Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 53 of 228
Found at i:15988220 original size:13 final size:13
Alignment explanation
Indices: 15988202--15988272 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
15988192 ATTTATAATT
15988202 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
15988215 ATTTAAGTAACAT
1 ATTTAAGTAATAA
15988228 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
15988241 ATTTAAGTAACAT
1 ATTTAAGTAATAA
15988254 ATTTAAGTAATAA
1 ATTTAAGTAATAA
15988267 ATTTAA
1 ATTTAA
15988273 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:15988231 original size:26 final size:26
Alignment explanation
Indices: 15988201--15988272 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
15988191 TATTTATAAT
15988201 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
15988227 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
15988253 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
15988273 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:15988303 original size:40 final size:40
Alignment explanation
Indices: 15988244--15988387 Score: 216
Period size: 40 Copynumber: 3.5 Consensus size: 40
15988234 GTAATAAATT
** *
15988244 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
15988284 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
15988324 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTT---T-AGTAATAAATTTAAACAAATTTTAG
15988368 TAAGTAATGTATTTTAGTAA
1 TAAGTAATGTATTTTAGTAA
15988388 GTAATGTATT
Statistics
Matches: 95, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
40 55 0.58
41 1 0.01
43 1 0.01
44 38 0.40
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.41
Consensus pattern (40 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:15988383 original size:17 final size:17
Alignment explanation
Indices: 15988361--15988558 Score: 132
Period size: 17 Copynumber: 10.6 Consensus size: 17
15988351 ATTTAAACAA
15988361 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
15988378 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
15988395 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
15988412 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
15988435 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
15988452 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
15988475 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
15988492 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
15988509 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
15988532 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
15988549 ATTTTAGTAA
1 ATTTTAGTAA
15988559 TAAATTTAAC
Statistics
Matches: 147, Mismatches: 10, Indels: 48
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.03
17 93 0.63
18 5 0.03
22 5 0.03
23 34 0.23
24 5 0.03
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:15988387 original size:57 final size:57
Alignment explanation
Indices: 15988317--15988441 Score: 178
Period size: 57 Copynumber: 2.1 Consensus size: 57
15988307 ATTTAAACAA
*
15988317 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATG----TAAGTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
** *
15988378 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTAAGTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
15988435 ATTTTAG
1 ATTTTAG
15988442 AAATAAATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 44 0.73
61 16 0.27
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTAAGTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:15988425 original size:40 final size:40
Alignment explanation
Indices: 15988378--15988484 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
15988368 TAAGTAATGT
15988378 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
15988418 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
15988458 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
15988485 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:15988471 original size:97 final size:99
Alignment explanation
Indices: 15988277--15988538 Score: 458
Period size: 97 Copynumber: 2.6 Consensus size: 99
15988267 ATTTAAACAA
*
15988277 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTAAGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG-
15988342 AATTAATAAATTTAAACAAATTTTAGTAAGTAATGT
65 AA-TAATAAATTTAAACAAATTTTAGTAAGTAATGT
15988378 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG-
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGA
15988442 A-AATAAATTTAAACAAA-TTTATGTAAGTAATGT
66 ATAATAAATTTAAACAAATTTTA-GTAAGTAATGT
*
15988475 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
15988539 TAAGTAATGT
Statistics
Matches: 158, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
96 4 0.03
97 90 0.57
99 1 0.01
101 63 0.40
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.44
Consensus pattern (99 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGA
ATAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:15988479 original size:57 final size:57
Alignment explanation
Indices: 15988418--15988567 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
15988408 ATTTAAACAA
*
15988418 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA-GTAAGTAATGT
*
15988475 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
15988532 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAA
15988568 CATTCAATCG
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 86 0.96
58 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:15989916 original size:11 final size:11
Alignment explanation
Indices: 15989900--15989939 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
15989890 GATGATAATA
15989900 CATTAGTTACC
1 CATTAGTTACC
15989911 CATTAGTTACC
1 CATTAGTTACC
*
15989922 CACTAGTTACC
1 CATTAGTTACC
15989933 CA-TAGTT
1 CATTAGTT
15989940 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:15991244 original size:84 final size:83
Alignment explanation
Indices: 15991137--15991337 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 83
15991127 ATTAACACCG
15991137 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTT-G-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
15991202 TCGTGGTCTGGAATTGCATT
64 TCGTGGTCTGGAATTGCATT
*
15991222 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTT-GAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
15991287 CGTGGTCTGGAATTGCATT
65 CGTGGTCTGGAATTGCATT
* * *
15991306 ATTTGTGGCATTTTCTTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TGAAAAACGCCACTAAA
15991338 AGTTTAACTA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
84 93 0.85
85 17 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (83 bp):
TTTTGTGGCGTTTTTGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTTC
GTGGTCTGGAATTGCATT
Found at i:15991738 original size:12 final size:12
Alignment explanation
Indices: 15991721--15991746 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15991711 TTAAAATAGC
15991721 ACGACCTCTTTT
1 ACGACCTCTTTT
15991733 ACGACCTCTTTT
1 ACGACCTCTTTT
15991745 AC
1 AC
15991747 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:15992600 original size:111 final size:112
Alignment explanation
Indices: 15992358--15992615 Score: 410
Period size: 111 Copynumber: 2.3 Consensus size: 112
15992348 AACACCTAGA
* *
15992358 TTAGCGGCGCTTTACAAAAAACGCCACTAATGCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAA-GTCCCCCCAAAGGACACAAAACGGCACCGTCTGG
* * * ** *
15992423 GAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
65 GAGTATTATTTGCGGCAGTTATTTATAAACGCCACTAATGCTCACTCT
*
15992471 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
*
15992536 TGTATTATTTGCGGC-GTTATTTATAAACGCCACTAATGCTCACTCT
66 AGTATTATTTGCGGCAGTTATTTATAAACGCCACTAATGCTCACTCT
15992582 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
15992616 AGCGGCGCTT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
111 59 0.44
112 47 0.35
113 29 0.21
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
AGTATTATTTGCGGCAGTTATTTATAAACGCCACTAATGCTCACTCT
Found at i:15992625 original size:32 final size:32
Alignment explanation
Indices: 15992584--15992647 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
15992574 CTCACTCTTT
15992584 AGCGGCGCTTTACAATAAACGCCACTAAGTCC
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCC
15992616 AGCGGCGCTTTACAATAAACGCCACTAAGTCC
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCC
15992648 CCCCCAAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (32 bp):
AGCGGCGCTTTACAATAAACGCCACTAAGTCC
Found at i:15992732 original size:144 final size:143
Alignment explanation
Indices: 15992473--15992759 Score: 547
Period size: 144 Copynumber: 2.0 Consensus size: 143
15992463 TTCACTCTTT
15992473 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTG
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTG
*
15992538 TATTATTTGCGGCGTTATTTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAA
66 TATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAA
15992603 CGCCACTAAGTCC
