Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 172 of 175
Found at i:51748545 original size:21 final size:21
Alignment explanation
Indices: 51748513--51748553 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51748503 AGGCTCGAGG
51748513 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
51748534 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
51748554 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:51755830 original size:27 final size:26
Alignment explanation
Indices: 51755779--51755831 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
51755769 CTCTCTCTTT
*
51755779 TTTCTCTTTATTTTCCATTATCTTCTG
1 TTTCTCTTTATTTTCCA-TACCTTCTG
51755806 TTTCTCCTTCTATTTTCC-TACCTTCT
1 TTTCT-CTT-TATTTTCCATACCTTCT
51755832 CCATGTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 12 0.52
28 3 0.13
29 8 0.35
ACGTcount: A:0.09, C:0.28, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTCTCTTTATTTTCCATACCTTCTG
Found at i:51760991 original size:44 final size:46
Alignment explanation
Indices: 51760926--51761023 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 46
51760916 TTTATGAGAT
* * *
51760926 TATATGTTCATGGTAAAAATAAG-AAACTAATGCAACATTTCGATA
1 TATATGTTCATAGTAAAAATAAGAAAACTAATGCAACATTTCAACA
51760971 TATATGTTCA-AGTAAAAATAAGATCAAACTAATGCAACATTTCAACA
1 TATATGTTCATAGTAAAAATAAGA--AAACTAATGCAACATTTCAACA
51761018 TATATG
1 TATATG
51761024 ATACATTCTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 11 0.23
45 10 0.21
47 26 0.55
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.31
Consensus pattern (46 bp):
TATATGTTCATAGTAAAAATAAGAAAACTAATGCAACATTTCAACA
Found at i:51766078 original size:55 final size:55
Alignment explanation
Indices: 51765994--51766222 Score: 262
Period size: 55 Copynumber: 4.2 Consensus size: 55
51765984 CTTCTTTTGG
* * * * * * *
51765994 ATCGATTATCATGTTGGAATAGTGCTTCTTTTGAGTCAATTCTTTATATGTTTAA
1 ATCGATTGTCATGTTGGAATACTACTTCTTTTGAATCGATTCTGTATATGATTAA
* * *
51766049 ATCGATTGTCAAGTTGGAACACTACTTCTTTTGAATCGATTGTGTATATGATTAA
1 ATCGATTGTCATGTTGGAATACTACTTCTTTTGAATCGATTCTGTATATGATTAA
* * * * * *
51766104 ATTGATTGTTATGTTGGAATACTGCTTCTTTTTAATTGATTGTGTATATGATTAA
1 ATCGATTGTCATGTTGGAATACTACTTCTTTTGAATCGATTCTGTATATGATTAA
* * * *
51766159 ATCGATTATTATGTTGGAATATTACTTCTTTTGAATCGATTGCT-TATATGTTTAA
1 ATCGATTGTCATGTTGGAATACTACTTCTTTTGAATCGATT-CTGTATATGATTAA
51766214 ATCGATTGT
1 ATCGATTGT
51766223 TACATAACAC
Statistics
Matches: 147, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
55 146 0.99
56 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (55 bp):
ATCGATTGTCATGTTGGAATACTACTTCTTTTGAATCGATTCTGTATATGATTAA
Found at i:51766197 original size:110 final size:110
Alignment explanation
Indices: 51765994--51766224 Score: 293
Period size: 110 Copynumber: 2.1 Consensus size: 110
51765984 CTTCTTTTGG
* * * * * * *
51765994 ATCGATTATCATGTTGGAATAGTGCTTCTTTTGAGTCAATTCTTTATATGTTTAAATCGATTGTC
1 ATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCAATTCTGTATATGATTAAATCGATTATC
51766059 AAGTTGGAACACTACTTCTTTTGAATCGATTG-TGTATATGATTAA
66 AAGTTGGAACACTACTTCTTTTGAATCGATTGCT-TATATGATTAA
* * ** * *
51766104 ATTGATTGTTATGTTGGAATACTGCTTCTTTTTAATTGATTGTGTATATGATTAAATCGATTATT
1 ATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCAATTCTGTATATGATTAAATCGATTATC
* * * *
51766169 ATGTTGGAATATTACTTCTTTTGAATCGATTGCTTATATGTTTAA
66 AAGTTGGAACACTACTTCTTTTGAATCGATTGCTTATATGATTAA
51766214 ATCGATTGTTA
1 ATCGATTGTTA
51766225 CATAACACAT
Statistics
Matches: 102, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
110 101 0.99
111 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (110 bp):
ATCGATTGTTATGTTGGAATACTGCTTCTTTTGAATCAATTCTGTATATGATTAAATCGATTATC
AAGTTGGAACACTACTTCTTTTGAATCGATTGCTTATATGATTAA
Found at i:51767313 original size:28 final size:29
Alignment explanation
Indices: 51767269--51767325 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
51767259 TGTTAATATT
*
51767269 CATTTGGTCCTTTATCAATACTTGCACAA
1 CATTTGGTCCCTTATCAATACTTGCACAA
51767298 CATTT-GTCCCTTATCAATACTTGCACAA
1 CATTTGGTCCCTTATCAATACTTGCACAA
51767326 AAATAACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (29 bp):
CATTTGGTCCCTTATCAATACTTGCACAA
Found at i:51767504 original size:55 final size:55
Alignment explanation
Indices: 51767440--51767579 Score: 201
Period size: 55 Copynumber: 2.5 Consensus size: 55
51767430 ACTACTTTTT
* *
51767440 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGGTTGTTGTGTTGGAATACT-
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
* * * *
51767494 GTTGCTTTTGAATCCATTGTTTATATGTTCAAATTGATTGTTATGTTGGAATACTA
1 CTT-CTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
*
51767550 CTTCTTTTGAATCGATTATTTATATGTTTA
1 CTTCTTTTGAATCGATTGTTTATATGTTTA
51767580 GATCATTTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
54 2 0.03
55 70 0.95
56 2 0.03
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (55 bp):
CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGTTGGAATACTA
Found at i:51768342 original size:20 final size:20
Alignment explanation
Indices: 51768317--51768366 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
51768307 TGGCTTAAAA
51768317 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
51768337 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
51768354 GTGGTAGTGGATT
1 TTGGTAGTGGATT
51768367 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:51772979 original size:20 final size:20
Alignment explanation
Indices: 51772954--51773003 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
51772944 TGGCTTAAAA
51772954 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
51772974 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
51772991 GTGGTAGTGGATT
1 TTGGTAGTGGATT
51773004 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:51774026 original size:21 final size:21
Alignment explanation
Indices: 51774001--51774058 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
51773991 TAAAAGTTTA
* *
51774001 ATAAATAAAATATATAAATTAT
1 ATAAATAAAAT-TAAAAATAAT
*
51774023 -TAAATAGAATTAAAAATAAT
1 ATAAATAAAATTAAAAATAAT
*
51774043 ATAAAT-AATTTAAAAA
1 ATAAATAAAATTAAAAA
51774059 AAAACAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAATAAAATTAAAAATAAT
Found at i:51774840 original size:76 final size:74
Alignment explanation
Indices: 51774754--51774947 Score: 298
Period size: 74 Copynumber: 2.6 Consensus size: 74
51774744 ACAAACACAC
*
51774754 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGGGATTCAAACACAAAACCATCACACA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACAC--AACCATCACACA
*
51774819 AACACATATTG
64 AACACATACTG
* *
51774830 TCTGTATCTTCGGTTCATAAACATCCCAATAAACCATTGACATTCAAACACAACCATCACACAAA
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAACCATCACACAAA
**
51774895 TGCATACTG
66 CACATACTG
* *
51774904 GCAGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
1 TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
51774948 GTATTTCAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
74 60 0.56
76 48 0.44
ACGTcount: A:0.39, C:0.26, G:0.09, T:0.26
Consensus pattern (74 bp):
TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACAACCATCACACAAA
CACATACTG
Found at i:51775061 original size:42 final size:42
Alignment explanation
Indices: 51775000--51775136 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
51774990 CAAACTGGCT
** * *
51775000 AGCTTCAGTTGGTTTTCTTTTAACTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
51775042 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
* **
51775084 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCATCCTTCTCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
51775126 AGCTTCAGTTT
1 AGCTTCAGTTT
51775137 GTCTTTTCTA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.44
Consensus pattern (42 bp):
AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
Found at i:51800175 original size:55 final size:55
Alignment explanation
Indices: 51800091--51800305 Score: 261
Period size: 55 Copynumber: 3.9 Consensus size: 55
51800081 CTTCTTTTGG
* * * * * * *
51800091 ATCGATTATCATATTGGAATAGTACTTCTTTTGAGTCAATTCTTTATATGTTTAA
1 ATCGATTGTCATATTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAA
*
51800146 ATCGATTGTCA-AGTTGGAACACTACTTCTTTTGAATCGATTGTGTATATGATTAA
1 ATCGATTGTCATA-TTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAA
* * * * *
51800201 ATTGATTGTCATGTTGGAATACTGCTTCTTTTTAATTGATTGTGTATATGATTAA
1 ATCGATTGTCATATTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAA
* * * *
51800256 ATCAATTGTTATATTGGAATACTACTTCTTTTGAATCTATTGTTTATATG
1 ATCGATTGTCATATTGGAATACTACTTCTTTTGAATCGATTGTGTATATG
51800306 TTTAGATCAA
Statistics
Matches: 135, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
54 1 0.01
55 134 0.99
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (55 bp):
