Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 93 of 356
Found at i:29193279 original size:41 final size:41
Alignment explanation
Indices: 29193229--29193322 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 41
29193219 TTTTTTGCAG
* * *
29193229 GTCTTGAGACTTAGGGGTTATGTTTTGAGACCTA-TC-CTCAT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGC-C-T
*
29193270 GTCTCGAGACTTAGGGGTTATGTCTAGATACCTAGTCGCCT
1 GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
29193311 GTCTCGAGACTT
1 GTCTCGAGACTT
29193323 TGGATCTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 43 0.91
42 3 0.06
43 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGTTATGTCTAGAGACCTAGTCGCCT
Found at i:29197550 original size:44 final size:42
Alignment explanation
Indices: 29197462--29197625 Score: 154
Period size: 44 Copynumber: 3.8 Consensus size: 42
29197452 AAGCCCCATA
* * * *
29197462 CGATTTGAGATTTACGTGTAAGACCATGTCTGTGACGTTGGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAG-TAGCAT
* *
29197506 CGATTTGAGATTTACGTGTAAGACCATGTCTGGGAAATCAGCAT
1 CGATTT-AGATTTACATGTAAGACCATGTCTGGGAAGT-AGCAT
* *
29197550 CGTATTTA-ATTT-CATGTAAGACCCTGTTTGGGATAGTAGCAT
1 CG-ATTTAGATTTACATGTAAGACCATGTCTGGGA-AGTAGCAT
* *
29197592 CGATATTTGA-TTACATGTAAGACCACGTCTGGGA
1 CGAT-TTAGATTTACATGTAAGACCATGTCTGGGA
29197626 CGTTGGCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
41 2 0.02
42 29 0.28
43 26 0.25
44 41 0.40
45 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
CGATTTAGATTTACATGTAAGACCATGTCTGGGAAGTAGCAT
Found at i:29200024 original size:33 final size:33
Alignment explanation
Indices: 29199987--29200064 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
29199977 TGGCCCTGTC
* * *
29199987 ATGGTCTTACACTCGTAG-TGTCATAACCCAGTT
1 ATGGTCTTACACTC-AAGATGCCATAACCCAGCT
*
29200020 ATGGTCTTATC-TTCAAGATGCCATAACCCAGCT
1 ATGGTCTTA-CACTCAAGATGCCATAACCCAGCT
29200053 ATGGTCTTACAC
1 ATGGTCTTACAC
29200065 ATATATATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
32 3 0.08
33 33 0.89
34 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACTCAAGATGCCATAACCCAGCT
Found at i:29200929 original size:19 final size:19
Alignment explanation
Indices: 29200907--29200943 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
29200897 AAATATCAAG
29200907 AAAAGAGCAAGAATTGAAA
1 AAAAGAGCAAGAATTGAAA
*
29200926 AAAAGAGCAAGACTTGAA
1 AAAAGAGCAAGAATTGAA
29200944 CTAACATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAAGAGCAAGAATTGAAA
Found at i:29216345 original size:39 final size:39
Alignment explanation
Indices: 29216234--29216363 Score: 170
Period size: 40 Copynumber: 3.3 Consensus size: 39
29216224 GGACTAAGAT
* * *
29216234 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
**
29216274 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
29216314 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
29216353 CCGAAGGCATT
1 CCGAAGGCATT
29216364 TGAACGAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.47
40 42 0.53
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:29216383 original size:79 final size:79
Alignment explanation
Indices: 29216234--29216398 Score: 179
Period size: 79 Copynumber: 2.1 Consensus size: 79
29216224 GGACTAAGAT
* * * ** ** *
29216234 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
**
29216299 AATCCGGGTTATGTC
66 AATCC-GGTTAAATC
* * * *
29216314 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
29216378 TATCCGGTTAAATC
66 AATCCGGTTAAATC
29216392 CCGAAGG
1 CCGAAGG
29216399 TACGTGATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.70
80 7 0.10
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGTTAAATC
Found at i:29219018 original size:17 final size:17
Alignment explanation
Indices: 29218996--29219030 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
29218986 TATATTCGGT
29218996 TATATGATTAGCATATG
1 TATATGATTAGCATATG
*
29219013 TATATGATTAGCTTATG
1 TATATGATTAGCATATG
29219030 T
1 T
29219031 GTTTATGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
TATATGATTAGCATATG
Found at i:29226422 original size:18 final size:18
Alignment explanation
Indices: 29226393--29226442 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
29226383 TTCAAAATAT
29226393 AAAGACAAAATAAACATAA
1 AAAGA-AAAATAAACATAA
29226412 AAAGAAAAATAAACATAA
1 AAAGAAAAATAAACATAA
* *
29226430 AAATAAACATAAA
1 AAAGAAAAATAAA
29226443 GACAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (18 bp):
AAAGAAAAATAAACATAA
Found at i:29226429 original size:6 final size:6
Alignment explanation
Indices: 29226399--29226442 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
29226389 ATATAAAGAC
* * * *
29226399 AAAATA AACATA AAAAGA AAAATA AACATA AAAATA AACATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
29226443 GACAAATGGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.77, C:0.07, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:29231041 original size:33 final size:33
Alignment explanation
Indices: 29231004--29231078 Score: 141
Period size: 33 Copynumber: 2.3 Consensus size: 33
29230994 AATGGTACAC
29231004 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
*
29231037 TTGAAAAGGTTATGTACACTTTGTGTGTACAAT
1 TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
29231070 TTGAAAAGG
1 TTGAAAAGG
29231079 CTATTGTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (33 bp):
TTGAAAAGGTTACGTACACTTTGTGTGTACAAT
Found at i:29232178 original size:11 final size:11
Alignment explanation
Indices: 29232162--29232201 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
29232152 AGAGAATGAT
29232162 GAATGAGTGAG
1 GAATGAGTGAG
29232173 GAATGAGTGAG
1 GAATGAGTGAG
* *
29232184 GGATGAATGAG
1 GAATGAGTGAG
*
29232195 GGATGAG
1 GAATGAG
29232202 GGATGATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.17
Consensus pattern (11 bp):
GAATGAGTGAG
Found at i:29237625 original size:80 final size:78
Alignment explanation
Indices: 29237541--29237698 Score: 298
Period size: 80 Copynumber: 2.0 Consensus size: 78
29237531 TGAAAGTGTA
29237541 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
29237606 CCTAATGGCCGATGT
64 CCTAATGGCCGATGT
29237621 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29237686 TAATGGCCGATGT
66 TAATGGCCGATGT
29237699 GATGAATGTG
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
78 31 0.40
80 47 0.60
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (78 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGT
Found at i:29237627 original size:31 final size:31
Alignment explanation
Indices: 29237590--29237651 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
29237580 TGAAAGTGTA
29237590 TATATATGTGATAAGGCCTAATGGCCGATGT
1 TATATATGTGATAAGGCCTAATGGCCGATGT
29237621 TATATATGTGATAAGGCCTAATGGCCGATGT
1 TATATATGTGATAAGGCCTAATGGCCGATGT
29237652 GATGAATGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (31 bp):
TATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:29237631 original size:49 final size:47
Alignment explanation
Indices: 29237331--29237620 Score: 501
Period size: 47 Copynumber: 6.1 Consensus size: 47
29237321 TTAGGATTCT
* * *
29237331 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
29237378 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29237425 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29237472 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29237519 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29237568 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29237617 ATGT
1 ATGT
29237621 TATATATGTG
Statistics
Matches: 237, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
46 1 0.00
47 156 0.66
49 80 0.34
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29237661 original size:31 final size:31
Alignment explanation
Indices: 29237591--29237662 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 31
29237581 GAAAGTGTAT
*
29237591 ATATATGTGATAAGGCCTAATGGCCGATGTT
1 ATATATGTGATAAGGCCTAATGGCCGATGTG
29237622 ATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATATATGTGATAAGGCCTAATGGCCGATGTG
29237653 ATGA-ATGTGA
1 AT-ATATGTGA
29237663 AAGTGTATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (31 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:29237673 original size:47 final size:47
Alignment explanation
Indices: 29237621--29237870 Score: 455
Period size: 47 Copynumber: 5.3 Consensus size: 47
29237611 TGGCCGATGT
29237621 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
29237668 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
29237715 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29237762 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
29237809 TATATATGTGATAAGGCCTAATGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
29237856 TATAAATGTGATAAG
1 TATATATGTGATAAG
29237871 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 196 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:29238045 original size:37 final size:37
Alignment explanation
Indices: 29237989--29238067 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
29237979 CCGAGCTCTA
* * *
29237989 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
29238026 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29238063 AAGAC
1 AAGAC
29238068 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29248799 original size:17 final size:18
Alignment explanation
Indices: 29248769--29248802 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29248759 AATTTCTATT
29248769 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
29248787 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
29248803 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:29269068 original size:33 final size:34
Alignment explanation
Indices: 29268995--29269092 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
29268985 AGTTTACTGC
* *
29268995 TATGTACACCTTGTGTGTAAAACTTGAAAA-GGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