131 CGCCACTAAGTCC
15992616 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
1 AGCGGCGCTTTACAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
*
15992681 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTGCAATAA
65 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAA
15992746 ACGCCACTAAGTCC
130 ACGCCACTAAGTCC
15992760 CCCCAAAGGC
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
143 30 0.21
144 111 0.79
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (143 bp):
AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTG
TATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAA
CGCCACTAAGTCC
Found at i:15992792 original size:111 final size:112
Alignment explanation
Indices: 15992616--15993072 Score: 864
Period size: 111 Copynumber: 4.1 Consensus size: 112
15992606 CACTAAGTCC
15992616 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
15992681 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
66 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
*
15992728 AGCGGCGCTTTGCAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
* *
15992792 GTATTATTTGCGGCGTTATTTATAAACGCCGCTAATGCTCACTCTTT
66 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
*
15992839 AGCGGCGCTTTACAATAAATGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
15992903 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
66 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
15992950 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
1 AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
15993015 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
66 GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
15993062 AGCGGCGCTTT
1 AGCGGCGCTTT
15993073 TCCTTAAACT
Statistics
Matches: 336, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
111 215 0.64
112 121 0.36
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (112 bp):
AGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGT
GTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCTTT
Found at i:15992812 original size:255 final size:256
Alignment explanation
Indices: 15992360--15992870 Score: 882
Period size: 255 Copynumber: 2.0 Consensus size: 256
15992350 CACCTAGATT
15992360 AGCGGCGCTTTACAAAAAACGCCACTAATGCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGA
1 AGCGGCGCTTTACAAAAAACGCCACTAATGCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGA
* * * * ** *
15992425 GTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCTTTAGCGGCGCTTTACAATA
66 GTATTATTTGCGGCAGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATA
15992490 AACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTA
131 AACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTA
15992555 TTTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
196 TTTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
* *
15992616 AGCGGCGCTTTACAATAAACGCCACTAA-GTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGGG
1 AGCGGCGCTTTACAAAAAACGCCACTAATG-CCCCCCCAAAGGACACAAAACGGCACCGTCTGGG
* *
15992680 TGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTGCAAT
65 AGTATTATTTGCGGCAGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAAT
15992744 AAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTT
130 AAACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTT
* *
15992809 ATTTATAAACGCCGCTAATGCTCACTCTTTAGCGGCGCTTTACAATAAATGCCACTAAGTCC
195 ATTTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
15992871 CCCCAAAGGC
Statistics
Matches: 241, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
255 167 0.69
256 74 0.31
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (256 bp):
AGCGGCGCTTTACAAAAAACGCCACTAATGCCCCCCCAAAGGACACAAAACGGCACCGTCTGGGA
GTATTATTTGCGGCAGTTATCTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATA
AACGCCACTAAGTCCCCCCAAAGGCCACAAAACGGCACCGTCTGGGTGTATTATTTGCGGCGTTA
TTTATAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTACAATAAACGCCACTAAGTCC
Found at i:15993087 original size:40 final size:40
Alignment explanation
Indices: 15993037--15993153 Score: 189
Period size: 40 Copynumber: 2.9 Consensus size: 40
15993027 GCGTTATCTA
**
15993037 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
*
15993077 TAAACTCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* *
15993117 TAAACGCCGCTATTGCTCACTCTTTAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
15993154 GCTCCAAACG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.34
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:15997696 original size:39 final size:40
Alignment explanation
Indices: 15997651--15997822 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
15997641 GCTCCTCGTT
* * *
15997651 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
15997691 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
15997730 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
15997770 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
15997810 CAAATGCCTTCGG
1 CAAATGCCTTCGG
15997823 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:15997751 original size:40 final size:39
Alignment explanation
Indices: 15997653--15997875 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
15997643 TCCTCGTTCA
* * * *
15997653 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
15997692 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
15997731 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
15997771 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
15997811 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
15997852 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
15997876 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:15997835 original size:80 final size:79
Alignment explanation
Indices: 15997651--15997875 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
15997641 GCTCCTCGTT
* * * * *
15997651 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
15997715 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
15997730 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
15997795 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
15997810 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
15997874 GA
63 GA
15997876 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:15997884 original size:41 final size:41
Alignment explanation
Indices: 15997807--15997884 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15997797 TTTGTATCTC
* * *
15997807 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15997848 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15997885 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16005584 original size:39 final size:40
Alignment explanation
Indices: 16005539--16005710 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
16005529 GCTCCTCGTT
* * *
16005539 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
16005579 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
16005618 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
16005658 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
16005698 CAAATGCCTTCGG
1 CAAATGCCTTCGG
16005711 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:16005639 original size:40 final size:39
Alignment explanation
Indices: 16005541--16005763 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
16005531 TCCTCGTTCA
* * * *
16005541 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
16005580 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
16005619 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
16005659 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
16005699 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
16005740 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
16005764 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:16005723 original size:80 final size:79
Alignment explanation
Indices: 16005539--16005763 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
16005529 GCTCCTCGTT
* * * * *
16005539 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
16005603 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
16005618 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
16005683 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
16005698 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
16005762 GA
63 GA
16005764 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:16005772 original size:41 final size:41
Alignment explanation
Indices: 16005695--16005772 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16005685 TTTGTATCTC
* * *
16005695 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16005736 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16005773 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16009881 original size:20 final size:20
Alignment explanation
Indices: 16009845--16009883 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16009835 TTTAAATACT
*
16009845 ATTTGCATCTAATCAAATTG
1 ATTTGCATCTAAACAAATTG
16009865 ATTTG-ATCTAACACAAATT
