Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 62 of 325
Found at i:22347007 original size:11 final size:11
Alignment explanation
Indices: 22346991--22347055 Score: 53
Period size: 11 Copynumber: 6.0 Consensus size: 11
22346981 CCTACTTTTA
22346991 TTTTATATATT
1 TTTTATATATT
22347002 TTTTATATATT
1 TTTTATATATT
* * *
22347013 TATTAT-TCTC
1 TTTTATATATT
* *
22347023 TTATAAATATT
1 TTTTATATATT
*
22347034 TTGTTAT-TATA
1 TT-TTATATATT
22347045 TTTTATATATT
1 TTTTATATATT
22347056 ATATAGCAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
10 9 0.23
11 28 0.72
12 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (11 bp):
TTTTATATATT
Found at i:22349880 original size:4 final size:4
Alignment explanation
Indices: 22349871--22349951 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
22349861 GAGTAAGTTA
* *** * *
22349871 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
22349921 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
22349952 TAGAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:22352303 original size:53 final size:53
Alignment explanation
Indices: 22352147--22352312 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
22352137 GACGAAAAAT
* **
22352147 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
22352199 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
22352252 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
22352306 TATGTGA
1 -ATGTGA
22352313 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:22355683 original size:19 final size:20
Alignment explanation
Indices: 22355659--22355697 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
22355649 ATTAATAAGA
22355659 TTTTAAG-AAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
22355678 TTTTAAGAAAAAAAATGAAT
1 TTTTAAGAAAAAAAATGAAT
22355698 ATTGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
TTTTAAGAAAAAAAATGAAT
Found at i:22357004 original size:22 final size:22
Alignment explanation
Indices: 22356960--22357014 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
22356950 TAAAAACTAG
* **
22356960 ATAATAAATTAATATATTTTAA
1 ATAATAAATAAATATATGATAA
*
22356982 ATAATAAATAAATATGTGATAA
1 ATAATAAATAAATATATGATAA
22357004 ATTACATAAAT
1 A-TA-ATAAAT
22357015 TCTTTTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 19 0.70
23 2 0.07
24 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
ATAATAAATAAATATATGATAA
Found at i:22360125 original size:243 final size:242
Alignment explanation
Indices: 22359691--22360132 Score: 665
Period size: 243 Copynumber: 1.8 Consensus size: 242
22359681 TTTCTTTTCC
* *
22359691 TTTCATCATCTTAGCATCAACTAACAAAGAGAAAAAGATGAAGAAATGAGAGAAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
22359756 AGGTTGAATGGGAGAAGAATTAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACCG
66 AGGTTGAATGGGAGAAGAATTAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACCG
* * *
22359821 GCACTGAGTAATGCCAAATGTCAATATATATTGTTAAGGTTATAACTTTTATTTAAAAGATCAAC
131 ACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAAC
22359886 ACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
196 ACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
* * *
22359933 TTTCATCATTTTAACATCATCTAACAAAGAGAAAAAGATGAAAAAATGAGAGTAGAGAAGAAATA
1 TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
* * * * *
22359998 AGTTTGAATGGGAGGAA-AATTAATTTTA-TCTGAG-TGAGAGGAGATAATATATAGAGGTTCAT
66 AGGTTGAATGGGA-GAAGAATT-AGTTTAGT-TG-GCTGAGAAGAGAGAATATATAGAAGTTCAT
* * * * *
22360060 ACTGACATTGAGTAATGACAGATGTTAATATATATTGCTAAGGTTATAATTTTTATTTAAAAGAT
127 ACCGACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGAT
22360125 CAACACCC
192 CAACACCC
22360133 TTGAAACAAA
Statistics
Matches: 178, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
242 77 0.43
243 100 0.56
244 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (242 bp):
TTTCATCATCTTAACATCAACTAACAAAGAGAAAAAGATGAAAAAATGAGAGAAGAGAAGAAATA
AGGTTGAATGGGAGAAGAATTAGTTTAGTTGGCTGAGAAGAGAGAATATATAGAAGTTCATACCG
ACACTGAGTAATGACAAATGTCAATATATATTGCTAAGGTTATAACTTTTATTTAAAAGATCAAC
ACCCCTTCGATCATAATGTTATCAAATCTACCCTTTCGATCATACCG
Found at i:22360965 original size:15 final size:16
Alignment explanation
Indices: 22360945--22360979 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
22360935 TCTCTCATAC
*
22360945 TTTTTTATGT-AAATA
1 TTTTTTATCTAAAATA
22360960 TTTTTTATCTAAAATA
1 TTTTTTATCTAAAATA
22360976 TTTT
1 TTTT
22360980 AGACATATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTTTATCTAAAATA
Found at i:22363703 original size:38 final size:38
Alignment explanation
Indices: 22363655--22363732 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
22363645 ACTATGATTA
22363655 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
22363693 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
1 AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
22363731 AA
1 AA
22363733 CTTGAAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (38 bp):
AAAAATTACTTAAAACAATATGCATTGGGTCATAAATT
Found at i:22367056 original size:34 final size:33
Alignment explanation
Indices: 22367004--22367072 Score: 77
Period size: 34 Copynumber: 2.0 Consensus size: 33
22366994 TTTTAACACC
*
22367004 AATAGATCGATAGCATCAA-TTCCAAACATAAAAT
1 AATAGATCAATAGCATCAACTT--AAACATAAAAT
* *
22367038 AATAGATCAATTGTATCAACGTTAAACATAAAAT
1 AATAGATCAATAGCATCAAC-TTAAACATAAAAT
22367072 A
1 A
22367073 GTTTACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
34 28 0.93
36 2 0.07
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (33 bp):
AATAGATCAATAGCATCAACTTAAACATAAAAT
Found at i:22369037 original size:26 final size:26
Alignment explanation
Indices: 22369001--22369053 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
22368991 ATGGAAAGTA
22369001 GAAAGTTGTCAACAATAGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
*
22369027 GAAAGTTGTCAACAATGGTTTTGCGT
1 GAAAGTTGTCAACAATAGTTTTGCGT
22369053 G
1 G
22369054 TGATATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.34
Consensus pattern (26 bp):
GAAAGTTGTCAACAATAGTTTTGCGT
Found at i:22370869 original size:11 final size:11
Alignment explanation
Indices: 22370834--22370869 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22370824 TGTTTATGAT
22370834 TATGATATGTA
1 TATGATATGTA
**
22370845 TAAAATATGTA
1 TATGATATGTA
22370856 TATGATATGTA
1 TATGATATGTA
22370867 TAT
1 TAT
22370870 ATGTGGGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (11 bp):
TATGATATGTA
Found at i:22371461 original size:27 final size:29
Alignment explanation
Indices: 22371406--22371465 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
22371396 TTGATTTAAA
* *
22371406 TTTAACATTTAGGACTTTATTATGGTTTG
1 TTTAACATTTAGGACATTATTATGATTTG
*
22371435 TTTAA-ATTTTGGACATT-TTATGATTTG
1 TTTAACATTTAGGACATTATTATGATTTG
22371462 TTTA
1 TTTA
22371466 GATTGTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 13 0.46
28 10 0.36
29 5 0.18
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (29 bp):
TTTAACATTTAGGACATTATTATGATTTG
Found at i:22371826 original size:25 final size:26
Alignment explanation
Indices: 22371774--22371856 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
22371764 TGATACAAAT
* *
22371774 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22371800 TGATAATGGGTTAGGT-AATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22371825 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
22371851 TGATAA
1 TGATAA
22371857 GAATTTCATG
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:22378031 original size:18 final size:18
Alignment explanation
Indices: 22378008--22378044 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22377998 TGACGAGAAG
22378008 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
22378026 TCTACTTAAGCCCATAGA
1 TCTACTTAAGCCCATAGA
22378044 T
1 T
22378045 GAAGTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (18 bp):
TCTACTTAAGCCCATAGA
Found at i:22382806 original size:17 final size:17
Alignment explanation
Indices: 22382784--22382817 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22382774 CTTGAAAAGA
22382784 TAGAACGCACCAATCCC
1 TAGAACGCACCAATCCC
22382801 TAGAACGCACCAATCCC
1 TAGAACGCACCAATCCC
22382818 AAATTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.41, G:0.12, T:0.12
Consensus pattern (17 bp):
TAGAACGCACCAATCCC
Found at i:22383816 original size:26 final size:26
Alignment explanation
Indices: 22383780--22383834 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
22383770 AATGTGACCC
22383780 ATACTAATCTGGAGTTAAAGTAAACA
1 ATACTAATCTGGAGTTAAAGTAAACA
22383806 ATACTAATCTGGAGTTAAAGTAAACA
1 ATACTAATCTGGAGTTAAAGTAAACA
22383832 ATA
1 ATA
22383835 TTTATACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (26 bp):
ATACTAATCTGGAGTTAAAGTAAACA
Found at i:22386100 original size:34 final size:34
Alignment explanation
Indices: 22386062--22386128 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
22386052 TCGCGAATAA
*
22386062 ATCAAT-AGCATCAATTTCAAACACAAAATAATTG
1 ATCAATGA-CATCAATGTCAAACACAAAATAATTG
*
22386096 ATCAATGATATCAATGTCAAACACAAAATAATT
1 ATCAATGACATCAATGTCAAACACAAAATAATT
22386129 TATTTCCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (34 bp):
ATCAATGACATCAATGTCAAACACAAAATAATTG
Found at i:22387909 original size:132 final size:132
Alignment explanation
Indices: 22387672--22387939 Score: 347
Period size: 132 Copynumber: 2.0 Consensus size: 132
22387662 TTGCCTCGCA
* ** * * * * *
22387672 TTTAGAAAACACGGATGAAATTCCAAAGGGATATTCGATTATTTTGAACAAATGGGAGATTGCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
* * ** *
22387737 CCCAGCACGATAGGGCACTATTCCCCGAATTGCTAAACATCGAACATTTCCTTCGTTTTAAAAAA
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAAAAA
22387802 TT
131 TT
* ** *
22387804 TTTAGAAAACACGAATGAAATTCTAAAAAGACATTCAATTATTTTGGGCAACCGAGAAATTGCAA
1 TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
* * **
22387869 CCCAGCACGGTAGGGCACGATTCCCTGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAGGAA
66 CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAAAAA
22387934 TT
131 TT
22387936 TTTA
1 TTTA
22387940 AACAAATAAT
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 115 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (132 bp):
TTTAGAAAACACGAATGAAATTCCAAAAAGACATTCAATTATTTTGAACAAACGAGAAATTGCAA
CCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATCGCCTCCGTTTTAAAAAA
TT
Found at i:22390690 original size:25 final size:25
Alignment explanation
Indices: 22390661--22390709 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
22390651 GTTTTGGGTG
22390661 TTGGGTTTAGGGGTTGTAAACGGGA
1 TTGGGTTTAGGGGTTGTAAACGGGA
22390686 TTGGGTTTAGGGGTTGTAAACGGG
1 TTGGGTTTAGGGGTTGTAAACGGG
22390710 CCGGGCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.04, G:0.45, T:0.33
Consensus pattern (25 bp):
TTGGGTTTAGGGGTTGTAAACGGGA
Found at i:22391084 original size:41 final size:40
Alignment explanation
Indices: 22391027--22391469 Score: 179
Period size: 41 Copynumber: 9.9 Consensus size: 40
22391017 CTATCTTTAG
* *
22391027 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTGTTGA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-TTGTGTTGA
* *
22391068 TCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTGGTTTATAGCTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-G--T-T-G-----A
* * * * * *
22391119 TCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTTA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGA-TTG---TGTTGA
