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 111 of 356
Found at i:35266381 original size:60 final size:60
Alignment explanation
Indices: 35266304--35266442 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 60
35266294 CCAAATGTGT
* *
35266304 TGATATGTGC-AAGGCCCAATATA-TCTCGACT-TGTTACA-GGGCTATGGCCCAGATTGATAC
1 TGATATGGGCTAAGGCCCAATATACTCT-GA-TATG-TA-AGGGGCTATGGCCCAGATTAATAC
* * *
35266364 TGATATGGTCT-AGGCCCAGTATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAAGGCCCAATATACTCTGATA-TGTAAGGGGCTATGGCCCAGATTAATAC
35266424 TGATATGGGCTAAGGCCCA
1 TGATATGGGCTAAGGCCCA
35266443 GTTAACTCTG
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
59 2 0.03
60 53 0.79
61 12 0.18
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (60 bp):
TGATATGGGCTAAGGCCCAATATACTCTGATATGTAAGGGGCTATGGCCCAGATTAATAC
Found at i:35267305 original size:15 final size:15
Alignment explanation
Indices: 35267285--35267316 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35267275 AGTCTTCATC
35267285 TACCCTACATACATG
1 TACCCTACATACATG
35267300 TACCCTACATACATG
1 TACCCTACATACATG
35267315 TA
1 TA
35267317 GCCATTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.28
Consensus pattern (15 bp):
TACCCTACATACATG
Found at i:35286748 original size:43 final size:43
Alignment explanation
Indices: 35286701--35286802 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
35286691 CCCAGAAAGA
* * ** * **
35286701 GTCTTACATGGAATCATAATATGATGCTAATGTCCCAGTCATG
1 GTCTTACATGTAATCAAAATACAATGCCAATGTCCCAAACATG
* *
35286744 GTCTTACACGTAATGAAAATACAATGCCAATGTCCCAAACATG
1 GTCTTACATGTAATCAAAATACAATGCCAATGTCCCAAACATG
35286787 GTCTTACATGTAATCA
1 GTCTTACATGTAATCA
35286803 CATCTCGATA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (43 bp):
GTCTTACATGTAATCAAAATACAATGCCAATGTCCCAAACATG
Found at i:35305256 original size:30 final size:30
Alignment explanation
Indices: 35305222--35305282 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35305212 TCCTTAACTC
35305222 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
35305252 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
35305282 A
1 A
35305283 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:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:35310686 original size:34 final size:34
Alignment explanation
Indices: 35310639--35310729 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
35310629 TTTGCATACT
* * *
35310639 GTACTGAAGTGGGCTAAGGCCTAGACTGCCACTG
1 GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
**
35310673 GTACTAAAATGGGCTAAGGCCCAGACTGTTACTG
1 GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
* *
35310707 CTACTGAAAAAGGGCTAAGGCCC
1 GTACT-AAAATGGGCTAAGGCCC
35310730 CTAACTGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 33 0.67
35 16 0.33
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (34 bp):
GTACTAAAATGGGCTAAGGCCCAGACTGCCACTG
Found at i:35315568 original size:85 final size:85
Alignment explanation
Indices: 35315425--35315603 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
35315415 GGCCGGCCAT
35315425 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
35315490 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
35315510 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
35315575 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
35315595 GGGCATGGG
1 GAGCATGGG
35315604 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:35316947 original size:49 final size:47
Alignment explanation
Indices: 35316868--35317466 Score: 855
Period size: 47 Copynumber: 12.6 Consensus size: 47
35316858 TATTTGAATA
*
35316868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35316915 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35316964 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317011 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317060 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
35317109 AATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
35317156 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317205 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317252 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317299 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317346 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
35317393 AATCTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35317440 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35317467 TCCCGAAGGG
Statistics
Matches: 516, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 329 0.64
49 185 0.36
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:35316976 original size:96 final size:94
Alignment explanation
Indices: 35316868--35317466 Score: 855
Period size: 96 Copynumber: 6.3 Consensus size: 94
35316858 TATTTGAATA
*
35316868 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
35316933 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35316964 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
35317029 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
35317060 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
35317125 TATGTGATAAGACCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
35317156 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
35317220 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35317252 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
35317315 TGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35317346 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATCTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
35317410 ATGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
35317440 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
35317467 TCCCGAAGGG
Statistics
Matches: 476, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
93 2 0.00
94 189 0.40
96 237 0.50
97 2 0.00
98 46 0.10
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:35317344 original size:22 final size:22
Alignment explanation
Indices: 35317317--35317438 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
35317307 CATGTGTATG
35317317 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
35317339 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
35317364 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
35317386 TGTGATGAA-TCTGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
35317411 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
35317433 TGTGAT
1 TGTGAT
35317439 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 22 0.31
23 16 0.23
24 16 0.23
25 16 0.23
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:35319758 original size:34 final size:33
Alignment explanation
Indices: 35319681--35319761 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
35319671 TATGTTTTCA
*
35319681 TACTGTACTGAGATGGGCTAAGGCCCAGACTAC
1 TACTGTACTGAAATGGGCTAAGGCCCAGACTAC
* * * **
35319714 CACTGATACTGAAATGGGCTCAGGCCCAGATTGT
1 TACTG-TACTGAAATGGGCTAAGGCCCAGACTAC
35319748 TACTGCTACTGAAA
1 TACTG-TACTGAAA
35319762 GAAGGACTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (33 bp):
TACTGTACTGAAATGGGCTAAGGCCCAGACTAC
Found at i:35321988 original size:24 final size:25
Alignment explanation
Indices: 35321960--35322023 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
35321950 TCAACCAAAT
* * *
35321960 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
35321984 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
35322009 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
35322024 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:35322074 original size:24 final size:24
Alignment explanation
Indices: 35322047--35322096 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
35322037 CATGCATCGA
*
35322047 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
35322071 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
35322095 CA
1 CA
35322097 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:35322169 original size:94 final size:94
Alignment explanation
Indices: 35322052--35322333 Score: 501
Period size: 94 Copynumber: 3.0 Consensus size: 94
35322042 ATCGACATTC
* * *
35322052 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAACAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
35322117 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
35322146 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
35322211 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
* * *
35322240 AAATCTGCACACAAAGTGACCTTTAATTCCGCACACATAGTGCGAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
35322305 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
35322334 CGGTCACATT
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 181 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:35328868 original size:30 final size:30
Alignment explanation
Indices: 35328834--35328891 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35328824 TCATTAACTC
35328834 AAACTTTGGAAAAATTACACTTTTGCCCTT
1 AAACTTTGGAAAAATTACACTTTTGCCCTT
* * * *
35328864 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTGGAAAAATTACACTTTTGCCC
35328892 CTAGGCTCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCTT
Found at i:35332434 original size:4 final size:4
Alignment explanation
Indices: 35332425--35332458 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
35332415 AAGTTTTATT
35332425 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
35332459 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:35332466 original size:22 final size:22
Alignment explanation
Indices: 35332408--35332467 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
35332398 AAGTGGCCCA
*
35332408 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
35332432 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
35332453 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
35332468 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:35334820 original size:18 final size:18
Alignment explanation
Indices: 35334799--35334837 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
35334789 GATTGAGAGT
* *
35334799 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
35334817 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
