Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 81 of 144
Found at i:24627419 original size:57 final size:57
Alignment explanation
Indices: 24627358--24627474 Score: 137
Period size: 57 Copynumber: 2.1 Consensus size: 57
24627348 ATAGAAATGG
* * * * *
24627358 TGAAAATGGA-AAATTGGAAACATTTGAAAATTATTATGGTTTTGTCCAAAATGAAAA
1 TGAAAATAGAGAAA-TGGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAGGAAAA
* ** *
24627415 TGAAAATAGAGAAATGGAATCATTTGGTAATGAATGTGGTTTTCTCCAAAAGGAAAA
1 TGAAAATAGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAGGAAAA
24627472 TGA
1 TGA
24627475 CCTGAAAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 47 0.94
58 3 0.06
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (57 bp):
TGAAAATAGAGAAATGGAAACATTTGAAAATGAATATGGTTTTCTCCAAAAGGAAAA
Found at i:24632237 original size:29 final size:29
Alignment explanation
Indices: 24632136--24632302 Score: 135
Period size: 29 Copynumber: 5.8 Consensus size: 29
24632126 CATTTAACTG
* **
24632136 AGATAGCCACAAAGGCACCCTTTTAACAA
1 AGATAGCCACAAAGTCTTCCTTTTAACAA
* * * * *
24632165 AGATAGCCACAAAGACATCTTTTTAATAG
1 AGATAGCCACAAAGTCTTCCTTTTAACAA
*
24632194 AGATAGTCACAAAGTCTTCCTTTTAACAA
1 AGATAGCCACAAAGTCTTCCTTTTAACAA
* *
24632223 AGATAGCCACAAAGTCTT-TTTTCTACCAA
1 AGATAGCCACAAAGTCTTCCTTT-TAACAA
* * * *
24632252 AGATCA-CTACAAAGGCTTTC-TTTAACAG
1 AGAT-AGCCACAAAGTCTTCCTTTTAACAA
*
24632280 AGATCGCCACAAAGGT-TTCCTTT
1 AGATAGCCACAAA-GTCTTCCTTT
24632303 AACGGAGATC
Statistics
Matches: 109, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
28 20 0.18
29 88 0.81
30 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.28
Consensus pattern (29 bp):
AGATAGCCACAAAGTCTTCCTTTTAACAA
Found at i:24632264 original size:58 final size:58
Alignment explanation
Indices: 24632143--24632293 Score: 155
Period size: 58 Copynumber: 2.6 Consensus size: 58
24632133 CTGAGATAGC
** * * *
24632143 CACAAAGGCACCCTTTTAACAAAGATAGCCACAAAGACATCTTTTTAATAGAGATAGT
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGACATCTTTTTAACAAAGATACT
* * * *
24632201 CACAAAGTCTTCCTTTTAACAAAGATAGCCACAAAGTC-TTTTTTCTACCAAAGATCACT
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGACATCTTTT-TAACAAAGAT-ACT
* * *
24632260 -ACAAAGGCTTTC-TTTAACAGAGATCGCCACAAAG
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAG
24632294 GTTTCCTTTA
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
57 25 0.32
58 51 0.65
59 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (58 bp):
CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGACATCTTTTTAACAAAGATACT
Found at i:24632312 original size:28 final size:28
Alignment explanation
Indices: 24632252--24632350 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
24632242 TTTCTACCAA
*
24632252 AGATCACTACAAAGGCTTT-CTTTAACAG
1 AGATCACCACAAAGG-TTTCCTTTAACAG
* *
24632280 AGATCGCCACAAAGGTTTCCTTTAACGG
1 AGATCACCACAAAGGTTTCCTTTAACAG
* * * *
24632308 AGATCACTACAAAGATTTCCTTTTACAA
1 AGATCACCACAAAGGTTTCCTTTAACAG
* *
24632336 AAATTACCACAAAGG
1 AGATCACCACAAAGG
24632351 CGTCTCTTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 3 0.05
28 54 0.95
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
AGATCACCACAAAGGTTTCCTTTAACAG
Found at i:24636846 original size:20 final size:21
Alignment explanation
Indices: 24636816--24636869 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
24636806 GAAATAGGCG
*
24636816 CACGCCTGTGTGAAG-AAGCA
1 CACGCCCGTGTGAAGTAAGCA
* * *
24636836 CACGTCCGTGTAAAAGTAGGCA
1 CACGCCCGTGT-GAAGTAAGCA
24636858 CACGCCCGTGTG
1 CACGCCCGTGTG
24636870 TCTGAGTGAC
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 14 0.54
ACGTcount: A:0.26, C:0.28, G:0.30, T:0.17
Consensus pattern (21 bp):
CACGCCCGTGTGAAGTAAGCA
Found at i:24638547 original size:26 final size:26
Alignment explanation
Indices: 24638518--24638582 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 26
24638508 TAATATTATA
*
24638518 AAAATAAATAATCAAAA-TTTCAAA-TT
1 AAAATAAAAAAT-AAAAGTTT-AAATTT
*
24638544 AAAAGAAAAAATAAAAGTTTAAATTT
1 AAAATAAAAAATAAAAGTTTAAATTT
24638570 AAAGATAATAAAA
1 AAA-ATAA-AAAA
24638583 CCACCATAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 7 0.22
26 18 0.56
27 3 0.09
28 4 0.12
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AAAATAAAAAATAAAAGTTTAAATTT
Found at i:24651893 original size:16 final size:16
Alignment explanation
Indices: 24651874--24651915 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
24651864 AGGATTTTTG
24651874 TTATTTTTTATTT-ATT
1 TTATTTTTT-TTTAATT
24651890 TTATTTTCTTTTTAATT
1 TTATTTT-TTTTTAATT
24651907 TTATCTTTT
1 TTAT-TTTT
24651916 CCCGAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 10 0.43
17 10 0.43
18 3 0.13
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTATTTTTTTTTAATT
Found at i:24652490 original size:17 final size:17
Alignment explanation
Indices: 24652450--24652492 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
24652440 ACGTGTGGTC
*
24652450 GACCGTGTGTGAGACAT
1 GACCGTGTGCGAGACAT
*
24652467 GGCCGTGTGCGAGACAT
1 GACCGTGTGCGAGACAT
*
24652484 GATCGTGTG
1 GACCGTGTG
24652493 ATTGATGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.23
Consensus pattern (17 bp):
GACCGTGTGCGAGACAT
Found at i:24653058 original size:13 final size:13
Alignment explanation
Indices: 24653042--24653081 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
24653032 GGGGGTAGGA
24653042 TTCTGTATATCTG
1 TTCTGTATATCTG
*
24653055 TTCTGTTTATCTG
1 TTCTGTATATCTG
24653068 ATTCTG-ATATCTG
1 -TTCTGTATATCTG
24653081 T
1 T
24653082 AACTGTTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 1 0.04
13 18 0.75
14 5 0.21
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (13 bp):
TTCTGTATATCTG
Found at i:24658074 original size:6 final size:6
Alignment explanation
Indices: 24658063--24658094 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
24658053 GTTTTCAAAT
*
24658063 ATGGAA ATGGAA ATGGAA ATGGAA ATGAAA AT
1 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA AT
24658095 TTGCAATCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (6 bp):
ATGGAA
Found at i:24665066 original size:25 final size:25
Alignment explanation
Indices: 24665037--24665098 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
24665027 AGTGGCAAAG
24665037 TATAATTTTTAATAATTTATATCTT
1 TATAATTTTTAATAATTTATATCTT
*
24665062 TATAATTTTTAATAGTTTATATCTT
1 TATAATTTTTAATAATTTATATCTT
24665087 TATAATTTTTAA
1 TATAATTTTTAA
24665099 AGAATTCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (25 bp):
TATAATTTTTAATAATTTATATCTT
Found at i:24670936 original size:16 final size:16
Alignment explanation
Indices: 24670906--24670945 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24670896 TGCCCACAAT
*
24670906 ATACACATATATATGC
1 ATACATATATATATGC
* *
24670922 ATATATATATTTATGC
1 ATACATATATATATGC
24670938 ATACATAT
1 ATACATAT
24670946 CATAACATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (16 bp):
ATACATATATATATGC
Found at i:24679511 original size:14 final size:15
Alignment explanation
Indices: 24679485--24679546 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
24679475 AGAATTTTCA
*
24679485 AATTATAATTTAATT
1 AATTATAATTAAATT
24679500 AATTATAATTAAA-T
1 AATTATAATTAAATT
* *
24679514 AACTAAAATTCAAA--
1 AATTATAATT-AAATT
24679528 AATTA-AATTAAATT
1 AATTATAATTAAATT
24679542 AATTA
1 AATTA
24679547 GTCATTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.08
13 4 0.10
14 18 0.45
15 15 0.38
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTATAATTAAATT
Found at i:24679680 original size:9 final size:9
Alignment explanation
Indices: 24679664--24679698 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24679654 TTAATTGATA
24679664 AATTAATTT
1 AATTAATTT
*
24679673 AGTTAATTT
1 AATTAATTT
*
24679682 AATTAATTG
1 AATTAATTT
24679691 AATTAATT
1 AATTAATT
24679699 GAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:24679699 original size:9 final size:9
Alignment explanation
Indices: 24679664--24679702 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
24679654 TTAATTGATA
*
24679664 AATTAATTT
1 AATTAATTG
* *
24679673 AGTTAATTT
1 AATTAATTG
24679682 AATTAATTG
1 AATTAATTG
24679691 AATTAATTG
1 AATTAATTG
24679700 AAT
1 AAT
24679703 AAATAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (9 bp):
AATTAATTG
Found at i:24696314 original size:26 final size:23
Alignment explanation
Indices: 24696281--24696375 Score: 75
Period size: 26 Copynumber: 3.9 Consensus size: 23
24696271 GAGCCATGAT
24696281 CGGTAAGCTTATTTCGAGCTGAAGAA
1 CGGTAAGCTTA-TTCGAGCTG-A-AA
24696307 CGGTAAGCTCTA-TCGAGCTGAAA
1 CGGTAAGCT-TATTCGAGCTGAAA
* **
24696330 CAGTAAGCTTATAAGAGCTGATATA
1 CGGTAAGCTTATTCGAGCTGA-A-A
* *
24696355 TCGGTAAGCTCATACGAGCTG