ATCGATTGTCATATTGGAATACTACTTCTTTTGAATCGATTGTGTATATGATTAA
Found at i:51801516 original size:56 final size:56
Alignment explanation
Indices: 51801449--51801560 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
51801439 CTTATGAGTA
51801449 AAACTTTTTTATTAGTTTGAAGAGTTGTGAGTTTAATACTCTCTCTGAATCGATTC
1 AAACTTTTTTATTAGTTTGAAGAGTTGTGAGTTTAATACTCTCTCTGAATCGATTC
51801505 AAACTTTTTTATTAGTTTGAAGAGTTGTGAGTTTAATACTCTCTCTGAATCGATTC
1 AAACTTTTTTATTAGTTTGAAGAGTTGTGAGTTTAATACTCTCTCTGAATCGATTC
51801561 TTAATCAATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (56 bp):
AAACTTTTTTATTAGTTTGAAGAGTTGTGAGTTTAATACTCTCTCTGAATCGATTC
Found at i:51802090 original size:76 final size:74
Alignment explanation
Indices: 51801979--51802187 Score: 265
Period size: 74 Copynumber: 2.8 Consensus size: 74
51801969 CCAGAAAAGT
* * *
51801979 CAAACACAAACACAGTCTGTATCTTCAGTTGATAAACATCCCAATAAACCATTGGGATTCAAACA
1 CAAACACATAC-CA-TCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACA
51802044 CAAAACCATCACA
64 C--AACCATCACA
** * *
51802057 CAAACACATATTATCTGCATCTTCAGTTCATAAACATCCCAATAAACCATTGACATTCAAACACA
1 CAAACACATACCATCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACA
51802122 ACCATCACA
66 ACCATCACA
** ** * *
51802131 CAAATGCATACCGGCAGTATCTTCAGTTTATAAACATCCCAATAAACCATTGAGATT
1 CAAACACATACCATCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATT
51802188 GTATTTCAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 57 0.50
76 47 0.41
77 1 0.01
78 9 0.08
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (74 bp):
CAAACACATACCATCTGTATCTTCAGTTCATAAACATCCCAATAAACCATTGAGATTCAAACACA
ACCATCACA
Found at i:51802301 original size:42 final size:42
Alignment explanation
Indices: 51802240--51802376 Score: 211
Period size: 42 Copynumber: 3.3 Consensus size: 42
51802230 CAACCTGGCT
** * *
51802240 AGCTTCAGTTGGTTTTCTTTTAACTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
51802282 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
* **
51802324 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCATCCTTCTCC
1 AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
51802366 AGCTTCAGTTT
1 AGCTTCAGTTT
51802377 GTCTTTTCTA
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.15, C:0.28, G:0.14, T:0.44
Consensus pattern (42 bp):
AGCTTCAGTTTCTTCTCTTTTAAGTCAGCTTCGTCCTGATCC
Found at i:51809406 original size:20 final size:21
Alignment explanation
Indices: 51809368--51809409 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
51809358 AATTCTAAAA
51809368 AAATTATCAAAAAATTTATTT
1 AAATTATCAAAAAATTTATTT
*
51809389 AAATTTTCAAAAAA-TTATTT
1 AAATTATCAAAAAATTTATTT
51809409 A
1 A
51809410 TTTTCTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
AAATTATCAAAAAATTTATTT
Found at i:51824373 original size:58 final size:58
Alignment explanation
Indices: 51824283--51824399 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
51824273 GGAAAAAAGG
51824283 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
1 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
51824341 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
1 AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
51824399 A
1 A
51824400 AAAAGAGAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (58 bp):
AGTCAGAAATTGCAGGATTTGCATGTTAAACAGTATACTTTACCCTAAAACAAATTAT
Found at i:51828246 original size:4 final size:4
Alignment explanation
Indices: 51828237--51828263 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
51828227 CAATCATGTT
51828237 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
51828264 TTACTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:51835077 original size:34 final size:35
Alignment explanation
Indices: 51835002--51835088 Score: 97
Period size: 34 Copynumber: 2.5 Consensus size: 35
51834992 ACACTGCATG
* * * *
51835002 ACTGTATACTGATACTATGATGGGCTAAGATCCTA
1 ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
* *
51835037 AC-GCATACTGATACTGTGATTGGCTAAG-GCCCC
1 ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
51835070 ACTGCATACTTGATACTGT
1 ACTGCATAC-TGATACTGT
51835089 ACTGAGGTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
33 4 0.09
34 29 0.66
35 11 0.25
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (35 bp):
ACTGCATACTGATACTGTGATGGGCTAAGAGCCCA
Found at i:51839907 original size:42 final size:42
Alignment explanation
Indices: 51839860--51839993 Score: 189
Period size: 42 Copynumber: 3.2 Consensus size: 42
51839850 AGGGAAGGCG
* *
51839860 AACTGAAGGTGGAGAAGGGAGAAGCTGATTTAAAAGAAAACA
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
*
51839902 AACTGAAGGTGGAGAAGGGTGAAGCTGAGTTAAAAGAAAACC
1 AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
* * *
51839944 AACTGAAGCTGGAGAA-GGACAAAGCTGAGTTAGAAGAAAACC
1 AACTGAAGGTGGAGAAGGGA-GAAGCTGAGTTAAAAGAAAACC
*
51839986 TACTGAAG
1 AACTGAAG
51839994 CTAGCCAGGT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 2 0.02
42 81 0.98
ACGTcount: A:0.45, C:0.10, G:0.31, T:0.14
Consensus pattern (42 bp):
AACTGAAGGTGGAGAAGGGAGAAGCTGAGTTAAAAGAAAACC
Found at i:51840159 original size:76 final size:76
Alignment explanation
Indices: 51840050--51840378 Score: 604
Period size: 76 Copynumber: 4.3 Consensus size: 76
51840040 TGAAATACAT
* *
51840050 TCTCAATGGTTTATTGAGGATGTTGATGAACTGAAGATACAAACAGTATGTGTTTGTGTGATGGT
1 TCTCAATGGTTTATTG-GGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGT
51840115 TTTGTGTTTGAA
65 TTTGTGTTTGAA
51840127 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
*
51840192 TTGTGTTTGGA
66 TTGTGTTTGAA
*
51840203 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGCGTTTGTGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
51840268 TTGTGTTTGAA
66 TTGTGTTTGAA
*
51840279 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTATGTGATGGTT
1 TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
51840344 TTGTGTTTGAA
66 TTGTGTTTGAA
51840355 TCTCAATGGTTTATTGGGATGTTT
1 TCTCAATGGTTTATTGGGATGTTT
51840379 TTTAAATGTT
Statistics
Matches: 245, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
76 229 0.93
77 16 0.07
ACGTcount: A:0.24, C:0.07, G:0.27, T:0.42
Consensus pattern (76 bp):
TCTCAATGGTTTATTGGGATGTTTATGAACTGAAGATACAGACAGTATGTGTTTGTGTGATGGTT
TTGTGTTTGAA
Found at i:51847791 original size:36 final size:36
Alignment explanation
Indices: 51847749--51847822 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
51847739 ATCATAGCCC
51847749 TGCCACTTGAGTGACCACATGAGCAAGCCTATCTTT
1 TGCCACTTGAGTGACCACATGAGCAAGCCTATCTTT
51847785 TGCCACTTGAGTGACCACATGAGCAAGCCTATCTTT
1 TGCCACTTGAGTGACCACATGAGCAAGCCTATCTTT
51847821 TG
1 TG
51847823 TATTGTTGGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (36 bp):
TGCCACTTGAGTGACCACATGAGCAAGCCTATCTTT
Found at i:51848669 original size:30 final size:30
Alignment explanation
Indices: 51848635--51848697 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
51848625 ACTTATTTTA
*
51848635 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
51848665 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
51848695 TTG
1 TTG
51848698 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:51850247 original size:9 final size:9
Alignment explanation
Indices: 51850233--51850276 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
51850223 TTTTATGTTT
*
51850233 ATTTTTTGA
1 ATTTTTTTA
*
51850242 ATTTTTATA
1 ATTTTTTTA
51850251 ATTTTTTTATA
1 A-TTTTTT-TA
51850262 ATTTTTTTA
1 ATTTTTTTA
51850271 ATTTTT
1 ATTTTT
51850277 AAATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 16 0.53
10 11 0.37
11 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:51850259 original size:11 final size:11
Alignment explanation
Indices: 51850243--51850270 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
51850233 ATTTTTTGAA
51850243 TTTTTATAATT
1 TTTTTATAATT
51850254 TTTTTATAATT
1 TTTTTATAATT
51850265 TTTTTA
1 TTTTTA
51850271 ATTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:51850285 original size:20 final size:20
Alignment explanation
Indices: 51850241--51850288 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51850231 TTATTTTTTG
* **
51850241 AATTTTTATAATTTTTTTAT
1 AATTTTTTTAATTTTTAAAT
51850261 AATTTTTTTAATTTTTAAAT
1 AATTTTTTTAATTTTTAAAT
*
51850281 TATTTTTT
1 AATTTTTT
51850289 GACGTGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
AATTTTTTTAATTTTTAAAT
Found at i:51854157 original size:28 final size:28
Alignment explanation
Indices: 51854068--51854158 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 28
51854058 TATACGAGAT
51854068 TTACATAAAGTGAGACTTGAACAT-AAA
1 TTACATAAAGTGAGACTTGAACATAAAA
* *
51854095 TCATA-ATAAATTTAGA-TTGAGAATCTATACAAAA
1 T--TACATAAAGTGAGACTT--GAA-C-AT--AAAA
51854129 TTACATAAAGTGAGACTTGAACATAAAA
1 TTACATAAAGTGAGACTTGAACATAAAA
51854157 TT
1 TT
51854159 TCAAAGTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 21