35334835 GAA
1 GAA
35334838 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:35336245 original size:4 final size:4
Alignment explanation
Indices: 35336236--35336269 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
35336226 AAGTTTTATT
35336236 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
35336270 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:35336277 original size:22 final size:22
Alignment explanation
Indices: 35336219--35336278 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
35336209 AAGTGGCCCA
*
35336219 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
35336243 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
35336264 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
35336279 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:35339810 original size:22 final size:23
Alignment explanation
Indices: 35339759--35339817 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
35339749 TTAAATATTA
*
35339759 AAATTTTAAGTTTTTAAGTTTTT
1 AAATTTTTAGTTTTTAAGTTTTT
*
35339782 -AAGTTTTAGTTTTTAA-TTTTT
1 AAATTTTTAGTTTTTAAGTTTTT
*
35339803 AAATTTTTAATTTTT
1 AAATTTTTAGTTTTT
35339818 TTGAAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (23 bp):
AAATTTTTAGTTTTTAAGTTTTT
Found at i:35339818 original size:8 final size:8
Alignment explanation
Indices: 35339762--35339817 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
35339752 AATATTAAAA
35339762 TTTTAAGT
1 TTTTAAGT
35339770 TTTTAAGT
1 TTTTAAGT
35339778 TTTTAAG-
1 TTTTAAGT
35339785 TTTT-AGT
1 TTTTAAGT
35339792 TTTTAA-T
1 TTTTAAGT
*
35339799 TTTTAAAT
1 TTTTAAGT
35339807 TTTTAA-T
1 TTTTAAGT
35339814 TTTT
1 TTTT
35339818 TTGAAGATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
6 2 0.04
7 20 0.44
8 23 0.51
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (8 bp):
TTTTAAGT
Found at i:35341143 original size:41 final size:40
Alignment explanation
Indices: 35341030--35341350 Score: 345
Period size: 41 Copynumber: 7.9 Consensus size: 40
35341020 CCTCAATCTA
* * * * *
35341030 TAAAAACTGAGCAATAGCGGCGTATTTCTAGAAGCGCCGC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* **
35341070 TAAAAACTGAGCAATAGTGGCGTTTTAACAAAAGCGCCGC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* *
35341110 TAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGC
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* ** *
35341151 TAAAACCTGTTTCTATAGTGGCGTTTTCCCAAAAGCGCCGC
1 TAAAAACTG-AGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * *
35341192 TAAAAAACTGAGCAATAGCGGCGTTTTTCCAAAGGCGCCGC
1 T-AAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * *
35341233 TAAAACCTCGACCTATAGTGGCGTTTTTCCAAATGCGCCGC
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * *
35341274 TAAAAACTGAGCAATAGTGGTGTTTTTCCAAAAGCGCCAC
1 TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * * * *
35341314 TAAAACCTCAATCTATAGCGGCGTTTTGCCAAAAGCG
1 TAAAAACT-GAGCTATAGTGGCGTTTTTCCAAAAGCG
35341351 TTGCTATTGC
Statistics
Matches: 237, Mismatches: 39, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
40 82 0.35
41 148 0.62
42 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
TAAAAACTGAGCTATAGTGGCGTTTTTCCAAAAGCGCCGC
Found at i:35341215 original size:123 final size:122
Alignment explanation
Indices: 35341030--35341318 Score: 393
Period size: 123 Copynumber: 2.4 Consensus size: 122
35341020 CCTCAATCTA
* * * *
35341030 TAAAAACTGAGCAATAGCGGCGTATTT-CTAGAAGCGCCGCT-AAAAACTGAGCAATAGTGGCGT
1 TAAAAACTGAGCAATAGTGGCGT-TTTCCCAAAAGCGCCGCTAAAAAACTGAGCAATAGCGGCGT
* *
35341093 TTTAACAAAAGCGCCGCTAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGC
65 TTTAACAAAAGCGCCGCTAAAACCTCGACCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* ** *
35341151 TAAAACCTGTTTCTATAGTGGCGTTTTCCCAAAAGCGCCGCTAAAAAACTGAGCAATAGCGGCGT
1 TAAAAACTG-AGCAATAGTGGCGTTTTCCCAAAAGCGCCGCTAAAAAACTGAGCAATAGCGGCGT
** * *
35341216 TTTTCCAAAGGCGCCGCTAAAACCTCGACCTATAGTGGCGTTTTTCCAAATGCGCCGC
65 TTTAACAAAAGCGCCGCTAAAACCTCGACCTATAGTGGCGTTTTTCCAAAAGCGCCGC
* * *
35341274 TAAAAACTGAGCAATAGTGGTGTTTTTCCAAAAGCGCCACTAAAA
1 TAAAAACTGAGCAATAGTGGCGTTTTCCCAAAAGCGCCGCTAAAA
35341319 CCTCAATCTA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
121 11 0.08
122 52 0.36
123 81 0.56
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (122 bp):
TAAAAACTGAGCAATAGTGGCGTTTTCCCAAAAGCGCCGCTAAAAAACTGAGCAATAGCGGCGTT
TTAACAAAAGCGCCGCTAAAACCTCGACCTATAGTGGCGTTTTTCCAAAAGCGCCGC
Found at i:35341322 original size:81 final size:80
Alignment explanation
Indices: 35341030--35341350 Score: 390
Period size: 81 Copynumber: 4.0 Consensus size: 80
35341020 CCTCAATCTA
* * * * * *
35341030 TAAAAACTGAGCAATAGCGGCGTATTTCTAGAAGCGCCGCTAAAAACTGAGCAATAGTGGCGTTT
1 TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGATCTATAGTGGCGTTT
*
35341095 TAACAAAAGCGCCGC
66 TACCAAAAGCGCCGC
* * * * *
35341110 TAAAATCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGTTTCTATAGTGGCGT
1 TAAAAACT-GAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTG-ATCTATAGTGGCGT
*
35341175 TTTCCCAAAAGCGCCGC
64 TTTACCAAAAGCGCCGC
* *
35341192 TAAAAAACTGAGCAATAGCGGCGTTTTTCCAAAGGCGCCGCTAAAACCTCGACCTATAGTGGCGT
1 T-AAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCT-GATCTATAGTGGCGT
* *
35341257 TTTTCCAAATGCGCCGC
64 TTTACCAAAAGCGCCGC
* * * * *
35341274 TAAAAACTGAGCAATAGTGGTGTTTTTCCAAAAGCGCCACTAAAACCTCAATCTATAGCGGCGTT
1 TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCT-GATCTATAGTGGCGTT
*
35341339 TTGCCAAAAGCG
65 TTACCAAAAGCG
35341351 TTGCTATTGC
Statistics
Matches: 206, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
80 7 0.03
81 101 0.49
82 91 0.44
83 7 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (80 bp):
TAAAAACTGAGCAATAGCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTGATCTATAGTGGCGTTT
TACCAAAAGCGCCGC
Found at i:35341387 original size:41 final size:41
Alignment explanation
Indices: 35341354--35341452 Score: 171
Period size: 41 Copynumber: 2.4 Consensus size: 41
35341344 AAAAGCGTTG
*
35341354 CTATTGCTCAGTTTTTCGCGGCGTTTGGACCAAAAACGCCA
1 CTATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCA
* *
35341395 CTATTGCTTAGTTTTTAGCGACGTTTGGACCAAAAACGCCA
1 CTATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCA
35341436 CTATTGCTCAGTTTTTA
1 CTATTGCTCAGTTTTTA
35341453 TGGCGTTCTC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (41 bp):
CTATTGCTCAGTTTTTAGCGGCGTTTGGACCAAAAACGCCA
Found at i:35346230 original size:41 final size:43
Alignment explanation
Indices: 35346080--35346233 Score: 145
Period size: 43 Copynumber: 3.6 Consensus size: 43
35346070 AATGCCATAT
* * *
35346080 CCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTC
1 CCAGACATGGTCTTACATGTAATCACAATA-CGATGCCAATGTC
* * * *
35346123 CCAGATAGGGTCTTACACAG-AATCATAATACGATGCCAATGTC
1 CCAGACATGGTCTTACA-TGTAATCACAATACGATGCCAATGTC
* * ***
35346166 CTAGACATGCTCTTACGCATAATCACAATAC-ATG-CAATGTC
1 CCAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTC
*
35346207 CCAAACATGGTCTTACATGTAATCACA
1 CCAGACATGGTCTTACATGTAATCACA
35346234 TCTCGATAAC
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.31
42 3 0.03
43 54 0.61
44 4 0.04
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (43 bp):
CCAGACATGGTCTTACATGTAATCACAATACGATGCCAATGTC
Found at i:35348135 original size:19 final size:19
Alignment explanation
Indices: 35348111--35348148 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35348101 AGGCTGATTT
35348111 TGGGCCGAAATGGG-TCGTG
1 TGGGCC-AAATGGGATCGTG
*
35348130 TGGGCCCAATGGGATCGTG
1 TGGGCCAAATGGGATCGTG
35348149 GGCCTTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.16, C:0.18, G:0.45, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGATCGTG
Found at i:35348471 original size:27 final size:27
Alignment explanation
Indices: 35348441--35348495 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
35348431 TGAAATTAGC
*
35348441 GAAATACCCCTATAGGGTAAAATGACT
1 GAAATACCCCTACAGGGTAAAATGACT
* * *
35348468 GAAATGCCCCTACATGGTAAACTGACT
1 GAAATACCCCTACAGGGTAAAATGACT
35348495 G
1 G
35348496 TTTTGCCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (27 bp):
GAAATACCCCTACAGGGTAAAATGACT
Found at i:35350634 original size:40 final size:40
Alignment explanation
Indices: 35350579--35350796 Score: 227
Period size: 39 Copynumber: 5.6 Consensus size: 40
35350569 TATTCGGATG
*
35350579 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35350619 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35350659 ATAT--GGG--GAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
35350698 ATA-CCGGGCTAAGT-CCGAAGGAATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35350736 ACATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35350775 ATGTCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
35350797 TACTTGGGTT
Statistics
Matches: 145, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
36 19 0.13
38 16 0.11
39 49 0.34
40 43 0.30
41 15 0.10
42 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35350678 original size:36 final size:38
Alignment explanation
Indices: 35350579--35350796 Score: 167
Period size: 40 Copynumber: 5.6 Consensus size: 38
35350569 TATTCGGATG
**
35350579 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATAT-CGGGC-AAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
35350619 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATAT-CGGGC-AAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
35350659 ATAT-GGG-GAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCGGGCAAGTCCCGAAGGCATTTGTGCGAGT-G--ACT
* * *
35350698 ATACCGGGCTAAGT-CCGAAGGAATTTGTGCTAGTGACT
1 ATATCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
35350736 ACATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTG-CT
1 ATAT-CGGGC-AAGTCCCGAAGGCATTTGTGCGAG-TGACT
* * *
35350775 ATGTCCGGCTAAATCCCGAAGG
1 ATATCGGGC-AAGTCCCGAAGG
35350797 TACTTGGGTT
Statistics
Matches: 146, Mismatches: 22, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
36 22 0.15
37 1 0.01
38 14 0.10
39 42 0.29
40 46 0.32
41 18 0.12
42 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
ATATCGGGCAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:35350772 original size:77 final size:80
Alignment explanation