* *
22391163 GTCTGCTCCACTGCAACTTCAGGGAGATAAGTCTTGTGTTGA
1 -TCTGCTCTACTGCAACTTCAGGGAGATAAG-ATTGTGTTGA
* *
22391205 TCTGCTCTACTGCAACTTCAGGGAGATGAGATCTGTGGTTTA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-GTTGA
*
22391247 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGA
1 T--CTGC--TC---T--ACTGCAACTTCAGGGAGATAAGA-TTGTGTTGA
* * *
22391297 TCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAA
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGT-G--T-T-G-----A
* * *
22391348 TCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TGCT-A
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTGTGTTGA
* * *
22391386 TCTTTGGTCTGCTCCTAGTAACTTTAGGGAGATAAGACTTGTGTTGA
1 TC--T-G-CT-CTACT-GCAACTTCAGGGAGATAAGA-TTGTGTTGA
* * * *
22391433 TCTACTCTACTACAACTTCAGAGAGATGAGATCTGTG
1 TCTGCTCTACTGCAACTTCAGGGAGATAAGAT-TGTG
22391470 GTTTATAGCT
Statistics
Matches: 304, Mismatches: 48, Indels: 100
0.67 0.11 0.22
Matches are distributed among these distances:
38 3 0.01
40 5 0.02
41 104 0.34
42 16 0.05
43 6 0.02
44 24 0.08
45 36 0.12
46 9 0.03
47 3 0.01
48 4 0.01
49 2 0.01
50 7 0.02
51 82 0.27
52 2 0.01
54 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (40 bp):
TCTGCTCTACTGCAACTTCAGGGAGATAAGATTGTGTTGA
Found at i:22391135 original size:51 final size:48
Alignment explanation
Indices: 22390930--22391565 Score: 309
Period size: 51 Copynumber: 13.8 Consensus size: 48
22390920 GTTTGTTTTT
* * * *
22390930 ATCTGCTCTACTGCAACTTTAGAGAGATGAGATCTGTGATTTATAGTTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGAT-TGTG-TTTAT-GCTTCA
* * * * * *
22390981 ATCTGTTCCACTGCAACTTTAGGGAAATAAGATT-TG-CTAT-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
* * *
22391026 GTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTG--T-TG-----
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGA-TTGTGTTTATGCTTCA
* *
22391067 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTGGTTTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGAT-TGT-GTTTAT-GCTTCA
* * * * * *
22391118 ATCTGTTCCACTACAACTTCAGGGAAATAAGATT-TG-CTAT-CTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
* * * *
22391163 GTCTGCTCCACTGCAACTTCAGGGAGAT-A-A--GT-CTTGTG-TT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
* *
22391204 ATCTGCTCTACTGCAACTTCAGGGAGATGAGATCTGTGGTTTATAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGAT-TGT-GTTTAT-GCTTCA
* * *
22391255 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TG----TG-TT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
* * *
22391296 ATCTGCTCTACTACAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGAT-TGT-GTTTAT-GCTTCA
* * * **
22391347 ATCTGTTCCACTGCAACTTCAGGGAGATAAGATT-TG-CTAT-CTTTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
* * * * *
22391392 GTCTGCT-C-CTAGTAACTTTAGGGAGATAAGACTTGTGTTGAT-C-T--
1 ATCTGCTCCACT-GCAACTTCAGGGAGATGAGA-TTGTGTTTATGCTTCA
* *
22391436 A-CT-CT--ACTACAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGAT-TGT-GTTTAT-GCTTCA
* * * * *
22391483 ATCTGTTCCACTACAACTTCAGGGAAATAAGATT-TG-CTAT-C-TCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTC-A
* *
22391528 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTG
1 ATCTGCTCCACTGCAACTTCAGGGAGATGAGA-TTGTG
22391566 ACTTTAATCT
Statistics
Matches: 449, Mismatches: 80, Indels: 116
0.70 0.12 0.18
Matches are distributed among these distances:
40 2 0.00
41 102 0.23
42 19 0.04
43 7 0.02
44 26 0.06
45 101 0.22
46 11 0.02
47 20 0.04
48 10 0.02
49 8 0.02
50 9 0.02
51 134 0.30
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (48 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATGAGATTGTGTTTATGCTTCA
Found at i:22391147 original size:137 final size:137
Alignment explanation
Indices: 22390930--22391290 Score: 623
Period size: 137 Copynumber: 2.6 Consensus size: 137
22390920 GTTTGTTTTT
* * *
22390930 ATCTGCTCTACTGCAACTTTAGAGAGATGAGATCTGTGATTTATAGTTTCAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
*
22390995 AACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
22391060 TGTGTTG
131 TGTGTTG
* *
22391067 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTAC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
* *
22391132 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGTCT
66 AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
22391197 TGTGTTG
131 TGTGTTG
* *
22391204 ATCTGCTCTACTGCAACTTCAGGGAGATGAGATCTGTGGTTTATAACTTCAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
*
22391269 AACTTCAGGGAGATAAGATTTG
66 AACTTCAGGGAAATAAGATTTG
22391291 TGTTGATCTG
Statistics
Matches: 211, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 211 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (137 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGC
AACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACT
TGTGTTG
Found at i:22391278 original size:92 final size:92
Alignment explanation
Indices: 22391164--22391382 Score: 386
Period size: 92 Copynumber: 2.4 Consensus size: 92
22391154 CTATCTTTAG
* * *
22391164 TCTGCTCCACTGCAACTTCAGGGAGATAAG-TCTTGTGTTGATCTGCTCTACTGCAACTTCAGGG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGAT-TTGTGTTGATCTGCTCTACTACAACTTCAGAG
22391228 AGATGAGATCTGTGGTTTATAACTTCAA
65 AGATGAGATCTGTGGTTTATAACTTCAA
22391256 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
*
22391321 GATGAGATCTGTGGTTTATAGCTTCAA
66 GATGAGATCTGTGGTTTATAACTTCAA
22391348 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
22391383 CTATCTTTGG
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 121 0.99
93 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (92 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
GATGAGATCTGTGGTTTATAACTTCAA
Found at i:22391315 original size:229 final size:228
Alignment explanation
Indices: 22391027--22391518 Score: 806
Period size: 229 Copynumber: 2.2 Consensus size: 228
22391017 CTATCTTTAG
* * * *
22391027 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTGTTGATCTGCTCTACTGCAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
22391092 GATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
66 GATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* * *
22391157 TCTTTAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGTCTTGTGTTGATCTGCTCTACTGCAAC
131 TCTTTAGTCTGCTCCTA--GCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAAC
*
22391221 TTCAGGGAGATGAGATCTGTGGTTTATAACTTCAA
194 TTCAGAGAGATGAGATCTGTGGTTTATAACTTCAA
22391256 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
* * *
22391321 GATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
66 GATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* * *
22391386 TCTTTGGTCTGCTCCTAGTAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTT
131 TCTTTAGTCTGCTCCTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTT
*
22391451 CAGAGAGATGAGATCTGTGGTTTATAGCTTCAA
196 CAGAGAGATGAGATCTGTGGTTTATAACTTCAA
* *
22391484 TCTGTTCCACTACAACTTCAGGGAAATAAGATTTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
22391519 CTATCTCTAG
Statistics
Matches: 245, Mismatches: 17, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
228 107 0.44
229 137 0.56
230 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (228 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
GATGAGATATGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
TCTTTAGTCTGCTCCTAGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTT
CAGAGAGATGAGATCTGTGGTTTATAACTTCAA
Found at i:22391432 original size:136 final size:136
Alignment explanation
Indices: 22391256--22391565 Score: 505
Period size: 136 Copynumber: 2.3 Consensus size: 136
22391246 ATAACTTCAA
* * *
22391256 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTGTTGATCTGCTCTACTACAACTTCAGAGA
1 TCTGCTCCAC-GCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
* *
22391321 GATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTA
65 GATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
* *
22391386 TCTTTGG
130 TCTCTAG
* *
22391393 TCTGCTCCTA-GTAACTTTAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
1 TCTGCTCC-ACGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGA
22391457 GATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
65 GATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTA
22391522 TCTCTAG
130 TCTCTAG
22391529 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTG
1 TCTGCTCCAC-GCAACTTCAGGGAGATAAGACTTGTG
22391566 ACTTTAATCT
Statistics
Matches: 159, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
135 1 0.01
136 126 0.79
137 31 0.19
138 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (136 bp):
TCTGCTCCACGCAACTTCAGGGAGATAAGACTTGTGTTGATCTACTCTACTACAACTTCAGAGAG
ATGAGATCTGTGGTTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTTGCTAT
CTCTAG
Found at i:22391759 original size:45 final size:45
Alignment explanation
Indices: 22391658--22391778 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
22391648 GGCAATTCAG
* *
22391658 CCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCATCTTCGAT
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACAATCTTCGAT
* * *
22391703 -CTGCTT-CCCTACTACTTAGGGGGTTAAGATCTGTA-AATCTTC-TT
1 CCTG-TTACCCTACTACTTAGGGGGTTAAG-GCT-CACAATCTTCGAT
*
22391747 CCTGTTACCCTACTACTTAGGGGTTTAAGGCT
1 CCTGTTACCCTACTACTTAGGGGGTTAAGGCT
22391779 TGTGAATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
44 29 0.45
45 34 0.53
46 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.35
Consensus pattern (45 bp):
CCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACAATCTTCGAT
Found at i:22406929 original size:10 final size:9
Alignment explanation
Indices: 22406902--22406928 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
22406892 GACCCACACG
22406902 CTTTTTTTT
1 CTTTTTTTT
22406911 CTTTTTTTT
1 CTTTTTTTT
22406920 CTTTTTTTT
1 CTTTTTTTT
22406929 TGGGGGGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:22411484 original size:42 final size:42
Alignment explanation
Indices: 22411425--22411514 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
22411415 GGATTATATC
22411425 AGAAATGAGTTCAGTACTTTCACAATACTGATAAGTAAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATACTGATAAGTAAAGAG
* *
22411467 AGAAATGAGTTCAGTACTTTCACAATGCTGATAAGTGAAGAG
1 AGAAATGAGTTCAGTACTTTCACAATACTGATAAGTAAAGAG
22411509 AGAAAT
1 AGAAAT
22411515 TATAGTATGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (42 bp):
AGAAATGAGTTCAGTACTTTCACAATACTGATAAGTAAAGAG
Found at i:22413457 original size:60 final size:60
Alignment explanation
Indices: 22413364--22413483 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 60
22413354 GGCTATAATG
22413364 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
1 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
* *
22413424 CCCTTTTAAGACATAAAACCTTTCTCCTATATAAAGAGAAGTCTCTGAGTTTTGAGAGAC
1 CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
22413484 ATTGTTGAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (60 bp):
CCCTTTTAAGACAAAAAACCTTTCTCCTATATAAAGAGAAGTCTCTAAGTTTTGAGAGAC
Found at i:22415909 original size:16 final size:16
Alignment explanation
Indices: 22415888--22415926 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
22415878 GAGAGATCGT
22415888 TTCCCCTTGTGATTCA
1 TTCCCCTTGTGATTCA
22415904 TTCCCCTTGTGATTCA
1 TTCCCCTTGTGATTCA
22415920 TTCCCCT
