Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 104 of 228
Found at i:30151656 original size:132 final size:132
Alignment explanation
Indices: 30151491--30152025 Score: 808
Period size: 132 Copynumber: 4.2 Consensus size: 132
30151481 CTGTCGGTGC
* *
30151491 AGGAAGGCAAGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
*
30151556 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
30151621 AT
131 AT
* *
30151623 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCAGGCCAATACATGAAGACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* *
30151688 TTCGATCTACTTCGCCACCAGTATAGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
30151753 AT
131 AT
* * * *
30151755 AGAAAGATAGGA-C--C-----T-G--CTA--TCACGCCAATACATGAAGACAATATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* *
30151807 TTCGATCTACTTCTCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
30151872 AT
131 AT
* * *
30151874 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAAATGAAAACAAGATCTGCTTTC
1 AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
* * *
30151939 TTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCAATCCACTTCCTACCAAT
66 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
30152004 AT
131 AT
30152006 AGGAAGACAGGACCTGCTAT
1 AGGAAGACAGGACCTGCTAT
30152026 CTTCCCTGAT
Statistics
Matches: 365, Mismatches: 25, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
119 105 0.29
120 1 0.00
121 3 0.01
122 1 0.00
123 1 0.00
124 1 0.00
127 1 0.00
128 1 0.00
129 1 0.00
130 3 0.01
131 1 0.00
132 246 0.67
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
AGGAAGACAGGACCTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
AT
Found at i:30151870 original size:119 final size:119
Alignment explanation
Indices: 30151659--30152026 Score: 511
Period size: 119 Copynumber: 3.0 Consensus size: 119
30151649 TCTACTTCAG
* *
30151659 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGATAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
*
30151724 TCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGACCTGCTATCAC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCAC
* *
30151778 GCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGACAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
*
30151843 TCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA----C---C-T-G--CTA--TC
30151908 AC
118 AC
* * * *
30151910 GCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGA
1 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
* *
30151975 TCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATC
66 TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATC
30152027 TTCCCTGATC
Statistics
Matches: 221, Mismatches: 15, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
119 104 0.47
121 3 0.01
123 2 0.01
124 1 0.00
125 1 0.00
126 1 0.00
127 1 0.00
128 2 0.01
130 3 0.01
132 103 0.47
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (119 bp):
GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
TCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCAC
Found at i:30151896 original size:44 final size:45
Alignment explanation
Indices: 30151779--30152029 Score: 233
Period size: 44 Copynumber: 5.7 Consensus size: 45
30151769 TGCTATCACG
* * * * *
30151779 CCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * * *
30151824 CCAGTATGGGAAGACAAGATCTGC-ATCTTTGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * *
30151867 CCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCA-CG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * * * *
30151911 CCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* * * *
30151956 CCAATATGGGAAGACAAGATCTGC-ATCTTCAATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
* *
30151999 CCAATATAGGAAGACAGGACCTGCTATCTTC
1 CCAATATAGGAAGACAAGATCTGCTATCTTC
30152030 CCTGATCTGC
Statistics
Matches: 162, Mismatches: 40, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
43 44 0.27
44 78 0.48
45 40 0.25
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (45 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCA
Found at i:30151977 original size:251 final size:251
Alignment explanation
Indices: 30151523--30152026 Score: 855
Period size: 251 Copynumber: 2.0 Consensus size: 251
30151513 TCGATCTACT
30151523 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
30151588 AAGATCTGTATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATTTTCGATCTA
66 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
* * * * *
30151653 CTTCAGGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAG
131 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
* * *
30151718 ATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGAAAGATAGGACCTGCTA
196 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
* * *
30151774 TCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTTCTCCACCAGTATGGGAAGAC
1 TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
* *
30151839 AAGATCTGCATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTA
66 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
*
30151904 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAG
131 CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
*
30151969 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
196 ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
30152025 TC
1 TC
30152027 TTCCCTGATC
Statistics
Matches: 236, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
251 236 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (251 bp):
TCACGCCAATAAATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
CTTCACGCCAATAAATGAAAACAAGATCTGCTTTCTTCGATCTACTCCGCCACCAATATAGGAAG
ACAAGATCTGCATCTTCAATCCACTTCCTACCAATATAGAAAGACAGGACCTGCTA
Found at i:30154142 original size:12 final size:12
Alignment explanation
Indices: 30154125--30154156 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
30154115 TAGTAAGCGC
30154125 AAAAGAATATAT
1 AAAAGAATATAT
30154137 AAAAGAATATAT
1 AAAAGAATATAT
30154149 AAAAGAAT
1 AAAAGAAT
30154157 GTGTGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (12 bp):
AAAAGAATATAT
Found at i:30155936 original size:77 final size:77
Alignment explanation
Indices: 30155837--30156000 Score: 301
Period size: 77 Copynumber: 2.1 Consensus size: 77
30155827 AGTCCCCAGT
* **
30155837 GGAGTTGCCAAGCTGTTGAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
1 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
30155902 AAATGAAAATTG
66 AAATGAAAATTG
30155914 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
1 GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
30155979 AAATGAAAATTG
66 AAATGAAAATTG
30155991 GGAGTCGCCA
1 GGAGTCGCCA
30156001 CCAATCTTTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 84 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (77 bp):
GGAGTCGCCAAGCTGTCAAAACCATTTTTTTGAAAAAACAAAAATTTTAGGTTGTCGACTTTAAA
AAATGAAAATTG
Found at i:30156750 original size:13 final size:14
Alignment explanation
Indices: 30156719--30156747 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30156709 AATAGCATAG
30156719 AAATG-ATATAAAT
1 AAATGAATATAAAT
30156732 AAATGAATATAAAT
1 AAATGAATATAAAT
30156746 AA
1 AA
30156748 TGACGTGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (14 bp):
AAATGAATATAAAT
Found at i:30157590 original size:59 final size:59
Alignment explanation
Indices: 30157507--30157638 Score: 203
Period size: 59 Copynumber: 2.3 Consensus size: 59
30157497 AAATTAAATC
* * *
30157507 TCTAAGATTACA-AAATCATATCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
30157565 TCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTGCATATCATA
1 TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
30157624 TCTAAGACTGCATAT
1 TCTAAGATTGCATAT
30157639 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 11 0.16
59 56 0.84
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (59 bp):
TCTAAGATTGCATATATCATATCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:30157635 original size:19 final size:19
Alignment explanation
Indices: 30157507--30157639 Score: 185
Period size: 19 Copynumber: 6.8 Consensus size: 19
30157497 AAATTAAATC
* *
30157507 TCTAAGATTACAAAATCATA
1 TCTAAGATTGC-ATATCATA
**
30157527 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
30157546 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30157565 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
30157586 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
30157605 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
30157624 TCTAAGACTGCATATC
1 TCTAAGATTGCATATC
30157640 CTCAAAAATT
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
19 75 0.72
20 10 0.10
21 19 0.18
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30168863 original size:26 final size:26
Alignment explanation
Indices: 30168823--30168888 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
30168813 CATTCTGATC
* *
30168823 CACAACTCGTATGAGCAGGCCCATTT
1 CACAACTCGTGTGAGCAGACCCATTT
* * *
30168849 CACAACTCATGTGAGCATACCTATTT
1 CACAACTCGTGTGAGCAGACCCATTT
30168875 CACAACTCGTGTGA
1 CACAACTCGTGTGA
30168889 ACAACTATGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (26 bp):
CACAACTCGTGTGAGCAGACCCATTT
Found at i:30179169 original size:19 final size:19
Alignment explanation
Indices: 30179131--30179169 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30179121 TGTAAACATG
* * *
30179131 AGTGTTTAAATTGGTTTTT
1 AGTGGTTAAATTGATATTT
30179150 AGTGGTTAAATTGATATTT
1 AGTGGTTAAATTGATATTT
30179169 A
1 A
30179170 AGCTTGTTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (19 bp):
AGTGGTTAAATTGATATTT
Found at i:30191055 original size:20 final size:20
Alignment explanation
Indices: 30191006--30191107 Score: 107
Period size: 20 Copynumber: 5.1 Consensus size: 20
30190996 TAACAGAGGT
* *
30191006 ACCAAAGTGGAATCAGGAGC
