAAA
1 AAAAAAATC-AAAAAAATCGAAAAAAAAATCGAGCAAAA
14391490 AAAAA
1 AAAAA
14391495 GAAAGAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
37 1 0.03
38 8 0.21
39 21 0.55
40 8 0.21
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (38 bp):
AAAAAAATCAAAAAAATCGAAAAAAAAATCGAGCAAAA
Found at i:14404110 original size:46 final size:48
Alignment explanation
Indices: 14404006--14404125 Score: 145
Period size: 48 Copynumber: 2.5 Consensus size: 48
14403996 TGTCTTCGAC
** * *
14404006 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
** * *
14404054 ATGGGTTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
14404100 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
14404126 CTGTCCTGGC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 26 0.43
47 1 0.02
48 34 0.56
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.36
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:14408356 original size:48 final size:46
Alignment explanation
Indices: 14408287--14408400 Score: 120
Period size: 48 Copynumber: 2.4 Consensus size: 46
14408277 TGTCTTCGAC
** * * *
14408287 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTACCTCCAAAGCCATATA-A-ATAAT
* * * * *
14408335 ATGGGCTTACATGGCTCATTCCTGCCTCTAAAGCCATATAACTGAT
1 ATGGACTTACATGGCTCATTCCTACCTCCAAAGCCATATAAATAAT
14408381 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
14408401 TCTGTCCTGT
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 22 0.40
47 1 0.02
48 32 0.58
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTACCTCCAAAGCCATATAAATAAT
Found at i:14416849 original size:46 final size:47
Alignment explanation
Indices: 14416701--14416924 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 47
14416691 ACTTTATGAG
* * * * *
14416701 AGCCAGTATAAGACCATGTCTGGGACATGGCGTCAG-TATTGAGACGA-G
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-TGAGATGATA
* *
14416749 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA--AGACG-TA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT-ATGAGATGATA
* *
14416795 AGCCAGTGTAAGACATGTCTAGGAAATGCATCGGCTATGAGATGAT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGATA
** * * *
14416841 AGTTAGTGTAAGACCGTGTCTGGGACATGGCATCGACT-TGAGAT-ATG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGATA
* **
14416888 AGCCAGTGTAAGACTATGTTTGTAACATGCCATCGGC
1 AGCCAGTGTAAGAC-ATGTCTGGGACATG-CATCGGC
14416925 ATCTTACCCA
Statistics
Matches: 142, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 60 0.42
47 58 0.41
48 20 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGATA
Found at i:14421012 original size:41 final size:41
Alignment explanation
Indices: 14420962--14421080 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
14420952 CTGACACACT
* * **
14420962 CCCGCGTCTATGGCCCGTGTCCTTCACTTGGCCATGACATG
1 CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGACATG
14421003 CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGACATG
1 CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGACATG
14421044 CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGA
1 CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGA
14421081 TACTCCTGTG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.15, C:0.37, G:0.23, T:0.25
Consensus pattern (41 bp):
CCCGTGTCTATGGCCCATGTCCTTCACACGGCCATGACATG
Found at i:14422750 original size:30 final size:30
Alignment explanation
Indices: 14422689--14422750 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
14422679 TAAGATTCAT
* * *
14422689 ACTTTGATAAAATGACCGTTTTGCCTCTAG
1 ACTTTCATAAAATGACCATTTTCCCTCTAG
*
14422719 ACTTTCATAAAATGTCCATTTTACCCT-TAG
1 ACTTTCATAAAATGACCATTTT-CCCTCTAG
14422749 AC
1 AC
14422751 CCAAAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (30 bp):
ACTTTCATAAAATGACCATTTTCCCTCTAG
Found at i:14425443 original size:40 final size:40
Alignment explanation
Indices: 14425388--14425528 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
14425378 ATTTGATGTG
* *
14425388 TGTATCCGGGCTTAAAGACCCGCAGACTATATGTTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGACTATATGCTGGAAT
*
14425428 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGACTATATGCTGGAAT
* * * *
14425468 TGTATCAGGGTTTAAAGGCCCGCAGGCT-TCGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGACTAT-ATGCTGGAAT
* * *
14425508 GGAATCTGGG-TTAAAGACCCG
1 TGTATCCGGGTTTAAAGACCCG
14425529 TAGGCTCGTG
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 11 0.12
40 79 0.88
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGACTATATGCTGGAAT
Found at i:14433159 original size:40 final size:40
Alignment explanation
Indices: 14433115--14433261 Score: 190
Period size: 40 Copynumber: 3.7 Consensus size: 40
14433105 ATTTGATGTG
* *
14433115 TGTATCCGGGCTTAAAGACCCGCAGACTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
*
14433155 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTAGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* * *
14433195 TGTATCCAGGTTTAAAGGCCCGCAGGCT-TCGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
* * *
14433235 GGAATCCGGG-TTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
14433262 CGTGTTAGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 16 0.17
40 78 0.83
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:14436833 original size:27 final size:27
Alignment explanation
Indices: 14436803--14436870 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
14436793 AATGCTCTTG
*
14436803 TAGGGTAAAATGACCGTAATACCCCTA
1 TAGGGTAAAATGACCATAATACCCCTA
* * *
14436830 TAGGGTAAAATGATCATAATACCCTTC
1 TAGGGTAAAATGACCATAATACCCCTA
*
14436857 TATGGTAAAATGAC
1 TAGGGTAAAATGAC
14436871 GATTATGCCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
TAGGGTAAAATGACCATAATACCCCTA
Found at i:14440693 original size:40 final size:40
Alignment explanation
Indices: 14440615--14440838 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
14440605 ACCCAAGTAT
* *
14440615 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
14440654 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
14440694 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
14440734 CTTCGGGACTTAGCCC-GAGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTC-ACTA---GCACAAATGC
* *
14440777 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
14440817 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
14440839 CATCCGAATA
Statistics
Matches: 165, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 14 0.08
40 114 0.69
41 1 0.01
43 34 0.21
44 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:14440811 original size:83 final size:80
Alignment explanation
Indices: 14440615--14440838 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
14440605 ACCCAAGTAT
* * * *
14440615 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
14440679 CACTAGCATGAATGC
66 CACTAGCACAAATGC
*
14440694 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-GAGTATAG
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAG
14440758 -CAACTACTCGCACAAATGC
65 TC-ACTA---GCACAAATGC
* *
14440777 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
14440839 CATCCGAATA
Statistics
Matches: 129, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 15 0.12
80 47 0.36
83 65 0.50
