Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 67 of 345
Found at i:21008329 original size:55 final size:55
Alignment explanation
Indices: 21008245--21008354 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
21008235 CCTTCCCCGA
21008245 ATCCACTGCCTGAAAATAAAAACAATTGGAATGAAATTTAGCATCAAAGTTTAGG
1 ATCCACTGCCTGAAAATAAAAACAATTGGAATGAAATTTAGCATCAAAGTTTAGG
*
21008300 ATCCACTGCCTGAAAATAACAACAATTGGAATGAAATTTAGCATCAAAGTTTAGG
1 ATCCACTGCCTGAAAATAAAAACAATTGGAATGAAATTTAGCATCAAAGTTTAGG
21008355 TCTCACGTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (55 bp):
ATCCACTGCCTGAAAATAAAAACAATTGGAATGAAATTTAGCATCAAAGTTTAGG
Found at i:21015170 original size:19 final size:20
Alignment explanation
Indices: 21015138--21015176 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21015128 TATGAATTTT
*
21015138 AGAATACAAAACAAATATAA
1 AGAATACAAAACAAAAATAA
21015158 AGAATAC-AAACAAAAATAA
1 AGAATACAAAACAAAAATAA
21015177 TATAATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.13
Consensus pattern (20 bp):
AGAATACAAAACAAAAATAA
Found at i:21018946 original size:10 final size:10
Alignment explanation
Indices: 21018931--21018979 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
21018921 TTATCTTTCA
21018931 ATAAAAATAT
1 ATAAAAATAT
*
21018941 ATAAAAATTT
1 ATAAAAATAT
* *
21018951 ATAATAATAC
1 ATAAAAATAT
*
21018961 ATATAAAT-T
1 ATAAAAATAT
21018970 ATAAAAATAT
1 ATAAAAATAT
21018980 TTGTAAATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:21018959 original size:20 final size:19
Alignment explanation
Indices: 21018931--21018979 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
21018921 TTATCTTTCA
21018931 ATAAAAATATATAAAAATTT
1 ATAAAAATATATAAAAA-TT
* * *
21018951 ATAATAATACATATAAATT
1 ATAAAAATATATAAAAATT
21018970 ATAAAAATAT
1 ATAAAAATAT
21018980 TTGTAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAATATATAAAAATT
Found at i:21023344 original size:23 final size:23
Alignment explanation
Indices: 21023318--21023367 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21023308 GGCTTACTGT
*
21023318 TTCAGCTCACTATAGCTTACCTA
1 TTCAGCTCACTATAGCTCACCTA
** *
21023341 TTCAGCTCGTTGTAGCTCACCTA
1 TTCAGCTCACTATAGCTCACCTA
21023364 TTCA
1 TTCA
21023368 TCTCGAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (23 bp):
TTCAGCTCACTATAGCTCACCTA
Found at i:21023454 original size:26 final size:24
Alignment explanation
Indices: 21023386--21023457 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
21023376 GAGCTTATTG
* *
21023386 TTCAACTCAATAGAACTTACCGTT
1 TTCAGCTCAATAGAGCTTACCGTT
*
21023410 TTCAGCTCAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACCGTT
*
21023434 TATCAGCTCAGTAAGAGCTTACCG
1 T-TCAGCTCAAT-AGAGCTTACCG
21023458 ACTATGACTC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 22 0.54
25 9 0.22
26 10 0.24
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACCGTT
Found at i:21038887 original size:21 final size:21
Alignment explanation
Indices: 21038863--21038902 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21038853 TTTTCCAAAG
* *
21038863 ATGTGAATTGGATTGAATTAA
1 ATGTAAATTGGATTAAATTAA
*
21038884 ATGTAAATTGTATTAAATT
1 ATGTAAATTGGATTAAATT
21038903 GATATGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTAA
Found at i:21043031 original size:22 final size:22
Alignment explanation
Indices: 21043006--21043076 Score: 76
Period size: 23 Copynumber: 3.3 Consensus size: 22
21042996 TTGTGTAGGG
*
21043006 TTTTGAGTTTTTTTTTTATATT
1 TTTTGAGTTTTTTTTATATATT
* *
21043028 TTTTAAGTTTCTTTATATATATT
1 TTTTGAGTTT-TTTTTATATATT
*
21043051 CTTT-AG-TTTTTTTATA-ATT
1 TTTTGAGTTTTTTTTATATATT
21043070 TTTTGAG
1 TTTTGAG
21043077 GCGTCAAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 2 0.05
22 11 0.27
23 13 0.32
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTTGAGTTTTTTTTATATATT
Found at i:21043055 original size:23 final size:22
Alignment explanation
Indices: 21043022--21043066 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21043012 GTTTTTTTTT
*
21043022 TATATTTTTTAAGTTTCTTTATA
1 TATATTCTTT-AGTTTCTTTATA
*
21043045 TATATTCTTTAGTTTTTTTATA
1 TATATTCTTTAGTTTCTTTATA
21043067 ATTTTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (22 bp):
TATATTCTTTAGTTTCTTTATA
Found at i:21046941 original size:40 final size:40
Alignment explanation
Indices: 21046867--21047088 Score: 194
Period size: 39 Copynumber: 5.7 Consensus size: 40
21046857 GCTCCTCGTT
21046867 CAAATGCCTTCGGGAC--AACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
21046906 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
21046946 CAAATGCCTTCGGG-CTT-AGCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
21046984 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAG-ATTCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTA-ACTCGCA
** * * * *
21047023 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
21047064 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21047089 CATCATTCAA
Statistics
Matches: 159, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
37 2 0.01
38 29 0.18
39 59 0.37
40 54 0.34
41 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21054841 original size:40 final size:40
Alignment explanation
Indices: 21054797--21055020 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
21054787 GCTCCTCGTT
* *
21054797 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
21054837 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
21054877 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* *
21054916 CAAATGCCTTC-GGATCTTAGTCCGGAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTCGCA
* * * *
21054955 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
21054996 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21055021 CATCATTCAA
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 71 0.43
40 80 0.49
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:21054899 original size:79 final size:77
Alignment explanation
Indices: 21054797--21055020 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 77
21054787 GCTCCTCGTT
* *
21054797 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
21054862 ATTTAGTAACTCGCA
64 A-TTAGTAACTCGCA
* * *
21054877 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
*
21054941 ATTAGTATCTCGCA
64 ATTAGTAACTCGCA
* * * * *
21054955 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
21055019 GA
63 GA
21055021 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 29 0.23
79 69 0.56
80 26 0.21
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
TAGTAACTCGCA
Found at i:21059473 original size:44 final size:42
Alignment explanation
Indices: 21059403--21059561 Score: 171
Period size: 43 Copynumber: 3.7 Consensus size: 42
21059393 TATGTGTTAT
*
21059403 CGTGTAAGACCACGTCTGAGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTA
* *
21059447 CGTATAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTA
** *
21059489 CGTGTAAGACC-CTGTCTGGGACAATGACATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACGTTGGCATCG--ATTTGATTTA
* *
21059532 CATGTAATACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
21059562 TGTACGAGAT
Statistics
Matches: 97, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 36 0.37
44 32 0.33
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:21059798 original size:20 final size:20
Alignment explanation
Indices: 21059761--21059798 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21059751 TTATTTGTAC
21059761 AAATGAAATGAGTATATGGG
1 AAATGAAATGAGTATATGGG
21059781 AAATGTAAATGAGT-TATG
1 AAATG-AAATGAGTATATG
21059799 TGGTTTGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (20 bp):
AAATGAAATGAGTATATGGG
Found at i:21071208 original size:8 final size:8
Alignment explanation
Indices: 21071197--21071251 Score: 60
Period size: 8 Copynumber: 7.1 Consensus size: 8
21071187 TGAGAAAATT
21071197 ATAAAAAA
1 ATAAAAAA
*
21071205 ATAAAGAA
1 ATAAAAAA
*
21071213 A-AAAATA
1 ATAAAAAA
*
21071220 AT-ATAAA
1 ATAAAAAA
*
21071227 ATGAAAAA
1 ATAAAAAA
21071235 ATAAAAAA
1 ATAAAAAA
21071243 ATAAAAAA
1 ATAAAAAA
21071251 A
1 A
21071252 GAACTATTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
7 10 0.26
8 28 0.74
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:21072203 original size:12 final size:12
Alignment explanation
Indices: 21072186--21072211 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21072176 ATGTTCAACT
21072186 TCATCTTTTCAG
1 TCATCTTTTCAG
21072198 TCATCTTTTCAG
1 TCATCTTTTCAG
21072210 TC
1 TC
21072212 TAATTAAAGG
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:0.15, C:0.27, G:0.08, T:0.50
Consensus pattern (12 bp):
TCATCTTTTCAG
Found at i:21075394 original size:15 final size:15
Alignment explanation
Indices: 21075362--21075390 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21075352 ATTTTCTGTG
21075362 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
21075377 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
21075391 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:21077946 original size:129 final size:129
Alignment explanation
Indices: 21077716--21077974 Score: 484
Period size: 129 Copynumber: 2.0 Consensus size: 129
21077706 GCTTGAATGG
*
21077716 TTGGTGAAAGCAAATAATGAATATGTTATATGATAACATTGGTGGATATGTTTTGTTTGAGGTTC
1 TTGGTGAAAGCAAATAATGAATATGTTATATGATAACATTGGTGGATATGTCTTGTTTGAGGTTC
21077781 GGTAATGAAAGAATAAAATGTTAGATTAAATATTTGAGTTGGAAATGTAGCATATTACA-AATTA
66 GGTAATGAAAGAATAAAATGTTAGATTAAATATTTGAGTTGGAAATGTAGCATATTA-AGAATTA
*