1 ACCAAAGTGCAATCAGGGGC
** * *
30191026 AGGAATGTGCGATCAGGGGC
1 ACCAAAGTGCAATCAGGGGC
*
30191046 ACCGAAGTGCAATCAGGGGC
1 ACCAAAGTGCAATCAGGGGC
*
30191066 A-CAAATGTGCATTCAGGGGC
1 ACCAAA-GTGCAATCAGGGGC
*
30191086 ACCAAAGTGCAAACAGGGGC
1 ACCAAAGTGCAATCAGGGGC
30191106 AC
1 AC
30191108 ATATTTGCAT
Statistics
Matches: 65, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
19 3 0.05
20 58 0.89
21 4 0.06
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.12
Consensus pattern (20 bp):
ACCAAAGTGCAATCAGGGGC
Found at i:30191073 original size:40 final size:40
Alignment explanation
Indices: 30191029--30191187 Score: 185
Period size: 40 Copynumber: 4.0 Consensus size: 40
30191019 CAGGAGCAGG
*
30191029 AATGTGCGA-TCAGGGGCACCGAAGTGCAATCAGGGGCACA
1 AATGTGC-ATTCAGGGGCACCGAAGTGCAAACAGGGGCACA
*
30191069 AATGTGCATTCAGGGGCACCAAAGTGCAAACAGGGGCACA
1 AATGTGCATTCAGGGGCACCGAAGTGCAAACAGGGGCACA
* * * * * *
30191109 TATTTGCATTCAAGGGTACTGAAGTACAAACAGGGGCACA
1 AATGTGCATTCAGGGGCACCGAAGTGCAAACAGGGGCACA
* * * * *
30191149 AATGTGCATTCAAGGGTATCGAAGTACAAACAGGTGCAC
1 AATGTGCATTCAGGGGCACCGAAGTGCAAACAGGGGCAC
30191188 TTTTTCATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.34, C:0.20, G:0.29, T:0.17
Consensus pattern (40 bp):
AATGTGCATTCAGGGGCACCGAAGTGCAAACAGGGGCACA
Found at i:30197885 original size:8 final size:7
Alignment explanation
Indices: 30197866--30197900 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
30197856 TTTGCTTGTT
30197866 TCTTTTA
1 TCTTTTA
30197873 TCTTTTGA
1 TCTTTT-A
30197881 TCTTTTA
1 TCTTTTA
*
30197888 TCTTTTT
1 TCTTTTA
30197895 TCTTTT
1 TCTTTT
30197901 TGTAACGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.09, C:0.14, G:0.03, T:0.74
Consensus pattern (7 bp):
TCTTTTA
Found at i:30199243 original size:73 final size:73
Alignment explanation
Indices: 30199125--30199271 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
30199115 TACTTTAGGA
* * * *
30199125 TTTTCCATGTGTAGAACATGATGTGGAATCTTGTGAGAAGAGAGAAAGCATATTCCATTGTGATA
1 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
*
30199190 TATTCTTG
66 TATTATTG
30199198 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
1 TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
30199263 TATTATTG
66 TATTATTG
30199271 T
1 T
30199272 CTTTATGTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.35
Consensus pattern (73 bp):
TTTTCCATGTGCAAAACATGATGTGGAATCTTGTAAGAAGAGAGAAAGCATATTCCACTGTGATA
TATTATTG
Found at i:30199999 original size:34 final size:34
Alignment explanation
Indices: 30199956--30200025 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
30199946 TCTAAAATAA
30199956 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
1 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
30199990 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
1 GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
30200024 GT
1 GT
30200026 TGCATGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.56
Consensus pattern (34 bp):
GTAGGATTTTTCTTCTCTACCGGTTTTATTTTAT
Found at i:30201267 original size:25 final size:24
Alignment explanation
Indices: 30201239--30201285 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
30201229 GTAACTTATG
*
30201239 TAATT-AAATCATGTTTATATGTTTT
1 TAATTGAAAT-ATGTATA-ATGTTTT
30201264 TAATTGAAATATGTATAATGTT
1 TAATTGAAATATGTATAATGTT
30201286 ATGAAATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 11 0.55
26 4 0.20
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (24 bp):
TAATTGAAATATGTATAATGTTTT
Found at i:30201487 original size:25 final size:25
Alignment explanation
Indices: 30201448--30201581 Score: 99
Period size: 25 Copynumber: 5.4 Consensus size: 25
30201438 ACAACCTGTG
** *
30201448 AGAGCATACTGATTTATAGCTCATA
1 AGAGCATACCAATTTATAGCTCGTA
* * *
30201473 AGAGTATACCAATTTGTAGCTTGTA
1 AGAGCATACCAATTTATAGCTCGTA
* * * *
30201498 AAAGCATACCGATTTATAGTTCGTG
1 AGAGCATACCAATTTATAGCTCGTA
* *
30201523 AGAGCATACCAATCTACAGCTCG-A
1 AGAGCATACCAATTTATAGCTCGTA
* * * *
30201547 GTGAGCATACCGATTCATAGCACGTA
1 -AGAGCATACCAATTTATAGCTCGTA
*
30201573 TGAGCATAC
1 AGAGCATAC
30201582 ATGAGCATGA
Statistics
Matches: 82, Mismatches: 25, Indels: 4
0.74 0.23 0.04
Matches are distributed among these distances:
25 81 0.99
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTCGTA
Found at i:30202739 original size:14 final size:14
Alignment explanation
Indices: 30202720--30202746 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30202710 TACATTGGGC
30202720 AGATTCATGCATGT
1 AGATTCATGCATGT
30202734 AGATTCATGCATG
1 AGATTCATGCATG
30202747 GGACGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:30204676 original size:25 final size:26
Alignment explanation
Indices: 30204648--30204717 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
30204638 AGCTCGTGAA
*
30204648 AGCATACTAATTTATAGCTCA-TAAG
1 AGCATACTGATTTATAGCTCAGTAAG
30204673 AGCATA-TCGATTTATAGCT-AGTAAG
1 AGCATACT-GATTTATAGCTCAGTAAG
*
30204698 AGCATGCTGATTTATAGCTC
1 AGCATACTGATTTATAGCTC
30204718 GTATGAGGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
AGCATACTGATTTATAGCTCAGTAAG
Found at i:30220656 original size:86 final size:86
Alignment explanation
Indices: 30220498--30220657 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 86
30220488 CCTACCTATT
* ** *
30220498 TTTTGCACATGGAAAATCATAAACTAGATAACTTTATTCTGTGTGAAGTTGTTTAATTTTAGGTG
1 TTTTACACATGGAAAATCATAAACTAGATAACTTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
*
30220563 TTTAATTTTTTTCACTCAAGG
66 TTCAATTTTTTTCACTCAAGG
30220584 TTTTACACATGGAAAATCCAT-AACTAGATAAAC-TTATTCAATGTGAAGTTGTTTAATTTTAGC
1 TTTTACACATGGAAAAT-CATAAACTAGAT-AACTTTATTCAATGTGAAGTTGTTTAATTTTAGC
30220647 TGTTCAATTTT
64 TGTTCAATTTT
30220658 CACCCAACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
86 61 0.91
87 6 0.09
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (86 bp):
TTTTACACATGGAAAATCATAAACTAGATAACTTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
TTCAATTTTTTTCACTCAAGG
Found at i:30236466 original size:2 final size:2
Alignment explanation
Indices: 30236459--30236492 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
30236449 GTGGAATATG
30236459 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
30236493 TCTTACATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:30237277 original size:87 final size:87
Alignment explanation
Indices: 30237131--30237291 Score: 259
Period size: 87 Copynumber: 1.9 Consensus size: 87
30237121 GCTATCTAAT
* ** * *
30237131 TTTTGCACATGGAAAATCCTAAACTAGATAACCTTATTCTCTGTGAACTTGTTTGATTTTAGGTG
1 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
*
30237196 TTCAATTTTTTGCACATCAAGG
66 TTAAATTTTTTGCACATCAAGG
*
30237218 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAAGTTGTTTAATTTTAGCTG
1 TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
30237283 TTAAATTTT
66 TTAAATTTT
30237292 CACCCAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 67 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (87 bp):
TTTTGCACATGGAAAATCCTAAACTAGATAAACTTATTCAATGTGAACTTGTTTAATTTTAGCTG
TTAAATTTTTTGCACATCAAGG
Found at i:30239055 original size:87 final size:87
Alignment explanation
Indices: 30238909--30239069 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
30238899 TTGTTGGGTG
* * *
30238909 AAAATTGAACAACTAAAATTAAACAACTTCACATTGAATAAGTTTATCTAGTTTAGGATTTTCCA
1 AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
30238974 TGTCCAAAACCTTGATGTGCAA
66 TGTCCAAAACCTTGATGTGCAA
* *
30238996 AAAATTGAACACCTAAAATTAAACAAGTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
1 AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
*
30239061 TGTGCAAAA
66 TGTCCAAAA
30239070 ATTAGGGAGT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (87 bp):
AAAATTGAACAACTAAAATTAAACAACTTCACATAGAATAAGGTTATCTAGCTTAGGATTTTCCA
TGTCCAAAACCTTGATGTGCAA
Found at i:30245198 original size:19 final size:20
Alignment explanation
Indices: 30245148--30245200 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
30245138 TGATGTTTGT
30245148 GATATTTTTAATTAATTAATTA
1 GATA-TTTT-ATTAATTAATTA
* *
30245170 GATA-TATATTATTTAATTA
1 GATATTTTATTAATTAATTA
30245189 -ATATTTTATTAA
1 GATATTTTATTAA
30245201 GATTTTTAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 2 0.08
22 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
GATATTTTATTAATTAATTA
Found at i:30246883 original size:19 final size:18
Alignment explanation
Indices: 30246850--30246885 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
30246840 GTTAATAATT
30246850 TGAAAGTTTTAACTCAGA
1 TGAAAGTTTTAACTCAGA
*
30246868 TGAAATTTTGTAACTCAG
1 TGAAAGTTT-TAACTCAG
30246886 TTTAATACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (18 bp):
TGAAAGTTTTAACTCAGA
Found at i:30250588 original size:40 final size:40
Alignment explanation
Indices: 30250490--30250752 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
30250480 TCCTCGTTCA
* * * ** *
30250490 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30250529 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30250569 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30250609 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
30250649 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
30250689 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
30250729 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30250753 CAGCATTCAC
Statistics
Matches: 197, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.19
40 152 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30250634 original size:80 final size:79
Alignment explanation
Indices: 30250490--30250752 Score: 334
Period size: 80 Copynumber: 3.3 Consensus size: 79
30250480 TCCTCGTTCA
* * * * *
30250490 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
30250555 TAACAACTCGCACG
66 TAACAACTCGCACG
*
30250569 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
