Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 16 of 186
Found at i:4914363 original size:31 final size:31
Alignment explanation
Indices: 4914323--4914405 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
4914313 TTAACGACCA
* * *
4914323 AGTGCCTTAAATAAAAACTTTAGAGTGGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
*
4914354 AGTGACTTAAATAAAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAACTTTAGAATAGTTT
* * *
4914385 AATGACTTAAATGAAACCTTT
1 AGTGACTTAAATAAAAACTTT
4914406 CGTATAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTAGAATAGTTT
Found at i:4915218 original size:37 final size:37
Alignment explanation
Indices: 4915157--4915302 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
4915147 TACGTATGAT
* *
4915157 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4915192 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4915229 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4915266 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4915303 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:4915319 original size:46 final size:46
Alignment explanation
Indices: 4915266--4915534 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
4915256 TAAGTGTAGC
* **
4915266 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4915312 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4915358 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4915410 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
4915456 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4915508 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4915535 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:4915385 original size:52 final size:52
Alignment explanation
Indices: 4915309--4915528 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
4915299 TAGCTAAAGC
* *
4915309 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4915362 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4915414 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4915460 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4915512 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
4915529 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4915431 original size:98 final size:98
Alignment explanation
Indices: 4915266--4915534 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
4915256 TAAGTGTAGC
* * *
4915266 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
4915331 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
4915365 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
4915430 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
4915463 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
4915528 GATCAGA
66 GATCAGA
4915535 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:4924590 original size:64 final size:64
Alignment explanation
Indices: 4924511--4924638 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
4924501 AAATGTTAGC
* *
4924511 ATATAATTAGCTCCACCTTTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
1 ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
* *
4924575 ATATAACTAGCTCCACCTCTCGAATGCATTTTGGATGACCCCCACAGATCAGAATGAATATACT
1 ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
4924639 TTAACATTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (64 bp):
ATATAACTAGCTCCACCTCTCGAAGGCACTTTGGATGACCCCCACAGATCAGAATGAATATACT
Found at i:4926694 original size:13 final size:13
Alignment explanation
Indices: 4926666--4926711 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
4926656 TTCCTTAATC
4926666 TTTA-TTTATTAT
1 TTTATTTTATTAT
4926678 TTTATTTTAGTTA-
1 TTTATTTTA-TTAT
*
4926691 TTTATTTTAATTTT
1 TTTATTTT-ATTAT
4926705 TTTATTT
1 TTTATTT
4926712 GACTTGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:4926709 original size:18 final size:19
Alignment explanation
Indices: 4926660--4926711 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
4926650 ATTCGCTTCC
4926660 TTAATCTTTATTTA-TTATT
1 TTAAT-TTTATTTATTTATT
*
4926679 TT-ATTTTAGTTATTTATT
1 TTAATTTTATTTATTTATT
4926697 TTAATTTT-TTTATTT
1 TTAATTTTATTTATTT
4926712 GACTTGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 7 0.24
18 15 0.52
19 7 0.24
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTAATTTTATTTATTTATT
Found at i:4929231 original size:3 final size:3
Alignment explanation
Indices: 4929223--4929253 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4929213 TAGTTTACTC
4929223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4929254 AAGCTTGATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4933055 original size:24 final size:24
Alignment explanation
Indices: 4933028--4933079 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4933018 AATCAAAGTC
* *
4933028 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
4933052 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
4933076 AAAT
1 AAAT
4933080 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:4938812 original size:3 final size:3
Alignment explanation
Indices: 4938804--4938832 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4938794 GTTATCTTTG
4938804 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4938833 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4939647 original size:106 final size:105
Alignment explanation
Indices: 4939434--4939736 Score: 408
Period size: 106 Copynumber: 2.8 Consensus size: 105
4939424 TTTCTAATTG
* * * *
4939434 AGGCAATATTTTGCGTTTAGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * *** **
4939499 CGTTTAACCAAATGACTTAATATCCTTTTAATTTTTTTAAAATA
63 CGTTTAACCAAATG-CTAAATATCCTTTCAAAAATTACAAAATA
*
4939543 AGGCAATGTTTTGTGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
4939608 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAAT-GCTAAATATCCTTTCAAAAATTACAAAATA
* *
4939649 AGGTAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
4939714 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAA-TGCTAAATATCCT
4939737 CTTGAATTTT
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
106 120 0.69
107 2 0.01
108 26 0.15
109 26 0.15
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (105 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:4951461 original size:46 final size:45
Alignment explanation
Indices: 4951408--4952003 Score: 452
Period size: 46 Copynumber: 13.6 Consensus size: 45
4951398 ATTATACAGG
* * *
4951408 TCTTATCTCCCTGAGGTTCCAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* *
4951454 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * *
4951497 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* *
4951538 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* *
4951584 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * *
4951627 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---G-CATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * *
4951668 TCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAC-ATCAGA
* * * *
4951714 TCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGGAGACAT--GA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * ** * *
4951757 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-A-ATAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACAT-CA-GA
* * * * * *
4951801 TCTTATCTCTCTGAAGTTACAGTAGAGCAGATC---G-CACCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* *
4951842 TCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACA--TCAGA
* * * * * *
4951888 TTTTATCCCCCTGAGGTTACAGCGAAGCAGATCGAAGACA-C-TA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
* * * ** * *
4951931 TCCTATCTCCCTGAAGTTACAGCGGAGCGGAT-TAAAACCA-CAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGA-CATCAGA
** *
4951975 TCTTATCTCCCTGAACTTGCAGTGGAGTA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTA
4952004 AATTAAAACC
Statistics
Matches: 436, Mismatches: 84, Indels: 62
0.75 0.14 0.11
Matches are distributed among these distances:
39 6 0.01
40 4 0.01
41 90 0.21
42 5 0.01
43 120 0.28
44 59 0.14
45 5 0.01
46 146 0.33
47 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGACATCAGA
Found at i:4951637 original size:130 final size:130
Alignment explanation
Indices: 4951404--4951779 Score: 698
Period size: 130 Copynumber: 2.9 Consensus size: 130
4951394 GTTCATTATA
*
4951404 CAGGTCTTATCTCCCTGAGGTTCCAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
4951469 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
4951534 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
4951599 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
4951664 CAGGTCTTATCTCCTTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
* * * *
4951729 GTTATAGCGGAGCAGATCGGAGACATGATCCTATCTCCCTGAAGTTACAGT
66 GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGT
4951780 GGAGCGGATT
Statistics
Matches: 240, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 240 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (130 bp):
CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAG
GTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:4951822 original size:174 final size:173
Alignment explanation
Indices: 4951450--4952003 Score: 618
Period size: 174 Copynumber: 3.2 Consensus size: 173
4951440 CGAAGACTTT
* * ** * * * * * *
4951450 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATGATCTTATCTCTCTGAAGTT
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-CCA-GGTCTTATCTCCCTGAGGTT
* * * * * *
4951515 ACAGTAGAGTAGATC---GCA--TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG
64 ACAGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
* * * * * *
4951575 ACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA
129 AC-AT--GATCCTATCTCCCTGAAGTTACAGCGGAGCGGAT-TAAAACA
* * *
4951624 -TGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCTTGAGGTTAC
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTAC
* * * *
4951688 AGTGGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTATAGCGGAGCAGATCGGAGAC
