Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 146 of 322
Found at i:47985781 original size:15 final size:16
Alignment explanation
Indices: 47985754--47985783 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47985744 AATTTTATTT
47985754 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
47985770 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
47985784 GTAATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:47989716 original size:101 final size:101
Alignment explanation
Indices: 47989541--47989742 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
47989531 CAAAGGAACA
47989541 TGAAAAGAGATTAAACACAATATTTGCCAGAAATCTGCCCTCTAGACAGTTGTACTATACCAGCA
1 TGAAAAGAGATTAAACACAATATTTGCCAGAAATCTGCCCTCTAGACAGTTGTACTATACCAGCA
47989606 CAATTCTCCAAGTTTGAATTTACAAGCTGTAAAACG
66 CAATTCTCCAAGTTTGAATTTACAAGCTGTAAAACG
47989642 TGAAAAGAGATTAAACACAATATTTGCCAGAAATCTGCCCTCTAGACAGTTGTACTATACCAGCA
1 TGAAAAGAGATTAAACACAATATTTGCCAGAAATCTGCCCTCTAGACAGTTGTACTATACCAGCA
47989707 CAATTCTCCAAGTTTGAATTTACAAGCTGTAAAACG
66 CAATTCTCCAAGTTTGAATTTACAAGCTGTAAAACG
47989743 AGTATTCTGA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (101 bp):
TGAAAAGAGATTAAACACAATATTTGCCAGAAATCTGCCCTCTAGACAGTTGTACTATACCAGCA
CAATTCTCCAAGTTTGAATTTACAAGCTGTAAAACG
Found at i:47995914 original size:21 final size:21
Alignment explanation
Indices: 47995888--47995938 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47995878 GCGGTGGCGG
*
47995888 TGAGATTAGTTACTGTAGCGA
1 TGAGATTAGGTACTGTAGCGA
* *
47995909 TGAGATTGGGTACTGTAGCGG
1 TGAGATTAGGTACTGTAGCGA
47995930 TGAGATTAG
1 TGAGATTAG
47995939 AAATAATAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.25, C:0.08, G:0.35, T:0.31
Consensus pattern (21 bp):
TGAGATTAGGTACTGTAGCGA
Found at i:47996251 original size:22 final size:22
Alignment explanation
Indices: 47996200--47996251 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
47996190 TTTTATAGTT
*
47996200 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
47996223 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
47996245 ATAATAA
1 ATAATAA
47996252 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:48000242 original size:15 final size:15
Alignment explanation
Indices: 48000222--48000253 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48000212 TGTAAGTTTC
48000222 TTAGAAATAAAATGA
1 TTAGAAATAAAATGA
*
48000237 TTAGAAATAAGATGA
1 TTAGAAATAAAATGA
48000252 TT
1 TT
48000254 GGGGAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
TTAGAAATAAAATGA
Found at i:48000936 original size:379 final size:379
Alignment explanation
Indices: 48000237--48000981 Score: 1463
Period size: 379 Copynumber: 2.0 Consensus size: 379
48000227 AATAAAATGA
48000237 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
*
48000302 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAT
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
48000367 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
48000432 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
48000497 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
48000562 CAATTGTGTGCTCATCTCTTGTTTTCATTATAATTTATTGCATTTGTAAGTTTC
326 CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
48000616 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
48000681 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
48000746 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
48000811 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
48000876 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
48000941 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
326 CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGC
48000982 TATTGAATGC
Statistics
Matches: 363, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
379 363 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (379 bp):
TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGATTC
TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
CAATTGTGTGCTCATCTCTTGTTCTCATTATAATTTATTGCATTTGTAAGTTTC
Found at i:48003305 original size:21 final size:21
Alignment explanation
Indices: 48003279--48003322 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48003269 AAATAGAGCT
48003279 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
48003300 TCTTTGAGTCTGCTGTGAGTG
1 TCTTTGAGTCTGCTGTGAGTG
48003321 TC
1 TC
48003323 AATTGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.16, G:0.32, T:0.43
Consensus pattern (21 bp):
TCTTTGAGTCTGCTGTGAGTG
Found at i:48008984 original size:18 final size:19
Alignment explanation
Indices: 48008961--48008996 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
48008951 CTCCATGCCA
48008961 AAGTGAAAAAA-GATTTTT
1 AAGTGAAAAAATGATTTTT
48008979 AAGTGAAAAAATGATTTT
1 AAGTGAAAAAATGATTTT
48008997 GGCCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (19 bp):
AAGTGAAAAAATGATTTTT
Found at i:48009176 original size:48 final size:49
Alignment explanation
Indices: 48009066--48009177 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 49
48009056 TGCATTAATA
* * *
48009066 TGACACTGTTCACAATTTTGATTATGTAGCAGTATATCTATGATTTTTG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
* * * *
48009115 TGGC-TTGTCCACAATATAGATTAT-TAGCAGTTTATCTATGATTTTGG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
48009162 TGACACTGTTCACAAT
1 TGACACTGTTCACAAT
48009178 TTGGTGTGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 24 0.46
48 25 0.48
49 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (49 bp):
TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
Found at i:48017198 original size:28 final size:28
Alignment explanation
Indices: 48017120--48017200 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 28
48017110 AAAATGTGGG
*
48017120 ACAATTTTTAAAAT--AAAATA-A-AAT
1 ACAATTTTTAAAATAAAAAATACATAAA
* * *
48017144 ACAAGATCTTAAAATAAATAAT-CATAAA
1 ACAA-TTTTTAAAATAAAAAATACATAAA
48017172 ACAATTTTTAAAATAAAAAATACATAAA
1 ACAATTTTTAAAATAAAAAATACATAAA
48017200 A
1 A
48017201 ATAAAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 4 0.09
25 8 0.18
27 19 0.43
28 13 0.30
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.28
Consensus pattern (28 bp):
ACAATTTTTAAAATAAAAAATACATAAA
Found at i:48017201 original size:17 final size:17
Alignment explanation
Indices: 48017181--48017218 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
48017171 AACAATTTTT
48017181 AAAATAAAAAATACATA
1 AAAATAAAAAATACATA
*
48017198 AAAATAAAAAATATATA
1 AAAATAAAAAATACATA
48017215 AAAA
1 AAAA
48017219 ATAGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAATACATA
Found at i:48017334 original size:25 final size:24
Alignment explanation
Indices: 48017304--48017360 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
48017294 AAGAAAGTTA
* *
48017304 AATAAAAAAATTGAAATAAATAAT
1 AATAAAAAAATTAAAATAAACAAT
* *
48017328 ATATAAAGAGATTTAAAATAAACAAT
1 A-ATAAA-AAAATTAAAATAAACAAT
48017354 AATAAAA
1 AATAAAA
48017361 CAGAAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 10 0.37
26 15 0.56
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (24 bp):
AATAAAAAAATTAAAATAAACAAT
Found at i:48018694 original size:89 final size:89
Alignment explanation
Indices: 48018601--48018872 Score: 218
Period size: 89 Copynumber: 3.1 Consensus size: 89
48018591 TAATTTAAAC
**
48018601 CTGCTCTCTTACTACCTCAGAGAGATAAGGCTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
1 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
*
48018666 AAGGTAAGATTCGTCATCTTCGAT
66 AAGATAAGATTCGTCATCTTCGAT
* * * * * *** ** * * *
48018690 CTGCTC-C--ACTACTGCTTAGGGATATAATATTTGTAATTTTCAGTATGCTTCCTTGCTAC-CT
1 CTGCTCTCTTACTAC--CTCAGAGAGATAATACTGGT-GGCTAAAGTCTGCTTCATTGC--CGAT
* * * * *
48018751 -CAGGAAGATAAGAATAGT-ATCTTCAAC
61 ACATGAAGATAAGATTCGTCATCTTCGAT
* *
48018778 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAATCTGC-TCTATTGCTGATACAT
1 CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTC-ATTGCCGATACAT
48018842 -AGAGATAAGATTCGTCATCTTCGAT
65 GA-AGATAAGATTCGTCATCTTCGAT
48018867 CTGCTC
1 CTGCTC
48018873 CACTACTGCT
Statistics
Matches: 129, Mismatches: 41, Indels: 26
0.66 0.21 0.13
Matches are distributed among these distances:
86 5 0.04
87 4 0.03
88 50 0.39
89 63 0.49
90 1 0.01
91 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (89 bp):
CTGCTCTCTTACTACCTCAGAGAGATAATACTGGTGGCTAAAGTCTGCTTCATTGCCGATACATG
AAGATAAGATTCGTCATCTTCGAT
Found at i:48019039 original size:44 final size:44
Alignment explanation
Indices: 48018964--48019104 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 44
48018954 GCCTATTTCC
* **
48018964 CTACTGCTTAGGGGGATGA-AGCTCACCATCTTCGATCCACTCCA
1 CTACTGCTTAGGGGGATGAGATCT-ATAATCTTCGATCCACTCCA
* ***
48019008 CTACTGCTTAGGGTGATGAGATCTATAATCTTC-AGTCTGTTTCC-
1 CTACTGCTTAGGGGGATGAGATCTATAATCTTCGA-TC-CACTCCA
* * *
48019052 CTACTGCTTAGGGGGATAAG-TCT-TACGTCTTCGATCCGCTCCA
1 CTACTGCTTAGGGGGATGAGATCTATA-ATCTTCGATCCACTCCA
*
48019095 CTACCGCTTA
1 CTACTGCTTA
48019105 AGGAGATAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
42 5 0.06
43 20 0.26
44 46 0.60
45 6 0.08
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.31
Consensus pattern (44 bp):
CTACTGCTTAGGGGGATGAGATCTATAATCTTCGATCCACTCCA
Found at i:48019142 original size:87 final size:88
Alignment explanation
Indices: 48018952--48019512 Score: 718
Period size: 88 Copynumber: 6.4 Consensus size: 88
48018942 TTCTAATCTT
* * *
48018952 CAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACCATCTTCGATCCACTCCACTACTGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCT
* * *
48019016 TAGGGTGATGAGATCTATAATCTT-
65 TAGGGAGATAAGATCTGTAAT-TTC
* * * * * *
48019040 CAGTCTGTTTCCCTACTGCTTAGGGGGATAAGTCTTA-CGTCTTCGATCCGCTCCACTACCGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
* *
48019104 AAGGAGATAAAATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * *
48019127 CAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCATTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
48019192 A-GGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * * * ** *
48019214 CAGCCTGTTTTCCTACTGCTTAAGGGGTTAAGGCTCACCATCTTTGATCTTCTTCACTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
48019279 AGGGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* *
48019302 CAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
48019367 AGGGAGATAAGATCTGTAATTTC
66 AGGGAGATAAGATCTGTAATTTC
* * * * * * *
48019390 TAGCCTATTTCTCTACTACTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTCGACTACTACTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
* *
48019455 GGGGAGATCAA-ATCTGTAATTGC
66 AGGGAGAT-AAGATCTGTAATTTC
*
48019478 CAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
48019513 AGTGAATTCA
Statistics
Matches: 416, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
86 2 0.00
87 152 0.37
88 260 0.62
89 2 0.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (88 bp):
CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTACTGCTT
AGGGAGATAAGATCTGTAATTTC
Found at i:48019287 original size:175 final size:176
Alignment explanation
Indices: 48018929--48019512 Score: 743
Period size: 175 Copynumber: 3.3 Consensus size: 176
48018919 TTGCAACTTC
* *
48018929 AGGGAGATAAAA-CTTCTAATCTT-CAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACC
1 AGGGAGATAAAATC-TGTAAT-TTCCAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACC
* ** * * * * *
48018991 ATCTTCGATCCACTCCACTACTGCTTAGGGTGATGAGATCTATAATCTT-CAGTCTGTTTCCCTA
63 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCCAGCCTGTTTTCCTA
* * * * * * *
48019055 CTGCTTAGGGGGATAAGTCTTA-CGTCTTCGATCCGCTCCACTACCGCTT
127 CTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
* *
48019104 AAGGAGATAAAATCTGTAATTTCCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
* *
48019169 TTTGATCTGCTCCATTACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
* * **
48019233 TTAAGGGGTTAAGGCTCACCATCTTTGATCTTCTTCACTACTGCTT
131 TTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
* *
48019279 AGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGTC
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
* * *
48019344 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCT-ATTTCTCTACTA
66 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTC-CTACTG
*
48019408 CTTAGGGGGTTAAGGCTCACCGTCTTTGATCCAC-TCGACTACTACTT
130 CTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTC-ACTACTGCTT
* * * *
48019455 GGGGAGATCAAATCTGTAATTGCCAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
48019513 AGTGAATTCA
Statistics
Matches: 357, Mismatches: 44, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
173 2 0.01
174 51 0.14
175 181 0.51
176 123 0.34
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (176 bp):
AGGGAGATAAAATCTGTAATTTCCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGC
TTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTTCACTACTGCTT
Found at i:48019318 original size:44 final size:43
Alignment explanation
Indices: 48019184--48019324 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
48019174 TCTGCTCCAT
*
48019184 TACTGCTTA-GGAGATAAGATCTGTAATTTCCAGCCTGTTTTCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCT-TTTCCC
* * * ** * *
48019227 TACTGCTTAAGGG-GTTAAG-GCT-CACCATCTTTGA-TCTTCTTCAC
1 TACTGCTT-AGGGAGATAAGATCTGTA--AT-TTCCAGCCTT-TTCCC
48019271 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTATTTCCC
1 TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCT-TTTCCC
48019315 TACTGCTTAG
1 TACTGCTTAG
48019325 AGGGTTAAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 21
0.67 0.14 0.19
Matches are distributed among these distances:
42 1 0.01
43 18 0.25
44 44 0.61
45 8 0.11
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (43 bp):
TACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTTTTCCC
Found at i:48019406 original size:44 final size:44
Alignment explanation
Indices: 48019266--48019414 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 44
48019256 TTTGATCTTC
48019266 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* * * * * * * **
48019310 TTCCCTACTGCTTAGAGG-GTTAAGGCTCACCGT--CTTCGA-TCTGC
1 TTCACTACTGCTTAG-GGAGATAA-GAT--CTGTAATTTCCAGCCTAT
* *
48019354 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* *
48019398 TTCTCTACTACTTAGGG
1 TTCACTACTGCTTAGGG
48019415 GGTTAAGGCT
Statistics
Matches: 75, Mismatches: 22, Indels: 16
0.66 0.19 0.14
Matches are distributed among these distances:
41 3 0.04
43 8 0.11
44 53 0.71
45 8 0.11
47 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (44 bp):
TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
Found at i:48019682 original size:64 final size:64
Alignment explanation
Indices: 48019581--48019708 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 64
48019571 TCATGTATCT
*
48019581 ATGCTTATGCTAAATAATTAGGATACTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCTAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
48019645 ATGCTTATG-TCAAATAGTTAGGATGCTATGATCGAAATGAATCCAATGCTCCTAACTAGATGTG
1 ATGCTTATGCT-AAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
48019709 TTATGAATGA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 1 0.02
64 58 0.98
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCTAAATAATTAGGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:48024140 original size:19 final size:19
Alignment explanation
Indices: 48024116--48024161 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48024106 TGTGAAGTTT
* *
48024116 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGAAATG
48024134 CAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
48024154 AATGCAAA
1 AATGCAAA
48024162 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:48026450 original size:19 final size:19
Alignment explanation
Indices: 48026428--48026468 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
48026418 AACAATTTTT
48026428 AAAATAAAAAATACATAAA
1 AAAATAAAAAATACATAAA
* *
48026447 AAAATAAATAATATATAAA
1 AAAATAAAAAATACATAAA
48026466 AAA
1 AAA
48026469 TAGTTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAAAAATACATAAA
Found at i:48026858 original size:20 final size:20
Alignment explanation
Indices: 48026833--48026872 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48026823 CGTAAAATGA
* *
48026833 TTTCTGGAAAGTGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
48026853 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
48026873 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:48028114 original size:13 final size:11
Alignment explanation
Indices: 48028082--48028115 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
48028072 GCAGGAATTA
48028082 GTACAATATAT
1 GTACAATATAT
48028093 GTACAATATAT
1 GTACAATATAT
48028104 GTACAATATAT
1 GTACAATATAT
48028115 G
1 G
48028116 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:48029004 original size:16 final size:16
Alignment explanation
Indices: 48028983--48029016 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48028973 GGACGAAGAG
*
48028983 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
48028999 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
48029015 GA
1 GA
48029017 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:48031828 original size:46 final size:44
Alignment explanation
Indices: 48031728--48031835 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
48031718 TGTCTTTGAC
** * * * *
48031728 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
*
48031772 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA--TATAAT
48031818 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
48031836 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:48036568 original size:46 final size:46
Alignment explanation
Indices: 48036498--48036664 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
48036488 TTCGACAGGA
* * *
48036498 TGCCATAGTGTCTTCCAACTATGGTCTTATTCATTTTCTGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
*
48036544 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
* *
48036590 TGCCATAGTATCTTTCAACCATGGTCTTATTCA-TTTCTCGTCTTAT
1 TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCT-GTCATGT
*
48036636 TGCCATAGTATCTTTCAACTATGGTCTTA
1 TGCCATAGTATCTTTCAACCATGGTCTTA
48036665 CATATCTGAA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 5 0.04
46 107 0.96
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGT
Found at i:48036720 original size:26 final size:26
Alignment explanation
Indices: 48036684--48036736 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
48036674 ATCGTGATGC
48036684 CATAACGTCTTTCAACTATGGTCTTA
1 CATAACGTCTTTCAACTATGGTCTTA
48036710 CATAACGTCTTTCAACTATGGTCTTA
1 CATAACGTCTTTCAACTATGGTCTTA
48036736 C
1 C
48036737 TCATCTGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.11, T:0.38
Consensus pattern (26 bp):
CATAACGTCTTTCAACTATGGTCTTA
Found at i:48036729 original size:71 final size:71
Alignment explanation
Indices: 48036646--48036781 Score: 220
Period size: 71 Copynumber: 1.9 Consensus size: 71
48036636 TGCCATAGTA
**
48036646 TCTTTCAACTATGGTCTTACAT-ATCTGAATCGTGATGCCATAACGTCTTTCAACTATGGTCTTA
1 TCTTTCAACTATGGTCTTAC-TCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTA
48036710 CATAACG
65 CATAACG
* *
48036717 TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTTAGCTATGGTCTTAC
1 TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTAC
48036782 TCATTTCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (71 bp):
TCTTTCAACTATGGTCTTACTCATCTGAATCACGATGCCATAACGTCTTTCAACTATGGTCTTAC
ATAACG
Found at i:48042995 original size:21 final size:21
Alignment explanation
Indices: 48042971--48043015 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
48042961 CAGTTTTAGC
*
48042971 ATTT-GGATTTAAGATTTTGAG
1 ATTTGGGATTCAA-ATTTTGAG
*
48042992 ATTTGGGATTCAATTTTTGAG
1 ATTTGGGATTCAAATTTTGAG
48043013 ATT
1 ATT
48043016 CAGGATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTTGGGATTCAAATTTTGAG
Found at i:48044896 original size:20 final size:20
Alignment explanation
Indices: 48044871--48044916 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
48044861 ATTTAATATC
*
48044871 TTAATGCTTTTTC-CTTACAT
1 TTAATGCATTTTCTC-TACAT
*
48044891 TTAATGCATTTTCTCTGCAT
1 TTAATGCATTTTCTCTACAT
48044911 TTAATG
1 TTAATG
48044917 TCTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (20 bp):
TTAATGCATTTTCTCTACAT
Found at i:48046495 original size:6 final size:6
Alignment explanation
Indices: 48046479--48046518 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
48046469 ACTTGCTGGA
*
48046479 TTTTGG ATTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
48046519 AAGTGCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.68
Consensus pattern (6 bp):
TTTTGG
Found at i:48046623 original size:43 final size:43
Alignment explanation
Indices: 48046560--48046658 Score: 162