21077845 TTGGTGAAAGCAAATAATGAATATGTTATATGATAACTTTGGTGGATATGTCTTGTTTGAGGTTC
1 TTGGTGAAAGCAAATAATGAATATGTTATATGATAACATTGGTGGATATGTCTTGTTTGAGGTTC
21077910 GGTAATGAAAGAATAAAATGTTAGATTAAATATTTGAGTTGGAAATGTAGCATATTAAGAATTA
66 GGTAATGAAAGAATAAAATGTTAGATTAAATATTTGAGTTGGAAATGTAGCATATTAAGAATTA
21077974 T
1 T
21077975 AATTTGGTAT
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
128 1 0.01
129 126 0.99
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (129 bp):
TTGGTGAAAGCAAATAATGAATATGTTATATGATAACATTGGTGGATATGTCTTGTTTGAGGTTC
GGTAATGAAAGAATAAAATGTTAGATTAAATATTTGAGTTGGAAATGTAGCATATTAAGAATTA
Found at i:21091943 original size:20 final size:20
Alignment explanation
Indices: 21091918--21091956 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21091908 TAGTTCTAGG
21091918 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
21091938 ATTTATTTGTATTTATCTT
1 ATTTATTTGTATTTATCTT
21091957 GTAGAATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:21098388 original size:13 final size:11
Alignment explanation
Indices: 21098356--21098394 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
21098346 AGGCAACCCA
21098356 ATTTTTATTTTT
1 ATTTTTA-TTTT
21098368 ATTTTTATTTT
1 ATTTTTATTTT
21098379 ATCTTATTATTTT
1 AT-TT-TTATTTT
21098392 ATT
1 ATT
21098395 ATTTTTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.24
12 10 0.40
13 9 0.36
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:21099348 original size:8 final size:8
Alignment explanation
Indices: 21099327--21099358 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
21099317 AATAGAATTA
21099327 AAAAAAAG
1 AAAAAAAG
21099335 AGAAAAAAG
1 A-AAAAAAG
21099344 AAAAAAAG
1 AAAAAAAG
21099352 AAAAAAA
1 AAAAAAA
21099359 AAGAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:21099359 original size:9 final size:9
Alignment explanation
Indices: 21099326--21099359 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
21099316 AAATAGAATT
21099326 AAAAAAAAG
1 AAAAAAAAG
*
21099335 AGAAAAAAG
1 AAAAAAAAG
21099344 -AAAAAAAG
1 AAAAAAAAG
21099352 AAAAAAAA
1 AAAAAAAA
21099360 AGAATTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21099363 original size:18 final size:17
Alignment explanation
Indices: 21099327--21099359 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21099317 AATAGAATTA
*
21099327 AAAAAAAGAGAAAAAAG
1 AAAAAAAGAAAAAAAAG
21099344 AAAAAAAGAAAAAAAA
1 AAAAAAAGAAAAAAAA
21099360 AGAATTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:21100008 original size:20 final size:20
Alignment explanation
Indices: 21099983--21100022 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21099973 TAATTCTAGG
21099983 ATTTATTT-TCATTTATCTTT
1 ATTTATTTGT-ATTTATCTTT
21100003 ATTTATTTGTATTTATCTTT
1 ATTTATTTGTATTTATCTTT
21100023 TAGAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTATTTGTATTTATCTTT
Found at i:21106812 original size:46 final size:45
Alignment explanation
Indices: 21106754--21106927 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
21106744 TCACTTGTGT
* * *
21106754 GAGCTAGTGTAAGACATGTCTGGAACATGCATCGACCATATTATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATA-GA-GAC
21106800 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATAGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCATAGAGAC
* * *
21106846 GACTGCTAGTGTAAGACATGTCTGGGATATGCATCGACC-TCGAGAC
1 GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAGAGAC
21106892 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATCG
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATCG
21106928 GCTAAATGAT
Statistics
Matches: 112, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.02
46 60 0.54
47 31 0.28
48 19 0.17
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCATAGAGAC
Found at i:21109615 original size:48 final size:48
Alignment explanation
Indices: 21109542--21109735 Score: 168
Period size: 48 Copynumber: 4.1 Consensus size: 48
21109532 CATGGTAGGG
* * * * *
21109542 TGCCATTGCCATATCCCAGATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGA
* * *
21109590 TGCCAATGCCATGTTCTAGACATGGTGTTACATGGGATGACACGTATCGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAT--CACATATCGA
* * * *
21109640 AGCCGAT---A-G-CCTAG-CTATGGTCTTACATGATG-TCTCATATCGA
1 TGCCAATGCCATGTCCTAGAC-ATGGTCTTACATG-GGATCACATATCGA
* * *
21109683 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATCAA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGA
21109731 TGCCA
1 TGCCA
21109736 TATCCCAAAT
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
43 13 0.11
44 1 0.01
45 17 0.15
46 3 0.03
47 3 0.03
48 63 0.55
49 1 0.01
50 14 0.12
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATCGA
Found at i:21115406 original size:40 final size:40
Alignment explanation
Indices: 21115357--21115543 Score: 247
Period size: 40 Copynumber: 4.7 Consensus size: 40
21115347 AAGTGACCAT
*
21115357 ATCCAGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
21115397 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
* *
21115437 ATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
**
21115477 ATCCGGGTTAAG-TCCAGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGACTAAGATCC-GAAGGCATTTGTGCGAGA-TACTA-A
* *
21115518 A-CCGGGCTATG-TCCCGAAGGCATTTG
1 ATCCGGACTAAGAT-CCGAAGGCATTTG
21115544 AACGAGGAGC
Statistics
Matches: 134, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 127 0.95
41 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
Found at i:21115515 original size:80 final size:79
Alignment explanation
Indices: 21115318--21115515 Score: 256
Period size: 80 Copynumber: 2.5 Consensus size: 79
21115308 TTAATTGATG
* * * *
21115318 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAA-TTACTAAATCCAGACTAAGATCCGAAGGCATT
21115382 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
21115398 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-TACTAAATTCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGA-ATTACTAAATCCAGACTAAGATCCGAAGGCATT
*
21115462 TGTGCGAGTTACTAAA
64 TGTGCGAGATACTAAA
*
21115478 TCCGGGTTAAGTCCAGAAGGCATTTGTGCGAATTACTA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAATTACTA
21115516 TAACCGGGCT
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
79 4 0.04
80 89 0.86
81 9 0.09
82 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAATTACTAAATCCAGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:21115561 original size:80 final size:79
Alignment explanation
Indices: 21115357--21115566 Score: 207
Period size: 80 Copynumber: 2.6 Consensus size: 79
21115347 AAGTGACCAT
* ** *
21115357 ATCCAGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGATCCGAAGGCAT
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAAGATCCGAAGGCAT
21115421 TTGTGCGAGATACTAA
64 TTGTGCGAGATACTAA
* ** *
21115437 ATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCAGAAGGCAT
1 ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAGATCC-GAAGGCAT
21115501 TTGTGCGA-ATTACTATA
64 TTGTGCGAGA-TACTA-A
* * *
21115518 A-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAA
21115567 ATTCCAAAGG
Statistics
Matches: 113, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
79 13 0.12
80 96 0.85
81 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (79 bp):
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGATCCGAAGGCATTT
GTGCGAGATACTAA
Found at i:21119047 original size:30 final size:30
Alignment explanation
Indices: 21119011--21119072 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
21119001 TCAATGGTAT
21119011 TCATATTATCCCTATTATGGGCCTACGAGG
1 TCATATTATCCCTATTATGGGCCTACGAGG
*
21119041 TCATATTGTCCCTATTATGGGCCTACGAGG
1 TCATATTATCCCTATTATGGGCCTACGAGG
21119071 TC
1 TC
21119073 CAAAACATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (30 bp):
TCATATTATCCCTATTATGGGCCTACGAGG
Found at i:21131894 original size:23 final size:25
Alignment explanation
Indices: 21131862--21131912 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
21131852 TGTTTAAGTT
21131862 AAAATATAG-TA-AAATTATAATTA
1 AAAATATAGTTATAAATTATAATTA
* **
21131885 AAAATTTAGTTATATCTTATAATTA
1 AAAATATAGTTATAAATTATAATTA
21131910 AAA
1 AAA
21131913 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
25 13 0.57
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (25 bp):
AAAATATAGTTATAAATTATAATTA
Found at i:21138578 original size:47 final size:47
Alignment explanation
Indices: 21138509--21138605 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
21138499 TTGAAGCTAG
21138509 AGATTCCCGTAAAAGATCATCAAGCAAGACTTTTCACTCAGCATCGA
1 AGATTCCCGTAAAAGATCATCAAGCAAGACTTTTCACTCAGCATCGA
* *
21138556 AGATTCCTGTAAAAGATCATCAAGCAATACTTTTCACTCAGCATCGA
1 AGATTCCCGTAAAAGATCATCAAGCAAGACTTTTCACTCAGCATCGA
21138603 AGA
1 AGA
21138606 AGTTCAGAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (47 bp):
AGATTCCCGTAAAAGATCATCAAGCAAGACTTTTCACTCAGCATCGA
Found at i:21139566 original size:44 final size:44
Alignment explanation
Indices: 21139498--21139585 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
21139488 AGTAAAGTTA
* *
21139498 CTGAAAAGAAGACTGAATCTGTACCAGTTGTGTGTGAGTATTCG
1 CTGAAAAGAAGACTGAATCCGTACCAGTTGTGTGCGAGTATTCG
*
21139542 CTGAAAAGAAGATTGAATCCGTACCAGTTGTGTGCGAGTATTCG
1 CTGAAAAGAAGACTGAATCCGTACCAGTTGTGTGCGAGTATTCG
21139586 GATGTGTTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (44 bp):
CTGAAAAGAAGACTGAATCCGTACCAGTTGTGTGCGAGTATTCG
Found at i:21142183 original size:114 final size:114
Alignment explanation
Indices: 21141983--21142210 Score: 438
Period size: 114 Copynumber: 2.0 Consensus size: 114