30250634 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
30250649 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGA
* * *
30250713 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
30250729 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30250753 CAGCATTCAC
Statistics
Matches: 164, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
79 37 0.23
80 121 0.74
81 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:30258481 original size:39 final size:40
Alignment explanation
Indices: 30258438--30258698 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
30258428 TCCTCGTTCA
* * * * *
30258438 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
30258477 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
30258517 AATGCCTTC-GGACTTAACCCGGA-TTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
30258555 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
30258595 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
30258635 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
30258675 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30258699 CAGCATTCAT
Statistics
Matches: 194, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
38 23 0.12
39 64 0.33
40 99 0.51
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:30258538 original size:78 final size:79
Alignment explanation
Indices: 30258438--30258645 Score: 303
Period size: 78 Copynumber: 2.6 Consensus size: 79
30258428 TCCTCGTTCA
* * *
30258438 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGAT
30258502 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * * *
30258517 AATGCCTTC-GGACTTAACCCGGATTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATT
30258581 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
30258595 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGG-TTTAGTAACTCGCACAAATGCCTTCGG
30258646 ATCTTAATCC
Statistics
Matches: 115, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
77 12 0.10
78 59 0.51
79 22 0.19
80 22 0.19
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGTTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:30258682 original size:80 final size:79
Alignment explanation
Indices: 30258441--30258698 Score: 256
Period size: 78 Copynumber: 3.3 Consensus size: 79
30258431 TCGTTCAAAT
* * * * * * * *
30258441 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGG-ATTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
30258505 ACAACTCGCACGAAT
65 ACAACTAGCACGAAA
* * *
30258520 GCCTTC-GGACTTAACCCGGATTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 GCCTTCGGGACTTAACCCGGATTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAA
* *
30258584 CAACTCGCACGAAT
66 CAACTAGCACGAAA
* * *
30258598 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATAT
1 GCCTTCGGGACTTAACCCGGA-TTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
30258662 ATTC-ACTTAGCAC-AAA
64 A-ACAAC-TAGCACGAAA
*
30258678 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
30258699 CAGCATTCAT
Statistics
Matches: 157, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
77 12 0.08
78 59 0.38
79 23 0.15
80 57 0.36
81 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAA
CAACTAGCACGAAA
Found at i:30261067 original size:27 final size:27
Alignment explanation
Indices: 30261037--30261128 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
30261027 ATTACCAAAG
* *
30261037 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTATTGTTT
* *
30261064 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTATTGTTT
**
30261091 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTATTGTTT
30261118 TACCCTCGATT
1 TACCCTCGATT
30261129 GTGAAATTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATTGTTT
Found at i:30261147 original size:26 final size:26
Alignment explanation
Indices: 30261118--30261254 Score: 87
Period size: 26 Copynumber: 5.2 Consensus size: 26
30261108 ATTATCATTT
* *
30261118 TACCCTCGATTGTGAAATTACTAAAA
1 TACCCTCGATTGTAAAATTACCAAAA
** * *
30261144 TACCCTAC-AGGGTAGAATTGCCAAAA
1 TACCCT-CGATTGTAAAATTACCAAAA
* * * *
30261170 TATCCTAGTTTGTAAAATTACTAAAA
1 TACCCTCGATTGTAAAATTACCAAAA
* * * * *
30261196 TACCACTGGTTTCTGAAATTACCGAAA
1 TACC-CTCGATTGTAAAATTACCAAAA
* *
30261223 TACCCTCAATTTGTAAAATTACCAACA
1 TACCCTCGA-TTGTAAAATTACCAAAA
30261250 TACCC
1 TACCC
30261255 CTGATTACAA
Statistics
Matches: 80, Mismatches: 27, Indels: 7
0.70 0.24 0.06
Matches are distributed among these distances:
26 40 0.50
27 40 0.50
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (26 bp):
TACCCTCGATTGTAAAATTACCAAAA
Found at i:30261320 original size:27 final size:27
Alignment explanation
Indices: 30261290--30261341 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
30261280 TTGACTTTCT
30261290 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
30261317 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
30261342 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:30261414 original size:25 final size:25
Alignment explanation
Indices: 30261386--30261452 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
30261376 GACTAAATAC
30261386 CCCTAATA-GGTAAAAAGACCGTAAG
1 CCCT-ATAGGGTAAAAAGACCGTAAG
** *
30261411 CCCTATAGGGTAAAGTGACCGTAATA
1 CCCTATAGGGTAAAAAGACCGTAA-G
*
30261437 CGCCTATATGGTAAAA
1 C-CCTATAGGGTAAAA
30261453 TGACGAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 3 0.09
25 18 0.53
26 1 0.03
27 12 0.35
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (25 bp):
CCCTATAGGGTAAAAAGACCGTAAG
Found at i:30262331 original size:26 final size:25
Alignment explanation
Indices: 30262264--30262323 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
30262254 AGGAAGTGCT
*
30262264 AAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTCTGCCCCAGTTTACAG
30262289 AAAAGGGCTCTGCCCCAGTTTAATCAG
1 AAAAGGGCTCTGCCCCAGTTT-A-CAG
30262316 -AAAGGGCT
1 AAAAGGGCT
30262324 TTTCCCCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 21 0.66
26 9 0.28
27 2 0.06
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (25 bp):
AAAAGGGCTCTGCCCCAGTTTACAG
Found at i:30262537 original size:41 final size:42
Alignment explanation
Indices: 30262480--30262568 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
30262470 TAGTCTCCCC
* ** *
30262480 AAATGGGCTTGCATACATTCA-TGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
30262521 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
30262563 AAATGG
1 AAATGG
30262569 TCCTAAGGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:30278181 original size:87 final size:87
Alignment explanation
Indices: 30278033--30278191 Score: 237
Period size: 87 Copynumber: 1.8 Consensus size: 87
30278023 TACCTAATTG
* ** * * *
30278033 TTGCACATGGAAAATCCTAAACTAGATACCCTTATTCTGTCTGAGGTTGTTTAATTTTAGGTTTT
1 TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
30278098 CAATTTTTTGCACATCAAGGTT
66 CAATTTTTTGCACATCAAGGTT
* * *
30278120 TTGCACATGGAAAATCTTAAACTAGATAAGCTTATTCAATGTGAAGTTGTTTAATTCTAGGTGTT
1 TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
30278185 CAATTTT
66 CAATTTT
30278192 CACCCAACAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (87 bp):
TTGCACATGGAAAATCCTAAACTAGATAACCTTATTCAATCTGAAGTTGTTTAATTCTAGGTGTT
CAATTTTTTGCACATCAAGGTT
Found at i:30294682 original size:24 final size:23
Alignment explanation
Indices: 30294655--30294700 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
30294645 TTTGGAGTAT
30294655 TTTGTGTTTAGGTTTTGAGGGTTC
1 TTTGTGTTTAGGTTTTG-GGGTTC
*
30294679 TTTGTTTTTAGGTTTTGGGGTT
1 TTTGTGTTTAGGTTTTGGGGTT
30294701 TAGTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.07, C:0.02, G:0.33, T:0.59
Consensus pattern (23 bp):
TTTGTGTTTAGGTTTTGGGGTTC
Found at i:30297293 original size:41 final size:41
Alignment explanation
Indices: 30297211--30297377 Score: 199
Period size: 41 Copynumber: 4.1 Consensus size: 41
30297201 GTACGTAGGA
* * * *
30297211 GTACCGAAGTACAAACAGGGACGTGTCTCTGAAATTCAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
* * * * *
30297252 GTATTGAAGTACAAACAGGGGCACGTATGTGTAATTTAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
*
30297293 GTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
* * * * *
30297334 GTACTGAAGTAGAAACAAGGGCATGTATGTGCAATTTAGGG
1 GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
30297375 GTA
1 GTA
30297378 TCGAATTACG
Statistics
Matches: 105, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (41 bp):
GTACTGAAGTACAAACAGGGGCATGTATCTGAAATTCAGGG
Found at i:30297356 original size:82 final size:82
Alignment explanation
Indices: 30297206--30297391 Score: 255
Period size: 82 Copynumber: 2.3 Consensus size: 82
30297196 ATAGGGTACG
* * * *
30297206 TAGGAGTACCGAAGTACAAACAGGGACGTGTCTCTGAAATTCAGGGGTATTGAAGTACAAACAGG
1 TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
*
30297271 GGCACGTATGTGTAATT
66 GGCACGTATGTGCAATT
* * * *
30297288 TAGGGGTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGGGTACTGAAGTAGAAACAAG
1 TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
*
30297353 GGCATGTATGTGCAATT
66 GGCACGTATGTGCAATT
* * *
30297370 TAGGGGTATCGAATTACGAACA
1 TAGGGGTACCGAAGTACAAACA
30297392 AGGGCATATA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
82 90 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.24
Consensus pattern (82 bp):
TAGGGGTACCGAAGTACAAACAGGGACGTGTATCTGAAATTCAGGGGTACTGAAGTACAAACAAG
GGCACGTATGTGCAATT
Found at i:30297392 original size:41 final size:41
Alignment explanation
Indices: 30297211--30297412 Score: 192
Period size: 41 Copynumber: 4.9 Consensus size: 41
30297201 GTACGTAGGA
* * * * *
30297211 GTACCGAAGTACAAAC-AGGGACGTGTCTCTGAAATTCAGGG
1 GTACTGAAGTACAAACAAGGG-CATGTATGTGCAATTCAGGG
* * * * *
30297252 GTATTGAAGTACAAACAGGGGCACGTATGTGTAATTTAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* * * *