1 ATTTGCATCTAA-ACAAATT
16009884 TTGACTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTTGCATCTAAACAAATTG
Found at i:16019947 original size:22 final size:21
Alignment explanation
Indices: 16019922--16019964 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
16019912 AAATATGATT
*
16019922 TATTTTATTTTAACCACTTTTA
1 TATTTTAATTTAACCA-TTTTA
16019944 TATTTTAATTTAACCATTTTA
1 TATTTTAATTTAACCATTTTA
16019965 ATTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTAATTTAACCATTTTA
Found at i:16020425 original size:17 final size:18
Alignment explanation
Indices: 16020392--16020432 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16020382 TGTTATTTAT
16020392 GGGTTTTTAGGGTTGTTA
1 GGGTTTTTAGGGTTGTTA
*
16020410 GGGTTTTTAGTG-TGTTA
1 GGGTTTTTAGGGTTGTTA
*
16020427 AGGTTT
1 GGGTTT
16020433 ATGGTTAACG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (18 bp):
GGGTTTTTAGGGTTGTTA
Found at i:16020512 original size:32 final size:32
Alignment explanation
Indices: 16020471--16020553 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
16020461 GGGTTTCCCA
*
16020471 TTGTTATCATTTCACAAAATTG-AAGTTG-TAAT
1 TTGTTATCATTTCACAAAA-TGAAAGCTGAT-AT
16020503 TTGTTATCATTTCACAAAATGAAAGCTGATAT
1 TTGTTATCATTTCACAAAATGAAAGCTGATAT
*
16020535 TTGTTATCATTTCATAAAA
1 TTGTTATCATTTCACAAAA
16020554 CCACATGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
31 2 0.04
32 44 0.94
33 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATGAAAGCTGATAT
Found at i:16022878 original size:47 final size:47
Alignment explanation
Indices: 16022825--16022917 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
16022815 TGTAAAAAAT
* *
16022825 AATTAACAAGAAAAATTAATGTTTTTGCTTACTTTTTATACAAATAA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
16022872 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
1 AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATA
16022918 GTATCGTTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (47 bp):
AATTAACAAGAAAAATCAATGCTTTTGCTTACTTTTTATACAAATAA
Found at i:16025763 original size:39 final size:39
Alignment explanation
Indices: 16025705--16025792 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
16025695 TTCACACATT
* *
16025705 GAGCTTGCATATCGAGCTTGCACATTGGGCTCGTGTATC
1 GAGCTAGCATATCGAGCTTGCACATTGGGCTCGTATATC
16025744 GAGCTAGCATATC-ATGCTTGCACATTGGGCTCGTATATC
1 GAGCTAGCATATCGA-GCTTGCACATTGGGCTCGTATATC
*
16025783 GAGCTCGCAT
1 GAGCTAGCAT
16025793 GGCGTTAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 44 0.98
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (39 bp):
GAGCTAGCATATCGAGCTTGCACATTGGGCTCGTATATC
Found at i:16027146 original size:22 final size:22
Alignment explanation
Indices: 16027119--16027161 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
16027109 AATATATTTA
16027119 ATATTTATTTT-TTCATTTAAAT
1 ATATTTATTTTCTT-ATTTAAAT
16027141 ATATTTATTTTCTTATTTAAA
1 ATATTTATTTTCTTATTTAAA
16027162 AATTAGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTATTTTCTTATTTAAAT
Found at i:16035449 original size:40 final size:39
Alignment explanation
Indices: 16035389--16035529 Score: 128
Period size: 40 Copynumber: 3.6 Consensus size: 39
16035379 AACACACCAG
* * *
16035389 TTTGGCACCCAGTGCCTCATCAGATAATTCGAAGTAATAA
1 TTTGACACCCAATGCCTCATC-GATAATACGAAGTAATAA
* *
16035429 TTTGACACCCAATGTCTCATCGGCTAA-ACTGAAGT-A-AA
1 TTTGACACCCAATGCCTCATC-GATAATAC-GAAGTAATAA
* *
16035467 TTCG-CACCCAATGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAATGCCTCATCG-ATA-ATACGAAGTAATAA
* *
16035507 ATTGACACCCAATGTCTCATCGA
1 TTTGACACCCAATGCCTCATCGA
16035530 CTCGAAGCCA
Statistics
Matches: 81, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
36 1 0.01
37 17 0.21
38 11 0.14
39 4 0.05
40 32 0.40
41 16 0.20
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (39 bp):
TTTGACACCCAATGCCTCATCGATAATACGAAGTAATAA
Found at i:16035516 original size:41 final size:40
Alignment explanation
Indices: 16035394--16035529 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 40
16035384 ACCAGTTTGG
* * *
16035394 CACCCAGTGCCTCATC-AGATAATTCGAAGTAATAATTTGA
1 CACCCAATGCCTCATCGA-ATAATCCGAAGTAATAAATTGA
* ** * *
16035434 CACCCAATGTCTCATCGGCTAAACTGAAG---TAAATTCG-
1 CACCCAATGCCTCATCGAATAATCCGAAGTAATAAATT-GA
16035471 CACCCAATGCCTCATCGAATATATCCGAAGTAATAAATTGA
1 CACCCAATGCCTCATCGAATA-ATCCGAAGTAATAAATTGA
*
16035512 CACCCAATGTCTCATCGA
1 CACCCAATGCCTCATCGA
16035530 CTCGAAGCCA
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
37 23 0.31
38 7 0.09
40 22 0.29
41 23 0.31
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (40 bp):
CACCCAATGCCTCATCGAATAATCCGAAGTAATAAATTGA
Found at i:16036547 original size:28 final size:27
Alignment explanation
Indices: 16036494--16036548 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
16036484 TTTACTAATC
* *
16036494 TATTTCATTATATTTACCTTATTATTA
1 TATTACATTATATTTACCTTAATATTA
16036521 TATTACATATATATTTA-CTTAAATATTA
1 TATTACAT-TATATTTACCTT-AATATTA
16036549 AGTAATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTACATTATATTTACCTTAATATTA
Found at i:16042522 original size:40 final size:40
Alignment explanation
Indices: 16042463--16042594 Score: 144
Period size: 40 Copynumber: 3.4 Consensus size: 40
16042453 AACACACAAG
* *
16042463 TTTGGCACCCAGTGCCTCATCGGATAATTTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* * * *
16042503 TTTGACACCTAGTGTCTCATCGGCTAAACTGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
* *
16042541 TTCG-CACCCAGTGCCTCATCGAATATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCTGAAGTAATAA
* *
16042581 ATTGACACTCAGTG
1 TTTGACACCCAGTG
16042595 TCTTATCAAC
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 17 0.23
38 13 0.18
39 2 0.03
40 33 0.45
41 8 0.11
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCTGAAGTAATAA
Found at i:16043522 original size:9 final size:8
Alignment explanation
Indices: 16043507--16043571 Score: 51
Period size: 9 Copynumber: 7.5 Consensus size: 8
16043497 TTCTATTTTC
16043507 TTTATTTA
1 TTTATTTA
16043515 TTTCATTTA
1 TTT-ATTTA
*
16043524 CTTATTTA
1 TTTATTTA
16043532 TTTTATTATA
1 -TTTATT-TA
16043542 TTTACTTTA
1 TTTA-TTTA
16043551 -TTATTATA
1 TTTATT-TA
*
16043559 TTATATATA
1 TT-TATTTA
16043568 TTTA
1 TTTA
16043572 CTTAAATATT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
7 2 0.04
8 15 0.32
9 23 0.49
10 7 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTATTTA
Found at i:16043544 original size:22 final size:23
Alignment explanation
Indices: 16043507--16043575 Score: 72
Period size: 22 Copynumber: 3.0 Consensus size: 23
16043497 TTCTATTTTC
16043507 TTTA-TTTATT-TCATTTACTTA-
1 TTTATTTTATTAT-ATTTACTTAT
16043528 TTTATTTTATTATATTTACTTTAT
1 TTTATTTTATTATATTTAC-TTAT
*
16043552 TATTATATTATATATATTTACTTA
1 T-TTATTTTAT-TATATTTACTTA
16043576 AATATTAAGT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 4 0.10
22 12 0.29
23 4 0.10
24 1 0.02
25 11 0.27
26 9 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATTTTATTATATTTACTTAT
Found at i:16043545 original size:14 final size:14
Alignment explanation
Indices: 16043526--16043571 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
16043516 TTCATTTACT
16043526 TATTTATTTTATTA
1 TATTTATTTTATTA
*
16043540 TATTTACTTTATTA
1 TATTTATTTTATTA
* *
16043554 T-TATATTATA-TA
1 TATTTATTTTATTA
16043566 TATTTA
1 TATTTA
16043572 CTTAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTATTTTATTA
Found at i:16043554 original size:26 final size:26
Alignment explanation
Indices: 16043507--16043574 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
16043497 TTCTATTTTC
16043507 TTTATT-TATTT-CATTTACTTATTTAT
1 TTTATTATATTTAC-TTTACTTA-TTAT
16043533 TTTATTATATTTACTTTA-TTATTAT
1 TTTATTATATTTACTTTACTTATTAT
*
16043558 ATTATATATATTTACTT
1 TTTAT-TATATTTACTT
16043575 AAATATTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
25 8 0.21
26 20 0.53
27 9 0.24
28 1 0.03
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTATTATATTTACTTTACTTATTAT
Found at i:16043581 original size:26 final size:25
Alignment explanation
Indices: 16043529--16043582 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
16043519 ATTTACTTAT
* * *
16043529 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTACTTAAATA
16043554 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTTAAATA
16043580 TTA
1 TTA
16043583 AGTAATACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATATTATTATATTTACTTAAATA
Found at i:16043594 original size:26 final size:26
Alignment explanation
Indices: 16043539--16043596 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
16043529 TTATTTTATT
* * * *
16043539 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
16043565 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
16043591 ATATTT
1 ATATTT
16043597 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:16044202 original size:12 final size:13
Alignment explanation
Indices: 16044185--16044213 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16044175 ATTTTAATGG
16044185 AAAAAATTCAAAA