Indices: 35350581--35350796 Score: 277
Period size: 77 Copynumber: 2.8 Consensus size: 80
35350571 TTCGGATGAT
* *
35350581 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCTGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCTGAAGGAATT
*
35350646 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAC
*
35350661 AT--GGG--GAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATA-CCGGGCTAAGTCC-GAAGGA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCTGAAGGA
35350720 ATTTGTGCTAGTGACTAC
63 ATTTGTGCTAGTGACTAC
* * * *
35350738 ATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTGCTATGTCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCTGAAGG
35350797 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 8, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
76 20 0.17
77 42 0.35
78 25 0.21
79 12 0.10
80 18 0.15
81 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCTGAAGGAATT
TGTGCTAGTGACTAC
Found at i:35352498 original size:41 final size:39
Alignment explanation
Indices: 35352420--35352596 Score: 182
Period size: 41 Copynumber: 4.4 Consensus size: 39
35352410 TACCCAGTAC
* * *
35352420 CCTTCGGGATTTA-ACCGGA-TATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATTAT-G-TACTCGCACAAATG
* *
35352459 CCTTCGGGACTTAGGCCCGGATTATGTAGTTCGCACAAATA
1 CCTTCGGGACTTA-GCCCGGATTATGTA-CTCGCACAAATG
*
35352500 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCAACAAATT
1 CCTTCGGGACTTAGCCCGGATTAT-GT-ACTCGC-ACAAATG
* *
35352541 CCTTCGGGACTTAGCCCGAATTA-GTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATTATGT-ACTCGCACAAATG
35352580 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
35352597 CGTTATCATC
Statistics
Matches: 119, Mismatches: 11, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
39 38 0.32
40 22 0.18
41 54 0.45
42 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATTATGTACTCGCACAAATG
Found at i:35352584 original size:80 final size:81
Alignment explanation
Indices: 35352420--35352596 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 81
35352410 TACCCAGTAC
* * * *
35352420 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGGCCCGGATTAT
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGGCCCGAATTAT
* *
35352484 GTAGTTCGCACAAATA
66 GTAGCTAGCACAAATA
*
35352500 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCAACAAATTCCTTCGGGACTTA-GCCCGAATT
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGC-ACAAATGCCTTCGGGACTTAGGCCCGAATT
*
35352563 A-GTCA-CTAGCACAAATG
64 ATGT-AGCTAGCACAAATA
35352580 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
35352597 CGTTATCATC
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 41 0.48
81 26 0.31
82 18 0.21
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGGCCCGAATTAT
GTAGCTAGCACAAATA
Found at i:35372641 original size:16 final size:15
Alignment explanation
Indices: 35372620--35372649 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35372610 GAATAGAGTA
35372620 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
35372636 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
35372650 TAAAACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:35378012 original size:56 final size:56
Alignment explanation
Indices: 35377938--35378071 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
35377928 TCCCAGACAG
* *
35377938 GGTCTTACTCACACACATATATCGGAGTCACATATAGATGCCAAT-GTATAAAATGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATAGATGCC-ATCGTATAAAATGT
* * *
35377994 GGTCTTACTCGTATACATATATCAGAGTCACATATCGATGCCATCGTATAAAATGT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATAGATGCCATCGTATAAAATGT
* *
35378050 GATCGTACTCGCACACATATAT
1 GGTCTTACTCGCACACATATAT
35378072 TGATGCCATG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 2 0.03
56 66 0.97
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATAGATGCCATCGTATAAAATGT
Found at i:35382419 original size:29 final size:29
Alignment explanation
Indices: 35382386--35382444 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
35382376 ACAACAACAT
35382386 TAAATCAGCAGGAAAACACAAATCTTGAA
1 TAAATCAGCAGGAAAACACAAATCTTGAA
35382415 TAAATCAGCAGGAAAACACAAATCTTGAA
1 TAAATCAGCAGGAAAACACAAATCTTGAA
35382444 T
1 T
35382445 CTTCAAGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.19
Consensus pattern (29 bp):
TAAATCAGCAGGAAAACACAAATCTTGAA
Found at i:35395762 original size:46 final size:46
Alignment explanation
Indices: 35395712--35395887 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35395702 TGGTTGAGCA
35395712 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35395758 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
35395803 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
35395851 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35395888 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35395868 original size:93 final size:93
Alignment explanation
Indices: 35395709--35395880 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35395699 GGATGGTTGA
* *
35395709 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35395774 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
35395802 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
35395867 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
35395881 CTTATGGGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35433629 original size:24 final size:25
Alignment explanation
Indices: 35433610--35433663 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
35433600 ATATATATAT
35433610 ATAAAA-ACAATAAATAATATAAAA
1 ATAAAACACAATAAATAATATAAAA
* * *
35433634 ATAAAACATAATAAAGATTAT-AAA
1 ATAAAACACAATAAATAATATAAAA
35433658 ATAAAA
1 ATAAAA
35433664 TGTAATATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (25 bp):
ATAAAACACAATAAATAATATAAAA
Found at i:35433716 original size:26 final size:25
Alignment explanation
Indices: 35433667--35433754 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 25
35433657 AATAAAATGT
* * *
35433667 AATATAAACATATAAGAAAAATAATA
1 AATAT-AATATATAAGTAATATAATA
* *
35433693 GATATAATATA-AAGTAACGTATAAAA
1 AATATAATATATAAGTAA--TATAATA
35433719 CAATAT-ATATATAAGTAAT-TAATA
1 -AATATAATATATAAGTAATATAATA
35433743 AATATAATATAT
1 AATATAATATAT
35433755 GTGAAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
23 5 0.10
24 15 0.30
25 6 0.12
26 14 0.28
27 10 0.20
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (25 bp):
AATATAATATATAAGTAATATAATA
Found at i:35433847 original size:20 final size:22
Alignment explanation
Indices: 35433805--35433850 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
35433795 ATTTAAGGAA
*
35433805 AATAATATATATAGTAAGTAAT
1 AATAATATATATAGTAAGAAAT
*
35433827 AATAATATATA-ATTAA-AAAT
1 AATAATATATATAGTAAGAAAT
35433847 AATA
1 AATA
35433851 CTCATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAATATATATAGTAAGAAAT
Found at i:35433849 original size:17 final size:18
Alignment explanation
Indices: 35433808--35433850 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
35433798 TAAGGAAAAT
*
35433808 AATATATATAGTAAGTAAT
1 AATA-ATATAGTAAGTAAA
*
35433827 AATAATATA-TAATTAAA
1 AATAATATAGTAAGTAAA
35433844 AATAATA
1 AATAATA
35433851 CTCATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 13 0.59
18 5 0.23
19 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
AATAATATAGTAAGTAAA
Found at i:35437200 original size:43 final size:43
Alignment explanation
Indices: 35437139--35437303 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
35437129 CAATGTCATA
* * *
35437139 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
* * * * *
35437182 TCCCAGACAAGGTCTTACACGAAATCGA-TTAACGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATC-ACATATCGATGCCAATG
* * * * *
35437225 TCCTAGATATGGTCTTACACT-TAATCTCA-ATACAATTCCAATG
1 TCCCAGACATGGTCTTACA-TGTAATCACATAT-CGATGCCAATG
*
35437268 TCCCAGACATGGTCTTACATGTAATCACATCTCGAT
1 TCCCAGACATGGTCTTACATGTAATCACATATCGAT
35437304 AATCTAATGT
Statistics
Matches: 93, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
42 2 0.02
43 89 0.96
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
Found at i:35440388 original size:46 final size:46
Alignment explanation
Indices: 35440335--35440425 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
35440325 TATATATACA
* *
35440335 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
35440381 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
35440426 ATACACTTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:35440468 original size:22 final size:22
Alignment explanation
Indices: 35440442--35440517 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
35440432 TTCCGCGTTC
35440442 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTCTACCTT
* *
35440464 ATCACATATATG-CATGT-TCACATTT
1 ATCACAT-T-GGCCAT-TCT-AC-CTT
*
35440489 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTACCTT
35440511 ATCACAT
1 ATCACAT
35440518 ATATGCATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
24 9 0.21
25 9 0.21
ACGTcount: A:0.26, C:0.28, G:0.09, T:0.37
Consensus pattern (22 bp):
ATCACATTGGCCATTCTACCTT
Found at i:35440473 original size:47 final size:47
Alignment explanation
Indices: 35440442--35440589 Score: 260
Period size: 47 Copynumber: 3.1 Consensus size: 47
35440432 TTCCGCGTTC
*
35440442 ATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTT
1 ATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTT
35440489 ATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTT
1 ATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTT
* * *
35440536 ATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTC
1 ATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTT
35440583 ATCACAT
1 ATCACAT
35440590 AAAATCCTAA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (47 bp):
ATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTT
Found at i:35442279 original size:14 final size:14
Alignment explanation
Indices: 35442260--35442302 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
35442250 TTTCATTTTG
35442260 TAACATAAAATTAT
1 TAACATAAAATTAT
35442274 TAACATAAAA-TAT
1 TAACATAAAATTAT
* *
35442287 TAACACAAAATAAT
1 TAACATAAAATTAT
35442301 TA
1 TA
35442303 TAATATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:35442289 original size:13 final size:13