1 -CGGTAAGCTTATTCGAGCTG
24696376 TGGTGAGTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.03
23 17 0.29
24 2 0.03
25 9 0.16
26 26 0.45
27 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTTATTCGAGCTGAAA
Found at i:24707340 original size:39 final size:39
Alignment explanation
Indices: 24707276--24707628 Score: 343
Period size: 39 Copynumber: 9.1 Consensus size: 39
24707266 ACTTCCAATA
* * * *
24707276 CACCGGCACACAACCTGTTAAGCACATAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
24707315 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
** * * * * * *
24707354 CACAAGCAAAAAGCCTACTAGGCACATAGCCCAAACAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
* * *
24707393 CACCTGCTCATAGCCTG-TAAGGCACAAAGCCCGAATAAT
1 CACCGGCACACAGCCTGCT-AGGCACAAAGCCCGAATAAT
* * **
24707432 CACCGGCATACAGCCTACTAGGTGCAAAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
* *
24707471 CACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
* * * * *
24707510 GACCTAG-TCACAGCCTGCTAGGCATAAAGCCTGAATAAT
1 CACC-GGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
* * *** * *
24707549 CACCGACACACAGCCTGCTAGCCACACTTCCCAAACAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
* * *
24707588 CACCAGCACAAAGCGTGCTAGGCACAAAG-CCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
24707626 CAC
1 CAC
24707629 TGTATTTCTA
Statistics
Matches: 247, Mismatches: 63, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
38 11 0.04
39 234 0.95
40 2 0.01
ACGTcount: A:0.36, C:0.33, G:0.18, T:0.14
Consensus pattern (39 bp):
CACCGGCACACAGCCTGCTAGGCACAAAGCCCGAATAAT
Found at i:24707589 original size:117 final size:117
Alignment explanation
Indices: 24707284--24707628 Score: 410
Period size: 117 Copynumber: 3.0 Consensus size: 117
24707274 TACACCGGCA
* *
24707284 CACAACCTGTTAA-GCACATAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACAAAGCCCG
1 CACAGCCTG-TAAGGCACAAAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACAAAGCCCG
* * * * *
24707348 AATAATCACAAGCAAAAAGCCTACTAGGCACATAGCCCAAACAATCACCTGCT
65 AATAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCTGCT
* * * **
24707401 CATAGCCTGTAAGGCACAAAGCCCGAATAATCACCGGCATACAGCCTACTAGGTGCAAAGCCCGA
1 CACAGCCTGTAAGGCACAAAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACAAAGCCCGA
* *
24707466 ATAATCACCGGCACAAAGCCTGCTAGGCACATAGCCCGAATAATGACCTAG-T
66 ATAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCT-GCT
* * * * *** *
24707518 CACAGCCTGCT-AGGCATAAAGCCTGAATAATCACCGACACACAGCCTGCTAGCCACACTTCCCA
1 CACAGCCTG-TAAGGCACAAAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACAAAGCCCG
* * *
24707582 AACAATCACCAGCACAAAGCGTGCTAGGCACAAAG-CCGAATAATCAC
65 AATAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCAC
24707629 TGTATTTCTA
Statistics
Matches: 193, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
116 14 0.07
117 177 0.92
118 2 0.01
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.14
Consensus pattern (117 bp):
CACAGCCTGTAAGGCACAAAGCCCGAATAATCACCGGCACACAGCCTGCTAGGCACAAAGCCCGA
ATAATCACCAGCACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCTGCT
Found at i:24709916 original size:20 final size:21
Alignment explanation
Indices: 24709893--24709933 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24709883 ATCACTTTAA
24709893 TATTAAATT-AATATAATATT
1 TATTAAATTAAATATAATATT
* *
24709913 TATTATATTAAATTTAATATT
1 TATTAAATTAAATATAATATT
24709934 AAATCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTAAATTAAATATAATATT
Found at i:24709932 original size:12 final size:12
Alignment explanation
Indices: 24709888--24709937 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
24709878 AATTAATCAC
24709888 TTTAATATTAAA
1 TTTAATATTAAA
24709900 -TTAATA-TAATA
1 TTTAATATTAA-A
24709911 TTTATTATATTAAA
1 TTTA--ATATTAAA
24709925 TTTAATATTAAA
1 TTTAATATTAAA
24709937 T
1 T
24709938 CTTATTAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 3 0.09
11 7 0.21
12 12 0.36
14 8 0.24
15 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:24721100 original size:40 final size:41
Alignment explanation
Indices: 24721045--24721150 Score: 124
Period size: 41 Copynumber: 2.6 Consensus size: 41
24721035 TTTTATTTTC
* ***
24721045 AATTTAGCACCCAGTGCCTCATC-AAATAATTTGAAGTAAT
1 AATTTGGCACCCAGTGCCTCATCGAAATAATCCAAAGTAAT
*
24721085 AATTTGGCACCCAGTGCCTCATCGAATTAATCCAAAGTAAT
1 AATTTGGCACCCAGTGCCTCATCGAAATAATCCAAAGTAAT
* * * *
24721126 AAATTGACGCCCAGTGTCTCATCGA
1 AATTTGGCACCCAGTGCCTCATCGA
24721151 CTCAAAGTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 22 0.39
41 34 0.61
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
AATTTGGCACCCAGTGCCTCATCGAAATAATCCAAAGTAAT
Found at i:24722083 original size:20 final size:21
Alignment explanation
Indices: 24722052--24722117 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
24722042 ATCTACTTAT
*
24722052 TATAATAT-ATAATAAATATA
1 TATACTATAATAATAAATATA
24722072 TATACT-TAATAATTAAGATATA
1 TATACTATAATAA-TAA-ATATA
* *
24722094 -ATATTATAATATTATAATATA
1 TATACTATAATAATA-AATATA
24722115 TAT
1 TAT
24722118 TTTTTAACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
19 1 0.03
20 9 0.24
21 14 0.38
22 13 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TATACTATAATAATAAATATA
Found at i:24739057 original size:11 final size:11
Alignment explanation
Indices: 24739041--24739065 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24739031 CAAGGTCCTT
24739041 GAAGAGTTGAA
1 GAAGAGTTGAA
24739052 GAAGAGTTGAA
1 GAAGAGTTGAA
24739063 GAA
1 GAA
24739066 ATTAGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (11 bp):
GAAGAGTTGAA
Found at i:24752337 original size:30 final size:31
Alignment explanation
Indices: 24752297--24752356 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24752287 AAACCTTTTA
*
24752297 TTTTCCCCTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
* *
24752327 TTTTCTCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
24752357 TCTTAACTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:24757139 original size:30 final size:30
Alignment explanation
Indices: 24757104--24757167 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
24757094 TCTAATATCA
24757104 ATTATTATGATTTTAAAATTA-AACT-TATAT
1 ATTATTATG-TTTTAAAATTATAACTATAT-T
*
24757134 ATTATTATGTTTTAAATTTATAACTATATT
1 ATTATTATGTTTTAAAATTATAACTATATT
24757164 ATTA
1 ATTA
24757168 AGAAATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.32
30 18 0.58
31 3 0.10
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
ATTATTATGTTTTAAAATTATAACTATATT
Found at i:24761455 original size:21 final size:23
Alignment explanation
Indices: 24761416--24761467 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
24761406 CTGCTGCTGT
* *
24761416 GAGAAAAAAGAAAGAAGAAA-AG
1 GAGAGAAAGGAAAGAAGAAATAG
*
24761438 G-GAGAAAGGAAAGGAGAAATAG
1 GAGAGAAAGGAAAGAAGAAATAG
24761460 GAGAGAAA
1 GAGAGAAA
24761468 TAATCTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 15 0.60
22 4 0.16
23 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (23 bp):
GAGAGAAAGGAAAGAAGAAATAG
Found at i:24767767 original size:33 final size:34
Alignment explanation
Indices: 24767720--24767784 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
24767710 CAGTTGAGCT
* *
24767720 TTTTAACTTGTGGAA-GGAAAATCTGGGAATATC
1 TTTTAACTTCTGGAATGAAAAATCTGGGAATATC
*
24767753 TTTTGACTTCTGGAATGAAAAATCTGGGAATA
1 TTTTAACTTCTGGAATGAAAAATCTGGGAATA
24767785 GCTGCCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (34 bp):
TTTTAACTTCTGGAATGAAAAATCTGGGAATATC
Found at i:24770711 original size:16 final size:16
Alignment explanation
Indices: 24770690--24770721 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24770680 ACACAATATT
24770690 CTATAAAAATTAAATA
1 CTATAAAAATTAAATA
24770706 CTATAAAAATTAAATA
1 CTATAAAAATTAAATA
24770722 AATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (16 bp):
CTATAAAAATTAAATA
Found at i:24775438 original size:20 final size:20
Alignment explanation
Indices: 24775394--24775446 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
24775384 CTCTAATAAA
24775394 ATTTATTACAAATGTAATTTT
1 ATTTATTA-AAATGTAATTTT
*
24775415 ATTTATTAAAAT-TTATTTT
1 ATTTATTAAAATGTAATTTT
*
24775434 CATTTAATAAAAT
1 -ATTTATTAAAAT
24775447 ATGATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 15 0.52
21 8 0.28
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTATTAAAATGTAATTTT
Found at i:24786568 original size:17 final size:19
Alignment explanation
Indices: 24786548--24786584 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
24786538 TTTTTATAGA
24786548 TTTTAA-ATAT-TTTTTAT
1 TTTTAATATATATTTTTAT
24786565 TTTTAATTATATATTTTTAT
1 TTTTAA-TATATATTTTTAT
24786585 AAAAATTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.35