84 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:14448358 original size:40 final size:40
Alignment explanation
Indices: 14448280--14448503 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
14448270 ACCCAAGTAT
* * *
14448280 CTTCAGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
14448319 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
14448359 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
14448399 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * *
14448442 CTTCGGGACATAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
14448482 CTTCGGGACTTAGCCCGAATAT
1 CTTCGGGACTTAGCCCGGATAT
14448504 CATCTGAATA
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 11 0.07
40 114 0.71
41 1 0.01
43 34 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:14448476 original size:83 final size:80
Alignment explanation
Indices: 14448293--14448503 Score: 280
Period size: 83 Copynumber: 2.6 Consensus size: 80
14448283 CAGGATTTAG
* * * **
14448293 CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATG
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
14448358 CCTTCGGGACTTAGC
66 CCTTCGGGACATAGC
* * *
14448373 CCGGATATAGTCACTAGCACAGATGCCTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACA
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACA
14448437 AATGCCTTCGGGACATAGC
62 AATGCCTTCGGGACATAGC
* *
14448456 CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGAATAT
1 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
14448504 CATCTGAATA
Statistics
Matches: 113, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
79 1 0.01
80 48 0.42
83 64 0.57
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
CCTTCGGGACATAGC
Found at i:14449213 original size:12 final size:12
Alignment explanation
Indices: 14449185--14449213 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14449175 TATACCTATA
14449185 TGGTAGAATTTT
1 TGGTAGAATTTT
14449197 T-GTAGAATTTT
1 TGGTAGAATTTT
14449208 TGGTAG
1 TGGTAG
14449214 GGCCAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (12 bp):
TGGTAGAATTTT
Found at i:14450564 original size:27 final size:28
Alignment explanation
Indices: 14450534--14450595 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
14450524 ATATTAAGTC
14450534 CGCACACGCAGTGCTATAAAATC-AACT
1 CGCACACGCAGTGCTATAAAATCAAACT
** *
14450561 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACGCAGTGCTATAAAATCAAACT
14450589 CGCACAC
1 CGCACAC
14450596 TTAGTGCTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 20 0.65
28 11 0.35
ACGTcount: A:0.35, C:0.31, G:0.13, T:0.21
Consensus pattern (28 bp):
CGCACACGCAGTGCTATAAAATCAAACT
Found at i:14450597 original size:28 final size:28
Alignment explanation
Indices: 14450534--14450631 Score: 110
Period size: 29 Copynumber: 3.5 Consensus size: 28
14450524 ATATTAAGTC
**
14450534 CGCACACGCAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
14450561 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
14450589 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATA-AAATCAAACT
14450618 CGCACACTTAGTGC
1 CGCACACTTAGTGC
14450632 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 20 0.33
28 20 0.33
29 21 0.34
ACGTcount: A:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:14450626 original size:29 final size:28
Alignment explanation
Indices: 14450533--14450631 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
14450523 TATATTAAGT
** *
14450533 CCGCACACGCAGTGCTATAAAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
14450560 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
14450588 TCGCACACTTAGTGCTGA-ACAATTTAAAC
1 CCGCACACTTAGTGCT-ATACAA-TCAAAC
14450617 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
14450632 CAATCTCATG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 20 0.32
28 22 0.35
29 20 0.32
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.23
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:14456022 original size:27 final size:27
Alignment explanation
Indices: 14455992--14456169 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
14455982 ATATTGAGTC
** *
14455992 CGCACACACAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
14456019 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAATCAACT
*
14456046 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
14456074 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14456101 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
14456128 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
14456155 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14456170 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14460288 original size:27 final size:27
Alignment explanation
Indices: 14460258--14460435 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
14460248 ATATTGAGTC
* * * *
14460258 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
14460285 CGCACACTTAGTGCAACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
14460312 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
14460340 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
14460367 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
14460394 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
14460421 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14460436 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:14460397 original size:82 final size:81
Alignment explanation
Indices: 14460279--14460434 Score: 240
Period size: 82 Copynumber: 1.9 Consensus size: 81
14460269 TGCTATATAA
* *
14460279 TCAACTCGCACACTTAGTGCAACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
14460344 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * * **
14460361 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
14460426 ACTTAGTGC
66 ACTTAGTGC
14460435 TGTACAATTT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:14465301 original size:27 final size:28
Alignment explanation
Indices: 14465271--14465340 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
14465261 ATATTAAGTC
14465271 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
*
14465298 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
14465326 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14465341 GAACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:14471471 original size:27 final size:27
Alignment explanation
Indices: 14471441--14471558 Score: 182
Period size: 27 Copynumber: 4.4 Consensus size: 27
14471431 CCCCAAAATA
*
14471441 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
**
14471468 GGTAAAATGATTGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
14471495 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
14471522 GGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
14471549 GGTAAAATGA
1 GGTAAAATGA
14471559 AGATTATGCT
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:14472909 original size:29 final size:29
Alignment explanation
Indices: 14472835--14472953 Score: 102
Period size: 29 Copynumber: 4.2 Consensus size: 29
14472825 TACATACACG
* *
14472835 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* **
14472863 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCAT-TAGGCCCAAATCATATT
* * *
14472892 CTTATGGCCCATTAGGCCTAATTCA-ATTT