Alignment explanation
Indices: 35442260--35442298 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
35442250 TTTCATTTTG
35442260 TAACATAAAATTAT
1 TAACATAAAA-TAT
35442274 TAACATAAAATAT
1 TAACATAAAATAT
*
35442287 TAACACAAAATA
1 TAACATAAAATA
35442299 ATTATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:35443837 original size:80 final size:80
Alignment explanation
Indices: 35443716--35443996 Score: 454
Period size: 80 Copynumber: 3.5 Consensus size: 80
35443706 CCAAATACAC
* * * * *
35443716 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
*
35443781 ACTTAACCCTGATAT
66 ACTTAACCCGGATAT
* * *
35443796 AACTCTAGCACGAATGCTCTTCTAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
35443861 ACTTAACCCGGATAT
66 ACTTAACCCGGATAT
*
35443876 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGAATGCTCTTCGGG
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
35443941 ACTTAACCCGGATAT
66 ACTTAACCCGGATAT
* *
35443956 ATCACTAGCACGAATGCTCTTCGGGACTTAACCCGGATATA
1 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATA
35443997 TAACTCTCAA
Statistics
Matches: 186, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 186 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (80 bp):
ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGG
ACTTAACCCGGATAT
Found at i:35443997 original size:40 final size:40
Alignment explanation
Indices: 35443718--35443996 Score: 405
Period size: 40 Copynumber: 7.0 Consensus size: 40
35443708 AAATACACAT
* * * *
35443718 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
*
35443758 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * ** *
35443798 CTCTAGCACGAATGCTCTTCTAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
*
35443838 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* * *
35443878 CACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
* *
35443918 CACCAACACGAATGCTCTTCGGGACTTAACCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
*
35443958 CACTAGCACGAATGCTCTTCGGGACTTAACCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATA
35443997 TAACTCTCAA
Statistics
Matches: 211, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 211 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
Found at i:35445544 original size:46 final size:46
Alignment explanation
Indices: 35445491--35445581 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
35445481 TATATATACA
* *
35445491 CATCTCATACATATCTCACATTAGCCATTTGGCTTGACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTGACCACATATC
* * * *
35445537 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCATATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTGACCACATAT
35445582 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTGACCACATATC
Found at i:35445611 original size:47 final size:47
Alignment explanation
Indices: 35445555--35445698 Score: 146
Period size: 47 Copynumber: 3.1 Consensus size: 47
35445545 ACACATTTCG
* * * *
35445555 CATTAGCCATTCGGCTTTACCATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACA-TGTCCACATTCATCA
* * * * *
35445602 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
* * * * *
35445649 CAATGGCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
35445696 CAT
1 CAT
35445699 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 1 0.01
47 81 0.99
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTACCACATATATACATGTCCACATTCATCA
Found at i:35447318 original size:14 final size:14
Alignment explanation
Indices: 35447299--35447341 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
35447289 TTTCATTTTG
35447299 TAACATAAAATTAT
1 TAACATAAAATTAT
35447313 TAACATAAAA-TAT
1 TAACATAAAATTAT
* *
35447326 TAACACAAAATAAT
1 TAACATAAAATTAT
35447340 TA
1 TA
35447342 TAATATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 14 0.54
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:35447328 original size:13 final size:13
Alignment explanation
Indices: 35447299--35447337 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
35447289 TTTCATTTTG
35447299 TAACATAAAATTAT
1 TAACATAAAA-TAT
35447313 TAACATAAAATAT
1 TAACATAAAATAT
*
35447326 TAACACAAAATA
1 TAACATAAAATA
35447338 ATTATAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:35452140 original size:13 final size:13
Alignment explanation
Indices: 35452122--35452147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35452112 TTGAAACTAG
35452122 ACTCATTAAGGAT
1 ACTCATTAAGGAT
35452135 ACTCATTAAGGAT
1 ACTCATTAAGGAT
35452148 TCTAATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ACTCATTAAGGAT
Found at i:35454273 original size:44 final size:44
Alignment explanation
Indices: 35454193--35454312 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
35454183 CATATATTGT
* * *
35454193 ATCCATTATGAACTTGGACCAATTCAACAAGTTCAGATGCTCAC
1 ATCCATAATGAACTTGGACCAACTCAACAAGCTCAGATGCTCAC
* ** *
35454237 ATCCATAATGAACTTGGACCAACTGAATGAGCTCAGATGCCTCAT
1 ATCCATAATGAACTTGGACCAACTCAACAAGCTCAGATG-CTCAC
** * * *
35454282 ATATATCACGAACTTGGACTAACTCAACAAG
1 ATCCATAATGAACTTGGACCAACTCAACAAG
35454313 TTCGGATTTC
Statistics
Matches: 60, Mismatches: 15, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
44 33 0.55
45 27 0.45
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (44 bp):
ATCCATAATGAACTTGGACCAACTCAACAAGCTCAGATGCTCAC
Found at i:35454993 original size:20 final size:18
Alignment explanation
Indices: 35454955--35455006 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
35454945 ACTATAGCAA
35454955 TTCACAATTT-CAATTAT
1 TTCACAATTTACAATTAT
35454972 TTCACACATTTACAACTTAT
1 TTCACA-ATTTACAA-TTAT
*
35454992 TTTACAACTTTACAA
1 TTCACAA-TTTACAA
35455007 AATAGCCCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.20
18 4 0.13
19 4 0.13
20 16 0.53
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TTCACAATTTACAATTAT
Found at i:35458693 original size:47 final size:47
Alignment explanation
Indices: 35458622--35458752 Score: 190
Period size: 47 Copynumber: 2.8 Consensus size: 47
35458612 CACAATCGAT
* * *
35458622 AAGTACCTATATCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACA
* * * *
35458669 GAGTACCTATACCATGACCTGTAGCCAAATCAAGGTAACTCCTCACA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACA
*
35458716 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
35458753 TTTACTCACA
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCACA
Found at i:35460071 original size:20 final size:20
Alignment explanation
Indices: 35460046--35460096 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
35460036 GAGGCAATGC
*
35460046 ACACGCCCGTGCGTATTGGG
1 ACACGCCCGTGCGCATTGGG
* *
35460066 ACACGCCCATGTGCATTGGG
1 ACACGCCCGTGCGCATTGGG
35460086 ACACGCCCGTG
1 ACACGCCCGTG
35460097 TCCCTTACCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (20 bp):
ACACGCCCGTGCGCATTGGG
Found at i:35462300 original size:23 final size:23
Alignment explanation
Indices: 35462270--35462317 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
35462260 TGCACATAGA
35462270 ATTTCTTCATGAAACTTTAACAC
1 ATTTCTTCATGAAACTTTAACAC
35462293 ATTTCTTCATGAAACTTTAACAC
1 ATTTCTTCATGAAACTTTAACAC
35462316 AT
1 AT
35462318 GCTTATTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTCTTCATGAAACTTTAACAC
Found at i:35463723 original size:43 final size:42
Alignment explanation
Indices: 35463578--35463724 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 42
35463568 TATCCTAGAT
* * * *
35463578 ATGGTCTTACATGTTAT-CACATATCGATGCCACTGTCCCAAAT
1 ATGGTCTTACACGTAATCCA-ATA-CGATGCCAATGTCCCAAAC
* * * * * * *
35463621 AGGGTCTTACACGAAATCGATTAACGATGCTAATGTCTCAGAC
1 ATGGTCTTACACGTAATCCAAT-ACGATGCCAATGTCCCAAAC
*
35463664 ATGGTCTTACACGTAATCTCAATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATC-CAATACGATGCCAATGTCCCAAAC
*
35463707 ATGGTCTTACATGTAATC
1 ATGGTCTTACACGTAATC
35463725 ACATGTCAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
43 77 0.95
44 4 0.05
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACACGTAATCCAATACGATGCCAATGTCCCAAAC
Found at i:35464401 original size:18 final size:18
Alignment explanation
Indices: 35464374--35464420 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
35464364 CAAAGCAATG
35464374 ATCA-CAAAAATGTAGAA
1 ATCATCAAAAATGTAGAA
35464391 ATCATCAAAAATGTAGAA
1 ATCATCAAAAATGTAGAA
35464409 ATCATCAAAAAT
1 ATCATCAAAAAT
35464421 ATATCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.57, C:0.13, G:0.09, T:0.21
Consensus pattern (18 bp):
ATCATCAAAAATGTAGAA
Found at i:35465787 original size:17 final size:17
Alignment explanation
Indices: 35465765--35465797 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35465755 CCTCCCGAAT
35465765 AATATGGGTGCATTAAG
1 AATATGGGTGCATTAAG
35465782 AATATGGGTGCATTAA
1 AATATGGGTGCATTAA
35465798 ATGTTTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (17 bp):
AATATGGGTGCATTAAG
Found at i:35474813 original size:39 final size:39
Alignment explanation
Indices: 35474759--35475015 Score: 417
Period size: 39 Copynumber: 6.5 Consensus size: 39
35474749 TAATGGAGAA
35474759 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35474798 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
35474837 TTATATCCAGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
35474876 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
35474915 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
35474954 TTATATCTGGGCTAAAGTCTCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
35474993 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
35475016 CATGCTTTGT
Statistics
Matches: 205, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 185 0.90
40 20 0.10
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:35476939 original size:26 final size:26
Alignment explanation
Indices: 35476890--35476940 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
35476880 TACTTTCCAT
*
35476890 ATCACATATTTATATAACATGTATAA
1 ATCACATATTTATATAACAAGTATAA
* **
35476916 ATCACATCTTTATATTTCAAGTATA
1 ATCACATATTTATATAACAAGTATA
35476941 TTTTCATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.41
Consensus pattern (26 bp):
ATCACATATTTATATAACAAGTATAA
Found at i:35477729 original size:17 final size:17
Alignment explanation