1 AAAAAATTCAAAA
16044198 AAAAAATTCAAAA
1 AAAAAATTCAAAA
16044211 AAA
1 AAA
16044214 TTATTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATTCAAAA
Found at i:16044576 original size:20 final size:20
Alignment explanation
Indices: 16044551--16044588 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16044541 TGAAAAATGA
16044551 TTTCTGGAAAATGATTTATT
1 TTTCTGGAAAATGATTTATT
16044571 TTTCTGGAAAATGATTTA
1 TTTCTGGAAAATGATTTA
16044589 CTGAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTATT
Found at i:16045988 original size:32 final size:32
Alignment explanation
Indices: 16045952--16046012 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
16045942 TGTCAATCAT
* *
16045952 TTTAATATCCAACAAGCTTAAATCATAATAAA
1 TTTAATATACAACAAGCTTAAAACATAATAAA
*
16045984 TTTAATATATAACAAGCTTAAAACATAAT
1 TTTAATATACAACAAGCTTAAAACATAAT
16046013 CAATATCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (32 bp):
TTTAATATACAACAAGCTTAAAACATAATAAA
Found at i:16048255 original size:3 final size:3
Alignment explanation
Indices: 16048247--16048279 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16048237 AACAAAAAGA
16048247 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16048280 AAATATTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:16049658 original size:14 final size:14
Alignment explanation
Indices: 16049641--16049669 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16049631 ACACCTCACC
16049641 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
16049655 ACCATTTCCTCTTA
1 ACCATTTCCTCTTA
16049669 A
1 A
16049670 GAGAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (14 bp):
ACCATTTCCTCTTA
Found at i:16050158 original size:22 final size:23
Alignment explanation
Indices: 16050122--16050179 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
16050112 ATCGGTGTAG
*
16050122 AGAGGAAGGGAGAACGAGAGTAT
1 AGAGGAAGGGAGAACGAAAGTAT
*
16050145 AGAGGAA-GGAGAACGAAAGTGT
1 AGAGGAAGGGAGAACGAAAGTAT
16050167 AGA-GAAGGGAGAA
1 AGAGGAAGGGAGAA
16050180 TGGGAAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 22 0.69
23 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.43, T:0.07
Consensus pattern (23 bp):
AGAGGAAGGGAGAACGAAAGTAT
Found at i:16050524 original size:10 final size:10
Alignment explanation
Indices: 16050511--16050542 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
16050501 AAAATCTATA
16050511 AAAATTATTT
1 AAAATTATTT
16050521 AAAATT-TTT
1 AAAATTATTT
16050530 AAAATTA-TT
1 AAAATTATTT
16050539 AAAA
1 AAAA
16050543 AAGTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 15 0.71
10 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATTATTT
Found at i:16051918 original size:22 final size:21
Alignment explanation
Indices: 16051886--16051927 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
16051876 ATATGAACAT
16051886 AAATAAATAAATATTTATATA
1 AAATAAATAAATATTTATATA
16051907 AAATAAAATAAATATTTATAT
1 AAAT-AAATAAATATTTATAT
16051928 TTAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATAAATAAATATTTATATA
Found at i:16054366 original size:23 final size:23
Alignment explanation
Indices: 16054335--16054379 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
16054325 TACAATCAAC
16054335 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
16054358 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
16054380 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:16055455 original size:24 final size:24
Alignment explanation
Indices: 16055423--16055473 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
16055413 TACTTGGGTA
*
16055423 ATTTGCCATCAATTCATCCTTTAC
1 ATTTGCCATCAATTCATCATTTAC
* *
16055447 ATTTTCCATTAATTCATCATTTAC
1 ATTTGCCATCAATTCATCATTTAC
16055471 ATT
1 ATT
16055474 CGTAGTGCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCATTTAC
Found at i:16055530 original size:33 final size:32
Alignment explanation
Indices: 16055479--16055639 Score: 106
Period size: 33 Copynumber: 4.8 Consensus size: 32
16055469 ACATTCGTAG
* *
16055479 TGCCATAACCCAGTTATGGTCTTATCATCAAAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
* * *
16055512 TGCCATAGCCCAACTATGGTTTTACATATAAACA
1 TGCCATAGCCCAGCTATGGTCTTACAT-CAAA-A
* * * * * * * * *
16055546 TTGTCATGGTCCAACCATAGTCTTACGTTCATAG
1 -TGCCATAGCCCAGCTATGGTCTTAC-ATCAAAA
* * * *
16055580 TGCCATAACCTAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTA-CATCAAAA
16055613 TGCCATAGCCCAGCTATGGTCTTACAT
1 TGCCATAGCCCAGCTATGGTCTTACAT
16055640 ATAAACACTG
Statistics
Matches: 93, Mismatches: 30, Indels: 11
0.69 0.22 0.08
Matches are distributed among these distances:
32 6 0.06
33 63 0.68
34 2 0.02
35 21 0.23
36 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (32 bp):
TGCCATAGCCCAGCTATGGTCTTACATCAAAA
Found at i:16055655 original size:101 final size:101
Alignment explanation
Indices: 16055467--16055712 Score: 386
Period size: 101 Copynumber: 2.4 Consensus size: 101
16055457 AATTCATCAT
* * *
16055467 TTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
* * *
16055532 TTTACATATAAACATTGTCATGGTCCAACCATAGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
* *
16055568 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
16055633 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATAGTC
*
16055669 TTACGTTCACAGTGCCATAA-CTCAGTTATGGTCTTATCCATCAA
1 TTACGTTCATAGTGCCATAACCT-AGTTATGGTCTTAT-CATCAA
16055713 TTCATCCTTT
Statistics
Matches: 133, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
100 2 0.02
101 126 0.95
102 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAAAATGCCATAGCCCAACTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATAGTC
Found at i:16057656 original size:30 final size:30
Alignment explanation
Indices: 16057599--16057667 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
16057589 TACTAAATAA
*
16057599 AATAATAATAAAATATCTCATTAAAAT-ATT
1 AATAA-AATAAAATATCTAATTAAAATAATT
16057629 AATAAAATAAAATTTATCTAATT-AAATAATT
1 AATAAAATAAAA--TATCTAATTAAAATAATT
16057660 -ATAAAATA
1 AATAAAATA
16057668 TCATCAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 17 0.49
31 11 0.31
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.36
Consensus pattern (30 bp):
AATAAAATAAAATATCTAATTAAAATAATT
Found at i:16058619 original size:16 final size:18
Alignment explanation
Indices: 16058588--16058625 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
16058578 ATACATATTC
16058588 TTTTTTCTTCACTAAGAT
1 TTTTTTCTTCACTAAGAT
*
16058606 TTTTTTC-TCA-TAAGGT
1 TTTTTTCTTCACTAAGAT
16058622 TTTT
1 TTTT
16058626 ATTTTAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 3 0.16
18 7 0.37
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (18 bp):
TTTTTTCTTCACTAAGAT
Found at i:16059569 original size:13 final size:12
Alignment explanation
Indices: 16059539--16059577 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
16059529 AAAATTGTTC
*
16059539 AATTTTTT-TTT
1 AATTTTTTAATT
16059550 AATTTTTTAATT
1 AATTTTTTAATT
16059562 AATGTTTTTAATT
1 AAT-TTTTTAATT
16059575 AAT
1 AAT
16059578 AAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.32
12 5 0.20
13 12 0.48
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (12 bp):
AATTTTTTAATT
Found at i:16059718 original size:19 final size:19
Alignment explanation
Indices: 16059694--16059734 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16059684 TATAAATAAA
*
16059694 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
16059713 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
16059732 ATA
1 ATA
16059735 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:16059924 original size:48 final size:48
Alignment explanation
Indices: 16059872--16060018 Score: 124
Period size: 48 Copynumber: 3.1 Consensus size: 48
16059862 TATCATTATA
*
16059872 TAATTACATATTTATTAATTTATTTATATAAATAAAGGAGTTATTAAT
1 TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
* * * * * * *
16059920 TAATT---TTTTTAACATAA-TGATATATATAAAATATATGATTTTATT-AT
1 TAATTACATATTT-A-TTAATTTATTTATAT-AAATAAAAGA-GTTATTAAT
* *
16059967 ATAATTACATATCTATTATTTTATTTATATAAATAAAAGAGTTATTAAT
1 -TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
16060016 TAA
1 TAA
16060019 AAAGATGAAT
Statistics
Matches: 73, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
45 4 0.05
46 9 0.12
47 13 0.18
48 23 0.32
49 12 0.16
50 9 0.12
51 3 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (48 bp):
TAATTACATATTTATTAATTTATTTATATAAATAAAAGAGTTATTAAT
Found at i:16060091 original size:13 final size:13
Alignment explanation
Indices: 16060059--16060092 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
16060049 ATTTATTAAT
16060059 TAAAAATAAAAAA
1 TAAAAATAAAAAA
16060072 -AAGAAATAAAAAA
1 TAA-AAATAAAAAA
16060085 TAAAAATA
1 TAAAAATA
16060093 TGAATAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.11
13 15 0.79
14 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:16066911 original size:20 final size:19
Alignment explanation
Indices: 16066877--16066934 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