1 TTCCCCT
22415927 CAACCTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.36, G:0.10, T:0.44
Consensus pattern (16 bp):
TTCCCCTTGTGATTCA
Found at i:22416801 original size:18 final size:18
Alignment explanation
Indices: 22416780--22416836 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
22416770 TATTTATTTA
22416780 GTAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
* * * **
22416798 GTAACAATTAATTATTTA
1 GTAATAATCAGTTATTCG
*
22416816 ATAATAATCAGTTATTCG
1 GTAATAATCAGTTATTCG
22416834 GTA
1 GTA
22416837 TCAATGAATT
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (18 bp):
GTAATAATCAGTTATTCG
Found at i:22416805 original size:36 final size:36
Alignment explanation
Indices: 22416764--22416846 Score: 130
Period size: 36 Copynumber: 2.3 Consensus size: 36
22416754 AGTCAATCAG
* *
22416764 AACAATTATTTATTTAGTAATAATCAGTTATTCGGT
1 AACAATTAATTATTTAATAATAATCAGTTATTCGGT
22416800 AACAATTAATTATTTAATAATAATCAGTTATTCGGT
1 AACAATTAATTATTTAATAATAATCAGTTATTCGGT
* *
22416836 ATCAATGAATT
1 AACAATTAATT
22416847 GATCGGTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (36 bp):
AACAATTAATTATTTAATAATAATCAGTTATTCGGT
Found at i:22416879 original size:18 final size:18
Alignment explanation
Indices: 22416853--22416899 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
22416843 AATTGATCGG
* *
22416853 TTATCCAGTAACAATCAA
1 TTATACAGTAAAAATCAA
*
22416871 TTATTCAGTAAAAATCAA
1 TTATACAGTAAAAATCAA
*
22416889 ATATACAGTAA
1 TTATACAGTAA
22416900 TAATTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (18 bp):
TTATACAGTAAAAATCAA
Found at i:22417196 original size:12 final size:12
Alignment explanation
Indices: 22417179--22417203 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22417169 AGTGCCGAAT
22417179 CGGTAACAGTAA
1 CGGTAACAGTAA
22417191 CGGTAACAGTAA
1 CGGTAACAGTAA
22417203 C
1 C
22417204 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:22417573 original size:27 final size:30
Alignment explanation
Indices: 22417530--22417591 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 30
22417520 CAATTAAAAC
*
22417530 ATTC-ATATATATATATT-C-A-TAAATCA
1 ATTCAATATAAATATATTACAACTAAATCA
*
22417556 ATTCAATATAAATTTATTACAAACTAAATCA
1 ATTCAATATAAATATATTAC-AACTAAATCA
22417587 ATTCA
1 ATTCA
22417592 TTTCAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 4 0.14
27 11 0.38
28 1 0.03
30 1 0.03
31 12 0.41
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (30 bp):
ATTCAATATAAATATATTACAACTAAATCA
Found at i:22418638 original size:14 final size:14
Alignment explanation
Indices: 22418615--22418644 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22418605 TAATAACATT
*
22418615 ATAAATATCTATTA
1 ATAAAAATCTATTA
22418629 ATAAAAATCTATTA
1 ATAAAAATCTATTA
22418643 AT
1 AT
22418645 TAACCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAAATCTATTA
Found at i:22428938 original size:61 final size:60
Alignment explanation
Indices: 22428797--22428928 Score: 174
Period size: 61 Copynumber: 2.2 Consensus size: 60
22428787 AAAAATGATT
* * ** * *
22428797 TTAAATTTTTAGAGTTAGGACTAAATTGACAGGTTTTGTAAGTATGGAGGGCCAAATTTA
1 TTAAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTTA
* * *
22428857 TTAAAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCTAAATTTG
1 TT-AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTTA
22428918 TTAAATTTTTA
1 TTAAATTTTTA
22428929 AAATTTAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 11 0.18
61 51 0.82
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (60 bp):
TTAAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTTA
Found at i:22430226 original size:42 final size:42
Alignment explanation
Indices: 22430167--22430252 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
22430157 GCCCGACCCG
22430167 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
1 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
* *
22430209 TATCCAAGGAAGGATCCGCGCACTTCCCATTATTGGGATATT
1 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
22430251 TA
1 TA
22430253 CGCGTTGGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
Found at i:22434763 original size:38 final size:39
Alignment explanation
Indices: 22434679--22434813 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
22434669 ACCAATATGG
*
22434679 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
22434718 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
22434756 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
22434797 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
22434814 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:22436393 original size:14 final size:13
Alignment explanation
Indices: 22436374--22436430 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
22436364 TTGTTTCTTT
22436374 TATATATAATAATA
1 TATATATAAT-ATA
22436388 TATATATAATATA
1 TATATATAATATA
22436401 TATACT-TAAT-TA
1 TATA-TATAATATA
*
22436413 T-TAAATAA-ATA
1 TATATATAATATA
22436424 TATATAT
1 TATATAT
22436431 TTTTTTAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 8 0.22
12 7 0.19
13 11 0.30
14 11 0.30
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATATAATATA
Found at i:22444982 original size:41 final size:41
Alignment explanation
Indices: 22444925--22445076 Score: 259
Period size: 41 Copynumber: 3.7 Consensus size: 41
22444915 ATTACAAATA
* *
22444925 TTATCTCTCTGAAGTTGCAGTATAGCAGATCAAAACAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
22444966 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
*
22445007 TTATCTCTCTGAAGTTGCAGTAGAGCAAATCAAAATAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
* *
22445048 TTATCTCCCTGAAGTTGCAGTAGAACAGA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGA
22445077 CTGGAGATGG
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (41 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
Found at i:22446855 original size:3 final size:3
Alignment explanation
Indices: 22446840--22446930 Score: 78
Period size: 3 Copynumber: 28.7 Consensus size: 3
22446830 ATCATTACTG
*
22446840 TTA TTA GTA TTA TTA TTA TT- TTA TTCA TTA GTCTA TTTA GTTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -T-TA -TTA -TTA T-TA
**
22446887 TTCA TT- TGC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22446931 GTCTTACGAA
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
2 3 0.04
3 53 0.72
4 15 0.20
5 3 0.04
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:22447258 original size:21 final size:22
Alignment explanation
Indices: 22447222--22447267 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
22447212 TTTAACCCCT
* *
22447222 TTTATATATCATTTTTGAATTA
1 TTTATATATCATTTTTAAACTA
*
22447244 TTTATAT-TTATTTTTAAACTA
1 TTTATATATCATTTTTAAACTA
22447265 TTT
1 TTT
22447268 TTCATAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATATATCATTTTTAAACTA
Found at i:22448916 original size:27 final size:28
Alignment explanation
Indices: 22448886--22448939 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
22448876 ATATTGTTAT
22448886 TTTTTAATAAA-ATTTTTATAATTTTAA
1 TTTTTAATAAATATTTTTATAATTTTAA
* *
22448913 TTTTTTATAAATTCTTTTTATAATTTT
1 TTTTTAATAAA-TATTTTTATAATTTT
22448940 TAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
29 13 0.57
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTAATAAATATTTTTATAATTTTAA
Found at i:22448954 original size:30 final size:29
Alignment explanation
Indices: 22448898--22448954 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
22448888 TTTAATAAAA
* *
22448898 TTTTTATAATTTTAATTTTTTATAAATTC
1 TTTTTATAATTTTAAATATTTATAAATTC
22448927 TTTTTATAATTTTTAAAATATTT-TAAAT
1 TTTTTATAA-TTTT-AAATATTTATAAAT
22448955 ATTTAAACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 9 0.38
31 6 0.25
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTATAATTTTAAATATTTATAAATTC
Found at i:22453120 original size:21 final size:22
Alignment explanation
Indices: 22453091--22453133 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
22453081 TTAATTGAAA
*
22453091 ATTTGTAAT-ATGTTTTTAACAT
1 ATTTGTAATCAT-TTTTAAACAT
22453113 ATTT-TAATCATTTTTAAACAT
1 ATTTGTAATCATTTTTAAACAT
22453134 TTAACTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTGTAATCATTTTTAAACAT
Found at i:22454363 original size:39 final size:36
Alignment explanation
Indices: 22454305--22454406 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 36
22454295 ACACACTACT
* *
22454305 ATATAATAATAATAATAAATATAGAAATACAAAAAGCAA
1 ATATAATAAAAATATTAAATATAGAAATA-AAAAA-C-A
* *
22454344 ATATAATAAAAATATTAAATTAAAGTAATAAAAAACA
1 ATATAATAAAAATATTAAA-TATAGAAATAAAAAACA
*
22454381 ATACTATATATAAATATATAAATATA
1 ATA-TA-ATAAAAATAT-TAAATATA
22454407 TATATACATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
37 4 0.08
38 3 0.06
39 34 0.64
40 12 0.23
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (36 bp):
ATATAATAAAAATATTAAATATAGAAATAAAAAACA
Found at i:22454399 original size:8 final size:8
Alignment explanation
Indices: 22454386--22454424 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
22454376 AAACAATACT
22454386 ATATATAA
1 ATATATAA
22454394 ATATATAA
1 ATATATAA
*
22454402 ATATATAT
1 ATATATAA
*
22454410 ATACATAA
1 ATATATAA
*
22454418 AAATATA
1 ATATATA
22454425 CACTAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:22454668 original size:18 final size:18
Alignment explanation
Indices: 22454638--22454721 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
22454628 TGGAGTAGGT
22454638 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
22454656 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
* *
22454675 CAT-GAGA-AATAATAATA
1 -ATATAAATAATAATAATA
* *
22454692 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
*
22454710 ATA-AAAAAATAA
1 ATATAAATAATAA
22454722 AAAAATAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.04
17 15 0.28
18 29 0.55
19 5 0.09
20 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:22454672 original size:30 final size:32
Alignment explanation
Indices: 22454638--22454703 Score: 82
Period size: 36 Copynumber: 2.0 Consensus size: 32
22454628 TGGAGTAGGT
22454638 ATATATA-AT-ATAATAATAATATAAATAATA
1 ATATATACATAATAATAATAATATAAATAATA
22454668 ATATATACATGAGAAATAATAATAATATAAATAATA
1 ATATATACAT----AATAATAATAATATAAATAATA
22454704 GTAAAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
30 7 0.23
31 2 0.07
36 21 0.70
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (32 bp):
ATATATACATAATAATAATAATATAAATAATA
Found at i:22454723 original size:7 final size:8
Alignment explanation
Indices: 22454706--22454731 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
22454696 AAATAATAGT
22454706 AAAAATAA
1 AAAAATAA
22454714 AAAAATAA
1 AAAAATAA
22454722 AAAAATAA
1 AAAAATAA
22454730 AA
1 AA
22454732 CAAAGCTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:22455933 original size:86 final size:85
Alignment explanation
Indices: 22455802--22456676 Score: 682
Period size: 86 Copynumber: 10.3 Consensus size: 85
22455792 TTCAGCTTGG
* * *
22455802 TACCCTACTGCTTAGGGGTTTAAGGCACATCGT-CTTCGATCTGTTTCTCTACTGCTTAGGGTGT
1 TACCCTACTGCTTAGGGGTTTAAGG--C-TTGTCCTTCGATCTGTTTCACTACTGCTTAGGGAGT
22455866 TAAGATCTGTAAATTTAGCCTGT
63 TAAGATCTGTAAATTTAGCCTGT
* * *
22455889 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACATTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC-C-TTCGATCTGTTTCACTACTGCTTAGGGAG-T
22455953 TAAGATCTGTAAATCTTCAGCCTGT