29269028 TACGTACACTTTGAGTGTACCACTTGAAAAGGGA
1 TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
* * *
29269062 -ATGTACACCTCGAGTGTACGACTGGAAAAGG
1 TATGTACACCTTGAGTGTACAACTTGAAAAGG
29269093 TTACGTCCGT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 51 0.94
34 3 0.06
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (34 bp):
TATGTACACCTTGAGTGTACAACTTGAAAAGGGA
Found at i:29270796 original size:21 final size:21
Alignment explanation
Indices: 29270771--29270811 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29270761 CGGCAATTTC
29270771 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
29270792 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
29270812 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:29276607 original size:21 final size:21
Alignment explanation
Indices: 29276582--29276622 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
29276572 CGGCAATTTC
29276582 AATTCATACTT-TTCAACCATG
1 AATTC-TACTTATTCAACCATG
29276603 AATTCTACTTATTCAACCAT
1 AATTCTACTTATTCAACCAT
29276623 CATTTAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTCTACTTATTCAACCATG
Found at i:29282900 original size:46 final size:46
Alignment explanation
Indices: 29282713--29282909 Score: 147
Period size: 50 Copynumber: 4.2 Consensus size: 46
29282703 ATGCCGAGGC
* *
29282713 CATGTCCCAGACATGGTCGTACACT-AGCTTACA-CGTCAAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTTACATC-TCAGGTCGATG
* * * *
29282759 CGATGTCCCAGAAATGTTCTTACACTGACTTTAACATATCTCTGCT-GATG
1 C-ATGTCCCAGACATGGTCTTACACTGAC-TT-AC--ATCTCAGGTCGATG
* * *
29282809 CCATGTCCCATACATGGTCTTACACTGAC--ACATCT-TGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTTACATCTCAG--GTCGATG
*
29282855 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACTTACATCTC-AGGTCGATG
*
29282901 CGTGTCCCA
1 CATGTCCCA
29282910 ATACACTAGC
Statistics
Matches: 120, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
43 2 0.02
44 16 0.13
45 13 0.11
46 27 0.22
47 22 0.18
48 4 0.03
49 2 0.02
50 28 0.23
51 5 0.04
52 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGACTTACATCTCAGGTCGATG
Found at i:29287857 original size:20 final size:22
Alignment explanation
Indices: 29287834--29287875 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29287824 AGAATCCCAA
29287834 ATTTA-GTTTTTA-TATGTTCT
1 ATTTACGTTTTTATTATGTTCT
*
29287854 ATTTACTTTTTTATTATGTTCT
1 ATTTACGTTTTTATTATGTTCT
29287876 CTCTATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
ATTTACGTTTTTATTATGTTCT
Found at i:29307471 original size:40 final size:41
Alignment explanation
Indices: 29307366--29307511 Score: 167
Period size: 40 Copynumber: 3.6 Consensus size: 41
29307356 GCTACTCGTT
* *
29307366 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
*
29307406 CAAATGCCTTCGGGACTTAACCCGGATT-TAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
* ** * *
29307446 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAATAAC-TCGCA
29307487 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29307512 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.04
40 74 0.81
41 13 0.14
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAATAACTCGCA
Found at i:29314942 original size:40 final size:40
Alignment explanation
Indices: 29314757--29314982 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
29314747 GCTACTCGTT
* * * *
29314757 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
29314797 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
29314837 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
29314877 CAAATGCCTTCTGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
29314917 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
29314958 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
29314983 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:29316996 original size:73 final size:75
Alignment explanation
Indices: 29316889--29317030 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 75
29316879 TTTTGAGCAG
* * * *
29316889 ATATTATTTCATTCGTAATTATACTATGTAAATAATTACACTTAGACCCTTTT-GTTCTTTGGA-
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGA-CCTTTTCGTTCTTTGGAT
29316952 CTTTCTCCCAA
65 CTTTCTCCCAA
* ** **
29316963 ATATTA-TTCATTCATGATCATACCATGCAAATAATTATTCTTAGATTTTTTCGTTCTTTGGATC
1 ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCTTTTCGTTCTTTGGATC
29317027 TTTC
66 TTTC
29317031 GTTCGCCTCT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 4 0.07
73 42 0.74
74 11 0.19
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.46
Consensus pattern (75 bp):
ATATTATTTCATTCATAATCATACCATGCAAATAATTACACTTAGACCTTTTCGTTCTTTGGATC
TTTCTCCCAA
Found at i:29321812 original size:44 final size:44
Alignment explanation
Indices: 29321746--29322183 Score: 251
Period size: 44 Copynumber: 9.6 Consensus size: 44
29321736 TGGCGAATCG
* *
29321746 TATCTCCCTGAATTTGCAGTAGAGCAGATTGAAGCCATAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * * *
29321790 TATCTCCCTGAAGTTGCGGTAGAACAGATTGAAGCCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * **
29321834 TATCTCCCTGAAGTTGCAG-CGAAGCAGACTAAAGAAAGTGAA-TCT
1 TATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAGCCA-T-AAGTCT
* * * *
29321879 TATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAATCATGGCGAATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGC--C--AT-A-----AGTCT
* * **
29321933 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCCCAAGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
* * * * * * ** *
29321977 TATCTCCC-AAGAGTTACAATGGAGCAAACTAAAGATAGCAAGTCT
1 TATCTCCCTGA-AGTTGCAGTAGAGCAGATTAAAGCCA-TAAGTCT
* * *
29322022 TATCTACCT-AATGTTGCAGTAGAGTAGATTGAAG--ATAGCAGATCT
1 TATCTCCCTGAA-GTTGCAGTAGAGCAGATTAAAGCCATA--AG-TCT
* * *
29322067 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCATAA-TCCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGT-CT
* * ** * **
29322111 TATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAACCT
1 TATCTCCCTGAAGTTGCAGTAGAGC-AGAT-TAAAGCCATAAGTCT
* *
29322157 TATCTCCCTGAAGTTGTAGTGGAGCAG
1 TATCTCCCTGAAGTTGCAGTAGAGCAG
29322184 GTTGAAATTA
Statistics
Matches: 306, Mismatches: 60, Indels: 55
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 125 0.41
45 96 0.31
46 36 0.12
47 3 0.01
48 2 0.01
49 2 0.01
52 1 0.00
53 1 0.00
54 35 0.11
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAAGTCT
Found at i:29322051 original size:143 final size:143
Alignment explanation
Indices: 29321787--29322044 Score: 333
Period size: 143 Copynumber: 1.8 Consensus size: 143
29321777 AAGCCATAAG
* * *
29321787 TCTTATCTCCCTGAAGTTGCGGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
* * * * * *
29321852 GCGAAGCAGACTAAAGAAAGTGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
29321917 AAATCATGGCGAA
131 AAATCATGGCGAA
* * *
29321930 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCCCAAGTCTTATCTCCCA-AGAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGA-AGTTAC
* * *
29321994 AATGGAGCAAACTAAAGATAG-CAAGTCTTATCTACCT-AATGTTGCAGTAGA
65 AACGAAGCAAACTAAAGAAAGTCAA-TCTTATCTACCTGAA-GTTGCAGTAGA
29322045 GTAGATTGAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
142 5 0.05
143 92 0.95
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (143 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGCCACAAGTCTTATCTCCCAGAAGTTACA
ACGAAGCAAACTAAAGAAAGTCAATCTTATCTACCTGAAGTTGCAGTAGAACAGATTAAAGCTAC
AAATCATGGCGAA
Found at i:29322182 original size:46 final size:46
Alignment explanation
Indices: 29322065--29322208 Score: 159
Period size: 46 Copynumber: 3.2 Consensus size: 46
29322055 GATAGCAGAT
* * * *
29322065 CTTATCTCCCTGAAGTTGTAGTGGAGC-AGATTAAAA-CCATAATC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * *
29322109 CTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAAATACACAAAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
* * * * *
29322155 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAATTAC-CAAAT
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
29322200 CTTATCTCC
1 CTTATCTCC
29322209 TTTAAGTTCC
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
44 24 0.29
45 21 0.25
46 38 0.46
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (46 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAAGATAAAAATACACAAAC
Found at i:29323946 original size:3 final size:3
Alignment explanation
Indices: 29323938--29323979 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
29323928 TACTATTACC
29323938 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
29323980 TATTTCAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:29325549 original size:85 final size:84
Alignment explanation
Indices: 29325416--29325571 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 84
29325406 TTCCGATATA
* * * *
29325416 TGATTTCGTGTAAGACAACGTCTGGGACGTTGGCATTGATTTGAGATTTACTTGTAAGACCATGT
1 TGATTTCGTGTAAGACAACGTCAGGGACGTTGGCATCGATTTGAGATTT-CATGTAAGACCACGT
29325481 CTAGGACATCGCATCGTATT
65 CTAGGACATCGCATCGTATT
* * *
29325501 TGATTTCGTGTAAGAC-CCAGTCAGGGACAG-TGGCATCGATATT-TGATTTCATGTAAGATCAC
1 TGATTTCGTGTAAGACAAC-GTCAGGGAC-GTTGGCATCGAT-TTGAGATTTCATGTAAGACCAC
29325563 GTCTAGGAC
63 GTCTAGGAC
29325572 GTAGGCATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
84 20 0.33
85 38 0.62
86 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (84 bp):
TGATTTCGTGTAAGACAACGTCAGGGACGTTGGCATCGATTTGAGATTTCATGTAAGACCACGTC
TAGGACATCGCATCGTATT
Found at i:29325579 original size:43 final size:41
Alignment explanation
Indices: 29325409--29325579 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 41
29325399 CATAGGATTC
* *
29325409 CGATATATGATTTCGTGTAAGACAACGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGAC-ACGTCTAGGACG-TGGCAT
* * * * * *
29325452 TGAT-TTGAGATTTACTTGTAAGACCATGTCTAGGACATCGCAT
1 CGATATT-TGATTT-CGTGTAAGA-CACGTCTAGGACGTGGCAT
*
29325495 CG-TATTTGATTTCGTGTAAGACCCAGTC-AGGGACAGTGGCAT
1 CGATATTTGATTTCGTGTAAGACAC-GTCTA-GGAC-GTGGCAT
*
29325537 CGATATTTGATTTCATGTAAGATCACGTCTAGGACGTAGGCAT