Period size: 43 Copynumber: 2.3 Consensus size: 43
48046550 TTCTGCTGAC
* *
48046560 ATAACTTACTCAAAATAGTATATTTAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
48046603 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
*
48046646 CTATACTTACTCA
1 ATA-ACTTACTCA
48046659 TTAGATAACT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 43 0.83
44 9 0.17
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (43 bp):
ATAACTTACTCAAAACAGTATATTCAAACTAATCTTTGAAGGG
Found at i:48049017 original size:34 final size:34
Alignment explanation
Indices: 48048972--48049063 Score: 116
Period size: 34 Copynumber: 2.7 Consensus size: 34
48048962 AGTATTTTTT
*
48048972 AAAATTAATTAAATTAGGGTTTA-ATGATTTTAA-
1 AAAAGTAATTAAATTAGGGTTTAGA-GATTTTAAG
* *
48049005 ATAAAGTAATTAAATTAGAGTTTAGAGTTTTTAAG
1 A-AAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
*
48049040 AAAATTAATTAAATTAGGGTTTAG
1 AAAAGTAATTAAATTAGGGTTTAG
48049064 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 48 0.94
35 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (34 bp):
AAAAGTAATTAAATTAGGGTTTAGAGATTTTAAG
Found at i:48049420 original size:125 final size:124
Alignment explanation
Indices: 48049154--48049499 Score: 411
Period size: 125 Copynumber: 2.8 Consensus size: 124
48049144 GAAGACGGTT
* * *
48049154 CTGAA-AAGATAATGTCAAAAACGCTTCAAGTAGTATGCACTATCA-CAAAAATTACTGAAAAAA
1 CTGAACAA-ATAATGTCAAAAACGTTTCAAGAAG-ATGCACTGTCAGC-AAAATTACTGAAAAAA
* * * * * * * *
48049217 GCT-----TTAGACGCTCTTTTTCTACAGTAATTCCTAAAAAAATAATTTTGAGAAGACGGTT
63 GCTCCCACATGGACGCTCTTTTTCTACAATAGTT-CTTAAAAAATAATTTTGAGAAAACAGTC
*
48049275 CTGAACAAATAGTGTCAAAAACGTTTCAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGC
1 CTGAACAAATAATGTCAAAAACGTTTCAAG-AAGATGCACTGTCAGCAAAATTACTGAAAAAAGC
*
48049340 TCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
65 TCCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
* * * *
48049400 CTGAACAAATAATGTTAAAAACGCTTTAAATAGGATGCACTGTCAGCAAAATTGA-TGAAAAAAG
1 CTGAACAAATAATGTCAAAAACG-TTTCAAGAAGATGCACTGTCAGCAAAATT-ACTGAAAAAAG
*
48049464 CTCCCACATGGATGCTCTTTTTCTACAATAGTTCTT
64 CTCCCACATGGACGCTCTTTTTCTACAATAGTTCTT
48049500 GTTTGGCCTT
Statistics
Matches: 196, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
121 54 0.28
122 5 0.03
125 109 0.56
126 28 0.14
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (124 bp):
CTGAACAAATAATGTCAAAAACGTTTCAAGAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCT
CCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
Found at i:48060221 original size:24 final size:23
Alignment explanation
Indices: 48060165--48060221 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
48060155 AAGAACTTCT
*
48060165 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
48060188 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
48060213 ACTTTTATT
1 A-TTTTATT
48060222 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:48062430 original size:30 final size:30
Alignment explanation
Indices: 48062396--48062460 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
48062386 ATTAATTAAA
*
48062396 GAGAGATTTGAGAAATTTAAAAAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
* * ***
48062426 GAGAGCTTTGTGAAATCTAGGGAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
48062456 GAGAG
1 GAGAG
48062461 CTTTTTTGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (30 bp):
GAGAGATTTGAGAAATCTAAAAAGAAATTT
Found at i:48070128 original size:21 final size:21
Alignment explanation
Indices: 48070102--48070143 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48070092 TACTTTTTCA
48070102 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
48070123 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
48070144 CAATTTGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCAACTATGTCTGTATACCT
Found at i:48072877 original size:27 final size:27
Alignment explanation
Indices: 48072846--48072919 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
48072836 GTTTATGGGT
48072846 TTAAGG-TTAGGGTTTTTGAAAAAAAAA
1 TTAAGGTTTAGGGTTTTT-AAAAAAAAA
* * * * *
48072873 TTAAGGTTTATGATTTTTTAAGATAAA
1 TTAAGGTTTAGGGTTTTTAAAAAAAAA
48072900 TTAAGGTTTAGGGTTTTTAA
1 TTAAGGTTTAGGGTTTTTAA
48072920 GATATTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.43
Consensus pattern (27 bp):
TTAAGGTTTAGGGTTTTTAAAAAAAAA
Found at i:48079333 original size:43 final size:43
Alignment explanation
Indices: 48079285--48079432 Score: 190
Period size: 43 Copynumber: 3.4 Consensus size: 43
48079275 TGTAATTATA
* *
48079285 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTACG
* *
48079328 TGTAAGACCATGTCTGAGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* * * *
48079371 TGTAAGACCATGTCTGGGACATTGACATCGATATATGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* *
48079414 TGTAAGACTATATCTGGGA
1 TGTAAGACCATGTCTGGGA
48079433 TATGACATTG
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 90 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
Found at i:48100436 original size:27 final size:27
Alignment explanation
Indices: 48100406--48100492 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
48100396 GTGACGAAGT
*
48100406 CACCAGATACAGATATTGTGGAAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
48100433 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
48100460 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
48100487 CACCAG
1 CACCAG
48100493 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 8 0.15
27 45 0.82
28 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:48102148 original size:26 final size:26
Alignment explanation
Indices: 48102114--48102221 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
48102104 TGAAATGCCC
48102114 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
48102140 ATCACGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
48102166 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
48102192 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
48102218 ATCA
1 ATCA
48102222 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 4 0.05
26 67 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:48102838 original size:34 final size:34
Alignment explanation
Indices: 48102800--48102908 Score: 80
Period size: 34 Copynumber: 3.1 Consensus size: 34
48102790 GACTCGTTCA
48102800 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
1 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
* * * ** *
48102834 ACTAGCGTTAGGCATAA-TA--ATTTGTTGACTCGTTCA
1 ACTAGTGCTAGGCACAACTATCATCGGTT-A-TC---CG
* *
48102870 ACTAGTGCTGGGCACAACTATCTTCGGTTATCCG
1 ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
48102904 ACTAG
1 ACTAG
48102909 CACTGGGAAC
Statistics
Matches: 53, Mismatches: 14, Indels: 16
0.64 0.17 0.19
Matches are distributed among these distances:
31 5 0.09
32 1 0.02
33 4 0.08
34 20 0.38
36 14 0.26
37 4 0.08
38 1 0.02
39 4 0.08
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (34 bp):
ACTAGTGCTAGGCACAACTATCATCGGTTATCCG
Found at i:48102854 original size:70 final size:70
Alignment explanation
Indices: 48102738--48102978 Score: 338
Period size: 70 Copynumber: 3.4 Consensus size: 70
48102728 TAATTCTTGG
* ** *
48102738 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTTGGTGTGATAATTTGTTGACTCGTTCAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGAATAATAATTTGTTGACTCGTTCAACT
48102803 AGTGC
66 AGTGC
* *
48102808 TAGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGCATAATAATTTGTTGACTCGTTCAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGAATAATAATTTGTTGACTCGTTCAACT
48102873 AGTGC
66 AGTGC
* ** * * * * *
48102878 TGGGCACAACTATCTTCGGTTATCCGACTAGCACTGGGAACAATAATTTGTCGACTTGTTCGACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGAATAATAATTTGTTGACTCGTTCAACT
48102943 AGTGC
66 AGTGC
* *
48102948 TGGGCACAACAATCATCGGTTATCTGACTAG
1 TGGGCACAACTATCATCGGTTATCCGACTAG
48102979 AGCTGGGCGC
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 153 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (70 bp):
TGGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGAATAATAATTTGTTGACTCGTTCAACT
AGTGC
Found at i:48102915 original size:34 final size:33
Alignment explanation
Indices: 48102877--48102986 Score: 78
Period size: 34 Copynumber: 3.2 Consensus size: 33
48102867 TCAACTAGTG
48102877 CTGGGCACAACTATCTTCGGTTATCCGACTAGCA
1 CTGGGCACAACTATCTTCGGTTATCCGACTAG-A
* * * * * *
48102911 CTGGGAACAA-TAATTTGTCGACTTGTTCGACTAGTG
1 CTGGGCACAACT-ATCT-TCG-GTTATCCGACTAG-A
* * *
48102947 CTGGGCACAACAATCATCGGTTATCTGACTAGA
1 CTGGGCACAACTATCTTCGGTTATCCGACTAGA
48102980 GCTGGGC
1 -CTGGGC
48102987 GCAATAATTT
Statistics
Matches: 55, Mismatches: 16, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
33 1 0.02
34 27 0.49
35 6 0.11
36 21 0.38
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (33 bp):
CTGGGCACAACTATCTTCGGTTATCCGACTAGA
Found at i:48102951 original size:36 final size:36
Alignment explanation
Indices: 48102844--48103025 Score: 97
Period size: 36 Copynumber: 5.2 Consensus size: 36
48102834 ACTAGCGTTA
* * * *
48102844 GGCATAATAATTTGTTGACTCGTTCAACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
* * * * **
48102880 GGCACAACT-ATCT-TCG-GTTATCCGACTAGCACTG
1 GGCACAA-TAATTTGTCGACTTGTTCGACTAGTGCTG
*
48102914 GGAACAATAATTTGTCGACTTGTTCGACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
* ** * * *
48102950 GGCACAACAA-TCATCG-GTT-ATCTGACTAGAGCTG
1 GGCACAATAATTTGTCGACTTGTTC-GACTAGTGCTG
* ** * **
48102984 GGCGCAATAATTTGTTAACTTTTTTTACTAGTGCTG
1 GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
48103020 GGCACA
1 GGCACA
48103026 CAAATAATCT
Statistics
Matches: 102, Mismatches: 36, Indels: 16
0.66 0.23 0.10
Matches are distributed among these distances:
33 3 0.03
34 40 0.39
35 11 0.11
36 46 0.45
37 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
GGCACAATAATTTGTCGACTTGTTCGACTAGTGCTG
Found at i:48102985 original size:70 final size:70
Alignment explanation
Indices: 48102738--48103025 Score: 335
Period size: 70 Copynumber: 4.1 Consensus size: 70
48102728 TAATTCTTGG
* * * ****
48102738 TGGGCACAACTATCATCGGTTATCCGACTAGCGTTTGGTGTGATAATTTGTTGACTCGTTCAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGAGCTGGGCACAATAATTTGTTGACTCGTTCAACT
48102803 AGTGC
66 AGTGC
* * * * *
48102808 TAGGCACAACTATCATCGGTTATCCGACTAGCGTTAGGCATAATAATTTGTTGACTCGTTCAACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGAGCTGGGCACAATAATTTGTTGACTCGTTCAACT