1 CATATGGCCCATTAGGCCCAAATCATA-TT
* *
14472921 CATATGGCTCATTAGACCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
14472950 -ATAT
1 CATAT
14472954 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
28 21 0.29
29 50 0.69
30 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:14474682 original size:28 final size:28
Alignment explanation
Indices: 14474650--14474758 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 28
14474640 CATTACACTG
*
14474650 TACTGATACTGTATTGGGCTTAGGCCCA
1 TACTGATACTGTATAGGGCTTAGGCCCA
* * * *
14474678 TACTGTTATTGTATAGGGCTAAGGCCTAGACTG
1 TACTGATACTGTATAGGGCTTAGGCC----C-A
* * *
14474711 TACTGATACTGTATTGGGTTTAGGCCTA
1 TACTGATACTGTATAGGGCTTAGGCCCA
* *
14474739 CACTGTTACTGTATAGGGCT
1 TACTGATACTGTATAGGGCT
14474759 AAGGTCCAGA
Statistics
Matches: 60, Mismatches: 16, Indels: 10
0.70 0.19 0.12
Matches are distributed among these distances:
28 38 0.63
32 1 0.02
33 21 0.35
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (28 bp):
TACTGATACTGTATAGGGCTTAGGCCCA
Found at i:14474715 original size:33 final size:34
Alignment explanation
Indices: 14474678--14474750 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
14474668 CTTAGGCCCA
* *
14474678 TACTGTTATTGTATAGGGCTAAGGCCTAGACTG-
1 TACTGTTACTGTATAGGGCTAAGGCCTACACTGT
* * * *
14474711 TACTGATACTGTATTGGGTTTAGGCCTACACTGT
1 TACTGTTACTGTATAGGGCTAAGGCCTACACTGT
14474745 TACTGT
1 TACTGT
14474751 ATAGGGCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (34 bp):
TACTGTTACTGTATAGGGCTAAGGCCTACACTGT
Found at i:14474744 original size:61 final size:61
Alignment explanation
Indices: 14474646--14474770 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 61
14474636 ATTGCATTAC
* *
14474646 ACTGTACTGATACTGTATTGGGCTTAGGCCCATACTGTTATTGTATAGGGCTAAGG-CCTAG
1 ACTGTACTGATACTGTATTGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGGTCC-AG
* *
14474707 ACTGTACTGATACTGTATTGGGTTTAGGCCTACACTGTTACTGTATAGGGCTAAGGTCCAG
1 ACTGTACTGATACTGTATTGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGGTCCAG
14474768 ACT
1 ACT
14474771 ATCCCGATCC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 57 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (61 bp):
ACTGTACTGATACTGTATTGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGGTCCAG
Found at i:14474797 original size:61 final size:61
Alignment explanation
Indices: 14474654--14474810 Score: 163
Period size: 61 Copynumber: 2.6 Consensus size: 61
14474644 ACACTGTACT
* * * * * *
14474654 GATACTGTATTGGGCTTAGGCCCATACTGTTATTGTATAGGGCTAAGGCCTAGACTGTACT
1 GATACTGAATAGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGGCCTAGACTATACC
* * * * *
14474715 GATACTGTATTGGGTTTAGGCCTACACTGTTACTGTATAGGGCTAAGGTCC-AGACTATCCC
1 GATACTGAATAGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGG-CCTAGACTATACC
* * * *
14474776 GATCCTGAATAGGGCTCAGGCCCAGACTGTAACTG
1 GATACTGAATAGGGCTTAGGCCCACACTGTTACTG
14474811 CATGCACTAT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
61 78 0.98
62 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (61 bp):
GATACTGAATAGGGCTTAGGCCCACACTGTTACTGTATAGGGCTAAGGCCTAGACTATACC
Found at i:14478215 original size:16 final size:17
Alignment explanation
Indices: 14478194--14478231 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
14478184 ATCAAACATT
14478194 ATTATAA-ATTATGG-TA
1 ATTATAATATT-TGGTTA
14478210 ATTATAATATTTGGTTA
1 ATTATAATATTTGGTTA
14478227 ATTAT
1 ATTAT
14478232 TATGATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTATAATATTTGGTTA
Found at i:14481329 original size:20 final size:20
Alignment explanation
Indices: 14481286--14481327 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
14481276 TAAAGAAGGT
14481286 AAATGCAATGGAAATTAATG
1 AAATGCAATGGAAATTAATG
14481306 AAATGCAAAT-GAAATTAA-G
1 AAATGC-AATGGAAATTAATG
14481325 AAA
1 AAA
14481328 ATTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (20 bp):
AAATGCAATGGAAATTAATG
Found at i:14481796 original size:15 final size:16
Alignment explanation
Indices: 14481776--14481805 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14481766 TAGTTCCTTA
14481776 TTGATA-TGTGTTAAT
1 TTGATAGTGTGTTAAT
14481791 TTGATAGTGTGTTAA
1 TTGATAGTGTGTTAA
14481806 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (16 bp):
TTGATAGTGTGTTAAT
Found at i:14487161 original size:28 final size:27
Alignment explanation
Indices: 14487104--14487255 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
14487094 TAAATTGTGC
*
14487104 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
14487131 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
14487159 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14487186 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
14487214 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14487241 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14487256 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:14487168 original size:55 final size:55
Alignment explanation
Indices: 14487104--14487255 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
14487094 TAAATTGTGC
*
14487104 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
14487159 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
14487214 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
14487256 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:14489912 original size:16 final size:16
Alignment explanation
Indices: 14489873--14489914 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
14489863 AAAAGTAGTT
*
14489873 GGTCAGAAATTTGATC
1 GGTCATAAATTTGATC
*
14489889 GAAT-ATAAATTTGATC
1 G-GTCATAAATTTGATC
14489905 GGTCATAAAT
1 GGTCATAAAT
14489915 GGTCTAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (16 bp):
GGTCATAAATTTGATC
Found at i:14492963 original size:22 final size:22
Alignment explanation
Indices: 14492937--14492981 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
14492927 TCCGTCGTTT
14492937 TAACGATCGAGGTAAGTTTGTA
1 TAACGATCGAGGTAAGTTTGTA
14492959 TAACGATCGAGGTAAGTTTGTA
1 TAACGATCGAGGTAAGTTTGTA
14492981 T
1 T
14492982 GCAATAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (22 bp):
TAACGATCGAGGTAAGTTTGTA
Found at i:14493183 original size:28 final size:28
Alignment explanation
Indices: 14493080--14493185 Score: 106
Period size: 28 Copynumber: 3.8 Consensus size: 28
14493070 CAGCTAAATT
** * *
14493080 TGGCACTTAGTGTGCGGGACA-TCAAATA
1 TGGCACTTAGTGTGCGAAATATTGAAA-A
* *
14493108 TGGCACTTAGTGTGTGAAACATTGAAAA
1 TGGCACTTAGTGTGCGAAATATTGAAAA
* *
14493136 TGGCACTTTGTGTGCGAAATATTGAGAA
1 TGGCACTTAGTGTGCGAAATATTGAAAA
* *
14493164 TGGCACTCAGTGTGCAAAATAT
1 TGGCACTTAGTGTGCGAAATAT
14493186 CGAATGATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
28 62 0.94
29 4 0.06
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAATATTGAAAA
Found at i:14495385 original size:26 final size:26
Alignment explanation
Indices: 14495356--14495492 Score: 125
Period size: 26 Copynumber: 5.2 Consensus size: 26
14495346 CTTCCGGCCA
* **
14495356 ACTCAAACTCAAGGTTCCTTGGACCC
1 ACTCAAACTCAAGGGTCCTCCGACCC
* **
14495382 ACTCAAACTCAAGGGACCTCCGACTA
1 ACTCAAACTCAAGGGTCCTCCGACCC
* *
14495408 ACTCAAACTCAAGAG-CTCTCTGA-CC
1 ACTCAAACTCAAGGGTC-CTCCGACCC
* *
14495433 AGTTCAAACTCAAGGGACCTCCGACCC