1 CGATATTTGATTTCGTGTAAGA-CACGTCTAGGACGT-GGCAT
29325580 TGTACGAGTT
Statistics
Matches: 100, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 2 0.02
41 15 0.15
42 16 0.16
43 46 0.46
44 20 0.20
45 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
CGATATTTGATTTCGTGTAAGACACGTCTAGGACGTGGCAT
Found at i:29333131 original size:42 final size:43
Alignment explanation
Indices: 29333068--29333178 Score: 129
Period size: 42 Copynumber: 2.6 Consensus size: 43
29333058 TTGATTTGAA
*
29333068 ATTTACGTGTAAGACCATGTCTGGGACA-TCGACATCGTATTTG
1 ATTTACGTGTAAGACCATGTCTGGGACAGT-GACATCATATTTG
* *
29333111 ATTT-CGTGTAAGACCCTGTCTGGGACAGTGGCATCATATTTG
1 ATTTACGTGTAAGACCATGTCTGGGACAGTGACATCATATTTG
* * * *
29333153 A-TTACATGTAATATCACGTCTGGGAC
1 ATTTACGTGTAAGACCATGTCTGGGAC
29333179 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 2 0.03
42 51 0.88
43 5 0.09
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
ATTTACGTGTAAGACCATGTCTGGGACAGTGACATCATATTTG
Found at i:29336970 original size:30 final size:30
Alignment explanation
Indices: 29336936--29336996 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29336926 TCCTTAACTC
29336936 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29336966 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29336996 A
1 A
29336997 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29338256 original size:40 final size:40
Alignment explanation
Indices: 29338195--29338339 Score: 191
Period size: 40 Copynumber: 3.6 Consensus size: 40
29338185 CAATGCCTCA
* * * *
29338195 CACACTAAGTGCCGTACATAGCCGAAGCTATCTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
**
29338235 CACACTAAGTGCCATATATAGCTAAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* * *
29338275 CACGCTAAGTGTCATATATAGCCGAAGCTATGTCGAATCC
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* *
29338315 CACACTAAGTGCCACAAATAGCCGA
1 CACACTAAGTGCCATATATAGCCGA
29338340 TTTGTCATCG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
Found at i:29341356 original size:43 final size:42
Alignment explanation
Indices: 29341212--29341383 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 42
29341202 GGTTATTGAG
* *
29341212 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGAATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* *
29341254 ATTGAGATTACATGTAAGACCATGTCTGGGAC-TTGTCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
29341297 AAT-CGATTTCGTGTAAGACCTTGTTTGGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * *
29341340 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
29341381 ATG
1 ATG
29341384 AGCTTATGTG
Statistics
Matches: 104, Mismatches: 21, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 39 0.38
43 60 0.58
44 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:29345036 original size:17 final size:17
Alignment explanation
Indices: 29345008--29345041 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29344998 AATCGATTGG
29345008 TTGATACTCACTTATCTC
1 TTGATACTCACTT-TCTC
29345026 TTGAT-CTCACTTTCTC
1 TTGATACTCACTTTCTC
29345042 AACCAGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.18, C:0.29, G:0.06, T:0.47
Consensus pattern (17 bp):
TTGATACTCACTTTCTC
Found at i:29351418 original size:21 final size:21
Alignment explanation
Indices: 29351392--29351436 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
29351382 AACATCAAAG
* *
29351392 ATGTTCATACTAATAATTAAA
1 ATGTTCACACTAAGAATTAAA
*
29351413 ATGTTCACACTAAGCATTAAA
1 ATGTTCACACTAAGAATTAAA
29351434 ATG
1 ATG
29351437 ATGTTGATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.33
Consensus pattern (21 bp):
ATGTTCACACTAAGAATTAAA
Found at i:29360643 original size:6 final size:6
Alignment explanation
Indices: 29360613--29360737 Score: 105
Period size: 6 Copynumber: 20.3 Consensus size: 6
29360603 AAGAAACATT
* *
29360613 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
29360661 ATCAG- GTGACAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATTAGT
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
29360711 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
29360738 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
5 6 0.06
6 77 0.80
7 9 0.09
8 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:29360677 original size:25 final size:25
Alignment explanation
Indices: 29360622--29360737 Score: 155
Period size: 25 Copynumber: 4.7 Consensus size: 25
29360612 TATCAGAACT
* *
29360622 AGAATCAAAATGAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
29360646 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
29360671 AGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
29360696 AGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
29360721 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
29360738 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
24 17 0.21
25 62 0.77
26 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:29360892 original size:27 final size:26
Alignment explanation
Indices: 29360855--29360962 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
29360845 AGCATGGTTG
* *
29360855 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
29360881 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
29360908 GCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* *
29360935 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
29360962 C
1 C
29360963 TTAATAGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 12 0.17
27 54 0.75
28 6 0.08
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:29361605 original size:81 final size:81
Alignment explanation
Indices: 29361499--29361966 Score: 569
Period size: 81 Copynumber: 5.8 Consensus size: 81
29361489 GGGGCAAAAC
* ** * **
29361499 TCGGTAATTCTACCCTACAGAGGTATTTTGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
*
29361564 ATCCTACAGGGGTATT
66 ACCCTACAGGGGTATT
* * * * * *
29361580 TCAGTAATTCTACCTTACAGGGGTATTTCAATATTTCTACCCTACAAGGGTATTTCGGTATTTCT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
*
29361645 ACCCTACAAGGGTATT
66 ACCCTACAGGGGTATT
* * * * * * *
29361661 TCGATAATTCTACCTTACAGGGGTATTTTAGTAATTCTATCCTATAGGGGTATTTCAGTATTTCT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
*
29361726 ACCCTACAAGGGTATT
66 ACCCTACAGGGGTATT
* * * * * *
29361742 TTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
29361807 ACCCTACAGGGGTATT
66 ACCCTACAGGGGTATT
* * * * * *
29361823 TCGGTATTTCTACCCTATAAGGGTATTTTAGTAATTCTACCTTACAAGTGTATTTCAGTAATTCT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
29361888 ACCCTACAGGGGTATT
66 ACCCTACAGGGGTATT
* * * * *
29361904 TTGATAATTCTACCCTACAGGGGTATTTC-GATAATTCTATCCTACAAAGGTATTTTAGTAATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAAGGGTATTTCAGTAATT
29361967 TTGTAATTTG
Statistics
Matches: 336, Mismatches: 50, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
80 1 0.00
81 335 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (81 bp):
TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCT
ACCCTACAGGGGTATT
Found at i:29361965 original size:27 final size:27
Alignment explanation
Indices: 29361502--29361966 Score: 495
Period size: 27 Copynumber: 17.2 Consensus size: 27
29361492 GCAAAACTCG
* *
29361502 GTAATTCTACCCTACAGAGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
29361529 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
29361556 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* *
29361583 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * * **
29361610 ATATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
29361637 GTATTTCTACCCTACAAGGGTA-TTTC
1 GTAATTCTACCCTACAGGGGTATTTTA
*
29361663 GATAATTCTACCTTACAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTTA
* * *
29361691 GTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
29361718 GTATTTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * **
29361745 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
*
29361772 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
* **
29361799 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTTA
* * *
29361826 GTATTTCTACCCTATAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTTA
* * * *
29361853 GTAATTCTACCTTACAAGTGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTTA
29361880 GTAATTCTACCCTACAGGGGTATTTT-
1 GTAATTCTACCCTACAGGGGTATTTTA
*
29361906 GATAATTCTACCCTACAGGGGTA-TTTC
1 G-TAATTCTACCCTACAGGGGTATTTTA
* **
29361933 GATAATTCTATCCTACAAAGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTTA
29361961 GTAATT
1 GTAATT
29361967 TTGTAATTTG
Statistics
Matches: 376, Mismatches: 57, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
26 7 0.02
27 361 0.96
28 8 0.02
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTTA
Found at i:29361966 original size:108 final size:108
Alignment explanation
Indices: 29361506--29361959 Score: 662
Period size: 108 Copynumber: 4.2 Consensus size: 108
29361496 AACTCGGTAA
* *
29361506 TTCTACCCTAC-AGAGGTATTTTGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTATCCTA
1 TTCTACCCTACAAG-GGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTA
* * *
29361570 CAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAATAT
65 CAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAT
* * *
29361614 TTCTACCCTACAAGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCTTAC
1 TTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
* *
29361679 AGGGGTATTTTAGTAATTCTATCCTATAGGGGTATTTC-AGTAT
66 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGA-TAT
29361722 TTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
* * *
29361787 AGGGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAT
66 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAT
* * * * * *
29361830 TTCTACCCTATAAGGGTATTTTAGTAATTCTACCTTACAAGTGTATTTCAGTAATTCTACCCTAC
1 TTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
*
29361895 AGGGGTATTTT-GATAATTCTACCCTACAGGGGTATTTCGATAA