48102873 AGTGC
66 AGTGC
* * * * *
48102878 TGGGCACAACTATCTTCGGTTATCCGACTAGCA-CTGGGAACAATAATTTGTCGACTTGTTCGAC
1 TGGGCACAACTATCATCGGTTATCCGACTAG-AGCTGGGCACAATAATTTGTTGACTCGTTCAAC
48102942 TAGTGC
65 TAGTGC
* * * * ** **
48102948 TGGGCACAACAATCATCGGTTATCTGACTAGAGCTGGGCGCAATAATTTGTTAACTTTTTTTACT
1 TGGGCACAACTATCATCGGTTATCCGACTAGAGCTGGGCACAATAATTTGTTGACTCGTTCAACT
48103013 AGTGC
66 AGTGC
48103018 TGGGCACA
1 TGGGCACA
48103026 CAAATAATCT
Statistics
Matches: 191, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
69 1 0.01
70 190 0.99
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (70 bp):
TGGGCACAACTATCATCGGTTATCCGACTAGAGCTGGGCACAATAATTTGTTGACTCGTTCAACT
AGTGC
Found at i:48114519 original size:27 final size:26
Alignment explanation
Indices: 48114480--48114546 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
48114470 GGGACCAATT
* * * *
48114480 TGCTCACATGAGCTGACATATCTAGGC
1 TGCTCACACGAGCT-ACAAACCAAGGC
* *
48114507 TGCTCACACGAGCTTCAAACCAAGGT
1 TGCTCACACGAGCTACAAACCAAGGC
48114533 TGCTCACACGAGCT
1 TGCTCACACGAGCT
48114547 TAGTTTGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 21 0.62
27 13 0.38
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (26 bp):
TGCTCACACGAGCTACAAACCAAGGC
Found at i:48119141 original size:33 final size:33
Alignment explanation
Indices: 48119098--48119268 Score: 175
Period size: 33 Copynumber: 5.2 Consensus size: 33
48119088 GTGTACGTTT
* **
48119098 CTTTCCAAATGGTACACACAAAGTATACCTTTC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* * **
48119131 CTTTTCAAATGGTATACACTAAGTATACCTTTC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
*
48119164 CTTTTCAAATGGTATACACAAAGTATACCTAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* * * ** *
48119197 ATTTCCAAGT-GTACACACAAAGTGCACATAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
* * *
48119229 CTTTTCAAGT-GTACACACAAAGTGTACATAAC
1 CTTTTCAAATGGTACACACAAAGTATACCTAAC
48119261 CTTTTCAA
1 CTTTTCAA
48119269 GTGTACCATT
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
32 55 0.45
33 67 0.55
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (33 bp):
CTTTTCAAATGGTACACACAAAGTATACCTAAC
Found at i:48119238 original size:32 final size:32
Alignment explanation
Indices: 48119109--48119274 Score: 152
Period size: 32 Copynumber: 5.1 Consensus size: 32
48119099 TTTCCAAATG
* * ** *
48119109 GTACACACAAAGTATACCTTTCCTTTTCAAAT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
* * * * ** *
48119141 GGTATACACTAAGTATACCTTTCCTTTTCAAAT
1 -GTACACACAAAGTGTACATAACCTTTTCAAGT
* * * * *
48119174 GGTATACACAAAGTATACCTAACATTTCCAAGT
1 -GTACACACAAAGTGTACATAACCTTTTCAAGT
*
48119207 GTACACACAAAGTGCACATAACCTTTTCAAGT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
48119239 GTACACACAAAGTGTACATAACCTTTTCAAGT
1 GTACACACAAAGTGTACATAACCTTTTCAAGT
48119271 GTAC
1 GTAC
48119275 CATTTGGGTA
Statistics
Matches: 118, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
32 61 0.52
33 57 0.48
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (32 bp):
GTACACACAAAGTGTACATAACCTTTTCAAGT
Found at i:48130658 original size:17 final size:17
Alignment explanation
Indices: 48130619--48130665 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
48130609 TTCACCCCCA
* *
48130619 TCCTTTCTTTTCCACTTT
1 TCCTTTCTATT-CTCTTT
*
48130637 T-CTTTCTCTTCTCTTT
1 TCCTTTCTATTCTCTTT
48130653 TCCTTTCTATTCT
1 TCCTTTCTATTCT
48130666 ATTCTTCTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 6 0.24
17 18 0.72
18 1 0.04
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (17 bp):
TCCTTTCTATTCTCTTT
Found at i:48136939 original size:17 final size:17
Alignment explanation
Indices: 48136914--48136949 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48136904 TAGAATTGGG
* *
48136914 TTGAGAAAATTATTTAA
1 TTGACAAAATTAATTAA
48136931 TTGACAAAATTAATTAA
1 TTGACAAAATTAATTAA
48136948 TT
1 TT
48136950 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (17 bp):
TTGACAAAATTAATTAA
Found at i:48143330 original size:40 final size:40
Alignment explanation
Indices: 48143275--48143446 Score: 191
Period size: 40 Copynumber: 4.3 Consensus size: 40
48143265 ACGCTTGGAC
* * * * *
48143275 AAAAAACGCCGCTATAGATTGAGTATTAGTGATGCTTTCT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* * * *
48143315 AAAAAACGCTGCTATAGGTCGACCATTAGCGGCGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* *
48143355 GAAAAACGCCGCTATAGATCGAGCACTAGCGGTGCTTTTT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
* * * * *
48143395 CAAAAACACTGCTATAGATCGAGCTTTAGCGGTGCTTTGT
1 AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
*
48143435 AAAAAAAGCCGC
1 AAAAAACGCCGC
48143447 AAAAACATTT
Statistics
Matches: 107, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (40 bp):
AAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTT
Found at i:48143915 original size:15 final size:14
Alignment explanation
Indices: 48143878--48143916 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
48143868 GTAGTTAGGA
*
48143878 GTTAGGGGTTAAGG
1 GTTAGGGTTTAAGG
48143892 GTTATGGGTTTAAGG
1 GTTA-GGGTTTAAGG
48143907 GTTTAGGGTT
1 G-TTAGGGTT
48143917 ATATTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (14 bp):
GTTAGGGTTTAAGG
Found at i:48148991 original size:69 final size:69
Alignment explanation
Indices: 48148918--48149063 Score: 168
Period size: 69 Copynumber: 2.1 Consensus size: 69
48148908 TTGTGAACCC
* * * * *
48148918 TAAAATGAT-GATTAAGAGCTTTTAACTCTCACTAATTGTTTGGGGCTACAGTGTTTAACCTGCA
1 TAAAATGATAG-TTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCA
48148982 AGCCA
65 AGCCA
* * * * ** *
48148987 TAAAATTATAGTTGATAGCTTTTAACTATCGCTAACTATTTGAGGCTGTAGTGCTTAACCTGCGA
1 TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCAA
48149052 GCCA
66 GCCA
48149056 TAAAATGA
1 TAAAATGA
48149064 CACTCGCTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (69 bp):
TAAAATGATAGTTAAGAGCTTTTAACTATCACTAACTATTTGAGGCTACAGTGCTTAACCTGCAA
GCCA
Found at i:48149128 original size:121 final size:121
Alignment explanation
Indices: 48148949--48149186 Score: 300
Period size: 121 Copynumber: 2.0 Consensus size: 121
48148939 TTAACTCTCA
* * * *
48148949 CTAATTGTTTGGGGCTACAGTGTTTAACCTGCAAGCCATAAAATTATAGTTGATAGCTTTTAACT
1 CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAGTTGAGAGCTTTTAACT
* * * *
48149014 ATCGCTAACTATTTGAGGCTGTAGTGCTT-AACCTGCGAGCCATAAAATGACACTCG
66 ATCACTAACTATTTAAGGCTGCAGTG-TTCAACCTACGAGCCATAAAATGACACTCG
* * * *
48149070 CTAATTGTTTAGGGTTGCACTGTTTAACTTGCAAGTCATAAAATTACAGCTTG-GAGCTTTTAAC
1 CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAG-TTGAGAGCTTTTAAC
* * * *
48149134 TCTCACTAATTATTTAAGGTTGCCGTGTTCAACCTACGAGCCATAAAATGACA
65 TATCACTAACTATTTAAGGCTGCAGTGTTCAACCTACGAGCCATAAAATGACA
48149187 GCTAGGAGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
120 2 0.02
121 94 0.95
122 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (121 bp):
CTAATTGTTTAGGGCTACACTGTTTAACCTGCAAGCCATAAAATTACAGTTGAGAGCTTTTAACT
ATCACTAACTATTTAAGGCTGCAGTGTTCAACCTACGAGCCATAAAATGACACTCG
Found at i:48149188 original size:69 final size:69
Alignment explanation
Indices: 48149070--48149355 Score: 326
Period size: 69 Copynumber: 4.1 Consensus size: 69
48149060 ATGACACTCG
* * * *
48149070 CTAATTGTTTAGGGTTGCAC-TGTTTAACTTGCAAGTCATAAAATTACAGCTTGGAGCTTTTAAC
1 CTAATTGTTTAGGGTTGC-CGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAAC
48149134 TCTCA
65 TCTCA
* * * * *
48149139 CTAATTATTTAAGGTTGCCGTGTTCAACCTACGAGCCATAAAATGACAGCTAGGAGCTTTTAACT
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAACT
48149204 CTCA
66 CTCA
* * * * * *
48149208 CTAATTGTTTGGGGCTGCGGTGTTTAACCTGCAAGCCATGAAATGACAG-TTGAGAGTTTTTAAC
1 CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTG-GAGCTTTTAAC
*
48149272 TATCA
65 TCTCA
* * * *
48149277 CAAATTGTTTAGGGTTG-CGATGTTTAACCTATAAGCCATAAAATGATAGCTTAGAGCTTTTAAC
1 CTAATTGTTTAGGGTTGCCG-TGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAAC
*
48149341 TCTCG
65 TCTCA
*
48149346 CTAACTGTTT
1 CTAATTGTTT
48149356 TGTTTTTTAA
Statistics
Matches: 178, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
68 4 0.02
69 172 0.97
70 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (69 bp):
CTAATTGTTTAGGGTTGCCGTGTTTAACCTACAAGCCATAAAATGACAGCTTGGAGCTTTTAACT
CTCA
Found at i:48151383 original size:41 final size:40
Alignment explanation
Indices: 48151338--48151427 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
48151328 AAACAGGTTT
*
48151338 TTAGCGGCGTTTGAACGAAAAACGCCACTATAG-ATCGAGCA
1 TTAGCGGCGTTT-AACGAAAAACGCCACTAAAGAAT-GAGCA
** **
48151379 TTAGCGGCGTTTTTCTTAAAACGCCACTAAAGAATGAGCA
1 TTAGCGGCGTTTAACGAAAAACGCCACTAAAGAATGAGCA
48151419 TTAGCGGCG
1 TTAGCGGCG
48151428 CTTTTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.67
41 14 0.33
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGTTTAACGAAAAACGCCACTAAAGAATGAGCA
Found at i:48151407 original size:40 final size:41
Alignment explanation
Indices: 48151356--48151433 Score: 124
Period size: 40 Copynumber: 1.9 Consensus size: 41
48151346 GTTTGAACGA
*
48151356 AAAACGCCACTATAG-ATCGAGCATTAGCGGCG-TTTTTCTT
1 AAAACGCCACTAAAGAAT-GAGCATTAGCGGCGCTTTTTCTT
48151396 AAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTT
1 AAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTT
48151434 AAAAAGCGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAACGCCACTAAAGAATGAGCATTAGCGGCGCTTTTTCTT
Found at i:48151744 original size:39 final size:39
Alignment explanation
Indices: 48151649--48151749 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 39
48151639 CTTTTTGTGG
* * *
48151649 CTTTAGTGGCGCTTTTTAAAAAATGCCGCTATAAATTCAC
1 CTTTAGCGGCG-TTTTTAAAAAACGCCGCTATAAACTCAC
* *
48151689 CTTTAGCTGTGC-TTTTTAAAAAACGCCGCTA-ATACTCAAT
1 CTTTAGC-G-GCGTTTTTAAAAAACGCCGCTATAAACTC-AC
48151729 CTTTAGCGGCGTTTTTAAAAA
1 CTTTAGCGGCGTTTTTAAAAA
48151750 CTCCACAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
38 2 0.04
39 15 0.29
40 32 0.62
41 1 0.02
42 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (39 bp):
CTTTAGCGGCGTTTTTAAAAAACGCCGCTATAAACTCAC
Found at i:48152816 original size:17 final size:18
Alignment explanation
Indices: 48152788--48152822 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48152778 AATGAATAAT
*
48152788 ATTTTCCATAATCTTTAA
1 ATTTTCCATAATATTTAA
48152806 ATTTT-CATAATATTTAA
1 ATTTTCCATAATATTTAA