1 A-CTCAAACTCAAGGGTCCTCCGACCC
* *
14495460 ATCTCAAACTCAAGGGTCCTCGGAACC
1 A-CTCAAACTCAAGGGTCCTCCGACCC
14495487 ACTCAA
1 ACTCAA
14495493 TCTAGCTAGG
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.02
26 61 0.69
27 26 0.29
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.18
Consensus pattern (26 bp):
ACTCAAACTCAAGGGTCCTCCGACCC
Found at i:14496289 original size:37 final size:38
Alignment explanation
Indices: 14496248--14496337 Score: 155
Period size: 38 Copynumber: 2.4 Consensus size: 38
14496238 AACCAGATTT
* *
14496248 TGATTCTGTCAAATTGTAA-CATTTAGAAGTTAAATTC
1 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
14496285 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
1 TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
14496323 TGATTTTGTCAAATC
1 TGATTTTGTCAAATC
14496338 ATAGCCGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 17 0.34
38 33 0.66
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.42
Consensus pattern (38 bp):
TGATTTTGTCAAATCGTAATCATTTAGAAGTTAAATTC
Found at i:14507006 original size:22 final size:23
Alignment explanation
Indices: 14506981--14507024 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
14506971 TAACATGTTG
14506981 AATTTTAATTAATTTT-ATAATA
1 AATTTTAATTAATTTTGATAATA
*
14507003 AATTTTTATTAATTTTGATAAT
1 AATTTTAATTAATTTTGATAAT
14507025 TTTTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AATTTTAATTAATTTTGATAATA
Found at i:14513601 original size:22 final size:21
Alignment explanation
Indices: 14513571--14513645 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
14513561 TGCAAGGCTC
* *
14513571 ACACACCCGTGTGGTCCAAGGG
1 ACACGCCCGTGT-GACCAAGGG
**
14513593 ACACGCCCGTGTGACCTTGGG
1 ACACGCCCGTGTGACCAAGGG
* *
14513614 ACACGCCCGTGTAACCCTA-GG
1 ACACGCCCGTGTGA-CCAAGGG
14513635 ACACGCCCGTG
1 ACACGCCCGTG
14513646 CTGGAGGCCG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 32 0.70
22 14 0.30
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (21 bp):
ACACGCCCGTGTGACCAAGGG
Found at i:14513616 original size:21 final size:21
Alignment explanation
Indices: 14513590--14513645 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
14513580 TGTGGTCCAA
* *
14513590 GGGACACGCCCGTGTGACCTT
1 GGGACACGCCCGTGTAACCCT
14513611 GGGACACGCCCGTGTAACCCT
1 GGGACACGCCCGTGTAACCCT
*
14513632 AGGACACGCCCGTG
1 GGGACACGCCCGTG
14513646 CTGGAGGCCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (21 bp):
GGGACACGCCCGTGTAACCCT
Found at i:14515798 original size:48 final size:48
Alignment explanation
Indices: 14515677--14515957 Score: 258
Period size: 48 Copynumber: 5.8 Consensus size: 48
14515667 TAAGATGCCG
* * *
14515677 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCG-GTGCCT
1 ATGCCATGTCCCAAACATGGTCTTACACTAGC-C-CACATATCGAG-GCCA
* *
14515727 ATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCA
* * * * * * *
14515775 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATCAATGTCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCA
* * * * *
14515823 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCACATTTCGAGGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCA
* * *** * ** *
14515871 ATGCCATGTCCCAGACATGTTCTTACACTAGCTTTCATATCAATACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCA
* * * *
14515919 ATGTCATGTTCCAAACATGGTTTTACACTAGCTCACATA
1 ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATA
14515958 CCCGTTGTAT
Statistics
Matches: 187, Mismatches: 43, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
48 155 0.83
49 2 0.01
50 30 0.16
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCA
Found at i:14515866 original size:96 final size:96
Alignment explanation
Indices: 14515677--14515956 Score: 389
Period size: 96 Copynumber: 2.9 Consensus size: 96
14515667 TAAGATGCCG
* * ** *
14515677 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCTATGCCATGTTCCAAA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-T-TATCAATGCCAATGCCATGTTCCAAA
*
14515742 CATGGTCTTACACTAGCCCACATGTCGAGGCCA
64 CATGGTCTTACACTAGCTCACATGTCGAGGCCA
*
14515775 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATCAATGTCAATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATCAATGCCAATGCCATGTTCCAAACA
* * *
14515840 TGGTCTTACATTGGCTCACATTTCGAGGCCA
66 TGGTCTTACACTAGCTCACATGTCGAGGCCA
* * * * * *
14515871 ATGCCATGTCCCAGACATGTTCTTACACTAGCTTTCATATCAATACCGATGTCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATCAATGCCAATGCCATGTTCCAAACA
*
14515936 TGGTTTTACACTAGCTCACAT
66 TGGTCTTACACTAGCTCACAT
14515957 ACCCGTTGTA
Statistics
Matches: 162, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 127 0.78
97 1 0.01
98 34 0.21
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCTTATCAATGCCAATGCCATGTTCCAAACA
TGGTCTTACACTAGCTCACATGTCGAGGCCA
Found at i:14515939 original size:144 final size:146
Alignment explanation
Indices: 14515677--14515952 Score: 351
Period size: 144 Copynumber: 1.9 Consensus size: 146
14515667 TAAGATGCCG
* * *
14515677 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGCCTATGCCATGTTCCAAA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATATCGGTGCCAATGCCATGTCCCAAA
* * * *
14515742 CATGGTCTTACACTAGCCCACATGTCGAGGCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCCCACATATCAAGACCAATGCCATGTCCCAAACATGGTCTTACACTAGC
14515807 TCTCTTATCAATGTCA
131 TCTCTTATCAATGTCA
* * *
14515823 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCACAT-T-TCGAG-GCCAATGCCATGTCCCAG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATATCG-GTGCCAATGCCATGTCCCAA
* *** * * * * *
14515885 ACATGTTCTTACACTAGCTTTCATATCAATACCGATGTCATGTTCCAAACATGGTTTTACACTAG
65 ACATGGTCTTACACTAGCCCACATATCAAGACCAATGCCATGTCCCAAACATGGTCTTACACTAG
14515950 CTC
130 CTC
14515953 ACATACCCGT
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
144 73 0.66
145 2 0.02
146 35 0.32
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (146 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATATCGGTGCCAATGCCATGTCCCAAA
CATGGTCTTACACTAGCCCACATATCAAGACCAATGCCATGTCCCAAACATGGTCTTACACTAGC
TCTCTTATCAATGTCA
Found at i:14517628 original size:46 final size:44
Alignment explanation
Indices: 14517539--14517755 Score: 177
Period size: 46 Copynumber: 4.7 Consensus size: 44
14517529 GCATATCTGT
14517539 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* *
14517585 GCCGATGCATGTCCCAGACATGTTTTACACTGACTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGAG
** * * * *
14517631 GCAAATGCATGTCCCAAACATGTCTTACACTAGCACTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGAG
* * * * * *
14517677 GTCGATGCTGTGTCCTAGACATGGTCTTACACTGGATCTCATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACT-GA-CACAT-CTCGAG
*
14517725 GCCGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
14517756 AGCTCACAAT
Statistics
Matches: 137, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 62 0.45
47 22 0.16
48 25 0.18
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:14517753 original size:140 final size:140
Alignment explanation
Indices: 14517497--14517755 Score: 335
Period size: 140 Copynumber: 1.8 Consensus size: 140
14517487 GTATTGATGC
* **
14517497 CATGTCCCAAACATGGTCTTACACAAGCTCTGGCATATCTGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACAAGCACT-GCATATCAATGCCGATGCCATGTCCCAGACATG