0.66 0.05 0.28
Matches are distributed among these distances:
27 3 0.06
28 15 0.31
29 5 0.10
30 3 0.06
31 3 0.06
32 5 0.10
33 9 0.18
34 6 0.12
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (28 bp):
TTACATAAAGTGAGACTTGAACATAAAA
Found at i:51861698 original size:3 final size:3
Alignment explanation
Indices: 51861690--51861725 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
51861680 AACTAAAGGG
* *
51861690 GAT GAT GAT GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
51861726 TGGGTTTCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:51862397 original size:21 final size:22
Alignment explanation
Indices: 51862351--51862392 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
51862341 TATAAAAATC
*
51862351 TAATAAA-TTATATTCAATTGA
1 TAATAAATTTACATTCAATTGA
51862372 TAATAAATTTACATTGCAATT
1 TAATAAATTTACATT-CAATT
51862393 AAATACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATAAATTTACATTCAATTGA
Found at i:51869273 original size:14 final size:14
Alignment explanation
Indices: 51869242--51869275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51869232 ACTTCTATGT
* *
51869242 TATTATTATTTTAT
1 TATTATTATTTAAA
51869256 TATTATTATTTAAA
1 TATTATTATTTAAA
51869270 TATTAT
1 TATTAT
51869276 ATAACTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATTTAAA
Found at i:51872464 original size:33 final size:33
Alignment explanation
Indices: 51872418--51872488 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
51872408 AAATTATATG
* *
51872418 ATATTTAAATAATTTAACATAATGATACATAAA
1 ATATATAAATAATTCAACATAATGATACATAAA
*
51872451 ATATATAAATAATTCAATATAATGATACATAAA
1 ATATATAAATAATTCAACATAATGATACATAAA
51872484 ATATA
1 ATATA
51872489 ATTTAATCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (33 bp):
ATATATAAATAATTCAACATAATGATACATAAA
Found at i:51872488 original size:17 final size:17
Alignment explanation
Indices: 51872436--51872490 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
51872426 ATAATTTAAC
51872436 ATAATGATACATAAAAT
1 ATAATGATACATAAAAT
* **
51872453 AT-ATAAATA-ATTCAAT
1 ATAAT-GATACATAAAAT
51872469 ATAATGATACATAAAAT
1 ATAATGATACATAAAAT
51872486 ATAAT
1 ATAAT
51872491 TTAATCTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
16 12 0.41
17 17 0.59
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (17 bp):
ATAATGATACATAAAAT
Found at i:51879110 original size:31 final size:31
Alignment explanation
Indices: 51879053--51879123 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
51879043 TAAGTTAGAC
* *
51879053 CTTGAACTTCACAATTATTTTTATATTAGGG-
1 CTTGAACTTCACAATTATTCTCATATT-GGGA
* *
51879084 CTTGAACTTGATAATTATTCTCATATTGGGA
1 CTTGAACTTCACAATTATTCTCATATTGGGA
*
51879115 CCTGAACTT
1 CTTGAACTT
51879124 TGGGGTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (31 bp):
CTTGAACTTCACAATTATTCTCATATTGGGA
Found at i:51897901 original size:29 final size:29
Alignment explanation
Indices: 51897840--51897902 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
51897830 ATCTATGTTT
**
51897840 AGATAATTATACATAGAATGTATAAGTTT
1 AGATAATTATACATAGAATGTATAAGTAA
* *
51897869 AGATTATTATACATAGAATGTCCTAA-TAA
1 AGATAATTATACATAGAATGT-ATAAGTAA
51897898 AGATA
1 AGATA
51897903 TCAAGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (29 bp):
AGATAATTATACATAGAATGTATAAGTAA
Found at i:51899935 original size:26 final size:25
Alignment explanation
Indices: 51899901--51900061 Score: 81
Period size: 26 Copynumber: 6.5 Consensus size: 25
51899891 TATATTTTTA
51899901 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATTT-ATAATAATTATT
*
51899927 TTAAATTATATTT-T-AT-AGTATT
1 TTAAATTATATTTATAATAATTATT
* * *
51899949 ATATATTATGATTT-TAGTAAATTCA-T
1 TTAAATTAT-ATTTATAAT-AATT-ATT
* * * **
51899975 ATAAGAATATATTTAATATTAAGAATT
1 TTAA-ATTATATTT-ATAATAATTATT
*
51900002 TT--ATTA-ATTTAT-AT-ATTTTT
1 TTAAATTATATTTATAATAATTATT
*
51900022 ATTAAATTATATTTAATAATAATTATG
1 -TTAAATTATATTT-ATAATAATTATT
51900049 TTAAATTATATTT
1 TTAAATTATATTT
51900062 TATAGTATTA
Statistics
Matches: 101, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 14 0.14
23 15 0.15
24 9 0.09
25 2 0.02
26 39 0.39
27 13 0.13
28 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAAATTATATTTATAATAATTATT
Found at i:51900008 original size:18 final size:19
Alignment explanation
Indices: 51899987--51900032 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
51899977 AAGAATATAT
51899987 TTAATATTA-AGAATTTTA
1 TTAATATTATAGAATTTTA
* *
51900005 TTAAT-TTATATATTTTTA
1 TTAATATTATAGAATTTTA
51900023 TTAA-ATTATA
1 TTAATATTATA
51900033 TTTAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTAATATTATAGAATTTTA
Found at i:51900098 original size:22 final size:21
Alignment explanation
Indices: 51900049--51900100 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
51900039 AATAATTATG
*
51900049 TTAA-ATTATATTTTATAGTA
1 TTAATATTATATTTTATAATA
51900069 TTATATATTATGATTTTAGTAAT-
1 TTA-ATATTAT-ATTTTA-TAATA
51900092 TTAATATTA
1 TTAATATTA
51900101 AGAATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 11 0.41
23 9 0.33
24 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TTAATATTATATTTTATAATA
Found at i:51900111 original size:16 final size:16
Alignment explanation
Indices: 51900090--51900125 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
51900080 GATTTTAGTA
51900090 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
51900106 ATTTAATATTAAGAAT
1 ATTTAATATTAAGAAT
51900122 -TTTA
1 ATTTA
51900126 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTAATATTAAGAAT
Found at i:51900169 original size:121 final size:122
Alignment explanation
Indices: 51899882--51900174 Score: 527
Period size: 122 Copynumber: 2.4 Consensus size: 122
51899872 CAAACTTTAG
*
51899882 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
51899947 TTATATATTATGATTTTAGTAAATTCATATAAGAATATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
*
51900004 ATTAATTTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
*
51900069 TTATATATTATGATTTTAGTAATTTAATATTAAG-A-ATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTAATA-TAAGAATATATTTAATATTAAGAATTTT
51900125 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
51900175 ATATGATTAA
Statistics
Matches: 165, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
121 70 0.42
122 91 0.55
123 4 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (122 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTAATATAAGAATATATTTAATATTAAGAATTTT
Found at i:51900347 original size:39 final size:42
Alignment explanation
Indices: 51900302--51900402 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 42
51900292 TTCCATCATG
51900302 CTATTACACCTCTATTC-T-ATTCAACCAAACACATGA-TTA
1 CTATTACACCTCTATTCATAATTCAACCAAACACATGATTTA
* ** *
51900341 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-CA-TA-ATTCAACCAAACACATGATTTA
*
51900386 CCATTACACCTCTATTC
1 CTATTACACCTCTATTC
51900403 CATTAGACCT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
39 15 0.30
40 1 0.02
42 1 0.02
44 17 0.34
45 16 0.32
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.35
Consensus pattern (42 bp):
CTATTACACCTCTATTCATAATTCAACCAAACACATGATTTA
Found at i:51900370 original size:44 final size:45
Alignment explanation
Indices: 51900320--51900407 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
51900310 CCTCTATTCT
* *
51900320 ATTCAACCAAACACATGA-TTACTATTACGCCTCTATTCCATTAC
1 ATTCAACCAAACACATGATTTACCATTACACCTCTATTCCATTAC
** *
51900364 ATTCAACCAAACAGTTGATTTGCCATTACACCTCTATTCCATTA
1 ATTCAACCAAACACATGATTTACCATTACACCTCTATTCCATTA
51900408 GACCTCTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.33
Consensus pattern (45 bp):
ATTCAACCAAACACATGATTTACCATTACACCTCTATTCCATTAC
Found at i:51904137 original size:6 final size:6
Alignment explanation
Indices: 51904126--51904167 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
51904116 TTCTTTTCTG
51904126 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
51904168 ATGTGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:51913332 original size:44 final size:45
Alignment explanation
Indices: 51913277--51913382 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
51913267 TACTTAAGAG
* *
51913277 TTAGATTTAGTTTTATTTTTATTGGGTTA-GTAATTGGATAGACT
1 TTAGTTTTAGTTTTATTTTTACTGGGTTAGGTAATTGGATAGACT
* * *
51913321 TTAGTTTTAGTTTTAGTTTTGCTGGGTTAGGTAATTGGGTAGACT
1 TTAGTTTTAGTTTTATTTTTACTGGGTTAGGTAATTGGATAGACT
* *
51913366 TTTGTTTTTGTTTTATT
1 TTAGTTTTAGTTTTATT
51913383 GGGTTGGGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 25 0.47
45 28 0.53
ACGTcount: A:0.19, C:0.03, G:0.23, T:0.56
Consensus pattern (45 bp):
TTAGTTTTAGTTTTATTTTTACTGGGTTAGGTAATTGGATAGACT
Found at i:51913391 original size:44 final size:45
Alignment explanation
Indices: 51913298--51913400 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