48152823 TTATTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTTCCATAATATTTAA
Found at i:48153750 original size:24 final size:26
Alignment explanation
Indices: 48153718--48153781 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 26
48153708 TTTTTTTTGA
48153718 ATTTTCCA-G-ATCTCATCTATAGGT
1 ATTTTCCAGGAATCTCATCTATAGGT
*
48153742 ATTTTCCAGCAGGNATCTCATCTATAGGT
1 ATTTT-C--CAGGAATCTCATCTATAGGT
48153771 ATTTTCC-GGAA
1 ATTTTCCAGGAA
48153782 GGAATTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
24 5 0.15
25 4 0.12
26 1 0.03
27 2 0.06
28 2 0.06
29 20 0.59
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (26 bp):
ATTTTCCAGGAATCTCATCTATAGGT
Found at i:48155905 original size:22 final size:22
Alignment explanation
Indices: 48155878--48155921 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48155868 GATTAATATT
*
48155878 TTATATTTAATATTTATAAATA
1 TTATATATAATATTTATAAATA
* *
48155900 TTATATATAATTTTTTTAAATA
1 TTATATATAATATTTATAAATA
48155922 AAAATAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATATATAATATTTATAAATA
Found at i:48157184 original size:43 final size:43
Alignment explanation
Indices: 48157102--48157292 Score: 211
Period size: 43 Copynumber: 4.4 Consensus size: 43
48157092 TTAAAATTTT
* ** * ** *
48157102 ATGACCTTTAGCGGCGTTTTTAAGAGAAGCATTGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
*
48157145 ATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
* *
48157188 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
*** * * * *
48157231 ATGACCTTTAGTAACATTTGTGGGAAAAGAGCCGTTAAAGGTT
1 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
**
48157274 ATGACCTTTAATGGCGTTT
1 ATGACCTTTAGCGGCGTTT
48157293 CCTATAGCGT
Statistics
Matches: 124, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCTGTTAAAGGTC
Found at i:48157202 original size:86 final size:86
Alignment explanation
Indices: 48157102--48157292 Score: 247
Period size: 86 Copynumber: 2.2 Consensus size: 86
48157092 TTAAAATTTT
* * * ** *
48157102 ATGACCTTTAGCGGCGTTTTTAAGAGAAGCATTGCTAAAGGTCATGATCTTTAGCGGCGTTTGTG
1 ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
* *
48157167 GGAAAAGCGCTGTTAAAGGTC
66 GGAAAAGAGCCGTTAAAGGTC
** * *
48157188 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGGTCATGACCTTTAGTAACATTTGTG
1 ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
*
48157253 GGAAAAGAGCCGTTAAAGGTT
66 GGAAAAGAGCCGTTAAAGGTC
**
48157274 ATGACCTTTAATGGCGTTT
1 ATGACCTTTAGCGGCGTTT
48157293 CCTATAGCGT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
86 90 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (86 bp):
ATGACCTTTAGCGGCGTTTGTAAGAAAAGCATTGCTAAAGGTCATGACCTTTAGCAACATTTGTG
GGAAAAGAGCCGTTAAAGGTC
Found at i:48180794 original size:29 final size:29
Alignment explanation
Indices: 48180753--48180810 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
48180743 AAAGATATCC
48180753 TCCTCGAGGGATTGAAGCTTTATTATTGA
1 TCCTCGAGGGATTGAAGCTTTATTATTGA
48180782 TCCTCGAGGGATTGAAGCTTTATTATTGA
1 TCCTCGAGGGATTGAAGCTTTATTATTGA
48180811 AGGACTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (29 bp):
TCCTCGAGGGATTGAAGCTTTATTATTGA
Found at i:48181996 original size:6 final size:6
Alignment explanation
Indices: 48181985--48182015 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
48181975 ACGCTAGAAG
48181985 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
48182016 AGGTAAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:48197591 original size:18 final size:19
Alignment explanation
Indices: 48197565--48197603 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
48197555 TTATATGTAT
48197565 TGACAATTTTTG-AAAGCA
1 TGACAATTTTTGTAAAGCA
*
48197583 TGACTATTTTTGTAAAGCA
1 TGACAATTTTTGTAAAGCA
48197602 TG
1 TG
48197604 TTTGACATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (19 bp):
TGACAATTTTTGTAAAGCA
Found at i:48200892 original size:81 final size:82
Alignment explanation
Indices: 48200736--48200935 Score: 203
Period size: 80 Copynumber: 2.5 Consensus size: 82
48200726 AATACTCAAT
* * *
48200736 ATCTCGCACACTAAGTGCCAAAGCAT-GACTGAAGCTATTATAATTTCGCACACTAAGTGCCTTT
1 ATCTCGCACACTAAGTGCCATA-TATAG-CTGAAGCTATTACAATTTCGCACACTAAGTGCCTTT
*
48200800 CATAGCTGAAGCTATCTC-
64 CATAGCCGAAGCTATCTCG
* * *
48200818 AGTCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTCCGA-TTCGTACACTAAGTG-CTTTA
1 A-TCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTACAATTTCGCACACTAAGTGCCTTT-
* *
48200881 TATAGCCGAAGCTATTTCG
64 CATAGCCGAAGCTATCTCG
* ** **
48200900 AT-TTGCACACTAAGTGCTTTATATAGCCAAAGCTAT
1 ATCTCGCACACTAAGTGCCATATATAGCTGAAGCTAT
48200936 CTCGATACGC
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
80 33 0.33
81 30 0.30
82 16 0.16
83 21 0.21
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (82 bp):
ATCTCGCACACTAAGTGCCATATATAGCTGAAGCTATTACAATTTCGCACACTAAGTGCCTTTCA
TAGCCGAAGCTATCTCG
Found at i:48200941 original size:40 final size:40
Alignment explanation
Indices: 48200780--48200956 Score: 189
Period size: 40 Copynumber: 4.4 Consensus size: 40
48200770 CTATTATAAT
* *
48200780 TTCGCACACTAAGTGCCTTT-CATAGCTGAAGCTATCTC-A
1 TTCGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCGA
** *
48200819 GTCTCGCACACTAAGTGCCATATATAGCTGAAGCTAT-TCCGA
1 -T-TCGCACACTAAGTGCTTTATATAGCCGAAGCTATCT-CGA
* *
48200861 TTCGTACACTAAGTGCTTTATATAGCCGAAGCTATTTCGA
1 TTCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGA
* *
48200901 TTTGCACACTAAGTGCTTTATATAGCCAAAGCTATCTCGA
1 TTCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGA
* * *
48200941 TACGCAAATTAAGTGC
1 TTCGCACACTAAGTGC
48200957 CAAACATAAC
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 85 0.73
41 31 0.26
42 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (40 bp):
TTCGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGA
Found at i:48202507 original size:14 final size:14
Alignment explanation
Indices: 48202488--48202528 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
48202478 AAAGAAAGAA
48202488 AAACAAATAGAAAG
1 AAACAAATAGAAAG
*
48202502 AAACAAA-AGCAA-
1 AAACAAATAGAAAG
48202514 AAACGAAATAGAAAG
1 AAAC-AAATAGAAAG
48202529 GGAAAGGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 11 0.50
ACGTcount: A:0.71, C:0.10, G:0.15, T:0.05
Consensus pattern (14 bp):
AAACAAATAGAAAG
Found at i:48203485 original size:41 final size:40
Alignment explanation
Indices: 48203441--48203575 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
48203431 GACTTCGAGT
*
48203441 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATTAATC
* * * *
48203482 CGATAAGACATTGGGTGCCAA-T-TTACTTCGGTTTAA-C
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
* *
48203519 CGATGAGACACTGGGCGTCAATCTATTACTTCGAATT-ATC
1 CGATGAGACACTGGGTGTCAAT-TATTACTTCGGATTAATC
* *
48203559 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
48203576 CCAAATTGGT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 17 0.22
38 13 0.17
39 3 0.04
40 25 0.33
41 18 0.24
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTAATC
Found at i:48206796 original size:46 final size:46
Alignment explanation
Indices: 48206729--48206910 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
48206719 GCTCTGTGAT
** * *
48206729 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
48206775 ATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
48206821 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGACAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
48206867 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
48206911 TCAAAGATAA
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:48206891 original size:92 final size:92
Alignment explanation
Indices: 48206739--48206910 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 92
48206729 ATGAAATGTG
* * * *
48206739 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACTATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGACATGAAATGAATAAGACCATAGTTGAAAGA
*
48206804 TACCATGGCAACATGACGGGAAATGAA
66 CACCATGGCAACATGACGGGAAATGAA
* * *
48206831 TAAGACCATGGTTGAAAGATACCATGACAGCGTGACA-GAAAATGAGTAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGACAACCTGACATG-AAATGAATAAGACCATAGTTGAAAG
* *
48206895 ACACTATGGCATCATG
65 ACACCATGGCAACATG
48206911 TCAAAGATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 1 0.01
92 68 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGACAACCTGACATGAAATGAATAAGACCATAGTTGAAAGA
CACCATGGCAACATGACGGGAAATGAA
Found at i:48219678 original size:16 final size:17
Alignment explanation
Indices: 48219659--48219692 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
48219649 CTTCGAGAAG
48219659 CTCAAGCT-TGTTCTGA
1 CTCAAGCTCTGTTCTGA
48219675 CTCAAGCTCCTGTTCTGA
1 CTCAAGCT-CTGTTCTGA
48219693 TGCAGCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (17 bp):
CTCAAGCTCTGTTCTGA
Found at i:48221644 original size:30 final size:30
Alignment explanation
Indices: 48221608--48221667 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
48221598 TTCTTTTAAG
*
48221608 GGGTAGAGTTATAACGCCCTGAATAATTTA
1 GGGTAGAGTTATAACACCCTGAATAATTTA
48221638 GGGTAGAGTTATAACACCCTGAATAATTTA
1 GGGTAGAGTTATAACACCCTGAATAATTTA
48221668 TTCCTATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (30 bp):
GGGTAGAGTTATAACACCCTGAATAATTTA
Found at i:48223199 original size:12 final size:12
Alignment explanation
Indices: 48223178--48223211 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48223168 TATATATTTT
*
48223178 AAAATTATATAA
1 AAAATAATATAA
48223190 AAAATAATATAA
1 AAAATAATATAA
*
48223202 AAATTAATAT
1 AAAATAATAT
48223212 GGGCGGGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:48224661 original size:21 final size:23
Alignment explanation
Indices: 48224637--48224679 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
48224627 ATAAATATTT
48224637 TATT-AATTAA-ATAAGATTTAA
1 TATTAAATTAATATAAGATTTAA
*
48224658 TATTAAATTAATATAATATTTA
1 TATTAAATTAATATAAGATTTA
48224680 TCAAGTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATTAAATTAATATAAGATTTAA
Found at i:48240117 original size:27 final size:27
Alignment explanation
Indices: 48240069--48240120 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
48240059 AATAATGACA
* *
48240069 ATATTAATAATGAAAAATAATAATAAT
1 ATATTAATAATAAAAAAAAATAATAAT
48240096 ATATTAATAA-AAATAAAAAATAATA
1 ATATTAATAATAAA-AAAAAATAATA
48240121 CGTTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (27 bp):
ATATTAATAATAAAAAAAAATAATAAT