21141973 ACGTAAAGAC
21141983 ATAGAGTTTCAGATCGGAGAAAGAGCGTTTTTGAAAGTTTCACCGTGGAAGAAAATACTCAGATT
1 ATAGAGTTTCAGATCGGAGAAAGAGCGTTTTTGAAAGTTTCACCGTGGAAGAAAATACTCAGATT
21142048 CAGTCGTAAAGGCAAATTGAGTCTGAGATTTATTAGACCGTATGAGATT
66 CAGTCGTAAAGGCAAATTGAGTCTGAGATTTATTAGACCGTATGAGATT
*
21142097 ATAGAGTTTCAGATCGGAGAAAGAGTGTTTTTGAAAGTTTCACCGTGGAAGAAAATACTCAGATT
1 ATAGAGTTTCAGATCGGAGAAAGAGCGTTTTTGAAAGTTTCACCGTGGAAGAAAATACTCAGATT
*
21142162 CAGTTGTAAAGGCAAATTGAGTCTGAGATTTATTAGACCGTATGAGATT
66 CAGTCGTAAAGGCAAATTGAGTCTGAGATTTATTAGACCGTATGAGATT
21142211 TATTAGACGT
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (114 bp):
ATAGAGTTTCAGATCGGAGAAAGAGCGTTTTTGAAAGTTTCACCGTGGAAGAAAATACTCAGATT
CAGTCGTAAAGGCAAATTGAGTCTGAGATTTATTAGACCGTATGAGATT
Found at i:21145224 original size:24 final size:25
Alignment explanation
Indices: 21145179--21145226 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
21145169 AATAAATGAT
* *
21145179 ATGTGATATTATTATTTAGTTGAAG
1 ATGTGATATGATTATTGAGTTGAAG
*
21145204 ATGTG-TATGATTATTGGGTTGAA
1 ATGTGATATGATTATTGAGTTGAA
21145227 AATATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (25 bp):
ATGTGATATGATTATTGAGTTGAAG
Found at i:21160215 original size:40 final size:40
Alignment explanation
Indices: 21160171--21160269 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
21160161 GGCATGTCTT
* * *
21160171 ACATGCTTACGGTAGCATAATCAATTCAATAGCATGGTTA
1 ACATGCTTACGGTAACATAATCAATTCAATAGCAAGCTTA
*
21160211 ACATGCTTACGGTAACATAATCAATTCAATGGCAAGCTTA
1 ACATGCTTACGGTAACATAATCAATTCAATAGCAAGCTTA
* *
21160251 TCATGCTTATGGTAACATA
1 ACATGCTTACGGTAACATA
21160270 TTCAGTACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (40 bp):
ACATGCTTACGGTAACATAATCAATTCAATAGCAAGCTTA
Found at i:21167134 original size:48 final size:47
Alignment explanation
Indices: 21167078--21167188 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 47
21167068 AGATGCCGTA
* * *
21167078 TAAGACCATATCTGGAATATGGCATCGGCATTGTTATGCAATCTCATG
1 TAAGACCATATCTGG-ACATGACATCGGCATTGTTATGCAATCCCATG
* *
21167126 TAAGACCATATCTAGGACATGACATTGGCATTGTTATGCGATCCCATG
1 TAAGACCATATCT-GGACATGACATCGGCATTGTTATGCAATCCCATG
* *
21167174 AAAGACCATGTCTGG
1 TAAGACCATATCTGG
21167189 GCTATCGGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
47 2 0.04
48 51 0.93
49 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TAAGACCATATCTGGACATGACATCGGCATTGTTATGCAATCCCATG
Found at i:21170984 original size:19 final size:19
Alignment explanation
Indices: 21170949--21170986 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
21170939 TTGCAATTTA
*
21170949 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
21170968 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
21170987 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:21180619 original size:15 final size:15
Alignment explanation
Indices: 21180599--21180629 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21180589 ATGGTTGTTT
*
21180599 GATGTTCTAGGATAG
1 GATGTTCCAGGATAG
21180614 GATGTTCCAGGATAG
1 GATGTTCCAGGATAG
21180629 G
1 G
21180630 GTTTATGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.35, T:0.29
Consensus pattern (15 bp):
GATGTTCCAGGATAG
Found at i:21183247 original size:48 final size:48
Alignment explanation
Indices: 21183195--21183336 Score: 230
Period size: 48 Copynumber: 3.0 Consensus size: 48
21183185 TCATTATACG
*
21183195 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTGTTATGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTATGCA
* *
21183243 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGCG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTATGCA
* * *
21183291 ATCCCATGTAAAACCATGTCTGGGACATGGCATTGGTATTGATATG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTATG
21183337 AGAACATCAT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTGTTATGCA
Found at i:21186694 original size:48 final size:48
Alignment explanation
Indices: 21186623--21186893 Score: 325
Period size: 48 Copynumber: 5.6 Consensus size: 48
21186613 TGTACGCTAA
* *
21186623 TGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
*
21186671 TGTAAGACCATGTTTGGAACATGGCATCGGCCACGA-TATGAAAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAG
* * * *
21186719 TGTAAGACCATGTTTGGAACATGACAT-TGACA-ATGTAATAAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACAT-T-ATGAGAGCCAG
* *
21186767 TGTAAGACCATGTCTGGTACATGGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
* * * ** * *
21186815 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CGTGTGAGCCAA
1 TGTAAGACCATGTTTGGAACATGGCATCGGCCAC-ATTATGAGAGCCAG
*
21186863 TGTAAGACCATGTTTAGAACATGGCATCGGC
1 TGTAAGACCATGTTTGGAACATGGCATCGGC
21186894 AATTCACCCT
Statistics
Matches: 193, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.01
47 4 0.02
48 180 0.93
49 6 0.03
50 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCCAG
Found at i:21186883 original size:144 final size:144
Alignment explanation
Indices: 21186623--21186885 Score: 427
Period size: 144 Copynumber: 1.8 Consensus size: 144
21186613 TGTACGCTAA
*
21186623 TGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
21186688 AACATGGCATCGGCCACGATATGAAAGCCAGTGTAAGACCATGTTTGGAACATGACATTGACAAT
66 AACATGGCATCGGCCACGACATGAAAGCCAATGTAAGACCATGTTTAGAACATGACATTGACAAT
21186753 GTAATAAGAGCCAG
131 GTAATAAGAGCCAG
* *
21186767 TGTAAGACCATGTCTGGTACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
* * * **
21186832 GACATGGCATCGGCCTCGACGTGTGAGCCAATGTAAGACCATGTTTAGAACATG
66 AACATGGCATCGGCCACGACATGAAAGCCAATGTAAGACCATGTTTAGAACATG
21186886 GCATCGGCAA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 108 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (144 bp):
TGTAAGACCATGTATGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
AACATGGCATCGGCCACGACATGAAAGCCAATGTAAGACCATGTTTAGAACATGACATTGACAAT
GTAATAAGAGCCAG
Found at i:21189665 original size:40 final size:40
Alignment explanation
Indices: 21189583--21189802 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
21189573 ACCTAAGTAT
* * * *
21189583 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCAC-AATAC
1 CTTCGGGACTTAGCCCAGATATAGTC-ACTAGCACAAATGC
* * *
21189621 CTTCGGGTCTTAGCCCAGATGTAGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
*
21189661 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
* * *
21189701 CTTTGGGACTTAGCCCAGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
* * * * *
21189741 CTTC-GGATCTTAGTCCGGTTATAGTCACTAACACAAAAGC
1 CTTCGGGA-CTTAGCCCAGATATAGTCACTAGCACAAATGC
21189781 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCAGATAT
21189803 CATTCGAATA
Statistics
Matches: 151, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 120 0.79
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATGC
Found at i:21195118 original size:40 final size:41
Alignment explanation
Indices: 21195063--21195278 Score: 302
Period size: 40 Copynumber: 5.4 Consensus size: 41
21195053 GATGATAACG
* *
21195063 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
21195103 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
21195143 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
* **
21195183 GGGCTAAGTCCCGAAGGCATTTGTGTGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
*
21195223 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATATCC
* *
21195263 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
21195279 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 18 0.11
40 146 0.89
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATATCC
Found at i:21203130 original size:40 final size:40
Alignment explanation
Indices: 21203074--21203289 Score: 278
Period size: 40 Copynumber: 5.4 Consensus size: 40
21203064 GATGATAACG
* * * *
21203074 GGGCTAAGACCTGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
21203114 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
21203154 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
21203194 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
21203234 GGGCTAAGTCCCGAAGGCATTTGAGTGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
21203274 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
21203290 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:21209900 original size:16 final size:16
Alignment explanation
Indices: 21209881--21209912 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21209871 TTATAAACAT
21209881 ATAAAATAAAAATAAA
1 ATAAAATAAAAATAAA
21209897 ATAAAATAAAAATAAA
1 ATAAAATAAAAATAAA
21209913 GATGTTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAAATAAA
Found at i:21210068 original size:27 final size:28
Alignment explanation
Indices: 21210038--21210116 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 28
21210028 TAATATTACG
*
21210038 CATATTTATTTAATAATAAAATAAAA-A
1 CATATATATTTAATAATAAAATAAAATA
* * **
21210065 CATATGTAATTAATAA-GCAATAAAATA
1 CATATATATTTAATAATAAAATAAAATA
*
21210092 -ATATATATTTTATAATAAAATAAAA
1 CATATATATTTAATAATAAAATAAAA
21210117 GTGATGTAAG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (28 bp):
CATATATATTTAATAATAAAATAAAATA
Found at i:21210209 original size:21 final size:20
Alignment explanation
Indices: 21210164--21210223 Score: 52
Period size: 23 Copynumber: 2.8 Consensus size: 20
21210154 TAATAAAATT
21210164 TATAAACGAAATATATAATAA
1 TATAAAC-AAATATATAATAA
21210185 TATAAAC-AATATGATAAGTACTA
1 TATAAACAAATAT-ATAA-TA--A
21210208 TATAAA-ATAATATATA
1 TATAAACA-AATATATA
21210224 TTTATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
19 5 0.15
20 4 0.12
21 9 0.27