51913288 TTTATTTTTA
**
51913298 TTGGGTTA-GTAATTGGATAGACTTTAGTTTTAGTTTTAGTTTTG
1 TTGGGTTAGGTAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
* * * *
51913342 CTGGGTTAGGTAATTGGGTAGACTTTTGTTTTTGTTTTA-TTGGG
1 TTGGGTTAGGTAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
51913386 TTGGGTT-GGATAATT
1 TTGGGTTAGG-TAATT
51913401 TTATTTATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 2 0.04
44 21 0.42
45 27 0.54
ACGTcount: A:0.17, C:0.03, G:0.29, T:0.50
Consensus pattern (45 bp):
TTGGGTTAGGTAATTGGATAGACTTTAGTTTTAGTTTTAGTTGGG
Found at i:51915342 original size:10 final size:10
Alignment explanation
Indices: 51915327--51915351 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51915317 TGTGTTGTGC
51915327 TTGTTTGGGT
1 TTGTTTGGGT
51915337 TTGTTTGGGT
1 TTGTTTGGGT
51915347 TTGTT
1 TTGTT
51915352 GTTTTAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (10 bp):
TTGTTTGGGT
Found at i:51916109 original size:25 final size:25
Alignment explanation
Indices: 51916081--51916128 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51916071 TTTTCAATAA
51916081 TTTAGAATTTAGTCCTTATATTTCT
1 TTTAGAATTTAGTCCTTATATTTCT
* * *
51916106 TTTATAATTTAGTTCTTTTATTT
1 TTTAGAATTTAGTCCTTATATTT
51916129 TTCTAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (25 bp):
TTTAGAATTTAGTCCTTATATTTCT
Found at i:51932148 original size:4 final size:4
Alignment explanation
Indices: 51932139--51932191 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
51932129 CAAACATCAT
51932139 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
51932187 CATA C
1 CATA C
51932192 TATTACATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:51943331 original size:39 final size:39
Alignment explanation
Indices: 51943277--51943355 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
51943267 GCCCAATGGC
51943277 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
1 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
51943316 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
1 TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
51943355 T
1 T
51943356 AAAGTTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (39 bp):
TTTTACTGTATGGCCAATGAACAAAGGATTAGGTGAGGA
Found at i:51953196 original size:18 final size:19
Alignment explanation
Indices: 51953146--51953196 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
51953136 AAATTTACTG
*
51953146 ATTCAAATTCATATTCAGATA
1 ATTCAAA-TCA-ATACAGATA
*
51953167 ATTCAAA-AAATACAGAT-
1 ATTCAAATCAATACAGATA
51953184 ATTCAAATCAATA
1 ATTCAAATCAATA
51953197 TCATTCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 1 0.04
21 7 0.27
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (19 bp):
ATTCAAATCAATACAGATA
Found at i:51958271 original size:13 final size:13
Alignment explanation
Indices: 51958255--51958297 Score: 70
Period size: 12 Copynumber: 3.3 Consensus size: 13
51958245 AAATATTTTC
51958255 AATAAAATTTTAA
1 AATAAAATTTTAA
51958268 AAT-AAATTTTAA
1 AATAAAATTTTAA
51958280 AATAAATATTTTAA
1 AATAAA-ATTTTAA
51958294 AATA
1 AATA
51958298 TAATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.43
13 5 0.18
14 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAAAATTTTAA
Found at i:51958309 original size:26 final size:25
Alignment explanation
Indices: 51958255--51958307 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
51958245 AAATATTTTC
**
51958255 AATAAAATTTTAAAATAAATTTTAA
1 AATAAAATTTTAAAATAAATAATAA
51958280 AATAAATATTTTAAAATATAATAATAA
1 AATAAA-ATTTTAAAATA-AATAATAA
51958307 A
1 A
51958308 TATTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 11 0.46
27 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AATAAAATTTTAAAATAAATAATAA
Found at i:51970686 original size:81 final size:80
Alignment explanation
Indices: 51970537--51970699 Score: 193
Period size: 81 Copynumber: 2.0 Consensus size: 80
51970527 TCAAATGTGA
* * * * *
51970537 AGAAAATCTTAGAAAAGTCTATATAAACCAGTCTCTGTTACAGATCATATCCGACACTCACACTT
1 AGAAAATCTTAGAAAAGTCTATATAAACCAGTCCCGGTTACAGACCATATCCAACACTCACACCT
*
51970602 GAGTCTAAGTAACAT
66 GAGTCCAAGTAACAT
* ** * *
51970617 AGAAAATCTTAGAAAAGTCT-TAACTATACTGGTCCCGGTTGCAGACCATATTCAACACTCACAC
1 AGAAAATCTTAGAAAAGTCTAT-A-TAAACCAGTCCCGGTTACAGACCATATCCAACACTCACAC
*
51970681 CTGAGTCCGAGTAACAT
64 CTGAGTCCAAGTAACAT
51970698 AG
1 AG
51970700 TAGTTGAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 1 0.01
80 21 0.30
81 47 0.68
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (80 bp):
AGAAAATCTTAGAAAAGTCTATATAAACCAGTCCCGGTTACAGACCATATCCAACACTCACACCT
GAGTCCAAGTAACAT
Found at i:51973999 original size:22 final size:22
Alignment explanation
Indices: 51973973--51974022 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
51973963 ATAAAAATTA
51973973 CAAAATAATACAAAATAATCTT
1 CAAAATAATACAAAATAATCTT
* * *
51973995 CAAAAAAATATAAAATAATTTT
1 CAAAATAATACAAAATAATCTT
*
51974017 TAAAAT
1 CAAAAT
51974023 TCAAAATATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (22 bp):
CAAAATAATACAAAATAATCTT
Found at i:51974028 original size:19 final size:19
Alignment explanation
Indices: 51974005--51974048 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
51973995 CAAAAAAATA
*
51974005 TAAAATAATTTTTAAAATTC
1 TAAAAT-ATTTATAAAATTC
51974025 -AAAATATTTATAAAATTC
1 TAAAATATTTATAAAATTC
51974043 TAAAAT
1 TAAAAT
51974049 TTATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAATATTTATAAAATTC
Found at i:51974038 original size:18 final size:18
Alignment explanation
Indices: 51974006--51974053 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
51973996 AAAAAAATAT
*
51974006 AAAATAATTTTTAAAATTC
1 AAAAT-ATTTATAAAATTC
51974025 AAAATATTTATAAAATTC
1 AAAATATTTATAAAATTC
*
51974043 TAAA-ATTTATA
1 AAAATATTTATA
51974054 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 7 0.26
18 15 0.56
19 5 0.19
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATATTTATAAAATTC
Found at i:51974084 original size:11 final size:10
Alignment explanation
Indices: 51974059--51974114 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
51974049 TTATATTTTT
51974059 TAAAAAATTA
1 TAAAAAATTA
*
51974069 TAAAAAATTC
1 TAAAAAATTA
51974079 TAAAAAAATATA
1 T-AAAAAAT-TA
*
51974091 TAAAGAATGT-
1 TAAAAAAT-TA
51974101 TAAAAAATTA
1 TAAAAAATTA
51974111 -AAAA
1 TAAAA
51974115 TTTTCTAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 5 0.13
10 17 0.45
11 14 0.37
12 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:51974084 original size:20 final size:20
Alignment explanation
Indices: 51974058--51974114 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
51974048 TTTATATTTT
51974058 TTAAAAAATTATAAAAAAT-
1 TTAAAAAATTATAAAAAATG
*
51974077 TCTAAAAAAATATATAAAGAATG
1 T-T-AAAAAAT-TATAAAAAATG
51974100 TTAAAAAATTA-AAAA
1 TTAAAAAATTATAAAA
51974115 TTTTCTAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 14 0.44
22 10 0.31
23 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
TTAAAAAATTATAAAAAATG
Found at i:51979244 original size:18 final size:18
Alignment explanation
Indices: 51979217--51979309 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
51979207 TACGACCGTT
51979217 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
51979235 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
51979253 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
51979271 TACGGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
51979289 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
51979307 TAC
1 TAC
51979310 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:51979264 original size:36 final size:36
Alignment explanation
Indices: 51979217--51979309 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
51979207 TACGACCGTT
*
51979217 TACGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACATA
51979253 TACGGTACTATTCACGTATACGGCACTATTCACATA
1 TACGGTACTATTCACGTATACGGCACTATTCACATA
*
51979289 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
51979310 AGTAGTTGGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACATA
Found at i:51991123 original size:18 final size:18
Alignment explanation
Indices: 51991096--51991134 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
51991086 CCCAACTACT
51991096 GTATACGTGAACAGTACC
1 GTATACGTGAACAGTACC
* * *
51991114 GTATATGTGAATAGTATC
1 GTATACGTGAACAGTACC
51991132 GTA
1 GTA
51991135 AACGGTCGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (18 bp):
GTATACGTGAACAGTACC
Found at i:51993800 original size:22 final size:22
Alignment explanation
Indices: 51993753--51993797 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
51993743 ATGCAATCTT
*
51993753 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
51993775 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
51993798 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:52003225 original size:3 final size:3