Found at i:48240117 original size:30 final size:32
Alignment explanation
Indices: 48240081--48240165 Score: 86
Period size: 38 Copynumber: 2.6 Consensus size: 32
48240071 ATTAATAATG
48240081 AAAAATAATAATAATATATTAAT-A-AAAATA
1 AAAAATAATAATAATATATTAATGATAAAATA
48240111 AAAAATAATACGTTAATAATGATATTAATGATAAAATA
1 AAAAAT-A-A---TAATAAT-ATATTAATGATAAAATA
*
48240149 GAAAATAATAAT-ATATA
1 AAAAATAATAATAATATA
48240166 AGGATGATGA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
30 6 0.13
31 4 0.09
32 3 0.07
33 4 0.09
35 7 0.15
36 9 0.20
37 2 0.04
38 11 0.24
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (32 bp):
AAAAATAATAATAATATATTAATGATAAAATA
Found at i:48240129 original size:38 final size:38
Alignment explanation
Indices: 48240089--48240158 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
48240079 TGAAAAATAA
48240089 TAATAAT-ATATTAAT-A-AAAATAAAAAATAATACGT
1 TAATAATGATATTAATGATAAAATAAAAAATAATACGT
*
48240124 TAATAATGATATTAATGATAAAATAGAAAATAATA
1 TAATAATGATATTAATGATAAAATAAAAAATAATA
48240159 ATATATAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 7 0.23
36 8 0.26
37 1 0.03
38 15 0.48
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (38 bp):
TAATAATGATATTAATGATAAAATAAAAAATAATACGT
Found at i:48240130 original size:27 final size:25
Alignment explanation
Indices: 48240068--48240132 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
48240058 AAATAATGAC
*
48240068 AATATTAATAATGAAAAATAATAAT
1 AATATTAATAATGAAAAATAAAAAT
*
48240093 AATA-TATTAAT-AAAAATAAAAAAT
1 AATATTAATAATGAAAAAT-AAAAAT
48240117 AATACGTTAATAATGA
1 AATA--TTAATAATGA
48240133 TATTAATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
24 15 0.47
25 4 0.12
27 6 0.19
28 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (25 bp):
AATATTAATAATGAAAAATAAAAAT
Found at i:48240193 original size:3 final size:3
Alignment explanation
Indices: 48240187--48240586 Score: 64
Period size: 3 Copynumber: 133.7 Consensus size: 3
48240177 AGTATGTAGG
* * * *
48240187 TAA TAA TAA TAA -AA TAA TAA TAG TAA TAA TAA TAG TAG TAA -ATG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
48240231 TAA -AA AAA AAA T-A TAA GGTAA TGAA -AA TAA TATA GAA TTAA TTAA
1 TAA TAA TAA TAA TAA TAA --TAA T-AA TAA TAA TA-A TAA -TAA -TAA
* * * ** *
48240276 T-T TAA TAA T-A TGA TAA TAA TAG TAA TAA TAA -AA TAA TGC TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * ** *
48240321 TAA TCA TAA -ATA TAA TAG TAA CGA TAA AAA TAA TAA TAA CGA CAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
48240366 CAA -AA TAGA -AGA TAA TAA TAA T-A TAT TAA TAA -ACT TAA TAA T-A
1 TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
** * * * * * *
48240409 TGC TAA TAA TAA AAA TAA AAA TAA AAA TAA AAA GTTAA TAA TGA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA
* * * * * * * * *
48240456 TAC TGA TAG TAC TGA T-A TGAA -AA AAA TAG TAA TGA TAA T-A TAT
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
48240499 TAA TAA TAA TAG TAGA AAA TAA TAA TAAA TAA TAA TAA TAA TGA CAG
1 TAA TAA TAA TAA TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * *
48240546 TTA TAA TGAA -CA TAA TAA TAC TAA TAA TAAA TAA T-A TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
48240587 GTAAATACAA
Statistics
Matches: 280, Mismatches: 82, Indels: 70
0.65 0.19 0.16
Matches are distributed among these distances:
2 31 0.11
3 219 0.78
4 25 0.09
5 5 0.02
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:48240521 original size:13 final size:13
Alignment explanation
Indices: 48240490--48240539 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
48240480 AATAGTAATG
*
48240490 ATAATATATTAATA
1 ATAATA-ATAAATA
*
48240504 ATAATAGTAGAA-A
1 ATAATAATA-AATA
48240517 ATAATAATAAATA
1 ATAATAATAAATA
48240530 ATAATAATAA
1 ATAATAATAA
48240540 TGACAGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 2 0.06
13 21 0.68
14 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:48241262 original size:22 final size:22
Alignment explanation
Indices: 48241216--48241262 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
48241206 GTTTATTACT
* *
48241216 AAAATATATAAAAAAAATAGTA
1 AAAATATATAAAAAAAAGAGCA
48241238 AAAATATA-AATAAAAAAGAGCA
1 AAAATATATAA-AAAAAAGAGCA
48241260 AAA
1 AAA
48241263 TGGAACACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (22 bp):
AAAATATATAAAAAAAAGAGCA
Found at i:48242183 original size:44 final size:43
Alignment explanation
Indices: 48242135--48242583 Score: 173
Period size: 44 Copynumber: 10.2 Consensus size: 43
48242125 TACCTTGGGA
48242135 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTCA-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
48242179 AGATATGATCTGCA-ATTTTCAGCCTGCTCCACTGCTTCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
48242223 AGATAAGACTAATGGCTTAAATTTGCTTCCCCACTAC--CTT-GGG
1 AGATAAGATTCACGTCTTCAATCTGC-T--CCACTACTGCTTAGGG
* *
48242266 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATTC-ACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * *
48242311 AGATATGATCTGCA-ATCTTCAACCTGCTCCACTGCTGCTCAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * *
48242355 AGGTAAAATT-A-GTGGCTTAAATCTGCTTCTCTACTACCTCAGGA
1 AGATAAGATTCACGT--CTTCAATCTGCTCCACTACT-GCTTAGGG
* * * * *
48242399 AGATAAGATTCACCATCTTCGATCCGCTCCACCATTGCTTAGGG
1 AGATAAGATTCA-CGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * **
48242443 AGATAAGATCTGTA-ATCTTCAGTCTGCTCCACTGTTGCTTAGGG
1 AGATAAGAT-T-CACGTCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * * * *
48242487 AGATAAGGCT-A-GTGGCTTAAATCTGCTTCC-CCACTACCTCGGAA
1 AGATAAGATTCACGT--CTTCAATCTGC-TCCACTACTGCTTAGG-G
** * *
48242531 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGG
1 AGATAAGA-TTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
48242575 AGATAAGAT
1 AGATAAGAT
48242584 CTGTGAATTC
Statistics
Matches: 288, Mismatches: 88, Indels: 59
0.66 0.20 0.14
Matches are distributed among these distances:
41 4 0.01
42 8 0.03
43 43 0.15
44 174 0.60
45 46 0.16
46 10 0.03
47 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AGATAAGATTCACGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:48242200 original size:132 final size:132
Alignment explanation
Indices: 48242003--48242586 Score: 724
Period size: 132 Copynumber: 4.4 Consensus size: 132
48241993 TGCTTCATGG
* * * * * *
48242003 AGATAAGATTCGCCATCTTTGATCTGCTCCACTGCTACTCAGGGAGATAAGATCTACAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * * * * * *
48242068 GCTTGC-CCTACTGCTACTTAGGGAGATAAAGCTAGTGACTTAAATCTAC-GCCCCTGCTACCTT
66 GCCTGCTCC-ACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCC-ACTACCTC
48242131 GGGA
129 GGGA
* * * *
48242135 AGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATTTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * *
48242200 GCCTGCTCCACTGCTTCTCAGGGAGAT-AAGACTAATGGCTTAAATTTGCTTCCCCACTACCTTG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAG-CTAGTGGCTTAAATCTGCTTCCCCACTACCTCG
48242264 GGA
130 GGA
*
48242267 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATATGATCTGCAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * ** * * *
48242332 ACCTGCTCCACTGCTGCTCAGGGAGGTAAAATTAGTGGCTTAAATCTGCTTCTCTACTACCTCAG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
48242397 GA
131 GA
* * * * * *
48242399 AGATAAGATTCACCATCTTCGATCCGCTCCACCATTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
* * * *
48242464 GTCTGCTCCACTGTTGCTTAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
66 GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
*
48242529 AA
131 GA
* * *
48242531 AGATAAGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTG
1 AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
48242587 TGAATTCACC
Statistics
Matches: 388, Mismatches: 60, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
131 3 0.01
132 377 0.97
133 8 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCA
GCCTGCTCCACTGCTGCTCAGGGAGATAAAGCTAGTGGCTTAAATCTGCTTCCCCACTACCTCGG
GA
Found at i:48246919 original size:11 final size:11
Alignment explanation
Indices: 48246903--48246928 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48246893 TTTTATGGGG
48246903 ACGCAATATCA
1 ACGCAATATCA
48246914 ACGCAATATCA
1 ACGCAATATCA
48246925 ACGC
1 ACGC
48246929 TTAACCCAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.31, G:0.12, T:0.15
Consensus pattern (11 bp):
ACGCAATATCA
Found at i:48250469 original size:23 final size:23
Alignment explanation
Indices: 48250443--48250487 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48250433 TGGGTATGTG
*
48250443 ATGACTTTATCTT-ATAAATATGC
1 ATGAATTTATCTTGA-AAATATGC
48250466 ATGAATTTATCTTGAAAATATG
1 ATGAATTTATCTTGAAAATATG
48250488 TTGAATTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (23 bp):
ATGAATTTATCTTGAAAATATGC
Found at i:48254458 original size:15 final size:15
Alignment explanation
Indices: 48254429--48254458 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48254419 TTCTACTATA
48254429 ATTATATTTCTATTT
1 ATTATATTTCTATTT
*
48254444 ATTATATTTTTATTT
1 ATTATATTTCTATTT
48254459 CTATTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTATATTTCTATTT
Found at i:48254657 original size:25 final size:24
Alignment explanation
Indices: 48254596--48254657 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
48254586 TATAATGCTC
* *
48254596 ATTTCAAATTTTTATACATTATTT
1 ATTTCAAATTTTCATACATTATGT
*
48254620 ACTTT-AATATTTTCATATATTATGT
1 A-TTTCAA-ATTTTCATACATTATGT
48254645 ATTTCAAACTTTT
1 ATTTCAAA-TTTT
48254658 TTCCACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTCAAATTTTCATACATTATGT
Found at i:48262286 original size:30 final size:30
Alignment explanation
Indices: 48262228--48262287 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48262218 TTCCCGAGCC
*
48262228 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
* *
48262258 TAGGGGCAAAAGTGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGTGTAATTATACAAAAGTT
48262288 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATACAAAAGTT
Found at i:48272650 original size:227 final size:227
Alignment explanation
Indices: 48272249--48272657 Score: 683
Period size: 227 Copynumber: 1.8 Consensus size: 227
48272239 AATATTGCAT
* *
48272249 TGATTTACTGATTTTATCTGAGTTTTTTTATGTTATCTTGAATTATGGAATGCTTGTATGTTCTT
1 TGATTCACTGATTTTATCTGAGATTTTTTATGTTATCTTGAATTATGGAATGCTTGTATGTTCTT
* * * * *