16066867 CCCTAACCTC
*
16066877 GTTAATTAAGCTTAAAATTA-
1 GTTAATTATGCTT--AATTAG
*
16066897 GTTAATTATGTTTAATTAG
1 GTTAATTATGCTTAATTAG
**
16066916 GTTAATTATAATTAATTAG
1 GTTAATTATGCTTAATTAG
16066935 TTATTAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.15
19 17 0.52
20 11 0.33
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (19 bp):
GTTAATTATGCTTAATTAG
Found at i:16066921 original size:19 final size:19
Alignment explanation
Indices: 16066892--16066934 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16066882 TTAAGCTTAA
**
16066892 AATTA-GTTAATTATGTTT
1 AATTAGGTTAATTATAATT
16066910 AATTAGGTTAATTATAATT
1 AATTAGGTTAATTATAATT
16066929 AATTAG
1 AATTAG
16066935 TTATTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (19 bp):
AATTAGGTTAATTATAATT
Found at i:16070938 original size:26 final size:26
Alignment explanation
Indices: 16070906--16070962 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
16070896 ATTTATTGAA
16070906 AATTTTTATATGACCATGTTAACATT
1 AATTTTTATATGACCATGTTAACATT
16070932 AATTTTTATATGACCATGTTAACATT
1 AATTTTTATATGACCATGTTAACATT
16070958 -ATTTT
1 AATTTT
16070963 AATGTTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (26 bp):
AATTTTTATATGACCATGTTAACATT
Found at i:16073841 original size:54 final size:54
Alignment explanation
Indices: 16073769--16073877 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
16073759 AAGTTCGGTC
16073769 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
1 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
16073823 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
1 CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
16073877 C
1 C
16073878 TTAGATTTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (54 bp):
CAATAGCCCATTCATATAGTTCGGCTGAATTTTATCTATTAGTGAAGTTTTATA
Found at i:16074427 original size:32 final size:32
Alignment explanation
Indices: 16074367--16074431 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 32
16074357 TTGAAATCAT
*
16074367 AAAATTAATATTGAGTGGTAAAATTTAATTAAA
1 AAAATTAATATTGAGTGGCAAAATTTAA-TAAA
*
16074400 AAAATCTAA-ATTG-GTGGCAAATTTTAATAAA
1 AAAAT-TAATATTGAGTGGCAAAATTTAATAAA
16074431 A
1 A
16074432 TTCAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 5 0.17
32 12 0.41
33 9 0.31
34 3 0.10
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (32 bp):
AAAATTAATATTGAGTGGCAAAATTTAATAAA
Found at i:16076368 original size:21 final size:21
Alignment explanation
Indices: 16076344--16076385 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16076334 AAGCTTCACG
16076344 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
16076365 TGTGAAGTCAAAATTATTGTA
1 TGTGAAGTCAAAATTATTGTA
16076386 GGTCAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (21 bp):
TGTGAAGTCAAAATTATTGTA
Found at i:16080465 original size:21 final size:21
Alignment explanation
Indices: 16080440--16080482 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16080430 TTCCTTACCT
16080440 TTTCCCTCACTTTTTTTTCTC
1 TTTCCCTCACTTTTTTTTCTC
16080461 TTTCCCTCACTTTTTTTTCTC
1 TTTCCCTCACTTTTTTTTCTC
16080482 T
1 T
16080483 CCATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.05, C:0.33, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCCCTCACTTTTTTTTCTC
Found at i:16080670 original size:22 final size:24
Alignment explanation
Indices: 16080645--16080690 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
16080635 TTTACTACTG
16080645 TTTTC-CAACC-TTTTGCTGCTAT
1 TTTTCTCAACCATTTTGCTGCTAT
*
16080667 TTTTCTTCAGCCATTTTGCTGCTA
1 TTTTC-TCAACCATTTTGCTGCTA
16080691 CGATTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (24 bp):
TTTTCTCAACCATTTTGCTGCTAT
Found at i:16081837 original size:19 final size:20
Alignment explanation
Indices: 16081813--16081851 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
16081803 TCCTTCTGAC
*
16081813 ATGGTGTGTA-TGGTTGGAT
1 ATGGTGTGTAGTGGATGGAT
16081832 ATGGTGTGTAGTGGATGGAT
1 ATGGTGTGTAGTGGATGGAT
16081852 GTTTAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.44, T:0.38
Consensus pattern (20 bp):
ATGGTGTGTAGTGGATGGAT
Found at i:16083748 original size:56 final size:57
Alignment explanation
Indices: 16083639--16083771 Score: 146
Period size: 56 Copynumber: 2.3 Consensus size: 57
16083629 TATATTATTA
* *
16083639 TATATTATGATTTTAGTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
1 TATA-TATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
* * * *
16083697 TATATATT-TTTTATTAAATTATATTTAATAATAATTAT-TTTA-AATTATTATTAAAT
1 TATATATTATTTTATTAAATTA-ATATAAGAATAATTATATTAAGAATT-TTATTAAAC
*
16083753 TATTTATTATTTATATTAA
1 TATATATTATTT-TATTAA
16083772 TAATCTTATT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 4 0.06
56 30 0.47
57 20 0.31
58 10 0.16
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTAATATAAGAATAATTATATTAAGAATTTTATTAAAC
Found at i:16083752 original size:11 final size:11
Alignment explanation
Indices: 16083729--16083761 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
16083719 ATTTAATAAT
16083729 AATTATT-TTA
1 AATTATTATTA
16083739 AATTATTATTA
1 AATTATTATTA
16083750 AATTATTTATTA
1 AATTA-TTATTA
16083762 TTTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 8 0.38
12 6 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
AATTATTATTA
Found at i:16083935 original size:16 final size:16
Alignment explanation
Indices: 16083914--16083982 Score: 120
Period size: 16 Copynumber: 4.3 Consensus size: 16
16083904 TTGAATTGCT
16083914 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
16083930 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
*
16083946 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
16083962 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
16083978 ATTAC
1 ATTAC
16083983 AGCGAACCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.20, C:0.33, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:16084089 original size:42 final size:42
Alignment explanation
Indices: 16084041--16084138 Score: 162
Period size: 42 Copynumber: 2.3 Consensus size: 42
16084031 ATATGAACAA
16084041 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAATAG-G
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAA-AGTG
*
16084083 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACGTG
1 CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAAAGTG
*
16084125 CACTAAGTTTGCGA
1 CACTAAGTGTGCGA
16084139 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (42 bp):
CACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAAAGTG
Found at i:16084999 original size:23 final size:23
Alignment explanation
Indices: 16084969--16085150 Score: 193
Period size: 23 Copynumber: 7.7 Consensus size: 23
16084959 TTCGATTCAA
16084969 GTCCAATTTGGTGTAAAAATGCT
1 GTCCAATTTGGTGTAAAAATGCT
16084992 GTCCAATTTTTGGTGTAAAAATGCT
1 GTCCAA--TTTGGTGTAAAAATGCT
* ** *
16085017 GCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTAAAAATGCT
16085040 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTAAAAATGCT
* ** * *
16085064 GCCCAATTTGGTGTCTATATTCT
1 GTCCAATTTGGTGTAAAAATGCT
16085087 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTAAAAATGCT
* * *
16085111 GTCCAATTTGAGATATATATATGCT
1 GTCCAATTTG-G-TGTAAAAATGCT
*
16085136 GCCCAATTTGGTGTA
1 GTCCAATTTGGTGTA
16085151 TATTTGCCGT
Statistics
Matches: 130, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
23 50 0.38
24 40 0.31
25 40 0.31
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.38
Consensus pattern (23 bp):
GTCCAATTTGGTGTAAAAATGCT
Found at i:16085068 original size:47 final size:47
Alignment explanation
Indices: 16084971--16085150 Score: 254
Period size: 47 Copynumber: 3.8 Consensus size: 47
16084961 CGATTCAAGT
* *
16084971 CCAATTTGGTGTAAAAATGCTGTCCAATTTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTATATATGCTGTCCAA-TTTTGGTGTAAAAATGCTGC
*
16085019 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
1 CCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
* * *
16085066 CCAATTTGGTGTCTATATTCTGTCCAATTTTGGTGTAAAAATGCTGT
1 CCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
* *
16085113 CCAATTTGAGATATATATATGCTGCCCAA-TTTGGTGTA
1 CCAATTTG-G-TGTATATATGCTGTCCAATTTTGGTGTA
16085151 TATTTGCCGT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
47 73 0.60
48 34 0.28
49 14 0.12
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (47 bp):
CCAATTTGGTGTATATATGCTGTCCAATTTTGGTGTAAAAATGCTGC
Found at i:16085135 original size:72 final size:73
Alignment explanation
Indices: 16085058--16085271 Score: 243
Period size: 72 Copynumber: 2.9 Consensus size: 73
16085048 TTGGTGTAAA
* *
16085058 AATGCTGCCCAATTTGGTGTCTATATTCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGAG
1 AATGCTGCCCAATTTGGTGTATATATTCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGAG
16085123 ATATATAT
66 ATATATAT
* * * *
16085131 -ATGCTGCCCAATTTGGTGTATAT-TTGCCGTTAAATTTTGGTGTAAAAAAATGTTGTTCAATTT
1 AATGCTGCCCAATTTGGTGTATATATT-CTGTTCAATTTTGGTGT--AAAAATGCTGTCCAATTT
*
16085194 GATATATATATAT
63 G--AGATATATAT