30297293 GTACTGAAGTACAAACAGGGGCTTGTATCTGAAATTCAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* *
30297334 GTACTGAAGTAGAAACAAGGGCATGTATGTGCAATTTAGGG
1 GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
* * * *
30297375 GTA-TCGAATTACGAACAAGGGCATATATGAGCAATTCA
1 GTACT-GAAGTACAAACAAGGGCATGTATGTGCAATTCA
30297413 TAGAATAATT
Statistics
Matches: 132, Mismatches: 27, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
40 1 0.01
41 128 0.97
42 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (41 bp):
GTACTGAAGTACAAACAAGGGCATGTATGTGCAATTCAGGG
Found at i:30297954 original size:13 final size:13
Alignment explanation
Indices: 30297936--30297965 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30297926 CATCAAACAT
30297936 AAAAAAATCATGC
1 AAAAAAATCATGC
*
30297949 AAAAAAATCATGG
1 AAAAAAATCATGC
30297962 AAAA
1 AAAA
30297966 CCCTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (13 bp):
AAAAAAATCATGC
Found at i:30304651 original size:41 final size:41
Alignment explanation
Indices: 30304499--30304638 Score: 158
Period size: 41 Copynumber: 3.4 Consensus size: 41
30304489 CAAAGTTACC
* *
30304499 GAAGTATAAATAGGGGCACGTATGTGCAATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
* * * *
30304540 -AAGTACAAACAGGGGTATGTATGTGCAATTTAGGGGTACC
1 GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
* * * * *
30304580 GAAGTAGAAACT-GAGGCACGTGTGTGCAATTTAGAGGTAGT
1 GAAGTACAAA-TAGGGGCACGTATGTGCAATTTAGGGGTACT
30304621 GAAGTACAAATAGGGGCA
1 GAAGTACAAATAGGGGCA
30304639 TGAATGTACA
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
40 35 0.44
41 44 0.56
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (41 bp):
GAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGTACT
Found at i:30307789 original size:5 final size:5
Alignment explanation
Indices: 30307779--30307821 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
30307769 ACCTAAGATG
* *
30307779 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGA
30307822 GTTAAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (5 bp):
TGAAT
Found at i:30307826 original size:10 final size:10
Alignment explanation
Indices: 30307779--30307829 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
30307769 ACCTAAGATG
*
30307779 TGAATTGAAT
1 TGAATTAAAT
*
30307789 TGAATTGAAT
1 TGAATTAAAT
*
30307799 TGAATTGAAT
1 TGAATTAAAT
*
30307809 TGTATTAAAT
1 TGAATTAAAT
*
30307819 TGAGTTAAAT
1 TGAATTAAAT
30307829 T
1 T
30307830 TACTCGTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (10 bp):
TGAATTAAAT
Found at i:30308306 original size:26 final size:24
Alignment explanation
Indices: 30308260--30308334 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 24
30308250 GACACACCAC
* *
30308260 AGCTCTTATGAGCGTCTCGATATAT
1 AGCTCTTATGAGCTTCCCGAT-TAT
* *
30308285 AGCTCTTCGTGAGCTTCCCGATTAA
1 AGCTCTT-ATGAGCTTCCCGATTAT
*
30308310 AGGCTCCTTATGAGCTTCCTGATTA
1 A-GCT-CTTATGAGCTTCCCGATTA
30308335 ATGGCTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
25 10 0.24
26 28 0.68
27 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
AGCTCTTATGAGCTTCCCGATTAT
Found at i:30315045 original size:22 final size:21
Alignment explanation
Indices: 30315011--30315055 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
30315001 AATTAAATTA
* *
30315011 TGAATATTTATATGTTTGAAT
1 TGAATATTTATATATATGAAT
*
30315032 TGAATGTTGTATATATATGAAT
1 TGAATATT-TATATATATGAAT
30315054 TG
1 TG
30315056 TGTAATTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (21 bp):
TGAATATTTATATATATGAAT
Found at i:30315415 original size:25 final size:25
Alignment explanation
Indices: 30315386--30315445 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
30315376 GGCTCTTTGT
** *
30315386 GAGCTTCGTGATTATTGGATCTCCA
1 GAGCTTCCCGATTAATGGATCTCCA
* *
30315411 GAGCTTCCCGATTAATGGCTCTTCA
1 GAGCTTCCCGATTAATGGATCTCCA
*
30315436 GAGCTACCCG
1 GAGCTTCCCG
30315446 TTATTGGCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGATCTCCA
Found at i:30316666 original size:12 final size:12
Alignment explanation
Indices: 30316628--30316659 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
30316618 TCAGAGAGTT
30316628 ACACGGGTATGG
1 ACACGGGTATGG
*
30316640 ACACAGGTATGG
1 ACACGGGTATGG
30316652 ACACGGGT
1 ACACGGGT
30316660 TGGGACAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.38, T:0.16
Consensus pattern (12 bp):
ACACGGGTATGG
Found at i:30320445 original size:27 final size:27
Alignment explanation
Indices: 30320415--30320592 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
30320405 ATATCGAGTC
* * * *
30320415 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
30320442 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30320469 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30320497 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30320524 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30320551 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30320578 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30320593 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30320554 original size:82 final size:81
Alignment explanation
Indices: 30320436--30320591 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30320426 TGCTATATAA
*
30320436 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30320501 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30320518 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30320582 CACTTAGTGC
65 CACTTAGTGC
30320592 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30329291 original size:27 final size:27
Alignment explanation
Indices: 30329260--30329437 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
30329250 TAAATTGTAC
30329260 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30329287 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30329313 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30329341 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30329369 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30329396 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30329423 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30329438 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30329374 original size:82 final size:81
Alignment explanation
Indices: 30329261--30329416 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
30329251 AAATTGTACA
*
30329261 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
30329325 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
30329342 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
30329407 TGCGAGTTGA
65 TGCGAATTGA
30329417 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30329428 original size:82 final size:81
Alignment explanation
Indices: 30329257--30329437 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
30329247 GATTAAATTG
*
30329257 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
30329322 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30329338 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
30329402 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30329420 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30329438 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30331508 original size:72 final size:72
Alignment explanation
Indices: 30331423--30331559 Score: 247
Period size: 72 Copynumber: 1.9 Consensus size: 72
30331413 TAATTTTGGC
** *
30331423 ACATGGAAAATCCTAAACTAGATAACCTTATTCTGTGTGAATTTGTTTAATTTTAGGTGTTCAAT
1 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
30331488 ATTTTGT
66 ATTTTGT
30331495 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
1 ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
30331560 TTTCACTCAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (72 bp):
ACATGGAAAATCCTAAACTAGATAACCTTATTCAATGTGAAGTTGTTTAATTTTAGGTGTTCAAT
ATTTTGT
Found at i:30335447 original size:41 final size:41
Alignment explanation
Indices: 30335402--30335486 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
30335392 TAATTTAGTG
30335402 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
1 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
30335443 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
1 ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
30335484 ATA
1 ATA
30335487 CTCAATGGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (41 bp):
ATATATTTTCAATTAGTACAAAAGAAACATAATTAAATAAC
Found at i:30342814 original size:44 final size:44
Alignment explanation
Indices: 30342765--30342848 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
30342755 AGGAACTAGT
* *
30342765 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGTCG
1 GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTGTCG
* *
30342809 GCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGATT
1 GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT
30342849 TGCCATCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTGTCG
Found at i:30342922 original size:44 final size:44
Alignment explanation
Indices: 30342776--30343153 Score: 179
Period size: 44 Copynumber: 8.7 Consensus size: 44
30342766 CTTTAATCTA
* * *
30342776 CTCCACTGCAACTTCAGG-GAGATAGGA-TTGTCGGCT-TTAATCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C--TTATTAGTCTG
* * * * *
30342820 CTCCACTACAATTTCAGG-GAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-CTTATT-AGTCTG
* *
30342865 C-CTCGCTACAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
* * * *
30342909 CTCCACTGCAACTTCAGG-GAGATAAGACTAG-ATGTGA-TCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
* * * * * *
30342950 CT-CTCTGTAACTTCA-GAGAGATGAGATCTAAGGTT-TTAATC--
1 CTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTATTAGTCTG
* * * *
30342991 CATCCACTGCAACTTCA-GCGAGAT-AGAATTG-TTGGCTTTAATCTG
1 C-TCCACTGCAACTTCAGGAGAGATAAGACTTGCTT---ATTAGTCTG
* *
30343036 CTCCACTGCAACTTCAGG-GAAATAAGATTTGCCATCT-TTAGTCTG