66 AGGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTCGATAT
* *
29361938 TTCTATCCTACAAAGGTATTTT
1 TTCTACCCTACAAGGGTATTTT
29361960 AGTAATTTTG
Statistics
Matches: 312, Mismatches: 30, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
107 1 0.00
108 309 0.99
109 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (108 bp):
TTCTACCCTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC
AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATAT
Found at i:29362019 original size:27 final size:27
Alignment explanation
Indices: 29361952--29362022 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
29361942 ATCCTACAAA
* *
29361952 GGTATTTTAGTAATTTTGTAATTTGAG
1 GGTAATTTGGTAATTTTGTAATTTGAG
*** *
29361979 GGTAAAACGATAATTTTGTAATTTGAG
1 GGTAATTTGGTAATTTTGTAATTTGAG
29362006 GGTAATTTGGTAATTTT
1 GGTAATTTGGTAATTTT
29362023 ACAAGTCGAA
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (27 bp):
GGTAATTTGGTAATTTTGTAATTTGAG
Found at i:29362036 original size:27 final size:27
Alignment explanation
Indices: 29362015--29362234 Score: 231
Period size: 27 Copynumber: 8.3 Consensus size: 27
29362005 GGGTAATTTG
*
29362015 GTAATTTTACAAGTCGAAGGTATTTTC-
1 GTAATTTTACAAATCGAAGGTA-TTTCA
*
29362042 GTAATTTTACAAATC-AGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
29362068 GTAATTTTGCAAATC-AGAGGTATTTCG
1 GTAATTTTACAAATCGA-AGGTATTTCA
*
29362095 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
29362122 GTAATTTTAC-AATCGACGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
29362148 GTAATTTTACAAATCG-AGGATATTTCA
1 GTAATTTTACAAATCGAAGG-TATTTCA
* * *
29362175 GTAATTTTATAAA-CCAAGGGTACTTT-G
1 GTAATTTTACAAATCGAA-GGTA-TTTCA
* **
29362202 GTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
29362228 GTAATTT
1 GTAATTT
29362235 GATAAACTAA
Statistics
Matches: 164, Mismatches: 19, Indels: 21
0.80 0.09 0.10
Matches are distributed among these distances:
25 7 0.04
26 59 0.36
27 92 0.56
28 6 0.04
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:29362089 original size:53 final size:54
Alignment explanation
Indices: 29362015--29362234 Score: 263
Period size: 53 Copynumber: 4.1 Consensus size: 54
29362005 GGGTAATTTG
* *
29362015 GTAATTTTACAAGTCGAAGGTATTTTC-GTAATTTTACAAATC-AGGGTATTTCA
1 GTAATTTTACAAATCGACGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCA
* *
29362068 GTAATTTTGCAAATCAGA-GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATC-GACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
*
29362122 GTAATTTTAC-AATCGACGGTATTTCAGTAATTTTACAAATCGAGGATATTTCA
1 GTAATTTTACAAATCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
* * * * * * *
29362175 GTAATTTTATAAACCAAGGGTACTTT-GGTAATTTTACAACT-GGGGGTATTTCA
1 GTAATTTTACAAATCGACGGTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCA
29362228 GTAATTT
1 GTAATTT
29362235 GATAAACTAA
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
52 6 0.04
53 96 0.65
54 43 0.29
55 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAATCGACGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
Found at i:29362101 original size:80 final size:78
Alignment explanation
Indices: 29362010--29362234 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 78
29362000 TTTGAGGGTA
29362010 ATTT-GGTAATTTTACAAGTCGAAGGTATTTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
1 ATTTCGGTAATTTTACAA-TCGAAGGTA-TTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
*
29362074 TTGCAAATCAGAGG-T
64 TTACAAATC-GAGGAT
* *
29362089 ATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTAC-AATCGACGGTATTTCAGTAAT
1 ATTTCGGTAATTTTAC-AATCGAAGGTATTTC-GTAATTTTACAAATC-AGGGTATTTCAGTAAT
29362153 TTTACAAATCGAGGAT
63 TTTACAAATCGAGGAT
* * * * * * **
29362169 ATTTCAGTAATTTTATAAACCAAGGGTACTTTGGTAATTTTACAACTGGGGGTATTTCAGTAATT
1 ATTTCGGTAATTTTACAATCGAA-GGTA-TTTCGTAATTTTACAAATCAGGGTATTTCAGTAATT
29362234 T
64 T
29362235 GATAAACTAA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
79 20 0.16
80 98 0.78
81 7 0.06
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (78 bp):
ATTTCGGTAATTTTACAATCGAAGGTATTTCGTAATTTTACAAATCAGGGTATTTCAGTAATTTT
ACAAATCGAGGAT
Found at i:29363849 original size:42 final size:43
Alignment explanation
Indices: 29363732--29363901 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
29363722 TAGGATTTCG
* *
29363732 ATATGTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCA
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
* * *
29363775 ATTTAAGATTTACGTGTAAGACCATGTATGGGACATTGGCATC-
1 ATATATGATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCA
* * * * **
29363818 GTATATGATTTCGTGTAAGACCCTATCTGGGACAGTGGCATTG
1 ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
* * * * *
29363861 ATATTTGATTACATGTAAGAGC-TCGTCTGGGACGTTGGCAT
1 ATATATGATTTCGTGTAAGACCAT-GTCTGGGACATTGGCAT
29363902 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.26
43 47 0.46
44 29 0.28
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCA
Found at i:29380232 original size:26 final size:26
Alignment explanation
Indices: 29380196--29380249 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
29380186 ATTTTGAGCT
29380196 TAAAGGCCTATTTAGTGCAATGAACC
1 TAAAGGCCTATTTAGTGCAATGAACC
29380222 TAAAGGCCTATTTAGTGCAATGAACC
1 TAAAGGCCTATTTAGTGCAATGAACC
29380248 TA
1 TA
29380250 CATTACAAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (26 bp):
TAAAGGCCTATTTAGTGCAATGAACC
Found at i:29384656 original size:24 final size:24
Alignment explanation
Indices: 29384629--29384676 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
29384619 TGAGTTTACG
*
29384629 TAAACTCAGTGTGTAATCCCATAT
1 TAAACTCAATGTGTAATCCCATAT
29384653 TAAACTCAATGTGTAATCCCATAT
1 TAAACTCAATGTGTAATCCCATAT
29384677 AAGCAAACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.33
Consensus pattern (24 bp):
TAAACTCAATGTGTAATCCCATAT
Found at i:29384806 original size:18 final size:18
Alignment explanation
Indices: 29384783--29384817 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29384773 CCCATATCAG
*
29384783 TAACAGTAAATAGTGCAA
1 TAACAGTAAACAGTGCAA
29384801 TAACAGTAAACAGTGCA
1 TAACAGTAAACAGTGCA
29384818 GCAGCAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAA
Found at i:29385111 original size:23 final size:23
Alignment explanation
Indices: 29385085--29385134 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
29385075 ACCTCATGCA
29385085 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
29385108 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
29385131 ATGC
1 ATGC
29385135 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:29385263 original size:27 final size:27
Alignment explanation
Indices: 29385225--29385349 Score: 180
Period size: 27 Copynumber: 4.6 Consensus size: 27
29385215 GTATTTCGGT
29385225 ATTTTATCACATAAGGGCAAAATTATC
1 ATTTTATCACATAAGGGCAAAATTATC
*
29385252 ATTTTATCACATAAGGG-AAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATTA-TC
* *
29385279 ATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATTATC
* *
29385306 ATTTTATCACCTAAGGGCAAAATTTTC
1 ATTTTATCACATAAGGGCAAAATTATC
*
29385333 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
29385350 TTCAGATACG
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.07
27 77 0.88
28 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATTATC
Found at i:29388534 original size:18 final size:18
Alignment explanation
Indices: 29388511--29388545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29388501 CCCATATCAG
29388511 TAACAGTAAACAGTGCAA
1 TAACAGTAAACAGTGCAA
*
29388529 TAACAGTAAATAGTGCA
1 TAACAGTAAACAGTGCA
29388546 GCAGTAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAA
Found at i:29388838 original size:23 final size:23
Alignment explanation
Indices: 29388812--29388861 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
29388802 ACCCTATCCA
29388812 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
29388835 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
29388858 ATGC
1 ATGC
29388862 TCAAATGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:29389008 original size:27 final size:26
Alignment explanation
Indices: 29388950--29389048 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
29388940 GGGTATTTCG
*
29388950 GTCATTTTATCAGATAAGGGAAAATC
1 GTCATTTTATCACATAAGGGAAAATC
29388976 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-AAAATC
* *
29389003 GTCATTTTATCACTTAGGGGAAAATC
1 GTCATTTTATCACATAAGGGAAAATC
* *
29389029 ATCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
29389049 TTTAGGTATG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 41 0.63
27 24 0.37
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (26 bp):
GTCATTTTATCACATAAGGGAAAATC
Found at i:29392315 original size:21 final size:21
Alignment explanation
Indices: 29392285--29392331 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
29392275 AATAGCTTTC
*
29392285 AGAATCCTGAGACAGCACTTA
1 AGAATACTGAGACAGCACTTA
29392306 AGAATACTGAGACAGCACTTA
1 AGAATACTGAGACAGCACTTA
29392327 AGAAT
1 AGAAT
29392332 CAACAAGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAATACTGAGACAGCACTTA
Found at i:29396059 original size:14 final size:13
Alignment explanation
Indices: 29396033--29396072 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
29396023 GTTTAAATAC
*
29396033 TTTTATTTATTAT
1 TTTTATTTTTTAT
29396046 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
29396060 TTTTATCTTTTTA
1 TTTTAT-TTTTTA
29396073 AAACTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:29403118 original size:41 final size:41
Alignment explanation
Indices: 29403044--29403205 Score: 146
Period size: 41 Copynumber: 3.9 Consensus size: 41
29403034 TTTTGATATG
* * * *
29403044 TGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATT
**
29403085 TGAGAACGTGTAAGACCATGTCTAGGACATTGGCATC-ATAT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGAT-T
** * * *
29403126 ATGATTTTGTGTAAGACCCTATCTAGGACAGTGGCATCGATATT