63 TAAGATCTGTAAAT-TT-AGCCTGT
* **
22455978 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTATTTA--G-G--
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGT--CCTTCGATCTGTTTCACTACTGCTTAGGGAGTT
*
22456038 --G-TCTGTAAATTTAACCTGT
64 AAGATCTGTAAATTTAGCCTGT
* * * **
22456057 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTTC-CTACTGTTTAGGGTCT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC--CTTCGATCTG-TTTCACTACTGCTTAGGGAGT
22456121 ATAA-AT-T-T-AA--TA---TGT
63 -TAAGATCTGTAAATTTAGCCTGT
* * * * * *
22456136 TACCCCACTGCTTAAGGGTTTAAGGCTTATCATCTTTGACCTGTTTC-CTTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC--CTTCGATCTGTTTCAC-TACTGCTTAGGGAGT
*
22456200 TAAGATCTGTAAATTCAGCCTGT
63 TAAGATCTGTAAATTTAGCCTGT
* *** * * *
22456223 TACCCTACTACTTAGGGGTTTAAGGCCCATCAGCTTCGATCTGCTCCACTACTGCTTAGGGAGAT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTC--CTTCGATCTGTTTCACTACTGCTTAGGGAGTT
* *
22456288 AAAATC--TACAATTTGGCCTGT
64 AAGATCTGTA-AATTTAGCCTGT
* * *
22456309 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGTTTCCCTACTG-TATAGGGGG
1 TACCCTACTGCTTAGGGGTTTAAG--GCTT-GTCCTTCGATCTGTTTCACTACTGCT-TAGGGAG
* * *
22456372 TTAAGATCTG-GAATTTGGTCTGT
62 TTAAGATCTGTAAATTTAGCCTGT
* * * *
22456395 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAG--GCTT-GTCCTTCGATCTGTTTCACTACTGCTTAGGGAGT
* * ** *
22456459 TAAGATTTG-CAATTCGGTCTGT
63 TAAGATCTGTAAATTTAGCCTGT
* * * *
22456481 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAG--GCTT-GTCCTTCGATCTGTTTCACTACTGCTTAGGGAGT
* * *
22456545 TAAGATCTG-CAA-TTCGATCTGT
63 TAAGATCTGTAAATTTAG-CCTGT
* * * *
22456567 TACCCTACTACTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGTTTCCCTACTGCTAAGGG-GT
1 TACCCTACTGCTTAGGGGTTTAAG--GCTT-GTCCTTCGATCTGTTTCACTACTGCTTAGGGAGT
* *
22456630 TAAGATCTGGAAATTCAGCCTGT
63 TAAGATCTGTAAATTTAGCCTGT
22456653 TACCCTACTGCTTAGGGGTTTAAG
1 TACCCTACTGCTTAGGGGTTTAAG
22456677 ATCTATAAAT
Statistics
Matches: 675, Mismatches: 70, Indels: 87
0.81 0.08 0.10
Matches are distributed among these distances:
77 1 0.00
78 8 0.01
79 109 0.16
80 7 0.01
81 11 0.02
82 5 0.01
83 3 0.00
84 4 0.01
85 17 0.03
86 349 0.52
87 96 0.14
88 5 0.01
89 25 0.04
90 33 0.05
91 1 0.00
92 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (85 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTGTCCTTCGATCTGTTTCACTACTGCTTAGGGAGTTAA
GATCTGTAAATTTAGCCTGT
Found at i:22455984 original size:46 final size:44
Alignment explanation
Indices: 22455850--22455997 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 44
22455840 ATCTGTTTCT
22455850 CTACTGCTTAGGGTGTTAAGATCTGTAAAT-TT-AGCCTGTTACC
1 CTACTGCTTAGGG-GTTAAGATCTGTAAATCTTCAGCCTGTTACC
* * * * *
22455893 CTACTGTTTAGGGGTTAAG-GCTTGT-CA-CATTC-GATCTGTTTCC
1 CTACTGCTTAGGGGTTAAGATC-TGTAAATC-TTCAG-CCTGTTACC
22455936 CTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGTTACC
1 CTACTGCTTA-GGGG-TTAAGATCTGTAAATCTTCAGCCTGTTACC
22455982 CTACTGCTTAGGGGTT
1 CTACTGCTTAGGGGTT
22455998 TAAGGCTTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
41 2 0.02
42 12 0.14
43 28 0.33
44 6 0.07
45 12 0.14
46 22 0.26
47 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACC
Found at i:22456037 original size:44 final size:44
Alignment explanation
Indices: 22455802--22456725 Score: 196
Period size: 44 Copynumber: 21.7 Consensus size: 44
22455792 TTCAGCTTGG
*** **
22455802 TACCCTACTGCTTAGGGGTTTAAGGCACATCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * * ** * *
22455846 TTCTCTACTGCTTA-GGGTGTTAA-GATCTGTAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGT-TTAAGGCT-TGTCACCTTCGATCTGT
* *
22455889 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACATTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * * *
22455932 TTCCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTGT
1 TACCCTACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCGA-TCTGT
22455978 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* ** ** ** *
22456022 TTCCCTACTATTTA-GGG--T----C-TGT-AAATTTAACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* ** *
22456057 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
** * * *
22456101 TTTCCTACTGTTTA-GGGTCTATAA--ATT-T-A------ATATGT
1 TACCCTACTGCTTAGGGGT-T-TAAGGCTTGTCACCTTCGATCTGT
* * * * * *
22456136 TACCCCACTGCTTAAGGGTTTAAGGCTTATCATCTTTGACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * * ** *
22456180 TTCCTTACTGCTTAGGGGGTTAA-GATCTGT-AAATTC-AGCCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGA-TCTGT
* *** * *
22456223 TACCCTACTACTTAGGGGTTTAAGGCCCATCAGCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * ** * * * **
22456267 T-CCACTACTGCTTAGGGAGATAAAATC-T-ACA-ATTTGGCCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCTTGTCACCTTCGATCTGT
* * **
22456309 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * * * * * *
22456353 TTCCCTACTG-TATAGGGGGTTAA-GATCTG-GA-ATTTGGTCTGT
1 TACCCTACTGCT-TAGGGGTTTAAGGCT-TGTCACCTTCGATCTGT
* * ** *
22456395 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* ** * *
22456439 T-CCACTACTGCTTAGGGAG-ATAAGATTTG-CA-ATTCGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCTTGTCACCTTCGATCTGT
* * ** *
22456481 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * *
22456525 T-CCACTACTGCTTAGGGAG-ATAA-GATCTG-CA-ATTCGATCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCT-TGTCACCTTCGATCTGT
* * * **
22456567 TACCCTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * * * ** *
22456611 TTCCCTACTGCTAAGGGG-TTAA-GATCTG-GAAATTC-AGCCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGA-TCTGT
* * * ** * *
22456653 TACCCTACTGCTTAGGGGTTTAA-GATCTATAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTGT
*
22456696 TACCCTACTGCTTAGGGGGTTAAGGCTTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGT
22456726 GGATTCACCG
Statistics
Matches: 624, Mismatches: 178, Indels: 157
0.65 0.19 0.16
Matches are distributed among these distances:
34 3 0.00
35 35 0.06
36 12 0.02
37 2 0.00
38 2 0.00
41 8 0.01
42 137 0.22
43 149 0.24
44 221 0.35
45 32 0.05
46 23 0.04
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (44 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
Found at i:22456098 original size:79 final size:79
Alignment explanation
Indices: 22455958--22456369 Score: 342
Period size: 79 Copynumber: 5.0 Consensus size: 79
22455948 GGGTTTAAGA
* * * *
22455958 TCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTT
1 TCTGTAAAT-TT-AACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATCTTTGATCTGTT
*
22456023 TCCCTACTATTTAGGG
64 TCCCTACTGTTTAGGG
* *
22456039 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTT
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATCTTTGATCTGTTTC
22456104 CCTACTGTTTAGGG
66 CCTACTGTTTAGGG
* ** * * *
22456118 TCTATAAATTTAATATGTTACCCCACTGCTTAAGGGTTTAAGGCTTATCATCTTTGACCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATCTTTGATCTGTTTC
* *
22456183 CTTACTGCTTAGGGGGTTAAG
66 CCTACTGTTTA---GG----G
* * * ** * * *
22456204 ATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCAGCTTCGATCTG-CT
1 -TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATCTTTGATCTGTTT
*
22456268 CCACTACTGCTTAGGGAG
65 CC-CTACTGTTTA-GG-G
* * ** * * * *
22456286 ATAAAATCTACAATTTGGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATC
1 -T---CTGTA-AATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTATCATCTTTGATC
*
22456350 TGTTTCCCTACTGTATAGGG
60 TGTTTCCCTACTGTTTAGGG
22456370 GGTTAAGATC
Statistics
Matches: 272, Mismatches: 44, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
79 127 0.47
80 2 0.01
81 9 0.03
82 6 0.02
84 1 0.00
85 8 0.03
86 57 0.21
87 62 0.23
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (79 bp):
TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCATCTTTGATCTGTTTC
CCTACTGTTTAGGG
Found at i:22456450 original size:172 final size:170
Alignment explanation
Indices: 22455802--22456677 Score: 805
Period size: 172 Copynumber: 5.1 Consensus size: 170
22455792 TTCAGCTTGG
* * * * *
22455802 TACCCTACTGCTTAGGGGTTTAAGGCACATCGTCTTCGATCTGTTTCTCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
22455867 AAGATCTGTAAATTTAGCCTGTTACCCTACTGTTTAGGGG-TTAAG-GCTT-GTCACATTCGATC
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGCCCTTCGT--C-TTCGATC
*
22455929 TGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGT
128 TGTTTCCCTACTGCTTA-GGGG-ATAAGATC--TAAAT-TT-AGCCTGT
* * ** **
22455978 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGTTTCCCTACTATTTA---GG-
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * * *
22456038 ---G-TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCT
65 TAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGCCCT-TCGTCTTCGATCT
* * * * ***
22456099 GTTTTCCTACTGTTTA-GGG-T---CTATAAATTTAATATGT
129 GTTTCCCTACTGCTTAGGGGATAAGATCTAAATTTAGCCTGT
* * * * * * * *
22456136 TACCCCACTGCTTAAGGGTTTAAG-GCTTATCATCTTTGACCTGTTTCCTTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
22456200 TAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCAG-CTTCGATC
65 TAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAA-GCCCTTC-GTCTTCGATC
* * *
22456264 TG-CTCCACTACTGCTTAGGGAGATAAAATCTACAATTTGGCCTGT
128 TGTTTCC-CTACTGCTTAGGG-GATAAGATCTA-AATTTAGCCTGT
22456309 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGT
* * *
22456373 TAAGATCTG-GAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCT
65 TAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAG-CCCTTCGTCTTCGATCT
* * * ** *
22456437 G-CTCCACTACTGCTTAGGGAGATAAGATTTGCAATTCGGTCTGT
129 GTTTCC-CTACTGCTTAGGG-GATAAGATCT-AAATTTAGCCTGT
* * *
22456481 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * * *
22456545 TAAGATCTG-CAA-TTCGATCTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATC
65 TAAGATCTGTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGTTTAAG-CCCTTCGTCTTCGATC
* * *
22456608 TGTTTCCCTACTGCTAAGGGGTTAAGATCTGGAAATTCAGCCTGT
128 TGTTTCCCTACTGCTTAGGGGATAAGATCT--AAATTTAGCCTGT
22456653 TACCCTACTGCTTAGGGGTTTAAGA
1 TACCCTACTGCTTAGGGGTTTAAGA
22456678 TCTATAAATT
Statistics
Matches: 588, Mismatches: 79, Indels: 70
0.80 0.11 0.09
Matches are distributed among these distances:
158 53 0.09
159 2 0.00
160 5 0.01
161 2 0.00
162 1 0.00
165 4 0.01
166 58 0.10
167 8 0.01
168 35 0.06
169 28 0.05
170 2 0.00
171 17 0.03
172 250 0.43
173 73 0.12
174 2 0.00
176 48 0.08
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (170 bp):
TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGCCCTTCGTCTTCGATCTGT
TTCCCTACTGCTTAGGGGATAAGATCTAAATTTAGCCTGT
Found at i:22457676 original size:52 final size:53
Alignment explanation
Indices: 22457574--22457687 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 53
22457564 GCATAGCTCG
* *
22457574 AAATGAATAAATTAATCAAAGATTGCAAATGCCATAAGAAAGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* *
22457627 AAATGAATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
22457679 AAATGAATA
1 AAATGAATA
22457688 TAGCAAATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 33 0.58
53 24 0.42
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.22
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:22457997 original size:4 final size:4
Alignment explanation
Indices: 22457981--22458012 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
22457971 GCCTCTCCTT
22457981 TTTC TTCTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC TTT