66 AGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
* *
4951753 ATGATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
131 ATGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACA
* *
4951796 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
1 CA-GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTA
* * *
4951861 CAGTAGAGTAGACCGAAGAATTTCAGATTTTATCCCCCTGAGGTTACAGCGAAGCAGATCGAAGA
65 CAGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGA
4951926 CACT-ATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACCA
130 CA-TGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAA-CA
* * * *
4951971 CAGATCTTATCTCCCTGAACTTGCAGTGGAGTA
1 CAGATCTTATCTCTCTGAAGTTACAGTAGAGTA
4952004 AATTAAAACC
Statistics
Matches: 322, Mismatches: 49, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
171 29 0.09
172 6 0.02
173 62 0.19
174 183 0.57
175 4 0.01
176 38 0.12
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (173 bp):
CAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATCTCCCTGAGGTTAC
AGTAGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
ATGATCCTATCTCCCTGAAGTTACAGCGGAGCGGATTAAAACA
Found at i:4953536 original size:3 final size:3
Alignment explanation
Indices: 4953528--4953556 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4953518 GTTATCTTTG
4953528 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4953557 TATTTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4954371 original size:106 final size:106
Alignment explanation
Indices: 4954158--4954460 Score: 435
Period size: 106 Copynumber: 2.8 Consensus size: 106
4954148 TTTCTAATTG
* *
4954158 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
* * * *** **
4954223 CGTTTAACCAAATGGCTTAATATCCTTTTAATTTTTTTAAAATA
63 CGTTTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
*
4954267 AGGCAATGTTTTGTGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
*
4954332 TCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 TTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
* *
4954373 AGGTAATGTTTTGCGTTTGGAAATTTGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
* *
4954438 TTAACCAAATTGCCAAATATCCT
66 TTAACCAAATAGCTAAATATCCT
4954461 CTTGAATTTT
Statistics
Matches: 176, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
106 122 0.69
108 26 0.15
109 28 0.16
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.35
Consensus pattern (106 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTTCGATTTCTCGT
TTAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:4955285 original size:23 final size:23
Alignment explanation
Indices: 4955259--4955334 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
4955249 AGTGTTATTG
*
4955259 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
4955282 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4955305 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
4955328 ATCAGTG
1 ATCAGTG
4955335 TGGTACTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:4959613 original size:20 final size:18
Alignment explanation
Indices: 4959588--4959626 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
4959578 CTTGCTAAAA
4959588 TTCTCTGCATTTTTCTATCT
1 TTCTCTGC-TTTTTCT-TCT
*
4959608 TTCTCTTCTTTTTCTTCT
1 TTCTCTGCTTTTTCTTCT
4959626 T
1 T
4959627 CTTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.67
Consensus pattern (18 bp):
TTCTCTGCTTTTTCTTCT
Found at i:4962611 original size:22 final size:22
Alignment explanation
Indices: 4962564--4962611 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4962554 AACTGCTTGC
* **
4962564 ATCTTAATCTGCCACAATGCGC
1 ATCTTAATCTGCCACAACGCAA
4962586 ATCTTAATCTGCCACAACGCAA
1 ATCTTAATCTGCCACAACGCAA
4962608 ATCT
1 ATCT
4962612 GGTCAATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.27
Consensus pattern (22 bp):
ATCTTAATCTGCCACAACGCAA
Found at i:4962920 original size:24 final size:24
Alignment explanation
Indices: 4962905--4962956 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4962895 AATCAAAGTC
4962905 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
4962929 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
4962953 AAAT
1 AAAT
4962957 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:4970502 original size:17 final size:18
Alignment explanation
Indices: 4970480--4970517 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4970470 ATTTACACGT
4970480 AATAAAACT-TAAATT-AA
1 AATAAAA-TATAAATTGAA
4970497 AATAAAATATAAATTGAA
1 AATAAAATATAAATTGAA
4970515 AAT
1 AAT
4970518 TTACTAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 13 0.68
18 5 0.26
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (18 bp):
AATAAAATATAAATTGAA
Found at i:4986375 original size:14 final size:16
Alignment explanation
Indices: 4986346--4986382 Score: 60
Period size: 14 Copynumber: 2.4 Consensus size: 16
4986336 GATAAATATA
4986346 ATTAAAAAAGTAAAAT
1 ATTAAAAAAGTAAAAT
4986362 ATTAAAAAA-T-AAAT
1 ATTAAAAAAGTAAAAT
4986376 ATTAAAA
1 ATTAAAA
4986383 GTAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 1 0.05
16 9 0.43
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
ATTAAAAAAGTAAAAT
Found at i:4986389 original size:20 final size:20
Alignment explanation
Indices: 4986366--4986402 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
4986356 TAAAATATTA
4986366 AAAAATAAATA-TTAAAAGT
1 AAAAATAAATATTTAAAAGT
*
4986385 AAAAATATATATTTAAAA
1 AAAAATAAATATTTAAAA
4986403 ACGTTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAAATAAATATTTAAAAGT
Found at i:4986390 original size:15 final size:15
Alignment explanation
Indices: 4986351--4986392 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
4986341 ATATAATTAA
4986351 AAAAGT-AAAATATT
1 AAAAGTAAAAATATT
4986365 AAAA--AATAAATATT
1 AAAAGTAA-AAATATT
4986379 AAAAGTAAAAATAT
1 AAAAGTAAAAATAT
4986393 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.04
14 15 0.62
15 6 0.25
16 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (15 bp):
AAAAGTAAAAATATT
Found at i:4988328 original size:8 final size:8
Alignment explanation
Indices: 4988317--4988341 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4988307 CCACCTACCC
4988317 CCCACTTG
1 CCCACTTG
4988325 CCCACTTG
1 CCCACTTG
4988333 CCCACTTG
1 CCCACTTG
4988341 C
1 C
4988342 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:4992638 original size:51 final size:51
Alignment explanation
Indices: 4992557--4992658 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
4992547 GTCGCCTTGG
4992557 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGATCCGGA
1 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGATCCGGA
* * *
4992608 GAAAGAGTCTATTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGA
1 GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGATCCGGA
4992659 TAACTGAACT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.15, G:0.31, T:0.17
Consensus pattern (51 bp):
GAAAAAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGATCCGGA
Found at i:5001921 original size:87 final size:87
Alignment explanation
Indices: 5001830--5002124 Score: 315
Period size: 87 Copynumber: 3.3 Consensus size: 87
5001820 TTCCAGATCT
*
5001830 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
5001895 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* ** *** * *
5001917 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGATAGATCTTATCTCCCTGAGATTACAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
* * * *
5001982 GAACAGACCGAAGA-ATTTCAGATCT
66 GAGCAGATCGAAGACA---C-TATCC
* * * * *
5002007 TATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACATCG
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
* * *
5002072 GAGTAGATTGAAG-CTAGTAATCC
66 GAGCAGATCGAAGAC-ACT-ATCC
* *
5002095 TATCTCTCTGAAGTTACAGTGGAGCGGATT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATT
5002125 AAAATAAAGG
Statistics
Matches: 164, Mismatches: 37, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
86 1 0.01
87 68 0.41
88 29 0.18
89 1 0.01
90 64 0.39
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
GAGCAGATCGAAGACACTATCC
Found at i:5002021 original size:177 final size:178
Alignment explanation
Indices: 5001743--5002158 Score: 540
Period size: 177 Copynumber: 2.4 Consensus size: 178
5001733 TAAAAGATCT
* * ** * * * * *
5001743 TATCTCTCTGAAGTTACAGTAGAGAAGATC-ACAT-CAGG-TCTTATTTCCCTTAGGTTACAGTG
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGATCTTATCTCCCTGAGATTACAGTG
** *
5001805 GAGTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAG
66 GAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAG
*
5001870 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCC
131 ATCTTATCTCCCTCAGATTACAGCGGAGCAGATCGAAG-CTACTAATCC
*
5001917 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATGATA-GATCTTATCTCCCTGAGATTACAGT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAAT-AAAGGATCTTATCTCCCTGAGATTACAGT
* *
5001981 GGAACAGACCGAAGAATTTCAGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
65 GGAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
* * * * *
5002046 GATCTTATCTCTCTCAGATTACATCGGAGTAGATTGAAGCTAGTAATCC
130 GATCTTATCTCCCTCAGATTACAGCGGAGCAGATCGAAGCTACTAATCC
* * *
5002095 TATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGATCTTATCTCCCTGAGA-TTACAGT
5002159 AGAGAAGATC
Statistics
Matches: 210, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
174 26 0.12
175 3 0.01
176 2 0.01
177 120 0.57
178 59 0.28
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (178 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATCAAAATAAAGGATCTTATCTCCCTGAGATTACAGTG
GAACAGACCGAAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAG
ATCTTATCTCCCTCAGATTACAGCGGAGCAGATCGAAGCTACTAATCC
Found at i:5002024 original size:46 final size:44
Alignment explanation
Indices: 5001609--5002563 Score: 533
Period size: 44 Copynumber: 21.9 Consensus size: 44
5001599 AAAAAAATTT
* *