1 -TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCG--ATT
* * * *
29403170 TTATTACATGTAAGACCTTGTCTAGGACGTTGGCAT
1 TGATTACGTGTAAGACCATGTCTAGGACATTGGCAT
29403206 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
40 2 0.02
41 32 0.34
42 30 0.32
43 28 0.29
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGATT
Found at i:29403196 original size:43 final size:42
Alignment explanation
Indices: 29403093--29403205 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
29403083 TTTGAGAACG
* ***
29403093 TGTAAGACCATGTCTAGGACATTGGCATCATATATGATTTTG
1 TGTAAGACCATGTCTAGGACAGTGGCATCATATATGATTACA
* * * *
29403135 TGTAAGACCCTATCTAGGACAGTGGCATCGATATTTTATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATC-ATATATGATTACA
*
29403178 TGTAAGACCTTGTCTAGGAC-GTTGGCAT
1 TGTAAGACCATGTCTAGGACAG-TGGCAT
29403206 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCATATATGATTACA
Found at i:29410471 original size:15 final size:15
Alignment explanation
Indices: 29410451--29410480 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
29410441 ATTCACACCT
29410451 AGTTATCACATGTTA
1 AGTTATCACATGTTA
29410466 AGTTATCACATGTTA
1 AGTTATCACATGTTA
29410481 GTCATTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (15 bp):
AGTTATCACATGTTA
Found at i:29410781 original size:22 final size:22
Alignment explanation
Indices: 29410725--29410785 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 22
29410715 CCTAAGCTGA
*
29410725 TGAACAATAAGCTCTATTGAGC
1 TGAACAATAAGCTCTATTGACC
* *
29410747 TAAAAACAGTAAGCTCTATTGACC
1 T--GAACAATAAGCTCTATTGACC
29410771 TGAACAATAAGCTCT
1 TGAACAATAAGCTCT
29410786 TTCAAGCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 13 0.41
24 19 0.59
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (22 bp):
TGAACAATAAGCTCTATTGACC
Found at i:29410807 original size:23 final size:22
Alignment explanation
Indices: 29410751--29410807 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
29410741 TTGAGCTAAA
*
29410751 AACAGTAAGCTCTATTGACCTG
1 AACAGTAAGCTCTATTAACCTG
* *
29410773 AACAATAAGCTCT-TTCAAGCTG
1 AACAGTAAGCTCTATT-AACCTG
29410795 AATCAGTAAGCTC
1 AA-CAGTAAGCTC
29410808 CAATGAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 18 0.62
23 9 0.31
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (22 bp):
AACAGTAAGCTCTATTAACCTG
Found at i:29418242 original size:24 final size:23
Alignment explanation
Indices: 29418208--29418312 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
29418198 TAAGCTGATG
29418208 AACAGTAAGCTCTATTGAGCTGAA
1 AACAGTAAGCTCTATTGAGCTG-A
* *
29418232 AATAGTAAGCTCTATTAAGCTG-
1 AACAGTAAGCTCTATTGAGCTGA
29418254 AACAGTAAGCTCT-TTCGAGCTGA
1 AACAGTAAGCTCTATT-GAGCTGA
*** * *
29418277 ATTTGTAAGCTCCAATGAGCTGA
1 AACAGTAAGCTCTATTGAGCTGA
29418300 AACAGTAAGCTCT
1 AACAGTAAGCTCT
29418313 TACGAGCTGT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 25 0.38
24 21 0.32
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (23 bp):
AACAGTAAGCTCTATTGAGCTGA
Found at i:29418259 original size:46 final size:45
Alignment explanation
Indices: 29418206--29418321 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 45
29418196 CCTAAGCTGA
* *
29418206 TGAACAGTAAGCTCTATT-GAGCTGAAAATAGTAAGCTCTATTAAGC
1 TGAACAGTAAGCTCT-TTCGAGCTG-AAATAGTAAGCTCCAATAAGC
* * *
29418252 TGAACAGTAAGCTCTTTCGAGCTGAATTTGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTTTCGAGCTGAAATAGTAAGCTCCAATAAGC
*
29418297 TGAAACAGTAAGCTCTTACGAGCTG
1 TG-AACAGTAAGCTCTTTCGAGCTG
29418322 TGGTGAGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 20 0.32
46 42 0.68
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (45 bp):
TGAACAGTAAGCTCTTTCGAGCTGAAATAGTAAGCTCCAATAAGC
Found at i:29424544 original size:43 final size:43
Alignment explanation
Indices: 29424489--29424591 Score: 145
Period size: 43 Copynumber: 2.4 Consensus size: 43
29424479 TACTGAGATG
* * *
29424489 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATT
1 TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
*
29424531 ATGATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTTATT
1 -TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
*
29424575 TGATTTCGTGTAAGACC
1 TGATTACGTGTAAGACC
29424592 CTATCTAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (43 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTTATT
Found at i:29424882 original size:28 final size:28
Alignment explanation
Indices: 29424850--29424906 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
29424840 TATGTATAAG
29424850 TATGTTTCATGCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
*
29424878 TATGTTTCATTCCAAAATGTGTTTATTT
1 TATGTTTCATGCCAAAATGTGTTTATTT
29424906 T
1 T
29424907 TCTATAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (28 bp):
TATGTTTCATGCCAAAATGTGTTTATTT
Found at i:29432698 original size:24 final size:23
Alignment explanation
Indices: 29432671--29432715 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
29432661 ATGTTGCCCT
29432671 GCTTC-AACTCAACAAACTCTTTAC
1 GCTTCTAA-TCAACAAA-TCTTTAC
*
29432695 GCTTCTGATCAACAAATCTTT
1 GCTTCTAATCAACAAATCTTT
29432716 CACTGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 13 0.68
25 1 0.05
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (23 bp):
GCTTCTAATCAACAAATCTTTAC
Found at i:29439757 original size:42 final size:44
Alignment explanation
Indices: 29439700--29439801 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
29439690 CCACTATCCT
* * *
29439700 AGACAGGGTCTTACACG-AAATCA-AA-TACAATGTCAATGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGT-CAATGCCAACGTCCC
* *
29439742 AGACATGGCCTTACACGTAAATCATAAGTCGATGCCAACGTCCC
1 AGACATGGTCTTACACGTAAATCATAAGTCAATGCCAACGTCCC
29439786 AGACATGGTCTTACAC
1 AGACATGGTCTTACAC
29439802 AAAAACACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 15 0.29
43 6 0.12
44 29 0.57
45 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (44 bp):
AGACATGGTCTTACACGTAAATCATAAGTCAATGCCAACGTCCC
Found at i:29450152 original size:43 final size:44
Alignment explanation
Indices: 29450103--29450261 Score: 182
Period size: 43 Copynumber: 3.7 Consensus size: 44
29450093 GGTTATTGAG
* *
29450103 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* *
29450147 -TGTGATGAC-TAGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACAT-GTAAGACCATATCTGGGACATTGGCATCGTAT
* * * * * *
29450189 ATATGATTTCGTGTAAGACCCTACCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
*
29450232 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
29450262 TATGACATTG
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.02
43 93 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:29454086 original size:27 final size:26
Alignment explanation
Indices: 29454046--29454157 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
29454036 AACATGGCTG
* * *
29454046 CCAGAACAAATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGACA
29454072 CCAGATACAGATAATCGTGGCAGAGACA
1 CCAGA-ACAGATAAT-GTGGCAGAGACA
* * *
29454100 CCAGAACAGAAATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGACA
* * *
29454127 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGACA
29454154 CCAG
1 CCAG
29454158 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGACA
Found at i:29459154 original size:43 final size:41
Alignment explanation
Indices: 29459037--29459179 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 41
29459027 AGATGTGATT
* *
29459037 ACATGTAAGACCATGTCTGAGACATTGGCATTGTATTAAGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCA-T-CATTAAGATA
*
29459080 ACGTGTAAGACCATGTCTGGGACATTGGCATCATTAATCGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCATTAA--GATA
* * * **
29459123 TCATGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATC-AT-TAAGATA
*
29459166 ATATGTAAGACCAT
1 ACATGTAAGACCAT
29459180 ATCTAGGATA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
41 5 0.06
42 1 0.01
43 75 0.89
44 2 0.02
45 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (41 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATCATTAAGATA
Found at i:29469353 original size:6 final size:5
Alignment explanation
Indices: 29469354--29469428 Score: 64
Period size: 5 Copynumber: 14.4 Consensus size: 5
29469344 AAATTAAAAT
* * *
29469354 AATAA AATTGA AATGA AATAAA AAGAA AAATAAA AATAA AATAA AATAA
1 AATAA AA-TAA AATAA AAT-AA AATAA -AAT-AA AATAA AATAA AATAA
29469403 AAT-A AAT-A AATAA AATAA GAATAA AA
1 AATAA AATAA AATAA AATAA -AATAA AA
29469429 AGATAGGAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
4 8 0.13
5 33 0.55
6 17 0.28
7 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:29469392 original size:18 final size:17
Alignment explanation
Indices: 29469369--29469429 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
29469359 AATTGAAATG
29469369 AAATAAAAAGAAAAATAA
1 AAATAAAAA-AAAAATAA
*
29469387 AAAT-AAAATAAAAT-A
1 AAATAAAAAAAAAATAA
29469402 AAATAAATAAATAAAATAA
1 AAATAAA-AAA-AAAATAA
*
29469421 GAATAAAAA
1 AAATAAAAA
29469430 GATAGGAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 5 0.14
16 7 0.19
17 6 0.17
18 11 0.31
19 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (17 bp):
AAATAAAAAAAAAATAA
Found at i:29469395 original size:28 final size:29
Alignment explanation
Indices: 29469350--29469428 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
29469340 TTTCAAATTA
* * *
29469350 AAAT-AATAAAATTGAAATGAAATAAAA-
1 AAATAAATAAAAATAAAATAAAATAAAAT
29469377 AGAA-AAATAAAAATAAAATAAAATAAAAT
1 A-AATAAATAAAAATAAAATAAAATAAAAT
29469406 AAATAAAT-AAAATAAGAATAAAA
1 AAATAAATAAAAATAA-AATAAAA
29469429 AGATAGGAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.02
28 31 0.70
29 12 0.27
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (29 bp):
AAATAAATAAAAATAAAATAAAATAAAAT
Found at i:29469411 original size:4 final size:5
Alignment explanation
Indices: 29469380--29469428 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
29469370 AATAAAAAGA