22458013 TTTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:22462122 original size:60 final size:60
Alignment explanation
Indices: 22462055--22462193 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 60
22462045 CCAACTGTGT
22462055 TGATATGGG-TAAGGCCCAATATA-TCTCG-ACTTGTAATAGGGCTACGGCCCAGATTAATAC
1 TGATATGGGCTAAGGCCCAATATACTCT-GTAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * *
22462115 TGATATGGGCT-AGGCCCAGTATACTCTGTTACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCTAAGGCCCAATATACTCTG-TACTGTAAAGGGCTACGGCCCAGATTAATAC
22462175 TGATATGGGCTAAGGCCCA
1 TGATATGGGCTAAGGCCCA
22462194 GTTAACATTA
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
60 52 0.74
61 16 0.23
62 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
TGATATGGGCTAAGGCCCAATATACTCTGTACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:22463151 original size:509 final size:510
Alignment explanation
Indices: 22462193--22463212 Score: 1997
Period size: 509 Copynumber: 2.0 Consensus size: 510
22462183 GCTAAGGCCC
22462193 AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
1 AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
22462258 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
66 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
22462323 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
131 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
*
22462388 TTAAAATAAGTTTCGCATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
196 TTAAAATAAGTTTCGCATTTATTATTTTAATTATGTTTATTCTGGTTAAAGTTGTAATAAGGCCG
*
22462453 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCGTTTTATAAA
261 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
22462518 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
326 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
22462583 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
391 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
22462648 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
456 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
*
22462703 AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGGCTTTGGTT
1 AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
22462768 GGGATACTTTACACACTGAGTTTTCCAAACTCA-CCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
66 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
22462832 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
131 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
22462897 TTAAAATAAGTTTCGCATTTATTATTTTAATTATGTTTATTCTGGTTAAAGTTGTAATAAGGCCG
196 TTAAAATAAGTTTCGCATTTATTATTTTAATTATGTTTATTCTGGTTAAAGTTGTAATAAGGCCG
22462962 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
261 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
*
22463027 AGTTATTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
326 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
22463092 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
391 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
22463157 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
456 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
22463212 A
1 A
22463213 AGCAGTCTAA
Statistics
Matches: 506, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
509 409 0.81
510 97 0.19
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (510 bp):
AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
TTAAAATAAGTTTCGCATTTATTATTTTAATTATGTTTATTCTGGTTAAAGTTGTAATAAGGCCG
CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
Found at i:22466885 original size:16 final size:16
Alignment explanation
Indices: 22466859--22466897 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22466849 AATAAAAAAC
*
22466859 AATACTATATATATAAA
1 AATA-TATATACATAAA
*
22466876 TATATATATACATAAA
1 AATATATATACATAAA
22466892 AATATA
1 AATATA
22466898 CACTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATATATACATAAA
Found at i:22467129 original size:3 final size:3
Alignment explanation
Indices: 22467116--22467197 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
22467106 GTGGGTATAT
22467116 ATA AT- ATA ATA ATA ATA A-A ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* * *
22467162 ATA ATA AT- ATAA ATA ATA GTA AAA ACA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
22467198 AAAAAAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
2 9 0.14
3 46 0.72
4 7 0.11
5 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:22467159 original size:21 final size:18
Alignment explanation
Indices: 22467121--22467179 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
22467111 TATATATAAT
22467121 ATAATAATAATA-AAATA
1 ATAATAATAATAGAAATA
22467138 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
22467159 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
22467177 ATA
1 ATA
22467180 GTAAAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 6 0.16
18 12 0.32
19 4 0.11
20 4 0.11
21 11 0.30
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:22467748 original size:30 final size:30
Alignment explanation
Indices: 22467714--22467798 Score: 143
Period size: 30 Copynumber: 2.8 Consensus size: 30
22467704 TTTGATGGTA
22467714 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
1 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
* *
22467744 TAGGTGCAAGTGGGAGGCAAGGTGGTGGAG
1 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
*
22467774 TAGGTGCAAGTGGGAGCCAAGGTGG
1 TAGGTGCAAGTGGGAGACAAGGTGG
22467799 CTAGGTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.26, C:0.08, G:0.49, T:0.16
Consensus pattern (30 bp):
TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
Found at i:22473842 original size:27 final size:27
Alignment explanation
Indices: 22473783--22473860 Score: 104
Period size: 28 Copynumber: 2.9 Consensus size: 27
22473773 GGTTTAGTCC
*
22473783 TATTTTTTAGATTTTACAATTTTACCCT
1 TATTTTTTAGATTTTACAGTTTTA-CCT
*
22473811 TATTTTTTAGATTCTACAGTTTTA-CT
1 TATTTTTTAGATTTTACAGTTTTACCT
*
22473837 TCATTTTTTAGATTTTATAGTTTT
1 T-ATTTTTTAGATTTTACAGTTTT
22473861 GTCTCCCACT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 20 0.44
28 22 0.49
ACGTcount: A:0.23, C:0.10, G:0.06, T:0.60
Consensus pattern (27 bp):
TATTTTTTAGATTTTACAGTTTTACCT
Found at i:22475366 original size:30 final size:31
Alignment explanation
Indices: 22475332--22475433 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
22475322 AAAAAAATAA
*
22475332 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
22475362 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
22475392 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
22475422 AAATTTCATTTT
1 AAATTTCATTTT
22475434 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:22475396 original size:60 final size:59
Alignment explanation
Indices: 22475329--22475467 Score: 165
Period size: 60 Copynumber: 2.4 Consensus size: 59
22475319 TTTAAAAAAA
* *
22475329 TAAAAATTACATTTTGACCCCTAAACTTTTC-CTAAATTTCATTTTGACCCTTAAACTTTC
1 TAAAAATTACATTTAGACCCCTAAAC-TTTCACTAAATTTCATTTTAACCC-TAAACTTTC
** * * * * *
22475389 TTTAAATTTCACTTAGACCCCTAAACTTTCATTAAATTTCATTTTAATCCTAAATTTTC
1 TAAAAATTACATTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTC
22475448 TAAAAATTACATTTAG-CCCC
1 TAAAAATTACATTTAGACCCC
22475468 AGAAGTTTTG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
58 4 0.06
59 24 0.37
60 37 0.57
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (59 bp):
TAAAAATTACATTTAGACCCCTAAACTTTCACTAAATTTCATTTTAACCCTAAACTTTC
Found at i:22475828 original size:3 final size:3
Alignment explanation
Indices: 22475820--22475891 Score: 62
Period size: 3 Copynumber: 24.0 Consensus size: 3
22475810 GCTAGGCTTT
*
22475820 GAA GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA
1 GAA GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA
*
22475867 GAAA GAA -AA -AA GAA AAA GAA -AA GAA
1 G-AA GAA GAA GAA GAA GAA GAA GAA GAA
22475892 ATAATAAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
2 8 0.14
3 38 0.64
4 13 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22475838 original size:10 final size:10
Alignment explanation
Indices: 22475823--22475851 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
22475813 AGGCTTTGAA
22475823 GAAGAAGAAG
1 GAAGAAGAAG
22475833 GAAGAAGAAG
1 GAAGAAGAAG
22475843 GAAGAAGAA
1 GAAGAAGAA
22475852 AAGAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:22475838 original size:13 final size:13
Alignment explanation
Indices: 22475820--22475865 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
22475810 GCTAGGCTTT
22475820 GAAGAAGAAGAAG
1 GAAGAAGAAGAAG
22475833 GAAGAAGAAGGAA-
1 GAAGAAGAA-GAAG
22475846 GAAGAA-AAG-AG
1 GAAGAAGAAGAAG
22475857 GAAGAAGAA
1 GAAGAAGAA
22475866 AGAAAGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 4 0.13
13 15 0.50
14 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAG
Found at i:22476158 original size:15 final size:14
Alignment explanation
Indices: 22476138--22476199 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
22476128 GGCCCAGCAG
22476138 AGAAAAAAAAAGAAA
1 AGAAAAAAAAA-AAA
22476153 AGAAAAAGAAAAAAA
1 AGAAAAA-AAAAAAA
*
22476168 AGAGAAGGAAAAAAAA
1 AGA-AA-AAAAAAAAA
*
22476184 GGAAAAAAGAAAAAA
1 AGAAAAAA-AAAAAA
22476199 A
1 A
22476200 AAAGAGGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 2 0.05
15 21 0.54
16 15 0.38
17 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAAA
Found at i:22476164 original size:21 final size:21
Alignment explanation
Indices: 22476138--22476204 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
22476128 GGCCCAGCAG
22476138 AGAAAAAAAAAGAAAAGAAAA
1 AGAAAAAAAAAGAAAAGAAAA
*
22476159 AG-AAAAAAAAGAGAAGGAAAA
1 AGAAAAAAAAAGA-AAAGAAAA
*
22476180 A-AAAGGAAAAAAGAAAAAAAAA
1 AGAAA--AAAAAAGAAAAGAAAA
22476202 AGA
1 AGA
22476205 GGTTCAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 10 0.26
21 12 0.32
22 7 0.18
23 9 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAGAAAAGAAAA
Found at i:22476370 original size:16 final size:17
Alignment explanation
Indices: 22476344--22476381 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
22476334 TTATATTTAT
22476344 ATTTTTAATTTAATTTG
1 ATTTTTAATTTAATTTG
* *
22476361 ATTTTT-ATTTTATTTT
1 ATTTTTAATTTAATTTG
22476377 ATTTT
1 ATTTT
22476382 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTAATTTG
Found at i:22476578 original size:18 final size:18
Alignment explanation
Indices: 22476534--22477024 Score: 233
Period size: 17 Copynumber: 27.8 Consensus size: 18
22476524 TCAATAATCC
*
22476534 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
22476552 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
22476569 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
22476586 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
22476603 TCTTATTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
22476624 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * **
22476641 CCGTATTTTCAAAAA-AA
1 TCGTGTTTTCAAAAATTT
*
22476658 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
**
22476677 TCGTGTTTTCAAAAAAAATGA
1 TCGTGTTTTC---AAAAATTT
*
22476698 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
22476715 CCGTGTTAAAAAAAAATCT
1 TCGTGTT-TTCAAAAATTT
*
22476734 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
* *
22476753 TGGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