23 10 0.30
24 5 0.15
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
TATAAACAAATATATAATAA
Found at i:21212618 original size:220 final size:220
Alignment explanation
Indices: 21212050--21212603 Score: 871
Period size: 220 Copynumber: 2.5 Consensus size: 220
21212040 ATGCTGATAT
* ** * * *
21212050 TTCGATCTACTCTCCGTCGAACACAGAGACGCCAAATTTTCTTCTTCGATTTGTT-TCCTGACAA
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTACTTCTTCGATTTGTTCT-CTGACAA
* *
21212114 TACAGAGATGCCAAATCATCTTAGAT-TCGCTTCAGCGTAAACACCTGAAAGCCAAATCTGCTAC
65 TACAGAGATGCCAAATCATCTTAGATCT-GCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTAT
* *
21212178 GTCTTCGGTCTGCTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCTGCTTCGATGCAAAA
129 GTCTTCGATCTGCTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCTACTTCGATGCAAAA
21212243 ACATCCGAAGGTTAGATCTGCTATGTC
194 ACATCCGAAGGTTAGATCTGCTATGTC
* * *
21212270 TTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCAATTTGTTCTCTGACAAT
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTACTTCTTCGATTTGTTCTCTGACAAT
21212335 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
66 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
* * * **
21212400 CTTTGATTTGCTCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAAAC
131 CTTCGATCTGCTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCTACTTCGATGCAAAAAC
*
21212465 ATTCGAAGGTTAGATCTGCTATGTC
196 ATCCGAAGGTTAGATCTGCTATGTC
* * *
21212490 TTCGATCTACTCTCTGTCGAATATGGAGATGCCAAATCTACTTCTTTGATTTATTCTCTGACAAT
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTACTTCTTCGATTTGTTCTCTGACAAT
21212555 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT-AAAG
66 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAG
21212604 GTTAGATCTG
Statistics
Matches: 307, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
219 4 0.01
220 301 0.98
221 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (220 bp):
TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTACTTCTTCGATTTGTTCTCTGACAAT
ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
CTTCGATCTGCTCCTTGTAAACACAAAGATGCCAAATCATCTTGGATCTACTTCGATGCAAAAAC
ATCCGAAGGTTAGATCTGCTATGTC
Found at i:21221233 original size:49 final size:48
Alignment explanation
Indices: 21221103--21221246 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
21221093 TCTATTGTGA
*
21221103 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
21221154 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
21221203 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
21221247 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
49 40 0.49
50 2 0.02
51 34 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:21227399 original size:16 final size:15
Alignment explanation
Indices: 21227376--21227411 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
21227366 AGCAAATTAT
21227376 AAATATATAAAATAA
1 AAATATATAAAATAA
21227391 AAATCATATAAAATAA
1 AAAT-ATATAAAATAA
21227407 AAATA
1 AAATA
21227412 AAGATGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
AAATATATAAAATAA
Found at i:21227570 original size:27 final size:28
Alignment explanation
Indices: 21227539--21227618 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 28
21227529 TTAATATTAC
*
21227539 ACATATTTATTTAATAATAAAATAAAA-
1 ACATATATATTTAATAATAAAATAAAAT
* * * *
21227566 ACATATGTAATTAAGAAGT--GATAAAAT
1 ACATATATATTTAATAA-TAAAATAAAAT
*
21227593 A-ATATATATTTTATAATAAAATAAAA
1 ACATATATATTTAATAATAAAATAAAA
21227619 GAGATGTAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
25 1 0.03
26 17 0.43
27 21 0.52
28 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (28 bp):
ACATATATATTTAATAATAAAATAAAAT
Found at i:21227690 original size:21 final size:21
Alignment explanation
Indices: 21227666--21227711 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21227656 TAATAAAATT
21227666 TATAAACGAAATAT-ATAA-TAA
1 TATAAAC--AATATGATAAGTAA
21227687 TATAAACAATATGATAAGTAA
1 TATAAACAATATGATAAGTAA
21227708 TATA
1 TATA
21227712 TAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
TATAAACAATATGATAAGTAA
Found at i:21227726 original size:16 final size:16
Alignment explanation
Indices: 21227707--21227768 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
21227697 ATGATAAGTA
21227707 ATATATAAAATAATAT
1 ATATATAAAATAATAT
* * *
21227723 ATATTTATAATAAAAT
1 ATATATAAAATAATAT
** *
21227739 ATAGGTAACATAATAT
1 ATATATAAAATAATAT
*
21227755 ATA-ATAATATAATA
1 ATATATAAAATAATA
21227769 AATAATATAC
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
15 9 0.25
16 27 0.75
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (16 bp):
ATATATAAAATAATAT
Found at i:21227876 original size:21 final size:21
Alignment explanation
Indices: 21227845--21227886 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
21227835 TATTTAGGAT
21227845 AAATTGAATTTATATATAAAAA
1 AAATTGAATTTA-ATATAAAAA
*
21227867 AAATT-AATTTAATTTAAAAA
1 AAATTGAATTTAATATAAAAA
21227887 TTTAGGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
AAATTGAATTTAATATAAAAA
Found at i:21239323 original size:48 final size:47
Alignment explanation
Indices: 21239271--21239526 Score: 162
Period size: 48 Copynumber: 5.4 Consensus size: 47
21239261 AGATTGATAA
* * * * *
21239271 GATCCCGTATAAGACCATATCTAGGATATAGCATTGGCATCGTTATGC
1 GATCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCATCGTTATGC
* * * * *
21239319 GATCCCCTGTAAGACAATGTCTGGGACATGGCATTAGTATTGTTATGC
1 GATCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCATCGTTATGC
* ** *
21239367 GATCCCATGTAAAACCATGTCTGGGACATGCCATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATG-CATTGGCATCGTTATGC
* * * * * * * *
21239415 GAACATCGTGTAAGACCATAG-CTGGG-C-T--ATCGGCTTTCATATGTGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGCATTGGC-ATCGT-TATGC
* * *
21239461 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGT
1 GATCCCATGTAAGACCATGTCTGGGACAT-GCATTGGCATCGTTATGC
* *
21239509 GGTCCCATATAAGACCAT
1 GATCCCATGTAAGACCAT
21239527 ATCCAAGATA
Statistics
Matches: 158, Mismatches: 39, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
44 6 0.04
45 20 0.13
46 7 0.04
47 3 0.02
48 98 0.62
49 18 0.11
50 6 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (47 bp):
GATCCCATGTAAGACCATGTCTGGGACATGCATTGGCATCGTTATGC
Found at i:21241836 original size:16 final size:16
Alignment explanation
Indices: 21241795--21241837 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
21241785 TCTTTCAGCT
*
21241795 TTTCAGCATTTTGACA
1 TTTCGGCATTTTGACA
* *
21241811 TTTCGACATTTTGGCA
1 TTTCGGCATTTTGACA
*
21241827 TTTTGGCATTT
1 TTTCGGCATTT
21241838 CAGGATTTGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (16 bp):
TTTCGGCATTTTGACA
Found at i:21246750 original size:18 final size:18
Alignment explanation
Indices: 21246729--21246763 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21246719 CAGGCACTCT
*
21246729 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
21246747 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
21246764 CGTAGTAGTC
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:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:21247974 original size:13 final size:15
Alignment explanation
Indices: 21247946--21247982 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
21247936 TTCTTCTCTG
21247946 TTTCTTTCTATTCTT
1 TTTCTTTCTATTCTT
21247961 TTTCTTT-T-TTCTT
1 TTTCTTTCTATTCTT
21247974 TTTCTTTCT
1 TTTCTTTCT
21247983 TTTGTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 12 0.57
14 2 0.10
15 7 0.33
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTCTATTCTT
Found at i:21247985 original size:15 final size:15
Alignment explanation
Indices: 21247930--21247985 Score: 62
Period size: 15 Copynumber: 3.8 Consensus size: 15
21247920 TTCTCCCTTG
* *
21247930 TTTCGTTTCTTCTCTG
1 TTTC-TTTCTTTTCTT
*
21247946 TTTCTTTCTATTCTT
1 TTTCTTTCTTTTCTT
21247961 TTTC-TT-TTTTCTT
1 TTTCTTTCTTTTCTT
21247974 TTTCTTTCTTTT
1 TTTCTTTCTTTT
21247986 GTTATATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 10 0.29
14 4 0.12
15 16 0.47
16 4 0.12
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTCTTTCTTTTCTT
Found at i:21255007 original size:33 final size:34
Alignment explanation
Indices: 21254964--21255056 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
21254954 TTTTGCTACT
* **
21254964 ATTTTCTTATTATA-TTTTTACTATTTTGTTATC
1 ATTTTATTATTATAGTTACTACTATTTTGTTATC
* * *
21254997 CTTTTATTATTA-AGTTACTACTTTTTTGTTATT
1 ATTTTATTATTATAGTTACTACTATTTTGTTATC
*
21255030 ATTTTATTATTAT-GTTACTATTATTTT
1 ATTTTATTATTATAGTTACTACTATTTT
21255057 TTTTATTTGA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
32 1 0.02
33 48 0.98
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.66
Consensus pattern (34 bp):
ATTTTATTATTATAGTTACTACTATTTTGTTATC
Found at i:21255039 original size:11 final size:11
Alignment explanation
Indices: 21254963--21255064 Score: 59
Period size: 11 Copynumber: 9.5 Consensus size: 11
21254953 GTTTTGCTAC
*
21254963 TATTTTCTTAT
1 TATTTTATTAT
*
21254974 TATATTT-TTAC
1 TAT-TTTATTAT
*
21254985 TATTTTGTTAT
1 TATTTTATTAT
**
21254996 CCTTTTATTAT
1 TATTTTATTAT
** *
21255007 TAAGTTACTACT
1 TATTTTATTA-T
*
21255019 T-TTTTGTTAT
1 TATTTTATTAT
21255029 TATTTTATTAT
1 TATTTTATTAT
* *
21255040 TATGTTACTAT
1 TATTTTATTAT
21255051 TATTTT-TT-T
1 TATTTTATTAT
21255060 TATTT
1 TATTT
21255065 GAATATTGTA
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
9 6 0.09
10 6 0.09
11 51 0.75
12 5 0.07
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.68