Alignment explanation
Indices: 52003195--52003291 Score: 83
Period size: 3 Copynumber: 32.7 Consensus size: 3
52003185 GTATAAGGAA
* * * * *
52003195 AAT AAC AAT AAT ATT AAT ACT AAC AAT AAT AGT AAT AAT AAT AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * *
52003241 -AT AAT AAT AAT AAT AGT AA- ACT AAT AAT AAT ATTT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
52003284 AAT AAT AA
1 AAT AAT AA
52003292 CATAAAATTT
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.05
3 66 0.90
4 3 0.04
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:52005092 original size:44 final size:43
Alignment explanation
Indices: 52005044--52005286 Score: 167
Period size: 44 Copynumber: 5.5 Consensus size: 43
52005034 CAATGAAGGA
52005044 AGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACTGAGAG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCATCACAACTGAGAG
* * * * **
52005088 AGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAA-TGCAG-G
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCA-TCACAACTG-AGAG
*
52005131 AAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAAAC-GAGAG
1 -AGGCAAGATC-TGTGTCTTCAACCAGCTCCATCAC-AACTGAGAG
* * * * **
52005176 AGGCAAGGTTTGTGTCTTCGACCTGCTTCGC-TGTCAA-TGTAG-G
1 AGGCAAGATCTGTGTCTTCAACCAGC-TC-CATCACAACTG-AGAG
* * *
52005219 AAGACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 -AGGCAAGATC-TGTGTCTTCAACCAGCTCCATCACAACTGAGAG
* *
52005264 AGCCAATG-TTTGTGTCTTCAACC
1 AGGCAA-GATCTGTGTCTTCAACC
52005287 TGCTTCACTG
Statistics
Matches: 150, Mismatches: 32, Indels: 35
0.69 0.15 0.16
Matches are distributed among these distances:
43 48 0.32
44 65 0.43
45 37 0.25
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTCCATCACAACTGAGAG
Found at i:52005102 original size:88 final size:88
Alignment explanation
Indices: 52004981--52005324 Score: 496
Period size: 88 Copynumber: 3.9 Consensus size: 88
52004971 TCTTTAATCT
* * * *
52004981 GCTCCA-CTACAACCGAGGGAGGCAAGG-CTTGTGTCTTTGATCTGCTTCGCTGTCAATGAAGGA
1 GCTCCATC-ACAACCGAGAGAGGCAAGGTC-TGTGTCTTCGACCTGCTTCACTGTCAATGAAGGA
*
52005044 AGGCAAGATCTGTTGTCTTCAACCA
64 AGGCAAGATCTTTTGTCTTCAACCA
* *
52005069 GCTCCATCACAACTGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGAAGGAAG
52005134 GCAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * * *
52005157 GCTCCATCACAAACGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAAG
1 GCTCCATCACAACCGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGAAGGAAG
*
52005222 ACAAGATCTTTTGTCTTCAACCA
66 GCAAGATCTTTTGTCTTCAACCA
* * * *
52005245 GCTCCATCACAACCGAGAGAGCCAATGTTTGTGTCTTCAACCTGCTTCACTGTCAAT-ACAGGAA
1 GCTCCATCACAACCGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGA-AGGAA
52005309 GGCAAGATCTTTTGTC
65 GGCAAGATCTTTTGTC
52005325 AAATTAGTGA
Statistics
Matches: 233, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 231 0.99
89 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
GCTCCATCACAACCGAGAGAGGCAAGGTCTGTGTCTTCGACCTGCTTCACTGTCAATGAAGGAAG
GCAAGATCTTTTGTCTTCAACCA
Found at i:52005293 original size:176 final size:176
Alignment explanation
Indices: 52004981--52005324 Score: 546
Period size: 176 Copynumber: 2.0 Consensus size: 176
52004971 TCTTTAATCT
* * * *
52004981 GCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCAATGAAGGAAG
1 GCTCCACTACAAACGAGAGAGGCAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
* * * *
52005046 GCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACTGAGAGAGGCAAGGTCTGTGTCTTCGACC
66 ACAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGCCAAGGTCTGTGTCTTCAACC
*
52005111 TGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCA
131 TGCTTCACTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCA
* *
52005157 GCTCCA-TCACAAACGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAA
1 GCTCCACT-ACAAACGAGAGAGGCAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAA
* * *
52005221 GACAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGCCAATGTTTGTGTCTTCAAC
65 GACAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGCCAAGGTCTGTGTCTTCAAC
52005286 CTGCTTCACTGTCAATACAGGAAGGCAAGATCTTTTGTC
130 CTGCTTCACTGTCAATACAGGAAGGCAAGATCTTTTGTC
52005325 AAATTAGTGA
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
175 1 0.01
176 152 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (176 bp):
GCTCCACTACAAACGAGAGAGGCAAGGCTTGTGTCTTCGACCTGCTTCGCTGTCAATGAAGGAAG
ACAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGCCAAGGTCTGTGTCTTCAACC
TGCTTCACTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCA
Found at i:52010450 original size:25 final size:24
Alignment explanation
Indices: 52010395--52010451 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
52010385 AAAAAATTAC
52010395 AAAATA-ATTTATAAAAATTCTAA
1 AAAATATATTTATAAAAATTCTAA
** *
52010418 AATTTATATTTTTAAAAGATTCTAA
1 AAAATATATTTATAAAA-ATTCTAA
52010443 AAAATATAT
1 AAAATATAT
52010452 AAAGAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 4 0.15
24 9 0.33
25 14 0.52
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
AAAATATATTTATAAAAATTCTAA
Found at i:52012811 original size:17 final size:17
Alignment explanation
Indices: 52012789--52012837 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
52012779 AATAATTACG
*
52012789 ATAAATAAAATAGAATA
1 ATAAATAAAATAGAACA
52012806 ATAAATTAAATATTAGAACA
1 ATAAA-TAAA-A-TAGAACA
*
52012826 ATAAAGAAAATA
1 ATAAATAAAATA
52012838 ATAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.26
18 5 0.19
19 4 0.15
20 11 0.41
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAAATAAAATAGAACA
Found at i:52012842 original size:12 final size:12
Alignment explanation
Indices: 52012825--52012849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52012815 ATATTAGAAC
52012825 AATAAAGAAAAT
1 AATAAAGAAAAT
52012837 AATAAAGAAAAT
1 AATAAAGAAAAT
52012849 A
1 A
52012850 GATGAAAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AATAAAGAAAAT
Found at i:52013078 original size:20 final size:19
Alignment explanation
Indices: 52013049--52013086 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
52013039 TGAAAAGAAA
*
52013049 AACTAAAAGAGAATTTGTG
1 AACTAAAAGAGAAGTTGTG
52013068 AACTGAAAAGAGAAGTTGT
1 AACT-AAAAGAGAAGTTGT
52013087 TGAATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AACTAAAAGAGAAGTTGTG
Found at i:52028739 original size:19 final size:19
Alignment explanation
Indices: 52028677--52028734 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
52028667 ATTTGTGTTG
*
52028677 TATAA-AATTTTATTAGTTT
1 TATAATAATTTTA-TAATTT
*
52028696 TTTAATAATTTTATAATTT
1 TATAATAATTTTATAATTT
52028715 TATAAT-ATTTTAT-ATTT
1 TATAATAATTTTATAATTT
52028732 TAT
1 TAT
52028735 GTAATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.20
18 7 0.20
19 14 0.40
20 7 0.20
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATAATAATTTTATAATTT
Found at i:52035883 original size:24 final size:24
Alignment explanation
Indices: 52035854--52035920 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
52035844 CGGTGCTGAA
52035854 CTCATTGATGGGGTTGGTGTAGGAG
1 CTCATTGATGGGGTTGGTG-AGGAG
* * * *
52035879 C-CATTGGTGAAGG-AGGTGATGAG
1 CTCATTGATG-GGGTTGGTGAGGAG
52035902 CTCATTGATGGGGTTGGTG
1 CTCATTGATGGGGTTGGTG
52035921 CCATTGATGG
Statistics
Matches: 32, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
23 7 0.22
24 22 0.69
25 3 0.09
ACGTcount: A:0.18, C:0.09, G:0.43, T:0.30
Consensus pattern (24 bp):
CTCATTGATGGGGTTGGTGAGGAG
Found at i:52038586 original size:23 final size:24
Alignment explanation
Indices: 52038544--52038591 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
52038534 ACATGAAATG
52038544 ATTTAAATAGTATTTATTAT-TAT
1 ATTTAAATAGTATTTATTATGTAT
52038567 ATTTAAA-ATGTATATT-TTATGTAT
1 ATTTAAATA-GTAT-TTATTATGTAT
52038591 A
1 A
52038592 ATACTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.05
23 15 0.68
24 6 0.27
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (24 bp):
ATTTAAATAGTATTTATTATGTAT
Found at i:52039616 original size:21 final size:21
Alignment explanation
Indices: 52039590--52039640 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
52039580 CTCAAAATCT
*
52039590 TTTATTTTAAAATATTTTTTA
1 TTTATTTTAAAATATTATTTA
* *
52039611 TTTATTATGAAATATTATTTA
1 TTTATTTTAAAATATTATTTA
52039632 TTTAATTTT
1 TTT-ATTTT
52039641 TATAATATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTAAAATATTATTTA
Found at i:52041825 original size:6 final size:6
Alignment explanation
Indices: 52041818--52041858 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
52041808 AAACGAAAGC
* * *
52041818 TGAAGC TGAAGT TGAAGG TGAAGG TGAAGG TGAAGG AGAAG
1 TGAAGG TGAAGG TGAAGG TGAAGG TGAAGG TGAAGG TGAAG
52041859 ATGAGGCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.44, T:0.17
Consensus pattern (6 bp):
TGAAGG
Found at i:52042354 original size:69 final size:69