22476770 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
22476787 TCAGTG-TTTCAAATATTT
1 TC-GTGTTTTCAAAAATTT
* *
22476805 TTGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* ***
22476822 CCAGTGATTTT-AAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
*
22476841 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
22476859 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
22476876 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
22476893 TCGTGTTTTTAAAAATTC
1 TCGTGTTTTCAAAAATTT
*
22476911 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
** **
22476926 T--T-TTTAAGAAAAAAAT
1 TCGTGTTT-TCAAAAATTT
* *
22476942 T-GTG-TTTCAAAAAAATG
1 TCGTGTTTTC-AAAAATTT
* *
22476959 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
22476976 TCGTG-TTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
* *
22476993 TCATGTTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTT
22477010 TCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
22477025 AAAAATCAAG
Statistics
Matches: 353, Mismatches: 80, Indels: 80
0.69 0.16 0.16
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 18 0.05
17 156 0.44
18 105 0.30
19 35 0.10
20 4 0.01
21 25 0.07
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:22476593 original size:34 final size:35
Alignment explanation
Indices: 22476522--22476600 Score: 108
Period size: 34 Copynumber: 2.3 Consensus size: 35
22476512 AAAATTGTAA
*
22476522 TTTCAATAATCCTCGTGCTTTTAAAAATTCTCATG
1 TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCATG
* *
22476557 TTTCAAAAATCTTCGTG-TTTTCAAAATTCT-AGTG
1 TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCA-TG
22476591 TTTCAAAAAT
1 TTTCAAAAAT
22476601 TTTCTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 1 0.03
34 24 0.60
35 15 0.38
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (35 bp):
TTTCAAAAATCCTCGTGCTTTTAAAAATTCTCATG
Found at i:22476596 original size:16 final size:16
Alignment explanation
Indices: 22476545--22476598 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
22476535 CGTGCTTTTA
22476545 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
22476561 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
22476579 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
22476595 AAAA
1 AAAA
22476599 ATTTTCTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:22476630 original size:38 final size:37
Alignment explanation
Indices: 22476544--22476714 Score: 152
Period size: 38 Copynumber: 4.7 Consensus size: 37
22476534 TCGTGCTTTT
* * * *
22476544 AAAAATTCTCATGTTTCAAAAATCTTCGTGTTTTC--
1 AAAAATTATCGTGTTTCAAAAATTTTCGTATTTTCAA
* * *
22476579 -AAAATTCTAGTGTTTCAAAAATTTTCTTATTTTCAGA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTATTTTCA-A
* * * *
22476616 AAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTATTTTCAA
* * *
22476653 AAAAATCAT-GTCTTTCAAAAATTTTCGTGTTTTCAAA
1 AAAAATTATCGTGTTTCAAAAATTTTCGTATTTTC-AA
* *
22476690 AAAAATGACCGTGTTTCAAAAATTT
1 AAAAATTATCGTGTTTCAAAAATTT
22476715 CCGTGTTAAA
Statistics
Matches: 109, Mismatches: 21, Indels: 9
0.78 0.15 0.06
Matches are distributed among these distances:
34 29 0.27
36 20 0.18
37 17 0.16
38 43 0.39
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (37 bp):
AAAAATTATCGTGTTTCAAAAATTTTCGTATTTTCAA
Found at i:22476694 original size:74 final size:75
Alignment explanation
Indices: 22476591--22476766 Score: 187
Period size: 74 Copynumber: 2.4 Consensus size: 75
22476581 AATTCTAGTG
* * * *** * * * **
22476591 TTTCAAAAATTTTCTTATTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGT-GTTAAAAAAA
22476656 AATCAT-GT-C
65 AATCATCGTAC
22476665 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
* *
22476730 ATCTTCGTAT
66 ATCATCGTAC
*
22476740 TTTCAAAAAATTTTGGTG-TTTCAAAAA
1 TTTC-AAAAATTTTCGTGTTTTCAAAAA
22476767 TCTTCGTGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
73 12 0.14
74 48 0.56
75 13 0.15
76 12 0.14
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (75 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
ATCATCGTAC
Found at i:22476872 original size:34 final size:34
Alignment explanation
Indices: 22476624--22476900 Score: 141
Period size: 36 Copynumber: 7.7 Consensus size: 34
22476614 GAAAAAATTT
* * *
22476624 TCGTGTTTTATAAATTTCCGTATTTTCAAAAA-AA
1 TCGTGTTTTAAAAATTTTCGT-GTTTCAAAAATAA
* *
22476658 TCATGTCTTTCAAAAATTTTCGTGTTTTCAAAAAAAA
1 TCGTGT-TTT-AAAAATTTTCGTG-TTTCAAAAATAA
* * * *
22476695 TGACCGTGTTTCAAAAATTTCCGTG-TTAAAAAAAAA
1 T---CGTGTTTTAAAAATTTTCGTGTTTCAAAAATAA
* * **
22476731 TCTTCGTATTTTCAAAAAATTTTGGTGTTTCAAAAATCT
1 ---TCGTGTTTT--AAAAATTTTCGTGTTTCAAAAATAA
* **
22476770 TCGTGTTTTCAAAAA-TTTCAGTGTTTCAAATATTT
1 TCGTGTTTT-AAAAATTTTC-GTGTTTCAAAAATAA
* * * * *
22476805 TTGTGTTTTCAAAAA-CTCCAGTGATTTTAAAAAAAA
1 TCGTGTTTT-AAAAATTTTC-GTG-TTTCAAAAATAA
**
22476841 TCGT-TTTCTAAAAAATTTTCGTGTTTCAAAAATTT
1 TCGTGTTT-T-AAAAATTTTCGTGTTTCAAAAATAA
22476876 TCGTGTTTTAAAAATTTTCGTGTTT
1 TCGTGTTTTAAAAATTTTCGTGTTT
22476901 TTAAAAATTC
Statistics
Matches: 188, Mismatches: 37, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
34 24 0.13
35 57 0.30
36 65 0.35
37 5 0.03
38 23 0.12
39 10 0.05
40 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (34 bp):
TCGTGTTTTAAAAATTTTCGTGTTTCAAAAATAA
Found at i:22476907 original size:35 final size:35
Alignment explanation
Indices: 22476534--22476922 Score: 204
Period size: 35 Copynumber: 10.9 Consensus size: 35
22476524 TCAATAATCC
* * * *
22476534 TCGTGCTTTT-AAAAATTCTCATGTTTCAAAAATCT
1 TCGTG-TTTTCAAAAATTTTCGTGTTTTAAAAATTT
* * *
22476569 TCGTGTTTTC-AAAATTCTAGTGTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTTAAAAATTT
* * *
22476603 TCTTATTTTCAGAAAAAATTTTCGTGTTTTATAAATTT
1 TCGTGTTTTC---AAAAATTTTCGTGTTTTAAAAATTT
* * ** *
22476641 CCGTATTTTCAAAAA-AATCATGTCTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGT-TTT-AAAAATTT
*** *
22476677 TCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTT
1 TCGTGTTTTC---AAAAATTTTCGTGTTTTAAAAATTT
* *** * *
22476715 CCGTGTTAAAAAAAAATCTTCGTATTTTCAAAAAATTT
1 TCGTGTT-TTCAAAAATTTTCGTGTTTT--AAAAATTT
* *
22476753 TGGTG-TTTCAAAAATCTTCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTTTCGTGTTTT-AAAAATTT
* * *
22476787 TCAGTG-TTTCAAATATTTTTGTGTTTTCAAAAA-CT
1 TC-GTGTTTTCAAAAATTTTCGTGTTTT-AAAAATTT
* ***
22476822 CCAGTGATTTT-AAAAAAAATCGT-TTTCTAAAAAATTT
1 TC-GTG-TTTTCAAAAATTTTCGTGTTT-T-AAAAATTT
22476859 TCGTG-TTTCAAAAATTTTCGTGTTTTAAAAATTT
1 TCGTGTTTTCAAAAATTTTCGTGTTTTAAAAATTT
* * *
22476893 TCGTGTTTTTAAAAATTCTCGTATTTTAAA
1 TCGTGTTTTCAAAAATTTTCGTGTTTTAAA
22476923 TTTTTTTTAA
Statistics
Matches: 275, Mismatches: 57, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
34 57 0.21
35 85 0.31
36 62 0.23
37 6 0.02
38 53 0.19
39 7 0.03
40 5 0.02
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (35 bp):
TCGTGTTTTCAAAAATTTTCGTGTTTTAAAAATTT
Found at i:22485753 original size:119 final size:118
Alignment explanation
Indices: 22485630--22485851 Score: 304
Period size: 119 Copynumber: 1.9 Consensus size: 118
22485620 ATTTTTTAAA
* * * *
22485630 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTT-AGTTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTT-
** ** *
22485693 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTTTTTC
65 T-TTAAAAATCAACTCATATTGCGAGAAGTGAGTT-AGCCTTTTAATTTTTTTTTC
**
22485749 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
22485814 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAGCCT
66 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAGCCT
22485852 CGGGGCACGC
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
118 5 0.06
119 64 0.71
120 17 0.19
121 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (118 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAATTTT
TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAGCCTTTTAATTTTTTTTTC
Found at i:22485896 original size:68 final size:68
Alignment explanation
Indices: 22485742--22485919 Score: 191
Period size: 68 Copynumber: 2.6 Consensus size: 68
22485732 CTTTTAATTT
* * * **
22485742 TTTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
1 TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCCGAGGTATTTTT
22485807 AAA
66 AAA
** *
22485810 TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTT-AGCCTCGGGGCACGCCGAGGTATTTTT
1 TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCCGAGGTATTTTT
*
22485874 -AG
66 AAA
** ** *
22485876 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGA-TTAAGCCT
1 TTT-T-TTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
22485920 TTTAATTTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
66 4 0.04
67 25 0.27
68 65 0.69
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (68 bp):
TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCCGAGGTATTTTT
AAA
Found at i:22486039 original size:120 final size:119
Alignment explanation
Indices: 22485811--22486039 Score: 275
Period size: 120 Copynumber: 1.9 Consensus size: 119
22485801 ATTTTTAAAT
* ** * *
22485811 TTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTAGCCTCGGGGCACGCCGAGGTATTTTTAG
1 TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTAGCCTCAAGACACGCCGA-GTATTTTTAA
* ** *
22485876 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGATTAAGCCTTTTAATTTTTG
65 TTTATGTTTAAAATCAACTCATATTGCGAGAAGTGATTAAGCCTTTTAATTTTTG
* **
22485931 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-TATTTTTAA
1 TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTT-AGCCTCAAGACACGCCGAGTATTTTT-A
*
22485995 ATTT-T-TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
64 ATTTATGTTT-AAAATCAACTCATATTGCGAGAAGTGA-TTAAGCCT
22486040 CGGGCACGCC
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 31 0.34
120 45 0.49
121 13 0.14
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (119 bp):
TTTTTAAAAATCAACTCATATTGCGAGAAATGAGTTAGCCTCAAGACACGCCGAGTATTTTTAAT
TTATGTTTAAAATCAACTCATATTGCGAGAAGTGATTAAGCCTTTTAATTTTTG
Found at i:22486060 original size:68 final size:65
Alignment explanation
Indices: 22485931--22486107 Score: 185
Period size: 67 Copynumber: 2.6 Consensus size: 65
22485921 TTAATTTTTG
* * **
22485931 TTTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGATATTTTTAAA
1 TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGATATTTTT-AA
22485996 T
65 T
* *
22485997 TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTT
1 TTTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGA--TATTTTT
*
22486061 AGT
63 AAT
* ** * *
22486064 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TT-T-TTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
22486108 TTTAATTTTG
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
66 12 0.13
67 40 0.43
68 39 0.41
69 3 0.03
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (65 bp):
TTTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCCGATATTTTTAAT
Found at i:22486106 original size:188 final size:190
Alignment explanation
Indices: 22485179--22486224 Score: 1747
Period size: 187 Copynumber: 5.5 Consensus size: 190
22485169 CTTTCCAAGG
22485179 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAAA-TTT
22485244 TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
64 TTTT--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTT
22485309 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
127 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
22485373 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAAATTTT
*
22485438 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
65 TT-TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
22485503 TTTATGTTTTAAATTGACTC--ATT--GAGAGGTGAGTTAAGCC-TTTAATTTTTGTTTTTC
129 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
22485560 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAAATTTT
*
22485625 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAG
65 TT-TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
22485689 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA-TTTT-TTTTTC
129 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
22485749 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAAATTTT
22485813 TTTAAAAATCAACTCATATTGCGAGAAGTGAGTT-AGCCTCGGGGCACGCCGAGGTATTTTTAGT
65 TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGT
22485877 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGA-TTAAGCCTTTTAATTTTTGTTTTTC
130 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
22485937 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-TATTTTTAAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGTATTTTTAAATTTTT
22486001 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTTAGTT
66 TTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTT
22486065 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA-TTTTGTTTTTC
131 TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* * * *
22486124 AAAAATCAACTCATATTGCGAG--ATGAGTTGAGCCTC--GGCACGCTGAGGTATTTTTTAGTTT
1 -AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GTATTTTTAAATTT
** *
22486185 ATGTTT--AAATTGACTCATATTGCGAGAGGTGAGTT-AGCCT
64 -T-TTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
22486225 TTTTAATTTT
Statistics
Matches: 826, Mismatches: 9, Indels: 43
0.94 0.01 0.05
Matches are distributed among these distances:
184 8 0.01
185 5 0.01
186 122 0.15
187 324 0.39
188 123 0.15
189 67 0.08
190 24 0.03
191 5 0.01
192 81 0.10
193 6 0.01
194 61 0.07
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (190 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGTATTTTTAAATTTTT
TTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTT
TATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:22486133 original size:121 final size:121
Alignment explanation
Indices: 22485997--22486313 Score: 500
Period size: 119 Copynumber: 2.6 Consensus size: 121
22485987 ATTTTTAAAT
* *
22485997 TTTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCCGAGGTATTTTTA
1 TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGCACGCTGAGGTATTTTTA
22486062 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC-TTTTAA-TTTTG
65 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-AGCCTTTTTAATTTTTG
22486118 TTTTTCAAAAATCAACTCATATTGCGAG-A-TGAGTTGAGCCTCGGCACGCTGAGGTATTTTTTA
1 TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACGCTGAGGTA-TTTTTA
22486181 GTTTATG-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAGCCTTTTTAATTTTTG
65 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAGCCTTTTTAATTTTTG
* * *
22486237 TTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTC
1 TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC--GGCACGCTGAGGTATTTTT
*
22486302 AATTTATGTTTT
64 AGTTTATGTTTT
22486314 TTCTACTTTT
Statistics
Matches: 182, Mismatches: 6, Indels: 14
0.90 0.03 0.07
Matches are distributed among these distances:
117 4 0.02
118 51 0.28
119 58 0.32
120 1 0.01
121 40 0.22
122 11 0.06
123 17 0.09
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (121 bp):
TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCACGCTGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAGCCTTTTTAATTTTTG
Found at i:22486442 original size:82 final size:78
Alignment explanation
Indices: 22486238--22486473 Score: 291
Period size: 82 Copynumber: 2.9 Consensus size: 78
22486228 TAATTTTTGT
22486238 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGTATTTTCA
1 TTTTC-AAAATCAACTCAT-TTGCAAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGT-TTTTCA
22486303 ATTTATGTTTTTTCTAC
62 ATTTATGTTTTTTCTAC
* *
22486320 TTTTCAAAATC-ACTTA-TTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTTTTTCAATTT
1 TTTTCAAAATCAACTCATTTGCAAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTTTTTCAATTT
*
22486383 CTGCTTTACTAATTCTAC
66 ATG-TTT--T--TTCTAC
* *
22486401 TTTTC-AAATCAACTCATTTGCAAGAGGTGAGTTGAGTCTCAGGCCCACGCTGAGGTCTTTCAAT
1 TTTTCAAAATCAACTCATTTGCAAGAGGTGAGTTGAGCCTCAGG--CACGCTGAGGTTTTTCAAT
22486465 TCT-TGTTTT
64 T-TATGTTTT
22486474 AATTTCTGTT
Statistics
Matches: 137, Mismatches: 7, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
76 12 0.09
77 17 0.12
78 22 0.16
79 1 0.01
80 9 0.07
81 22 0.16
82 29 0.21
83 3 0.02
84 21 0.15
85 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (78 bp):
TTTTCAAAATCAACTCATTTGCAAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTTTTTCAATTT
ATGTTTTTTCTAC
Found at i:22486724 original size:51 final size:51
Alignment explanation
Indices: 22486582--22486777 Score: 244
Period size: 51 Copynumber: 3.8 Consensus size: 51
22486572 TCAATTTCTG
*
22486582 TTTTC-AAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTATT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTT-ATTCTA-T
*
22486634 TTTTCAAAAACCAA-TCATATTGCGAGAGGTGAGTTGAGCC-TT-TTCTAT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTATTCTAT
*
22486682 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTAAATTCT-G
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTT--ATTCTAT
*
22486736 TTTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
22486778 GGCTCACGTG
Statistics
Matches: 131, Mismatches: 4, Indels: 19
0.85 0.03 0.12
Matches are distributed among these distances:
48 6 0.05
49 4 0.03
50 8 0.06
51 64 0.49
52 7 0.05
53 30 0.23
54 8 0.06
55 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (51 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTATTCTAT
Found at i:22487077 original size:31 final size:30
Alignment explanation
Indices: 22487042--22487143 Score: 127
Period size: 31 Copynumber: 3.4 Consensus size: 30
22487032 TTAAAAAATA
*
22487042 AAATTGCATTTTGACCCCTAAACTTT-TTCCT
1 AAATTTCATTTTGACCCCTAAACTTTCTT--T
*
22487073 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * *
22487103 AAATTTCACTTAGA-CCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
22487132 AAATTTCATTTT
1 AAATTTCATTTT
22487144 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 23 0.37
30 13 0.21
31 24 0.39
32 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:22487108 original size:30 final size:29
Alignment explanation
Indices: 22487042--22487158 Score: 128
Period size: 29 Copynumber: 3.9 Consensus size: 29
22487032 TTAAAAAATA
*
22487042 AAATTGCATTTTGACCCCTAAACTTT-TTCCT
1 AAATTTCATTTTGA-CCCTAAACTTTCTT--T
22487073 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
22487103 AAATTTCACTTAGACCCTAAACTTTCATT
1 AAATTTCATTTTGACCCTAAACTTTCTTT
* * *
22487132 AAATTTCATTTTAATCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
22487159 AAAATTACAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
29 32 0.43
30 19 0.26
31 21 0.28
32 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:22504693 original size:23 final size:23
Alignment explanation
Indices: 22504666--22504762 Score: 133
Period size: 23 Copynumber: 4.2 Consensus size: 23
22504656 CAACTCTTTG
22504666 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
22504689 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
* * *
22504712 AATGCACCACA-AAAGATGCCACA
1 AAGGCATCACAGAATG-TGCCACA
* *
22504735 AAGGCATCACAGAATATGCCACG
1 AAGGCATCACAGAATGTGCCACA
22504758 AAGGC
1 AAGGC
22504763 TTTCCAGAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 59 0.92
24 2 0.03
ACGTcount: A:0.41, C:0.27, G:0.21, T:0.11
Consensus pattern (23 bp):
AAGGCATCACAGAATGTGCCACA
Found at i:22507657 original size:45 final size:46
Alignment explanation
Indices: 22507607--22507708 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 46
22507597 AGTGTGCTCT
22507607 CTGATATGAAATGTGTAAGA-CATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
22507652 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
22507698 CTGATATGAAA
1 CTGATATGAAA
22507709 ACATGGCAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 20 0.36
46 35 0.64
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:22507715 original size:21 final size:21
Alignment explanation
Indices: 22507689--22507729 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22507679 TGAAAGATAC
*
22507689 CATGGCAGCCTGATATGAAAA
1 CATGGCAACCTGATATGAAAA
22507710 CATGGCAACCTGATATGAAA
1 CATGGCAACCTGATATGAAA
22507730 TGTTAAGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
CATGGCAACCTGATATGAAAA
Found at i:22507760 original size:44 final size:46
Alignment explanation
Indices: 22507710--22507798 Score: 164
Period size: 44 Copynumber: 2.0 Consensus size: 46
22507700 GATATGAAAA
22507710 CATGGCAACCTGATATGAAATGT-TAAGACCAT-GTTGAAAGATAC
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
22507754 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATA
22507799 AAGACACTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 23 0.53
45 9 0.21
46 11 0.26
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (46 bp):
CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATAC
Found at i:22507766 original size:65 final size:67
Alignment explanation
Indices: 22507643--22507773 Score: 239
Period size: 65 Copynumber: 2.0 Consensus size: 67
22507633 TGAAAGATAC
*
22507643 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAA
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
22507708 AA
66 AA
22507710 CATGGCAACCTGATATGAAATGT-TAAGACCAT-GTTGAAAGATACCATGGCAACCTGATATGAA
1 CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
22507773 A
66 A
22507774 TGTGTAAGAC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 31 0.49
66 9 0.14
67 23 0.37
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (67 bp):
CATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAA
AA
Found at i:22526288 original size:14 final size:15
Alignment explanation
Indices: 22526266--22526342 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
22526256 CAATCAAACA
22526266 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
22526280 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
22526295 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
22526315 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
22526329 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
22526343 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:22526307 original size:20 final size:20
Alignment explanation
Indices: 22526282--22526321 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22526272 AATATTTTCC
*
22526282 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
22526302 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
22526322 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:22526327 original size:34 final size:35
Alignment explanation
Indices: 22526270--22526336 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
22526260 CAAACACCAG
*
22526270 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
22526305 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22526337 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22542831 original size:4 final size:4
Alignment explanation