19 4 0.24
20 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAATATATATTTTTAT
Found at i:24787294 original size:34 final size:34
Alignment explanation
Indices: 24787256--24787391 Score: 272
Period size: 34 Copynumber: 4.0 Consensus size: 34
24787246 TGTTGAAGGT
24787256 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
1 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
24787290 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
1 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
24787324 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
1 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
24787358 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
1 AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
24787392 TGTAAGTGTC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 102 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (34 bp):
AAGGACATTTTCTTACTAAATTGTTGCAAGTGCA
Found at i:24790485 original size:8 final size:9
Alignment explanation
Indices: 24790444--24790531 Score: 61
Period size: 10 Copynumber: 9.1 Consensus size: 9
24790434 AAAAATTAAG
24790444 TATTAAAAAA
1 TATT-AAAAA
24790454 TATTAAAAA
1 TATTAAAAA
* *
24790463 TACTAAAAT
1 TATTAAAAA
24790472 TCATATAAAAA
1 T-AT-TAAAAA
*
24790483 TATTAAAAT
1 TATTAAAAA
24790492 TA-TAAAAA
1 TATTAAAAA
24790500 TTATTATAAAA
1 -TATTA-AAAA
*
24790511 AATTATAAAA
1 TATTA-AAAA
*
24790521 AATTATAAAA
1 TATTA-AAAA
24790531 T
1 T
24790532 TAATAAAACT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
8 5 0.08
9 22 0.34
10 28 0.43
11 10 0.15
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:24790489 original size:29 final size:29
Alignment explanation
Indices: 24790444--24790530 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 29
24790434 AAAAATTAAG
24790444 TATTA-AAAAATATTAAAAATACT-AAAAT
1 TATTATAAAAATATTAAAAATA-TAAAAAT
*
24790472 TCA-TATAAAAATATTAAAATTATAAAAAT
1 T-ATTATAAAAATATTAAAAATATAAAAAT
*
24790501 TATTATAAAAAATTATAAAAAATTATAAAA
1 TATTAT-AAAAA-TATTAAAAA-TATAAAA
24790531 TTAATAAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
28 5 0.10
29 25 0.51
30 5 0.10
31 7 0.14
32 7 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (29 bp):
TATTATAAAAATATTAAAAATATAAAAAT
Found at i:24790507 original size:12 final size:10
Alignment explanation
Indices: 24790487--24790530 Score: 70
Period size: 10 Copynumber: 4.2 Consensus size: 10
24790477 TAAAAATATT
24790487 AAAATTATAA
1 AAAATTATAA
24790497 AAATTATTATAA
1 AAA--ATTATAA
24790509 AAAATTATAA
1 AAAATTATAA
24790519 AAAATTATAA
1 AAAATTATAA
24790529 AA
1 AA
24790531 TTAATAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 22 0.69
12 10 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:24790513 original size:22 final size:20
Alignment explanation
Indices: 24790487--24790530 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 20
24790477 TAAAAATATT
24790487 AAAATTATAAAAATTATTATAA
1 AAAATTATAAAAA--ATTATAA
24790509 AAAATTATAAAAAATTATAA
1 AAAATTATAAAAAATTATAA
24790529 AA
1 AA
24790531 TTAATAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTATAAAAAATTATAA
Found at i:24790589 original size:9 final size:9
Alignment explanation
Indices: 24790475--24790600 Score: 58
Period size: 10 Copynumber: 13.1 Consensus size: 9
24790465 CTAAAATTCA
24790475 TATAAAAA-
1 TATAAAAAT
*
24790483 TATTAAAAT
1 TATAAAAAT
24790492 TATAAAAATTAT
1 TAT-AAAA--AT
24790504 TATAAAAAAT
1 TAT-AAAAAT
24790514 TATAAAAAAT
1 TAT-AAAAAT
24790524 TAT-AAAAT
1 TATAAAAAT
*
24790532 TAATAAAACT
1 T-ATAAAAAT
**
24790542 TATTTCAAAT
1 TA-TAAAAAT
*
24790552 TTTAAAAAAT
1 TAT-AAAAAT
**
24790562 GTATTGAAAT
1 -TATAAAAAT
*
24790572 TCTTAAAAAT
1 T-ATAAAAAT
*
24790582 TATAAAAAA
1 TATAAAAAT
*
24790591 TATTAAAAT
1 TATAAAAAT
24790600 T
1 T
24790601 GATATAAACC
Statistics
Matches: 89, Mismatches: 19, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
8 13 0.15
9 22 0.25
10 42 0.47
11 2 0.02
12 10 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
TATAAAAAT
Found at i:24791044 original size:9 final size:9
Alignment explanation
Indices: 24791030--24791212 Score: 57
Period size: 10 Copynumber: 18.9 Consensus size: 9
24791020 TTATGATTGC
24791030 TTTTATAAT
1 TTTTATAAT
24791039 TTTTATAAGT
1 TTTTATAA-T
*
24791049 TTATATAAAT
1 TTTTAT-AAT
* *
24791059 TTTAATACT
1 TTTTATAAT
* *
24791068 TTTAATACTT
1 TTTTATA-AT
**
24791078 TTTTATGTGT
1 TTTTAT-AAT
24791088 TTTTATAAAAT
1 TTTTAT--AAT
*
24791099 TTTAATACAT
1 TTTTATA-AT
*
24791109 TTTTAATCAAA
1 TTTT-AT-AAT
24791120 TTTTA-AAT
1 TTTTATAAT
24791128 ATGTTTATTAA-
1 -T-TTTA-TAAT
*
24791139 ATTTATAATT
1 TTTTATAA-T
24791149 TTTTATAAT
1 TTTTATAAT
* *
24791158 TTAT-TAGT
1 TTTTATAAT
24791166 TTTTATTAGAT
1 TTTTA-TA-AT
24791177 TTTTATAAT
1 TTTTATAAT
* * *
24791186 ATTTAAAACA
1 TTTTATAA-T
24791196 TTTTATAAT
1 TTTTATAAT
*
24791205 ATTTATAA
1 TTTTATAA
24791213 GTTCATACAA
Statistics
Matches: 128, Mismatches: 28, Indels: 36
0.67 0.15 0.19
Matches are distributed among these distances:
8 11 0.09
9 42 0.33
10 51 0.40
11 21 0.16
12 3 0.02
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24791111 original size:21 final size:21
Alignment explanation
Indices: 24791087--24791147 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
24791077 TTTTTATGTG
24791087 TTTTTATAAAATTTTAATACA
1 TTTTTATAAAATTTTAATACA
* *
24791108 TTTTTAATCAAATTTTAA-ATA
1 TTTTT-ATAAAATTTTAATACA
* *
24791129 TGTTTATTAAATTTATAAT
1 TTTTTATAAAATTT-TAAT
24791148 TTTTTATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 8 0.24
21 14 0.42
22 11 0.33
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATACA
Found at i:24791160 original size:17 final size:17
Alignment explanation
Indices: 24791138--24791171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24791128 ATGTTTATTA
*
24791138 AATTTATAATTTTTTAT
1 AATTTATAAGTTTTTAT
*
24791155 AATTTATTAGTTTTTAT
1 AATTTATAAGTTTTTAT
24791172 TAGATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
AATTTATAAGTTTTTAT
Found at i:24791279 original size:20 final size:21
Alignment explanation
Indices: 24791256--24791309 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
24791246 ATAACATTTA
*
24791256 TATATATATTTTTAT-TTTTT
1 TATATATATTTTTATGGTTTT
24791276 TATA-AT-TTTTTATGGTTTT
1 TATATATATTTTTATGGTTTT
24791295 TA-ATA-ATTTTTATGG
1 TATATATATTTTTATGG
24791310 ATAAATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.27
19 18 0.60
20 4 0.13
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TATATATATTTTTATGGTTTT
Found at i:24791645 original size:22 final size:21
Alignment explanation
Indices: 24791597--24791645 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
24791587 AAAAATTATA
24791597 TTATAAAAATAATTTATGTTC
1 TTATAAAAATAATTTATGTTC
*
24791618 TT-TAAAAA-AATTATATGTATT
1 TTATAAAAATAATT-TATGT-TC
24791639 TTATAAA
1 TTATAAA
24791646 GTTATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 5 0.21
22 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
TTATAAAAATAATTTATGTTC
Found at i:24791746 original size:25 final size:25
Alignment explanation
Indices: 24791717--24791769 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
24791707 TACCATAAAA
*
24791717 TATAATTTATATA-TTACAAAAATGT
1 TATAATATATATATTTACAAAAAT-T
* *
24791742 TATAATATATTTATTTATAAAAATT
1 TATAATATATATATTTACAAAAATT
24791767 TAT
1 TAT
24791770 GGCCAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TATAATATATATATTTACAAAAATT
Found at i:24793172 original size:26 final size:26
Alignment explanation
Indices: 24793143--24793192 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24793133 TACTTAACAT
24793143 TCAAT-TAACCATTTCTAAATCATTAA
1 TCAATCTAACCATTTC-AAATCATTAA
* *
24793169 TCAATCTATCTATTTCAAATCATT
1 TCAATCTAACCATTTCAAATCATT
24793193 CAATTAGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (26 bp):
TCAATCTAACCATTTCAAATCATTAA
Found at i:24793279 original size:42 final size:42
Alignment explanation
Indices: 24793227--24793310 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
24793217 GGAGAAGGTC
* * *
24793227 TCATTATAATCAATACATTCTTTTTGTGTCTAGCCTTTCCCT
1 TCATTATAATCAATACATGCTTTCTATGTCTAGCCTTTCCCT
* * * *
24793269 TCATTGTAATCAATGCATGCTTTCTATGTGTAGTCTTTCCCT
1 TCATTATAATCAATACATGCTTTCTATGTCTAGCCTTTCCCT
24793311 ACAAGTCTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (42 bp):
TCATTATAATCAATACATGCTTTCTATGTCTAGCCTTTCCCT
Found at i:24794037 original size:22 final size:22
Alignment explanation
Indices: 24794011--24794055 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24794001 ATTATGTGTA
24794011 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
24794033 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