* * * * * *
16085207 ACATGCTGCCCAAATTAGTGTATAAATGCTGTTCAATTTTGGTGTATAAATGCTATCCAATTTGA
1 A-ATGCTGCCCAATTTGGTGTATATATTCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGA
16085272 TGTATAAGAG
Statistics
Matches: 116, Mismatches: 17, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
71 2 0.02
72 36 0.31
74 18 0.16
76 24 0.21
78 35 0.30
79 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (73 bp):
AATGCTGCCCAATTTGGTGTATATATTCTGTTCAATTTTGGTGTAAAAATGCTGTCCAATTTGAG
ATATATAT
Found at i:16085235 original size:23 final size:24
Alignment explanation
Indices: 16085204--16085260 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
16085194 GATATATATA
*
16085204 TATACATGCTGCCCAA-ATTAGTG
1 TATAAATGCTGCCCAATATTAGTG
** * *
16085227 TATAAATGCTGTTCAATTTTGGTG
1 TATAAATGCTGCCCAATATTAGTG
16085251 TATAAATGCT
1 TATAAATGCT
16085261 ATCCAATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (24 bp):
TATAAATGCTGCCCAATATTAGTG
Found at i:16085275 original size:23 final size:24
Alignment explanation
Indices: 16085225--16085278 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
16085215 CCCAAATTAG
* * *
16085225 TGTATAAATGCTGTTCAATTTTGG
1 TGTATAAATGCTATCCAATTTTGA
16085249 TGTATAAATGCTATCCAA-TTTGA
1 TGTATAAATGCTATCCAATTTTGA
16085272 TGTATAA
1 TGTATAA
16085279 GAGCTGTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (24 bp):
TGTATAAATGCTATCCAATTTTGA
Found at i:16088691 original size:42 final size:42
Alignment explanation
Indices: 16088627--16088758 Score: 129
Period size: 46 Copynumber: 3.0 Consensus size: 42
16088617 GGTTAAATTA
* * *
16088627 AAGCAATCATACTAGTATATAAGTGCGCCATTAGATAAACCG
1 AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
* * * *
16088669 AAGCAATCATATTGGCACATAAGTGCATGCATCACTGGATTAACCG
1 AAGCAATCATATTAGCACATAAGTGC--GC--CATTAGATAAACCG
** * *
16088715 AAGCAATCATATTAGCACATAAGTGCATCATCAGATAAATCG
1 AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
16088757 AA
1 AA
16088759 TTATAAACCC
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
42 33 0.46
44 2 0.03
46 36 0.51
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (42 bp):
AAGCAATCATATTAGCACATAAGTGCGCCATTAGATAAACCG
Found at i:16089821 original size:15 final size:15
Alignment explanation
Indices: 16089771--16089821 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16089761 CATGTTTATT
*
16089771 CTTTAATTAATCTTA
1 CTTTAATTATTCTTA
16089786 -TTTAATTATT-TTA
1 CTTTAATTATTCTTA
* *
16089799 GTTATAATTATTCTAA
1 CTT-TAATTATTCTTA
16089815 CTTTAAT
1 CTTTAAT
16089822 GGGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 11 0.37
15 12 0.40
16 4 0.13
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (15 bp):
CTTTAATTATTCTTA
Found at i:16100403 original size:37 final size:38
Alignment explanation
Indices: 16100266--16100403 Score: 120
Period size: 37 Copynumber: 3.7 Consensus size: 38
16100256 TCATTTGAGT
* * * * *
16100266 TTCACTCAGTATAACAGT-AGAATTTGATCGATTTAAAC
1 TTCATTCAGTATAACAGTAAG-ATTTGCTTGAGTTAAGC
* * * * * *
16100304 ATCAGTCAGTAAAATAGTAAGATTTACCT-AGTTAAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTTGAGTTAAGC
* * *
16100341 TCCATTCAGTATAACGGTATGATTTGCTTGA-TTAAGC
1 TTCATTCAGTATAACAGTAAGATTTGCTTGAGTTAAGC
16100378 TTCATTCAGTATAACAGTAAGATTTG
1 TTCATTCAGTATAACAGTAAGATTTG
16100404 GCTCGATAGA
Statistics
Matches: 76, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
37 55 0.72
38 19 0.25
39 2 0.03
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (38 bp):
TTCATTCAGTATAACAGTAAGATTTGCTTGAGTTAAGC
Found at i:16101453 original size:26 final size:26
Alignment explanation
Indices: 16101424--16101523 Score: 148
Period size: 26 Copynumber: 3.8 Consensus size: 26
16101414 CCAATATCGT
* *
16101424 AGCAAAGCTGTCAGTAATAGTAACGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
*
16101450 AGCAAAGCTGCCAGTAACAGTAATGC
1 AGCAAAGCTGCCAGTAACAGTAACGC
*
16101476 AGCAGAA-CTGCCAGTATCAGTAACGC
1 AGCA-AAGCTGCCAGTAACAGTAACGC
16101502 AGCAAAGCTGCCAGTAACAGTA
1 AGCAAAGCTGCCAGTAACAGTA
16101524 TTTGTGGCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 2 0.03
26 62 0.94
27 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTAACGC
Found at i:16101938 original size:134 final size:134
Alignment explanation
Indices: 16101733--16101984 Score: 357
Period size: 134 Copynumber: 1.9 Consensus size: 134
16101723 TACCCTATGG
** * *
16101733 GGGTATTTCGGTCATTTTACCCTTTAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
1 GGGTATTTCAATCAATTTACCCTTGAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
* * *
16101798 TCATTTTACTCTTCGGGGGTATTTCGATCATTTTACCCTTCGAGGTTATTTCGATCATTCTACCC
66 TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTCTACCC
16101863 TCAA
131 TCAA
** *
16101867 GGGTATTTCAATCAATTTACCCTTCGA-GGGTATTTTGATCATTTTACCCTT-TGAGGGTATTTC
1 GGGTATTTCAATCAATTTACCCTT-GAGGGGTATTTCAATCATTTTACCCTTCAG-GGGTATTTC
*
16101930 -AGTTATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
64 GA-TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
16101985 GCCATTTTAC
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
133 2 0.02
134 101 0.97
135 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (134 bp):
GGGTATTTCAATCAATTTACCCTTGAGGGGTATTTCAATCATTTTACCCTTCAGGGGTATTTCGA
TCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGATCATTCTACCC
TCAA
Found at i:16102006 original size:27 final size:27
Alignment explanation
Indices: 16101716--16101997 Score: 349
Period size: 27 Copynumber: 10.5 Consensus size: 27
16101706 GGGTATAAAA
*
16101716 ATCATTTTACCCTAT-GGGGGTATTTCG
1 ATCATTTTACCCT-TCGAGGGTATTTCG
* * *
16101743 GTCATTTTACCCTT-TAGGGGTATTTCA
1 ATCATTTTACCCTTCGA-GGGTATTTCG
16101770 ATCATTTTACCCTTC-AGGGGTATTTCG
1 ATCATTTTACCCTTCGA-GGGTATTTCG
* *
16101797 ATCATTTTACTCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
16101824 ATCATTTTACCCTTCGAGGTTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * *
16101851 ATCATTCTACCC-TCAAGGGTATTTCA
1 ATCATTTTACCCTTCGAGGGTATTTCG
* *
16101877 ATCAATTTACCCTTCGAGGGTATTTTG
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
16101904 ATCATTTTACCCTTTGAGGGTATTTC-
1 ATCATTTTACCCTTCGAGGGTATTTCG
*
16101930 AGTTATTTTACCCTTCGAGGGTATTTCG
1 A-TCATTTTACCCTTCGAGGGTATTTCG
16101958 ATCATTTTACCCTTCGAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
**
16101985 GCCATTTTACCCT
1 ATCATTTTACCCT
16101998 ATGGGGGTAA
Statistics
Matches: 221, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
26 23 0.10
27 197 0.89
28 1 0.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
ATCATTTTACCCTTCGAGGGTATTTCG
Found at i:16109581 original size:41 final size:41
Alignment explanation
Indices: 16109525--16109639 Score: 140
Period size: 41 Copynumber: 2.8 Consensus size: 41
16109515 TGATTCAGTA
* * * * *
16109525 CACCGGCTTTTAGCCTGCTAGACCTATAGTCTGAAATGTAC
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATAC
* * **
16109566 CACCGGCATTAAGCCTACTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATAC
*
16109607 CACCGGCATCAAGCCTGCTAGACGTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
16109640 TATTACATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATAC
Found at i:16114128 original size:30 final size:32
Alignment explanation
Indices: 16114088--16114148 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 32
16114078 GGGGGTAGGA
* *
16114088 TGGGAAGGGAGTAAAAGTTTT-AGGGGAAAAG
1 TGGGAAGGGAGTAAAAATTTTGAAGGGAAAAG
16114119 TGGG-AGGGAGTAAAAATTTTGAAGGGAAAA
1 TGGGAAGGGAGTAAAAATTTTGAAGGGAAAA
16114149 ATTTTTTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.41, C:0.00, G:0.39, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAGTAAAAATTTTGAAGGGAAAAG
Found at i:16115691 original size:42 final size:42
Alignment explanation
Indices: 16115645--16115755 Score: 127
Period size: 42 Copynumber: 2.6 Consensus size: 42
16115635 CGAAGAAAAA
* * * *
16115645 ATACTAGCACCTAAGTGCATCATCGGTCGAATCGAAA-CAATT
1 ATACTAGCACCTAAGTGCATCATCGGAC-AAACCAAAGCAATC
*
16115687 ATACTAGCACAC-ATAGTGCATCATTGGACAAACCAAAGCAATC
1 ATACTAGCAC-CTA-AGTGCATCATCGGACAAACCAAAGCAATC
*
16115730 ATACTAGCACATAAGTGCATCATCGG
1 ATACTAGCACCTAAGTGCATCATCGG
16115756 CTAAACTGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
42 29 0.50
43 29 0.50
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (42 bp):
ATACTAGCACCTAAGTGCATCATCGGACAAACCAAAGCAATC
Found at i:16115710 original size:43 final size:43
Alignment explanation
Indices: 16115645--16115755 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 43
16115635 CGAAGAAAAA
* * * *
16115645 ATACTAGCAC-C-TAAGTGCATCATCGGTCGAATCGAAA-CAATT
1 ATACTAGCACACAT-AGTGCATCATCGGAC-AAACCAAAGCAATC
*
16115687 ATACTAGCACACATAGTGCATCATTGGACAAACCAAAGCAATC
1 ATACTAGCACACATAGTGCATCATCGGACAAACCAAAGCAATC
*
16115730 ATACTAGCACATA-AGTGCATCATCGG
1 ATACTAGCACACATAGTGCATCATCGG
16115756 CTAAACTGAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.47
43 30 0.51
44 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (43 bp):
ATACTAGCACACATAGTGCATCATCGGACAAACCAAAGCAATC