Alignment explanation
Indices: 52042256--52042419 Score: 247
Period size: 69 Copynumber: 2.4 Consensus size: 69
52042246 AGTTGAATAA
* * * *
52042256 TTTACTAAATAGAGTACCTTTTCACCCAATTTTTATTAGATGGTTGAGTCATTTGATGACAGAGC
1 TTTACTAAAGAGAGGACC-TTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGC
*
52042321 TTGAC
65 TTAAC
*
52042326 TTTATTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
1 TTTACTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
52042391 TAAC
66 TAAC
* *
52042395 TTTACTAAAGATAGGATCTTTCACC
1 TTTACTAAAGAGAGGACCTTTCACC
52042420 TGATGTACCC
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
69 70 0.82
70 15 0.18
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (69 bp):
TTTACTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
TAAC
Found at i:52042963 original size:342 final size:333
Alignment explanation
Indices: 52042326--52042966 Score: 847
Period size: 342 Copynumber: 1.9 Consensus size: 333
52042316 AGAGCTTGAC
* * *
52042326 TTTATTAAAGAGAGGACCTTTCACCCAATTGTTATTAGATGGTTGAGTCATTTGATGAAAGAGCT
1 TTTACTAAAGAGAGGACCTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGCT
* * * *
52042391 TAACTTTACTAAAGATAGGATCTTTCACCTGATGTACCCCTCGGCTTGTGAACTCGGGCTTTTGG
66 TAACTTTACTAAAGAGAGGACCTTTCACCTGATGTACCCCTCGGCCTATGAACTCGGGCTTTTGG
* * *
52042456 TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCCGTGAATTCTTCAATTTGCACATGTTTCTG
131 TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCAGTGAACTCCTCAATTTGCACATGTTTCTG
**
52042521 TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGGTAGAGTAGAGA
196 TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGCCAGAGTAGAGA
***
52042586 GACAAAACCCCGGCAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
261 GACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
52042651 TTGAATAA
326 TTGAATAA
*
52042659 TTTACTAAAGAGAGGACCTTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAGAGAGC
1 TTTACTAAAGAGAGGACC-TTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGC
*
52042724 TTAACTTTACTAAAGAGAGGACCTTTCATCCAATTGGTTGATGTACCCCTTGGCCTATGAACTCG
65 TTAACTTTACTAAAGAGAGGACCTTTCA-CC-------TGATGTACCCCTCGGCCTATGAACTCG
* * * * **
52042789 GTCTTTTGGTGGAGTCGAGGTTAGCTCAATTTGTATCATGCTCCTAG-GAACTCCTCAATTTGTG
122 GGCTTTTGGTAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCC-AGTGAACTCCTCAATTTGCA
* * * * * * * *
52042853 TATGTTTTTGTCTGTTCAGGCACTCCGAG-TGTCTGTCACTTTGTGAACCTGTTAAGG-TTCTTG
186 CATGTTTCTGTCTGCTCAGGCACTCCGAGTTG-CTCTCACTCTATGAACCTGCTAAGGCTT-TCG
* **
52042916 CCAGAGTAGAGAGACAAAACCCAAACAAGGGATAATATCGGACTTGTTGAG
249 CCAGAGTAGAGAGACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAG
52042967 ACTTGACAAA
Statistics
Matches: 262, Mismatches: 34, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
333 17 0.06
334 69 0.26
335 2 0.01
341 4 0.02
342 169 0.65
343 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (333 bp):
TTTACTAAAGAGAGGACCTTTCACCCAATTGCTATTAGATGGTTGAGCCATTTGATGAAAGAGCT
TAACTTTACTAAAGAGAGGACCTTTCACCTGATGTACCCCTCGGCCTATGAACTCGGGCTTTTGG
TAGAGTCGAGGTTAGCTCAAGTTGTAACATGCTCCAGTGAACTCCTCAATTTGCACATGTTTCTG
TCTGCTCAGGCACTCCGAGTTGCTCTCACTCTATGAACCTGCTAAGGCTTTCGCCAGAGTAGAGA
GACAAAACCCAAACAAGGGATAATACCAAACTTGTTGAGGGTCTAACCCATGGGAGTCGAGGAAG
TTGAATAA
Found at i:52047088 original size:4 final size:4
Alignment explanation
Indices: 52047081--52047123 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
52047071 AACAATGGAG
* * *
52047081 ATGT ATGT ATGT ATGC ATGT ATGT ATAT ATGC ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
52047124 GTTCATTGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (4 bp):
ATGT
Found at i:52047102 original size:16 final size:16
Alignment explanation
Indices: 52047081--52047123 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
52047071 AACAATGGAG
52047081 ATGTATGTATGTATGC
1 ATGTATGTATGTATGC
*
52047097 ATGTATGTATATATGC
1 ATGTATGTATGTATGC
52047113 ATGTATGTATG
1 ATGTATGTATG
52047124 GTTCATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (16 bp):
ATGTATGTATGTATGC
Found at i:52053601 original size:12 final size:13
Alignment explanation
Indices: 52053584--52053620 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
52053574 GAACCGGACA
52053584 CGAACCGAA-CTC
1 CGAACCGAAGCTC
52053596 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
52053608 CGAACCGTAGCTC
1 CGAACCGAAGCTC
52053621 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:52055550 original size:3 final size:3
Alignment explanation
Indices: 52055523--52055580 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
52055513 GTGCAATTTG
52055523 TAA TAA -AA TACA TAAA TAGA TAA TAA TAA TAA TAA TAA TAGA TAA TAA
1 TAA TAA TAA TA-A T-AA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA
52055571 -AA TAA -AA TAA
1 TAA TAA TAA TAA
52055581 ATAAATAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
2 6 0.12
3 31 0.65
4 10 0.21
5 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:52060031 original size:23 final size:23
Alignment explanation
Indices: 52060005--52060126 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
52059995 ATAAGTGCCA
52060005 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
52060028 CACTGATACGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
52060051 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
52060074 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
52060097 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
52060120 CACTGAT
1 CACTGAT
52060127 CAATAACACT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:52060072 original size:46 final size:46
Alignment explanation
Indices: 52060005--52060126 Score: 226
Period size: 46 Copynumber: 2.7 Consensus size: 46
52059995 ATAAGTGCCA
*
52060005 CACTGATATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
*
52060051 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
52060097 CACTGAAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
52060127 CAATAACACT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCGTAGCTAC
Found at i:52060378 original size:18 final size:17
Alignment explanation
Indices: 52060352--52060390 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
52060342 ATTTTCCTTC
52060352 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
52060369 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
52060387 CACA
1 CACA
52060391 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:52065271 original size:42 final size:43
Alignment explanation
Indices: 52065224--52065307 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 43
52065214 GTTGTTAAAG
* * *
52065224 AATGCTTTCATTTTAGTTAC-CAAGTATTAAATCCTTAACGAC
1 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGAC
52065266 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGA
1 AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGA
52065308 TTATTTTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 19 0.50
43 19 0.50
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.36
Consensus pattern (43 bp):
AATGCTTTCATTTTAGTCACTCAAGCATTAAATCCATAACGAC
Found at i:52087843 original size:14 final size:12
Alignment explanation
Indices: 52087819--52087858 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
52087809 AAGTTAGATT
52087819 AAAAAAAATTAA
1 AAAAAAAATTAA
52087831 AAGAAAGAAATTAA
1 AA-AAA-AAATTAA
52087845 AAAAAATAATTAA
1 AAAAAA-AATTAA
52087858 A
1 A
52087859 TAAATCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 3 0.12
13 13 0.52
14 9 0.36
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:52089497 original size:30 final size:28
Alignment explanation
Indices: 52089447--52089517 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 28
52089437 ATGAGGCAAG
* * *
52089447 TTAAGTAAAATTTCAAAAAATTTAGGGGT
1 TTAA-TAAAATTTTAAAAAAATTAGGGGC
52089476 TTAATTAAAATTTTAAAAAAATTAGGGGC
1 TTAA-TAAAATTTTAAAAAAATTAGGGGC
52089505 TTAATAAGAATTT
1 TTAATAA-AATTT
52089518 AAATTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (28 bp):
TTAATAAAATTTTAAAAAAATTAGGGGC
Found at i:52091287 original size:13 final size:13
Alignment explanation
Indices: 52091269--52091302 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
52091259 AAGCAACCGT
52091269 AAATGGGAATGGG
1 AAATGGGAATGGG
52091282 AAATGGGAATGGG
1 AAATGGGAATGGG
52091295 AAATGGGA
1 AAATGGGA
52091303 GGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:52091288 original size:7 final size:7
Alignment explanation
Indices: 52091269--52091302 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
52091259 AAGCAACCGT
52091269 AAATGGG
1 AAATGGG
52091276 -AATGGG
1 AAATGGG
52091282 AAATGGG
1 AAATGGG
52091289 -AATGGG
1 AAATGGG
52091295 AAATGGG
1 AAATGGG
52091302 A
1 A
52091303 GGAGGGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
AAATGGG
Found at i:52091326 original size:17 final size:16