* * *
14517562 GTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTTTTACACTGACTTACGTCT
65 GTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCT
14517627 CGAGGCAAATG
130 CGAGGCAAATG
* * * ** *
14517638 CATGTCCCAAACAT-GTCTTACACTAGCACT-CATCTCAATGTCGATGCTGTGTCCTAGACATGG
1 CATGTCCCAAACATGGTCTTACACAAGCACTGCATATCAATGCCGATGCCATGTCCCAGACATGG
* *
14517701 TCTTACACTGGATCTCATAAT-GTGGCCGATGCATGTCCCAAACATGTCTTACACT
66 TCTTACACT-GA-CACAT-ATCGTAGCCGATGCATGTCCCAAACATGTCTTACACT
14517756 AGCTCACAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 35 0.35
139 2 0.02
140 49 0.49
141 15 0.15
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACAAGCACTGCATATCAATGCCGATGCCATGTCCCAGACATGG
TCTTACACTGACACATATCGTAGCCGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTC
GAGGCAAATG
Found at i:14518373 original size:35 final size:35
Alignment explanation
Indices: 14518326--14518422 Score: 119
Period size: 34 Copynumber: 2.8 Consensus size: 35
14518316 GAATACATTC
14518326 TGGGCC-TAAGCCC-TTATCAGTAACAGTAGCAGTA
1 TGGGCCTTAAGCCCATT-TCAGTAACAGTAGCAGTA
* * *
14518360 TGGGCCTTAAGCCCATTTCAATAACAATAGCAGTC
1 TGGGCCTTAAGCCCATTTCAGTAACAGTAGCAGTA
* *
14518395 TGGG-CTTTAGCCCATTTCAGTAATAGTA
1 TGGGCCTTAAGCCCATTTCAGTAACAGTA
14518423 ATCAGTGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 26 0.48
35 26 0.48
36 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (35 bp):
TGGGCCTTAAGCCCATTTCAGTAACAGTAGCAGTA
Found at i:14518412 original size:34 final size:34
Alignment explanation
Indices: 14518324--14518413 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 34
14518314 GCGAATACAT
* * *
14518324 TCTGGGCCTAAGCCC-TTATCAGTAACAGTAGCAG
1 TCTGGGCTTAAGCCCATT-TCAATAACAATAGCAG
*
14518358 TATGGGCCTTAAGCCCATTTCAATAACAATAGCAG
1 TCTGGG-CTTAAGCCCATTTCAATAACAATAGCAG
*
14518393 TCTGGGCTTTAGCCCATTTCA
1 TCTGGGCTTAAGCCCATTTCA
14518414 GTAATAGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 19 0.40
35 27 0.56
36 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (34 bp):
TCTGGGCTTAAGCCCATTTCAATAACAATAGCAG
Found at i:14518859 original size:27 final size:28
Alignment explanation
Indices: 14518829--14518928 Score: 127
Period size: 27 Copynumber: 3.7 Consensus size: 28
14518819 TACTGTACCG
*
14518829 GGGTA-TTAGAGTCATTTTACCCTATAA
1 GGGTATTTCGAGTCATTTTACCCTATAA
* * *
14518856 GGGTATTTCG-GTCATTCTACCTTATAG
1 GGGTATTTCGAGTCATTTTACCCTATAA
14518883 GGGTATTTCGA-TCATTTTACCCTATAA
1 GGGTATTTCGAGTCATTTTACCCTATAA
*
14518910 GGGTATTTTG-GTCATTTTA
1 GGGTATTTCGAGTCATTTTA
14518929 TCACATAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
27 59 0.95
28 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (28 bp):
GGGTATTTCGAGTCATTTTACCCTATAA
Found at i:14518936 original size:27 final size:26
Alignment explanation
Indices: 14518839--14518939 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 26
14518829 GGGTATTAGA
*
14518839 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACAC-ATAAGGGTATTTCG
* *
14518866 GTCATTCTAC-CTTATAGGGGTATTTCG
1 GTCATTTTACAC--ATAAGGGTATTTCG
* * *
14518893 ATCATTTTACCCTATAAGGGTATTTTG
1 GTCATTTTACAC-ATAAGGGTATTTCG
14518920 GTCATTTTATCACATAAGGG
1 GTCATTTTA-CACATAAGGG
14518940 AAAAATCGTC
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 59 0.94
28 3 0.05
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (26 bp):
GTCATTTTACACATAAGGGTATTTCG
Found at i:14518952 original size:54 final size:53
Alignment explanation
Indices: 14518839--14518955 Score: 137
Period size: 54 Copynumber: 2.2 Consensus size: 53
14518829 GGGTATTAGA
* ** **
14518839 GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTACCTTATAGGGGTATTTC
1 GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTACCATATAGGGAAAAATC
* *
14518892 GATCATTTTACCCTATAAGGGTATTTTGGTCATTTTATCACATA-AGGGAAAAATC
1 G-TCATTTTACCCTATAAGGGTATTTCGGTCATTCTA-C-CATATAGGGAAAAATC
14518947 GTCATTTTA
1 GTCATTTTA
14518956 TCACATGAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
53 1 0.02
54 41 0.76
55 9 0.17
56 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.40
Consensus pattern (53 bp):
GTCATTTTACCCTATAAGGGTATTTCGGTCATTCTACCATATAGGGAAAAATC
Found at i:14521609 original size:25 final size:25
Alignment explanation
Indices: 14521580--14521627 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14521570 TTATAATATG
* * *
14521580 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
14521605 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
14521628 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:14521796 original size:24 final size:24
Alignment explanation
Indices: 14521740--14521839 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
14521730 GAGGAAGTGA
*
14521740 AAAAGGGCTTATGCCCTAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
14521763 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
14521787 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
14521811 AAAAGGGCTTACGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
14521835 AAAAG
1 AAAAG
14521840 AGGCAAGGCC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
23 21 0.30
24 50 0.70
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:14522087 original size:31 final size:31
Alignment explanation
Indices: 14522052--14522132 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
14522042 CGTTTACAGT
*
14522052 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
14522083 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
14522114 AAAGGGCTAT-GGCCCAGTA
1 AAA-GGCT-TCGGCCCAGTA
14522133 CATGTTTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 31 0.70
32 12 0.27
33 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:14531979 original size:16 final size:16
Alignment explanation
Indices: 14531960--14531990 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14531950 CTTCTTCACT
14531960 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
14531976 TACTTACTTACTTAA
1 TACTCACTTACTTAA
14531991 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:14531996 original size:20 final size:20
Alignment explanation
Indices: 14531957--14531996 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14531947 AAACTTCTTC
* *
14531957 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
14531977 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
14531997 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:14532365 original size:55 final size:55
Alignment explanation
Indices: 14532191--14532436 Score: 224
Period size: 55 Copynumber: 4.6 Consensus size: 55
14532181 ACCTTACCTT
* * * *
14532191 TGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGA-AACTTACCAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTTACCAA
* * * * *
14532240 TGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAT-GT-ACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTTACCAA
* * * *
14532293 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAATAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAATAACTTACCAA
* * * * *
14532348 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTAGAA-ACCTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTTACCAA
**
14532402 TTGCCATGCCTTGGTATGGTCTTACATGGTATCCT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCT
14532437 ACACATTCCT