48272314 AGGTCTTATGTAGCCTTTTTTCCATGAAAATTGAGCTTCCTTAGAAGTAGAGATGCAAAAAGGTT
66 AAGTCTTATGTAGCCTTTTTGCCATGAAAATTGAACTTCCTTAGAAGTAGACATACAAAAAGGTT
* *
48272379 TTGTTGGGAAATGTGTCTATATTCTACTAAACATGTAATTGTTTTCTATTTACATAATCAGAAAA
131 TTGTTGGGAAATGTGTCCATATTATACTAAACATGTAATTGTTTTCTATTTACATAATCAGAAAA
48272444 TTTTTGTTCATAAGGTAGCTCAAATGCAATTA
196 TTTTTGTTCATAAGGTAGCTCAAATGCAATTA
*
48272476 TGATTCACTGATTTTATCTGAGATTTTTTATGTTATCTTGAGTTATGGAATGCTTGTATGTTCTT
1 TGATTCACTGATTTTATCTGAGATTTTTTATGTTATCTTGAATTATGGAATGCTTGTATGTTCTT
* **
48272541 AAGTCTTATGTATCCTTTTTGCCATGAAAATTGAACTTCCTTAGAAGTAGACATACATGAAGGTT
66 AAGTCTTATGTAGCCTTTTTGCCATGAAAATTGAACTTCCTTAGAAGTAGACATACAAAAAGGTT
* *
48272606 TTGTTGGGAAATGTGTCCATATTATAGTGAACATGTAATTGTTTTCTATTTA
131 TTGTTGGGAAATGTGTCCATATTATACTAAACATGTAATTGTTTTCTATTTA
48272658 TTTGAACGAT
Statistics
Matches: 167, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
227 167 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.44
Consensus pattern (227 bp):
TGATTCACTGATTTTATCTGAGATTTTTTATGTTATCTTGAATTATGGAATGCTTGTATGTTCTT
AAGTCTTATGTAGCCTTTTTGCCATGAAAATTGAACTTCCTTAGAAGTAGACATACAAAAAGGTT
TTGTTGGGAAATGTGTCCATATTATACTAAACATGTAATTGTTTTCTATTTACATAATCAGAAAA
TTTTTGTTCATAAGGTAGCTCAAATGCAATTA
Found at i:48272727 original size:16 final size:16
Alignment explanation
Indices: 48272706--48272736 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48272696 TTCACTATTG
*
48272706 TGTCTTTTTTATTTTC
1 TGTCTTTTATATTTTC
48272722 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
48272737 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:48276502 original size:13 final size:13
Alignment explanation
Indices: 48276461--48276508 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
48276451 ATAATGAGTC
48276461 ATTATTTATCAAT
1 ATTATTTATCAAT
* *
48276474 ATGTTTTTGGTCAAT
1 AT-TATTT-ATCAAT
48276489 ATTATTTATCAAT
1 ATTATTTATCAAT
48276502 AATTATT
1 -ATTATT
48276509 GACTTGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 7 0.25
14 14 0.50
15 7 0.25
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.54
Consensus pattern (13 bp):
ATTATTTATCAAT
Found at i:48277370 original size:21 final size:21
Alignment explanation
Indices: 48277346--48277385 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48277336 TATTAAAGAT
48277346 TTAAATAACTTTTTT-TAATAA
1 TTAAATAA-TTTTTTATAATAA
*
48277367 TTAAATGATTTTTTATAAT
1 TTAAATAATTTTTTATAAT
48277386 TTTTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTAAATAATTTTTTATAATAA
Found at i:48281415 original size:22 final size:22
Alignment explanation
Indices: 48281372--48281415 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
48281362 CTTCCTGCAT
* *
48281372 TAAAATCCAACCAAATATAGTA
1 TAAAATCCAACCAAAAACAGTA
* *
48281394 TAAAATGCAGCCAAAAACAGTA
1 TAAAATCCAACCAAAAACAGTA
48281416 AATTTAGCAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAAATCCAACCAAAAACAGTA
Found at i:48281503 original size:31 final size:32
Alignment explanation
Indices: 48281465--48281531 Score: 127
Period size: 31 Copynumber: 2.1 Consensus size: 32
48281455 AGCATACTTC
48281465 AAATTTAACGAAAGATATATGATATAATTAA-
1 AAATTTAACGAAAGATATATGATATAATTAAT
48281496 AAATTTAACGAAAGATATATGATATAATTAAT
1 AAATTTAACGAAAGATATATGATATAATTAAT
48281528 AAAT
1 AAAT
48281532 AAAGTATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (32 bp):
AAATTTAACGAAAGATATATGATATAATTAAT
Found at i:48282195 original size:14 final size:14
Alignment explanation
Indices: 48282176--48282232 Score: 107
Period size: 14 Copynumber: 4.1 Consensus size: 14
48282166 TGATGAATTG
48282176 AATTAAACAATTAT
1 AATTAAACAATTAT
48282190 AATTAAACAATTAT
1 AATTAAACAATTAT
48282204 AATTAAACAATTAT
1 AATTAAACAATTAT
48282218 AATTAAAC-ATTAT
1 AATTAAACAATTAT
48282231 AA
1 AA
48282233 ATATTTAGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
13 7 0.16
14 36 0.84
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:48282372 original size:10 final size:9
Alignment explanation
Indices: 48282340--48282374 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
48282330 AAATTTTAAA
48282340 TATTTTTTT
1 TATTTTTTT
*
48282349 TATTATTTT
1 TATTTTTTT
48282358 TATTTTATTT
1 TATTTT-TTT
48282368 TATTTTT
1 TATTTTT
48282375 ATAAAGAACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (9 bp):
TATTTTTTT
Found at i:48283358 original size:48 final size:48
Alignment explanation
Indices: 48283297--48283691 Score: 655
Period size: 48 Copynumber: 8.2 Consensus size: 48
48283287 ATATACACAC
* * *
48283297 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
48283345 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
48283393 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
48283441 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
* * *
48283489 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
48283537 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
*
48283585 ATCTCATATATTTTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
* * * *
48283633 ATCTCACACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
48283681 ATCTCATATAT
1 ATCTCATATAT
48283692 TTTTATCTTG
Statistics
Matches: 324, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 324 1.00
ACGTcount: A:0.29, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
Found at i:48287451 original size:9 final size:9
Alignment explanation
Indices: 48287439--48287603 Score: 90
Period size: 9 Copynumber: 17.9 Consensus size: 9
48287429 ATTATTTATC
48287439 TTATGTAAA
1 TTATGTAAA
48287448 TTATGTAAGA
1 TTATGTAA-A
*
48287458 TATGATACGTCA-
1 T-T-AT--GTAAA
48287470 TTATGT-A-
1 TTATGTAAA
*
48287477 TTATGTAAG
1 TTATGTAAA
48287486 TTATGTAAA
1 TTATGTAAA
*
48287495 TTATGTAAG
1 TTATGTAAA
* **
48287504 TTATTTATC
1 TTATGTAAA
48287513 TTATGTAAA
1 TTATGTAAA
48287522 TTATGTAAGA
1 TTATGTAA-A
*
48287532 -TATGATACGTCA
1 TTATG-TA---AA
48287544 TTATGT--A
1 TTATGTAAA
*
48287551 TTATGTAAG
1 TTATGTAAA
48287560 TTATGTAAA
1 TTATGTAAA
*
48287569 TTATGTAAG
1 TTATGTAAA
* **
48287578 TTATTTATC
1 TTATGTAAA
48287587 TTATGTAAA
1 TTATGTAAA
48287596 TTATGTAA
1 TTATGTAA
48287604 GATATGATAT
Statistics
Matches: 122, Mismatches: 19, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
7 14 0.11
8 3 0.02
9 84 0.69
10 7 0.06
11 2 0.02
12 5 0.04
13 4 0.03
14 3 0.02
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAA
Found at i:48287626 original size:74 final size:74
Alignment explanation
Indices: 48287430--48287612 Score: 366
Period size: 74 Copynumber: 2.5 Consensus size: 74
48287420 GTACATATAA
48287430 TTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAA
1 TTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAA
48287495 TTATGTAAG
66 TTATGTAAG
48287504 TTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAA
1 TTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAA
48287569 TTATGTAAG
66 TTATGTAAG
48287578 TTATTTATCTTATGTAAATTATGTAAGATATGATA
1 TTATTTATCTTATGTAAATTATGTAAGATATGATA
48287613 TATATTTATG
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 109 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (74 bp):
TTATTTATCTTATGTAAATTATGTAAGATATGATACGTCATTATGTATTATGTAAGTTATGTAAA
TTATGTAAG
Found at i:48287844 original size:12 final size:13
Alignment explanation
Indices: 48287801--48287842 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
48287791 TTTTTCGTGA
48287801 TTAAAATAAAA--
1 TTAAAATAAAATT
48287812 -TAAAATAAAATAT
1 TTAAAATAAAAT-T
48287825 TTAAAATAAAATT
1 TTAAAATAAAATT
48287838 TTAAA
1 TTAAA
48287843 TACAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAAAATAAAATT
Found at i:48287849 original size:12 final size:12
Alignment explanation
Indices: 48287801--48287852 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
48287791 TTTTTCGTGA
48287801 TTAAAATAAAA-
1 TTAAAATAAAAT
48287812 -TAAAATAAAATAT
1 TTAAAAT-AAA-AT
48287825 TTAAAATAAAAT
1 TTAAAATAAAAT
* *
48287837 TTTAAATACAAT
1 TTAAAATAAAAT
48287849 TTAA
1 TTAA
48287853 TTTAATTAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 16 0.47
13 3 0.09
14 6 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAAATAAAAT
Found at i:48287883 original size:48 final size:48
Alignment explanation
Indices: 48287826--48287974 Score: 139
Period size: 48 Copynumber: 3.2 Consensus size: 48
48287816 ATAAAATATT
*
48287826 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAA
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAA
* * * * ** * * *
48287874 TAAAATAAAA--GTAGACAAAATATT--TTTCCTGA-TTAAAAT-AAAA
1 TAAAATAAAATTTTAAATACAAT-TTAATTTAATTAGGTAAATTAAAAA
* *
48287917 TAAAATAAAATTTTTAATACAATTTAATTTAATTAGGTAAATTAAAAT
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAA
48287965 TAAAATAAAA
1 TAAAATAAAA
48287975 GTAGACAAAA
Statistics
Matches: 73, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
43 14 0.19
44 6 0.08
45 11 0.15
46 12 0.16
47 7 0.10
48 23 0.32
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (48 bp):
TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAA
Found at i:48287917 original size:43 final size:43
Alignment explanation
Indices: 48287870--48288015 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
48287860 AGGTAATTTA
* *
48287870 AAAATAAAATAAAAGTAGACAAAATATTTTTCCTGATTAAAAT
1 AAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAATT
* * * * * *
48287913 AAAATAAAATAAAATTTTTA-ATACAAT-TTAATTTAATTAGGTAAATT
1 AAAATAAAATAAAA---GTAGACAAAATATT--TTTCATGA-TTAAATT
* *
48287960 AAAATTAAAATAAAAGTAGACAAAATATTTATCGTGATTAAATT
1 AAAA-TAAAATAAAAGTAGACAAAATATTTTTCATGATTAAATT
48288004 AAAATAAAATAA
1 AAAATAAAATAA
48288016 TATCTTCAAA
Statistics
Matches: 78, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 22 0.28
44 12 0.15
45 11 0.14
46 12 0.15
47 11 0.14
48 10 0.13
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (43 bp):
AAAATAAAATAAAAGTAGACAAAATATTTTTCATGATTAAATT
Found at i:48287924 original size:105 final size:104
Alignment explanation
Indices: 48287747--48288056 Score: 421
Period size: 105 Copynumber: 3.1 Consensus size: 104
48287737 AAGAATGATT
*
48287747 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGAGAAAATATTTTTCGTGATTAAAATAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATT-AAATAAAA
48287812 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
65 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
*
48287852 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCCTGA-T---TAAAAT
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAATAAAAT
48287913 AAAAT-AAA-A--TAAAAT----TTTT-AATACAATTTA
66 AAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
* * *
48287943 ATTTAATTAGGTAAATTAAAATTAAAATAAAAGTAGACAAAATATTTATCGTGATTAAATTAAAA
1 ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAA-TAAAA
* * * * *
48288008 TAAAATAATATCTTCAAAATAAAACTTTAATTACAATTTA
65 TAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
48288048 ATTTAATTA
1 ATTTAATTA
48288057 ATAAGGTTAA
Statistics
Matches: 180, Mismatches: 11, Indels: 28
0.82 0.05 0.13
Matches are distributed among these distances:
91 61 0.34
92 5 0.03
96 17 0.09
97 2 0.01
98 1 0.01
99 3 0.02
100 16 0.09
104 4 0.02
105 71 0.39
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (104 bp):
ATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAATAAAAT
AAAATAAAATATTTAAAATAAAATTTTAAATACAATTTA
Found at i:48287929 original size:91 final size:91
Alignment explanation
Indices: 48287826--48288015 Score: 326
Period size: 91 Copynumber: 2.1 Consensus size: 91
48287816 ATAAAATATT
*
48287826 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACA
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAATAAAATAAAAGTAGACA
*
48287891 AAATATTTTTCCTGATTAAAATAAAA
66 AAATATTTATCCTGATTAAAATAAAA
* *
48287917 TAAAATAAAATTTTTAATACAATTTAATTTAATTAGGTAAATTAAAATTAAAATAAAAGTAGACA
1 TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAATAAAATAAAAGTAGACA
* *
48287982 AAATATTTATCGTGATTAAATTAAAA
66 AAATATTTATCCTGATTAAAATAAAA
48288008 TAAAATAA
1 TAAAATAA
48288016 TATCTTCAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 93 1.00
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (91 bp):
TAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAAATTAAAAATAAAATAAAAGTAGACA
AAATATTTATCCTGATTAAAATAAAA
Found at i:48287990 original size:48 final size:47
Alignment explanation
Indices: 48287847--48287990 Score: 124
Period size: 48 Copynumber: 3.1 Consensus size: 47
48287837 TTTAAATACA
*
48287847 ATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAAT
1 ATTTAATTTAATTAGGTAAATT-AAAATAAAATAAAAGTAGACAAAAT
* * ** *
48287895 ATTT--TTCCTGATTA---AAA-TAAAATAAAATAAAATTTTTA-ATACA-
1 ATTTAATT--TAATTAGGTAAATTAAAATAAAATAAAA-GTAGACA-AAAT
48287938 ATTTAATTTAATTAGGTAAATTAAAATTAAAATAAAAGTAGACAAAAT
1 ATTTAATTTAATTAGGTAAATTAAAA-TAAAATAAAAGTAGACAAAAT
48287986 ATTTA
1 ATTTA
48287991 TCGTGATTAA
Statistics
Matches: 72, Mismatches: 11, Indels: 26
0.66 0.10 0.24
Matches are distributed among these distances:
43 24 0.33
44 5 0.07
45 4 0.06
46 5 0.07
47 9 0.12
48 25 0.35
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.36
Consensus pattern (47 bp):
ATTTAATTTAATTAGGTAAATTAAAATAAAATAAAAGTAGACAAAAT
Found at i:48291960 original size:206 final size:210
Alignment explanation
Indices: 48291662--48292083 Score: 683
Period size: 206 Copynumber: 2.0 Consensus size: 210
48291652 AAATATGCTT
*
48291662 TTCCTTTGAACCCAAAAATTATCGAGGAGATGAGCAGAGAAGAACTTACAGGTGTAAACGAAAAA
1 TTCCTTTGAACCCAAAAATTATCGAGGAGAGGAGCAGAGAAGAACTTACAGGTGTAAACGAAAAA
* *
48291727 GGAAAAAGTGGTTTTTTTCAGATGTCGAATTGGGGAATTTTAGAGATGAGCAGAT-G-A-GA-AG
66 GGAAAAAGGGGTTCTTTTCAGATGTCGAATTGGGGAATTTTAGAGATGAGCAGATAGAATGACAG
* *
48291788 AGAAGAACTTACAGGTGAATTTTAGAGATTTCAAACTGGGGAAGAAAGGGTTTTTTTCGGATGTC
131 AGAAGAACTTACAGGTAAATTTTAGAGATTTCAAACTGGGGAAGAAAGGGCTTTTTTCGGATGTC
48291853 AAATTGGGGAAAAAC
196 AAATTGGGGAAAAAC
48291868 TTCCTTTGAACCCAAAAATTATCGAGGAGAGGAGCAGAGAAGAACTTACAGGTGTAAACGAAAAA
1 TTCCTTTGAACCCAAAAATTATCGAGGAGAGGAGCAGAGAAGAACTTACAGGTGTAAACGAAAAA
*
48291933 GGCAAAAGGGGTTCTTTTC-GAATGTCGAATTGGGGAATTTTAGAGATGAGCAGATGAGCAGAAA
66 GGAAAAAGGGGTTCTTTTCAG-ATGTCGAATTGGGGAATTTTAGAGATGAGCAGAT----AG-AA
*
48291997 TGAGCAGAGAAGAACTTACAGGTAAATTTTAGAGATTTCAAACTGGGGAAGAAGGGGCTTTTTTC
125 TGA-CAGAGAAGAACTTACAGGTAAATTTTAGAGATTTCAAACTGGGGAAGAAAGGGCTTTTTTC
48292062 GGATGTCAAATTGGGGAAAAAC
189 GGATGTCAAATTGGGGAAAAAC
48292084 AAGTGATAAT
Statistics
Matches: 198, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
205 1 0.01
206 114 0.58
211 1 0.01
213 1 0.01
214 2 0.01
216 79 0.40
ACGTcount: A:0.37, C:0.11, G:0.28, T:0.24
Consensus pattern (210 bp):
TTCCTTTGAACCCAAAAATTATCGAGGAGAGGAGCAGAGAAGAACTTACAGGTGTAAACGAAAAA
GGAAAAAGGGGTTCTTTTCAGATGTCGAATTGGGGAATTTTAGAGATGAGCAGATAGAATGACAG
AGAAGAACTTACAGGTAAATTTTAGAGATTTCAAACTGGGGAAGAAAGGGCTTTTTTCGGATGTC
AAATTGGGGAAAAAC
Found at i:48292962 original size:21 final size:21
Alignment explanation
Indices: 48292936--48293009 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
48292926 CTAAACTTTA
48292936 AACCCTAAACCA-TGTACCCTT
1 AACCCTAAACCATTG-ACCCTT
* *
48292957 AACCCTTAACCCTTGACCCTT
1 AACCCTAAACCATTGACCCTT
* * * *
48292978 AACTCCTAGACCTTTAACCTTT
1 AAC-CCTAAACCATTGACCCTT
48293000 AACCCCTAAA
1 AA-CCCTAAA
48293010 TCTCTAAACC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
21 19 0.45
22 22 0.52
23 1 0.02
ACGTcount: A:0.31, C:0.38, G:0.04, T:0.27
Consensus pattern (21 bp):
AACCCTAAACCATTGACCCTT
Found at i:48292970 original size:7 final size:7
Alignment explanation
Indices: 48292908--48293033 Score: 67
Period size: 7 Copynumber: 17.3 Consensus size: 7
48292898 CAACTCATAG
48292908 CCCTTAGA
1 CCCTTA-A
48292916 CCCTTAA
1 CCCTTAA
*
48292923 CCCCTAA
1 CCCTTAA
* *
48292930 ACTTTAAA
1 CCCTT-AA
*
48292938 CCCTAAA
1 CCCTTAA
*
48292945 CCATGT-A
1 CCCT-TAA
48292952 CCCTTAA
1 CCCTTAA
48292959 CCCTTAA
1 CCCTTAA
*
48292966 CCCTTGA
1 CCCTTAA
48292973 CCCTTAA
1 CCCTTAA
48292980 CTCC-TAGA
1 C-CCTTA-A
*
48292988 CCTTTAA
1 CCCTTAA
*
48292995 CCTTTAA
1 CCCTTAA
*
48293002 CCCCTAA
1 CCCTTAA
**
48293009 ATCTCTAA
1 CCCT-TAA
*
48293017 ACCTTAA
1 CCCTTAA
48293024 CCCTTGAA
1 CCCTT-AA
48293032 CC
1 CC
48293034 ATAAATCATA
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
6 1 0.01
7 63 0.70
8 26 0.29
ACGTcount: A:0.30, C:0.38, G:0.04, T:0.28
Consensus pattern (7 bp):
CCCTTAA
Found at i:48292994 original size:15 final size:14
Alignment explanation
Indices: 48292958--48292996 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
48292948 TGTACCCTTA
*
48292958 ACCCTTAACCCTTG
1 ACCCTTAACCCTAG
48292972 ACCCTTAACTCCTAG
1 ACCCTTAAC-CCTAG
*
48292987 ACCTTTAACC
1 ACCCTTAACC
48292997 TTTAACCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.26, C:0.41, G:0.05, T:0.28
Consensus pattern (14 bp):
ACCCTTAACCCTAG
Found at i:48293023 original size:29 final size:28
Alignment explanation
Indices: 48292960--48293033 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
48292950 TACCCTTAAC
* * * *
48292960 CCTTAACCCTTGACCCTTAACTCCTAGA
1 CCTTAACCCTTAACCCCTAAATCCTAAA
*
48292988 CCTTTAACCTTTAACCCCTAAATCTCTAAA
1 CC-TTAACCCTTAACCCCTAAATC-CTAAA
48293018 CCTTAACCCTTGAACC
1 CCTTAACCCTT-AACC
48293034 ATAAATCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 2 0.05
29 25 0.68
30 10 0.27
ACGTcount: A:0.28, C:0.38, G:0.04, T:0.30
Consensus pattern (28 bp):
CCTTAACCCTTAACCCCTAAATCCTAAA
Found at i:48293113 original size:15 final size:14
Alignment explanation
Indices: 48293093--48293132 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
48293083 TATTAACTCA
48293093 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
48293108 TAAACCTTAAACCC
1 TAAACCATAAACCC
48293122 TAAACCCATAA
1 TAAA-CCATAA
48293133 TTCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:48293140 original size:22 final size:22
Alignment explanation
Indices: 48293090--48293147 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
48293080 AGATATTAAC
*
48293090 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
48293112 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
48293134 TCATAAACCTTAAA
1 TCATAAACCATAAA
48293148 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:48293181 original size:14 final size:14
Alignment explanation
Indices: 48293162--48293212 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
48293152 TAACTCATCA
48293162 TAAACTATAAACCC
1 TAAACTATAAACCC
*
48293176 TAAACTATATA-CC
1 TAAACTATAAACCC
* *
48293189 TAAACCATAAACCT
1 TAAACTATAAACCC
48293203 TAAACTATAA
1 TAAACTATAA
48293213 TGATAAGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACTATAAACCC
Found at i:48293579 original size:41 final size:41
Alignment explanation
Indices: 48293493--48293825 Score: 409
Period size: 41 Copynumber: 8.1 Consensus size: 41
48293483 TTTGTGGCAC
* * * * * *
48293493 TTTTTGAAAAAACGCCGCTATAAAT-AGAGCAATAGCGGTG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* *
48293533 TTTTTCAAAAAGCGCCGCTACAGATCTAAGCATTAGCGGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* *
48293574 TTTTTCAAAAAAGCGCTGCTATAGATTTGAGCATTAGCGGCG
1 TTTTTC-AAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
*
48293616 TTTTTCAATAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* * *
48293657 TTTTTCAATAAGCGCCGCTATAGATCTAAGCATTAGCGGTG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
** *
48293698 TTTTT-AAAAATGCGTTGCCATAGATCTGAGCATTAGCGGCG
1 TTTTTCAAAAA-GCGCCGCTATAGATCTGAGCATTAGCGGCG
* * *
48293739 TTTTTAAAAAAGCGCCGCCATATATCTGAGCATTAGCGGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
* * * *
48293780 TTGTTCATAAAGCGCCACTATAGATATGAGCATTAGCGGCG
1 TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
*
48293821 CTTTT
1 TTTTT
48293826 GGCAAAACGC
Statistics
Matches: 254, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
40 25 0.10
41 187 0.74
42 42 0.17
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGCGGCG
Found at i:48295178 original size:39 final size:40
Alignment explanation
Indices: 48295111--48295189 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
48295101 GGAATGGTAA
48295111 ACTCATACTAAATTTTTTTATGGGTAAACTATAAAAATGT
1 ACTCATACTAAATTTTTTTATGGGTAAACTATAAAAATGT
48295151 ACTCATACTAAA-TTTTTTATGGGTAAACTATAAAAATGT
1 ACTCATACTAAATTTTTTTATGGGTAAACTATAAAAATGT
48295190 CACCCAACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 27 0.69
40 12 0.31
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (40 bp):
ACTCATACTAAATTTTTTTATGGGTAAACTATAAAAATGT
Found at i:48296512 original size:26 final size:26
Alignment explanation
Indices: 48296482--48296537 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
48296472 GGAAGAGTTT
48296482 TACTGTACATGTTTACCCTTGAAGCA
1 TACTGTACATGTTTACCCTTGAAGCA
*
48296508 TACTGTTCATGTTTACCCTTGAAGCA
1 TACTGTACATGTTTACCCTTGAAGCA
48296534 TACT
1 TACT
48296538 ACTCTACTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (26 bp):
TACTGTACATGTTTACCCTTGAAGCA
Done.