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:21271521 original size:18 final size:19
Alignment explanation
Indices: 21271500--21271541 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
21271490 TTTTTTAGAG
21271500 TTTTACAATTT-TTA-ATAA
1 TTTTACAATTTGTTACA-AA
*
21271518 TTTTATAATTTGTTACAAA
1 TTTTACAATTTGTTACAAA
21271537 TTTTA
1 TTTTA
21271542 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 10 0.48
19 10 0.48
20 1 0.05
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTACAATTTGTTACAAA
Found at i:21271521 original size:28 final size:28
Alignment explanation
Indices: 21271478--21271553 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 28
21271468 AATCTTGAAA
*
21271478 AAATTTT-ATAATTTTTTTAGAGTT-TTAC
1 AAATTTTAATAA-TTTTATA-AGTTGTTAC
* *
21271506 AATTTTTAATAATTTTATAATTTGTTAC
1 AAATTTTAATAATTTTATAAGTTGTTAC
21271534 AAATTTTAATAATTTTATAA
1 AAATTTTAATAATTTTATAA
21271554 TTATTTATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 3 0.07
28 35 0.83
29 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (28 bp):
AAATTTTAATAATTTTATAAGTTGTTAC
Found at i:21271540 original size:19 final size:17
Alignment explanation
Indices: 21271477--21271549 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 17
21271467 TAATCTTGAA
21271477 AAAATTTTATAATTTTTTT
1 AAAATTTTATAA--TTTTT
* * *
21271496 AGAGTTTTACAATTTTT
1 AAAATTTTATAATTTTT
21271513 AATAATTTTATAATTTGTT
1 AA-AATTTTATAATTT-TT
21271532 ACAAATTTTAATAATTTT
1 A-AAATTTT-ATAATTTT
21271550 ATAATTATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 19 0.43
20 8 0.18
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (17 bp):
AAAATTTTATAATTTTT
Found at i:21271554 original size:28 final size:28
Alignment explanation
Indices: 21271502--21271555 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
21271492 TTTTAGAGTT
*
21271502 TTACAATTTTTAATAATTTTATAATTTG
1 TTACAAATTTTAATAATTTTATAATTTG
21271530 TTACAAATTTTAATAATTTTATAATT
1 TTACAAATTTTAATAATTTTATAATT
21271556 ATTTATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
TTACAAATTTTAATAATTTTATAATTTG
Found at i:21275194 original size:42 final size:42
Alignment explanation
Indices: 21275125--21275209 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
21275115 CTTGTGAGTA
*
21275125 GACCGTGTGACTCACACAACCAAGTGACATCCCATGTCTTAG
1 GACCATGTGACTCACACAACCAAGTGACATCCCATGTCTTAG
*
21275167 GACCATGTGGCTCACACAACCAAGTGACATCCCATGTCTTAG
1 GACCATGTGACTCACACAACCAAGTGACATCCCATGTCTTAG
21275209 G
1 G
21275210 CTGTGTAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (42 bp):
GACCATGTGACTCACACAACCAAGTGACATCCCATGTCTTAG
Found at i:21285866 original size:14 final size:15
Alignment explanation
Indices: 21285847--21285876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21285837 AATGGCTAGA
21285847 TTACAAG-CATCCAT
1 TTACAAGCCATCCAT
21285861 TTACAAGCCATCCAT
1 TTACAAGCCATCCAT
21285876 T
1 T
21285877 GGCTAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (15 bp):
TTACAAGCCATCCAT
Found at i:21296054 original size:642 final size:642
Alignment explanation
Indices: 21294831--21296111 Score: 1999
Period size: 642 Copynumber: 2.0 Consensus size: 642
21294821 GCAACGGTGC
* *
21294831 CAAAAACTTGGAATGGCAAAAATGTGCAAGTGTACACAATCACAGCAAGTAATAAAGTGACAAGT
1 CAAAAACTTAGAATGACAAAAATGTGCAAGTGTACACAATCACAGCAAGTAATAAAGTGACAAGT
* * *
21294896 AAATATCAAGTTATCGTACCCATAGGGACTATGAAAAGAATTATTTATGAATGTAATTAAAAACA
66 AAATATCAAGTTATCGTACCCATAAGGACTATGAAAACAATTATTTATGAATGCAATTAAAAACA
*
21294961 CTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTAATTAAATATAAGATTTTTAACTAAGTAAA
131 CTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTAATTAAAAATAAGATTTTTAACTAAGTAAA
* * * *
21295026 ATAAATAAAAAGAAAATAGAAGTTCCAATGCATGATTTCAAAATATGATTTTAATCAAGATGACA
196 ATAAATAAAAAGAAAATAAAAGTTCCAATGCACGATTTCAAAAGAAGATTTTAATCAAGATGACA
* *
21295091 TAATTGTGCTAGATTAATTACATTTCTTAACTTACAATTATTAAACTCATGTTTATGTTGTTACG
261 TAATTGTGCTAGATCAATTACATTTCTTAACTTACAATTATTAAACTCATGATTATGTTGTTACG
* **
21295156 AATAAATTCACAGCAACTCGATAATTTGCTAACTTATGAACATACTTACCTACCAAAATTCATTT
326 AATAAATTCACAGCAACTCGATAATTTGCTAACTTATGAACATACTCACCTACCAAAACCCATTT
* *
21295221 ATCTCTTGATTATATCTCTACGTCAATTCAACCGATTAAACAAATTTTAATAACCAAATGTGTTA
391 ATCTCTTGACTATATCTCTACGTCAATTCAACCGATTAAACAAATTTTAATAACAAAATGTGTTA
* *
21295286 ATGCACATACATACTTATGAAATTAAAATAATCTCTTGTACATACCTCTATGCCAATTCAAACAA
456 ATGCACATACATACTTATGAAACTAAAATAATCTCTTGTACATACCTCTATGCCAATTCAAAAAA
* ** *
21295351 TTAATTCAATCCCATAAGCACATAAAAGCTTATGTGAGGTAACAATGTATTTCTACCTTGAAACA
521 TTAATTCAATCCCATAAGCACATAAAAGATTACATGAGGTAACAATGTATTTCTACCTTGAAAAA
* * * *
21295416 GTTTAATCACAATAATCTTGCAAGTTATGCAAGGCTAATATATTGTTAGATACCAAA
586 ATTTAATCACAATAATCTTGCAAGTTATGCAAGGCAAATATATCGCTAGATACCAAA
* *
21295473 CAAAAACTTAGAATGACAGAAATGTGCAAGTGTACACAATCGCAGCAAGTAATAAAGTGA-AAGT
1 CAAAAACTTAGAATGACAAAAATGTGCAAGTGTACACAATCACAGCAAGTAATAAAGTGACAAGT
* * * *
21295537 AAATATCGAGTTATCGTACCCATAAGGACTGTGAAAACAATTATTTATGAATGCAATTTTAAAAT
66 AAATATCAAGTTATCGTACCCATAAGGACTATGAAAACAATTATTTATGAATGCAA-TTAAAAAC
* * *
21295602 AGTTTGGTGAGGAAAAATA-TTTGATTTGAGGAGGTGATTAAAAACTAAGATTTTTAACTAAGTA
130 ACTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTAATTAAAAA-TAAGATTTTTAACTAAGTA
* * *
21295666 AAATTAATAAAGAGAAAATAAAAGTTCCAATGCACGATTTCAAAAGAAGATTTTAATCAATATGA
194 AAATAAATAAAAAGAAAATAAAAGTTCCAATGCACGATTTCAAAAGAAGATTTTAATCAAGATGA
* *
21295731 CATAATTGTGTTAGATCAATTACATTTCTTAACTTAGAATTATTAAACTCATGATTATGTTGTTA
259 CATAATTGTGCTAGATCAATTACATTTCTTAACTTACAATTATTAAACTCATGATTATGTTGTTA
* * * * *
21295796 CGAATAAATTTATAGCAACTCGGTAATTTGCTAACTTATGAATATACTCACCTACGAAAACCCAT
324 CGAATAAATTCACAGCAACTCGATAATTTGCTAACTTATGAACATACTCACCTACCAAAACCCAT
* * * * *
21295861 TTATCTCTTGACTATATTTCTATGTCAATTCAACCGATTAAACAGATTTTTATAAGAAAATGTGT
389 TTATCTCTTGACTATATCTCTACGTCAATTCAACCGATTAAACAAATTTTAATAACAAAATGTGT
* * * *
21295926 TATTGCACATGCATACTTATGAAACTAAAATAATCTCTTGTACATATCTTTATGCCAATTCAAAA
454 TAATGCACATACATACTTATGAAACTAAAATAATCTCTTGTACATACCTCTATGCCAATTCAAAA
* *
21295991 AATTAATTTAATCTCATAAGCACATAAAAGATTACATGAGGTAACAATGTATTTCTACCTTGAAA
519 AATTAATTCAATCCCATAAGCACATAAAAGATTACATGAGGTAACAATGTATTTCTACCTTGAAA
* *
21296056 AAATTTTATCACAATAATCTTGCAAGTTATGCAAGGCAAATGTATCGCTAGATACC
584 AAATTTAATCACAATAATCTTGCAAGTTATGCAAGGCAAATATATCGCTAGATACC
21296112 GTTGCTAATT
Statistics
Matches: 578, Mismatches: 59, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
641 78 0.13
642 500 0.87
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (642 bp):
CAAAAACTTAGAATGACAAAAATGTGCAAGTGTACACAATCACAGCAAGTAATAAAGTGACAAGT
AAATATCAAGTTATCGTACCCATAAGGACTATGAAAACAATTATTTATGAATGCAATTAAAAACA
CTTTGGTGAAGAAAAATATTTTGATTTGAGGAGGTAATTAAAAATAAGATTTTTAACTAAGTAAA
ATAAATAAAAAGAAAATAAAAGTTCCAATGCACGATTTCAAAAGAAGATTTTAATCAAGATGACA
TAATTGTGCTAGATCAATTACATTTCTTAACTTACAATTATTAAACTCATGATTATGTTGTTACG
AATAAATTCACAGCAACTCGATAATTTGCTAACTTATGAACATACTCACCTACCAAAACCCATTT
ATCTCTTGACTATATCTCTACGTCAATTCAACCGATTAAACAAATTTTAATAACAAAATGTGTTA
ATGCACATACATACTTATGAAACTAAAATAATCTCTTGTACATACCTCTATGCCAATTCAAAAAA
TTAATTCAATCCCATAAGCACATAAAAGATTACATGAGGTAACAATGTATTTCTACCTTGAAAAA
ATTTAATCACAATAATCTTGCAAGTTATGCAAGGCAAATATATCGCTAGATACCAAA
Found at i:21297211 original size:11 final size:11
Alignment explanation
Indices: 21297184--21297217 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21297174 GAAAATAACC
21297184 AAAATTAA-TA
1 AAAATTAATTA
21297194 AAAATTAATTA
1 AAAATTAATTA
*
21297205 TAAATTAATTA
1 AAAATTAATTA
21297216 AA
1 AA
21297218 TTAGTTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:21301671 original size:39 final size:39
Alignment explanation
Indices: 21301627--21301703 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
21301617 GCTTAAGATC
*
21301627 CAAGTTGAGTTGTTGAAGAGCCCAGTAAGCTTTGTGCTT
1 CAAGTTGAATTGTTGAAGAGCCCAGTAAGCTTTGTGCTT
21301666 CAAGTTGAATTGTTGAAGAGCCCAGTAAGCTTTGTGCT
1 CAAGTTGAATTGTTGAAGAGCCCAGTAAGCTTTGTGCT
21301704 CTAACTCCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (39 bp):
CAAGTTGAATTGTTGAAGAGCCCAGTAAGCTTTGTGCTT
Found at i:21314779 original size:16 final size:16
Alignment explanation
Indices: 21314758--21314792 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
21314748 GTCGAAAAGT
21314758 TCTTTCAATCTCAAGG
1 TCTTTCAATCTCAAGG
21314774 TCTTTCAATCTCAAGG
1 TCTTTCAATCTCAAGG
21314790 TCT
1 TCT
21314793 ATAGGGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (16 bp):
TCTTTCAATCTCAAGG
Found at i:21318240 original size:49 final size:49
Alignment explanation
Indices: 21318165--21318331 Score: 155
Period size: 48 Copynumber: 3.4 Consensus size: 49
21318155 CATGTCTAAT
* * *
21318165 AGGTCTTACATTGGCTTTCATATATCGAGGCCGATGCCATGTCCCAGAC
1 AGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGAC
* *
21318214 AGGTCTTACACTAGCTCTCATCTATCG-GTGTCGATGCCATGT-CCAGAC
1 AGGTCTTACACTAGCTCTCATATATCGAG-GCCGATGCCATGTCCCAGAC
* ** * *
21318262 AGGTCGTACACTA--TCTTGTATATCTTGAGGCCAATG-CATGTCCCACAC
1 AGGTCTTACACTAGCTCTCATATATC--GAGGCCGATGCCATGTCCCAGAC
* * *
21318310 ATGTCTTACACTGGCTCACATA
1 AGGTCTTACACTAGCTCTCATA
21318332 CCACCCAATG
Statistics
Matches: 93, Mismatches: 18, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
46 8 0.09
47 5 0.05
48 40 0.43
49 36 0.39
50 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
AGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCCCAGAC
Found at i:21320357 original size:15 final size:15
Alignment explanation
Indices: 21320316--21320361 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21320306 TTCATCAAAT