Statistics
Matches: 160, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 30 0.19
50 1 0.01
52 2 0.01
53 41 0.26
54 11 0.07
55 73 0.46
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (55 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAATAACTTACCAA
Found at i:14532374 original size:108 final size:110
Alignment explanation
Indices: 14532230--14532430 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
14532220 ATCCTTTTGA
* *
14532230 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATATG-TA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATA-GAAACCTCACCAA
14532293 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
* * ** * *
14532338 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCGTTAGAAACCTTATCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAGAAACCTCACCAAT
*
14532403 TGCCATGCCTTGGTATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
14532431 TATCCTACAC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 6 0.07
110 27 0.33
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCATAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAAT
Found at i:14537523 original size:20 final size:18
Alignment explanation
Indices: 14537498--14537534 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
14537488 ATTGCTAAGT
14537498 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
14537518 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
14537535 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:14551970 original size:18 final size:18
Alignment explanation
Indices: 14551928--14551970 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14551918 GCCCATTCCG
*
14551928 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
14551946 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
14551964 AAGTATG
1 AAGTATG
14551971 CCTATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:14552490 original size:26 final size:28
Alignment explanation
Indices: 14552436--14552502 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
14552426 TAAAATGTTC
14552436 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
14552464 AGCAC-AAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
14552490 AGCACTGAGTGTG
1 AGCACTAAGTGTG
14552503 TGGACTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 15 0.41
27 17 0.46
28 5 0.14
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:14560051 original size:18 final size:18
Alignment explanation
Indices: 14560009--14560051 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14559999 GCCCATTCCG
*
14560009 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
14560027 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
14560045 AAGTATG
1 AAGTATG
14560052 CCTATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:14560571 original size:27 final size:28
Alignment explanation
Indices: 14560487--14560583 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
14560477 CATGAGATTG
* * *
14560487 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
14560516 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14560544 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14560571 GCACTGAGTGTGC
1 GCACTAAGTGTGC
14560584 AGACTTAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 23 0.37
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14560598 original size:29 final size:27
Alignment explanation
Indices: 14560515--14560598 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
14560505 TAAATTGTTC
* *
14560515 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
14560543 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
14560570 AGCACTGAGTGTGCAGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
14560599 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:14579440 original size:22 final size:24
Alignment explanation
Indices: 14579397--14579440 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14579387 TGATAATATG
14579397 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
14579421 TTTTGA-ATAA-AATTTAAAGT
1 TTTTGATATAACAAATTAAAGT
14579441 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:14580494 original size:11 final size:11
Alignment explanation
Indices: 14580478--14580502 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14580468 TGAAATAGAA
14580478 ATGATTATTTT
1 ATGATTATTTT
14580489 ATGATTATTTT
1 ATGATTATTTT
14580500 ATG
1 ATG
14580503 GTCCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (11 bp):
ATGATTATTTT
Found at i:14581800 original size:45 final size:44
Alignment explanation
Indices: 14581715--14581800 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
14581705 TATGTAATCT
*
14581715 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
** *
14581759 GAACTCATTGAGTTGTGGTCTGAGTTTGTGATATGTATGACA
1 GAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
14581801 CATGTTTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (44 bp):
GAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCC
Found at i:14586652 original size:16 final size:16
Alignment explanation
Indices: 14586627--14586657 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14586617 AAATCGACTC
14586627 AAAATCATATTTTTGA
1 AAAATCATATTTTTGA
*
14586643 AAAATTATATTTTTG
1 AAAATCATATTTTTG
14586658 CCCCTAAACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
AAAATCATATTTTTGA
Found at i:14586858 original size:608 final size:608
Alignment explanation
Indices: 14585704--14586922 Score: 2375
Period size: 608 Copynumber: 2.0 Consensus size: 608
14585694 TTGGGCATTA
14585704 GTCCATACAACCAAAAATAACATATCACCTAGTTTTCATACAAACTTATTCATTTCATTTAAAAT
1 GTCCATACAACCAAAAATAACATATCACCTAGTTTTCATACAAACTTATTCATTTCATTTAAAAT
14585769 GTCAATTTCCATTAAATGTCCATTAACATCAAATTCAATACAATCATAGCAAGATATATTTCATG
66 GTCAATTTCCATTAAATGTCCATTAACATCAAATTCAATACAATCATAGCAAGATATATTTCATG
*
14585834 TATAACAATAATAACATGAATAATATGCTTATTAAATCACGCGAACTTACCTCGAATATGGAAAC
131 CATAACAATAATAACATGAATAATATGCTTATTAAATCACGCGAACTTACCTCGAATATGGAAAC
14585899 GGTAAAATTACCATTTTAGTCCAAAACTTGTATTTTCCAGATTTAAGCCCAAATCTCGATTTCCT
196 GGTAAAATTACCATTTTAGTCCAAAACTTGTATTTTCCAGATTTAAGCCCAAATCTCGATTTCCT
14585964 TGATCTATTATTTCAAAGATAGCCTATTTAGGACTCAAATTATTCAAACCGACTCAAAATCATAT
261 TGATCTATTATTTCAAAGATAGCCTATTTAGGACTCAAATTATTCAAACCGACTCAAAATCATAT
*
14586029 TTTTGAAAAATTATAGTTTTGCCCTTAAACTTTGTTGAAATTACACTTTTGCCCTTAGGCTCGGA
326 TTTTGAAAAATTATAGTTTTGCCCCTAAACTTTGTTGAAATTACACTTTTGCCCTTAGGCTCGGA
14586094 AAATGATTTTTATTCAATTTTCCCATTCTATAAGCTTAGCCGAACCATTTTCATAAATATAGAAA
391 AAATGATTTTTATTCAATTTTCCCATTCTATAAGCTTAGCCGAACCATTTTCATAAATATAGAAA
14586159 AATACAATTCTCATCATTACACGCTTTTATACCATTTTTATAACTTTTACAAAACAGTCCTTTCG
456 AATACAATTCTCATCATTACACGCTTTTATACCATTTTTATAACTTTTACAAAACAGTCCTTTCG
14586224 GACGTTTTCGTCGAAAATCGCTTAGTAAAAGTTGTTTATTTAACACCCAACACTCATTTTCTACC
521 GACGTTTTCGTCGAAAATCGCTTAGTAAAAGTTGTTTATTTAACACCCAACACTCATTTTCTACC
*
14586289 ATTAGATATCAAAATGCATGCAT
586 ATTAGACATCAAAATGCATGCAT
*
14586312 GTCCATACAACCAAAAATAACGTATCACCTAGTTTTCATACAAACTTATTCATTTCATTTAAAAT
1 GTCCATACAACCAAAAATAACATATCACCTAGTTTTCATACAAACTTATTCATTTCATTTAAAAT
14586377 GTCAATTTCCATTAAATGTCCATTAACATCAAATTCAATACAATCATAGCAAGATATATTTCATG
66 GTCAATTTCCATTAAATGTCCATTAACATCAAATTCAATACAATCATAGCAAGATATATTTCATG