Indices: 22542822--22542849 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
22542812 TATCAAATAA
22542822 TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT
22542850 ACTCTAGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:22543668 original size:24 final size:24
Alignment explanation
Indices: 22543614--22543668 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
22543604 TATTTTTTGA
*
22543614 ATATTAATTTTATTATAAAATTTT
1 ATATTTATTTTATTATAAAATTTT
* *
22543638 GTCATTTATTTT-TTATAAACTATTT
1 AT-ATTTATTTTATTATAAAAT-TTT
22543663 ATATTT
1 ATATTT
22543669 TATTAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATATTTATTTTATTATAAAATTTT
Found at i:22553427 original size:13 final size:13
Alignment explanation
Indices: 22553409--22553433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22553399 TGTTGAAAGC
22553409 AGAAAAAAAAAAA
1 AGAAAAAAAAAAA
22553422 AGAAAAAAAAAA
1 AGAAAAAAAAAA
22553434 GACTTTATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAA
Found at i:22559648 original size:2 final size:2
Alignment explanation
Indices: 22559643--22559696 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
22559633 AATATATACA
*
22559643 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
22559685 TG TG TG TG TG TG
1 TG TG TG TG TG TG
22559697 CGTTTAACAG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.02, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:22564667 original size:30 final size:32
Alignment explanation
Indices: 22564630--22564701 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
22564620 CTTTTGATTT
* *
22564630 TTATAATTATTTATATATTTTTAATTAA-A-A
1 TTATAATTATTTATACATATTTAATTAATAGA
* * *
22564660 TTTTAATTCTTTATACATATTTGATTAATAGA
1 TTATAATTATTTATACATATTTAATTAATAGA
22564692 TTATAATTAT
1 TTATAATTAT
22564702 ATAGTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
30 23 0.70
31 1 0.03
32 9 0.27
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (32 bp):
TTATAATTATTTATACATATTTAATTAATAGA
Found at i:22565832 original size:18 final size:19
Alignment explanation
Indices: 22565766--22565834 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
22565756 AGATTATAAA
*
22565766 TAATAATAAATAATAAATTT
1 TAATAA-AAATATTAAATTT
*
22565786 TAGAAAAAAATATTAAATTT
1 TA-ATAAAAATATTAAATTT
*
22565806 TAATAAAAATTTTAAATTT
1 TAATAAAAATATTAAATTT
*
22565825 TATTAAAAAT
1 TAATAAAAAT
22565835 TAGAATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 24 0.56
20 16 0.37
21 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
TAATAAAAATATTAAATTT
Found at i:22565833 original size:20 final size:20
Alignment explanation
Indices: 22565766--22565833 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
22565756 AGATTATAAA
* *
22565766 TAATAATAAATAATAAATTT
1 TAATAAAAAATATTAAATTT
22565786 TAGA-AAAAAATATTAAATTT
1 TA-ATAAAAAATATTAAATTT
*
22565806 TAAT-AAAAATTTTAAATTT
1 TAATAAAAAATATTAAATTT
*
22565825 TATTAAAAA
1 TAATAAAAA
22565834 TTAGAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 18 0.44
20 22 0.54
21 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
TAATAAAAAATATTAAATTT
Found at i:22565841 original size:18 final size:17
Alignment explanation
Indices: 22565769--22565843 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 17
22565759 TTATAAATAA
22565769 TAATAAATAA-TAAATTT
1 TAATAAA-AATTAAATTT
*
22565786 TAGAAAAAAATATTAAATTT
1 T--AATAAAA-ATTAAATTT
22565806 TAATAAAAATTTTAAATTT
1 TAATAAAAA--TTAAATTT
*
22565825 TATTAAAAATTAGAATTT
1 TAATAAAAATTA-AATTT
22565843 T
1 T
22565844 TTTTACAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.27
19 22 0.46
20 8 0.17
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAATAAAAATTAAATTT
Found at i:22566126 original size:17 final size:17
Alignment explanation
Indices: 22566104--22566153 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
22566094 ACTTTATAAA
22566104 ATTTTATAATTGTTTAT
1 ATTTTATAATTGTTTAT
22566121 ATTTTATTACTATT-TTTAT
1 ATTTTA-TA--ATTGTTTAT
*
22566140 ATTTT-TAATAGTTT
1 ATTTTATAATTGTTT
22566154 TTAATAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
15 2 0.07
16 3 0.11
17 8 0.29
18 2 0.07
19 10 0.36
20 3 0.11
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (17 bp):
ATTTTATAATTGTTTAT
Found at i:22566690 original size:22 final size:22
Alignment explanation
Indices: 22566647--22566690 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22566637 TGATTATGAA
* *
22566647 GATTTATTTCATGTTTCTATTT
1 GATTTATTTCATGTATCAATTT
22566669 GATTTATTT-ATGTAATCAATTT
1 GATTTATTTCATGT-ATCAATTT
22566691 TCCATCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (22 bp):
GATTTATTTCATGTATCAATTT
Found at i:22568513 original size:19 final size:17
Alignment explanation
Indices: 22568481--22568515 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
22568471 TTAAGATTGA
22568481 ATTTAAATACTTTTAAT
1 ATTTAAATACTTTTAAT
22568498 ATTTAGAATCACTTTTAA
1 ATTTA-AAT-ACTTTTAA
22568516 ATTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTAAATACTTTTAAT
Found at i:22577516 original size:34 final size:33
Alignment explanation
Indices: 22577465--22577532 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 33
22577455 ATAATTAATA
22577465 ATAAATATTATGTAATTTAG-TTA-TATTTAGT
1 ATAAATATTATGTAATTTAGTTTATTATTTAGT
22577496 ATAAATAATTTATAGTAATTTAGTTTATTATTTAGT
1 ATAAAT-A-TTAT-GTAATTTAGTTTATTATTTAGT
22577532 A
1 A
22577533 GTTCAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 1 0.03
33 4 0.12
34 9 0.28
35 3 0.09
36 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (33 bp):
ATAAATATTATGTAATTTAGTTTATTATTTAGT
Found at i:22577885 original size:23 final size:24
Alignment explanation
Indices: 22577841--22577886 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
22577831 ATATATTAAA
22577841 CATTAAATAATTTCTTAAAGAAAG
1 CATTAAATAATTTCTTAAAGAAAG
*
22577865 CATT-AATTATTT-TTAATAGAAA
1 CATTAAATAATTTCTTAA-AGAAA
22577887 TTATAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (24 bp):
CATTAAATAATTTCTTAAAGAAAG
Found at i:22588296 original size:15 final size:15
Alignment explanation
Indices: 22588276--22588311 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
22588266 GAGCAGGGGA
*
22588276 AAGAAAGAAGGAAGG
1 AAGAAAGAAAGAAGG
22588291 AAGAAAGAAAGAAGG
1 AAGAAAGAAAGAAGG
22588306 AA-AAAG
1 AAGAAAG
22588312 GGAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAGAAGG
Found at i:22592954 original size:55 final size:54
Alignment explanation
Indices: 22592857--22592961 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 54
22592847 TGGTTGCCAC
22592857 GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGGCCACACGGACGTGTGTCAT
1 GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGG-CACACGGACGTGTGTCAT
*
22592912 GGCCGTGT-TTAAAAGTCAGTGTT-GTACACGGGTTGAGG-ACACGGGCGTGT
1 GGCCGTGTCTT-AAAGTCAGT-TTAGTACACGGG-T-AGGCACACGGACGTGT
22592962 CCCAAGCCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
54 2 0.04
55 37 0.82
56 3 0.07
57 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.26
Consensus pattern (54 bp):
GGCCGTGTCTTAAAGTCAGTTTAGTACACGGGTAGGCACACGGACGTGTGTCAT
Found at i:22609513 original size:53 final size:53
Alignment explanation
Indices: 22609443--22609582 Score: 192
Period size: 53 Copynumber: 2.6 Consensus size: 53
22609433 CACATATCAT
* * *
22609443 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * * *
22609496 ACCTATGCCATAGCCCAGCTATGGTCTTATACAGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
22609549 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
22609583 GCGCACTTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 75 0.99
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:22611549 original size:14 final size:14
Alignment explanation
Indices: 22611530--22611557 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22611520 AATCAACTCC
22611530 TTGAAAGAATATAT
1 TTGAAAGAATATAT
22611544 TTGAAAGAATATAT
1 TTGAAAGAATATAT
22611558 AAAGAATGTT
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:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TTGAAAGAATATAT
Found at i:22615105 original size:23 final size:23
Alignment explanation
Indices: 22615077--22615156 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
22615067 AAAATATGAT
22615077 ATGAAAAATAACATGAATGTAAC
1 ATGAAAAATAACATGAATGTAAC
* ** *
22615100 ATGAAAAATAATACAAATATAAAC
1 ATGAAAAATAACATGAATGT-AAC
*
22615124 ATGATACGAAAAAAACATGAATGTAAC
1 ATG--A--AAAATAACATGAATGTAAC
22615151 ATGAAA
1 ATGAAA
22615157 TACAATAACA
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
23 18 0.42
24 6 0.14
25 1 0.02
26 1 0.02
27 6 0.14
28 11 0.26
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (23 bp):
ATGAAAAATAACATGAATGTAAC
Found at i:22617714 original size:158 final size:158
Alignment explanation
Indices: 22617458--22617812 Score: 514
Period size: 158 Copynumber: 2.2 Consensus size: 158
22617448 ATTTGGCCTG
** * * *
22617458 CTAACACTAATTTCGGATCAAGATTGCTAACACTAGCTTGGTTTGATGTTGCTAACACTAGCTTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
* ** * *
22617523 AGAGAATCTGGAACATATGTTGGATCTCAAGCCATCAAGTTAATTCCTGATCACAACACCCATTT
66 AAAGAATCTACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTT
*
22617588 ATTCATACAGACTGATATACTTGAGCCG
131 ATTCATACAGACTGATATACTTGAGCCA
**
22617616 CTAACTTTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
* * *
22617681 AAAGAAT-TCACAACATATGTTGGATCTGAAGCCATCAAATTAATTCCTAATTACAGCACCCATT
66 AAAGAATCT-ACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATT
* *
22617745 TATTCATACAGACTGATATACTTGGGCTA
130 TATTCATACAGACTGATATACTTGAGCCA
* *
22617774 CTAACACTAGCTTCATATCAATGTTGCTAACACTAGCTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTT
22617813 TAAAGAATCC
Statistics
Matches: 174, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 1 0.01
158 173 0.99
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (158 bp):
CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
AAAGAATCTACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTT
ATTCATACAGACTGATATACTTGAGCCA
Found at i:22618088 original size:35 final size:33
Alignment explanation
Indices: 22618027--22618106 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 33
22618017 ATGCCCATCC
22618027 ATATTATTT-TTTAAATATTTAAAAAATTATT-T
1 ATATTATTTATTTAAATATTTAAAAAATT-TTAT
*
22618059 ATATTATATTATTTTAATATTTAATAAAATTTTAT
1 ATATTAT-TTATTTAAATATTTAA-AAAATTTTAT
22618094 ATATT-TTTATTTA
1 ATATTATTTATTTA
22618107 TTGAAAGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
33 8 0.19
34 15 0.36
35 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTATTTATTTAAATATTTAAAAAATTTTAT
Found at i:22636165 original size:27 final size:27
Alignment explanation
Indices: 22636135--22636191 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
22636125 TCTTATAAAA
*
22636135 AAATATTTAAAATGAAGAAA-ATTGTAC
1 AAATATTTAAAAT-AAAAAACATTGTAC
22636162 AAATATTTAAAATAAAAAACATTGTAC
1 AAATATTTAAAATAAAAAACATTGTAC
22636189 AAA
1 AAA
22636192 GGCTATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATATTTAAAATAAAAAACATTGTAC
Found at i:22638601 original size:12 final size:12
Alignment explanation
Indices: 22638584--22638610 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22638574 ACAGTTGAGC
22638584 AGATGTTCAACG
1 AGATGTTCAACG
22638596 AGATGTTCAACG
1 AGATGTTCAACG
22638608 AGA
1 AGA
22638611 ACTTGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (12 bp):
AGATGTTCAACG
Done.