29469380 AAAAT AAAAAT AAAAT AAAAT AAAAT -AAAT -AAAT AAAAT AAGAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
29469429 AGATAGGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.20
5 23 0.56
6 10 0.24
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:29473159 original size:13 final size:13
Alignment explanation
Indices: 29473136--29473168 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29473126 AAGGATTTGT
29473136 TTATC-AAACTAA
1 TTATCTAAACTAA
29473148 TTATCTAAACTAA
1 TTATCTAAACTAA
*
29473161 TTAACTAA
1 TTATCTAA
29473169 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:29477928 original size:93 final size:93
Alignment explanation
Indices: 29477815--29477985 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
29477805 GCCCATAAGT
* * *
29477815 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
29477879 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGCTCGGATGCCTAGTTACATTTCAC
*
29477908 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29477973 CGAGCTCGGATGC
66 CGAGCTCGGATGC
29477986 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:29477982 original size:46 final size:46
Alignment explanation
Indices: 29477807--29477982 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
29477797 TGTAACCCGC
*
29477807 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGC-ATTGCAT
* * *
29477853 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTGCAT
* * * *
29477903 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATT-GCAT
29477946 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29477983 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.56
47 31 0.29
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTGCAT
Found at i:29480415 original size:30 final size:30
Alignment explanation
Indices: 29480371--29480459 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
29480361 CAAAGATAAC
29480371 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
29480400 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
29480430 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
29480460 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:29480419 original size:15 final size:15
Alignment explanation
Indices: 29480371--29480450 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
29480361 CAAAGATAAC
*
29480371 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
29480385 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
29480400 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
29480415 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
29480430 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
29480445 AAGAAA
1 AAGAAA
29480451 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:29480459 original size:15 final size:15
Alignment explanation
Indices: 29480382--29480459 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
29480372 AGAAAACCGA
29480382 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
29480397 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
29480411 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29480426 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29480442 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29480457 ATA
1 ATA
29480460 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29483494 original size:93 final size:93
Alignment explanation
Indices: 29483381--29483551 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
29483371 GCCCATAAGT
* * *
29483381 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
29483445 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGCTCGGATGCCTAGTTACATTTCAC
*
29483474 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29483539 CGAGCTCGGATGC
66 CGAGCTCGGATGC
29483552 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:29483548 original size:46 final size:46
Alignment explanation
Indices: 29483373--29483548 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
29483363 TGTAACCCGC
*
29483373 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGC-ATTGCAT
* * *
29483419 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-A-TTGCAT
* * * *
29483469 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATT-GCAT
29483512 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29483549 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.56
47 31 0.29
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTGCAT
Found at i:29487780 original size:53 final size:53
Alignment explanation
Indices: 29487717--29487825 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
29487707 CAGAAAGTAG
* * *
29487717 AATTGGGGAATTACTTTTGGAAAATGGTTGAATTAAGACAATACTTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
29487770 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
1 AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
29487823 AAT
1 AAT
29487826 CTACCTAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.28
Consensus pattern (53 bp):
AATTGGGGAATTACTTTTGGAAAACGATTGAATTAAGACAATACCTAAGGAAA
Found at i:29492897 original size:43 final size:43
Alignment explanation
Indices: 29492849--29493015 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
29492839 ATTGAGATTT
29492849 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * ** * *
29492892 GATTACGTGTAAGACCATGTATGGGACATTGGCATCACTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATTGA
* * * * * *
29492935 GATTTCGTGTAAGACCTTGTCTGAGACAGTGGCATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * * *
29492978 GATAACATGTAATACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
29493016 CGAGCTTATG
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 84 0.87
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:29500151 original size:20 final size:20
Alignment explanation
Indices: 29500105--29500154 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
29500095 GCAACCATAG
*
29500105 CACATTACCACAGAAACACC
1 CACATTTCCACAGAAACACC
29500125 CACATTTCCACAGAAACACC
1 CACATTTCCACAGAAACACC
29500145 CACATTTCCA
1 CACATTTCCA
29500155 TTGATATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.40, G:0.04, T:0.16
Consensus pattern (20 bp):
CACATTTCCACAGAAACACC
Found at i:29501985 original size:21 final size:22
Alignment explanation
Indices: 29501943--29501992 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
29501933 TTTAAGGTTC
*
29501943 CACATGCCTGTGTGGGTATGGGG
1 CACACGCCTGTGTGGGTAT-GGG
29501966 CACACGCCTGTGT-GGT-TGGG
1 CACACGCCTGTGTGGGTATGGG
29501986 -ACACGCC
1 CACACGCC
29501993 CATGTCCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 1 0.04
22 3 0.12
23 12 0.46
ACGTcount: A:0.14, C:0.26, G:0.38, T:0.22
Consensus pattern (22 bp):
CACACGCCTGTGTGGGTATGGG
Found at i:29503138 original size:50 final size:50
Alignment explanation
Indices: 29503070--29503196 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 50
29503060 ATCGAGGCCG
* * *
29503070 ATGCCATGTCCCAAACATGGTCTTACACTAGCTC-T-CGTACTTACGTGAT-A
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTA--TACATG-TCA
* *
29503120 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCCATGTCG
1 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
29503170 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCTAGACATGGTCTTACA
29503197 TTGGTACACA
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
49 1 0.01
50 63 0.91
51 1 0.01
52 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (50 bp):
ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATACATGTCA
Found at i:29503935 original size:12 final size:12
Alignment explanation
Indices: 29503918--29503942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29503908 CAAAAATGTA
29503918 AAAATCATCAAG
1 AAAATCATCAAG
29503930 AAAATCATCAAG
1 AAAATCATCAAG
29503942 A
1 A
29503943 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:29504979 original size:15 final size:17
Alignment explanation
Indices: 29504959--29504991 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
29504949 GGAGTTTTGG
29504959 GTTATC-TTATG-TTTT
1 GTTATCTTTATGCTTTT
29504974 GTTATCTTTATGCTTTT
1 GTTATCTTTATGCTTTT
29504991 G
1 G
29504992 AGATGTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.64
Consensus pattern (17 bp):
GTTATCTTTATGCTTTT
Found at i:29514351 original size:15 final size:13
Alignment explanation
Indices: 29514320--29514350 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
29514310 TCAGTAATTG
*
29514320 CACACGGGTGTGT
1 CACACGGGCGTGT
29514333 CACACGGGCGTGT
1 CACACGGGCGTGT
29514346 CACAC
1 CACAC
29514351 AAGCGTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.16
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:29531168 original size:50 final size:50
Alignment explanation
Indices: 29531106--29531366 Score: 158
Period size: 50 Copynumber: 5.5 Consensus size: 50
29531096 GCCGATGGCG
* *
29531106 TGTCCCAAACATGGTCTTACACTAGCTC-T-CGTA-CTTACGTGCTGATTCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATC-TA--TGCTGATGCCA
* *
29531156 TGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCTATGTTGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
* * * * *
29531206 TGTCCCAGATATGGTCTTACACT-G-ACAT--GTCTCGTA-GCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATC-TATGCTGATGCCA
** * * * * * *
29531251 TGTCTTAGACAT-GTCTTACACTAG--CTTACGTCTCGAGGCCGAT-ACA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
* * * * * * *
29531297 TGTCCCGGACAT-GTCTTACACTGGCAC-T-CGTCTCAATTCTGGTGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
29531344 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
29531367 GGCACACAAA
Statistics
Matches: 171, Mismatches: 27, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
44 12 0.07
45 13 0.08
46 52 0.30
47 16 0.09
48 13 0.08
49 1 0.01
50 56 0.33
51 1 0.01
52 6 0.04
53 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (50 bp):
TGTCCCAGACATGGTCTTACACTAGCTCTTGCGTATCTATGCTGATGCCA
Found at i:29531329 original size:46 final size:46
Alignment explanation
Indices: 29531055--29531371 Score: 151