1 CTCCACTGCAACTTCAGGAGAGATAAGACTTG-C-T-TATTAGTCTG
*
30343081 C-CTCGCTGCAACTTCAGGAG-GATAAGACTTGCTTAATTAGTCTG
1 CTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTT-ATTAGTCTG
* *
30343125 CTCCACTGTAACGTCAGG-GAGATAAGACT
1 CTCCACTGCAACTTCAGGAGAGATAAGACT
30343154 AGATGCGATC
Statistics
Matches: 265, Mismatches: 36, Indels: 66
0.72 0.10 0.18
Matches are distributed among these distances:
39 3 0.01
40 20 0.08
41 10 0.04
42 11 0.04
43 31 0.12
44 110 0.42
45 76 0.29
46 2 0.01
48 1 0.00
49 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTATTAGTCTG
Found at i:30343151 original size:216 final size:217
Alignment explanation
Indices: 30342767--30343164 Score: 681
Period size: 216 Copynumber: 1.8 Consensus size: 217
30342757 GAACTAGTGC
* * * *
30342767 TTTAATCTACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTACAAT
1 TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
*
30342832 TTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
66 TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
* *
30342897 TTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGTAACT
131 TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACT
30342962 TCAGAGAGATGAGATCTAAGGT
196 TCAGAGAGATGAGATCTAAGGT
* *
30342984 TTTAATCCA-TCCACTGCAACTTCAGCGAGATAGAATTGTTGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
* *
30343048 TTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGC
66 TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
*
30343113 TTAATTAGTCTGCTCCACTGTAACGTCAGGGAGATAAGACTAGATGCGATCT
131 TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCT
30343165 ACTATCGGCT
Statistics
Matches: 169, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
216 161 0.95
217 8 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (217 bp):
TTTAATCCACTCCACTGCAACTTCAGCGAGATAGAATTGTCGGCTTTAATCTGCTCCACTACAAC
TTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCGCTACAACTTCAGGAGGATAAGACTTGC
TTAATTAGTCTGCTCCACTGCAACGTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACT
TCAGAGAGATGAGATCTAAGGT
Found at i:30343243 original size:45 final size:44
Alignment explanation
Indices: 30343179--30343300 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 44
30343169 TCGGCTTTAA
* *
30343179 TCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AG
* *
30343224 TCTGCTTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAG
* *
30343268 TCTACTCCACTGCAACTTCAGGGAAATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
30343301 AGATGCGATC
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
44 33 0.49
45 34 0.51
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
Found at i:30343285 original size:44 final size:45
Alignment explanation
Indices: 30343183--30343300 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 45
30343173 CTTTAATCTG
* * *
30343183 CTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTA
* *
30343228 CTTCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCTA
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTA
*
30343272 CTCCACTGCAACTTCAGGGAAATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
30343301 AGATGCGATC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 33 0.52
45 30 0.48
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTA
Found at i:30343291 original size:147 final size:147
Alignment explanation
Indices: 30343024--30343311 Score: 486
Period size: 147 Copynumber: 2.0 Consensus size: 147
30343014 TAGAATTGTT
* * *
30343024 GGCTTTAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCCATCTTTAGTCTGCCTCGCTG
1 GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTG
* * *
30343089 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGTAACGTCAGGGAGATAAGACT
66 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACTGCAACGTCAGGGAAATAAGACT
30343154 AGATGCGATCTACTATC
131 AGATGCGATCTACTATC
* *
30343171 GGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTTCACTG
1 GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTG
* *
30343236 CAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAAATAAGACT
66 CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACTGCAACGTCAGGGAAATAAGACT
30343301 AGATGCGATCT
131 AGATGCGATCT
30343312 GCTCTCTGCA
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 131 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (147 bp):
GGCTTTAATCTGCTCCACTACAACTTCAGGGAAATAAGATTTGCCATCTTCAGTCTGCCTCACTG
CAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTACTCCACTGCAACGTCAGGGAAATAAGACT
AGATGCGATCTACTATC
Found at i:30355704 original size:22 final size:22
Alignment explanation
Indices: 30355679--30355725 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
30355669 GTTCAAAAGG
*
30355679 ATTAAA-TTGGAATTTAAAATAA
1 ATTAAAGTT-GAATTTAAAAAAA
30355701 ATTAAAGGTTGAATTTAAAAAAA
1 ATTAAA-GTTGAATTTAAAAAAA
30355724 AT
1 AT
30355726 AAAAAAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 14 0.64
24 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (22 bp):
ATTAAAGTTGAATTTAAAAAAA
Found at i:30356814 original size:12 final size:12
Alignment explanation
Indices: 30356797--30356822 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30356787 TTGGTGGCTA
30356797 TGGAAATTTCTT
1 TGGAAATTTCTT
30356809 TGGAAATTTCTT
1 TGGAAATTTCTT
30356821 TG
1 TG
30356823 AATTCTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (12 bp):
TGGAAATTTCTT
Found at i:30357321 original size:30 final size:31
Alignment explanation
Indices: 30357254--30357312 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
30357244 CACCATTAAA
* *
30357254 ATATTTACACTATTGATCCTTCAAATTTTTC
1 ATATTTACACTATTGACCCCTCAAATTTTTC
*
30357285 ATATTTACA-TTTTGACCCCTCAAATTTT
1 ATATTTACACTATTGACCCCTCAAATTTT
30357313 GAGTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.29, C:0.20, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTGACCCCTCAAATTTTTC
Found at i:30365193 original size:16 final size:16
Alignment explanation
Indices: 30365174--30365206 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30365164 TTGGGTCAAT
30365174 TCCCCATTTTTTAATA
1 TCCCCATTTTTTAATA
30365190 TCCCCATTTTTTAATA
1 TCCCCATTTTTTAATA
30365206 T
1 T
30365207 ACTTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (16 bp):
TCCCCATTTTTTAATA
Found at i:30365964 original size:27 final size:27
Alignment explanation
Indices: 30365934--30365988 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
30365924 ACATTGGAAG
30365934 TCGATTACACAACTCCTCAACATATGT
1 TCGATTACACAACTCCTCAACATATGT
30365961 TCGATTACACAACTCCTCAACATATGT
1 TCGATTACACAACTCCTCAACATATGT
30365988 T
1 T
30365989 TCAATATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (27 bp):
TCGATTACACAACTCCTCAACATATGT
Found at i:30366208 original size:18 final size:19
Alignment explanation
Indices: 30366185--30366224 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
30366175 TTTTTGTCAT
*
30366185 AAATAATTAATTTTTA-TA
1 AAATAATTAAATTTTATTA
30366203 AAATAATTAAATTTTATTA
1 AAATAATTAAATTTTATTA
30366222 AAA
1 AAA
30366225 ATTTGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATAATTAAATTTTATTA
Found at i:30370997 original size:8 final size:8
Alignment explanation
Indices: 30370984--30371012 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30370974 TATATATACT
30370984 AAATAATA
1 AAATAATA
30370992 AAATAATA
1 AAATAATA
30371000 AAATAATA
1 AAATAATA
30371008 AAATA
1 AAATA
30371013 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:30379409 original size:19 final size:18
Alignment explanation
Indices: 30379368--30379410 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
30379358 AATTTTTGTC
* *
30379368 ATAAAATAATTAATTTTT
1 ATAAAATAACTAAATTTT
30379386 ATAAAATAACTAAATTTT
1 ATAAAATAACTAAATTTT
30379404 ATTAAAA
1 A-TAAAA
30379411 ATTTTAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAATAACTAAATTTT
Found at i:30393770 original size:6 final size:6
Alignment explanation
Indices: 30393759--30393786 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30393749 AATGTCCAGC
30393759 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAA
30393787 TAAATACAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:30395030 original size:24 final size:24
Alignment explanation
Indices: 30394984--30395038 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
30394974 TCTTTCTAAA
* * *
30394984 ATATTTGGTATTTATTAATATAAT
1 ATATTTAGTATTTACTAACATAAT
*
30395008 ATATTTAGTATTTACTAGCATAAT
1 ATATTTAGTATTTACTAACATAAT
*
30395032 TTATTTA
1 ATATTTA
30395039 ACCTACGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (24 bp):
ATATTTAGTATTTACTAACATAAT
Found at i:30398130 original size:47 final size:47
Alignment explanation
Indices: 30398014--30398406 Score: 579
Period size: 47 Copynumber: 8.3 Consensus size: 47
30398004 AGAGTGTATG
30398014 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G--TGTA
* *
30398065 TATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * *
30398112 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
30398159 TATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
30398206 TATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
30398253 TATATATGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
30398300 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * * * * * *
30398347 TATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
30398394 TAAATGTGATAAG
1 TATATGTGATAAG
30398407 TCCCGAAAGG
Statistics
Matches: 316, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 275 0.87
49 1 0.00
51 40 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:30398581 original size:37 final size:37
Alignment explanation
Indices: 30398525--30398603 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30398515 CCGAGCTCTA
* * *
30398525 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