5001609 TCAGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAA-ACA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA-A
* * * *
5001653 -GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-A
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * * *
5001695 T-AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA
1 TCAG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * *
5001737 --AGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * * *
5001776 TCAGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACCGGAGAA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* *
5001820 TTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 -T-CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AA
* * *
5001867 -GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * *
5001909 -CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATC-AA-AA
1 TCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * *
5001951 TGATAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAA
1 T--CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * *
5001997 TTTCAGATCTTATCTCCTTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 --TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AA
* * * * * * *
5002044 -GAGATCTTATCTCTCTCAGATTACA-TCGGAGTAGATTGAAG-C
1 TCAGATCTTATCTCCCTGAGGTTACAGT-GGAGCAGATCGAAGAA
* * * * *
5002086 T-AGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGAT-TAA-AA
1 TCAG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * * *
5002129 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CA
1 T-CA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * * *
5002172 TCAGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACCGGAGAA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * *
5002216 TTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTT
1 -T-CAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGA--A
*
5002264 TCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG-A
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * *
5002307 -CATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA
1 TCA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * *
5002348 TCAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAA
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* *
5002392 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 --TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AA
* * * * * * *
5002439 -GAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-C
1 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * *
5002481 T-AGAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGAT-TAA-AA
1 TCAG--ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
* * * * *
5002524 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
1 T-CA-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATC
5002564 ACATCAGATT
Statistics
Matches: 711, Mismatches: 142, Indels: 115
0.73 0.15 0.12
Matches are distributed among these distances:
39 26 0.04
40 1 0.00
41 86 0.12
42 19 0.03
43 105 0.15
44 276 0.39
45 8 0.01
46 185 0.26
47 4 0.01
48 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA
Found at i:5002491 original size:395 final size:395
Alignment explanation
Indices: 5001556--5002570 Score: 1503
Period size: 395 Copynumber: 2.6 Consensus size: 395
5001546 TAGGTTTATT
* * * * *
5001556 ATACAGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAAAAAAAATTTTCAGATCTTATC
1 ATACAGATCTTATCACCCTGAGATTACAGGGGAACAGACC----GAAGAA-TTTCAGATCTTATC
* * * *
5001621 TCCCTAAGGTTACAGTGGAGCAGATTGAA-ACAGAGATCTTATCTCCCTGAGATTACAGCGGAGC
61 TCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGT
** * *
5001685 AGATCAAAGATAGTAATCCTATCTC-CTTG-AGATTACAATGGAGCGGATT---A-AAA-GATCT
126 AGATTGAAGCTAGTAATCCTATCTCTC-TGAAG-TTACAGTGGAGCGGATTAAAATAAAGGATCT
5001743 TATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTTAGGTTACAGTGGAG
189 TATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTTAGGTTACAGTGGAG
** *
5001808 TAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATC
254 TAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGCCACAGATC
*
5001873 TTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTG
319 TTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTA
*
5001938 GAGCGGATCAAA
384 GAGCAGATCAAA
* * * *
5001950 ATGATAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCT
1 AT-ACAGATCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCC
* *
5002015 TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTCAGATTACATCGGAGTAGAT
65 TGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGAT
5002080 TGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTC
130 TGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTC
5002145 TCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACC
195 TCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACC
* **
5002210 GGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGACTTTCAGATCTTAT
260 GGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-C-CACAGATCTTAT
* * *
5002275 CTCCCTGAGGTTACAGCGGAGCAGATCGAAGACA-TGATCTTATCTCTCTGAAGTTACAGTAGAG
323 CTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTTACAGTAGAG
* **
5002339 TAGATC-GC
387 CAGATCAAA
* * **
5002347 AT-CAGGTCTTATCACCCTGAGGTTACAGGGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCT
1 ATACAGATCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCCT
5002411 GAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATT
66 GAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATT
*
5002476 GAAGCTAGAAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCT
131 GAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCT
*
5002541 CTGAAGTTACAGTAGAGTAGATCACATCAG
196 CTGAAGTTACAGTAGAGAAGATCACATCAG
5002571 ATTGAAGCCA
Statistics
Matches: 568, Mismatches: 41, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
390 41 0.07
391 74 0.13
392 3 0.01
394 3 0.01
395 249 0.44
396 123 0.22
397 4 0.01
398 71 0.12
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (395 bp):
ATACAGATCTTATCACCCTGAGATTACAGGGGAACAGACCGAAGAATTTCAGATCTTATCTCCCT
GAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATT
GAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCT
CTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATTTCCCTTAGGTTACAGTGGAGTAGACCG
GAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGCCACAGATCTTATCTC
CCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACAGTAGAGCAGA
TCAAA
Found at i:5002690 original size:46 final size:46
Alignment explanation
Indices: 5002582--5002690 Score: 130
Period size: 46 Copynumber: 2.4 Consensus size: 46
5002572 TTGAAGCCAG
* * * *
5002582 AGATCTTATCTCCCTGTATTTGGCAGTGGAACAGATTGAAGATTGC
1 AGATCTTACCTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGC
* * *
5002628 AGATCTTGCCTTCCTGTATTTGGCAG-CGAAGCAGATCGATGATGGC
1 AGATCTTACCTCCCTGTATTTGGCAGTCGAA-CAGATCGAAGATGGC
*
5002674 AGATTTTACCTCCCTGT
1 AGATCTTACCTCCCTGT
5002691 GACGACAGTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 3 0.06
46 49 0.94
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (46 bp):
AGATCTTACCTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGC
Found at i:5002844 original size:41 final size:40
Alignment explanation
Indices: 5002764--5002876 Score: 190
Period size: 41 Copynumber: 2.8 Consensus size: 40
5002754 CGAAGATTAC
* *
5002764 AGTCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
5002804 AGTCTTATCTCCCTAAGCAGTTAGTGGAGCAGATCACATCA
1 AGTCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCACATCA
*
5002845 AGTCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGA
5002877 CTAAAAACAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
40 31 0.45
41 38 0.55
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (40 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCA
Found at i:5003257 original size:8 final size:8
Alignment explanation
Indices: 5003246--5003270 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5003236 CCACCTACCC
5003246 CCCACTTG
1 CCCACTTG
5003254 CCCACTTG
1 CCCACTTG
5003262 CCCACTTG
1 CCCACTTG
5003270 C
1 C
5003271 GCCGAACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCACTTG
Found at i:5006707 original size:25 final size:25
Alignment explanation
Indices: 5006679--5006726 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
5006669 AGAGGATAGT
5006679 TTAAAGAACATAAAAGAAAAAAAAA
1 TTAAAGAACATAAAAGAAAAAAAAA
** * *
5006704 TTAAATTACTTAAAAGGAAAAAA
1 TTAAAGAACATAAAAGAAAAAAA
5006727 TATGGGATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAAGAAAAAAAAA
Found at i:5007283 original size:19 final size:19
Alignment explanation
Indices: 5007259--5007295 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5007249 ATTGAATTAT
5007259 AATTTTTATATAATTTTAA
1 AATTTTTATATAATTTTAA
* *
5007278 AATTTTTCTTTAATTTTA
1 AATTTTTATATAATTTTA
5007296 TAACATACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
AATTTTTATATAATTTTAA
Found at i:5009880 original size:17 final size:17
Alignment explanation
Indices: 5009858--5009890 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
5009848 GCGCTTAGTT
5009858 GAAAATAAAAGTGAGAG
1 GAAAATAAAAGTGAGAG
5009875 GAAAATAAAAGTGAGA
1 GAAAATAAAAGTGAGA
5009891 TCATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (17 bp):
GAAAATAAAAGTGAGAG
Found at i:5021927 original size:6 final size:6
Alignment explanation
Indices: 5021918--5021993 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
5021908 TGATTTTATT
* * * * * *
5021918 TTTTTA TTTTTA -ATTTA -ATTTA ATTTTA TGTTTA TGTTTA TTTCTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
5021964 TTTTTA GTTGTTT- TGTTTTA TTTTTA TTTT
1 TTTTTA -TT-TTTA T-TTTTA TTTTTA TTTT
5021994 CTTATACTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
5 9 0.16
6 42 0.72
7 4 0.07
8 3 0.05
ACGTcount: A:0.18, C:0.01, G:0.07, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:5025340 original size:13 final size:13
Alignment explanation