14586442 CATAACAATAATAACATGAATAATATGCTTATTAAATCACGCGAACTTACCTCGAATATGGAAAC
131 CATAACAATAATAACATGAATAATATGCTTATTAAATCACGCGAACTTACCTCGAATATGGAAAC
14586507 GGTAAAATTACCATTTTAGTCCAAAACTTGTATTTTCCAGATTTAAGCCCAAATCTCGATTTCCT
196 GGTAAAATTACCATTTTAGTCCAAAACTTGTATTTTCCAGATTTAAGCCCAAATCTCGATTTCCT
*
14586572 TGATCTATTATTTCAAAGATAGCCTATTTAGGACTCAAATTATTCAAATCGACTCAAAATCATAT
261 TGATCTATTATTTCAAAGATAGCCTATTTAGGACTCAAATTATTCAAACCGACTCAAAATCATAT
* *
14586637 TTTTGAAAAATTATATTTTTGCCCCTAAACTTTGTTGAAATTACACTTTTGCCCTTAGGCTCGTA
326 TTTTGAAAAATTATAGTTTTGCCCCTAAACTTTGTTGAAATTACACTTTTGCCCTTAGGCTCGGA
14586702 AAATGATTTTTATTCAATTTTCCCATTCTATAAGCTTAGCCGAACCATTTTCATAAATATAGAAA
391 AAATGATTTTTATTCAATTTTCCCATTCTATAAGCTTAGCCGAACCATTTTCATAAATATAGAAA
14586767 AATACAATTCTCATCATTACACGCTTTTATACCATTTTTATAACTTTTACAAAACAGTCCTTTCG
456 AATACAATTCTCATCATTACACGCTTTTATACCATTTTTATAACTTTTACAAAACAGTCCTTTCG
14586832 GACGTTTTCGTCGAAAATCGCTTAGTAAAAGTTGTTTATTTAACACCCAACACTCATTTTCTACC
521 GACGTTTTCGTCGAAAATCGCTTAGTAAAAGTTGTTTATTTAACACCCAACACTCATTTTCTACC
14586897 ATTAGACATCAAAATGCATGCAT
586 ATTAGACATCAAAATGCATGCAT
14586920 GTC
1 GTC
14586923 ACACATCGGT
Statistics
Matches: 604, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
608 604 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (608 bp):
GTCCATACAACCAAAAATAACATATCACCTAGTTTTCATACAAACTTATTCATTTCATTTAAAAT
GTCAATTTCCATTAAATGTCCATTAACATCAAATTCAATACAATCATAGCAAGATATATTTCATG
CATAACAATAATAACATGAATAATATGCTTATTAAATCACGCGAACTTACCTCGAATATGGAAAC
GGTAAAATTACCATTTTAGTCCAAAACTTGTATTTTCCAGATTTAAGCCCAAATCTCGATTTCCT
TGATCTATTATTTCAAAGATAGCCTATTTAGGACTCAAATTATTCAAACCGACTCAAAATCATAT
TTTTGAAAAATTATAGTTTTGCCCCTAAACTTTGTTGAAATTACACTTTTGCCCTTAGGCTCGGA
AAATGATTTTTATTCAATTTTCCCATTCTATAAGCTTAGCCGAACCATTTTCATAAATATAGAAA
AATACAATTCTCATCATTACACGCTTTTATACCATTTTTATAACTTTTACAAAACAGTCCTTTCG
GACGTTTTCGTCGAAAATCGCTTAGTAAAAGTTGTTTATTTAACACCCAACACTCATTTTCTACC
ATTAGACATCAAAATGCATGCAT
Found at i:14588740 original size:15 final size:14
Alignment explanation
Indices: 14588699--14588760 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
14588689 ACCAAGAGTT
14588699 CAAAATAAGGAAATC
1 CAAAATAA-GAAATC
***
14588714 CATAACGGAGAAATC
1 CA-AAATAAGAAATC
14588729 CAAAATATAGAAATC
1 CAAAATA-AGAAATC
*
14588744 CAACATAAGGAAATC
1 CAAAATAA-GAAATC
14588759 CA
1 CA
14588761 GAAGAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
14 3 0.08
15 31 0.84
16 3 0.08
ACGTcount: A:0.55, C:0.18, G:0.13, T:0.15
Consensus pattern (14 bp):
CAAAATAAGAAATC
Found at i:14593895 original size:28 final size:28
Alignment explanation
Indices: 14593832--14593929 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
14593822 ATATTAAGTC
*
14593832 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
14593859 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
14593887 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
14593916 CGCACACTTAGTGC
1 CGCACACTTAGTGC
14593930 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:14604380 original size:36 final size:38
Alignment explanation
Indices: 14604340--14604423 Score: 127
Period size: 41 Copynumber: 2.2 Consensus size: 38
14604330 CAATTTCAAT
14604340 ACCAAATC-A-TACATCATTCATACCATATTATTATCA
1 ACCAAATCAACTACATCATTCATACCATATTATTATCA
14604376 ACCAAATTCAAGCTTACATCATTCATACCATATTATTATCA
1 ACCAAA-TCAA-C-TACATCATTCATACCATATTATTATCA
14604417 ACCAAAT
1 ACCAAAT
14604424 TCAAGCTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
36 6 0.14
37 2 0.05
38 1 0.02
40 1 0.02
41 33 0.77
ACGTcount: A:0.42, C:0.25, G:0.01, T:0.32
Consensus pattern (38 bp):
ACCAAATCAACTACATCATTCATACCATATTATTATCA
Found at i:14604406 original size:41 final size:41
Alignment explanation
Indices: 14604349--14604432 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
14604339 TACCAAATCA
14604349 TACATCATTCATACCATATTATTATCAACCAAATTCAAGCT
1 TACATCATTCATACCATATTATTATCAACCAAATTCAAGCT
14604390 TACATCATTCATACCATATTATTATCAACCAAATTCAAGCT
1 TACATCATTCATACCATATTATTATCAACCAAATTCAAGCT
14604431 TA
1 TA
14604433 TAAGCTATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (41 bp):
TACATCATTCATACCATATTATTATCAACCAAATTCAAGCT
Found at i:14615966 original size:10 final size:10
Alignment explanation
Indices: 14615953--14615990 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14615943 AAGAAGCTAA
14615953 ATTGAGCTCG
1 ATTGAGCTCG
14615963 ATTGAGCT-G
1 ATTGAGCTCG
14615972 ACTTGAGCTCG
1 A-TTGAGCTCG
*
14615983 AGTGAGCT
1 ATTGAGCT
14615991 GAAAACGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (10 bp):
ATTGAGCTCG
Found at i:14615977 original size:20 final size:20
Alignment explanation
Indices: 14615954--14615992 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14615944 AGAAGCTAAA
*
14615954 TTGAGCTCGATTGAGCTGAC
1 TTGAGCTCGAGTGAGCTGAC
14615974 TTGAGCTCGAGTGAGCTGA
1 TTGAGCTCGAGTGAGCTGA
14615993 AAACGAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (20 bp):
TTGAGCTCGAGTGAGCTGAC
Found at i:14617431 original size:10 final size:10
Alignment explanation
Indices: 14617416--14617453 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
14617406 GCTCGTTTTC
*
14617416 AGCTCACTCG
1 AGCTCAATCG
14617426 AGCTCAAGTC-
1 AGCTCAA-TCG
14617436 AGCTCAATCG
1 AGCTCAATCG
14617446 AGCTCAAT
1 AGCTCAAT
14617454 TTAGCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:14617459 original size:20 final size:20
Alignment explanation
Indices: 14617414--14617452 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14617404 TAGCTCGTTT
*
14617414 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCAATCGAGCTCAAG
14617434 TCAGCTCAATCGAGCTCAA
1 TCAGCTCAATCGAGCTCAA
14617453 TTTAGCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (20 bp):
TCAGCTCAATCGAGCTCAAG
Found at i:14619942 original size:47 final size:47
Alignment explanation
Indices: 14619872--14619965 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
14619862 CGCGAGAATG
*
14619872 CATTTCTTCAGAAGTTGTAATGTGTAAACGTTTTGAAGATGGACTGA
1 CATTTCTTCAGAAGTTGTAATGTGTAAACGTTTCGAAGATGGACTGA
*
14619919 CATTTCTTCAGAAGTTGTGATGTGTAAACGTTTCGAAGATGGACTGA
1 CATTTCTTCAGAAGTTGTAATGTGTAAACGTTTCGAAGATGGACTGA
14619966 ATGATGATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (47 bp):
CATTTCTTCAGAAGTTGTAATGTGTAAACGTTTCGAAGATGGACTGA
Found at i:14625835 original size:40 final size:39
Alignment explanation
Indices: 14625699--14625917 Score: 244
Period size: 40 Copynumber: 5.5 Consensus size: 39
14625689 TGGATGATAA
* * **
14625699 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTTACTACAT
*
14625740 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTACA-T
*
14625781 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTACAT
* *
14625821 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTACAT
* * *
14625861 CCGGGCTATGTCCCGAAGGCATTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTA-CTACAT
* *
14625900 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
14625918 TACTTGGCTT
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 63 0.40
41 60 0.38
42 6 0.04
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTACAT
Found at i:14625840 original size:81 final size:79
Alignment explanation
Indices: 14625699--14625917 Score: 262
Period size: 81 Copynumber: 2.7 Consensus size: 79