Indices: 35477707--35477739 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35477697 TTTTTATCAT
35477707 TTATCACTT-ATCGGGCA
1 TTATCA-TTGATCGGGCA
35477724 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
35477740 TTTTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:35493282 original size:136 final size:136
Alignment explanation
Indices: 35493130--35493387 Score: 426
Period size: 136 Copynumber: 1.9 Consensus size: 136
35493120 TTTAGATTAA
* * *
35493130 TTTTTTTCTTACTAATTACCTTTAATGGTTGGCATATAATTTATAGATTAGATTGGAGACCAATG
1 TTTTTTTCCTACTAATTACCTTTAATGGTTGGCACATAATTTATAGACTAGATTGGAGACCAATG
* *
35493195 ACAGAGCCAAGGGGCTGACAGAGGCCAACCTTCCCTAAAATAGAAAATTTTTTATTTTTCTTCTA
66 ACAGAGCCAAGGGACTGACAGAGGCCAACCCTCCCTAAAATAGAAAATTTTTTATTTTTCTTCTA
35493260 GACTAT
131 GACTAT
*
35493266 TTTTTTTCCTACTAATTACCTTTAATGGTTGGCACATAATTTATAGACTAGATTGGGGACCAATG
1 TTTTTTTCCTACTAATTACCTTTAATGGTTGGCACATAATTTATAGACTAGATTGGAGACCAATG
* * * *
35493331 GCTGAGCCAAGGGACTGATAGAGGCCATCCCTCCCTAAAATAGAAAATTTTTTATTT
66 ACAGAGCCAAGGGACTGACAGAGGCCAACCCTCCCTAAAATAGAAAATTTTTTATTT
35493388 AGATCTTTTA
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
136 112 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (136 bp):
TTTTTTTCCTACTAATTACCTTTAATGGTTGGCACATAATTTATAGACTAGATTGGAGACCAATG
ACAGAGCCAAGGGACTGACAGAGGCCAACCCTCCCTAAAATAGAAAATTTTTTATTTTTCTTCTA
GACTAT
Found at i:35494116 original size:11 final size:11
Alignment explanation
Indices: 35494110--35494141 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35494100 TGAAATTTTC
35494110 TCAAAATTCTA
1 TCAAAATTCTA
35494121 TCAAAATTCTA
1 TCAAAATTCTA
*
35494132 TCAAATTTCT
1 TCAAAATTCT
35494142 TTGTTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:35494138 original size:32 final size:32
Alignment explanation
Indices: 35494078--35494139 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
35494068 AATATTCCCT
* *
35494078 TCAAAAATCTATCAAATTTCATTGAAATTTTC
1 TCAAAAATCTATCAAAATTCATTCAAATTTTC
*
35494110 TCAAAATTCTATCAAAATTC-TATCAAATTT
1 TCAAAAATCTATCAAAATTCAT-TCAAATTT
35494140 CTTTGTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 1 0.04
32 25 0.96
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (32 bp):
TCAAAAATCTATCAAAATTCATTCAAATTTTC
Found at i:35494339 original size:48 final size:47
Alignment explanation
Indices: 35494275--35494384 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 47
35494265 AGTGATAATT
*
35494275 TTAAATTTTCAATACTATTCGATATTT-TTTCAATTTATGCAAATT-TAA
1 TTAAA-TTTCAATACTATTCGATATTTACTTC-ATTTATGC-AATTATAA
*
35494323 TTAAATTTACAATACTATTTGATATTTACTTCATTTATGCAATTATAA
1 TTAAATTT-CAATACTATTCGATATTTACTTCATTTATGCAATTATAA
35494371 TTAAAATTTCAATA
1 TT-AAATTTCAATA
35494385 TTGCTTGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
47 7 0.12
48 40 0.71
49 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (47 bp):
TTAAATTTCAATACTATTCGATATTTACTTCATTTATGCAATTATAA
Found at i:35506612 original size:17 final size:18
Alignment explanation
Indices: 35506576--35506617 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35506566 TGCTAGGTGC
*
35506576 GTATCCTAGCCTTCATAT
1 GTATCCTAACCTTCATAT
35506594 GTATCCTAACCTT-ATAT
1 GTATCCTAACCTTCATAT
*
35506611 GTTTCCT
1 GTATCCT
35506618 TTTCCTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.21, C:0.26, G:0.10, T:0.43
Consensus pattern (18 bp):
GTATCCTAACCTTCATAT
Found at i:35510334 original size:126 final size:125
Alignment explanation
Indices: 35510106--35510613 Score: 732
Period size: 126 Copynumber: 4.0 Consensus size: 125
35510096 TTATAGCTTC
* * *
35510106 ATTTTTCTACGAACTACTGCAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTAAGAAATTTTATT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAA-AAATTTTATT
35510171 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCGAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC-AAATT
* * *
35510233 ATTTTTCTGCGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAAAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTATTG
* *
35510298 ACAGTGCATCCTGCTTGAAGCGTTTTCGACATTATTTGTTTAGAAACGTCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTC-AAATT
* * * *
35510359 ATTTTTCTACAAACTACTGTAGCAAAAGAGCATCCATGTAGGAGCTTTTTTCAGAAATTTT-TCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTAT-T
* * * *
35510423 GACAGTGCTTCCTGCTTGTAGCGTTTTCGACACTATTTTTTCAGAAACGTCTATTCAGAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCA-AATT
* * * * * *
35510485 ATTTTTTTAC-AACCTACTGTAGCGAAAGAGCGTCCACTTAGGAGCCTTTTTCAGAAATTTTACT
1 ATTTTTCTACGAA-CTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTATT
*
35510549 GACAGTGCATCCTACTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCCAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACT-CAAATT
35510611 ATT
1 ATT
35510614 CTTGTAGAAA
Statistics
Matches: 345, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
125 4 0.01
126 288 0.83
127 53 0.15
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (125 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTTCAAAAATTTTATTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAATT
Found at i:35511170 original size:20 final size:19
Alignment explanation
Indices: 35511145--35511215 Score: 103
Period size: 19 Copynumber: 3.8 Consensus size: 19
35511135 ACGATTATGT
*
35511145 ATCAATTAACCCTAAATTAA
1 ATCAATTAACCCT-AATTTA
35511165 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
35511184 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
35511200 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
35511216 ACCCTAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
16 15 0.32
17 1 0.02
18 1 0.02
19 17 0.36
20 13 0.28
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:35511195 original size:16 final size:16
Alignment explanation
Indices: 35511174--35511205 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35511164 AATCAATTAA
35511174 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
35511190 CCCTAATTTAATCAAT
1 CCCTAATTTAATCAAT
35511206 TAACCCTAAT
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:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
CCCTAATTTAATCAAT
Found at i:35511388 original size:16 final size:16
Alignment explanation
Indices: 35511336--35511389 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
35511326 CCCTAAATCT
*
35511336 TAAAAAACCCTAACCC
1 TAAAAAATCCTAACCC
*
35511352 TAAATCAAT--TAAACCC
1 TAAA-AAATCCT-AACCC
35511368 T-AAAAATCCTAACCC
1 TAAAAAATCCTAACCC
35511383 TAAAAAA
1 TAAAAAA
35511390 CACGGGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 3 0.10
15 9 0.30
16 16 0.53
17 2 0.07
ACGTcount: A:0.54, C:0.28, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAAAATCCTAACCC
Found at i:35516119 original size:16 final size:16
Alignment explanation
Indices: 35516098--35516135 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
35516088 TTGCAGGTCA
35516098 ACATCTAGACTTAGGT
1 ACATCTAGACTTAGGT
35516114 ACATCTAGACTTAGGT
1 ACATCTAGACTTAGGT
35516130 ACATCT
1 ACATCT
35516136 TCTCCTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (16 bp):
ACATCTAGACTTAGGT
Found at i:35519419 original size:672 final size:672
Alignment explanation
Indices: 35518136--35519484 Score: 2680
Period size: 672 Copynumber: 2.0 Consensus size: 672
35518126 AAACCATTTT
35518136 TAAAATCGGGTTTTGGAAAACGGGAATCGACTTTAAGAAAAACAAAAACGGGAGTCGCCACCAAT
1 TAAAATCGGGTTTTGGAAAACGGGAATCGACTTTAAGAAAAACAAAAACGGGAGTCGCCACCAAT
*
35518201 CTTTTTAGGCGTGATTGGATCACCTTATAAAATGTTTTGTTTTAAAACATTAATTTTGGTCTACG
66 CTTTTTAGGCGTGATTAGATCACCTTATAAAATGTTTTGTTTTAAAACATTAATTTTGGTCTACG
35518266 AAAGTCGAGAAAATAGATTCGAGAGTTGGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCC
131 AAAGTCGAGAAAATAGATTCGAGAGTTGGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCC
35518331 CAAAAATTGGTACATAATTGATTATCAAGTGTCTTTAATGTCGGAAATTTGAAAGTTTTAAGATG
196 CAAAAATTGGTACATAATTGATTATCAAGTGTCTTTAATGTCGGAAATTTGAAAGTTTTAAGATG
35518396 CAATCCTCTTTAGAATATTTTAATTTTGAAAATTAGGGTTCACTTGTATCAAATGAATCAAAATA
261 CAATCCTCTTTAGAATATTTTAATTTTGAAAATTAGGGTTCACTTGTATCAAATGAATCAAAATA
35518461 TTACATCCAATAAGTTAGGAAGTAATATTTTTAAGACATTCAAAGCTAAGCTAGCCCCTTTTGAA
326 TTACATCCAATAAGTTAGGAAGTAATATTTTTAAGACATTCAAAGCTAAGCTAGCCCCTTTTGAA
35518526 AATCCCTATCTTACAATGACAAAACGCCATATCCAGTAAGTTAGGACACAACGCTTTGAAATTTC
391 AATCCCTATCTTACAATGACAAAACGCCATATCCAGTAAGTTAGGACACAACGCTTTGAAATTTC
35518591 AAGACAGTTACTTGTATTTTGAAAACCTTAAAACCTAGAAGGGTGCTTGACTATTCGAACTCAAC
456 AAGACAGTTACTTGTATTTTGAAAACCTTAAAACCTAGAAGGGTGCTTGACTATTCGAACTCAAC
35518656 GAGAAAAGTTGCAACCCAGTAAGTTAGGGCACTACCTTTCTCGAAGTTTCCAAATACCAAGCATT
521 GAGAAAAGTTGCAACCCAGTAAGTTAGGGCACTACCTTTCTCGAAGTTTCCAAATACCAAGCATT
35518721 GCATTTTTATTTGAAAATTTTGGAATCTCATTTTTGTTGATGTATGAAGAAGCATATTAACATAA
586 GCATTTTTATTTGAAAATTTTGGAATCTCATTTTTGTTGATGTATGAAGAAGCATATTAACATAA
35518786 CATACGAGATAACATGTTATAG
651 CATACGAGATAACATGTTATAG
35518808 TAAAATCGGGTTTTGGAAAACGGGAATCGACTTTAAGAAAAACAAAAACGGGAGTCGCCACCAAT
1 TAAAATCGGGTTTTGGAAAACGGGAATCGACTTTAAGAAAAACAAAAACGGGAGTCGCCACCAAT
35518873 CTTTTTAGGCGTGATTAGATCACCTTATAAAATGTTTTGTTTTAAAACATTAATTTTGGTCTACG
66 CTTTTTAGGCGTGATTAGATCACCTTATAAAATGTTTTGTTTTAAAACATTAATTTTGGTCTACG
35518938 AAAGTCGAGAAAATAGATTCGAGAGTTGGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCC
131 AAAGTCGAGAAAATAGATTCGAGAGTTGGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCC
*
35519003 CAAAAATTGGTACCTAATTGATTATCAAGTGTCTTTAATGTCGGAAATTTGAAAGTTTTAAGATG
196 CAAAAATTGGTACATAATTGATTATCAAGTGTCTTTAATGTCGGAAATTTGAAAGTTTTAAGATG
35519068 CAATCCTCTTTAGAATATTTTAATTTTGAAAATTAGGGTTCACTTGTATCAAATGAATCAAAATA
261 CAATCCTCTTTAGAATATTTTAATTTTGAAAATTAGGGTTCACTTGTATCAAATGAATCAAAATA
35519133 TTACATCCAATAAGTTAGGAAGTAATATTTTTAAGACATTCAAAGCTAAGCTAGCCCCTTTTGAA
326 TTACATCCAATAAGTTAGGAAGTAATATTTTTAAGACATTCAAAGCTAAGCTAGCCCCTTTTGAA
35519198 AATCCCTATCTTACAATGACAAAACGCCATATCCAGTAAGTTAGGACACAACGCTTTGAAATTTC
391 AATCCCTATCTTACAATGACAAAACGCCATATCCAGTAAGTTAGGACACAACGCTTTGAAATTTC
35519263 AAGACAGTTACTTGTATTTTGAAAACCTTAAAACCTAGAAGGGTGCTTGACTATTCGAACTCAAC
456 AAGACAGTTACTTGTATTTTGAAAACCTTAAAACCTAGAAGGGTGCTTGACTATTCGAACTCAAC
35519328 GAGAAAAGTTGCAACCCAGTAAGTTAGGGCACTACCTTTCTCGAAGTTTCCAAATACCAAGCATT
521 GAGAAAAGTTGCAACCCAGTAAGTTAGGGCACTACCTTTCTCGAAGTTTCCAAATACCAAGCATT