Alignment explanation
Indices: 52091304--52091372 Score: 54
Period size: 17 Copynumber: 4.3 Consensus size: 16
52091294 GAAATGGGAG
52091304 GAGGGGAATCGATGGAA
1 GAGGGGAA-CGATGGAA
*
52091321 GAGGGGAA--ATGGGA
1 GAGGGGAACGATGGAA
* *
52091335 G-GAGGGCACGGTGGAA
1 GAG-GGGAACGATGGAA
52091351 GAGGGGAATCGATGGAA
1 GAGGGGAA-CGATGGAA
*
52091368 AAGGG
1 GAGGG
52091373 AAGATGGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.25
16 9 0.22
17 20 0.50
ACGTcount: A:0.33, C:0.06, G:0.52, T:0.09
Consensus pattern (16 bp):
GAGGGGAACGATGGAA
Found at i:52091352 original size:30 final size:32
Alignment explanation
Indices: 52091292--52091358 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 32
52091282 AAATGGGAAT
52091292 GGGAAATGGGAGGAGGGGAATCGATGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGATGGAAGAG
* *
52091324 GGGAAATGGGAGGA-GGGCA-CGGTGGAAGAG
1 GGGAAATGGGAGGAGGGGAATCGATGGAAGAG
52091354 GGGAA
1 GGGAA
52091359 TCGATGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 15 0.45
31 4 0.12
32 14 0.42
ACGTcount: A:0.33, C:0.04, G:0.55, T:0.07
Consensus pattern (32 bp):
GGGAAATGGGAGGAGGGGAATCGATGGAAGAG
Found at i:52091486 original size:29 final size:29
Alignment explanation
Indices: 52091404--52091645 Score: 405
Period size: 30 Copynumber: 8.2 Consensus size: 29
52091394 CATTGTATTT
52091404 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
*
52091434 ATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAA-AAATATATGTA
52091464 GTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
52091493 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
*
52091523 GTGTATTTTAAAAATAAAAAATATATTTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
52091552 GTGTATTTTAAAAATAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
*
52091581 CTGTATTTTAAAAAT-AAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTA
52091609 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTA
*
52091639 CTGTATT
1 GTGTATT
52091646 CGGTTTATTC
Statistics
Matches: 201, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
28 27 0.13
29 84 0.42
30 90 0.45
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (29 bp):
GTGTATTTTAAAAATAAAAAATATATGTA
Found at i:52091500 original size:59 final size:59
Alignment explanation
Indices: 52091404--52091645 Score: 416
Period size: 59 Copynumber: 4.1 Consensus size: 59
52091394 CATTGTATTT
* *
52091404 GTGTATTTTAAAAATAAAAAAATATATGTAATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
52091464 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
*
52091523 GTGTATTTTAAAAATAAAAAATATATTTAGTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
*
52091581 CTGTATTTTAAAAAT-AAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
*
52091639 CTGTATT
1 GTGTATT
52091646 CGGTTTATTC
Statistics
Matches: 176, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
57 27 0.15
58 49 0.28
59 85 0.48
60 15 0.09
ACGTcount: A:0.51, C:0.01, G:0.10, T:0.38
Consensus pattern (59 bp):
GTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:52092485 original size:16 final size:16
Alignment explanation
Indices: 52092450--52092506 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
52092440 TTTAAATAAC
*
52092450 TTCTATTATATATCAA
1 TTCTAATATATATCAA
52092466 TTCTAATATGA-AT-AA
1 TTCTAATAT-ATATCAA
*
52092481 CTTCTATTATATATCAA
1 -TTCTAATATATATCAA
52092498 TTCTAATAT
1 TTCTAATAT
52092507 GATGTCCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (16 bp):
TTCTAATATATATCAA
Found at i:52092485 original size:32 final size:32
Alignment explanation
Indices: 52092444--52092508 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
52092434 AAATAATTTA
52092444 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
52092476 AATAACTTCTATTATATATCAATTCTAATATG
1 AATAACTTCTATTATATATCAATTCTAATATG
52092508 A
1 A
52092509 TGTCCTTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (32 bp):
AATAACTTCTATTATATATCAATTCTAATATG
Found at i:52092616 original size:21 final size:21
Alignment explanation
Indices: 52092590--52092642 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
52092580 CATTGTTTCT
*
52092590 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
52092611 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
52092632 AATCTCACCGC
1 AATCTCACCGC
52092643 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:52095561 original size:29 final size:29
Alignment explanation
Indices: 52095504--52095561 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
52095494 TAGTTGTCAC
* *
52095504 AATTTTATTATTATATTTTAACCTCTAAA
1 AATTTTATGATTATATTTTAACCTATAAA
52095533 AATTTTATGATT-TAATTTTCAACC-ATAAA
1 AATTTTATGATTAT-ATTTT-AACCTATAAA
52095562 TAAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 1 0.04
29 20 0.80
30 4 0.16
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (29 bp):
AATTTTATGATTATATTTTAACCTATAAA
Found at i:52100708 original size:159 final size:156
Alignment explanation
Indices: 52100419--52100728 Score: 406
Period size: 159 Copynumber: 2.0 Consensus size: 156
52100409 AGGCCTGCAA
* * * * *
52100419 ACATAGACTGAGGTTCAACTATATAAACAATCTTGGTATTCGTTTTTACTTTTGTGCACTTTTTT
1 ACATAGACTGAGGTTCAACTACATAAACAATCTCGGGATTCATTTTTACTGTTGTGCACTTTTTT
* * *
52100484 TTTTATTTCGTTGTTAAAACTATGATGACAGTTCCAAACATTATTTTAGCCATAGTTTCTATTTG
66 TTTTATTTCGTGGTTAAAACTATGATGACAGTTCCAAACACTATTTTAGCCATAATTTCTATTTG
52100549 CAAAGCAAGTACCCCTCGTTCTGTTG
131 CAAAGCAAGTACCCCTCGTTCTGTTG
* * * * * * *
52100575 ACATAGACTGGGGTTGAACTGCATATACAATCTCGGGGTTCATTTTTACTGTTGTTCATGTTTTA
1 ACATAGACTGAGGTTCAACTACATAAACAATCTCGGGATTCATTTTTACTGTTGTGCA-CTTTT-
* * *
52100640 TTTATTTATTTCGTGGTTAAAACTATGATGACAGTTTCAAACACTATTTTCGCCTTAATTTC-AG
64 TTT-TTTATTTCGTGGTTAAAACTATGATGACAGTTCCAAACACTATTTTAGCCATAATTTCTA-
*
52100704 TTTGCAAAGCAAGTACTCCTCGTTC
127 TTTGCAAAGCAAGTACCCCTCGTTC
52100729 ATGTGATATT
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
156 47 0.36
157 4 0.03
158 4 0.03
159 76 0.58
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (156 bp):
ACATAGACTGAGGTTCAACTACATAAACAATCTCGGGATTCATTTTTACTGTTGTGCACTTTTTT
TTTTATTTCGTGGTTAAAACTATGATGACAGTTCCAAACACTATTTTAGCCATAATTTCTATTTG
CAAAGCAAGTACCCCTCGTTCTGTTG
Found at i:52110755 original size:16 final size:17
Alignment explanation
Indices: 52110718--52110750 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
52110708 GATTAAATTG
*
52110718 AAAATCATTTTTTTGTA
1 AAAATCATTTTTTTATA
52110735 AAAATCATTTTTTTAT
1 AAAATCATTTTTTTAT
52110751 TAAATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (17 bp):
AAAATCATTTTTTTATA
Found at i:52115973 original size:12 final size:12
Alignment explanation
Indices: 52115956--52115981 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52115946 TTTGCCCTCT
52115956 TTATTTATAAAA
1 TTATTTATAAAA
52115968 TTATTTATAAAA
1 TTATTTATAAAA
52115980 TT
1 TT
52115982 GACAAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTTATAAAA
Found at i:52126209 original size:12 final size:12
Alignment explanation
Indices: 52126192--52126216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52126182 TTATAATTTT
52126192 ATAATTTTTTGA
1 ATAATTTTTTGA
52126204 ATAATTTTTTGA
1 ATAATTTTTTGA
52126216 A
1 A
52126217 GAAATTAAAC
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:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTGA
Found at i:52128628 original size:26 final size:26
Alignment explanation
Indices: 52128594--52128651 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
52128584 CCTAACTAAC
*
52128594 CAACTAACTAACTGATGATTATCTCTT
1 CAAC-AACTAACTAATGATTATCTCTT
* *
52128621 CAACAACTAAGTAATGATTATCTTTT
1 CAACAACTAACTAATGATTATCTCTT
52128647 CAACA
1 CAACA
52128652 CTTCCCCTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 24 0.86
27 4 0.14
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (26 bp):
CAACAACTAACTAATGATTATCTCTT
Found at i:52130978 original size:28 final size:28
Alignment explanation
Indices: 52130903--52130980 Score: 129
Period size: 28 Copynumber: 2.8 Consensus size: 28
52130893 CCCTGGTGGA
* *
52130903 CATTCCACCTAAGATAGTCATTGGCGTT
1 CATTCCACCTAAGATAGTCCTTGGCATT
52130931 CATTCCACCTAAGATAGTCCTTGGCATT
1 CATTCCACCTAAGATAGTCCTTGGCATT
*
52130959 CATTCCACTTAAGATAGTCCTT
1 CATTCCACCTAAGATAGTCCTT
52130981 AGCAGACTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (28 bp):
CATTCCACCTAAGATAGTCCTTGGCATT
Found at i:52133141 original size:8 final size:9
Alignment explanation
Indices: 52133118--52133142 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
52133108 AACAAATAAT
52133118 TTAAAAATA
1 TTAAAAATA
52133127 TTAAAAATA
1 TTAAAAATA
52133136 TTAAAAA
1 TTAAAAA
52133143 ACAAGAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TTAAAAATA
Found at i:52140665 original size:35 final size:33
Alignment explanation
Indices: 52140625--52140706 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 33