30398562 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
30398599 AAGAC
1 AAGAC
30398604 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:30401602 original size:155 final size:155
Alignment explanation
Indices: 30401320--30401631 Score: 606
Period size: 155 Copynumber: 2.0 Consensus size: 155
30401310 GCGATATTTC
*
30401320 ATGCCACATAAAATAAAACCAATAGTGAAGCAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
1 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
30401385 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
66 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
30401450 TAAATTAAATATCCATTATTTCCTT
131 TAAATTAAATATCCATTATTTCCTT
30401475 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
1 ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
*
30401540 TCATCATACTTTCAATGGTAGTACAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
66 TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
30401605 TAAATTAAATATCCATTATTTCCTT
131 TAAATTAAATATCCATTATTTCCTT
30401630 AT
1 AT
30401632 AGGTTTTTGG
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (155 bp):
ATGCCACATAAAATAAAACCAATAGTGAAGAAAAATTTGAGTTATTTCAGATGCTATTGACAGAA
TCATCATACTTTCAATGGTAGTAAAACCTAACCTGTTTTAAATTTTACCATAATTTGCAACGTAA
TAAATTAAATATCCATTATTTCCTT
Found at i:30401772 original size:12 final size:12
Alignment explanation
Indices: 30401755--30401779 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30401745 CTAGTAAAGC
30401755 ATTCATTTTTTA
1 ATTCATTTTTTA
30401767 ATTCATTTTTTA
1 ATTCATTTTTTA
30401779 A
1 A
30401780 CTTTTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTCATTTTTTA
Found at i:30411159 original size:28 final size:28
Alignment explanation
Indices: 30411117--30411171 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
30411107 GTATCAGTAC
* *
30411117 AGTGTGCGCCTTAGCCCATTACAGTAAT
1 AGTGTGCGCCCTAGCCCAATACAGTAAT
*
30411145 AGTGTGGGCCCTAGCCCAATACAGTAA
1 AGTGTGCGCCCTAGCCCAATACAGTAA
30411172 CCAGTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGCGCCCTAGCCCAATACAGTAAT
Found at i:30411310 original size:26 final size:26
Alignment explanation
Indices: 30411281--30411357 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
30411271 ACACCGATAT
*
30411281 CGCAGCAAAACTGCCAGTAATAATAA
1 CGCAGCAAAACTGCCAGTAACAATAA
* * *
30411307 CGCAGCAAAACTACTAGTAACAGTAA
1 CGCAGCAAAACTGCCAGTAACAATAA
* *
30411333 TGCAGCAAAGCTGCCAGTAACAATA
1 CGCAGCAAAACTGCCAGTAACAATA
30411358 TATGTGGCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAACTGCCAGTAACAATAA
Found at i:30411553 original size:27 final size:27
Alignment explanation
Indices: 30411523--30411839 Score: 156
Period size: 27 Copynumber: 11.7 Consensus size: 27
30411513 TTTCAACTCC
**
30411523 TAGGGGTATAACGATCATTTTACCCTA
1 TAGGGGTATTTCGATCATTTTACCCTA
* * *
30411550 TAGGGGTATTTTGGTTATTTTACCCT-
1 TAGGGGTATTTCGATCATTTTACCCTA
30411576 TCAGGGGTATTTC-AGTCATTTTACCCTA
1 T-AGGGGTATTTCGA-TCATTTTACCCTA
*
30411604 T-GGGGTTATTTC-AGTCATTTTA-CCTT
1 TAGGGG-TATTTCGA-TCATTTTACCCTA
* * *
30411630 TCAAGGGTATTTCGGTCATTTTATCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
* * * *
30411657 TCAAGGGTATTTTGGTTATTTTACCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
* *
30411684 TCGAGGGTATTTCGGTCATTTTACCCT-
1 TAG-GGGTATTTCGATCATTTTACCCTA
* * *
30411711 TTGAGGGTACTTCTG-TCATTTTACCCTT
1 TAG-GGGTATTTC-GATCATTTTACCCTA
* * * *
30411739 TAAGGGCATTTCGGTCATTTTACTCT-
1 TAGGGGTATTTCGATCATTTTACCCTA
* * * *
30411765 TTGAGGGTATTTCGGTCATTTTA-CATT
1 TAG-GGGTATTTCGATCATTTTACCCTA
* * *
30411792 TCAAGGGTGTTTCGACCATTTTACCCT-
1 T-AGGGGTATTTCGATCATTTTACCCTA
*
30411819 TTGAGGGTATTTC-AGTCATTT
1 TAG-GGGTATTTCGA-TCATTT
30411840 GTGGCCTCTA
Statistics
Matches: 232, Mismatches: 40, Indels: 36
0.75 0.13 0.12
Matches are distributed among these distances:
26 13 0.06
27 208 0.90
28 11 0.05
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
TAGGGGTATTTCGATCATTTTACCCTA
Found at i:30411678 original size:81 final size:80
Alignment explanation
Indices: 30411553--30411839 Score: 326
Period size: 81 Copynumber: 3.5 Consensus size: 80
30411543 TACCCTATAG
* * * * *
30411553 GGGTATTTTGGTTATTTTACCCTTCAGGGGTATTTCAGTCATTTTACCCTATG-GGGTTATTTCA
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCT-TGAGGG-TATTTCG
30411617 GTCATTTTACCTTTCAA
64 GTCATTTTACCTTTCAA
* * *
30411634 GGGTATTTCGGTCATTTTATCCTTCAAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTT-GAGGGTATTTCGG
*
30411699 TCATTTTACCCTTT-GA
65 TCATTTTA-CCTTTCAA
* * * * *
30411715 GGGTACTTCTGTCATTTTACCCTTTAAGGGCATTTCGGTCATTTTACTCTTTGAGGGTATTTCGG
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTAC-CCTTGAGGGTATTTCGG
*
30411780 TCATTTTACATTTCAA
65 TCATTTTACCTTTCAA
* ** ** *
30411796 GGGTGTTTCGACCATTTTACCCTTTGAGGGTATTTCAGTCATTT
1 GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTT
30411840 GTGGCCTCTA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 5 0.03
81 158 0.91
82 11 0.06
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (80 bp):
GGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGGTCATTTTACCCTTGAGGGTATTTCGGT
CATTTTACCTTTCAA
Found at i:30411821 original size:54 final size:54
Alignment explanation
Indices: 30411537--30411839 Score: 342
Period size: 54 Copynumber: 5.6 Consensus size: 54
30411527 GGTATAACGA
* * * * * *
30411537 TCATTTTACCCTAT-AGGGGTATTTTGGTTATTTTACCCTTCAGGGGTATTTCAG
1 TCATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* *
30411591 TCATTTTACCCTATG-GGGTTATTTCAGTCATTTTACCTTTCAAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGG-TATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* ** * * * *
30411645 TCATTTTATCCTTCAAGGGTATTTTGGTTATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* * *
30411699 TCATTTTACCCTTTGAGGGTACTTCTGTCATTTTACCCTTT-AAGGGCATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTA-CCTTTCAAGGGTATTTCGG
* * * *
30411753 TCATTTTACTCTTTGAGGGTATTTCGGTCATTTTACATTTCAAGGGTGTTTCGA
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
* *
30411807 CCATTTTACCCTTTGAGGGTATTTCAGTCATTT
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTT
30411840 GTGGCCTCTA
Statistics
Matches: 209, Mismatches: 35, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
53 7 0.03
54 195 0.93
55 7 0.03
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (54 bp):
TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCTTTCAAGGGTATTTCGG
Found at i:30414412 original size:28 final size:28
Alignment explanation
Indices: 30414370--30414424 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
30414360 GTATCACTAC
* *
30414370 AGTGTGGGCCATAGCCCATTACTGTAAT
1 AGTGTGGGCCATAGCCCAATACAGTAAT
*
30414398 AGTGTGGGCCCTAGCCCAATACAGTAA
1 AGTGTGGGCCATAGCCCAATACAGTAA
30414425 CCAGTACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCATAGCCCAATACAGTAAT
Found at i:30414559 original size:26 final size:26
Alignment explanation
Indices: 30414530--30414580 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30414520 CCAACACACC
* *
30414530 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGACAGTAAT
30414556 AATAACGCAGCAAAGCTGACAGTAA
1 AATAACGCAGCAAAGCTGACAGTAA
30414581 CAGTATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.16
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGACAGTAAT
Found at i:30414808 original size:27 final size:27
Alignment explanation
Indices: 30414764--30415093 Score: 380
Period size: 27 Copynumber: 12.3 Consensus size: 27
30414754 GGGTATAGCA
* *
30414764 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
30414791 GTCATTTTACCTTTTG-GGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
30414817 GTCATTTTACACTTT-AGGGGTATTTCG
1 GTCATTTTACCCTTTGA-GGGTATTTCG
* * *
30414844 GGCATTTTACCCTTTG-GGAATATTTTG
1 GTCATTTTACCCTTTGAGG-GTATTTCG
*
30414871 GTCATTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* *
30414898 GTCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
30414925 GTTATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
** * *
30414952 GTCATTTTACCCTTCAAGTGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
30414979 GTCATTTTA-CCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTT-GAGGGTATTTCG
* **
30415006 GTCATTTTACCTTTTGAGGGTATTTTA
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
30415033 GTCATTTTACCATTTGAGGGTATTTCG
1 GTCATTTTACCCTTTGAGGGTATTTCG
* * *
30415060 ATCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTTGAGGGTATTTCG
*
30415087 ATCATTT
1 GTCATTT
30415094 GTGGCCTATT
Statistics
Matches: 259, Mismatches: 37, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
26 29 0.11
27 224 0.86
28 6 0.02
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (27 bp):
GTCATTTTACCCTTTGAGGGTATTTCG
Found at i:30422297 original size:27 final size:27
Alignment explanation
Indices: 30422267--30422346 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
30422257 TTTCATCTTC
**
30422267 TAGGGGTATAACGGTCATTTTACCCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
* *
30422294 TAGGGGTATTTCAGTAATTTTA-CCTA
1 TAGGGGTATTTCGGTCATTTTACCCTA
*
30422320 TCGAGGGTATTTCGGTCATTTTACCCT
1 TAG-GGGTATTTCGGTCATTTTACCCT
30422347 GCGGGGGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.14
27 35 0.80
28 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTCGGTCATTTTACCCTA
Found at i:30422354 original size:27 final size:27
Alignment explanation
Indices: 30422269--30422435 Score: 97
Period size: 27 Copynumber: 6.2 Consensus size: 27
30422259 TCATCTTCTA
** **
30422269 GGGGTATAACGGTCATTTTACCCTATA
1 GGGGTATTTCGGTCATTTTACCCTACG
* *
30422296 GGGGTATTTCAGTAATTTTA-CCTATCG
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* *
30422323 AGGGTATTTCGGTCATTTTACCCTGCG
1 GGGGTATTTCGGTCATTTTACCCTACG
* * * **
30422350 GGGGTATTTTGATAATTTTA-CCTATTT
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* * ** *
30422377 AGGTTATTTCTATAATTTTACCC-ATCG
1 GGGGTATTTCGGTCATTTTACCCTA-CG