*
21320316 ACTCTTTAAAGTTGA
1 ACTCTTTAAAGTAGA
*
21320331 A-TCTTTTTAAGTAGA
1 ACTC-TTTAAAGTAGA
21320346 ACTCTTTAAAGTAGA
1 ACTCTTTAAAGTAGA
21320361 A
1 A
21320362 GTTGACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 22 0.85
16 2 0.08
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (15 bp):
ACTCTTTAAAGTAGA
Found at i:21322604 original size:23 final size:25
Alignment explanation
Indices: 21322547--21322606 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
21322537 TATTTTAATT
* *
21322547 ATTTTATTTTAAAATATTATTAAATA
1 ATTTTA-TTTAAATTATTATTAAAAA
21322573 A-TTTA-TTAAATTA-T-TTAAAAA
1 ATTTTATTTAAATTATTATTAAAAA
21322594 ATTTTATTTAAAT
1 ATTTTATTTAAAT
21322607 CATTCAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 7 0.23
22 5 0.17
23 13 0.43
25 4 0.13
26 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTTATTTAAATTATTATTAAAAA
Found at i:21322664 original size:29 final size:30
Alignment explanation
Indices: 21322550--21322667 Score: 105
Period size: 31 Copynumber: 3.8 Consensus size: 30
21322540 TTTAATTATT
* * *
21322550 TTATTTTAAAATATTATTAAATAATTTATTAAA
1 TTATTTTAAAATTTTATT---TAAATTACTAAA
* * * *
21322583 TTATTTAAAAAATTTTATTTAAATCATTCAA
1 TTATTT-TAAAATTTTATTTAAATTACTAAA
21322614 TTATTTTAAAATTTTTATTTAAATTACTAAA
1 TTATTTTAAAA-TTTTATTTAAATTACTAAA
21322645 TTA-TTT-AAATTTTAATTTAAATT
1 TTATTTTAAAATTTT-ATTTAAATT
21322668 CATGATACTC
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.05
29 12 0.16
30 7 0.10
31 34 0.47
33 6 0.08
34 10 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TTATTTTAAAATTTTATTTAAATTACTAAA
Found at i:21332162 original size:7 final size:7
Alignment explanation
Indices: 21332149--21332185 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
21332139 TTGGCGTGGA
21332149 GGTGTAC
1 GGTGTAC
*
21332156 GGCGTAC
1 GGTGTAC
21332163 GGTGTAC
1 GGTGTAC
21332170 GGTGTAC
1 GGTGTAC
21332177 GGTGTAC
1 GGTGTAC
21332184 GG
1 GG
21332186 AGGCGCTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.16, G:0.46, T:0.24
Consensus pattern (7 bp):
GGTGTAC
Found at i:21336836 original size:19 final size:19
Alignment explanation
Indices: 21336812--21336850 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
21336802 TAACATTTCA
21336812 CATTTTTCATAATTTAGTC
1 CATTTTTCATAATTTAGTC
*
21336831 CATTTTTTATAATTTAGTC
1 CATTTTTCATAATTTAGTC
21336850 C
1 C
21336851 CTATTTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
CATTTTTCATAATTTAGTC
Found at i:21340778 original size:27 final size:27
Alignment explanation
Indices: 21340740--21340793 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21340730 TTGGATATGA
21340740 TAGGAAAATTTTTGAGCTCATAAGGTT
1 TAGGAAAATTTTTGAGCTCATAAGGTT
21340767 TAGGAAAATTTTTGAGCTCATAAGGTT
1 TAGGAAAATTTTTGAGCTCATAAGGTT
21340794 ATATAATGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (27 bp):
TAGGAAAATTTTTGAGCTCATAAGGTT
Found at i:21344549 original size:18 final size:18
Alignment explanation
Indices: 21344526--21344608 Score: 79
Period size: 18 Copynumber: 4.8 Consensus size: 18
21344516 TCCTGGCCTG
21344526 TTGATTATATAATTTAAA
1 TTGATTATATAATTTAAA
*
21344544 TTGATTATATAATTAAAAA
1 TTGATTATATAATT-TAAA
21344563 TT-ATTATCAT--TTT--A
1 TTGATTAT-ATAATTTAAA
*
21344577 TCTAATTA-ATAATTTAAA
1 T-TGATTATATAATTTAAA
21344595 TTGATTATATAATT
1 TTGATTATATAATT
21344609 CATTAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
14 4 0.08
15 1 0.02
16 7 0.13
17 7 0.13
18 27 0.51
19 7 0.13
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
TTGATTATATAATTTAAA
Found at i:21349524 original size:2 final size:2
Alignment explanation
Indices: 21349517--21349541 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21349507 TTTATAAATA
21349517 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21349542 CTTGGACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21349850 original size:37 final size:39
Alignment explanation
Indices: 21349807--21349881 Score: 102
Period size: 38 Copynumber: 1.9 Consensus size: 39
21349797 AATTAATTTT
21349807 TTAAAAAT-TTAAAAATTATATAAAA-A-TATTTTTAAAA
1 TTAAAAATATT-AAAATTATATAAAATATTATTTTTAAAA
*
21349844 TTAAAAATCATTAAAATTATTTAAAATATTATTTTTAA
1 TTAAAAAT-ATTAAAATTATATAAAATATTATTTTTAA
21349882 TATATATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 8 0.24
38 13 0.39
39 3 0.09
40 9 0.27
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (39 bp):
TTAAAAATATTAAAATTATATAAAATATTATTTTTAAAA
Found at i:21349909 original size:28 final size:28
Alignment explanation
Indices: 21349801--21349921 Score: 88
Period size: 28 Copynumber: 4.3 Consensus size: 28
21349791 ATATTTAATT
*
21349801 AATTTTTTAAAAATTTAAAAATTATATAAA
1 AATTTTTT-AAAATTTAAAAATTA-ATATA
* *
21349831 AATATTTTTAAAA-TTAAAAATCATTA-A
1 AAT-TTTTTAAAATTTAAAAATTAATATA
* ***
21349858 AATTATTTAAAATATT-ATTTTTAATATA
1 AATTTTTTAAAAT-TTAAAAATTAATATA
* *
21349886 TATTTTTTAAAATTTTAAAATTAAT-TA
1 AATTTTTTAAAATTTAAAAATTAATATA
21349913 AATTCTTTT
1 AATT-TTTT
21349922 GTGTCATTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
26 8 0.11
27 16 0.23
28 26 0.37
29 9 0.13
30 7 0.10
31 5 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
AATTTTTTAAAATTTAAAAATTAATATA
Found at i:21350097 original size:25 final size:25
Alignment explanation
Indices: 21350055--21350107 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
21350045 GGACTAAAAT
* *
21350055 AAAATTTTTATAAGTTAAAAGGTAAA
1 AAAATTATTATAACTTAAAA-GTAAA
*
21350081 AAAATTATTAT-ACTTAAAATTAAA
1 AAAATTATTATAACTTAAAAGTAAA
21350105 AAA
1 AAA
21350108 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 7 0.29
26 10 0.42
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (25 bp):
AAAATTATTATAACTTAAAAGTAAA
Found at i:21354380 original size:38 final size:38
Alignment explanation
Indices: 21354336--21354413 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
21354326 AAAGTAAAAA
21354336 GAATGACAATAAAATTATCAATTGTCACAATTTATATT
1 GAATGACAATAAAATTATCAATTGTCACAATTTATATT
21354374 GAATGACAATAAAATTATCAATTGTCACAATTTATATT
1 GAATGACAATAAAATTATCAATTGTCACAATTTATATT
21354412 GA
1 GA
21354414 CATTATTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (38 bp):
GAATGACAATAAAATTATCAATTGTCACAATTTATATT
Found at i:21360027 original size:17 final size:18
Alignment explanation
Indices: 21359978--21360027 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
21359968 GGCCTACCCA
* *
21359978 TGTGAACCCACATGCTCG
1 TGTGGACCCACACGCTCG
*
21359996 TGTGGACCCATACGCTCG
1 TGTGGACCCACACGCTCG
21360014 TGTGG-CCCACACGC
1 TGTGGACCCACACGC
21360028 CTAGATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.18, C:0.36, G:0.26, T:0.20
Consensus pattern (18 bp):
TGTGGACCCACACGCTCG
Found at i:21363715 original size:45 final size:44
Alignment explanation
Indices: 21363625--21363755 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
21363615 CCGAATTTAT
* * *
21363625 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
* * *
21363668 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATTAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
*
21363713 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
21363756 CTGTACAACA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.19
45 50 0.67
46 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:21371714 original size:45 final size:44
Alignment explanation
Indices: 21371624--21371754 Score: 174
Period size: 45 Copynumber: 3.0 Consensus size: 44
21371614 CCGAATTTAT
* * *
21371624 TCACCGGCATT-TTGCCTGCTAGGCTCGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
* *
21371667 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATAATATC
**
21371712 TCACCAACATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCT-CAAGGCCCGAATAATA
21371755 CTGTACAACA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
43 10 0.13
44 14 0.18
45 51 0.67
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATAATATC
Found at i:21376097 original size:34 final size:34
Alignment explanation
Indices: 21376057--21376124 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
21376047 TCAAACAGTC
21376057 TTGGGCCTAAGCACC-T-TTCAGTATTAGTAACGGT
1 TTGGGCCTAAGC-CCATCTT-AGTATTAGTAACGGT
* *
21376091 TTGGGCCTTAGCCCATCTTAGTATTAGTACCGGT
1 TTGGGCCTAAGCCCATCTTAGTATTAGTAACGGT
21376125 CACGTAGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.07
34 26 0.87
35 2 0.07
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.34
Consensus pattern (34 bp):
TTGGGCCTAAGCCCATCTTAGTATTAGTAACGGT
Found at i:21379007 original size:14 final size:13
Alignment explanation
Indices: 21378984--21379015 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
21378974 GGGATATCAA
21378984 AACAATAATTAAG
1 AACAATAATTAAG
21378997 AACACATAATTAAG
1 AACA-ATAATTAAG
21379011 AACAA
1 AACAA
21379016 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:21380270 original size:8 final size:8
Alignment explanation
Indices: 21380259--21380294 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
21380249 TGTATACATG
21380259 TTTTTTA-
1 TTTTTTAT
21380266 TTTTTTAT
1 TTTTTTAT
*
21380274 TTTTTTAA
1 TTTTTTAT
21380282 TTTTTTAT
1 TTTTTTAT
21380290 TTTTT
1 TTTTT
21380295 AAGAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTAT
Found at i:21380276 original size:6 final size:7
Alignment explanation
Indices: 21380259--21380295 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
21380249 TGTATACATG
21380259 TTTTTTA
1 TTTTTTA
21380266 TTTTTTA
1 TTTTTTA
21380273 TTTTTTTAA
1 -TTTTTT-A
21380282 TTTTTTA
1 TTTTTTA
21380289 TTTTTTA
1 TTTTTTA