24794055 T
1 T
24794056 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:24799215 original size:73 final size:72
Alignment explanation
Indices: 24799132--24799270 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 72
24799122 ACAACCAAGG
* *
24799132 AAAAAAAATTATATAACAAATATATAACATCACATCCGTTCCCATATATAACTCAAAACATGCAT
1 AAAAAAAATTATATAAAAAATATATAACATCACATCCATTCCCATATATAACTCAAAACATGCAT
24799197 AGGATGC
66 AGGATGC
* * * *
24799204 AAAAAACAATTATATAAAAAATATATAATATCGCATCTATTCCCATATATAGCTCAAAACATGCA
1 AAAAAA-AATTATATAAAAAATATATAACATCACATCCATTCCCATATATAACTCAAAACATGCA
24799269 TA
65 TA
24799271 AGATCTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 6 0.10
73 54 0.90
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.27
Consensus pattern (72 bp):
AAAAAAAATTATATAAAAAATATATAACATCACATCCATTCCCATATATAACTCAAAACATGCAT
AGGATGC
Found at i:24799365 original size:7 final size:7
Alignment explanation
Indices: 24799353--24799387 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
24799343 TACTTATAGA
24799353 TAGGGTT
1 TAGGGTT
24799360 TAGGGTTT
1 TAGGG-TT
24799368 TAGGGTT
1 TAGGGTT
24799375 TAGGGTT
1 TAGGGTT
24799382 TAGGGT
1 TAGGGT
24799388 ATGCATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
TAGGGTT
Found at i:24799373 original size:15 final size:14
Alignment explanation
Indices: 24799353--24799387 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
24799343 TACTTATAGA
24799353 TAGGGTTTAGGGTTT
1 TAGGGTTTAGGG-TT
24799368 TAGGGTTTAGGGTT
1 TAGGGTTTAGGGTT
24799382 TAGGGT
1 TAGGGT
24799388 ATGCATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (14 bp):
TAGGGTTTAGGGTT
Found at i:24800475 original size:19 final size:19
Alignment explanation
Indices: 24800437--24800476 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24800427 AAAATATCAT
*
24800437 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
* *
24800456 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTGACTTG
24800475 AT
1 AT
24800477 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:24800801 original size:24 final size:23
Alignment explanation
Indices: 24800773--24800820 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 23
24800763 CTTAATCATG
24800773 GAGTCAGTCCACAAGAAGTACCGT
1 GAGT-AGTCCACAAGAAGTACCGT
24800797 --G-AGTCCACAAGAAGTACCGT
1 GAGTAGTCCACAAGAAGTACCGT
24800817 GAGT
1 GAGT
24800821 GAAAACTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
20 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.23, G:0.27, T:0.17
Consensus pattern (23 bp):
GAGTAGTCCACAAGAAGTACCGT
Found at i:24800803 original size:20 final size:20
Alignment explanation
Indices: 24800778--24800820 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
24800768 TCATGGAGTC
24800778 AGTCCACAAGAAGTACCGTG
1 AGTCCACAAGAAGTACCGTG
24800798 AGTCCACAAGAAGTACCGTG
1 AGTCCACAAGAAGTACCGTG
24800818 AGT
1 AGT
24800821 GAAAACTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.16
Consensus pattern (20 bp):
AGTCCACAAGAAGTACCGTG
Found at i:24812393 original size:17 final size:18
Alignment explanation
Indices: 24812368--24812401 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24812358 TTTAATTTCT
24812368 ATTTCTTATTTATTTATG
1 ATTTCTTATTTATTTATG
*
24812386 ATTT-TTATTTTTTTAT
1 ATTTCTTATTTATTTAT
24812402 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTCTTATTTATTTATG
Found at i:24822119 original size:258 final size:258
Alignment explanation
Indices: 24821662--24822178 Score: 865
Period size: 258 Copynumber: 2.0 Consensus size: 258
24821652 AATGGAAGTG
* * *
24821662 ATGTTTATTTAGTCTTTGGTACAAGGATTAAATCGAATAGACTGAAAAACTTAAGATTGACAACC
1 ATGTTTATTTAGTCTTTGATACAAGGATTAAATCGAATAGACTGAAAAACTCAAGACTGACAACC
*
24821727 TAAGGGAAAATCAAGATAAGTGAGATCGAGAGGTAATCTTATTGGGCACCAATTCATTAGTCCCA
66 TAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCCCA
**
24821792 GGTTAGCCAGTGAGATCGAGAGATAAATTGGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
131 GGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
* *
24821857 GAGGTAAAATTAAATCAATTTAGGAGTGTTAGCAATTTAGATCCCTAATCCAAGGTTTAATTA
196 GAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCCCTAATCCAAGGTTTAATTA
*
24821920 ATGTTTATTTAGTCTTTGATACAAGGATTAAATCGAATAGACTTAAAAACTCAAGACTGACAACC
1 ATGTTTATTTAGTCTTTGATACAAGGATTAAATCGAATAGACTGAAAAACTCAAGACTGACAA-C
24821985 CTAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATT-GGCACCAATTCATTAGTCCC
65 CTAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCCC
* * * * **
24822049 AGGTTGGCCAGTGAGATTGAGAGATAAATCAGACTAATTTGTCTAATTTTGTATAGTTGAGATTG
130 AGGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACCG
* *
24822114 AGAGGTTAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCCCTAATTCAAGGTTTAATTA
195 AGAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCCCTAATCCAAGGTTTAATTA
24822178 A
1 A
24822179 CAACATGGAA
Statistics
Matches: 241, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
258 197 0.82
259 44 0.18
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.31
Consensus pattern (258 bp):
ATGTTTATTTAGTCTTTGATACAAGGATTAAATCGAATAGACTGAAAAACTCAAGACTGACAACC
TAAGGGAAAATCAAGATAAGTGAGATCGAGAGATAATCTTATTGGGCACCAATTCATTAGTCCCA
GGTTAGCCAGTGAGATCGAGAGATAAATCAGACTAATTTGTCTAATTTGGTAAAGTTGAGACCGA
GAGGTAAAATTAAATCAATTTAGAAGTCTTAGCAATTTAGATCCCTAATCCAAGGTTTAATTA
Found at i:24822937 original size:16 final size:16
Alignment explanation
Indices: 24822916--24822972 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
24822906 TTTGGTTCGC
*
24822916 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24822932 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
24822948 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
24822964 TGTAATGGA
1 TGTAATGGA
24822973 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:24823239 original size:18 final size:17
Alignment explanation
Indices: 24823218--24823252 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24823208 TTATTATTAA
*
24823218 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
24823236 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
24823253 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:24823389 original size:16 final size:16
Alignment explanation
Indices: 24823352--24823393 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24823342 TTAATCATAT
*
24823352 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24823368 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24823383 TTAAAATATAT
1 TTAAAATATAT
24823394 AATTTAATAN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:24823391 original size:154 final size:156
Alignment explanation
Indices: 24823105--24823402 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
24823095 TAGAATACCC
24823105 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
24823170 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
24823235 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
24823262 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
24823325 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
24823390 ATATAATTTAATA
131 ATATAATTTAATA
24823403 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:24823400 original size:14 final size:15
Alignment explanation
Indices: 24823361--24823402 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24823351 TTTAAACATA
*
24823361 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24823376 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24823390 A-TATAATTTAATA
1 ATTATAATTAAATA
24823403 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24824863 original size:12 final size:12
Alignment explanation
Indices: 24824846--24824873 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24824836 CATACAAAAA
24824846 ACAGAAGCTGCT
1 ACAGAAGCTGCT
24824858 ACAGAAGCTGCT
1 ACAGAAGCTGCT
24824870 ACAG
1 ACAG
24824874 CAATAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.14
Consensus pattern (12 bp):
ACAGAAGCTGCT
Found at i:24826352 original size:24 final size:24
Alignment explanation
Indices: 24826325--24826375 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
24826315 TGGGAAAAAC
24826325 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
24826349 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
24826373 ATT
1 ATT
24826376 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:24832377 original size:20 final size:20
Alignment explanation
Indices: 24832352--24832394 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
24832342 TCTTTACTTT
24832352 CTTCTTTACTTACTCT-CTTA
1 CTTCTTTACTTACT-TGCTTA
24832372 CTTCTTTACTTACTTGCTTA
1 CTTCTTTACTTACTTGCTTA
24832392 CTT
1 CTT
24832395 AAATAACTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.14, C:0.28, G:0.02, T:0.56