* * *
30422404 AGGGTATTTTGATCATTTTACCCTACG
1 GGGGTATTTCGGTCATTTTACCCTACG
30422431 GGGGT
1 GGGGT
30422436 CTTTATGCAG
Statistics
Matches: 107, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
26 7 0.07
27 94 0.88
28 6 0.06
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTACG
Found at i:30422385 original size:54 final size:53
Alignment explanation
Indices: 30422278--30422425 Score: 154
Period size: 54 Copynumber: 2.7 Consensus size: 53
30422268 AGGGGTATAA
** *
30422278 CGGTCATTTTACCCTATAGGGGTA-TTTCAGTAATTTTACCTATCGAGGGTATTT
1 CGGTCATTTTACCCT-CGGGGGTATTTTGA-TAATTTTACCTATCGAGGGTATTT
** *
30422332 CGGTCATTTTACCCTGCGGGGGTATTTTGATAATTTTACCTATTTAGGTTATTT
1 CGGTCATTTTACCCT-CGGGGGTATTTTGATAATTTTACCTATCGAGGGTATTT
** * * *
30422386 CTATAATTTTACCCATCGAGGGTATTTTGATCATTTTACC
1 CGGTCATTTTACCC-TCGGGGGTATTTTGATAATTTTACC
30422426 CTACGGGGGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
54 75 0.94
55 5 0.06
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (53 bp):
CGGTCATTTTACCCTCGGGGGTATTTTGATAATTTTACCTATCGAGGGTATTT
Found at i:30437400 original size:61 final size:61
Alignment explanation
Indices: 30437323--30437438 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
30437313 ATACATTTTA
* * * * *
30437323 TATATATATGTGGTTCGAATATAGGT-TACAAATTCTTTGAGCTGAATTTAATGTTTTAAAC
1 TATACATATGAGGTTCGAATATA-ATATACAAATTCTTTGAGCTAAACTTAATGTTTTAAAC
* *
30437384 TATACATATGAGGTTCGAATGTAATATACAAGTTCTTTGAGCTAAACTTAATGTT
1 TATACATATGAGGTTCGAATATAATATACAAATTCTTTGAGCTAAACTTAATGTT
30437439 ATGAATTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
60 1 0.02
61 46 0.98
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (61 bp):
TATACATATGAGGTTCGAATATAATATACAAATTCTTTGAGCTAAACTTAATGTTTTAAAC
Found at i:30437611 original size:41 final size:41
Alignment explanation
Indices: 30437566--30437662 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
30437556 GCTCTGTGCT
*
30437566 TAGCAGGCTTAATGCCAGTGAAATAATTT-AGACTTTACGTC
1 TAGCAGGCTTAATGCCAGTGAAAT-ATTTCAGACTTTACATC
*
30437607 TAGCAGGCTTAATGCCAGTGAAATATTTCTGACTTTACATC
1 TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATC
30437648 TAGCAGGCTTAATGC
1 TAGCAGGCTTAATGC
30437663 TGGTGTTCTG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 4 0.08
41 49 0.92
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCAGTGAAATATTTCAGACTTTACATC
Found at i:30443309 original size:20 final size:21
Alignment explanation
Indices: 30443271--30443309 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30443261 CTATCACGAG
*
30443271 TATCGATACTTAGGGTAGAAA
1 TATCGATACTTACGGTAGAAA
30443292 TATCGATACTT-CGGTAGA
1 TATCGATACTTACGGTAGA
30443310 GGTATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (21 bp):
TATCGATACTTACGGTAGAAA
Found at i:30449101 original size:87 final size:87
Alignment explanation
Indices: 30448955--30449115 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 87
30448945 TTGTTGAGTG
* * *
30448955 AAAATTGAACTCCTAAAATTAAACAACTTCACATTGAATAAGGTTATCTACTTTAGGATTTTCCA
1 AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
*
30449020 TTTGCAAAAACTTGATGTGCAC
66 TGTGCAAAAACTTGATGTGCAC
* *
30449042 AAAATTGAACACCTAAAATTAAACAACTTCAGACTAAATAAGGTTATCTAGTTTAGGATTTTCCA
1 AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
30449107 TGTGCAAAA
66 TGTGCAAAA
30449116 TTTAGGTAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (87 bp):
AAAATTGAACACCTAAAATTAAACAACTTCACACTAAATAAGGTTATCTACTTTAGGATTTTCCA
TGTGCAAAAACTTGATGTGCAC
Found at i:30451201 original size:24 final size:24
Alignment explanation
Indices: 30451174--30451227 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
30451164 CATAAAAGCA
*
30451174 TTCCTTTTTAAATTTTTTGTTGGT
1 TTCCTTTTTAAATTTTTTGTTAGT
*
30451198 TTCCTTTTTAATTTTTTTGTTAGT
1 TTCCTTTTTAAATTTTTTGTTAGT
*
30451222 GTCCTT
1 TTCCTT
30451228 CATTGCTTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (24 bp):
TTCCTTTTTAAATTTTTTGTTAGT
Found at i:30464943 original size:12 final size:12
Alignment explanation
Indices: 30464926--30464950 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30464916 TAAATTGATA
30464926 TAAAAAATATAT
1 TAAAAAATATAT
30464938 TAAAAAATATAT
1 TAAAAAATATAT
30464950 T
1 T
30464951 CGTCAATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAATATAT
Found at i:30466794 original size:63 final size:64
Alignment explanation
Indices: 30466720--30466848 Score: 242
Period size: 63 Copynumber: 2.0 Consensus size: 64
30466710 TTACTCCAAC
*
30466720 TATGTTATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGG-TT
1 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
30466783 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
1 TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
30466847 TA
1 TA
30466849 ACCTGCGAGG
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
63 60 0.94
64 4 0.06
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (64 bp):
TATGTCATGGAAGAGTTACATAGGTTTCTGCTTCAGGCTTGTCATGTTATTAACCATTTGGCTT
Found at i:30469805 original size:2 final size:2
Alignment explanation
Indices: 30469798--30469827 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30469788 TTGTGTTCTT
30469798 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30469828 GTGGCTGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:30469944 original size:43 final size:43
Alignment explanation
Indices: 30469883--30469968 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
30469873 GCAAAAGAAA
30469883 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
1 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
30469926 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
1 GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
30469969 TACCTTAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (43 bp):
GAGAATCAAGTTTGTGGCATCTATGTTTGTTTCTTATCCTTGT
Found at i:30474482 original size:5 final size:5
Alignment explanation
Indices: 30474472--30474503 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
30474462 CTTGGACAGA
30474472 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT TT
30474504 TTTCGGGGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:30476738 original size:30 final size:30
Alignment explanation
Indices: 30476666--30476833 Score: 146
Period size: 30 Copynumber: 5.7 Consensus size: 30
30476656 TGCTTCGACT
*
30476666 ATTG-ACTATGAAAAAGGATGGTGATGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* * *
30476695 A-TCAACAATGAAAAGGAATGGTGATGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* *
30476724 ATTGAACTATGAAAAGGGATGGCT--TCGGCT
1 ATTGAACTATGAAAAGGGATGG-TGAT-GACC
* * *
30476754 ATCGATCTATGAAAAGGGATGGTGACGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
* * *
30476784 ATTGAACAATGAAAAGGGATTGTGAGGACC
1 ATTGAACTATGAAAAGGGATGGTGATGACC
** * *
30476814 ATCAAATTATGAAAATGGAT
1 ATTGAACTATGAAAAGGGAT
30476834 AGCTTCAGCT
Statistics
Matches: 109, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
28 1 0.01
29 26 0.24
30 81 0.74
31 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (30 bp):
ATTGAACTATGAAAAGGGATGGTGATGACC
Found at i:30476825 original size:60 final size:60
Alignment explanation
Indices: 30476673--30476833 Score: 168
Period size: 60 Copynumber: 2.7 Consensus size: 60
30476663 ACTATTGACT
* * * * *
30476673 ATGAAAAAGGATGGTGATGACCATCAACA--ATGAAAAGGAATGGTGATGACCATTGAACT
1 ATGAAAAGGGATGGTGAGGACCATCAA-ATTATGAAAAGGGATGGTGACGACCATTGAACA
** * *
30476732 ATGAAAAGGGATGGCTTCGG-CTATC-GATCTATGAAAAGGGATGGTGACGACCATTGAACA
1 ATGAAAAGGGATGG-TGAGGACCATCAAAT-TATGAAAAGGGATGGTGACGACCATTGAACA
* *
30476792 ATGAAAAGGGATTGTGAGGACCATCAAATTATGAAAATGGAT
1 ATGAAAAGGGATGGTGAGGACCATCAAATTATGAAAAGGGAT
30476834 AGCTTCAGCT
Statistics
Matches: 81, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
59 20 0.25
60 58 0.72
61 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGAGGACCATCAAATTATGAAAAGGGATGGTGACGACCATTGAACA
Found at i:30476825 original size:90 final size:88
Alignment explanation
Indices: 30476657--30476863 Score: 261
Period size: 90 Copynumber: 2.3 Consensus size: 88
30476647 AAAACAGATT
* * * * *
30476657 GCTTCGACTATTGACTATGAAAAAGGATGGTGATGACCATCAACAATGAAAAGGAATGGTGATGA
1 GCTTCGGCTATCGACTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAATGGTGAGGA
** *
30476722 CCATTGAACTATGAAAAGGGATG
66 CCATCAAACTATGAAAAGGGATA
* * *
30476745 GCTTCGGCTATCGATCTATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATTGTGAG
1 GCTTCGGCTATCGA-CTATGAAAAGGGATGGTGACGACCA-TCAACAATGAAAAGGAATGGTGAG
* *
30476810 GACCATCAAATTATGAAAATGGATA
64 GACCATCAAACTATGAAAAGGGATA
*
30476835 GCTTCAGCTATCGAACTATGAAAAGGGAT
1 GCTTCGGCTATCG-ACTATGAAAAGGGAT
30476864 AACTTCTGTT
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
88 12 0.12
89 23 0.23
90 66 0.65
91 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (88 bp):
GCTTCGGCTATCGACTATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGAATGGTGAGGA
CCATCAAACTATGAAAAGGGATA
Found at i:30476855 original size:30 final size:30
Alignment explanation
Indices: 30476821--30476893 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
30476811 ACCATCAAAT
* *
30476821 TATGAAAATGGATAGCTTCAGCTATCGAAC
1 TATGAAAAGGGATAACTTCAGCTATCGAAC
* * *
30476851 TATGAAAAGGGATAACTTCTGTTATCGAAT
1 TATGAAAAGGGATAACTTCAGCTATCGAAC
*
30476881 TACGAAAAGGGAT
1 TATGAAAAGGGAT
30476894 TGTCAACCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTCAGCTATCGAAC
Found at i:30479444 original size:25 final size:23
Alignment explanation
Indices: 30479401--30479451 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
30479391 TAACATCATT
*
30479401 AATATCTAATTTTTGAAATGTTAAA
1 AATATCTAATTATTGAAA--TTAAA
30479426 AATATCTAAATTATT-AAATTAAA
1 AATATCT-AATTATTGAAATTAAA
30479449 AAT
1 AAT
30479452 TTTTCGTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
AATATCTAATTATTGAAATTAAA
Found at i:30483624 original size:27 final size:26