Indices: 5025322--5025347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5025312 CTACAAATTT
5025322 TTTTGCAATGTTG
1 TTTTGCAATGTTG
5025335 TTTTGCAATGTTG
1 TTTTGCAATGTTG
5025348 GGTATTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTTGCAATGTTG
Found at i:5025812 original size:30 final size:30
Alignment explanation
Indices: 5025778--5025839 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
5025768 TATTTCCAGA
5025778 AACCAACTATGAATTTATCACACACAAAAC
1 AACCAACTATGAATTTATCACACACAAAAC
5025808 AACCAACTATGAATTTATCACACACAAAAC
1 AACCAACTATGAATTTATCACACACAAAAC
5025838 AA
1 AA
5025840 TTTTCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.26, G:0.03, T:0.19
Consensus pattern (30 bp):
AACCAACTATGAATTTATCACACACAAAAC
Found at i:5026252 original size:22 final size:22
Alignment explanation
Indices: 5026224--5026269 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
5026214 AATTTTCCAA
5026224 TAATCATAGAAATAACATACTT
1 TAATCATAGAAATAACATACTT
* *
5026246 TAATCATAGAAATAATATATTT
1 TAATCATAGAAATAACATACTT
5026268 TA
1 TA
5026270 GATGCTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
TAATCATAGAAATAACATACTT
Found at i:5032568 original size:24 final size:24
Alignment explanation
Indices: 5032535--5032582 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5032525 TGTCGTTGAG
*
5032535 ATTTAGTTATTTATT-TTTAATTTT
1 ATTTAATTATTT-TTATTTAATTTT
5032559 ATTTAATTATTTTTATTTAATTTT
1 ATTTAATTATTTTTATTTAATTTT
5032583 TCTCATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
ATTTAATTATTTTTATTTAATTTT
Found at i:5050114 original size:41 final size:40
Alignment explanation
Indices: 5050043--5050119 Score: 100
Period size: 41 Copynumber: 1.9 Consensus size: 40
5050033 TAAATTCTTA
* *
5050043 AACCCTAAACCTTAAAACAAAATTATTTTAACAAAACCCT
1 AACCCTAAACCCTAAAACAAAATCATTTTAACAAAACCCT
* * *
5050083 AACCCTACAACCCTAAACCTAAATCATTTTAATAAAA
1 AACCCTA-AACCCTAAAACAAAATCATTTTAACAAAA
5050120 ACTCTAAACC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 7 0.23
41 24 0.77
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (40 bp):
AACCCTAAACCCTAAAACAAAATCATTTTAACAAAACCCT
Found at i:5051023 original size:29 final size:28
Alignment explanation
Indices: 5050991--5051070 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
5050981 TTGATCTTAT
5050991 TAAAAAT-TAGAAAAATTATT-AAATTTTAA
1 TAAAAATATA-AAAAATT-TTAAAATTTT-A
5051020 TAAAAATATAAAAAATTTTAAAATTTTA
1 TAAAAATATAAAAAATTTTAAAATTTTA
5051048 TAAAAATCATAAAAAAATTTTAA
1 TAAAAAT-AT-AAAAAATTTTAA
5051071 CGACCCCTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
28 10 0.21
29 23 0.49
30 14 0.30
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
TAAAAATATAAAAAATTTTAAAATTTTA
Found at i:5051335 original size:26 final size:28
Alignment explanation
Indices: 5051306--5051358 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
5051296 ATTTTATTCT
*
5051306 AATTTTTAATAA-ATTT-TTAATATTTG
1 AATTTTTAATAATATTTAATAATATTTG
*
5051332 AATTTTTATTAATATTTAATAATATTT
1 AATTTTTAATAATATTTAATAATATTT
5051359 ATAGCTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 4 0.17
28 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
AATTTTTAATAATATTTAATAATATTTG
Found at i:5051489 original size:88 final size:88
Alignment explanation
Indices: 5051397--5051576 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 88
5051387 AATTTTTAAT
** *
5051397 AAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAA-GTTTAAGGGTATTTTTTATGCATTTTGAAAG
1 AAAAGTAGGGGCTTAATTGC-TTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAG
*
5051461 TTCAAATAATCAATTGAGTACAAA
65 TTCAAATAATCAAATGAGTACAAA
*
5051485 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCATTTTTTATGCATTTTGAAAGT
1 AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAGT
* * *
5051550 TCAAGTACTCAAATGAGTGCAAA
66 TCAAATAATCAAATGAGTACAAA
5051573 AAAA
1 AAAA
5051577 AAACAGTAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
87 10 0.12
88 73 0.88
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (88 bp):
AAAAGTAGGGGCTTAATTGCTTTTTTTGAAAAGGTTTAAGGGCATTTTTTATGCATTTTGAAAGT
TCAAATAATCAAATGAGTACAAA
Found at i:5051610 original size:88 final size:87
Alignment explanation
Indices: 5051407--5051624 Score: 253
Period size: 88 Copynumber: 2.5 Consensus size: 87
5051397 AAAAGTAGGG
* *
5051407 GCTTAATTGCTTTTTTTTTTAAAGTTTAAGGGTATTTTTTATGCATTTTGAAAGTTCAAATAATC
1 GCTTAATTGCTTTTTTTTTT-AAGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATC
* * ** *
5051472 AATTGAGTACAAAAAAAGTAGGG
65 AAATGAGTAAAAAAAAAACAGGA
*** * *
5051495 GCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAGTACTC
1 GCTTAATTGCTTTTTTTTTTAA-GTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATC
*
5051560 AAATGAGTGCAAAAAAAAAACAGTA
65 AAATGAGT--AAAAAAAAAACAGGA
*
5051585 GCTTAATTG-TTTTTTTTTTAAGTTTGGGGGC--TTTTTATGC
1 GCTTAATTGCTTTTTTTTTTAAGTTTGAGGGCATTTTTTATGC
5051625 CCTTAAGCCT
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
86 9 0.08
87 2 0.02
88 71 0.65
89 9 0.08
90 19 0.17
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (87 bp):
GCTTAATTGCTTTTTTTTTTAAGTTTGAGGGCATTTTTTATGCATTTTGAAAGTTCAAATAATCA
AATGAGTAAAAAAAAAACAGGA
Found at i:5051754 original size:19 final size:20
Alignment explanation
Indices: 5051719--5051757 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5051709 AATTAGAAGC
5051719 TTAAACAATAATATAGAATT
1 TTAAACAATAATATAGAATT
5051739 TTAAA-AAT-ATATTAGAATT
1 TTAAACAATAATA-TAGAATT
5051758 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 10 0.56
20 5 0.28
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAACAATAATATAGAATT
Found at i:5053243 original size:36 final size:36
Alignment explanation
Indices: 5053198--5053278 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
5053188 AATTGTGACG
* * * *
5053198 TTTAATGTTTAACATTATGGTCTTTTAAATTCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
5053234 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
1 TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
5053270 TTTATTGTT
1 TTTATTGTT
5053279 GATGGGATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.33, C:0.06, G:0.07, T:0.53
Consensus pattern (36 bp):
TTTATTGTTTAAAATTATGATCTTTTAAAATCAAAT
Found at i:5059914 original size:4 final size:4
Alignment explanation
Indices: 5059905--5059939 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
5059895 TATAGATTGT
*
5059905 ATAC ATAC ATAC ATAC ATAC ATTC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
5059940 TATATATGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:5073931 original size:13 final size:13
Alignment explanation
Indices: 5073913--5073937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5073903 ATAAAATTCT
5073913 GTAAATCAAAATA
1 GTAAATCAAAATA
5073926 GTAAATCAAAAT
1 GTAAATCAAAAT
5073938 GAAAACTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (13 bp):
GTAAATCAAAATA
Found at i:5074172 original size:33 final size:33
Alignment explanation
Indices: 5074107--5074172 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
5074097 AGTTCAAAAT
* *
5074107 GACTAACAACAGATTCCAGAAGAGAACCCCAGA
1 GACTAACAACAGATTCCAAAAAAGAACCCCAGA
* * *
5074140 GACTAACAATAGATTCCAAAAAAGGACGCCAGA
1 GACTAACAACAGATTCCAAAAAAGAACCCCAGA
5074173 TGGCAATTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.11
Consensus pattern (33 bp):
GACTAACAACAGATTCCAAAAAAGAACCCCAGA
Found at i:5074471 original size:24 final size:24
Alignment explanation
Indices: 5074444--5074493 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
5074434 ACCAAATAGG
5074444 ACCTCGAAAAGTCCATCCAACCTT
1 ACCTCGAAAAGTCCATCCAACCTT
5074468 ACCTCGAAAAGTCCATCCAACCTT
1 ACCTCGAAAAGTCCATCCAACCTT
5074492 AC
1 AC
5074494 ACACTAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.38, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCTCGAAAAGTCCATCCAACCTT
Found at i:5075912 original size:6 final size:6
Alignment explanation
Indices: 5075903--5075932 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
5075893 AAAAAAAAGA
5075903 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
5075933 GTTTATGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAAAT
Found at i:5076593 original size:19 final size:19
Alignment explanation
Indices: 5076565--5076601 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5076555 GGTAAGGGTA
5076565 AAAAGGTAATTAAATAAAT
1 AAAAGGTAATTAAATAAAT
* *
5076584 AAAAGTTAATTTAATAAA
1 AAAAGGTAATTAAATAAA
5076602 AGAAAAAGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (19 bp):
AAAAGGTAATTAAATAAAT
Found at i:5077000 original size:27 final size:28
Alignment explanation
Indices: 5076945--5077009 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
5076935 ATAAAAAATA
* *
5076945 ACCAAAATTTTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
5076973 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
5077000 ACCAAAATAT
1 ACCAAAATAT
5077010 ACCAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:5077088 original size:27 final size:27
Alignment explanation
Indices: 5077049--5077116 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
5077039 GCCTGATCAG
* *
5077049 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATGAGATTGGAGGCACCAAAGGT
* *
5077076 GCCAATGAGATTGGCGGCACCAATGGT
1 GCCAATGAGATTGGAGGCACCAAAGGT
*
5077103 GCCAAAGAGATTGG
1 GCCAATGAGATTGG
5077117 CGGTGTAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.31, T:0.16
Consensus pattern (27 bp):
GCCAATGAGATTGGAGGCACCAAAGGT
Found at i:5077117 original size:27 final size:27
Alignment explanation
Indices: 5077058--5077119 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
5077048 GGCCAATCAC
* *
5077058 ATTGGAGGCACCAAAGGTGCCAATGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
*
5077085 ATTGGCGGCACCAATGGTGCCAAAGAG
1 ATTGGCGGCACCAAAGGTGCCAAAGAG
5077112 ATTGGCGG
1 ATTGGCGG
5077120 TGTAACAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.35, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGAG
Found at i:5078337 original size:28 final size:28