52140615 AAAAAAGTCC
52140625 CTAAAA-AATAAAACACTACACAA-AATAACATAAAA
1 CTAAAATAATAAAA-ACTA-A-AACAA-AACATAAAA
*
52140660 CTAAAATAATGTAAAACTAAAACTAAAACATAAAA
1 CTAAAATAAT-AAAAACTAAAAC-AAAACATAAAA
52140695 CTAAAATAATAA
1 CTAAAATAATAA
52140707 GGTGCATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
34 3 0.07
35 26 0.63
36 9 0.22
37 3 0.07
ACGTcount: A:0.67, C:0.13, G:0.01, T:0.18
Consensus pattern (33 bp):
CTAAAATAATAAAAACTAAAACAAAACATAAAA
Found at i:52140667 original size:16 final size:16
Alignment explanation
Indices: 52140646--52140703 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
52140636 AACACTACAC
52140646 AAAATAACATAAAACT
1 AAAATAACATAAAACT
**
52140662 AAAATAATGTAAAACT
1 AAAATAACATAAAACT
52140678 AAAACTAAAACATAAAACT
1 AAAA-T--AACATAAAACT
52140697 AAAATAA
1 AAAATAA
52140704 TAAGGTGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 20 0.57
17 1 0.03
18 1 0.03
19 13 0.37
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (16 bp):
AAAATAACATAAAACT
Found at i:52140680 original size:6 final size:6
Alignment explanation
Indices: 52140671--52140700 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
52140661 TAAAATAATG
52140671 TAAAAC TAAAAC TAAAAC ATAAAAC TAAAA
1 TAAAAC TAAAAC TAAAAC -TAAAAC TAAAA
52140701 TAATAAGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (6 bp):
TAAAAC
Found at i:52142898 original size:14 final size:15
Alignment explanation
Indices: 52142881--52142909 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
52142871 ATATAACGTC
52142881 AATATAATA-AAATA
1 AATATAATAGAAATA
52142895 AATATAATAGAAATA
1 AATATAATAGAAATA
52142910 TTAGTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AATATAATAGAAATA
Found at i:52145331 original size:31 final size:30
Alignment explanation
Indices: 52145296--52145356 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
52145286 GCAATATATT
* *
52145296 ATTTGGTATTTAAATTTAGTTTTAATGTTAA
1 ATTTGATAATTAAATTTAGTTTTAAT-TTAA
**
52145327 ATTTGATAATTAAATTTTTTTTTAATTTAA
1 ATTTGATAATTAAATTTAGTTTTAATTTAA
52145357 TACTTAAGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.57
Consensus pattern (30 bp):
ATTTGATAATTAAATTTAGTTTTAATTTAA
Found at i:52156601 original size:18 final size:18
Alignment explanation
Indices: 52156578--52156651 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
52156568 CCGTTTACGA
*
52156578 TACTATTCACGTATATAG
1 TACTATTCACGTATACAG
* *
52156596 TACTATTCATGTATACGG
1 TACTATTCACGTATACAG
*
52156614 TACTATTCACGTATACGG
1 TACTATTCACGTATACAG
*
52156632 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
52156650 TA
1 TA
52156652 GTTGGGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (18 bp):
TACTATTCACGTATACAG
Found at i:52165470 original size:144 final size:144
Alignment explanation
Indices: 52165174--52165466 Score: 398
Period size: 144 Copynumber: 2.1 Consensus size: 144
52165164 AGGGAGGTTA
* * * * *
52165174 ATACATACATACATATCCATTGCTTCCTTCCCAATCAAAACCTGACATTCAACACAAAACCAATC
1 ATACATACAGACAGACCCATTGCTTCCTTCCCAATCAAAACCTGAAACTCAACACAAAACCAATC
* ** * *
52165239 CTTTGCACCCATATTTTTTTACTTCTAGTTCATCACAGAACCATAGCATTGAATCATGAGCTGTC
66 CTTTGCACCCATATATTTTTACTTCTACCTCATCACAGAACCATAGAATTGAATCATGAACTGTC
52165304 ACATACATACATGC
131 ACATACATACATGC
52165318 ATACATACAGACAGACCCATTGCTTCCTTCCCAATCAAAACCTGAAACTCAACACAAAACCAATC
1 ATACATACAGACAGACCCATTGCTTCCTTCCCAATCAAAACCTGAAACTCAACACAAAACCAATC
* ** *
52165383 CTTTGCACCCATATATTTTTACTTCT-CCT-AGT-GCA-ATGC-TAGAATTGAATCATGAACTTT
66 CTTTGCACCCATATATTTTTACTTCTACCTCA-TCACAGAACCATAGAATTGAATCATGAACTGT
*
52165443 CATATACATACATGC
130 CACATACATACATGC
*
52165458 ATGCATACA
1 ATACATACA
52165467 TACATGTATT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
140 40 0.30
141 2 0.02
142 3 0.02
143 2 0.02
144 85 0.64
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (144 bp):
ATACATACAGACAGACCCATTGCTTCCTTCCCAATCAAAACCTGAAACTCAACACAAAACCAATC
CTTTGCACCCATATATTTTTACTTCTACCTCATCACAGAACCATAGAATTGAATCATGAACTGTC
ACATACATACATGC
Found at i:52170409 original size:48 final size:49
Alignment explanation
Indices: 52170319--52170412 Score: 172
Period size: 48 Copynumber: 1.9 Consensus size: 49
52170309 CATACACGTT
*
52170319 TCATATTTTAAATGAGTATTTTTTTTTGCCTAAATTTATTTTTTAGGTC
1 TCATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAGGTC
52170368 TCATATTTTAAATGAGCA-TTTTTTTTGCCTAAATTTATTTTTTAG
1 TCATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAG
52170413 ACCTAATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 27 0.61
49 17 0.39
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (49 bp):
TCATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAGGTC
Found at i:52170422 original size:48 final size:49
Alignment explanation
Indices: 52170321--52170424 Score: 165
Period size: 48 Copynumber: 2.1 Consensus size: 49
52170311 TACACGTTTC
* ** *
52170321 ATATTTTAAATGAGTATTTTTTTTTGCCTAAATTTATTTTTTAGGTCTC
1 ATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAGACCTA
52170370 ATATTTTAAATGAGCA-TTTTTTTTGCCTAAATTTATTTTTTAGACCTA
1 ATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAGACCTA
52170418 ATATTTT
1 ATATTTT
52170425 TGTTAGGCTC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 36 0.71
49 15 0.29
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.56
Consensus pattern (49 bp):
ATATTTTAAATGAGCATTTTTTTTTGCCTAAATTTATTTTTTAGACCTA
Found at i:52170778 original size:9 final size:9
Alignment explanation
Indices: 52170761--52170867 Score: 62
Period size: 8 Copynumber: 11.8 Consensus size: 9
52170751 GAAATCGATA
*
52170761 TAAATTTAT
1 TAAAATTAT
52170770 TAAAATTA-
1 TAAAATTAT
*
52170778 TAAAAATATT
1 TAAAATTA-T
*
52170788 ATAAAATT-G
1 -TAAAATTAT
52170797 TAAAATTAT
1 TAAAATTAT
*
52170806 TAAAAATT-G
1 T-AAAATTAT
*
52170815 TAAAATTAA
1 TAAAATTAT
*
52170824 TAAACTTATT
1 TAAAATTA-T
52170834 TAAAA-TAGT
1 TAAAATTA-T
52170843 TAAAATT-T
1 TAAAATTAT
*
52170851 TAAAATGCAT
1 TAAAAT-TAT
52170861 TAAAATT
1 TAAAATT
52170868 CTTTTAAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
8 27 0.36
9 24 0.32
10 18 0.24
11 6 0.08
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (9 bp):
TAAAATTAT
Found at i:52170792 original size:19 final size:19
Alignment explanation
Indices: 52170770--52170819 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
52170760 ATAAATTTAT
*
52170770 TAAAATTATAAAAATATTA
1 TAAAATTGTAAAAATATTA
*
52170789 TAAAATTGTAAAATTATTA
1 TAAAATTGTAAAAATATTA
52170808 -AAAATTGTAAAA
1 TAAAATTGTAAAA
52170820 TTAATAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAATTGTAAAAATATTA
Found at i:52170811 original size:18 final size:18
Alignment explanation
Indices: 52170761--52170827 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
52170751 GAAATCGATA
* *
52170761 TAAATTTATT-AAAATTA
1 TAAAATTATTAAAAATTG
*
52170778 TAAAAATATTATAAAATTG
1 TAAAATTATTA-AAAATTG
52170797 TAAAATTATTAAAAATTG
1 TAAAATTATTAAAAATTG
*
52170815 TAAAATTAATAAA
1 TAAAATTATTAAA
52170828 CTTATTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
17 8 0.19
18 19 0.44
19 16 0.37
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
TAAAATTATTAAAAATTG
Found at i:52170910 original size:17 final size:16
Alignment explanation
Indices: 52170890--52170938 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
52170880 AAAGTTGTAA
52170890 AAAATTATAAAAATATT
1 AAAATTATAAAAA-ATT
* *
52170907 AAAATTGATATAAACTT
1 AAAATT-ATAAAAAATT
52170924 AAAATTTATAAAAAA
1 AAAA-TTATAAAAAA
52170939 ATCATAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAAATT
Found at i:52171678 original size:18 final size:19
Alignment explanation
Indices: 52171642--52171680 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52171632 TAAAATGTAA
**
52171642 AATTTTTATTTAAGTTTTT
1 AATTTTTATTTAAAATTTT
52171661 AATTTTT-TTTAAAATTTT
1 AATTTTTATTTAAAATTTT
52171679 AA
1 AA
52171681 ATTAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
AATTTTTATTTAAAATTTT
Found at i:52171678 original size:19 final size:19
Alignment explanation
Indices: 52171641--52171683 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
52171631 TTAAAATGTA
*
52171641 AAATTTTTATTTAAGTTTT
1 AAATTTTTATTTAAATTTT
*
52171660 TAATTTTT-TTTAAAATTTT
1 AAATTTTTATTT-AAATTTT
52171679 AAATT
1 AAATT
52171684 AATAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
AAATTTTTATTTAAATTTT
Found at i:52174077 original size:18 final size:19
Alignment explanation
Indices: 52174054--52174098 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
52174044 TTCAAGGTGT
52174054 AATTAATTTAAAATT-TTC
1 AATTAATTTAAAATTATTC
* *
52174072 AATTAA-TTAAATTTATTT
1 AATTAATTTAAAATTATTC
52174090 AATTAATTT
1 AATTAATTT
52174099 TTTTGTCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 14 0.61
19 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATTTAAAATTATTC
Done.