Alignment explanation
Indices: 30483582--30483671 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
30483572 TTAGCATTGT
30483582 TTTTAAAAAGTG-TTGTGAAAAAGTAC
1 TTTTAAAAAGTGTTTGTGAAAAA-TAC
* * **
30483608 TTTTAAGAAGTGTTTGTAAAAAATTGT
1 TTTTAAAAAGTGTTTGTGAAAAA-TAC
* * *
30483635 TTTTGAGAAGTGCTTT-TGAGAAATAC
1 TTTTAAAAAGTG-TTTGTGAAAAATAC
30483661 TTTTAAAAAGT
1 TTTTAAAAAGT
30483672 TTGGTTTAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 21 0.42
27 26 0.52
28 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAGTGTTTGTGAAAAATAC
Found at i:30483898 original size:24 final size:23
Alignment explanation
Indices: 30483870--30483921 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30483860 TGAAATATAA
*
30483870 ATTAAATATTTTTAAATAATTA-AT
1 ATTAAATATTTAT-AA-AATTAGAT
*
30483894 ATTAATTATTTATAAAATTAGAT
1 ATTAAATATTTATAAAATTAGAT
30483917 ATTAA
1 ATTAA
30483922 CACATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 9 0.36
24 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTAAATATTTATAAAATTAGAT
Found at i:30485963 original size:21 final size:22
Alignment explanation
Indices: 30485939--30485980 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30485929 TTTTCCTATT
30485939 ATTATTATTATTTT-AATTTTC
1 ATTATTATTATTTTAAATTTTC
*
30485960 ATTATTTTTATTTTAAATTTT
1 ATTATTATTATTTTAAATTTT
30485981 AAATTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (22 bp):
ATTATTATTATTTTAAATTTTC
Found at i:30489235 original size:38 final size:37
Alignment explanation
Indices: 30489185--30489368 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
30489175 ATAGTATTAT
*
30489185 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
30489222 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
30489262 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
30489304 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
30489342 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
30489369 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:30489253 original size:18 final size:18
Alignment explanation
Indices: 30489232--30489385 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
30489222 ATATTAAGAA
30489232 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
30489250 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
30489265 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
30489280 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
30489299 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
30489314 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
30489333 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
30489352 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
30489370 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
30489386 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:30489306 original size:120 final size:120
Alignment explanation
Indices: 30489167--30489647 Score: 750
Period size: 120 Copynumber: 4.0 Consensus size: 120
30489157 ATTATTAATC
* * * *
30489167 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
30489232 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
30489287 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
30489352 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGATAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
30489407 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
30489472 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
30489527 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
30489592 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
30489648 ATGATTAAAT
Statistics
Matches: 344, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 337 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:30489510 original size:15 final size:15
Alignment explanation
Indices: 30489475--30489526 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
30489465 TTAATAATTT
*
30489475 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30489489 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30489503 TATTTAATAATAAT-
1 TATTTAATTATAATA
30489517 TATGTTAATT
1 TAT-TTAATT
30489527 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30489517 original size:44 final size:43
Alignment explanation
Indices: 30489466--30489549 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
30489456 TATTGATTAT
* *
30489466 TAATAATTTTATTAAATTATATATTTTA-ATTATAATATATTTAA
1 TAATAATTATATT-AATT-TATATTTTATAGTATAATATATTTAA
* *
30489510 TAATAATTATGTTAATTTATATTTTATAGTATCATATATT
1 TAATAATTATATTAATTTATATTTTATAGTATAATATATT
30489550 ATGATTTGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 15 0.43
44 11 0.31
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (43 bp):
TAATAATTATATTAATTTATATTTTATAGTATAATATATTTAA
Found at i:30489871 original size:45 final size:43
Alignment explanation
Indices: 30489771--30489880 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
30489761 TTTTCCATTA
30489771 TGCTATTACACCTCTATTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
* * ***
30489810 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATT-CATTACATTCAACCAAACACAAGA-T
30489855 TGCTATTACACCTCTATTTCATTACA
1 TGCTATTACACCTCTA-TTCATTACA
30489881 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 22 0.39
46 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
Found at i:30489880 original size:16 final size:16
Alignment explanation
Indices: 30489859--30489928 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
30489849 TTGATTTGCT
* *
30489859 ATTACACCTCTATTTC
1 ATTACACCTCTAATCC
30489875 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
30489891 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
30489907 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
30489923 AATACA
1 ATTACA
30489929 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:30489978 original size:24 final size:24
Alignment explanation
Indices: 30489946--30489996 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
30489936 AAACGTGCCC
* **
30489946 TTAGTATTTATGAGTATAATATAT
1 TTAGCATTTATGAACATAATATAT
*
30489970 TTAGCATTTATTAACATAATATAT
1 TTAGCATTTATGAACATAATATAT
30489994 TTA
1 TTA
30489997 ACTTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
TTAGCATTTATGAACATAATATAT
Found at i:30494390 original size:24 final size:24
Alignment explanation
Indices: 30494363--30494414 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30494353 TTTCTAGAAG
* **
30494363 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30494387 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30494411 ATTT
1 ATTT
30494415 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30498571 original size:3 final size:3
Alignment explanation
Indices: 30498563--30498593 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
30498553 AAAATAAACC
30498563 CTT CTT CTT CTT CCTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT
30498594 AAAATAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:30498578 original size:13 final size:13
Alignment explanation
Indices: 30498562--30498593 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30498552 TAAAATAAAC
30498562 CCTTCTTCTTCTT
1 CCTTCTTCTTCTT
30498575 CCTTCTTCTTCTT
1 CCTTCTTCTTCTT
30498588 -CTTCTT
1 CCTTCTT
30498594 AAAATAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
CCTTCTTCTTCTT
Found at i:30498750 original size:19 final size:19
Alignment explanation
Indices: 30498728--30498789 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
30498718 ATCTTTGAAT
*
30498728 TATTGAATGATTTTAGCTC
1 TATTGAATGATTTTCGCTC
* *
30498747 TATTTGCAT-CTGTTTCGCTC
1 TA-TTGAATGAT-TTTCGCTC
30498767 TATTGAATGATTTTCGCTC
1 TATTGAATGATTTTCGCTC
30498786 TATT
1 TATT
30498790 TTCCTTCTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (19 bp):
TATTGAATGATTTTCGCTC
Found at i:30499201 original size:17 final size:17
Alignment explanation
Indices: 30499179--30499230 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
30499169 AATTTCTCAA
30499179 AGTAATAATGTAATATT
1 AGTAATAATGTAATATT
*
30499196 AGTAATAATATAATATT
1 AGTAATAATGTAATATT
*
30499213 AGTAATAACGTAATATT
1 AGTAATAATGTAATATT
30499230 A
1 A
30499231 ATAGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (17 bp):
AGTAATAATGTAATATT
Found at i:30499657 original size:90 final size:89
Alignment explanation
Indices: 30499536--30499930 Score: 519
Period size: 90 Copynumber: 4.4 Consensus size: 89
30499526 CTTCAATTAA
* *
30499536 TTAATTTATGCTGTTGTACTATTATACTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAC
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA-
* *
30499601 TATGGTTTAATAGACTTTTTTTTGT
65 TATAGTTTAACAGACTTTTTTTTGT
*
30499626 TTAATTTATGCTATTGTACTATTATATTAATTTAGGTTTCAATTAACTAACTTTAAAGTTTAAAG
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAA-
* *
30499691 TATAGTTTAATATACTTTTTTTTGT
65 TATAGTTTAACAGACTTTTTTTTGT
30499716 TTAATTTACACGGTTG-TACTTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAG
1 TTAATTT--A----TGCTA-TTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAG
**
30499780 TTTAAATGATAACTTAACAGAC--TTTTTT-T
59 TTTAAAT-ATAGTTTAACAGACTTTTTTTTGT
* *
30499809 TTAATTTATGCAATTGTACTATTATATTAATTTAGGCTTCAATTAAATAACTTTAAAGTTTAAAA
1 TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTT-AAA
* *
30499874 TGTAGTTTAACATACTTTTTTTTGT
65 TATAGTTTAACAGACTTTTTTTTGT
***
30499899 TTAATTTATGCTGCCGTACTATTATATTAATT
1 TTAATTTATGCTATTGTACTATTATATTAATT
30499931 AATTTTTAAT
Statistics
Matches: 271, Mismatches: 21, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
87 59 0.22
88 5 0.02
89 6 0.02
90 120 0.44
91 1 0.00
92 1 0.00
93 8 0.03
94 6 0.02
95 3 0.01
96 62 0.23
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (89 bp):
TTAATTTATGCTATTGTACTATTATATTAATTTAGGCTTCAATTAACTAACTTTAAAGTTTAAAT
ATAGTTTAACAGACTTTTTTTTGT
Done.