Alignment explanation
Indices: 5078297--5078423 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
5078287 TGATTTTCGA
*
5078297 CACTAAGTGTGCGAATTTAATTATAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* *
5078325 CACTAAGTGTGCGAGTTTAATTGTAGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
**
5078353 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
* **
5078381 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTATAAAG
5078409 CACTAAGTGTGCGAG
1 CACTAAGTGTGCGAG
5078424 CTTATTAAAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 89 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:5079205 original size:24 final size:22
Alignment explanation
Indices: 5079169--5079534 Score: 215
Period size: 23 Copynumber: 15.6 Consensus size: 22
5079159 TGTTATATGT
* * *
5079169 ATGCTGCCCAATTTTGATAAATCA
1 ATGCTGTCAAATTTTG-TATAT-A
5079193 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
5079215 CATGCTGTTAAATTTTGTGTATAA
1 -ATGCTGTCAAATTTTGTATAT-A
*
5079239 ATGCTGTCCAAATTTGTGTATGT-
1 ATGCTGT-CAAATTT-TGTATATA
*
5079262 ATGCT-TCCTAATTTTGGGTGA-ATAA
1 ATGCTGT-CAAATTTT--GT-ATAT-A
*
5079287 ATGCTATCCAAATTTTGTATATA
1 ATGCTGT-CAAATTTTGTATATA
* *
5079310 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
5079333 AGTGCTGTCCAAATTTGTGTATGT-
1 A-TGCTGT-CAAATTT-TGTATATA
* * *
5079357 ATGCTGCCCAATTTTGGTGA-AGCA
1 ATGCTGTCAAATTTT-GT-ATA-TA
*
5079381 ATGCTGTCAAATTTTGTACATA
1 ATGCTGTCAAATTTTGTATATA
* * *
5079403 CATGCTGTTATATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
*
5079426 AGTGCTGTCCAAA-TTTGTATATGT
1 A-TGCTGT-CAAATTTTGTATAT-A
* *
5079450 ATGCTGCCCAATTTTGGTGA-ATCA
1 ATGCTGTCAAATTTT-GT-ATAT-A
5079474 ATGCTGTCAAATTTTGTATATA
1 ATGCTGTCAAATTTTGTATATA
* *
5079496 CATGCTGTTAAATTTTGTGTATA
1 -ATGCTGTCAAATTTTGTATATA
5079519 AGTGCTGTCCAAATTT
1 A-TGCTGT-CAAATTT
5079535 GTAATATGTA
Statistics
Matches: 270, Mismatches: 41, Indels: 62
0.72 0.11 0.17
Matches are distributed among these distances:
21 2 0.01
22 27 0.10
23 138 0.51
24 78 0.29
25 16 0.06
26 9 0.03
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (22 bp):
ATGCTGTCAAATTTTGTATATA
Found at i:5079525 original size:70 final size:66
Alignment explanation
Indices: 5079169--5079540 Score: 234
Period size: 70 Copynumber: 5.3 Consensus size: 66
5079159 TGTTATATGT
* * *
5079169 ATGCTGCCCAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAATTTTGTG
1 ATGCTGTCCAATTTTG-TGAAT-AATGCTGTCAAATTTTGTATATA-ATGCTGTCAAATTTTGTG
5079234 TATAA
63 TAT-A
* * * * *
5079239 ATGCTGTCCAAATTTGTGTATGTATGCT-TCCTAATTTTGGGTGA-ATAAATGCTATCCAAATTT
1 ATGCTGTCCAATTTTGTGAAT-AATGCTGT-CAAATTTT--GT-ATAT-AATGCTGT-CAAATTT
*
5079302 TGTATATA
59 TGTGTATA
** * * * *
5079310 CATGCTGTTAAATTTTGTGTATAAGTGCTGTCCAAATTTGTGTATGT-ATGCTGCCCAATTTTGG
1 -ATGCTGTCCAATTTTGTGAATAA-TGCTGT-CAAATTT-TGTATATAATGCTGTCAAATTTT-G
* *
5079374 TGAAGCA
61 TGTA-TA
* * * *
5079381 ATGCTGTCAAATTTTGT-ACATACATGCTGTTATATTTTGTGTATAAGTGCTGTCCAAA-TTTGT
1 ATGCTGTCCAATTTTGTGA-ATA-ATGCTGTCAAATTTTGTATATAA-TGCTGT-CAAATTTTGT
* *
5079444 ATATGT
62 GTAT-A
* *
5079450 ATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAATTTTGTG
1 ATGCTGTCCAATTTT-GTGAAT-AATGCTGTCAAATTTTGTATATA-ATGCTGTCAAATTTTGTG
5079515 TATA
63 TATA
*
5079519 AGTGCTGTCCAAATTTGT-AATA
1 A-TGCTGTCCAATTTTGTGAATA
5079541 TGTAGTATAG
Statistics
Matches: 233, Mismatches: 44, Indels: 53
0.71 0.13 0.16
Matches are distributed among these distances:
67 1 0.00
68 9 0.04
69 50 0.21
70 104 0.45
71 21 0.09
72 39 0.17
73 8 0.03
74 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (66 bp):
ATGCTGTCCAATTTTGTGAATAATGCTGTCAAATTTTGTATATAATGCTGTCAAATTTTGTGTAT
A
Found at i:5079537 original size:93 final size:93
Alignment explanation
Indices: 5079162--5079544 Score: 631
Period size: 93 Copynumber: 4.1 Consensus size: 93
5079152 GCCCAATTGT
* *
5079162 TATATGTATGCTGCCCAATTTTGATAAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
*
5079227 TTTTGTGTATAAATGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
* * * * *
5079255 TGTATGTATGCTTCCTAATTTTGGGTGAATAAATGCTATCCAAATTTTGTATATACATGCTGTTA
1 TATATGTATGCTGCCCAATTTT-GGTGAATCAATGCTGT-CAAATTTTGTATATACATGCTGTTA
5079320 AATTTTGTGTATAAGTGCTGTCCAAATTTG
64 AATTTTGTGTATAAGTGCTGTCCAAATTTG
* * * *
5079350 TGTATGTATGCTGCCCAATTTTGGTGAAGCAATGCTGTCAAATTTTGTACATACATGCTGTTATA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
5079415 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
5079443 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
1 TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
5079508 TTTTGTGTATAAGTGCTGTCCAAATTTG
66 TTTTGTGTATAAGTGCTGTCCAAATTTG
5079536 TAATATGTA
1 T-ATATGTA
5079545 GTATAGTTAG
Statistics
Matches: 268, Mismatches: 19, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
93 162 0.60
94 32 0.12
95 74 0.28
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.42
Consensus pattern (93 bp):
TATATGTATGCTGCCCAATTTTGGTGAATCAATGCTGTCAAATTTTGTATATACATGCTGTTAAA
TTTTGTGTATAAGTGCTGTCCAAATTTG
Found at i:5080020 original size:19 final size:18
Alignment explanation
Indices: 5079996--5080260 Score: 114
Period size: 19 Copynumber: 15.1 Consensus size: 18
5079986 TTTAATTAAA
5079996 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
5080015 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
5080033 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
5080052 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
5080070 TAATAATTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
5080089 TAA-AA---A----AA-T
1 TAATAATCTATTTTAATT
*
5080098 TAAGTAAACTATTTTAA-T
1 TAA-TAATCTATTTTAATT
*
5080116 T--TAAT-T-TTTTAAAT
1 TAATAATCTATTTTAATT
** *
5080130 TAA-AATAGAGTTATTAAAT
1 TAATAATCTA-TT-TTAATT
* * * *
5080149 GAGAGAATTCTA-ATTAA-G
1 TA-ATAA-TCTATTTTAATT
*
5080167 TAATAACTCTGTTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
5080186 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
5080204 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
5080223 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
5080241 TAATAAGTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
5080260 T
1 T
5080261 TAAAAAATTA
Statistics
Matches: 183, Mismatches: 38, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
9 4 0.02
10 2 0.01
11 2 0.01
13 6 0.03
14 5 0.03
15 6 0.03
17 6 0.03
18 72 0.39
19 75 0.41
20 1 0.01
21 2 0.01
22 2 0.01
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:5080025 original size:18 final size:19
Alignment explanation
Indices: 5080004--5080091 Score: 99
Period size: 18 Copynumber: 4.7 Consensus size: 19
5079994 AATAATAATT
5080004 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
5080022 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
5080041 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * **
5080059 CTATTCTCATTTAATAATT
1 CTATTTTAATTTAATAACA
5080078 CTATTTTAATTTAA
1 CTATTTTAATTTAA
5080092 AAAAATTAAG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
18 30 0.53
19 27 0.47
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:5080037 original size:37 final size:37
Alignment explanation
Indices: 5079996--5080091 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
5079986 TTTAATTAAA
5079996 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
*
5080033 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
5080070 TAATAATTCTATTTTAATTTAA
1 TAATAATTCTATTTTAATTTAA
5080092 AAAAATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (37 bp):
TAATAATTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:5080206 original size:18 final size:18
Alignment explanation
Indices: 5080183--5080246 Score: 92
Period size: 18 Copynumber: 3.5 Consensus size: 18
5080173 CTCTGTTTTA
5080183 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
* * *
5080201 ATTTAATAACTCTATTTTA
1 ATTTAATAA-ACTATTCTC
5080220 ATTTAATAAACTATTCTC
1 ATTTAATAAACTATTCTC
5080238 ATTTAATAA
1 ATTTAATAA
5080247 GTCTATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 24 0.62
19 15 0.38
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTAATAAACTATTCTC
Found at i:5080208 original size:37 final size:37
Alignment explanation
Indices: 5080167--5080260 Score: 170
Period size: 37 Copynumber: 2.5 Consensus size: 37
5080157 TCTAATTAAG
*
5080167 TAATAACTCTGTTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
5080204 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
5080241 TAATAAGTCTATTTTAATTT
1 TAATAACTCTATTTTAATTT
5080261 TAAAAAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:5080273 original size:171 final size:173
Alignment explanation
Indices: 5079988--5080326 Score: 592
Period size: 171 Copynumber: 2.0 Consensus size: 173
5079978 TTTATTATTT
*
5079988 TAATTAAATAATAATTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTT
1 TAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTT
*
5080053 AATAAACTATTCTCATTTAATAATTCTATTTTAATTTAAAAAAATTAAGTAAACTATTTTAATTT
66 AATAAACTATTCTCATTTAATAAGTCTATTTTAATTTAAAAAAATTAAGTAAACTATTTTAATTT
* *
5080118 AA-TTTTTT-AAATTAAAATAGAGTTATTAAATGAGAGAATTC
131 AATTTTTTTAAAATTAAAATAAAATTATTAAATGAGAGAATTC
* *
5080159 TAATTAAGTAATAACTCTGTTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTT
1 TAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTT
*
5080224 AATAAACTATTCTCATTTAATAAGTCTATTTTAATTTTAAAAAATTAAGTAAACTATTTTAATTT
66 AATAAACTATTCTCATTTAATAAGTCTATTTTAATTTAAAAAAATTAAGTAAACTATTTTAATTT
5080289 AATTTTTTTAAAAATTAAAATAAAATTATTAAATGAGA
131 AATTTTTTT-AAAATTAAAATAAAATTATTAAATGAGA
5080327 ATAGTTTATT
Statistics
Matches: 158, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
171 127 0.80
172 6 0.04
174 25 0.16
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (173 bp):
TAATTAAATAATAACTCTATTTTAATTTAATAAACTATTCTCATTTAATAACTCTATTTTAATTT
AATAAACTATTCTCATTTAATAAGTCTATTTTAATTTAAAAAAATTAAGTAAACTATTTTAATTT
AATTTTTTTAAAATTAAAATAAAATTATTAAATGAGAGAATTC
Found at i:5080341 original size:37 final size:37
Alignment explanation