35519393 GCATTTTTATTTGAAAATTTTGGAATCTCATTTTTGTTGATGTATGAAGAAGCATATTAACATAA
586 GCATTTTTATTTGAAAATTTTGGAATCTCATTTTTGTTGATGTATGAAGAAGCATATTAACATAA
35519458 CATACGAGATAACATGTTATAG
651 CATACGAGATAACATGTTATAG
35519480 TAAAA
1 TAAAA
35519485 GCACAATAGC
Statistics
Matches: 675, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
672 675 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (672 bp):
TAAAATCGGGTTTTGGAAAACGGGAATCGACTTTAAGAAAAACAAAAACGGGAGTCGCCACCAAT
CTTTTTAGGCGTGATTAGATCACCTTATAAAATGTTTTGTTTTAAAACATTAATTTTGGTCTACG
AAAGTCGAGAAAATAGATTCGAGAGTTGGTTACGTACGAGGAAGGGTTAGCACCCTCGTAACGCC
CAAAAATTGGTACATAATTGATTATCAAGTGTCTTTAATGTCGGAAATTTGAAAGTTTTAAGATG
CAATCCTCTTTAGAATATTTTAATTTTGAAAATTAGGGTTCACTTGTATCAAATGAATCAAAATA
TTACATCCAATAAGTTAGGAAGTAATATTTTTAAGACATTCAAAGCTAAGCTAGCCCCTTTTGAA
AATCCCTATCTTACAATGACAAAACGCCATATCCAGTAAGTTAGGACACAACGCTTTGAAATTTC
AAGACAGTTACTTGTATTTTGAAAACCTTAAAACCTAGAAGGGTGCTTGACTATTCGAACTCAAC
GAGAAAAGTTGCAACCCAGTAAGTTAGGGCACTACCTTTCTCGAAGTTTCCAAATACCAAGCATT
GCATTTTTATTTGAAAATTTTGGAATCTCATTTTTGTTGATGTATGAAGAAGCATATTAACATAA
CATACGAGATAACATGTTATAG
Found at i:35519889 original size:21 final size:20
Alignment explanation
Indices: 35519865--35519916 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
35519855 ATAATAATAT
*
35519865 AATATGAATAAAATATAAGGA-
1 AATAT-AATAAAA-ATAAGAAG
35519886 AATATAATATAAAATAAGAAG
1 AATATAATA-AAAATAAGAAG
35519907 AATATAATAA
1 AATATAATAA
35519917 GTATTTTGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.25
Consensus pattern (20 bp):
AATATAATAAAAATAAGAAG
Found at i:35520437 original size:12 final size:11
Alignment explanation
Indices: 35520414--35520443 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
35520404 AAAACAATTT
35520414 TATAAAAAATA
1 TATAAAAAATA
35520425 TATAAAGAAATA
1 TATAAA-AAATA
35520437 TATAAAA
1 TATAAAA
35520444 TAAAATATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
TATAAAAAATA
Found at i:35520799 original size:22 final size:21
Alignment explanation
Indices: 35520773--35520814 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35520763 ATTAGGGCTA
35520773 AATTAGAAATAAATAAAAATGG
1 AATTAGAAAT-AATAAAAATGG
* *
35520795 AATTATAAATATTAAAAATG
1 AATTAGAAATAATAAAAATG
35520815 CAAGAGGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (21 bp):
AATTAGAAATAATAAAAATGG
Found at i:35524088 original size:56 final size:56
Alignment explanation
Indices: 35523949--35524139 Score: 249
Period size: 56 Copynumber: 3.4 Consensus size: 56
35523939 ACCATGGCAT
* * ** * * * *
35523949 CGATATATGTGTGTGAGTTAGACTGCGTTTTATATGTTGGCATTGTTATGTGACTT
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
35524005 C-ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
* * *
35524060 CGATATATGTCTGCGAGTAAGACCACGTTTTATACGTTGACTTCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
* * *
35524116 TGATATATTTGTGCGAGTTAGACC
1 CGATATATGTGTGCGAGTAAGACC
35524140 TTGTCTAGGA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 47 0.39
56 72 0.61
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
Found at i:35525631 original size:24 final size:24
Alignment explanation
Indices: 35525550--35525669 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
35525540 GCTTTATCAT
* *
35525550 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
35525575 ATAACTGGGGCAAAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
35525598 ATAACCGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
35525622 ATAACTGGGGCATAAGCCTTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
35525646 ATACCTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
35525670 CACTTCCTCC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
23 21 0.25
24 51 0.61
25 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:35525743 original size:20 final size:20
Alignment explanation
Indices: 35525718--35525784 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
35525708 TTATGAATAC
35525718 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35525738 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35525758 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35525778 ACCATGT
1 ATCATGT
35525785 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35525749 original size:11 final size:11
Alignment explanation
Indices: 35525718--35525773 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
35525708 TTATGAATAC
35525718 ATCATGTGCAT
1 ATCATGTGCAT
*
35525729 ATCA--TACAT
1 ATCATGTGCAT
35525738 ATCATGTGCAT
1 ATCATGTGCAT
*
35525749 ATCA--TACAT
1 ATCATGTGCAT
*
35525758 GTCATGTGCAT
1 ATCATGTGCAT
35525769 ATCAT
1 ATCAT
35525774 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:35533899 original size:24 final size:24
Alignment explanation
Indices: 35533823--35533898 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
35533813 GGCCTATCCT
*
35533823 CTTTTAATAACTGGGGCAAAAG-C
1 CTTTTAATAACTGGGGCATAAGCC
*
35533846 CTTTTAATAACTGGGGCATAAACC
1 CTTTTAATAACTGGGGCATAAGCC
* **
35533870 CTTTTGATAACTAAGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
35533894 CTTTT
1 CTTTT
35533899 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.43
24 26 0.57
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:35534009 original size:17 final size:18
Alignment explanation
Indices: 35533978--35534011 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35533968 GTCATCTGCA
35533978 TATCATAAATACCATGTT
1 TATCATAAATACCATGTT
*
35533996 TATCA-AAATCCCATGT
1 TATCATAAATACCATGT
35534012 ATTAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (18 bp):
TATCATAAATACCATGTT
Found at i:35540650 original size:49 final size:49
Alignment explanation
Indices: 35540578--35540759 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
35540568 TCGAAGCTAC
* *
35540578 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT
* * * * *
35540627 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTAT
* * * * *
35540678 CAGGTACGCATAGTAGCCTGCACTTAGTACTGCGCATGCTACCAATTAT
1 CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT
* *
35540727 CCGGTACACGTAGTAGCCTGCACTTAGTACTAC
1 CTGGTACACATAGTAGCCTGCACTTAGTACTAC
35540760 GCACGTGACC
Statistics
Matches: 110, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 71 0.65
50 2 0.02
51 37 0.34
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (49 bp):
CTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT
Found at i:35540694 original size:100 final size:100
Alignment explanation
Indices: 35540580--35540767 Score: 322
Period size: 100 Copynumber: 1.9 Consensus size: 100
35540570 GAAGCTACCT
*
35540580 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
35540645 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCA
* * * *
35540680 GGTACGCATAGTAGCCTGCACTTAGTACTGCGCATGCTACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
35540745 TGCACTTAGTACTACGCACGTGA
66 TGCACTTAGTACTACACACGTGA
35540768 CCTCACAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCA
Found at i:35544762 original size:31 final size:31
Alignment explanation
Indices: 35544724--35544802 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
35544714 TTTAACGGTT
35544724 ACTGGGCCGAAGCCTTTTCATAAATCATATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
*
35544755 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
35544786 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
35544803 ACTATAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATA
Found at i:35545140 original size:26 final size:26
Alignment explanation
Indices: 35545056--35545243 Score: 249
Period size: 26 Copynumber: 7.3 Consensus size: 26
35545046 CTGGAGGCCT
35545056 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
35545080 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
35545105 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** *
35545131 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
35545157 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
35545183 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
35545209 AGCCCTTGTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
35545235 AGCTCTTTT
1 AGCCCTTTT
35545244 GCACTTCCTC
Statistics
Matches: 143, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
23 5 0.03
24 5 0.03
25 33 0.23
26 100 0.70
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:35545179 original size:52 final size:52
Alignment explanation
Indices: 35545056--35545243 Score: 303
Period size: 52 Copynumber: 3.7 Consensus size: 52
35545046 CTGGAGGCCT
35545056 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
35545105 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
35545157 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
* * *
35545209 AGCCCTTGTCAATAAACTGAGGCATAAGCTCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
35545244 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 5, Indels: 5
0.93 0.04 0.04
Matches are distributed among these distances:
48 5 0.04
49 7 0.05
50 10 0.08
51 24 0.18
52 84 0.65
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:35545318 original size:20 final size:20
Alignment explanation
Indices: 35545293--35545379 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
35545283 TTATGAATAC
*
35545293 ATCATGTGCATTTGATACAT
1 ATCATGTGCATTTCATACAT
35545313 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
35545333 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
35545353 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
35545373 ATCATGT
1 ATCATGT
35545380 ATATCATATC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:35545443 original size:25 final size:25
Alignment explanation
Indices: 35545415--35545462 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35545405 ATAATTAAAC
* * *
35545415 CCTAGGGGTATAATGGTCATTTTAA
1 CCTAGGGGCAAAATAGTCATTTTAA
35545440 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
35545463 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTAA
Found at i:35546148 original size:27 final size:27
Alignment explanation
Indices: 35546087--35546163 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
35546077 GGCGTATTCA
* *
35546087 TCATTTTACCATATAAGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTACGG
*
35546114 TCACTTTACCCTATAGGGGCT-TTACGG
1 TCATTTTACCCTATAGGGG-TATTACGG
*
35546141 TCTTTTTA-CCTATTAGGGGTATT
1 TCATTTTACCCTA-TAGGGGTATT
35546164 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTACGG
Found at i:35546242 original size:27 final size:27
Alignment explanation
Indices: 35546212--35546545 Score: 117
Period size: 27 Copynumber: 12.3 Consensus size: 27
35546202 ACAAATCAAG
**
35546212 GGTAATTTTGTAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
* * *
35546239 GGTAATTTTACAAATTAAGGGTATTTC
1 GGTAATTTTACAAATCAGGGGTATTTT
* * * **
35546266 AGTAATTTCACAAACCAGTTGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
35546293 GGTAATTTTACAAA-CTAGGGGTGTTTT
1 GGTAATTTTACAAATC-AGGGGTATTTT
* ** *
35546320 GGTAATTCTACCCTAT-AGGGGTATTTC
1 GGTAATTTTA-CAAATCAGGGGTATTTT
* * ***
35546347 AGTAATTTCAC-AATC-GAGGGTAAAAT
1 GGTAATTTTACAAATCAG-GGGTATTTT
** * ***
35546373 GGTAATTTTGGAAATCAAGGGTAAAAT
1 GGTAATTTTACAAATCAGGGGTATTTT
* * ** * ****
35546400 AGTAATTCTGTAAATC-GAAGGTAAAAC
1 GGTAATTTTACAAATCAG-GGGTATTTT
* * * *
35546427 AGTAATTCTATAAATC-GAGGGTACTTT
1 GGTAATTTTACAAATCAG-GGGTATTTT
* *
35546454 GGTAATTTTTACAAGTC-GAGGGTATTTC
1 GGTAA-TTTTACAAATCAG-GGGTATTTT
*
35546482 AGTAATTTTACAAA-CTAGGGGGTATTTT
1 GGTAATTTTACAAATC-A-GGGGTATTTT
* * *
35546510 AGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAGGGGTATTTT
*
35546537 AGTAATTTT
1 GGTAATTTT
35546546 GTAAGAGGGT
Statistics
Matches: 236, Mismatches: 58, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
25 3 0.01
26 15 0.06
27 170 0.72
28 46 0.19
29 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACAAATCAGGGGTATTTT
Found at i:35546243 original size:19 final size:19
Alignment explanation
Indices: 35546204--35546239 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35546194 GTAAATCTAC
35546204 AAATCAAGGGTAATTTTGT
1 AAATCAAGGGTAATTTTGT
*
35546223 AAATCAGGGGT-ATTTTG
1 AAATCAAGGGTAATTTTG
35546240 GTAATTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (19 bp):
AAATCAAGGGTAATTTTGT
Found at i:35546476 original size:28 final size:27
Alignment explanation
Indices: 35546426--35546545 Score: 98
Period size: 28 Copynumber: 4.4 Consensus size: 27
35546416 GAAGGTAAAA
* * *
35546426 CAGTAATTCTATAAATCGAGGGTACTTT
1 CAGTAATTTTACAAGTCGAGGGTA-TTT
*
35546454 -GGTAATTTTTACAAGTCGAGGGTATTT
1 CAGTAA-TTTTACAAGTCGAGGGTATTT
* * *
35546481 CAGTAATTTTACAAACTAGGGGGTATTT
1 CAGTAATTTTAC-AAGTCGAGGGTATTT
* ** *
35546509 TAGTAATTTTACAAACCAAGGGTATTT
1 CAGTAATTTTACAAGTCGAGGGTATTT
*
35546536 TAGTAATTTT
1 CAGTAATTTT
35546546 GTAAGAGGGT
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
27 33 0.44
28 42 0.56
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTACAAGTCGAGGGTATTT
Found at i:35546556 original size:188 final size:188
Alignment explanation
Indices: 35546294--35546649 Score: 441
Period size: 188 Copynumber: 1.9 Consensus size: 188
35546284 TTGTATTTTG
* *
35546294 GTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACA
1 GTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACA
* * * *
35546359 ATCGAGGGTAAAATGGTAATTTTGGAAATCAAGGGTAAAATAGTAATTCTGTAAATCGAAGGTAA
66 A-CGAGGGTAAAACGATAATTTTAGAAATCAAGGGTAAAATAGTAATTCTATAAATCGAAGGTAA
*
35546424 AACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCA
130 AACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCA
* *
35546483 GTAATTTTACAAACTAGGGGGTATTTTAGTAATTTTACAAACC-A-A-GGGTATTTTAGTAATTT
1 GTAATTTTACAAACTA-GGGGTATTTTAGTAATTCTAC---CCTATAGGGGTATTTCAGTAATTT
*** * ** * *
35546545 TGTAA-GAGGGTAAAACGATAATTTTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGG
62 CACAACGAGGGTAAAACGATAATTTTAGAAATCAAGGGTAAAATAGTAATTCTATAAATCGAAGG
* ** * *
35546609 TAGAATGGTAATTCTGTAAATTAAGGGTACTTTGGTAATTT
127 TAAAACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTT
35546650 GGTAAACTAA
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
188 85 0.60
189 16 0.11
190 36 0.26
191 1 0.01
192 1 0.01
193 2 0.01
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.35
Consensus pattern (188 bp):
GTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCAGTAATTTCACA
ACGAGGGTAAAACGATAATTTTAGAAATCAAGGGTAAAATAGTAATTCTATAAATCGAAGGTAAA
ACAGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTTACAAGTCGAGGGTATTTCA
Found at i:35546583 original size:27 final size:27
Alignment explanation
Indices: 35546550--35546637 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
35546540 AATTTTGTAA
* * *
35546550 GAGGGTAAAACGATAATTTTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATT
*
35546577 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATT
* *
35546604 GAGGGTAGAATGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTATAAATT
*
35546631 AAGGGTA
1 GAGGGTA
35546638 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.31
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATT
Found at i:35546644 original size:27 final size:27
Alignment explanation
Indices: 35546563--35546648 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
35546553 GGTAAAACGA
* ** *
35546563 TAATTTTATAAATTGAGGGTAAAATGG
1 TAATTCTATAAATCAAGGGTACAATGG
* *
35546590 TAATTCTATAAATCGAGGGTAGAATGG
1 TAATTCTATAAATCAAGGGTACAATGG
* * **
35546617 TAATTCTGTAAATTAAGGGTACTTTGG
1 TAATTCTATAAATCAAGGGTACAATGG
35546644 TAATT
1 TAATT
35546649 TGGTAAACTA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (27 bp):
TAATTCTATAAATCAAGGGTACAATGG
Found at i:35549525 original size:40 final size:40
Alignment explanation
Indices: 35549442--35549784 Score: 467
Period size: 40 Copynumber: 8.6 Consensus size: 40
35549432 TTGAATGCTG
* * * * * *
35549442 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
35549482 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
35549522 TCCGGGTTAAGTCGCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35549562 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35549602 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35549642 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
35549682 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35549722 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35549761 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35549785 TGAACGAGGA
Statistics
Matches: 277, Mismatches: 23, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 234 0.84
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:35553719 original size:40 final size:40
Alignment explanation
Indices: 35553636--35553978 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
35553626 TTGAATGCTG
* * * * * *
35553636 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
35553676 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
35553716 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35553756 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35553796 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35553836 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
35553876 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35553916 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35553955 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35553979 TGAACGAGGA
Statistics
Matches: 281, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.12
40 238 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:35557914 original size:40 final size:40
Alignment explanation
Indices: 35557831--35558173 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
35557821 TTGAATGCTG
* * * * * *
35557831 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
35557871 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
35557911 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35557951 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
35557991 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
35558031 TCCGGGTTAAGTCTCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
35558071 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35558111 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
35558150 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
35558174 TGAACGAGGA
Statistics
Matches: 279, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 236 0.85
41 8 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:35560559 original size:31 final size:31
Alignment explanation
Indices: 35560521--35560599 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
35560511 TTTAACGGTT
35560521 ACTGGGCCGAAGCCTTTTCATAAATCATATA
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
*
35560552 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATA
35560583 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
35560600 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATA
Found at i:35560700 original size:47 final size:42
Alignment explanation
Indices: 35560623--35560719 Score: 113
Period size: 47 Copynumber: 2.2 Consensus size: 42
35560613 TGGCCCATAG
* **
35560623 GCCCATTTCAATATCACATGTAATGTCAATGGTGTAGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAA---TG-A-ATGTATGCAA
*
35560670 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
35560712 GCCCATTT
1 GCCCATTT
35560720 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 18 0.39
43 1 0.02
44 2 0.04
47 25 0.54
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:35560936 original size:26 final size:26
Alignment explanation
Indices: 35560852--35560987 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
35560842 CTGGAGGCCT
35560852 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
35560876 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
35560901 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
35560927 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
35560953 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
35560979 AGCTCTTTT
1 AGCCCTTTT
35560988 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 33 0.33
26 57 0.57
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:35560976 original size:52 final size:51
Alignment explanation
Indices: 35560852--35560987 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
35560842 CTGGAGGCCT
35560852 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
35560901 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