21380296 AGAACAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 15 0.54
8 12 0.43
9 1 0.04
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:21380296 original size:15 final size:16
Alignment explanation
Indices: 21380259--21380294 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
21380249 TGTATACATG
21380259 TTTTTT-ATTTTTTAT
1 TTTTTTAATTTTTTAT
21380274 TTTTTTAATTTTTTAT
1 TTTTTTAATTTTTTAT
21380290 TTTTT
1 TTTTT
21380295 AAGAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTAATTTTTTAT
Found at i:21391544 original size:21 final size:21
Alignment explanation
Indices: 21391494--21391544 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
21391484 GCACAAAGAG
*
21391494 AAAATGCCCCAAAACACTCTC
1 AAAATGCCGCAAAACACTCTC
21391515 AAAATGCCGCAAAACACTCTC
1 AAAATGCCGCAAAACACTCTC
21391536 AAAATGCCG
1 AAAATGCCG
21391545 AAATACCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.14
Consensus pattern (21 bp):
AAAATGCCGCAAAACACTCTC
Found at i:21394814 original size:17 final size:19
Alignment explanation
Indices: 21394772--21394815 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21394762 ATGAAATTTT
*
21394772 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
21394791 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
21394809 AA-TATTA
1 AATTATTA
21394816 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:21399225 original size:17 final size:19
Alignment explanation
Indices: 21399183--21399226 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
21399173 ATGAAATTTT
*
21399183 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
21399202 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
21399220 AA-TATTA
1 AATTATTA
21399227 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:21400123 original size:5 final size:5
Alignment explanation
Indices: 21400109--21400177 Score: 52
Period size: 5 Copynumber: 13.4 Consensus size: 5
21400099 GGATTCAGTT
* * * *
21400109 TTTTC TTTTTC TTTTC -CTTC TTTTC TTTT- TTTTC TTTTC TCTTC ATCTAC
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC
21400159 TTTCTC TTTTTC TTTTC TT
1 TTT-TC -TTTTC TTTTC TT
21400178 CCATAGCCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
4 7 0.13
5 30 0.58
6 12 0.23
7 3 0.06
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:21400134 original size:14 final size:14
Alignment explanation
Indices: 21400115--21400148 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21400105 AGTTTTTTCT
21400115 TTTTCTTTTCCTTC
1 TTTTCTTTTCCTTC
**
21400129 TTTTCTTTTTTTTC
1 TTTTCTTTTCCTTC
21400143 TTTTCT
1 TTTTCT
21400149 CTTCATCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTCCTTC
Found at i:21414218 original size:26 final size:26
Alignment explanation
Indices: 21414182--21414286 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
21414172 TGATGCAAAT
*
21414182 TGATAGTGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21414208 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21414234 TGATAATGGGTTAGGTAAATGTTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
21414260 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21414286 T
1 T
21414287 AATTGGAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21428431 original size:25 final size:25
Alignment explanation
Indices: 21428383--21428440 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
21428373 ATAAAACCTA
*
21428383 AAAATGAAATAGTATTAAAGGAAGAT
1 AAAAT-AAAAAGTATTAAAGGAAGAT
21428409 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAAGGAAGAT
21428434 -AAATAAA
1 AAAATAAA
21428441 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 13 0.43
26 10 0.33
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAAGGAAGAT
Found at i:21436021 original size:55 final size:55
Alignment explanation
Indices: 21435907--21436031 Score: 126
Period size: 55 Copynumber: 2.3 Consensus size: 55
21435897 GCTACTACCG
** * *
21435907 TGGTCAAACCTGCCAAAACAACACGGGCATCCGACACGCCCGTGTGGAAGAACCG
1 TGGTCAAACCTGTTAAAACAACACGGGCATCCGACACGCCCGTGTGCAAGAACCA
* * * * * *
21435962 TGGTCAAACCTGTTAAAATAGCACGGGCATGCGACATGCCCGTG-GCTAGCACCCA
1 TGGTCAAACCTGTTAAAACAACACGGGCATCCGACACGCCCGTGTGCAAG-AACCA
* *
21436017 TGGTCGAACTTGTTA
1 TGGTCAAACCTGTTA
21436032 GATTGACACG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 3 0.05
55 54 0.95
ACGTcount: A:0.28, C:0.29, G:0.26, T:0.18
Consensus pattern (55 bp):
TGGTCAAACCTGTTAAAACAACACGGGCATCCGACACGCCCGTGTGCAAGAACCA
Found at i:21436080 original size:21 final size:20
Alignment explanation
Indices: 21436037--21436080 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
21436027 TGTTAGATTG
***
21436037 ACACGGGCGTGGGTCTTCAA
1 ACACGGGCGTGGGTAAGCAA
21436057 ACACGGGCGTGGGTGAAGCAA
1 ACACGGGCGTGGGT-AAGCAA
21436078 ACA
1 ACA
21436081 ACGCCAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.27, C:0.23, G:0.36, T:0.14
Consensus pattern (20 bp):
ACACGGGCGTGGGTAAGCAA
Found at i:21437568 original size:28 final size:28
Alignment explanation
Indices: 21437521--21437612 Score: 157
Period size: 28 Copynumber: 3.3 Consensus size: 28
21437511 AAATTAACCC
* *
21437521 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
21437549 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
*
21437577 TAAGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
21437605 TAGGGGTA
1 TAGGGGTA
21437613 CTCTAGTACA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:21445263 original size:56 final size:55
Alignment explanation
Indices: 21445189--21445294 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 55
21445179 TAGCATGGCT
* *
21445189 ACCAGATACAGAAAATGTGACAGAG-TCACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGATACAGAAAATGTGACAGGGCT-ACCAGA-ACAGATAATTTGTGGCAGTGCC
* *
21445245 ACCAGA-ACAGATATATGTGGCAGGGCTACCAGAACAGATAATTTGTGGCA
1 ACCAGATACAGA-AAATGTGACAGGGCTACCAGAACAGATAATTTGTGGCA
21445295 TAGCCAGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
55 21 0.48
56 22 0.50
57 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (55 bp):
ACCAGATACAGAAAATGTGACAGGGCTACCAGAACAGATAATTTGTGGCAGTGCC
Found at i:21445266 original size:27 final size:28
Alignment explanation
Indices: 21445189--21445300 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 28
21445179 TAGCATGGCT
* * *
21445189 ACCAGATACAGA-AAATGTGACAGAGTC
1 ACCAGATACAGATATATGTGGCAGAGCC
* *
21445216 ACCAGATACAGATATTTTGTGGCAGTGCC
1 ACCAGATACAGATA-TATGTGGCAGAGCC
* *
21445245 ACCAGA-ACAGATATATGTGGCAGGGCT
1 ACCAGATACAGATATATGTGGCAGAGCC
* *
21445272 ACCAGA-ACAGATAATTTGTGGCATAGCC
1 ACCAGATACAGAT-ATATGTGGCAGAGCC
21445300 A
1 A
21445301 GTAGGACGCT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
27 35 0.50
28 20 0.29
29 15 0.21
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
ACCAGATACAGATATATGTGGCAGAGCC
Found at i:21445457 original size:28 final size:28
Alignment explanation
Indices: 21445410--21445501 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
21445400 AAATTAACCC
* *
21445410 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
21445438 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
21445466 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
21445494 TAGGGGTA
1 TAGGGGTA
21445502 CTCTAGTACA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:21468160 original size:44 final size:42
Alignment explanation
Indices: 21468094--21468224 Score: 147
Period size: 44 Copynumber: 3.0 Consensus size: 42
21468084 CGATATGTGT
* *
21468094 TTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGGCTTATGA
1 TTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGGATT-TGA
*
21468137 TTTATGTGTAAGACCATGTCTGGGACGTTGGCATCGTATTTGA
1 TTT-TGTGTAAGACCATGTCTGGGACGTTGGCATCGGATTTGA
* * * * *
21468180 TTTCGTGCAAGACCCTGTCTAGGACAG-TGGCATCGATATTTGA
1 TTTTGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-GATTTGA
21468223 TT
1 TT
21468225 ACATGTAAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
42 26 0.33
43 19 0.24
44 33 0.42
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (42 bp):
TTTTGTGTAAGACCATGTCTGGGACGTTGGCATCGGATTTGA
Found at i:21469964 original size:21 final size:22
Alignment explanation
Indices: 21469938--21469979 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21469928 CTCTTGAAAT
*
21469938 AGGGGC-ATACGCCCGTGTGGA
1 AGGGGCGACACGCCCGTGTGGA
21469959 AGGGGCGACACGCCCGTGTGG
1 AGGGGCGACACGCCCGTGTGG
21469980 CCTTCTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.17, C:0.26, G:0.45, T:0.12
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGGA
Found at i:21470156 original size:28 final size:29
Alignment explanation
Indices: 21470105--21470160 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
21470095 ACAGGGGTTT
21470105 TCACACGGCCTGGCACACGTCCGTGTCCC
1 TCACACGGCCTGGCACACGTCCGTGTCCC
21470134 TCACACGGCCAT-G-ACACGTCCGTGTCC
1 TCACACGGCC-TGGCACACGTCCGTGTCC
21470161 AAAAACCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 14 0.54
29 11 0.42
30 1 0.04
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.18
Consensus pattern (29 bp):
TCACACGGCCTGGCACACGTCCGTGTCCC
Found at i:21471316 original size:49 final size:48
Alignment explanation
Indices: 21471163--21471338 Score: 119
Period size: 49 Copynumber: 3.6 Consensus size: 48
21471153 GTACGATGCT
* * * * *
21471163 GACGCCATGTTCTAAACATGGTTTTACACTGGCTCTCAC-ATCTAAGTC
1 GACGCCATGTCCCAAGCA-GGTCTTACACTGGCTCTCACTATCTGAGTC
* * * * *
21471211 GATGCCATCTCCCAGGCAGGTCTTACACTGACT-TC-C-ATACATCGAAGCC
1 GACGCCATGTCCCAAGCAGGTCTTACACTGGCTCTCACTAT-C-T-G-AGTC
* *