Indices: 5080300--5080467 Score: 300
Period size: 37 Copynumber: 4.5 Consensus size: 37
5080290 ATTTTTTTAA
* *
5080300 AAATTAAAATAAAATTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
*
5080337 AAATTAAAATAGACTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
5080374 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
*
5080411 AAATTAAAATAGAGTTATTAAATAAGAATAGTTTATT
1 AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
5080448 AAATTAAAATAGAGTTATTA
1 AAATTAAAATAGAGTTATTA
5080468 CTTAATTAGA
Statistics
Matches: 127, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 127 1.00
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.38
Consensus pattern (37 bp):
AAATTAAAATAGAGTTATTAAATGAGAATAGTTTATT
Found at i:5080472 original size:18 final size:19
Alignment explanation
Indices: 5080300--5080467 Score: 175
Period size: 18 Copynumber: 9.1 Consensus size: 19
5080290 ATTTTTTTAA
* *
5080300 AAATTAAAATAAAATTATT
1 AAATTAAAATAGAGTTATT
* * *
5080319 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
*
5080337 AAATTAAAATAGACTTATT
1 AAATTAAAATAGAGTTATT
* * *
5080356 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
5080374 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
5080393 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
5080411 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
*
5080430 AAA-TAAGAATAG-TTTATT
1 AAATTAA-AATAGAGTTATT
5080448 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
5080467 A
1 A
5080468 CTTAATTAGA
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
18 61 0.50
19 61 0.50
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:5081058 original size:27 final size:27
Alignment explanation
Indices: 5081019--5081077 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
5081009 TTTTAGTCCT
5081019 TTGGCACCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
5081046 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
5081073 TTGGC
1 TTGGC
5081078 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:5081155 original size:25 final size:27
Alignment explanation
Indices: 5081127--5081186 Score: 97
Period size: 25 Copynumber: 2.3 Consensus size: 27
5081117 TTTTTTTGGT
5081127 ATATTTTGGTAAAT-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
5081152 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAAT-AAAAAAAGTTATA
5081180 ATATTTT
1 ATATTTT
5081187 AGTTATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 14 0.44
27 6 0.19
28 12 0.38
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:5083181 original size:43 final size:43
Alignment explanation
Indices: 5083074--5083210 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 43
5083064 TTTTGAATGC
* * * *
5083074 CCACACGGACGTGTCTCTTGACCGTGTAAGAGACACAACCTGG
1 CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
* * *
5083117 CCACTCGGGCTTGTCTCTTGGCCGTGTGAGACACACGACCTGG
1 CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
* *
5083160 CCACACGGACGTGTCAT-TTGGCCGTGTGAGACACACGGCCTAG
1 CCACACGGACGTGTC-TCTTGGCCGTGTGAGACACACGACCTGG
*
5083203 CTACACGG
1 CCACACGG
5083211 GTGTGTGTCC
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 79 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (43 bp):
CCACACGGACGTGTCTCTTGGCCGTGTGAGACACACGACCTGG
Found at i:5088560 original size:31 final size:31
Alignment explanation
Indices: 5088525--5088585 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
5088515 TGAATCAAAA
* *
5088525 TTTTGTCTCTTGATATATGGAAAGTCAAAGG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAGG
*
5088556 TTTTGCCTCTTGATCTATGGAAAGCCAAAG
1 TTTTGCCTCTTGATATATGGAAAGCCAAAG
5088586 TTCCAGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (31 bp):
TTTTGCCTCTTGATATATGGAAAGCCAAAGG
Found at i:5110191 original size:21 final size:21
Alignment explanation
Indices: 5110167--5110206 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5110157 CACCGGGCTT
5110167 CAACACCCTCA-CCATCTCCCC
1 CAACACCCTCATCC-TCTCCCC
5110188 CAACACCCTCATCCTCTCC
1 CAACACCCTCATCCTCTCC
5110207 GCCGCTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.23, C:0.60, G:0.00, T:0.17
Consensus pattern (21 bp):
CAACACCCTCATCCTCTCCCC
Found at i:5113478 original size:24 final size:24
Alignment explanation
Indices: 5113441--5113513 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
5113431 GGTAAGACAT
5113441 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
5113465 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
* *
5113489 ATTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
5113513 T
1 T
5113514 ATCGATTGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.14, C:0.47, G:0.04, T:0.36
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:5114327 original size:8 final size:8
Alignment explanation
Indices: 5114314--5114338 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
5114304 AATGCCGTTC
5114314 CTGTTGTT
1 CTGTTGTT
5114322 CTGTTGTT
1 CTGTTGTT
5114330 CTGTTGTT
1 CTGTTGTT
5114338 C
1 C
5114339 CTGGTAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.16, G:0.24, T:0.60
Consensus pattern (8 bp):
CTGTTGTT
Found at i:5116366 original size:34 final size:35
Alignment explanation
Indices: 5116308--5116374 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
5116298 CAAACACCAG
* * *
5116308 AAAATATTTTCCTGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
5116343 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
5116375 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:5121607 original size:18 final size:16
Alignment explanation
Indices: 5121570--5121599 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5121560 TTTATAATAC
5121570 TTTATATTATATTATT
1 TTTATATTATATTATT
5121586 TTTATA-TATATTAT
1 TTTATATTATATTAT
5121600 GTAATTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTATATTATT
Found at i:5123826 original size:22 final size:23
Alignment explanation
Indices: 5123799--5123850 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
5123789 GATTAGTGAT
5123799 TTAATATAAATATAA-ATATATAA
1 TTAATAT-AATATAACATATATAA
* *
5123822 -TAATATTATTTAACATATATAA
1 TTAATATAATATAACATATATAA
5123844 TTAATAT
1 TTAATAT
5123851 GATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATATAATATAACATATATAA
Found at i:5128228 original size:16 final size:16
Alignment explanation
Indices: 5128188--5128241 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
5128178 TTTGGTTCGC
*
5128188 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
5128204 TATATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
5128220 TGTAATGGAATAGATG
1 TGTAATGGATTAGAGG
5128236 TGTAAT
1 TGTAAT
5128242 AGCAAATCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:5128286 original size:45 final size:44
Alignment explanation
Indices: 5128220--5128314 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
5128210 GGATTAGAGG
* * *
5128220 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
5128265 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
5128309 TGTAAT
1 TGTAAT
5128315 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:5128497 original size:18 final size:17
Alignment explanation
Indices: 5128476--5128510 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5128466 TTATTATTTA
*
5128476 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5128494 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5128511 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5128504 original size:28 final size:27
Alignment explanation
Indices: 5128434--5128506 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
5128424 TTTATTATCA
*
5128434 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
5128462 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
5128489 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
5128507 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:5128644 original size:18 final size:17
Alignment explanation
Indices: 5128623--5128657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
5128613 TTATTATTAA
*
5128623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
5128641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
5128658 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:5128669 original size:147 final size:149
Alignment explanation
Indices: 5128395--5128669 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
5128385 ATGATTATTG
*
5128395 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
5128460 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
5128525 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
5128544 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
5128607 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
5128670 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:5128765 original size:18 final size:17
Alignment explanation
Indices: 5128725--5128777 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
5128715 AAATATAAAT
5128725 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
5128739 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
5128754 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
5128772 TAAAAT
1 TAAAAT
5128778 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:5128835 original size:60 final size:59
Alignment explanation
Indices: 5128651--5128837 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
5128641 ATATAATTTA
*
5128651 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
5128712 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
5128770 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
5128831 ATAAAAT
1 ATAAAAT
5128838 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:5128836 original size:119 final size:120
Alignment explanation
Indices: 5128603--5128897 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
5128593 TTACTCATAT
*
5128603 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
5128668 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