*
35560953 AGCCCTTTTCAATAAACTGGGGCATAAGCTCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
35560988 GCACTTCCTC
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 25 0.30
52 35 0.43
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:35561106 original size:11 final size:11
Alignment explanation
Indices: 35561052--35561124 Score: 59
Period size: 11 Copynumber: 7.2 Consensus size: 11
35561042 GTGCATTTCA
35561052 TACATATCATG
1 TACATATCATG
* *
35561063 TGCATTTCA--
1 TACATATCATG
35561072 TACATATCATG
1 TACATATCATG
* *
35561083 TGCATTTCA--
1 TACATATCATG
35561092 TACATATCATG
1 TACATATCATG
*
35561103 TACATATCATA
1 TACATATCATG
35561114 T-CA-ATCATG
1 TACATATCATG
35561123 TA
1 TA
35561125 TATCATATCC
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
9 20 0.43
10 2 0.04
11 25 0.53
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.38
Consensus pattern (11 bp):
TACATATCATG
Found at i:35561124 original size:20 final size:20
Alignment explanation
Indices: 35561037--35561123 Score: 140
Period size: 20 Copynumber: 4.3 Consensus size: 20
35561027 TTATGAATAC
35561037 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
35561057 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
35561077 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
35561097 ATCATGTACATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
35561117 ATCATGT
1 ATCATGT
35561124 ATATCATATC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:35561129 original size:9 final size:10
Alignment explanation
Indices: 35561054--35561130 Score: 54
Period size: 9 Copynumber: 7.8 Consensus size: 10
35561044 GCATTTCATA
35561054 CATATCATGT
1 CATATCATGT
* *
35561064 GCATTTCAT-A
1 -CATATCATGT
35561074 CATATCATGT
1 CATATCATGT
* *
35561084 GCATTTCAT-A
1 -CATATCATGT
35561094 CATATCATGT
1 CATATCATGT
*
35561104 ACATATCATAT
1 -CATATCATGT
35561115 CA-ATCATGT
1 CATATCATGT
35561124 -ATATCAT
1 CATATCAT
35561131 ATCCCACGTA
Statistics
Matches: 51, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 2 0.04
11 23 0.45
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (10 bp):
CATATCATGT
Found at i:35561944 original size:19 final size:19
Alignment explanation
Indices: 35561905--35561940 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35561895 GTAAATCTAC
35561905 AAATCAAGGGTAATTTTGT
1 AAATCAAGGGTAATTTTGT
*
35561924 AAATCAGGGGT-ATTTTG
1 AAATCAAGGGTAATTTTG
35561941 GTAATTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (19 bp):
AAATCAAGGGTAATTTTGT
Found at i:35562078 original size:27 final size:27
Alignment explanation
Indices: 35561913--35562272 Score: 156
Period size: 27 Copynumber: 13.3 Consensus size: 27
35561903 ACAAATCAAG
* *
35561913 GGTAATTTTGTAAATC-AGGGGTATTTT
1 GGTAATTTTATAAATCGA-GGGTAATTT
* * *
35561940 GGTAATTTTACAAATTGAAGGT-ATTT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * * ***
35561966 CAGTAATTTCA-CAATCGAGGGTAAAAC
1 -GGTAATTTTATAAATCGAGGGTAATTT
* * **
35561993 GGTAATTTTGTAAATCAAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * * * ***
35562020 AGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAATTT
* * *
35562047 AGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
*
35562074 GGTAATTTT-TACAAGTTGAGGGT-ATTT
1 GGTAATTTTATA-AA-TCGAGGGTAATTT
* * * * *
35562101 CAGTAATTTTACAAATTAGGGGGTATTTT
1 -GGTAATTTTATAAA-TCGAGGGTAATTT
* * * * *
35562130 AGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
* * ***
35562157 AGTAATTTTGTAAATCGAGGGTAAAAC
1 GGTAATTTTATAAATCGAGGGTAATTT
* * **
35562184 GATAATTTTATAAATTGAGGGTAAAAT
1 GGTAATTTTATAAATCGAGGGTAATTT
* *
35562211 GGTAATTCTATAAATCGAGGGTAGA-AT
1 GGTAATTTTATAAATCGAGGGTA-ATTT
* * * *
35562238 GGTAATTCTGTAAATCAAGGGTACTTT
1 GGTAATTTTATAAATCGAGGGTAATTT
35562265 GGTAATTT
1 GGTAATTT
35562273 GGTAAACTAA
Statistics
Matches: 259, Mismatches: 63, Indels: 22
0.75 0.18 0.06
Matches are distributed among these distances:
26 20 0.08
27 196 0.76
28 39 0.15
29 4 0.02
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTTTATAAATCGAGGGTAATTT
Found at i:35562096 original size:28 final size:27
Alignment explanation
Indices: 35562063--35562165 Score: 102
Period size: 28 Copynumber: 3.7 Consensus size: 27
35562053 TCTATAAATC
* *
35562063 GAGGGTACTTTGGTAATTTTTACAAGTT-
1 GAGGGTA-TTTAGTAA-TTTTACAAATTA
35562091 GAGGGTATTTCAGTAATTTTACAAATTA
1 GAGGGTATTT-AGTAATTTTACAAATTA
* **
35562119 GGGGGTATTTTAGTAATTTTACAAACCA
1 GAGGGTA-TTTAGTAATTTTACAAATTA
35562147 -AGGGTATTTTAGTAATTTT
1 GAGGGTA-TTTAGTAATTTT
35562166 GTAAATCGAG
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
27 31 0.47
28 32 0.48
29 3 0.05
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GAGGGTATTTAGTAATTTTACAAATTA
Found at i:35562169 original size:137 final size:133
Alignment explanation
Indices: 35561914--35562206 Score: 327
Period size: 137 Copynumber: 2.2 Consensus size: 133
35561904 CAAATCAAGG
* *
35561914 GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCAC
1 GTAATTTTATAAATCGA-GGGTACTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCAC
* * ** *
35561978 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTA
65 AATAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTA
35562043 AAAC
130 AAAC
* * * *
35562047 AGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTA
1 -GTAATTTTATAAATCGAGGGTACTTTGGTAA-TTTTACAAATTGAAGGTATTTCAGTAATTTCA
* **** *** * *
35562112 CAAATTAGGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGG
64 C-AA-TAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGG
35562177 GTAAAAC
127 GTAAAAC
*
35562184 GATAATTTTATAAATTGAGGGTA
1 G-TAATTTTATAAATCGAGGGTA
35562207 AAATGGTAAT
Statistics
Matches: 131, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
134 26 0.20
135 31 0.24
136 3 0.02
137 71 0.54
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (133 bp):
GTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACA
ATAGAGGGTAAAACAGTAATTTTACAAACCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAA
AAC
Found at i:35562261 original size:191 final size:190
Alignment explanation
Indices: 35561930--35562272 Score: 492
Period size: 191 Copynumber: 1.8 Consensus size: 190
35561920 TTGTAAATCA
* ** *
35561930 GGGGTATTTTGGTAATTTTACAAATTGAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGG
1 GGGGTATTTTAGTAATTTTACAAATCCAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGA
* *
35561995 TAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAA
66 TAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
*
35562060 ATCGAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
131 ATCAAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
* *
35562120 GGGGTATTTTAGTAATTTTACAAA-CCAAGGGTATTTTAGTAATTTTGTA-AATCGAGGGTAAAA
1 GGGGTATTTTAGTAATTTTACAAATCCAA-GGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAA
** * * * ** *
35562183 CGATAATTTTATAAATTGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTG
63 CGATAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTA
35562248 TAAATCAAGGGTACTTTGGTAATTT
128 TAAATCAAGGGTACTTTGGTAATTT
35562273 GGTAAACTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
189 2 0.02
190 35 0.26
191 95 0.71
192 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (190 bp):
GGGGTATTTTAGTAATTTTACAAATCCAAGGTATTTCAGTAATTTCACAATCGAGGGTAAAACGA
TAATTTTATAAATCAAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAA
ATCAAGGGTACTTTGGTAATTTTTACAAGTTGAGGGTATTTCAGTAATTTTACAAATTAG
Found at i:35564846 original size:40 final size:40
Alignment explanation
Indices: 35564786--35564996 Score: 320
Period size: 40 Copynumber: 5.3 Consensus size: 40
35564776 CCTTTGGGGT
* *
35564786 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGAC
*
35564825 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
*
35564865 TTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
35564905 TTGGCCCGATTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
35564945 TTGGCCCGGTTATAGTAACTCGCACGAATGCCTTCGGG-C
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
35564984 TTAGCCCGGTTAT
1 TTAGCCCGGTTAT
35564997 CAATCCGAAT
Statistics
Matches: 161, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 18 0.11
40 143 0.89
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:35577824 original size:48 final size:48
Alignment explanation
Indices: 35577766--35577903 Score: 177
Period size: 48 Copynumber: 2.9 Consensus size: 48
35577756 GTTCTCATAT
*
35577766 CGATGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATCACAAAA
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
***
35577814 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATGT
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
* * * * * * *
35577862 CGAAGCCGATGCCATATCCCATATATGGTCTTATACGGGATC
1 CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
35577904 TCATCAACCC
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAAAA
Found at i:35584294 original size:24 final size:24
Alignment explanation
Indices: 35584267--35584315 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
35584257 ACTAAACTTA
*
35584267 GCATACAACTGTTTGTCTCTCAAG
1 GCATACAACTGCTTGTCTCTCAAG
35584291 GCATACAACTGCTTGTCTCTCAAG
1 GCATACAACTGCTTGTCTCTCAAG
35584315 G
1 G
35584316 TTTGCAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (24 bp):
GCATACAACTGCTTGTCTCTCAAG
Found at i:35589928 original size:44 final size:44
Alignment explanation
Indices: 35589865--35589953 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
35589855 CCCGAACATG
*
35589865 TGTCACATAAATCATGAACTTAGACCACAACTCATGAGTTCAGA
1 TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
* *
35589909 TGTCACATATATCATGAACTCAGACCACAACTCATGTGTTCAGA
1 TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
35589953 T
1 T
35589954 CACATACTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (44 bp):
TGTCACATAAATCATGAACTCAGACCACAACTCATGAGTTCAGA
Found at i:35594116 original size:14 final size:14
Alignment explanation
Indices: 35594097--35594124 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35594087 GAGACAAGTA
35594097 ATCAACCACTTGAT
1 ATCAACCACTTGAT
35594111 ATCAACCACTTGAT
1 ATCAACCACTTGAT
35594125 TTTCTGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (14 bp):
ATCAACCACTTGAT
Done.