Period size: 50 Copynumber: 6.7 Consensus size: 46
29531045 TTGTCGATGC
* * * *
29531055 CATGTCTCAGACATGATCTTACACTGGCTA-TCCTCATCGAGGCCGATGG
1 CATGTCCCAGACATGGTCTTACACTGGC-ACTCGTC-TCGA-GCCGAT-A
* * * * * * *
29531104 CGTGTCCCAAACATGGTCTTACACTAGCTCTCGTACTTACGTGCTGATTC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGT-C-T-CGAGCCGA-TA
* * * * * ** *
29531154 CATGTCCTAGACATGGTCTTACACTAGCTCTTGCGTATCTATGTTGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCAC-T-CGTCTCGA-GCCGAT-A
* * *
29531204 CATGTCCCAGATATGGTCTTACACTGACA-T-GTCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCG-AGCCGATA
** * *
29531249 CATGTCTTAGACAT-GTCTTACACTAGC-TTACGTCTCGAGGCCGATA
1 CATGTCCCAGACATGGTCTTACACTGGCACT-CGTCTCGA-GCCGATA
* * * * * *
29531295 CATGTCCCGGACAT-GTCTTACACTGGCACTCGTCTCAATTCTGGTGC
1 CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGA-GCCGAT-A
29531342 CATGTCCCAGACATGGTCTTACACTGGCAC
1 CATGTCCCAGACATGGTCTTACACTGGCAC
29531372 ACAAATTACC
Statistics
Matches: 206, Mismatches: 46, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
44 12 0.06
45 12 0.06
46 53 0.26
47 15 0.07
48 16 0.08
49 28 0.14
50 63 0.31
51 4 0.02
52 3 0.01
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCACTCGTCTCGAGCCGATA
Found at i:29532103 original size:12 final size:12
Alignment explanation
Indices: 29532086--29532111 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
29532076 CAAAAAATGT
29532086 GAAAATCATCAA
1 GAAAATCATCAA
29532098 GAAAATCATCAA
1 GAAAATCATCAA
29532110 GA
1 GA
29532112 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:29537395 original size:41 final size:41
Alignment explanation
Indices: 29537337--29537442 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
29537327 TGACAACAAA
* * *
29537337 TCAGCTATATGTAGCACTTAGTGTGTGA-GATCGAAATAGCT
1 TCAGCTATATATGGCACTTAGTGTG-CATGATCGAAATAGCT
* *
29537378 TCAGCTATATATGGCACTTAATGTGCATGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCATGATCGAAATAGCT
** *
29537419 TTGGCTATACATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGT
29537443 ACGATTTGAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCATGATCGAAATAGCT
Found at i:29537466 original size:40 final size:40
Alignment explanation
Indices: 29537366--29537466 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
29537356 AGTGTGTGAG
* * * *
29537366 ATCGAAATAGCTTCAGCTATATATGGCACTTAATGTGCAT
1 ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTACAT
* *
29537406 GATCGAGATAGCTTTGGCTATACATGGCACTTAGTGTACGAT
1 -ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTAC-AT
*
29537448 -TTGAGATAGCTTTAGCTAT
1 ATCGAGATAGCTTTAGCTAT
29537467 GTACGACACT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
40 17 0.33
41 32 0.63
42 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
ATCGAGATAGCTTTAGCTATACATGGCACTTAATGTACAT
Found at i:29539135 original size:17 final size:18
Alignment explanation
Indices: 29539113--29539151 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
29539103 AATTAGGCTA
29539113 TGTGGGCC-ACACAGGCG
1 TGTGGGCCTACACAGGCG
* *
29539130 TGTGGGCCTATACGGGCG
1 TGTGGGCCTACACAGGCG
29539148 TGTG
1 TGTG
29539152 AGATTCTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCTACACAGGCG
Found at i:29547506 original size:46 final size:48
Alignment explanation
Indices: 29547402--29547670 Score: 229
Period size: 46 Copynumber: 5.8 Consensus size: 48
29547392 GGTTATTATG
* * **
29547402 AGCCAGTGTAAGATCATGTCTGGGACATGTCATCGGTATTGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* * *
29547449 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* *
29547496 AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-C-TAAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
* * * *
29547539 -GTCAGTATAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTTGAGATGT-A
* * * * * * *
29547587 GAGCTAGTGTAAGATCATGTATGGAACATGGCATC-GACTTGAGATATG
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
*
29547635 AGCCAGTGTAAGACCATGT-TTGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
29547671 ATTCTACCCC
Statistics
Matches: 177, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
42 10 0.06
43 13 0.07
44 12 0.07
45 1 0.01
46 62 0.35
47 33 0.19
48 13 0.07
49 6 0.03
50 27 0.15
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGAGATGTA
Found at i:29552671 original size:44 final size:44
Alignment explanation
Indices: 29552618--29552708 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
29552608 CAAATCTTAT
29552618 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
29552662 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
1 TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
29552706 TTA
1 TTA
29552709 ATTTGTGTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.46
Consensus pattern (44 bp):
TTATTAACTAAATTGATTTATTTTTAAAATTGAGCTAAGTGATA
Found at i:29561525 original size:36 final size:36
Alignment explanation
Indices: 29561463--29561546 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
29561453 GTTATATTGT
* * * * *
29561463 GAACCATGTTAACTTGGTGAATTATATTATTATGGC
1 GAACTATGTTAAATTAGTGAATTATATTAATATGAC
*
29561499 GAACTATGTTAAATTAGTG-ATCTATATTAATATGAT
1 GAACTATGTTAAATTAGTGAAT-TATATTAATATGAC
*
29561535 GAACTATATTAA
1 GAACTATGTTAA
29561547 TTTGTCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
GAACTATGTTAAATTAGTGAATTATATTAATATGAC
Found at i:29561528 original size:18 final size:18
Alignment explanation
Indices: 29561480--29561547 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
29561470 GTTAACTTGG
* * *
29561480 TGAATTATATTATTATGG
1 TGAACTATATTAATATGA
* * *
29561498 CGAACTATGTTAA-ATTA
1 TGAACTATATTAATATGA
*
29561515 GTGATCTATATTAATATGA
1 -TGAACTATATTAATATGA
29561534 TGAACTATATTAAT
1 TGAACTATATTAAT
29561548 TTGTCAAACT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
17 2 0.05
18 32 0.86
19 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.13, T:0.43
Consensus pattern (18 bp):
TGAACTATATTAATATGA
Found at i:29562993 original size:46 final size:45
Alignment explanation
Indices: 29562926--29563097 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 45
29562916 AACCCGCCCC
*
29562926 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCA
* * *
29562972 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCA
* *
29563020 TAA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCA
29563065 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
29563098 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 59 0.55
47 27 0.25
48 4 0.04
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCA
Found at i:29563090 original size:93 final size:93
Alignment explanation
Indices: 29562931--29563101 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
29562921 GCCCCTAAGT
*
29562931 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29562996 CGAGTTTGGATGCCTAGTTACATTTAAC
66 CGAGTTCGGATGCCTAGTTACATTTAAC
* *
29563024 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29563089 CGAGTTCGGATGC
66 CGAGTTCGGATGC
29563102 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTAAC
Found at i:29563117 original size:46 final size:45
Alignment explanation
Indices: 29562928--29563117 Score: 138
Period size: 46 Copynumber: 4.1 Consensus size: 45
29562918 CCCGCCCCTA
* * * * * *
29562928 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
* *
29562974 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGC-CTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
** * * *
29563021 AACGAACTCGGACTCAACTCAACGAGTTCGGGCAT-TTGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCT-CAACCATCT
29563067 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
29563113 AGTGA
1 AGTGA
29563118 CATGTCACTT
Statistics
Matches: 114, Mismatches: 17, Indels: 26
0.73 0.11 0.17
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 5 0.04
46 62 0.54
47 29 0.25
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:29564996 original size:17 final size:17
Alignment explanation
Indices: 29564943--29564999 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
29564933 ATGATGGAGC
* *
29564943 ATGAACTATTATTTTAC
1 ATGAACTATTATTTCAT
* * *
29564960 ATGAATTGTTA-TTCGGT
1 ATGAACTATTATTTC-AT
29564977 ATGAACTATTATTTCAT
1 ATGAACTATTATTTCAT
29564994 ATGAAC
1 ATGAAC
29565000 AGATCTTTGG
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (17 bp):
ATGAACTATTATTTCAT
Found at i:29566519 original size:43 final size:42
Alignment explanation
Indices: 29566472--29566599 Score: 123
Period size: 42 Copynumber: 3.0 Consensus size: 42
29566462 CCTTGATTGA
* * *
29566472 GATTTACTTATAAGACCATGACTGGGACATTGGCATCGTATCT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-T
* * ***
29566515 GATTT-CGTGTAAGACCCTGTCTGGGACAGAAGCATCGATATT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATT
* * * *
29566557 GAATTACATGTAAGACCATGTCCGGGACGTTGGCATTGTATT
1 GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
29566599 G
1 G
29566600 TTTCTGAATC
Statistics
Matches: 67, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
42 35 0.52
43 32 0.48
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
GATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:29577195 original size:85 final size:82
Alignment explanation
Indices: 29577094--29577261 Score: 212
Period size: 82 Copynumber: 2.0 Consensus size: 82
29577084 AAATTAAGCT
* * ** *
29577094 AGGGAAAGTAACGGAAGTTGATTATCCCTGTTTTCCCTTGAAAGTTTA-ATTTTTATTTATTTAT
1 AGGGAAAGTAACGGAAGTTAAGTATCCCT-CATT---TTGAAAGTTCATATTTTTATTTATTTAT
*
29577158 CCCAATTTGGAGGAAAAGATA
62 CCCAACTTGGAGGAAAAGATA
* * *
29577179 AGGGAAAGTAAGGGAAGTTAAGTATCCCTCATTTTGAAAGTTCATTTTTTTATTTATTTATGCCA
1 AGGGAAAGTAACGGAAGTTAAGTATCCCTCATTTTGAAAGTTCATATTTTTATTTATTTATCCCA
29577244 ACTTGGAGGAAAAGATA
66 ACTTGGAGGAAAAGATA
29577261 A
1 A
29577262 AAGAAAAGAA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
81 10 0.14
82 35 0.48
84 2 0.03
85 26 0.36
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (82 bp):