Found at i:16116820 original size:15 final size:15
Alignment explanation
Indices: 16116800--16116833 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16116790 TAATCTTATT
16116800 TAATTATTTTAATTA
1 TAATTATTTTAATTA
*
16116815 TAATTATTTTAATTT
1 TAATTATTTTAATTA
16116830 TAAT
1 TAAT
16116834 GGCCAACATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTATTTTAATTA
Found at i:16122962 original size:41 final size:41
Alignment explanation
Indices: 16122917--16123018 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
16122907 GCTTAGAGCT
*
16122917 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
16122958 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
16122999 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
16123019 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:16123353 original size:27 final size:27
Alignment explanation
Indices: 16123315--16123368 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16123305 TTTGTTTATA
16123315 AGTATTTGATAAAAAAATGAATGCATT
1 AGTATTTGATAAAAAAATGAATGCATT
16123342 AGTATTTGATAAAAAAATGAATGCATT
1 AGTATTTGATAAAAAAATGAATGCATT
16123369 CATTCATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (27 bp):
AGTATTTGATAAAAAAATGAATGCATT
Found at i:16127365 original size:49 final size:49
Alignment explanation
Indices: 16127284--16127379 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
16127274 AATGTTTCTG
*
16127284 AGTCTATCCAATCTGACACTTCTTTAACTTAGTTTCCATAAGGAAAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAA-GAAAAAAA
* * ** *
16127334 AGTCTATCCAATAT-AGAGTTCTTTTGCTTAGTTTCCATCAGAAAAA
1 AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAA
16127380 CAGTAGATGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 6 0.15
49 21 0.52
50 13 0.32
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (49 bp):
AGTCTATCCAATATGACACTTCTTTAACTTAGTTTCCATAAGAAAAAAA
Found at i:16130407 original size:13 final size:15
Alignment explanation
Indices: 16130384--16130416 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
16130374 TTTGTTTTGT
16130384 TTTTCTTTCTTTTC-
1 TTTTCTTTCTTTTCA
16130398 TTTT-TTTCTTTTCA
1 TTTTCTTTCTTTTCA
16130412 TTTTC
1 TTTTC
16130417 CTCAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTCTTTCTTTTCA
Found at i:16141083 original size:25 final size:25
Alignment explanation
Indices: 16141055--16141112 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
16141045 TGGGTCACAT
*
16141055 GGCCGTGTCACACGCCCGTGTGCCA
1 GGCCGTGTCACACGCCCATGTGCCA
*
16141080 GGCCATGTCACACGCCCATGTGCCA
1 GGCCGTGTCACACGCCCATGTGCCA
16141105 GGCCGTGT
1 GGCCGTGT
16141113 AATTCTCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.38, G:0.31, T:0.17
Consensus pattern (25 bp):
GGCCGTGTCACACGCCCATGTGCCA
Found at i:16143083 original size:25 final size:24
Alignment explanation
Indices: 16143018--16143084 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
16143008 CCCGTTATTT
*
16143018 GGCTCTCCGGAGCTTTCCAATAATA
1 GGCTCTCCAGAGC-TTCCAATAATA
16143043 GGCTCT-CATGAGCTTCCAAATTAA-A
1 GGCTCTCCA-GAGCTTCC-AA-TAATA
16143068 GGCTCTCCAGAGCTTCC
1 GGCTCTCCAGAGCTTCC
16143085 CGATATTAGC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
24 5 0.14
25 27 0.73
26 5 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (24 bp):
GGCTCTCCAGAGCTTCCAATAATA
Found at i:16143120 original size:24 final size:23
Alignment explanation
Indices: 16143077--16143155 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
16143067 AGGCTCTCCA
*
16143077 GAGCTTCCCG-ATATTAGCTCATAT
1 GAGCTTCCCGAAT-TTGGCTC-TAT
*
16143101 GAGCTTCCCGAATTTGGCTCTCTT
1 GAGCTTCCCGAATTTGGCTCT-AT
* *
16143125 AAGCTTCCC-ATTTATGGCTCGTAT
1 GAGCTTCCCGAATT-TGGCTC-TAT
16143149 GAGCTTC
1 GAGCTTC
16143156 TCGATAATGG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
23 4 0.09
24 38 0.84
25 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTCCCGAATTTGGCTCTAT
Found at i:16143210 original size:25 final size:24
Alignment explanation
Indices: 16143165--16143251 Score: 77
Period size: 25 Copynumber: 3.5 Consensus size: 24
16143155 CTCGATAATG
*
16143165 GCTCGCATGAGC-TTCCTGTTACAT
1 GCTCACATGAGCTTTCC-GTTACAT
*
16143189 GACTCACATGAGCTTTCCGTTATAT
1 G-CTCACATGAGCTTTCCGTTACAT
* * *
16143214 GGCTCAAAAGAGCTTCCCGATTACAT
1 -GCTCACATGAGCTTTCCG-TTACAT
*
16143240 GCTCGCATGAGC
1 GCTCACATGAGC
16143252 ATACCTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
24 1 0.02
25 39 0.78
26 10 0.20
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (24 bp):
GCTCACATGAGCTTTCCGTTACAT
Found at i:16145210 original size:18 final size:19
Alignment explanation
Indices: 16145168--16145216 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
16145158 GTTTCACATC
16145168 TCATTTCATCATTTCATATT
1 TCATTTC-TCATTTCATATT
* *
16145188 TCATTTTTCATTTCGTA-T
1 TCATTTCTCATTTCATATT
16145206 TCATTTCTCAT
1 TCATTTCTCAT
16145217 CTTTTCCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
20 6 0.23
ACGTcount: A:0.20, C:0.20, G:0.02, T:0.57
Consensus pattern (19 bp):
TCATTTCTCATTTCATATT
Found at i:16145252 original size:43 final size:42
Alignment explanation
Indices: 16145190--16145277 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 42
16145180 TTCATATTTC
* * *
16145190 ATTTTTCATTTCGTATTCATTTCTCATCTTTT-CCATTTCAAT
1 ATTTTTCATCTCATATTCATTTCCCAT-TTTTGCCATTTCAAT
16145232 ATTTTCTCATCTCATATTCATTTCCCATTTTTGCCATTTCAAT
1 ATTTT-TCATCTCATATTCATTTCCCATTTTTGCCATTTCAAT
16145275 ATT
1 ATT
16145278 AATCACATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
42 9 0.22
43 32 0.78
ACGTcount: A:0.20, C:0.23, G:0.02, T:0.55
Consensus pattern (42 bp):
ATTTTTCATCTCATATTCATTTCCCATTTTTGCCATTTCAAT
Found at i:16152892 original size:20 final size:19
Alignment explanation
Indices: 16152867--16152915 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
16152857 GCAACCACTT
16152867 TTTTTATATTAAA-AAATATA
1 TTTTTAT-TTAAATAAA-ATA
16152887 TTTTTACTTTAAATAAAATA
1 TTTTTA-TTTAAATAAAATA
*
16152907 TTATTATTT
1 TTTTTATTT
16152916 TATTTTAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTTATTTAAATAAAATA
Found at i:16153108 original size:6 final size:6
Alignment explanation
Indices: 16153097--16153132 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
16153087 TACATTTAGT
16153097 TTTTAA TTTTAA GTTTTAA TTTTAA TTTTAA GTTTT
1 TTTTAA TTTTAA -TTTTAA TTTTAA TTTTAA -TTTT
16153133 GTTTTGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.64
7 10 0.36
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:16153113 original size:13 final size:12
Alignment explanation
Indices: 16153097--16153132 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
16153087 TACATTTAGT
16153097 TTTTAATTTTAA
1 TTTTAATTTTAA
16153109 GTTTTAATTTTAA
1 -TTTTAATTTTAA
16153122 TTTTAAGTTTT
1 TTTTAA-TTTT
16153133 GTTTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:16153137 original size:12 final size:12
Alignment explanation
Indices: 16153091--16153137 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
16153081 ATATACTACA
16153091 TTTAGTTTTTAAT
1 TTTAG-TTTTAAT
16153104 TTTAAGTTTTAAT
1 TTT-AGTTTTAAT
*
16153117 TTTAATTTTAAGT
1 TTTAGTTTTAA-T
16153130 TTT-GTTTT
1 TTTAGTTTT
16153138 GTTTTACTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 11 0.37
13 17 0.57
14 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (12 bp):
TTTAGTTTTAAT
Found at i:16153277 original size:14 final size:14
Alignment explanation
Indices: 16153258--16153339 Score: 65
Period size: 14 Copynumber: 5.6 Consensus size: 14
16153248 CCACCTCCGT
16153258 CCTCCACCAATCGA
1 CCTCCACCAATCGA
* *
16153272 CCTCCACCGATCCA
1 CCTCCACCAATCGA
* * *
16153286 CCATCAAGCCACCTCCGT
1 CC-TCCA-CCA-AT-CGA
* *
16153304 CTTCCACCAATCGT
1 CCTCCACCAATCGA
16153318 CCTCCACCAATCGA
1 CCTCCACCAATCGA
16153332 CCTCCACC
1 CCTCCACC
16153340 GATCCACAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 37 0.71
15 4 0.08
16 5 0.10
17 4 0.08
18 2 0.04
ACGTcount: A:0.23, C:0.52, G:0.07, T:0.17
Consensus pattern (14 bp):
CCTCCACCAATCGA
Found at i:16154876 original size:13 final size:13
Alignment explanation
Indices: 16154858--16154887 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16154848 CAATTCTAAC
16154858 ATAATTTTTATAG
1 ATAATTTTTATAG
16154871 ATAATTTTTATAG
1 ATAATTTTTATAG
16154884 ATAA
1 ATAA
16154888 AATATCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
ATAATTTTTATAG
Found at i:16155381 original size:3 final size:3
Alignment explanation
Indices: 16155369--16155403 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
16155359 GAGAGAAAGG
16155369 AGA AGAA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA A
16155404 AGAAAGAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16155414 original size:12 final size:12
Alignment explanation
Indices: 16155346--16155428 Score: 58
Period size: 9 Copynumber: 7.3 Consensus size: 12
16155336 GTGCACCGAA
16155346 AAAGAAAAGAAATG
1 AAAG-AAAGAAA-G
*
16155360 AGAGAAAGGAGAAG
1 AAAGAAA-GA-AAG
16155374 AAAG-AAG-AAG
1 AAAGAAAGAAAG
16155384 -AAG-AAG-AAG
1 AAAGAAAGAAAG
16155393 -AAG-AAG-AAG