5128724 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
5128788 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
5128843 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
5128898 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:5132805 original size:26 final size:25
Alignment explanation
Indices: 5132776--5132837 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
5132766 CAATAAGTCT
*
5132776 TTATATTTTTATTATTTTTTTATATA
1 TTATATTTTTATTATTTTTATAT-TA
*
5132802 TTATCATTTTAATTATTTTTATATTA
1 TTAT-ATTTTTATTATTTTTATATTA
5132828 TCTA-ATTTTT
1 T-TATATTTTT
5132838 TATAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 5 0.16
26 7 0.23
27 19 0.61
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATATTTTTATTATTTTTATATTA
Found at i:5133667 original size:15 final size:15
Alignment explanation
Indices: 5133647--5133680 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5133637 ATGTGATTAA
5133647 TTTCAACTAATTTAT
1 TTTCAACTAATTTAT
* *
5133662 TTTCAATTACTTTAT
1 TTTCAACTAATTTAT
5133677 TTTC
1 TTTC
5133681 TAAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAACTAATTTAT
Found at i:5142396 original size:29 final size:29
Alignment explanation
Indices: 5142364--5142440 Score: 68
Period size: 31 Copynumber: 2.6 Consensus size: 29
5142354 GGTTTATAAT
*
5142364 TTTTTAAATTTTAAAATTTG-ATCTCTATA
1 TTTTT-AATTTTAAAATTTGAATCTCGATA
* *
5142393 -TTTTAATTTTGAGATATTGAATCTCGATA
1 TTTTTAATTTTAAAAT-TTGAATCTCGATA
* *
5142422 TTTTTTTATTTAAAAATTT
1 -TTTTTAATTTTAAAATTT
5142441 TAGTCCCTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
27 9 0.24
28 7 0.19
29 8 0.22
30 2 0.05
31 11 0.30
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (29 bp):
TTTTTAATTTTAAAATTTGAATCTCGATA
Found at i:5143659 original size:15 final size:15
Alignment explanation
Indices: 5143639--5143672 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5143629 ATGTGATTAA
5143639 TTTCAACTAATTTAT
1 TTTCAACTAATTTAT
* *
5143654 TTTCAATTACTTTAT
1 TTTCAACTAATTTAT
5143669 TTTC
1 TTTC
5143673 TAAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAACTAATTTAT
Found at i:5144148 original size:26 final size:28
Alignment explanation
Indices: 5144093--5144148 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
5144083 CTCTTTTATG
*
5144093 TATATAAATAAAATAATAAATATGTGAT
1 TATATAAATAAAATAATAAATATGTAAT
5144121 TATAT-AATAAAAT-ATAAAATAT-TAAT
1 TATATAAATAAAATAAT-AAATATGTAAT
5144147 TA
1 TA
5144149 AAAAGATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATAAATAAAATAATAAATATGTAAT
Found at i:5149717 original size:7 final size:7
Alignment explanation
Indices: 5149705--5149730 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5149695 AAACAAACTC
5149705 AAAATAA
1 AAAATAA
5149712 AAAATAA
1 AAAATAA
5149719 AAAATAA
1 AAAATAA
5149726 AAAAT
1 AAAAT
5149731 CTTAACCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:5149943 original size:22 final size:21
Alignment explanation
Indices: 5149910--5149950 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
5149900 TTTTATTTTA
5149910 ATATTTTCAAAAATATTAAGAT
1 ATATTTTC-AAAATATTAAGAT
5149932 ATATCTTT-AAAATATTAAG
1 ATAT-TTTCAAAATATTAAG
5149951 TAAGAGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 4 0.22
23 3 0.17
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
ATATTTTCAAAATATTAAGAT
Found at i:5151189 original size:20 final size:21
Alignment explanation
Indices: 5151159--5151197 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5151149 ATTAAAGGTG
*
5151159 TTTATATTTTTTAATTTAATT
1 TTTATATTTTTTAAGTTAATT
5151180 TTTA-ATTTTTTAAGTTAA
1 TTTATATTTTTTAAGTTAA
5151198 ATTTGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
TTTATATTTTTTAAGTTAATT
Found at i:5151200 original size:21 final size:21
Alignment explanation
Indices: 5151159--5151201 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5151149 ATTAAAGGTG
*
5151159 TTTATATTTTTTAATTTAATT
1 TTTATATTTTTTAATTAAATT
5151180 TTTA-ATTTTTTAAGTTAAATT
1 TTTATATTTTTTAA-TTAAATT
5151201 T
1 T
5151202 GACTTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATATTTTTTAATTAAATT
Found at i:5151208 original size:20 final size:20
Alignment explanation
Indices: 5151164--5151208 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5151154 AGGTGTTTAT
* * *
5151164 ATTTTTTAATTTAATTTTTA
1 ATTTTTTAAGTTAAATTTGA
5151184 ATTTTTTAAGTTAAATTTGA
1 ATTTTTTAAGTTAAATTTGA
*
5151204 CTTTT
1 ATTTT
5151209 AGTTTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
ATTTTTTAAGTTAAATTTGA
Found at i:5152600 original size:2 final size:2
Alignment explanation
Indices: 5152554--5152582 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5152544 TCCATTCCTT
5152554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5152583 TTATTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5159703 original size:21 final size:21
Alignment explanation
Indices: 5159677--5159720 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
5159667 AGACGAGCAA
* *
5159677 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5159698 TACTCCAAAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
5159719 TA
1 TA
5159721 ACAGCCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:5167112 original size:831 final size:829
Alignment explanation
Indices: 5165926--5167499 Score: 2995
Period size: 831 Copynumber: 1.9 Consensus size: 829
5165916 TGCAACCTTT
5165926 CCAAAACATACAAAGCGGCCGCCTTTGCATACGTTGAAAAACTTACTTCTTAAAGGATATGGACA
1 CCAAAACATACAAAGCGGCCGCCTTTGCATACGTTGAAAAACTTACTTCTTAAAGGATATGGACA
5165991 GAAGCGTCAGCCCCGTAGTGCGGAGAAACGATGAATACTCAGCGAGGAGGCTAAGTACGGATTCT
66 GAAGCGTCAGCCCCGTAGTGCGGAGAAACGATGAATACTCAGCGAGGAGGCTAAGTACGGATTCT
5166056 AAGCCTCATGAACCCTTTTAGGGATTTTTGACAACCTTCGGCTAGATGGGTTTAGTGGCTCATGG
131 AAGCCTCATGAACCCTTTTAGGGATTTTTGACAACCTTCGGCTAGATGGGTTTAGTGGCTCATGG
5166121 TTGTGGTAGAAAAGAAAATAAATAAAATAAAAATAAAGATTTTATTGAAAAGAAATATGAAAAGA
196 TTGTGGTAGAAAAGAAAATAAATAAAATAAAAATAAAGATTTTATTGAAAAGAAATATGAAAAGA
5166186 ATAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAGAAAAAGATGGGATCCCCTTTTGAGTCAC
261 ATAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAGAAAAAGATGGGATCCCCTTTTGAGTCAC
5166251 TTCACCCCCTATTTATAGTGCTAGGAGAGATATTCTAATCCTACTTAAATTCCTAAAAGATAAAT
326 TTCACCCCCTATTTATAGTGCTAGGAGAGATATTCTAATCCTACTTAAATTCCTAAAAGATAAAT
5166316 AAATTTAATTGAAGATAAATAAAGATAAAATAAAATCCTAAAAATAATCCTTAATAATTATCTCA
391 AAATTTAATTGAAGATAAATAAAGATAAAATAAAATCCTAAAAATAATCCTTAATAATTATCTCA
5166381 ATATTAATTATCCTAATATAATTAAAATAGAGTTTAATAGAATAAAATCTCTTCTTTTTGCATTT
456 ATATTAATTATCCTAATATAATTAAAATAGAGTTTAATAGAATAAAATCTCTTCTTTTTGCATTT
* * *
5166446 CAACCCTTGTGTCCTCCATGCTTGCACTTTTGGCACCAACTTTTCCTTGTGTCGCACATTGGCCC
521 CAACCCTTGTATCCTCCATGCTTGCACTTTTAGCACCAACTTTTCCTTGTGTCGCACATTGACCC
*
5166511 ATTTTATCTCTAAATTCACGCTTTTGGCCCTTAATTTCACTTTTGCCTCAAATTTAGTCCCTATG
586 ATTTTATCTCT-AATTCACGCTTTTCGCCCTTAATTTCACTTTTGCCTCAAATTTAGTCCCTATG
* *
5166576 AGATAAAAGACCATAAATAGCTCAAATTAGCAGGATCATACTCAAAATAAATACATAATTAATAC
650 AGATAAAAGACCATAAACAGCTCAAATTAGCAAGATCATACTCAAAATAAATA-ATAATTAATAC
5166641 ATAAAAATACGTTACTCTAGAGTGTTATCAGAATACTTTTGTGGAAAATTTTTATCGGTACGAAG
714 ATAAAAATACGTTACTCTAGAGTGTTATCAGAATACTTTTGTGGAAAATTTTTATCGGTACGAAG
5166706 GCTTCCTTTTCAAGGAAGGAAAATTATGCATTCTGCAAAGTTCTATTCGGG
779 GCTTCCTTTTCAAGGAAGGAAAATTATGCATTCTGCAAAGTTCTATTCGGG
5166757 CCAAAACATACAAAGCGGCCGCCTTTGCATACGTTGAAAAACTTACTTCTTAAAGGATATGGACA
1 CCAAAACATACAAAGCGGCCGCCTTTGCATACGTTGAAAAACTTACTTCTTAAAGGATATGGACA
5166822 GAAGCGTCAGCCCCGTAGTGCGGAGAAACGATGAATACTCAGCGAGGAGGCTAAGTACGGATTCT
66 GAAGCGTCAGCCCCGTAGTGCGGAGAAACGATGAATACTCAGCGAGGAGGCTAAGTACGGATTCT
5166887 AAGCCTCATGAACCCTTTTAGGGATTTTTGACAACCTTCGGCTAGATGGGTTTAGTGGCTCATGG
131 AAGCCTCATGAACCCTTTTAGGGATTTTTGACAACCTTCGGCTAGATGGGTTTAGTGGCTCATGG
5166952 TTGTGGTAGAAAAGAAAATAAATAAAATAAAAATAAAGATTTTATTGAAAAGAAATATGAAAAGA
196 TTGTGGTAGAAAAGAAAATAAATAAAATAAAAATAAAGATTTTATTGAAAAGAAATATGAAAAGA
5167017 ATAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAGAAAAAGATGGGATCCCCTTTTGAGTCAC
261 ATAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAGAAAAAGATGGGATCCCCTTTTGAGTCAC
5167082 TTCACCCCCTATTTATAGTGCTAGGAGAGATATTCTAATCCTACTTAAATTCCTAAAAGATAAAT
326 TTCACCCCCTATTTATAGTGCTAGGAGAGATATTCTAATCCTACTTAAATTCCTAAAAGATAAAT
* *
5167147 AAATTTAATTGAAGATAAATAAAGATAAAATAAAATCCTAAAAATAATCCTTAATAATTATTTTA
391 AAATTTAATTGAAGATAAATAAAGATAAAATAAAATCCTAAAAATAATCCTTAATAATTATCTCA
5167212 ATATTAATTATCCTAATATAATTAAAATAGAGTTTAATAGAATAAAATCTCTTCTTTTTGCATTT
456 ATATTAATTATCCTAATATAATTAAAATAGAGTTTAATAGAATAAAATCTCTTCTTTTTGCATTT
* *
5167277 CAACCCTTGTATCCTCCATGCTTGCACTTTTAGCACCAACTTTTCCTTGTGTTGCACATTGACTC
521 CAACCCTTGTATCCTCCATGCTTGCACTTTTAGCACCAACTTTTCCTTGTGTCGCACATTGACCC
* *
5167342 ATTTTATCTCTAATTCACGCTTTTCGCCCTTAATTTTACTTTTGCCTCAAATTTAGTCCTTATGA
586 ATTTTATCTCTAATTCACGCTTTTCGCCCTTAATTTCACTTTTGCCTCAAATTTAGTCCCTATGA
* *
5167407 GATAAAAGATCATAAACAGCTCAAATTAGCAAGATCATACTCAGAATAAATAATAATTAATACAT
651 GATAAAAGACCATAAACAGCTCAAATTAGCAAGATCATACTCAAAATAAATAATAATTAATACAT
*
5167472 AAAAATACGTTATTCTAGAGTGTTATCA
716 AAAAATACGTTACTCTAGAGTGTTATCA
5167500 ACTTAGTATT
Statistics
Matches: 728, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
829 40 0.05
830 99 0.14
831 589 0.81
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (829 bp):
CCAAAACATACAAAGCGGCCGCCTTTGCATACGTTGAAAAACTTACTTCTTAAAGGATATGGACA
GAAGCGTCAGCCCCGTAGTGCGGAGAAACGATGAATACTCAGCGAGGAGGCTAAGTACGGATTCT
AAGCCTCATGAACCCTTTTAGGGATTTTTGACAACCTTCGGCTAGATGGGTTTAGTGGCTCATGG
TTGTGGTAGAAAAGAAAATAAATAAAATAAAAATAAAGATTTTATTGAAAAGAAATATGAAAAGA
ATAAAAGCCTAGACTTTTGGGGAGAGAGTGTTTACAGAAAAAGATGGGATCCCCTTTTGAGTCAC
TTCACCCCCTATTTATAGTGCTAGGAGAGATATTCTAATCCTACTTAAATTCCTAAAAGATAAAT
AAATTTAATTGAAGATAAATAAAGATAAAATAAAATCCTAAAAATAATCCTTAATAATTATCTCA
ATATTAATTATCCTAATATAATTAAAATAGAGTTTAATAGAATAAAATCTCTTCTTTTTGCATTT
CAACCCTTGTATCCTCCATGCTTGCACTTTTAGCACCAACTTTTCCTTGTGTCGCACATTGACCC
ATTTTATCTCTAATTCACGCTTTTCGCCCTTAATTTCACTTTTGCCTCAAATTTAGTCCCTATGA