AGGGAAAGTAACGGAAGTTAAGTATCCCTCATTTTGAAAGTTCATATTTTTATTTATTTATCCCA
ACTTGGAGGAAAAGATA
Found at i:29578267 original size:16 final size:16
Alignment explanation
Indices: 29578246--29578276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29578236 GCTTTCCATT
*
29578246 GTTTAATAAGTTTTTA
1 GTTTAAGAAGTTTTTA
29578262 GTTTAAGAAGTTTTT
1 GTTTAAGAAGTTTTT
29578277 GTCTCCTCTT
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:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (16 bp):
GTTTAAGAAGTTTTTA
Found at i:29585733 original size:25 final size:25
Alignment explanation
Indices: 29585682--29585733 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
29585672 CTATAAACTT
* *
29585682 ATATATATTATATAATAAAACCGAC
1 ATATATAATATATAATAAAACCCAC
*
29585707 ATATATAATATAT-ATACAACCCCAC
1 ATATATAATATATAATA-AAACCCAC
29585732 AT
1 AT
29585734 GCTTATTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (25 bp):
ATATATAATATATAATAAAACCCAC
Found at i:29593102 original size:16 final size:17
Alignment explanation
Indices: 29593071--29593113 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
29593061 TTACACATAC
*
29593071 AATCATTTCAATTCAA-A
1 AATCAATTC-ATTCAATA
29593088 AATCAATTCATTCAATA
1 AATCAATTCATTCAATA
29593105 AAT-AATTCA
1 AATCAATTCA
29593114 CTTTTCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (17 bp):
AATCAATTCATTCAATA
Found at i:29594861 original size:42 final size:43
Alignment explanation
Indices: 29594814--29594896 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
29594804 TTTTATATGC
* *
29594814 CACACGGCCTGGACACACGCCCATGTCC-TTGCCCGTGTGGCT
1 CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGGCT
* *
29594856 CACACGGCTTGGGCACACACCCATGTCCTTTGCCCATGTGG
1 CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGG
29594897 TTCTAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (43 bp):
CACACGGCCTGGACACACACCCATGTCCTTTGCCCATGTGGCT
Found at i:29596072 original size:37 final size:37
Alignment explanation
Indices: 29596013--29596151 Score: 242
Period size: 37 Copynumber: 3.8 Consensus size: 37
29596003 AGCTCAGACG
* *
29596013 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
29596050 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29596087 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
29596124 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
29596152 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:29596585 original size:49 final size:47
Alignment explanation
Indices: 29596270--29596919 Score: 1030
Period size: 47 Copynumber: 13.6 Consensus size: 47
29596260 CCCTTCGGGA
* * * * * *
29596270 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29596317 CCTGTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29596364 CTTATCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29596411 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29596458 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29596505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29596552 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29596601 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29596648 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29596699 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29596748 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29596797 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29596844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29596893 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
29596920 TATTCAAATA
Statistics
Matches: 568, Mismatches: 27, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
47 335 0.59
49 187 0.33
51 46 0.08
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29596602 original size:96 final size:96
Alignment explanation
Indices: 29596270--29596919 Score: 1069
Period size: 96 Copynumber: 6.8 Consensus size: 96
29596260 CCCTTCGGGA
* * * * * * *
29596270 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29596333 ACTTTCACATTCATTACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29596364 CTTATCAC--ATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
29596427 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29596458 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29596521 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
29596552 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29596617 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
29596648 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATAT
29596713 ATACACTTTCACATTCATCACATCGGCCATTAGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29596748 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29596813 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
29596844 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
29596909 ACTTTCACATT
66 ACTTTCACATT
29596920 TATTCAAATA
Statistics
Matches: 523, Mismatches: 25, Indels: 14
0.93 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 180 0.34
96 202 0.39
98 94 0.18
100 46 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29600068 original size:25 final size:23
Alignment explanation
Indices: 29600039--29600085 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
29600029 TTAAAATTTA
29600039 ATGATAATATAAAATATATAATAAC
1 ATGAT-ATA-AAAATATATAATAAC
* *
29600064 ATGATATAGAATTATATAATAA
1 ATGATATAAAAATATATAATAA
29600086 AATAGGAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (23 bp):
ATGATATAAAAATATATAATAAC
Found at i:29601564 original size:21 final size:21
Alignment explanation
Indices: 29601464--29601685 Score: 74
Period size: 21 Copynumber: 10.7 Consensus size: 21
29601454 AATAAAATTT
* * * *
29601464 ATAAACAAAATATATAATGAT
1 ATAAATAATATATATAATAAA
*
29601485 ATAAACTATATGATAAATAATATAA
1 ATAAA-TA-AT-ATATATAATA-AA
* * *
29601510 A-AAATAATAAAAATAATAGA
1 ATAAATAATATATATAATAAA
* *
29601530 ATAAGTGA-A-ATATAATAAA
1 ATAAATAATATATATAATAAA
29601549 ATAAATAATATATAT-AT--A
1 ATAAATAATATATATAATAAA
* *
29601567 GTAAA-AATATATA-ACATATA
1 ATAAATAATATATATA-ATAAA
* *
29601587 ATAAAAT-GTGA-ATATAATAGA
1 AT-AAATAAT-ATATATAATAAA
29601608 ATAAATAATATATATAATAAA
1 ATAAATAATATATATAATAAA
* * *
29601629 A-ACATAACATATAGTAA-AATTT
1 ATAAATAATATATA-TAATAA--A
* **
29601651 ATAAA-AATGTATATAATATT
1 ATAAATAATATATATAATAAA
*
29601671 ATAAATGATATATAT
1 ATAAATAATATATAT
29601686 TATTTTTCAT
Statistics
Matches: 150, Mismatches: 28, Indels: 46
0.67 0.12 0.21
Matches are distributed among these distances:
17 8 0.05
18 7 0.05
19 14 0.09
20 31 0.21
21 59 0.39
22 13 0.09
23 5 0.03
24 11 0.07
25 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (21 bp):
ATAAATAATATATATAATAAA
Found at i:29601636 original size:55 final size:59
Alignment explanation
Indices: 29601538--29601648 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
29601528 GAATAAGTGA
*
29601538 AATATAATAAAATAAATAATATATATATAGTAAAAATATATAACATATAATAAAATGTG
1 AATATAATAAAATAAATAATATATATATAGTAAAAATACATAACATATAATAAAATGTG
* *
29601597 AATATAATAGAATAAATAATATATATA-A-T-AAAA-ACATAACATATAGTAAAAT
1 AATATAATAAAATAAATAATATATATATAGTAAAAATACATAACATATAATAAAAT
29601649 TTATAAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 17 0.35
56 4 0.08
57 1 0.02
58 1 0.02
59 26 0.53
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (59 bp):
AATATAATAAAATAAATAATATATATATAGTAAAAATACATAACATATAATAAAATGTG
Found at i:29603308 original size:44 final size:44
Alignment explanation
Indices: 29603243--29604067 Score: 632
Period size: 44 Copynumber: 18.7 Consensus size: 44
29603233 AAACTCAGGA
* * * *
29603243 ACGCCATATCTGTTATTTTCGATCTGCTCTTTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
29603287 ACGCCAAATCTGCTACCTTCGATCTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
29603331 ACGCCAAATTTACTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
29603375 ACGCCAAATCTACTACCTTCGATCTGCCCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
29603419 ACGTCAAATCTGCTATCTTTGATTTGTTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
29603463 GCGCCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
29603507 ACGCCAAATCTGCTATCGTCGATCTACACTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
** * * * *
29603551 ACAACAAGTCTGCTATCTTTGATCAGCTCTCTGACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* **
29603595 ACGCCAAACCTGCTATCTTCGATCTGCTC-CTTGTA-AACGCA-AGG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAATACAGA-G
* * * *
29603639 ATGCCAAA--T-C-ATCTTGGATCTACT-TC-GATGCAAAAACATCCGA-
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AATACA---GAG
* ** * * *
29603682 AGGTTAGAA-CTACTATGTCTTCGATCTGCTCTCTGTCGAATATAGAG
1 ACGCCA-AATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAG
* *
29603729 ATGCCAAATCTGCTATCTTCGATCTACTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
29603773 ACGCCAAATTTGCTATCTTTGATCTGCTCCCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * **
29603817 ACGCCAAACCTGCTATCTTCAATCTGCTCAT-TGTA-AACGCA-AGG
1 ACGCCAAATCTGCTATCTTCGATCTGCTC-TCTG-ACAATACAGA-G
* * * *
29603861 ATGCCAAA--T-C-ATCTTGGATCTACT-TC-GATGCAAAAACATCCGA-
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AATACA---GAG
* ** * * * *
29603904 AGGTTAGATCTGCTATGTCTTTGATCTGCTCTCTGTCGAATATAGAG
1 ACGCCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AATACAGAG
* * * *
29603951 ATGCCAAATCTACTATCTTCGATCTGCTTTCTGACAATATAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
29603995 ACGCTAAATCTGCTATCTTTGATCTGCT-TCCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCT-CTGACAATACAGAG
* *
29604039 ACGCCAAACCTGCTATCTTCGACCTGCTC
1 ACGCCAAATCTGCTATCTTCGATCTGCTC
29604068 CTTGTAAACG
Statistics
Matches: 618, Mismatches: 118, Indels: 89
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.00
38 3 0.00
40 24 0.04
41 10 0.02
42 2 0.00
43 11 0.02
44 459 0.74
45 41 0.07
46 8 0.01
47 20 0.03
49 32 0.05
50 4 0.01
51 2 0.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Done.