Consensus pattern (20 bp):
CTTCTTTACTTACTTGCTTA
Found at i:24832383 original size:12 final size:12
Alignment explanation
Indices: 24832342--24832395 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
24832332 AGTCTCATGA
*
24832342 TCTTTACTTTCT
1 TCTTTACTTACT
24832354 TCTTTACTTAC-
1 TCTTTACTTACT
24832365 TC--T-CTTACT
1 TCTTTACTTACT
24832374 TCTTTACTTACT
1 TCTTTACTTACT
24832386 TGC-TTACTTA
1 T-CTTTACTTA
24832396 AATAACTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
8 5 0.14
9 3 0.08
11 3 0.08
12 24 0.67
13 1 0.03
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (12 bp):
TCTTTACTTACT
Found at i:24843499 original size:19 final size:20
Alignment explanation
Indices: 24843465--24843502 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24843455 TGCTCATGGA
*
24843465 CTGTTTTTAGACTTTTGGGT
1 CTGTTTTTAGAATTTTGGGT
24843485 CTGTTTTTA-AATTTTGGG
1 CTGTTTTTAGAATTTTGGG
24843503 ATTTTACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.08, G:0.24, T:0.55
Consensus pattern (20 bp):
CTGTTTTTAGAATTTTGGGT
Found at i:24845486 original size:7 final size:7
Alignment explanation
Indices: 24845451--24845498 Score: 51
Period size: 7 Copynumber: 6.3 Consensus size: 7
24845441 AATCATAATG
*
24845451 AATAAAA
1 AATATAA
24845458 AATCATAA
1 AAT-ATAA
24845466 AATTTATAAA
1 AA--TAT-AA
24845476 AATATAA
1 AATATAA
24845483 AATATAA
1 AATATAA
24845490 AATATAA
1 AATATAA
24845497 AA
1 AA
24845499 AATCATTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
7 21 0.58
8 8 0.22
9 2 0.06
10 5 0.14
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (7 bp):
AATATAA
Found at i:24845577 original size:8 final size:9
Alignment explanation
Indices: 24845455--24845610 Score: 51
Period size: 9 Copynumber: 17.4 Consensus size: 9
24845445 ATAATGAATA
*
24845455 AAAAATCAT
1 AAAAATTAT
*
24845464 AAAATTTAT
1 AAAAATTAT
24845473 AAAAA-TAT
1 AAAAATTAT
24845481 -AAAA-TAT
1 AAAAATTAT
24845488 -AAAA-TAT
1 AAAAATTAT
*
24845495 AAAAAATCAT
1 -AAAAATTAT
**
24845505 TTAAATTATT
1 AAAAATTA-T
*
24845515 AAACA-T-T
1 AAAAATTAT
24845522 AAAAATGT-T
1 AAAAAT-TAT
*
24845531 AAAAAATAT
1 AAAAATTAT
*
24845540 GAAAATTGAT
1 AAAAATT-AT
** *
24845550 ATGGACTTAT
1 A-AAAATTAT
24845560 AAAAATTAT
1 AAAAATTAT
*
24845569 AAAAATATAA
1 AAAAAT-TAT
* *
24845579 AAAAAATCT
1 AAAAATTAT
24845588 AATAAATTAT
1 AA-AAATTAT
24845598 -AAAATTAAT
1 AAAAATT-AT
24845607 AAAA
1 AAAA
24845611 CATATTTAAA
Statistics
Matches: 107, Mismatches: 27, Indels: 25
0.67 0.17 0.16
Matches are distributed among these distances:
7 19 0.18
8 9 0.08
9 51 0.48
10 25 0.23
11 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24845631 original size:21 final size:22
Alignment explanation
Indices: 24845597--24845645 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
24845587 TAATAAATTA
24845597 TAAAA-TTAAT-AAAACATATT
1 TAAAATTTAATAAAAACATATT
*
24845617 TAAAATTTTATAAAAACATATT
1 TAAAATTTAATAAAAACATATT
24845639 TAAAATT
1 TAAAATT
24845646 CTCTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 5 0.19
21 4 0.15
22 17 0.65
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATTTAATAAAAACATATT
Found at i:24845635 original size:22 final size:22
Alignment explanation
Indices: 24845607--24845654 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
24845597 TAAAATTAAT
*
24845607 AAAACATATTTAAAATTTTATA
1 AAAACATATTTAAAATTCTATA
*
24845629 AAAACATATTTAAAATTCTCTA
1 AAAACATATTTAAAATTCTATA
24845651 AAAA
1 AAAA
24845655 TCCATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAACATATTTAAAATTCTATA
Found at i:24846919 original size:17 final size:17
Alignment explanation
Indices: 24846889--24846926 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
24846879 GTACATCATT
24846889 TAATTTATAGCATAATAA
1 TAATTTATAGCATAAT-A
24846907 TAATTTA-AGCATAATA
1 TAATTTATAGCATAATA
24846923 TAAT
1 TAAT
24846927 GAACATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.25
17 8 0.40
18 7 0.35
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (17 bp):
TAATTTATAGCATAATA
Found at i:24848749 original size:26 final size:27
Alignment explanation
Indices: 24848701--24848762 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
24848691 ATATATGATT
* *
24848701 GAAATGCCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATAACC
*
24848728 GAAATACCCCCATAGGGT-AAATAATC
1 GAAATACCCCCATAGGGTAAAATAACC
24848754 GAAATACCC
1 GAAATACCC
24848763 TTAGGAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATAACC
Found at i:24856366 original size:27 final size:27
Alignment explanation
Indices: 24856328--24856423 Score: 122
Period size: 27 Copynumber: 3.6 Consensus size: 27
24856318 AGGTCAATAT
*
24856328 ATGATCGAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
* * *
24856355 ATGACCGAAATA-TCGTCATAGGATAAA
1 ATGACCGAAATACCCCT-ATAGGGTAAA
* *
24856382 ATGATCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCTATAGGGTAAA
24856409 ATGACCGAAATACCC
1 ATGACCGAAATACCC
24856424 TTAGAAGATG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.04
27 54 0.95
28 1 0.02
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.20
Consensus pattern (27 bp):
ATGACCGAAATACCCCTATAGGGTAAA
Found at i:24856774 original size:28 final size:27
Alignment explanation
Indices: 24856742--24856805 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 27
24856732 GTACTGATAT
*
24856742 TGTATTGGGTTAAAGCCCACACTGTTAC
1 TGTATTGGGCTAAAGCCCACACTG-TAC
* *
24856770 TGTATCGGGCTAAGGCCCACACTGTAC
1 TGTATTGGGCTAAAGCCCACACTGTAC
24856797 TGTTATTGG
1 TG-TATTGG
24856806 ATAGGGCTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (27 bp):
TGTATTGGGCTAAAGCCCACACTGTAC
Found at i:24859380 original size:29 final size:30
Alignment explanation
Indices: 24859268--24859394 Score: 99
Period size: 29 Copynumber: 4.5 Consensus size: 30
24859258 TTATGATTTT
*
24859268 TTTTAAAT-TTTT--ATAAGTTTATATCAA
1 TTTTAAATATTTTAAATAAGTTTATATTAA
* * *
24859295 TTTT-AATATTTTAAAT-ATTTTTTATTAT
1 TTTTAAATATTTTAAATAAGTTTATATTAA
** * *
24859323 TTTTAAGA-A-TTCCAATATGTTTATCTTAA
1 TTTTAA-ATATTTTAAATAAGTTTATATTAA
24859352 TTTTAAATATTTTAAATAAGTTT-TATTAA
1 TTTTAAATATTTTAAATAAGTTTATATTAA
* *
24859381 TTTTATATTTTTTA
1 TTTTAAATATTTTA
24859395 TAATTTATTA
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
26 3 0.04
27 8 0.11
28 18 0.24
29 35 0.47
30 11 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTAAATATTTTAAATAAGTTTATATTAA
Found at i:24859440 original size:9 final size:9
Alignment explanation
Indices: 24859367--24859477 Score: 50
Period size: 9 Copynumber: 12.1 Consensus size: 9
24859357 AATATTTTAA
*
24859367 ATAAGTTTT
1 ATAATTTTT
24859376 ATTAA-TTTT
1 A-TAATTTTT
*
24859385 ATATTTTTT
1 ATAATTTTT
24859394 ATAATTTATT
1 ATAATTT-TT
*
24859404 A-GATTTTAT
1 ATAATTTT-T
*
24859413 ATAATATTT
1 ATAATTTTT
* *
24859422 GTAAGATTTT
1 ATAA-TTTTT
24859432 ATAATTTTT
1 ATAATTTTT
** *
24859441 -TCCTTTTA
1 ATAATTTTT
24859449 ATAATTTTGT
1 ATAATTTT-T
24859459 ATCAATTTTT
1 AT-AATTTTT
*
24859469 -TAATATTT
1 ATAATTTTT
24859477 A
1 A
24859478 ATATTTCTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
8 14 0.19
9 36 0.48
10 19 0.25
11 6 0.08
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:24865680 original size:13 final size:13
Alignment explanation
Indices: 24865662--24865704 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
24865652 TTTTATTTTG
*
24865662 ATTTAAAATTAGA
1 ATTTAAAATTAAA
*
24865675 ATTTAAAAATAAA
1 ATTTAAAATTAAA
* *
24865688 ATTCAAAATTACA
1 ATTTAAAATTAAA
24865701 ATTT
1 ATTT
24865705 TGCATTGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
ATTTAAAATTAAA
Found at i:24867270 original size:43 final size:43
Alignment explanation
Indices: 24867204--24867472 Score: 247
Period size: 43 Copynumber: 6.3 Consensus size: 43
24867194 CCAAAGGTCA
* * * * *
24867204 TTAGTGGCGTTTTTGGTAGAAGCGCCGCAAAAGGTCATGATCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
* *
24867247 TTAGAGGCGTTTATGGGAAAAGCGCCGCTAAA-GTCATGATCTT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC-T
*** * * *
24867290 TTAGCGGCGTTTGTAATAAAAGCGTCGCTAAAGGTCCTGACCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
* ** * * *
24867333 TTAGCGGTGTTTGTAAGAAAAGTGCCGCTAAAGGTCTTG-GCTT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATC-T
* * * *
24867376 TTAGTGGCGTTTGTGGGAACAGCGTCGCTAAAGGTCATGGTCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
* ** * *
24867419 TTAGCGGCGTTTAT-TAAAAAGCGCCGCTAAAAGTCATGACCT
1 TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
24867461 TTAGCGGCGTTT
1 TTAGCGGCGTTT
24867473 TCTGGGCCAA
Statistics
Matches: 185, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
42 43 0.23
43 134 0.72
44 8 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCT
Found at i:24867360 original size:86 final size:85
Alignment explanation
Indices: 24867223--24867472 Score: 277
Period size: 86 Copynumber: 2.9 Consensus size: 85
24867213 TTTTTGGTAG
* * * * **
24867223 AAGCGCCGCAAAAGGTCATGATCTTTAGAGGCGTTTATGGGAAAAGCGCCGCTAAAGTCATGATC
1 AAGCGTCGCTAAAGGTCATGACCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAGTCATGA-C
*
24867288 TTTTAGCGGCGTTTGTAATAA
65 TTTTAGCGGCGTTTGTAAGAA
* * * * * *
24867309 AAGCGTCGCTAAAGGTCCTGACCTTTAGCGGTGTTTGTAAGAAAAGTGCCGCTAAAGGTCTTGGC
1 AAGCGTCGCTAAAGGTCATGACCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAA-GTCATGAC
* **
24867374 TTTTAGTGGCGTTTGTGGGAA
65 TTTTAGCGGCGTTTGTAAGAA
* ** *
24867395 CAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTATTA-AAAAGCGCCGCTAAAAGTCATGAC
1 AAGCGTCGCTAAAGGTCATGACCTTTAGCGGCGTTTATAAGAAAAGCGCCGCT-AAAGTCATGAC
*
24867459 CTTTAGCGGCGTTT
65 TTTTAGCGGCGTTT
24867473 TCTGGGCCAA
Statistics
Matches: 134, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
85 29 0.22
86 100 0.75
87 5 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (85 bp):
AAGCGTCGCTAAAGGTCATGACCTTTAGCGGCGTTTATAAGAAAAGCGCCGCTAAAGTCATGACT
TTTAGCGGCGTTTGTAAGAA
Found at i:24869100 original size:31 final size:30
Alignment explanation
Indices: 24869062--24869165 Score: 124
Period size: 31 Copynumber: 3.4 Consensus size: 30
24869052 TTTAAAAATG
24869062 AAAAAATAAAAAATATATAATTAAAATTTTT
1 AAAAAATAAAAAATATATAATTAAAA-TTTT
24869093 AAAAAATAAAAATATTATATAA--AAAATTTT
1 AAAAAATAAAAA-A-TATATAATTAAAATTTT
*
24869123 AAAAAATTAAAAATATAT-ATGTATAAATTTT
1 AAAAAATAAAAAATATATAAT-TA-AAATTTT
*
24869154 AAAAAATCAAAA
1 AAAAAATAAAAA
24869166 TATTCTATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
29 1 0.02
30 16 0.25
31 34 0.52
32 1 0.02
33 7 0.11
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (30 bp):
AAAAAATAAAAAATATATAATTAAAATTTT
Found at i:24869135 original size:61 final size:61
Alignment explanation
Indices: 24869062--24869177 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 61
24869052 TTTAAAAATG
24869062 AAAAAATAAAAAATATATAAT-TA-AAATTTTTAAAAAATAAAAATATTATATAAAAAATTTT
1 AAAAAATAAAAAATATAT-ATGTATAAA-TTTTAAAAAATAAAAATATTATATAAAAAATTTT
* * *
24869123 AAAAAATTAAAAATATATATGTATAAATTTTAAAAAATCAAAATATTCTATAAAA
1 AAAAAATAAAAAATATATATGTATAAATTTTAAAAAATAAAAATATTATATAAAA
24869178 TTGAAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
60 2 0.04
61 45 0.90
62 3 0.06
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.34
Consensus pattern (61 bp):
AAAAAATAAAAAATATATATGTATAAATTTTAAAAAATAAAAATATTATATAAAAAATTTT
Found at i:24869640 original size:21 final size:21
Alignment explanation
Indices: 24869616--24869697 Score: 91
Period size: 21 Copynumber: 4.0 Consensus size: 21
24869606 AAAAAAATTC
24869616 AATTTTTATATAATATTTTTA
1 AATTTTTATATAATATTTTTA
* *
24869637 AATTTATAT-TTATATTTTTTA
1 AATTTTTATATAATA-TTTTTA
24869658 AATTTTTATATAATA-TTTT-
1 AATTTTTATATAATATTTTTA
* *
24869677 GATTTTTAAATAAT-TTTTTA
1 AATTTTTATATAATATTTTTA
24869697 A
1 A
24869698 GAAAATATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
19 16 0.32
20 8 0.16
21 22 0.44
22 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
AATTTTTATATAATATTTTTA
Found at i:24876132 original size:23 final size:23
Alignment explanation
Indices: 24876089--24876141 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
24876079 TTTTTCAAAT
* * *
24876089 TTCGAGTTAACTGGATCAAGTTA
1 TTCGAGTCAACTGAATCAAGTAA
24876112 TTCGAGTCAACTCGAAT-AAGTAA
1 TTCGAGTCAACT-GAATCAAGTAA
*
24876135 TCCGAGT
1 TTCGAGT
24876142 TCGAGTCGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (23 bp):
TTCGAGTCAACTGAATCAAGTAA
Found at i:24876305 original size:19 final size:18
Alignment explanation
Indices: 24876283--24876344 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
24876273 AATTACAAAA
24876283 AAAAAATTAAATTA-TTT
1 AAAAAATTAAATTATTTT
* *
24876300 ATAAAAATTCCAATTTTTTT
1 A-AAAAATT-AAATTATTTT
*
24876320 AAAAAATTATAATAATTTT
1 AAAAAATTA-AATTATTTT
24876339 AAAAAA
1 AAAAAA
24876345 AAAATCTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 24 0.67
20 4 0.11
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAAATTAAATTATTTT
Found at i:24876881 original size:67 final size:64
Alignment explanation
Indices: 24876795--24876967 Score: 224
Period size: 67 Copynumber: 2.7 Consensus size: 64
24876785 TTGTTATTAA
** * *
24876795 ATTTTAATAGGATTATTATTAAATGTAATTTAATAAAAATAAAAATAAAAATAAATAATTTAATC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAT--AAA-AAAAATAAATAATTTAATA
*
24876860 AT
63 AC
*
24876862 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAT--AAAAAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAAAAATAAATAATTTAATAAC
*
24876924 ATTCTTAATATAATTATTATTAAAATATAAATTAATAAAAATAA
1 ATT-TTAATATAATTATTATT-AAATATAATTTAATAAAAATAA
24876968 TATATAATAT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
62 21 0.22
63 18 0.19
64 19 0.20
67 37 0.39
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (64 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAAAAAATAAATAATTTAATAAC
Found at i:24876966 original size:64 final size:62
Alignment explanation
Indices: 24876832--24876967 Score: 211
Period size: 62 Copynumber: 2.2 Consensus size: 62
24876822 ATTTAATAAA
* * *
24876832 AATAAAAAT-AAAAATAAATAATTTAATCATATTTTAATATAATTATTATTAAATATAATTT
1 AATAAAAATAAAAAATAAATAATTTAATAACATTTTAATATAATTATTATTAAATATAAATT
*
24876893 AATAAAAATAAAAAATATATAATTTAATAACATTCTTAATATAATTATTATTAAAATATAAATT
1 AATAAAAATAAAAAATAAATAATTTAATAACATT-TTAATATAATTATTATT-AAATATAAATT
24876957 AATAAAAATAA
1 AATAAAAATAA
24876968 TATATAATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
61 9 0.13
62 21 0.31
63 17 0.25
64 21 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (62 bp):
AATAAAAATAAAAAATAAATAATTTAATAACATTTTAATATAATTATTATTAAATATAAATT
Found at i:24876974 original size:21 final size:21
Alignment explanation
Indices: 24876948--24876990 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
24876938 TATTATTAAA
24876948 ATATAA-ATTAATAAAAATAAT
1 ATATAATATT-ATAAAAATAAT
24876969 ATATAATATTATAAAAATAAT
1 ATATAATATTATAAAAATAAT
24876990 A
1 A
24876991 AATAGCCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAATATTATAAAAATAAT
Found at i:24881934 original size:13 final size:13
Alignment explanation
Indices: 24881898--24881925 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24881888 CAAATAGAGG
24881898 ATTTGATTAAAGA
1 ATTTGATTAAAGA
24881911 ATTTGATTAAAGA
1 ATTTGATTAAAGA
24881924 AT
1 AT
24881926 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTTGATTAAAGA
Found at i:24882591 original size:12 final size:13
Alignment explanation
Indices: 24882552--24882592 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
24882542 ATTAATTTTA
*
24882552 TAATATTTAATAT
1 TAATATTTAATCT
24882565 TAA-ATTTAATC-
1 TAATATTTAATCT
24882576 TAATATTT-ATCT
1 TAATATTTAATCT
24882588 TAATA
1 TAATA
24882593 AGTATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.24
12 16 0.64
13 3 0.12
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATATTTAATCT
Found at i:24885338 original size:38 final size:38
Alignment explanation
Indices: 24885221--24885323 Score: 179
Period size: 38 Copynumber: 2.7 Consensus size: 38
24885211 TTACCGCCCT
* *
24885221 ATTGAGTACATGTTAAGCATGTTTACTATTAGTGATCA
1 ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
*
24885259 ATTGAGTACATGTTAAACATGTCTACTATTAGTGATGA
1 ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
24885297 ATTGAGTACATGTTAAGCATGTCTACT
1 ATTGAGTACATGTTAAGCATGTCTACT
24885324 GCTAATATTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (38 bp):
ATTGAGTACATGTTAAGCATGTCTACTATTAGTGATGA
Found at i:24885497 original size:43 final size:41
Alignment explanation
Indices: 24885399--24885622 Score: 187
Period size: 41 Copynumber: 5.4 Consensus size: 41
24885389 ACGGAGGAAG
* * * * * **
24885399 AGTGGCAGTTTATATGCAAATTTGATGAGCATTCACAACCC
1 AGTGGCAGTTTATCTGTAAATATGTTGTGCACCCACAACCC
** *
24885440 AGTGATAGTTTATCTGTAAATATGTTGTGCACCCACAACCT
1 AGTGGCAGTTTATCTGTAAATATGTTGTGCACCCACAACCC
* * * * *
24885481 ACTGGCAGCTTTTATCTATAAATATTTTGTGTATCCACAACCC
1 AGTGGCAG--TTTATCTGTAAATATGTTGTGCACCCACAACCC
* * * * * * * *
24885524 AGTGGCAGTTTATCTGTGAATTTGCTATACATCTACAGCCC
1 AGTGGCAGTTTATCTGTAAATATGTTGTGCACCCACAACCC
* *
24885565 AATGGCAGTTTTTATCTGCAAATATGTTGTGCACCCACAACCC
1 AGTGGCAG--TTTATCTGTAAATATGTTGTGCACCCACAACCC
24885608 AGTGGCAGTTTATCT
1 AGTGGCAGTTTATCT
24885623 ACAACCTAGT
Statistics
Matches: 139, Mismatches: 40, Indels: 8
0.74 0.21 0.04
Matches are distributed among these distances:
41 73 0.53
43 66 0.47
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (41 bp):