GATAAAAGACCATAAACAGCTCAAATTAGCAAGATCATACTCAAAATAAATAATAATTAATACAT
AAAAATACGTTACTCTAGAGTGTTATCAGAATACTTTTGTGGAAAATTTTTATCGGTACGAAGGC
TTCCTTTTCAAGGAAGGAAAATTATGCATTCTGCAAAGTTCTATTCGGG
Found at i:5168894 original size:112 final size:112
Alignment explanation
Indices: 5168697--5168920 Score: 439
Period size: 112 Copynumber: 2.0 Consensus size: 112
5168687 AGTGCAATAG
5168697 AATCTACAATCCATGCTATAAGGGACTACGGGTTTGCAAAAACTGTTTGGAAATCTATTGTTCCT
1 AATCTACAATCCATGCTATAAGGGACTACGGGTTTGCAAAAACTGTTTGGAAATCTATTGTTCCT
5168762 AAACGTGGTTGGAGGGACTTCTTTAATTCAACTTTAGAGGTATGGGT
66 AAACGTGGTTGGAGGGACTTCTTTAATTCAACTTTAGAGGTATGGGT
*
5168809 AATCTACAATCCATGCTATAAGGGACTACGGGTTTGCAAAAACTGTTTGGAAATCTGTTGTTCCT
1 AATCTACAATCCATGCTATAAGGGACTACGGGTTTGCAAAAACTGTTTGGAAATCTATTGTTCCT
5168874 AAACGTGGTTGGAGGGACTTCTTTAATTCAACTTTAGAGGTATGGGT
66 AAACGTGGTTGGAGGGACTTCTTTAATTCAACTTTAGAGGTATGGGT
5168921 GTTGTGGAAT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (112 bp):
AATCTACAATCCATGCTATAAGGGACTACGGGTTTGCAAAAACTGTTTGGAAATCTATTGTTCCT
AAACGTGGTTGGAGGGACTTCTTTAATTCAACTTTAGAGGTATGGGT
Found at i:5170239 original size:117 final size:118
Alignment explanation
Indices: 5170116--5170350 Score: 463
Period size: 117 Copynumber: 2.0 Consensus size: 118
5170106 TTAAAAATTT
5170116 TATAAATTTTTCAAAAATATAAATTTTAGAATTTTTATAAATAATTTGAATTTTAAAAAATA-TT
1 TATAAATTTTTCAAAAATATAAATTTTAGAATTTTTATAAATAATTTGAATTTTAAAAAATATTT
5170180 TTTTTTAATTTTTGTTGAGTGAAAGATCAAATTGCTCATTTTCAAAATTGATA
66 TTTTTTAATTTTTGTTGAGTGAAAGATCAAATTGCTCATTTTCAAAATTGATA
5170233 TATAAATTTTTCAAAAATATAAATTTTAGAATTTTTATAAATAATTTGAATTTTAAAAAATATTT
1 TATAAATTTTTCAAAAATATAAATTTTAGAATTTTTATAAATAATTTGAATTTTAAAAAATATTT
5170298 TTTTTTAATTTTTGTTGAGTGAAAGATCAAATTGCTCATTTTCAAAATTGATA
66 TTTTTTAATTTTTGTTGAGTGAAAGATCAAATTGCTCATTTTCAAAATTGATA
5170351 GGGATCAATG
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 62 0.53
118 55 0.47
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (118 bp):
TATAAATTTTTCAAAAATATAAATTTTAGAATTTTTATAAATAATTTGAATTTTAAAAAATATTT
TTTTTTAATTTTTGTTGAGTGAAAGATCAAATTGCTCATTTTCAAAATTGATA
Found at i:5170646 original size:93 final size:93
Alignment explanation
Indices: 5170487--5170672 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
5170477 TTCAAAAAAA
*
5170487 TTTTCGAGTAAAATCGAATTTTGTTCACCACTACTTAAACATAACCCTTTTTTATCACTTTGATC
1 TTTTCGAGCAAAATCGAATTTTGTTCACCACTACTTAAACATAACCCTTTTTTATCACTTTGATC
5170552 GTAAAGTTTAAACTGTGTCGAATAAGTT
66 GTAAAGTTTAAACTGTGTCGAATAAGTT
* *
5170580 TTTTCGAGCAAAATCGAATTTTGTTCACCCCTACTTGAACATAACCCTTTTTTATCACTTTGATC
1 TTTTCGAGCAAAATCGAATTTTGTTCACCACTACTTAAACATAACCCTTTTTTATCACTTTGATC
5170645 GTAAAGTTTAAACTGTGTCGAATAAGTT
66 GTAAAGTTTAAACTGTGTCGAATAAGTT
5170673 AATGCATAGT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (93 bp):
TTTTCGAGCAAAATCGAATTTTGTTCACCACTACTTAAACATAACCCTTTTTTATCACTTTGATC
GTAAAGTTTAAACTGTGTCGAATAAGTT
Found at i:5176312 original size:15 final size:15
Alignment explanation
Indices: 5176292--5176325 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5176282 ATGTGATTAA
5176292 TTTCAACTAATTTAT
1 TTTCAACTAATTTAT
* *
5176307 TTTCAATTACTTTAT
1 TTTCAACTAATTTAT
5176322 TTTC
1 TTTC
5176326 TAAAATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAACTAATTTAT
Found at i:5176801 original size:26 final size:28
Alignment explanation
Indices: 5176746--5176801 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
5176736 CTCTTTTATG
*
5176746 TATATAAATAAAATAATAAATATGTGAT
1 TATATAAATAAAATAATAAATATGTAAT
5176774 TATAT-AATAAAAT-ATAAAATAT-TAAT
1 TATATAAATAAAATAAT-AAATATGTAAT
5176800 TA
1 TA
5176802 AAAAGATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 14 0.54
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (28 bp):
TATATAAATAAAATAATAAATATGTAAT
Found at i:5181302 original size:16 final size:17
Alignment explanation
Indices: 5181281--5181312 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5181271 ATATTAGGGG
5181281 CAAAAGTAT-AATTTTA
1 CAAAAGTATGAATTTTA
5181297 CAAAAGTATGAATTTT
1 CAAAAGTATGAATTTT
5181313 GGACTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (17 bp):
CAAAAGTATGAATTTTA
Found at i:5194562 original size:29 final size:29
Alignment explanation
Indices: 5194501--5194563 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
5194491 CAAAGTATTA
*
5194501 AATAATTTATTAAAATAATAAATTATATC
1 AATAATTTATTAAAATAATAAATTAGATC
*
5194530 AATAATTTATT-ATATGAATAAATATAGAT-
1 AATAATTTATTAAAAT-AATAAAT-TAGATC
5194559 AATAA
1 AATAA
5194564 AATATGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 23 0.77
30 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (29 bp):
AATAATTTATTAAAATAATAAATTAGATC
Found at i:5194640 original size:22 final size:21
Alignment explanation
Indices: 5194587--5194644 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
5194577 AATAATATTG
*
5194587 AAAAATATAATA-TTTTAAATT
1 AAAAATA-AATATTTTTAAAAT
5194608 AAAATATTAAATATTTTTAAAAAT
1 AAAA-A-TAAATATTTTT-AAAAT
5194632 AAAAATAAA-ATTT
1 AAAAATAAATATTT
5194645 ATTATCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 8 0.25
22 9 0.28
23 7 0.22
24 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATAAATATTTTTAAAAT
Found at i:5194642 original size:23 final size:21
Alignment explanation
Indices: 5194587--5194642 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
5194577 AATAATATTG
* *
5194587 AAAAATATAATATTTTAAATT
1 AAAAATAAAATATTTTAAAAT
*
5194608 AAAATATTAAATATTTTTAAAAAT
1 AAAA-ATAAAATA-TTTT-AAAAT
5194632 AAAAATAAAAT
1 AAAAATAAAAT
5194643 TTATTATCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 4 0.14
22 6 0.21
23 10 0.36
24 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATAAAATATTTTAAAAT
Found at i:5213917 original size:18 final size:17
Alignment explanation
Indices: 5213896--5213973 Score: 57
Period size: 18 Copynumber: 4.3 Consensus size: 17
5213886 TTTATAAATT
*
5213896 TTTAAAACATTATTAAAA
1 TTTAAAA-AATATTAAAA
5213914 TTTATAAAAATATTAAAA
1 TTTA-AAAAATATTAAAA
* * *
5213932 TTCAAAAAAAATAAAAA
1 TTTAAAAAATATTAAAA
*
5213949 TTAATAAAAATCATTTAAAA
1 TTTA-AAAAAT-A-TTAAAA
*
5213969 GTTAA
1 TTTAA
5213974 CTCCAAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
17 14 0.30
18 21 0.45
19 5 0.11
20 7 0.15
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (17 bp):
TTTAAAAAATATTAAAA
Found at i:5214119 original size:13 final size:12
Alignment explanation
Indices: 5214097--5214123 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5214087 TTTTTATAAG
5214097 TTTTAAAAAAAA
1 TTTTAAAAAAAA
5214109 TTTTAAAAAAAA
1 TTTTAAAAAAAA
5214121 TTT
1 TTT
5214124 AAGTATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTTTAAAAAAAA
Found at i:5221997 original size:23 final size:22
Alignment explanation
Indices: 5221945--5221997 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
5221935 TCCTCGTCTT
*
5221945 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
5221967 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
5221990 TTTCTTTT
1 TTTCTTTT
5221998 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:5230337 original size:30 final size:30
Alignment explanation
Indices: 5230282--5230338 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5230272 GCCTGTGTTA
* **
5230282 TACACGGGCGGTCCACACGGTCGTGTGCTG
1 TACACAGGCGGTCCACACGACCGTGTGCTG
5230312 TACACAGGCGGTCCACACGACCGTGTG
1 TACACAGGCGGTCCACACGACCGTGTG
5230339 TAATTGGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.18
Consensus pattern (30 bp):
TACACAGGCGGTCCACACGACCGTGTGCTG
Found at i:5232063 original size:19 final size:19
Alignment explanation
Indices: 5232039--5232075 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5232029 TGCAGTTAAT
* *
5232039 AAATTATTATTTAATTTTC
1 AAATTAATATCTAATTTTC
5232058 AAATTAATATCTAATTTT
1 AAATTAATATCTAATTTT
5232076 TATAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTAATATCTAATTTTC
Found at i:5234014 original size:3 final size:3
Alignment explanation
Indices: 5234006--5234051 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
5233996 TTTAGCAATT
*
5234006 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
5234051 T
1 T
5234052 ATAATAGCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.90
4 3 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5238232 original size:34 final size:33
Alignment explanation
Indices: 5238186--5238252 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
5238176 CAAAAATAAG
*
5238186 GAAAAGAAAAAAAAAGAAAAATCAAAGTCAAAA
1 GAAAAAAAAAAAAAAGAAAAATCAAAGTCAAAA
**
5238219 GAAAAAAAGAAAAAAAGATCAATCAAAGTCAAAA
1 GAAAAAAA-AAAAAAAGAAAAATCAAAGTCAAAA
5238253 ATAAGAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (33 bp):
GAAAAAAAAAAAAAAGAAAAATCAAAGTCAAAA
Found at i:5238267 original size:6 final size:6
Alignment explanation
Indices: 5238258--5238300 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
5238248 CAAAAATAAG
*
5238258 AGAAAA AGAAAA A-AAAA GAGAAAA GGAAAA AG-AAA AGAAAA AG
1 AGAAAA AGAAAA AGAAAA -AGAAAA AGAAAA AGAAAA AGAAAA AG
5238301 GAGAGGTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 9 0.28
6 19 0.59
7 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:5238270 original size:18 final size:17
Alignment explanation
Indices: 5238187--5238300 Score: 63
Period size: 18 Copynumber: 6.3 Consensus size: 17
5238177 AAAAATAAGG
5238187 AAAAGAAAAAAAA-AGA
1 AAAAGAAAAAAAAGAGA
* * *
5238203 AAAATCAAAGTCAAAAGAAA
1 AAAA-GAAA--AAAAAGAGA
*
5238223 AAAAG-AAAAAAAGATCA
1 AAAAGAAAAAAAAGA-GA
*
5238240 ATCAAAGTCAAAAATAAGAGA
1 A--AAAG--AAAAAAAAGAGA
5238261 AAAAGAAAAAAAAAGAGA
1 AAAAG-AAAAAAAAGAGA
*
5238279 AAAGGAAAAAGAAA-AGA
1 AAAAGAAAAA-AAAGAGA
5238296 AAAAG
1 AAAAG
5238301 GAGAGGTCAA
Statistics
Matches: 75, Mismatches: 12, Indels: 21
0.69 0.11 0.19
Matches are distributed among these distances:
16 10 0.13
17 17 0.23
18 20 0.27
19 12 0.16
20 6 0.08
21 2 0.03
22 8 0.11
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAGAAAAAAAAGAGA
Done.