14625689 TGGATGATAA
* **
14625699 CCGGGCTAAGTCCCGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCG--AGTGACTACATCCGGGCTAAGTCCCGAAGGCATTT
*
14625764 GTGCGAGTTATTACATT
64 GTGCGAGTTACTACA-T
* *
14625781 CCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTTG
* *
14625846 TGTGAGTTACTATAT
65 TGCGAGTTACTACAT
* * * * *
14625861 CCGGGCTATGTCCCGAAGGCATTGAGCGAGT-AGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGA-CTACATCCGGGCTAAGTCCCGAAGG
14625918 TACTTGGCTT
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
78 15 0.12
79 15 0.12
80 21 0.17
81 43 0.36
82 21 0.17
83 6 0.05
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTACATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTACAT
Found at i:14627672 original size:43 final size:42
Alignment explanation
Indices: 14627625--14627706 Score: 105
Period size: 42 Copynumber: 1.9 Consensus size: 42
14627615 TTTTGCATGT
*
14627625 AATCAAATATCGATACC-ATTGTCCCAGACA-GGATCTTACATCA
1 AATCAAATA-CGATACCGA-TGTCCCAAACATGG-TCTTACATCA
*
14627668 AATCAAATACGATGCCGATGTCCCAAACATGGTCTTACA
1 AATCAAATACGATACCGATGTCCCAAACATGGTCTTACA
14627707 CGTAAATCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
42 23 0.66
43 12 0.34
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (42 bp):
AATCAAATACGATACCGATGTCCCAAACATGGTCTTACATCA
Found at i:14627704 original size:42 final size:41
Alignment explanation
Indices: 14627625--14627753 Score: 111
Period size: 44 Copynumber: 3.0 Consensus size: 41
14627615 TTTTGCATGT
* *
14627625 AATCAAATATCGATACCATTGTCCCAGACA-GGATCTTACATC-A
1 AATCAAATA-CGATGCCA-TGTCCCAAACATGG-TCTTACA-CGA
14627668 AATCAAATACGATGCCGATGTCCCAAACATGGTCTTACACGTA
1 AATCAAATACGATGCC-ATGTCCCAAACATGGTCTTACACG-A
* **
14627711 AATCATAAGT-CGATGCCAACGTCCCAAATGTGGTCTTACACGA
1 AATCA-AA-TACGATGCC-ATGTCCCAAACATGGTCTTACACGA
14627754 GAACCCAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
41 1 0.01
42 23 0.31
43 19 0.26
44 30 0.41
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
AATCAAATACGATGCCATGTCCCAAACATGGTCTTACACGA
Found at i:14630763 original size:46 final size:46
Alignment explanation
Indices: 14630713--14630800 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
14630703 TACAGGAATA
* * *
14630713 GGTTCTAAGCTCCAACATATGTTGCGAACTTGAGAATATAGGTATT
1 GGTTCCAACCTCCAACATATGTTGCGAACTCGAGAATATAGGTATT
* * * *
14630759 GGTTCCGACCTCCTACATATGTTGCGGACTCGAGAGTATAGG
1 GGTTCCAACCTCCAACATATGTTGCGAACTCGAGAATATAGG
14630801 AATACTAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (46 bp):
GGTTCCAACCTCCAACATATGTTGCGAACTCGAGAATATAGGTATT
Found at i:14636444 original size:27 final size:27
Alignment explanation
Indices: 14636406--14636494 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
14636396 AAAAATAGTT
* * * *
14636406 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGATA
*
14636433 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
* * *
14636460 ATTTTACATTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATGTCGATA
14636487 ATTTTACA
1 ATTTTACA
14636495 AATCGGTGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:14636581 original size:26 final size:27
Alignment explanation
Indices: 14636510--14636682 Score: 201
Period size: 26 Copynumber: 6.5 Consensus size: 27
14636500 GTGGTGTTTC
* * *
14636510 TATTTCGGTAATTTTACAAATTGAGTG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
14636537 TATTTTAGTAATTTCAC-AATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
14636563 TGTTTCAGTAATTTTACAAATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
*
14636590 TTTTTCAGTAATTTTACAAATCG-GGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
14636616 TATTTCAGTAATTTTACAAACCAAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
14636643 TACTTCAAT-ATTTTACAAA-CTGAGGG
1 TATTTCAGTAATTTTACAAATC-GAGGG
*
14636669 TATTTCGGTAATTT
1 TATTTCAGTAATTT
14636683 CTCTTTATTA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 64 0.52
27 59 0.48
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:14636643 original size:53 final size:54
Alignment explanation
Indices: 14636510--14636682 Score: 194
Period size: 53 Copynumber: 3.3 Consensus size: 54
14636500 GTGGTGTTTC
* * * *
14636510 TATTTCGGTAATTTTACAAATTGAGTGTATTTT-AGTAATTTCAC-AATCGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGGT-TTTTCAGTAATTTTACAAATCGAGGG
*
14636563 TGTTTCAGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAAATCG-GGG
1 TATTTCAGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAAATCGAGGG
* * ** *
14636616 TATTTCAGTAATTTTACAAACCAAGGGTACTTCAAT-ATTTTACAAA-CTGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAAATC-GAGGG
*
14636669 TATTTCGGTAATTT
1 TATTTCAGTAATTT
14636683 CTCTTTATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
51 1 0.01
52 15 0.14
53 83 0.80
54 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (54 bp):
TATTTCAGTAATTTTACAAATCGAGGGTTTTTCAGTAATTTTACAAATCGAGGG
Found at i:14637033 original size:28 final size:28
Alignment explanation
Indices: 14636997--14637062 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
14636987 TTCGGCCCCT
* *
14636997 TTAGGCCCAATCTCGTTCACATGGCCCA
1 TTAGGCCCAATCACATTCACATGGCCCA
*
14637025 TTAGGCCCAATCACATTCATATGGCCCA
1 TTAGGCCCAATCACATTCACATGGCCCA
14637053 TTAGGCCCAA
1 TTAGGCCCAA
14637063 CTACTTCCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (28 bp):
TTAGGCCCAATCACATTCACATGGCCCA
Found at i:14640021 original size:27 final size:27
Alignment explanation
Indices: 14639977--14640065 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
14639967 CAAAACAATT
* * *
14639977 ATTTTACCCTACAGGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGGTA
* * *
14640004 ATTTTACACTATAAGGGTATTTTGGTA
1 ATTTTACACTACAAGGGTATGTCGGTA
* **
14640031 ATTTTACACTACAAGGGTATTTCAATA
1 ATTTTACACTACAAGGGTATGTCGGTA
14640058 ATTTTACA
1 ATTTTACA
14640066 AATTAAGGGT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGGTA
Found at i:14640073 original size:27 final size:27
Alignment explanation
Indices: 14640017--14640322 Score: 273
Period size: 27 Copynumber: 11.4 Consensus size: 27
14640007 TTACACTATA
** * *
14640017 AGGGTATTTTGGTAATTTTAC-ACTACA
1 AGGGTATTTCAGTAATTTTACAAAT-CG
* **
14640044 AGGGTATTTCAATAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
14640071 AGGGTATTTTAGTAATTTTACAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
14640098 AGAGTAGTTT-GGTAATTTTACAAATCG
1 AGGGTA-TTTCAGTAATTTTACAAATCG
* * *
14640125 AGGGTGTTTCAGTAATTTTAAAAATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
14640152 AGGGTATTTCGGTAATTTCACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
14640179 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * *
14640206 AGGGCATTCCAATAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
14640232 AGGGTGTTTCAGTAATTTTACAAATCT
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
14640259 AGGATATTTC-GATAATTTTAC-AAGCAG
1 AGGGTATTTCAG-TAATTTTACAAATC-G
* * * *
14640286 GGGGTACTTCGGTAATTTTACAAA-CC
1 AGGGTATTTCAGTAATTTTACAAATCG
14640312 AGGGGTATTTC
1 A-GGGTATTTC
14640323 GGTACTTTCT
Statistics
Matches: 229, Mismatches: 41, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 29 0.13
27 192 0.84
28 8 0.03
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Done.