AGTGGCAGTTTATCTGTAAATATGTTGTGCACCCACAACCC
Found at i:24891547 original size:51 final size:51
Alignment explanation
Indices: 24891492--24891592 Score: 132
Period size: 51 Copynumber: 2.0 Consensus size: 51
24891482 TATTTCTTTG
* * * *
24891492 AATTTTTTAGAATTATGATCAACTTGAGATAATATGTAAATA-TTGAGGGTC
1 AATTTTTTAAAATTAAGATCAAATTGAGATAATATATAAA-AGTTGAGGGTC
* *
24891543 AATTTTTTAAAATTAAGATTAAATTGATATAATATATAAAAGTTGAGGGT
1 AATTTTTTAAAATTAAGATCAAATTGAGATAATATATAAAAGTTGAGGGT
24891593 TAAATTTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 42 0.98
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.40
Consensus pattern (51 bp):
AATTTTTTAAAATTAAGATCAAATTGAGATAATATATAAAAGTTGAGGGTC
Found at i:24892600 original size:31 final size:31
Alignment explanation
Indices: 24892565--24892663 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 31
24892555 TTAATATACC
*
24892565 ATTTGGTACTTAAGTTTAGTTTCTATGTTCA
1 ATTTGGTACTTGAGTTTAGTTTCTATGTTCA
*
24892596 ATTTGGTACTTGAGTGTTTGTTT-T-T-TTCA
1 ATTTGGTACTTGAGT-TTAGTTTCTATGTTCA
* * * * *
24892625 ATTTGGAACTTGAGTTTGGCTTCAATGTACA
1 ATTTGGTACTTGAGTTTAGTTTCTATGTTCA
24892656 ATTTGGTA
1 ATTTGGTA
24892664 TCCATTCCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
28 5 0.09
29 18 0.32
30 2 0.04
31 25 0.45
32 6 0.11
ACGTcount: A:0.21, C:0.09, G:0.20, T:0.49
Consensus pattern (31 bp):
ATTTGGTACTTGAGTTTAGTTTCTATGTTCA
Found at i:24896207 original size:17 final size:16
Alignment explanation
Indices: 24896168--24896207 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
24896158 GTAACATCTT
24896168 TAATTTTTTAGATATA
1 TAATTTTTTAGATATA
*
24896184 TATATTTTTTAGAATTTA
1 TA-ATTTTTTAG-ATATA
24896202 TAATTT
1 TAATTT
24896208 CTTTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (16 bp):
TAATTTTTTAGATATA
Found at i:24896801 original size:31 final size:31
Alignment explanation
Indices: 24896733--24896793 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
24896723 ATTTAACGAA
*
24896733 GAGTGATCAAAATAGAAATGATATAAAACGG
1 GAGTGACCAAAATAGAAATGATATAAAACGG
*
24896764 GAGTGACCAAAATAGAAATGATCTAAAACG
1 GAGTGACCAAAATAGAAATGATATAAAACG
24896794 TTAGTGACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.51, C:0.10, G:0.21, T:0.18
Consensus pattern (31 bp):
GAGTGACCAAAATAGAAATGATATAAAACGG
Found at i:24903460 original size:25 final size:25
Alignment explanation
Indices: 24903426--24903473 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
24903416 ATCTTGTGTG
24903426 TAATTTGGAGACCATAACCCTAATA
1 TAATTTGGAGACCATAACCCTAATA
24903451 TAATTTGGAGACCATAACCCTAA
1 TAATTTGGAGACCATAACCCTAA
24903474 ACATGTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (25 bp):
TAATTTGGAGACCATAACCCTAATA
Found at i:24905848 original size:3 final size:3
Alignment explanation
Indices: 24905822--24905875 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
24905812 TTTAGCAATT
*
24905822 TTA TTA TTTA GTTAA TTA TT- TTA TTA TTA TTA CTA TTA TTA TTAA TTA
1 TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
24905870 TTA TTA
1 TTA TTA
24905876 GTTCTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.70
4 10 0.23
5 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:24905872 original size:22 final size:20
Alignment explanation
Indices: 24905819--24905875 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
24905809 GTTTTTAGCA
24905819 ATTTTATTATTTAGTTA--ATT
1 ATTTTATTA-TTA-TTACTATT
24905839 ATTTTATTATTATTACTATT
1 ATTTTATTATTATTACTATT
24905859 ATTATTAATTATTATTA
1 ATT-TT-ATTATTATTA
24905876 GTTCTATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.09
19 3 0.09
20 15 0.45
21 2 0.06
22 10 0.30
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTATTATTATTACTATT
Found at i:24905883 original size:22 final size:22
Alignment explanation
Indices: 24905822--24905883 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
24905812 TTTAGCAATT
* *
24905822 TTATTATTTAGTTAATTATTTTA
1 TTATTA-TTAGTTTATTATTTAA
*
24905845 TTATTATTACTATTATTA-TTAA
1 TTATTATTAGT-TTATTATTTAA
24905867 TTATTATTAGTTCTATT
1 TTATTATTAGTT-TATT
24905884 TTTCTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 21 0.64
23 11 0.33
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (22 bp):
TTATTATTAGTTTATTATTTAA
Found at i:24914677 original size:2 final size:2
Alignment explanation
Indices: 24914670--24914694 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24914660 TGTCTGTCAG
24914670 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
24914695 TCTGCCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:24918335 original size:29 final size:27
Alignment explanation
Indices: 24918303--24918362 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
24918293 TTTAATTAAT
*
24918303 TTTTAAAAATTTTAAAATATTAAAATATA
1 TTTTAAAAATTTT--AATATTAAAAAATA
* * *
24918332 TTTTTATAATTTTAATTTTAAAAAATA
1 TTTTAAAAATTTTAATATTAAAAAATA
24918359 TTTT
1 TTTT
24918363 TATATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 16 0.59
29 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTTAAAAATTTTAATATTAAAAAATA
Found at i:24918381 original size:29 final size:28
Alignment explanation
Indices: 24918301--24918381 Score: 60
Period size: 29 Copynumber: 2.8 Consensus size: 28
24918291 TATTTAATTA
*
24918301 ATTTTTAAAAATTTTAAAATATT--AAAAT
1 ATTTTT-ATAATTTTAAAA-ATTAAAAAAT
**
24918329 ATATTTTTATAATTTT-AATTTTAAAAAAT
1 AT-TTTT-ATAATTTTAAAAATTAAAAAAT
*
24918358 ATTTTTATATTTTTTAAAAATTAA
1 ATTTTTATA-ATTTTAAAAATTAA
24918382 TTAAATGCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
27 5 0.12
28 12 0.29
29 24 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATTTTTATAATTTTAAAAATTAAAAAAT
Found at i:24923753 original size:7 final size:6
Alignment explanation
Indices: 24923737--24923798 Score: 56
Period size: 6 Copynumber: 10.5 Consensus size: 6
24923727 AATCGTTGTT
* * * *
24923737 TTTTTA TTTTTA TTTTTA TTTTTTA GTTGTA CTTTTA TTTTGA TTTTTA
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
24923786 --GTTA TTTTTA TTT
1 TTTTTA TTTTTA TTT
24923799 CATTTTTTGG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
4 3 0.07
6 35 0.80
7 6 0.14
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:24923760 original size:19 final size:19
Alignment explanation
Indices: 24923736--24923777 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
24923726 TAATCGTTGT
* * *
24923736 TTTTTTATTTTTATTTTTA
1 TTTTTTAGTTGTACTTTTA
24923755 TTTTTTAGTTGTACTTTTA
1 TTTTTTAGTTGTACTTTTA
24923774 TTTT
1 TTTT
24923778 GATTTTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (19 bp):
TTTTTTAGTTGTACTTTTA
Found at i:24923841 original size:18 final size:19
Alignment explanation
Indices: 24923820--24923862 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
24923810 CTTATATGTT
*
24923820 TTATTTTACTTTAT-TTTA
1 TTATTTTACTTTATGATTA
*
24923838 TTA-TGTACTTTATGATTA
1 TTATTTTACTTTATGATTA
24923856 TTATTTT
1 TTATTTT
24923863 TCGGCTGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.45
18 9 0.45
19 2 0.10
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTTACTTTATGATTA
Found at i:24927365 original size:13 final size:13
Alignment explanation
Indices: 24927349--24927373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24927339 AAAATGAAAA
24927349 TAAAATTAAATAG
1 TAAAATTAAATAG
24927362 TAAAATTAAATA
1 TAAAATTAAATA
24927374 ATAATAATAG
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
TAAAATTAAATAG
Found at i:24932549 original size:22 final size:22
Alignment explanation
Indices: 24932523--24932566 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24932513 TGCAGTAACC
24932523 TTACAATACTTCATACACACAT
1 TTACAATACTTCATACACACAT
24932545 TTACAATACTTCATACACACAT
1 TTACAATACTTCATACACACAT
24932567 ACACTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (22 bp):
TTACAATACTTCATACACACAT
Found at i:24932989 original size:18 final size:17
Alignment explanation
Indices: 24932933--24932992 Score: 54
Period size: 18 Copynumber: 3.6 Consensus size: 17
24932923 ATATAAGTCT
24932933 GAAAAAT-AAAAT--AA
1 GAAAAATAAAAATAAAA
*
24932947 GAATAATAAAAATAAAA
1 GAAAAATAAAAATAAAA
* *
24932964 GTACAAATAAAAATAACGA
1 G-AAAAATAAAAATAA-AA
24932983 GAAAAATAAA
1 GAAAAATAAA
24932993 TAAAACATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 6 0.17
15 5 0.14
17 3 0.08
18 20 0.56
19 2 0.06
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.15
Consensus pattern (17 bp):
GAAAAATAAAAATAAAA
Found at i:24934670 original size:24 final size:24
Alignment explanation
Indices: 24934643--24934692 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
24934633 GACTAATAAT
* *
24934643 AATACTAATAAT-AACAGTAAACAG
1 AATAATAATAATGAACAATAAA-AG
*
24934667 AATAATAATGATGAACAATAAAAG
1 AATAATAATAATGAACAATAAAAG