21471260 GATGCCATGTCCCAAGCAGGTCTTACACTGGCTCTCACTTATCTGTGTC
1 GACGCCATGTCCCAAGCAGGTCTTACACTGGCTCTCAC-TATCTGAGTC
* * *
21471309 GACGCCATAT-TCTAGACAGGTCTTACACTG
1 GACGCCATGTCCCAAG-CAGGTCTTACACTG
21471339 ACACGCCTCA
Statistics
Matches: 100, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
45 3 0.03
46 3 0.03
47 14 0.14
48 15 0.15
49 57 0.57
50 3 0.03
51 2 0.02
52 1 0.01
53 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GACGCCATGTCCCAAGCAGGTCTTACACTGGCTCTCACTATCTGAGTC
Found at i:21471384 original size:93 final size:93
Alignment explanation
Indices: 21471186--21471430 Score: 241
Period size: 93 Copynumber: 2.6 Consensus size: 93
21471176 AAACATGGTT
* * * * *
21471186 TTACACTGGCTCTCA-CATCTAAGT--CGATGCCATCTCCCAGGCAGGTCTTACACTGACTTC-C
1 TTACACTGGCTCTCATC-TATAAGTGCCGACGCCATATCCCAGACAGGTCTTACACTGAC-ACGC
*
21471247 ATACATCGAAGCCGATGCCATGTCCCAAGCAGGTC
64 ---C-TC-AAGCCAATGCCATGTCCCAAGCAGGTC
** * * *
21471282 TTACACTGGCTCTCA-CTTATCTGTGTCGACGCCATATTCTAGACAGGTCTTACACTGACACGCC
1 TTACACTGGCTCTCATC-TATAAGTGCCGACGCCATATCCCAGACAGGTCTTACACTGACACGCC
*
21471346 TCAAGCCAATGCCATGTTCC-AGACAGGTC
65 TCAAGCCAATGCCATGTCCCAAG-CAGGTC
* *
21471375 TTACGCTGGCTCTCATCTATAAGTGCCGATGCCATATCCCAGACAGGTCTTACACT
1 TTACACTGGCTCTCATCTATAAGTGCCGACGCCATATCCCAGACAGGTCTTACACT
21471431 AGCACACACA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
92 2 0.02
93 69 0.55
94 3 0.02
95 1 0.01
96 20 0.16
97 1 0.01
98 29 0.23
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (93 bp):
TTACACTGGCTCTCATCTATAAGTGCCGACGCCATATCCCAGACAGGTCTTACACTGACACGCCT
CAAGCCAATGCCATGTCCCAAGCAGGTC
Found at i:21471418 original size:49 final size:48
Alignment explanation
Indices: 21471186--21471430 Score: 168
Period size: 49 Copynumber: 5.1 Consensus size: 48
21471176 AAACATGGTT
* * *
21471186 TTACACTGGCTCTCACATCTAAGT--CGATGCCATCTCCCAGGCAGGTC
1 TTACACTGGCTCTCAC-TATAAGTGCCGATGCCATATCCCAGACAGGTC
* * *
21471233 TTACACTGACT-TC-C-ATACATCGAAGCCGATGCCATGTCCCA-AGCAGGTC
1 TTACACTGGCTCTCACTATA-A--G-TGCCGATGCCATATCCCAGA-CAGGTC
** * * * *
21471282 TTACACTGGCTCTCACTTATCTGTGTCGACGCCATATTCTAGACAGGTC
1 TTACACTGGCTCTCAC-TATAAGTGCCGATGCCATATCCCAGACAGGTC
* * * * * * *
21471331 TTACACTGACACGC-CT-CAA--GCCAATGCCATGTTCCAGACAGGTC
1 TTACACTGGCTCTCACTATAAGTGCCGATGCCATATCCCAGACAGGTC
*
21471375 TTACGCTGGCTCTCATCTATAAGTGCCGATGCCATATCCCAGACAGGTC
1 TTACACTGGCTCTCA-CTATAAGTGCCGATGCCATATCCCAGACAGGTC
21471424 TTACACT
1 TTACACT
21471431 AGCACACACA
Statistics
Matches: 147, Mismatches: 34, Indels: 32
0.69 0.16 0.15
Matches are distributed among these distances:
43 2 0.01
44 31 0.21
45 1 0.01
46 5 0.03
47 13 0.09
48 1 0.01
49 87 0.59
50 4 0.03
51 1 0.01
53 2 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
TTACACTGGCTCTCACTATAAGTGCCGATGCCATATCCCAGACAGGTC
Found at i:21474006 original size:18 final size:18
Alignment explanation
Indices: 21473979--21474014 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21473969 ATAGACCTAC
* *
21473979 GAGGTTCAAAATACGCTT
1 GAGGTCCAAAACACGCTT
21473997 GAGGTCCAAAACACGCTT
1 GAGGTCCAAAACACGCTT
21474015 TGGAAATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (18 bp):
GAGGTCCAAAACACGCTT
Found at i:21475395 original size:48 final size:47
Alignment explanation
Indices: 21475324--21475654 Score: 245
Period size: 48 Copynumber: 6.9 Consensus size: 47
21475314 GTAAATTACT
* * *
21475324 GATGCCATATCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATC-AGGTC
* * * * * *
21475372 GATGCCATG-TCTCAGACATGGTCTTACACTAGCTCCCTTCTCAATGCC
1 GATGCCATGTTC-CAAACATGGTCTTACACTAGCTCACATATC-AGGTC
* * * * * * * * *
21475420 GATGTCATGTCCCAGATAGGGTCTTACTCTAGCTCTCATAACATTGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA-GGTC
* * **
21475468 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAT-ATCAGGTC
* ** *
21475516 GATGCCATGTTCCAAACATGGTCTTACACTAGC-CTTCATAATGTGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTC-ACAT-ATCAGGTC
* * **
21475564 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTGG-C
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAT-ATCAGGTC
* * * * *
21475611 TAAGGTCATGTCCCAAACATGGTCTTACACTAGCACACATATCA
1 -GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA
21475655 CCCAATGTAA
Statistics
Matches: 234, Mismatches: 42, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
47 6 0.03
48 225 0.96
49 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAGGTC
Found at i:21475497 original size:96 final size:96
Alignment explanation
Indices: 21475324--21475644 Score: 291
Period size: 96 Copynumber: 3.3 Consensus size: 96
21475314 GTAAATTACT
* * * **
21475324 GATGCCATATCCCAAACATGGTCTTACACTAG-CTCACATGTCGA-GGTCGATGCCATG-TCTCA
1 GATGCCATGTCCCAAACAGGGTCTTACACTAGCCT-TCATAAC-ATGGTCGATGCCATGTTC-CA
* *
21475386 GACATGGTCTTACACTAGCTCCCTTC-TCAA-T-GCC
63 AACATGGTCTTACACTGGCT-CC-TCAT-AAGTGGCC
* * * * *
21475420 GATGTCATGTCCCAGATAGGGTCTTACTCTAG-CTCTCATAACATTGTCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAAACAGGGTCTTACACTAGCCT-TCATAACATGGTCGATGCCATGTTCCAAA
*
21475484 CATGGTCTTACACTGGCT-CTCATAATGTGGTC
65 CATGGTCTTACACTGGCTCCTCATAA-GTGGCC
* * ** *
21475516 GATGCCATGTTCCAAACATGGTCTTACACTAGCCTTCATAATGTGGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACAGGGTCTTACACTAGCCTTCATAACATGGTCGATGCCATGTTCCAAAC
*
21475581 ATGGTCTTACACTGGCT-CTCATAATGTGGCT
66 ATGGTCTTACACTGGCTCCTCATAA-GTGGCC
* * * *
21475612 AAGGTCATGTCCCAAACATGGTCTTACACTAGC
1 GATGCCATGTCCCAAACAGGGTCTTACACTAGC
21475645 ACACATATCA
Statistics
Matches: 189, Mismatches: 29, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
93 4 0.02
94 2 0.01
95 2 0.01
96 177 0.94
97 4 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCCAAACAGGGTCTTACACTAGCCTTCATAACATGGTCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCCTCATAAGTGGCC
Found at i:21475538 original size:23 final size:23
Alignment explanation
Indices: 21475459--21475538 Score: 56
Period size: 23 Copynumber: 3.4 Consensus size: 23
21475449 TAGCTCTCAT
*
21475459 AACATTGTCGATGCCATGTTCCA
1 AACATGGTCGATGCCATGTTCCA
** *
21475482 AACATGGTC--TTACACTGGCTCTCA
1 AACATGGTCGATGCCA-T-GTTC-CA
**
21475506 TAATGTGGTCGATGCCATGTTCCA
1 -AACATGGTCGATGCCATGTTCCA
21475530 AACATGGTC
1 AACATGGTC
21475539 TTACACTAGC
Statistics
Matches: 40, Mismatches: 11, Indels: 12
0.63 0.17 0.19
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 18 0.45
24 4 0.10
25 10 0.25
26 1 0.03
27 3 0.08
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (23 bp):
AACATGGTCGATGCCATGTTCCA
Found at i:21475587 original size:144 final size:142
Alignment explanation
Indices: 21475324--21475653 Score: 348
Period size: 144 Copynumber: 2.3 Consensus size: 142
21475314 GTAAATTACT
* *
21475324 GATGCCATATCCCAAACATGGTCTTACACTAGCTCACATGTCGAGGTCGATGCCATGTCTCAGAC
1 GATGCCATATCCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTCTCAAAC
* * * *
21475389 ATGGTCTTACACTAGCTCCCTTCTCAATGCCGATGTCATGTCCCAGATAGGGTCTTACTCTAGCT
66 ATGGTCTTACACTAG--CCCTTCTCAATGCCGATGCCATGTCCCAAACAGGGTCTTACACTAGCT
21475454 CTCATAACATTGTC
129 CTCATAACATTGTC
* * * * *
21475468 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCCATGT-TCCAA
1 GATGCCATATCCCAAACATGGTCTTACACTAGCTCACAT-ATCGAGGTCGATGCCATGTCT-CAA
* *
21475531 ACATGGTCTTACACTAG-CCTTCAT-AATGTGGCCGATGCCATGTTCCAAACATGGTCTTACACT
64 ACATGGTCTTACACTAGCCCTTC-TCAA--T-GCCGATGCCATGTCCCAAACAGGGTCTTACACT
* *
21475594 GGCTCTCAT-A-ATGTGGC
125 AGCTCTCATAACAT-TGTC
* * * * *
21475611 TAAGGTCATGTCCCAAACATGGTCTTACACTAGCACACATATC
1 -GATGCCATATCCCAAACATGGTCTTACACTAGCTCACATATC
21475654 ACCCAATGTA
Statistics
Matches: 155, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
141 7 0.05
142 3 0.02
143 8 0.05
144 136 0.88
145 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (142 bp):
GATGCCATATCCCAAACATGGTCTTACACTAGCTCACATATCGAGGTCGATGCCATGTCTCAAAC
ATGGTCTTACACTAGCCCTTCTCAATGCCGATGCCATGTCCCAAACAGGGTCTTACACTAGCTCT
CATAACATTGTC
Found at i:21479041 original size:16 final size:16
Alignment explanation
Indices: 21479018--21479057 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21479008 CGTTTGGTTC
21479018 GCTGTAATAG-AATAGA
1 GCTGTAAT-GTAATAGA
*
21479034 GTTGTAATGTAATAGA
1 GCTGTAATGTAATAGA
21479050 GCTGTAAT
1 GCTGTAAT
21479058 TAGTAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (16 bp):
GCTGTAATGTAATAGA
Found at i:21479359 original size:62 final size:59
Alignment explanation
Indices: 21479224--21479359 Score: 150
Period size: 61 Copynumber: 2.2 Consensus size: 59
21479214 TTATTAAATT
* * *
21479224 TTAAT-AAGATTATTAAATATAATTTAATAAAAATAAAATTAAATAATTTAATCATATT
1 TTAATAAAAATTATTAAATATAATTTAATAAAAATAAAATTAAATAATTTAATAATATA
* * *
21479282 TTAATATAATTATTATTAAATATAATTTAATAAAAA-ATAATGATATATAATTTAATAATATAAA
1 TTAATA-AA-AATTATTAAATATAATTTAATAAAAATAAAAT--TAAATAATTTAATAATAT--A
21479346 TTAATAAAAATTAT
1 TTAATAAAAATTAT
21479360 AACATAATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
58 5 0.08
60 6 0.09
61 25 0.38
62 21 0.32
63 2 0.03
64 6 0.09
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (59 bp):
TTAATAAAAATTATTAAATATAATTTAATAAAAATAAAATTAAATAATTTAATAATATA
Found at i:21480172 original size:30 final size:30
Alignment explanation
Indices: 21480136--21480196 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
21480126 ATGTTTGTAA
21480136 TGATTTCATTTGTTGATAAATAATTCCACT
1 TGATTTCATTTGTTGATAAATAATTCCACT
21480166 TGATTTCATTTGTTGATAAATAATTCCACT
1 TGATTTCATTTGTTGATAAATAATTCCACT
21480196 T
1 T
21480197 ACTTCTGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (30 bp):
TGATTTCATTTGTTGATAAATAATTCCACT
Done.