24934691 AA
1 AA
24934693 ATAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.20
Consensus pattern (24 bp):
AATAATAATAATGAACAATAAAAG
Found at i:24934717 original size:6 final size:6
Alignment explanation
Indices: 24934708--24934738 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
24934698 ATTAAATAAC
24934708 ATAAAA ATAAAA ATAAAA AT-AAA ATAAAA AT
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT
24934739 TGATGCTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:24934725 original size:12 final size:11
Alignment explanation
Indices: 24934691--24934738 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
24934681 ACAATAAAAG
*
24934691 AAATAAAAT-T
1 AAATAAAATAA
*
24934701 AAATAACATAA
1 AAATAAAATAA
24934712 AAATAAAAATAA
1 AAAT-AAAATAA
24934724 AAATAAAATAA
1 AAATAAAATAA
24934735 AAAT
1 AAAT
24934739 TGATGCTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 8 0.24
11 15 0.45
12 10 0.30
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:24938325 original size:13 final size:14
Alignment explanation
Indices: 24938293--24938324 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24938283 TCGCACAAAA
24938293 TAAAAATTAGAATG
1 TAAAAATTAGAATG
24938307 TAAAAATTA-AAT-
1 TAAAAATTAGAATG
24938319 TAAAAA
1 TAAAAA
24938325 AATATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 3 0.17
14 9 0.50
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
TAAAAATTAGAATG
Found at i:24940225 original size:12 final size:12
Alignment explanation
Indices: 24940208--24940232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24940198 CTAAGACATC
24940208 ATCAATCAACCA
1 ATCAATCAACCA
24940220 ATCAATCAACCA
1 ATCAATCAACCA
24940232 A
1 A
24940233 ATATCTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
ATCAATCAACCA
Found at i:24943272 original size:4 final size:4
Alignment explanation
Indices: 24943263--24943297 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
24943253 ATTTTCCATT
24943263 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
24943298 ATCTCAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:24947514 original size:19 final size:19
Alignment explanation
Indices: 24947490--24947549 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
24947480 CAGTGGCCAG
*
24947490 AATTTTTTTTCAAAATCAA
1 AATTTTTTTTAAAAATCAA
* *
24947509 AATTTTCTTCTAAAAAATCAT
1 AATTTT-TT-TTAAAAATCAA
*
24947530 TATTTTTTTTAAAAATCAA
1 AATTTTTTTTAAAAATCAA
24947549 A
1 A
24947550 GCTGTATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 15 0.47
20 4 0.12
21 13 0.41
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTTTTTTAAAAATCAA
Found at i:24947798 original size:158 final size:154
Alignment explanation
Indices: 24947511--24947980 Score: 608
Period size: 158 Copynumber: 3.0 Consensus size: 154
24947501 AAAATCAAAA
* * * * * * *
24947511 TTTTCTTCTAAAAAATCATTATTTTTTTTAAAAATCAAAGC-TGTATTTTGAAATATTTGAAAAA
1 TTTTCTTTTAAAAAATCACTA-CTTTTCTAAAAATCAAAGCTTTTATTTCGAAATAGTTGAAAAA
* *
24947575 GATCAAAATTTTATTTTAAAAATTTAAAGCTTTCCTTTAAAATGACTAAAAAAAACATATTTTTA
65 AATCAAAA-TTTATTTTAAAAATTTAAA-CTTTCCTTTAAAATGACT-AAAAAAACAAATTTTTA
24947640 TTTTTAAAAATCTAAACTTTCTCTCTTT
127 TTTTTAAAAATCTAAACTTTCTCTCTTT
* * *
24947668 TTTTCTTTTAAAAAAGCACTACTTTTCATAAAGATCAAAGCTTTTATTTCGAAATAGTTAAAAAA
1 TTTTCTTTTAAAAAATCACTACTTTTC-TAAAAATCAAAGCTTTTATTTCGAAATAGTT-GAAAA
* *
24947733 AAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGAATAAAAGAAACAAATTTTTA
64 AAATCAAAA-TTTATTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAA-AAACAAATTTTTA
24947798 TTTTTAAAAATCTAAACTTTCTCTTCTTTT
127 TTTTTAAAAATCTAAACTTTCTC-TC-TTT
* * * *
24947828 TTTTCTTTGAAAAAATCACTACTTTTCTGAAATATCAAAGCTTTTATTTCGAAAGAGGTGAAAAA
1 TTTTCTTTTAAAAAATCACTACTTTTCT-AAAAATCAAAGCTTTTATTTCGAAATAGTTGAAAAA
* * *
24947893 AATC--AATTTTTTTTAAAAAAATTAAACTTTCTTTTAAAATGACT-AAAAAACAAATTTTTATT
65 AATCAAAATTTATTTT-AAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAACAAATTTTTATT
24947955 TTTAAAAATCTAAACTTTCTCT-TTT
129 TTTAAAAATCTAAACTTTCTCTCTTT
24947980 T
1 T
24947981 AAAAAAAGTC
Statistics
Matches: 280, Mismatches: 25, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
152 4 0.01
154 1 0.00
155 36 0.13
156 14 0.05
157 62 0.22
158 66 0.24
159 42 0.15
160 55 0.20
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (154 bp):
TTTTCTTTTAAAAAATCACTACTTTTCTAAAAATCAAAGCTTTTATTTCGAAATAGTTGAAAAAA
ATCAAAATTTATTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAAACAAATTTTTATTTT
TAAAAATCTAAACTTTCTCTCTTT
Found at i:24948578 original size:13 final size:13
Alignment explanation
Indices: 24948560--24948625 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
24948550 AGTTTAGCAT
*
24948560 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
24948573 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
24948586 TG-TTATGGAAAAG
1 TGCTT-TTGAAAAG
* *
24948599 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
24948612 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
24948625 T
1 T
24948626 TTGGTTTAAG
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24949596 original size:28 final size:28
Alignment explanation
Indices: 24949561--24949616 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
24949551 TCTTTTAAGG
24949561 GTTGTAATGTGGTCTAAGGGTTAAGGGT
1 GTTGTAATGTGGTCTAAGGGTTAAGGGT
24949589 GTTGTAATGTGGTCTAAGGGTTAAGGGT
1 GTTGTAATGTGGTCTAAGGGTTAAGGGT
24949617 CAATCAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.04, G:0.39, T:0.36
Consensus pattern (28 bp):
GTTGTAATGTGGTCTAAGGGTTAAGGGT
Found at i:24957758 original size:27 final size:26
Alignment explanation
Indices: 24957728--24957779 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
24957718 TTGTTAAAAC
24957728 TCTTCATAAAG-AAAACTCAAGAGAAAT
1 TCTTCA-AAAGAAAAACTCAA-AGAAAT
* *
24957755 TCTTGAAGAGAAAAACTCAAAGAAA
1 TCTTCAAAAGAAAAACTCAAAGAAA
24957780 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
TCTTCAAAAGAAAAACTCAAAGAAAT
Found at i:24963747 original size:11 final size:11
Alignment explanation
Indices: 24963727--24963770 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
24963717 AGATAAATGT
*
24963727 TATTTAATTAA
1 TATTTTATTAA
24963738 TATTTTATTAA
1 TATTTTATTAA
* *
24963749 GATTTTTAGTAA
1 TA-TTTTATTAA
24963761 TATTTTATTA
1 TATTTTATTA
24963771 TTAAATGATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:24965233 original size:18 final size:18
Alignment explanation
Indices: 24965194--24965234 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
24965184 TGACTTTGAT
*
24965194 ATTGAAAGTAAATTGTAC
1 ATTGAAAGTAAATTGTAA
24965212 ATTGAAAGTGAAATT-TAA
1 ATTGAAAGT-AAATTGTAA
24965230 ATTGA
1 ATTGA
24965235 GAAAGTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (18 bp):
ATTGAAAGTAAATTGTAA
Found at i:24969461 original size:50 final size:50
Alignment explanation
Indices: 24969395--24969635 Score: 200
Period size: 50 Copynumber: 4.8 Consensus size: 50
24969385 TGAAAGTGAT
* *
24969395 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCTGAATGAAA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAA
* * * * **
24969445 GGTCGCATGTGTAGTACTATGTACAGGCTACTA-TTCGTACCAGATAGCTTCAA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGT-GTACCAGA-A--TGAAA
* * * * ****
24969498 --TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCAAATATTTTT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAAA
* * * ***
24969547 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAAGTTT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAA
* *
24969597 GATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA
24969636 TTGAATGATA
Statistics
Matches: 155, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 3 0.02
50 76 0.49
51 72 0.46
52 1 0.01
53 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAA
Found at i:24969516 original size:51 final size:50
Alignment explanation
Indices: 24969452--24969629 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 50
24969442 AAAGGTCGCA
**
24969452 TGTGTAGTACTATGTACAGGCTACTATTCGTACCAGATAGCTTCAATCACG
1 TGTGTAGTACTATGTACAGGCTACTATTCGTACCAGATAG-TTTGATCACG
** * * * *
24969503 TGTGTAGTACTATGTGTAGGCTACTATGT-GTATCAAATATTTTTGGTCACG
1 TGTGTAGTACTATGTACAGGCTACTAT-TCGTACCAGATA-GTTTGATCACG
* * *
24969554 TGTGTAGTACTATGTGCAGGCTACTA--CGTGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTACAGGCTACTATTCGT--ACCAGATAGTTTGATCACG
24969604 TGTGTAGTACTATGTGA-AGGCTACTA
1 TGTGTAGTACTATGT-ACAGGCTACTA
24969630 CGTGTATTGA
Statistics
Matches: 105, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
49 2 0.02
50 33 0.31
51 69 0.66
52 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (50 bp):
TGTGTAGTACTATGTACAGGCTACTATTCGTACCAGATAGTTTGATCACG
Done.