1 AAAGAAAGAAAG
16155402 AAAGAAAGAAAG
1 AAAGAAAGAAAG
16155414 AAAGAAAGAAA-
1 AAAGAAAGAAAG
16155425 AAAG
1 AAAG
16155429 GTAATGTATT
Statistics
Matches: 62, Mismatches: 2, Indels: 13
0.81 0.03 0.17
Matches are distributed among these distances:
9 18 0.29
10 6 0.10
11 7 0.11
12 15 0.24
13 5 0.08
14 9 0.15
15 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (12 bp):
AAAGAAAGAAAG
Found at i:16155668 original size:60 final size:60
Alignment explanation
Indices: 16155582--16155710 Score: 231
Period size: 60 Copynumber: 2.1 Consensus size: 60
16155572 GTAAATTTTT
*
16155582 TTGTTTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
* *
16155642 TTGTGTTTGTAATTATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTG
1 TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
16155702 TTGTGTTTA
1 TTGTGTTTA
16155711 GTTTAGTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (60 bp):
TTGTGTTTATAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTG
Found at i:16155711 original size:27 final size:27
Alignment explanation
Indices: 16155620--16155711 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 27
16155610 TTATTAGTAA
16155620 TTTAGGATTATGTTATAAATTGTTGTG
1 TTTAGGATTATGTTATAAATTGTTGTG
* * * *
16155647 TTT-GTAATTATTTTAAAATTAATTTGTTAGTAA
1 TTTAG-GATTATGTT---A-TAAATTGTT-GT-G
16155680 TTTAGGATTATGTTATAAATTGTTGTG
1 TTTAGGATTATGTTATAAATTGTTGTG
16155707 TTTAG
1 TTTAG
16155712 TTTAGTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
26 1 0.02
27 15 0.31
28 2 0.04
29 8 0.16
30 2 0.04
31 8 0.16
32 2 0.04
33 10 0.20
34 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.53
Consensus pattern (27 bp):
TTTAGGATTATGTTATAAATTGTTGTG
Found at i:16156025 original size:105 final size:101
Alignment explanation
Indices: 16155905--16156192 Score: 358
Period size: 98 Copynumber: 2.9 Consensus size: 101
16155895 TTATAGTTAT
* * * * *
16155905 TTATTTTGTTAGTAATTTATGAGATTAGGT-TACAAATTGTTAGTGTTGAGGATAGGGTTTTGTA
1 TTATTTTGTTAGTAATTTAT--GATTAGGTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTG
16155969 ATTTTTTAGTAATGTAATTTTTAAAAACAACAATTTTATAG
64 ATTTTTTAGTAATGTAATTTTTAAAAA-AA-AA-TTTATAG
* *
16156010 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA-GTTATGTGTTCTGGG
1 TTATTTTGTTAGTAATTTATGATTAGG-TATATAAATTGTTAGTGTTTAGGTTA-GTGTTTTGTG
*
16156074 ATTTTTTAGTAATGT-A--TTT-AAAAAATATTTATAG
64 ATTTTTTAGTAATGTAATTTTTAAAAAAAAATTTATAG
* *
16156108 TTATTTTGTTAGTAATTTATGATTAGATTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAG-GTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTGA
16156173 TTTTTT--TAATGTAATTTTTA
65 TTTTTTAGTAATGTAATTTTTA
16156193 TATAATGTAA
Statistics
Matches: 162, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
96 6 0.04
97 1 0.01
98 69 0.43
99 7 0.04
100 2 0.01
101 4 0.02
102 3 0.02
103 7 0.04
104 5 0.03
105 58 0.36
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.52
Consensus pattern (101 bp):
TTATTTTGTTAGTAATTTATGATTAGGTATATAAATTGTTAGTGTTTAGGTTAGTGTTTTGTGAT
TTTTTAGTAATGTAATTTTTAAAAAAAAATTTATAG
Found at i:16158087 original size:50 final size:50
Alignment explanation
Indices: 16157970--16158164 Score: 223
Period size: 50 Copynumber: 3.9 Consensus size: 50
16157960 GATAATAACA
* * ** * * *
16157970 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
16158019 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
16158069 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
16158119 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
16158165 ATGTCAATGA
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 38 0.31
50 83 0.68
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:16158180 original size:56 final size:51
Alignment explanation
Indices: 16157970--16158211 Score: 213
Period size: 50 Copynumber: 4.7 Consensus size: 51
16157960 GATAATAACA
* * ** * * * *
16157970 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTCGG
* * **
16158019 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATA-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTCGG
* ** *
16158069 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTCGG
* *
16158119 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATGTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-AT-TC---GG
* * * *
16158175 TGCCAATGTCATGTTCCAAACATGTTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16158212 TCTCATCACC
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 83 0.53
53 2 0.01
56 33 0.21
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTCGG
Found at i:16163000 original size:84 final size:84
Alignment explanation
Indices: 16162882--16163177 Score: 502
Period size: 84 Copynumber: 3.5 Consensus size: 84
16162872 CAAAGGATCC
* * * *
16162882 CGGTGGAATCAGCATTTAGCAACCACCTTGTAATCAATGATACGGGGAGTTAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
*
16162947 CCTTTCACAATAAAGGATA
66 CCTTTCACAATCAAGGATA
* * *
16162966 TGGTGGAATCATCACTTAGTAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
16163031 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
* *
16163050 CGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
16163115 CCTTTCACAATCAAGGATA
66 CCTTTCACAATCAAGGATA
16163134 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACG
16163178 AGTTCACATA
Statistics
Matches: 199, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 199 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:16163169 original size:42 final size:42
Alignment explanation
Indices: 16162837--16163177 Score: 343
Period size: 42 Copynumber: 8.1 Consensus size: 42
16162827 CAACCCTTAC
* **
16162837 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGAT
* * * *
16162880 CCCGGTGGAATCAGCATTTAGCAACCACCTTGTAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * * * * *
16162923 ACGG-GGAGTTAACACATAGCAACC-CCTTTCACAATAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* * * *
16162965 ATGGTGGAATCATCACTTAGTAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* * *
16163007 ACGG-GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
* *
16163049 ACGGTGGAATCAACACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
* *
16163091 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGAT
*
16163133 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
16163175 ACG
1 ACG
16163178 AGTTCACATA
Statistics
Matches: 243, Mismatches: 42, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
40 6 0.02
41 56 0.23
42 81 0.33
43 64 0.26
44 36 0.15
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGAT
Found at i:16163263 original size:51 final size:51
Alignment explanation
Indices: 16163186--16163372 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
16163176 CGAGTTCACA
16163186 TAGTAGCCTACACATAGTACTACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT-AGCTATCCGATACACG
* * * * *
16163237 TAGTAGCCTGCACATAGTACTGCACATGTGATCGA-AGCTATCCGATACGCA
1 TAGTAGCCTACACATAGTACTACACATGTGA-CCATAGCTATCCGATACACG
* * * * * * *
16163288 TAGTAGCCTGCACATAGTAATACACATGCGACC-TATCTTTCTGGTACACG
1 TAGTAGCCTACACATAGTACTACACATGTGACCATAGCTATCCGATACACG
* * *
16163338 TAGTAGCCTACACATAGTATTACACACGTAACCAT
1 TAGTAGCCTACACATAGTACTACACATGTGACCAT
16163373 CACTTTCACT
Statistics
Matches: 112, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 40 0.36
51 70 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTACACATAGTACTACACATGTGACCATAGCTATCCGATACACG
Found at i:16168013 original size:27 final size:27
Alignment explanation
Indices: 16167973--16168024 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
16167963 AAAAATTATG
* **
16167973 CACCAGTCGTGCCTGTCAGATAGGCTC
1 CACCAGTCGCGCCTACCAGATAGGCTC
16168000 CACCAGTCGCGCCTACCAGATAGGC
1 CACCAGTCGCGCCTACCAGATAGGC
16168025 GCTACCTACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.37, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGTCGCGCCTACCAGATAGGCTC
Found at i:16173903 original size:41 final size:41
Alignment explanation
Indices: 16173858--16174306 Score: 537
Period size: 41 Copynumber: 10.9 Consensus size: 41
16173848 TTTTTTTACT
* *
16173858 AGCGCCGCTAATGATC-GTGGTTTTAGCGGTGTTTT-TGAGAA
1 AGCGCCGCTAATGCTCTG-GGTTTTAGCGGCGTTTTCTGA-AA
* * *
16173899 AGCGCCGCT-ATGGCTCTGGGTTTTAGTGGCGTTTT-TGGGAG
1 AGCGCCGCTAAT-GCTCTGGGTTTTAGCGGCGTTTTCT-GAAA
* * * *
16173940 TGTGCCACTAATGCTCTGGGTTTTAGCAGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* * *
16173981 AGCGCCGCTAATGCTTTGCGTTTTAGCGGCGTTTTCTAAAA
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* * *
16174022 AGCGCTGCTAATGCTCTGCGTTTTAGCGGCATTTTCTGAAA
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* *
16174063 AGCGCCGTTAATGGTCTGGGTTTTAGCGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* *
16174104 GGCGCCGCTAATGCTCTAAGGGGTTTTAGCGGCGTTTTCTAAAA
1 AGCGCCGCTAATGCTCT---GGGTTTTAGCGGCGTTTTCTGAAA
* *
16174148 AGCGCCGCTAATGCTCTAGGGGTTTAGTGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCT-GGGTTTTAGCGGCGTTTTCTGAAA
*
16174190 AGCACCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* * *
16174231 AGCGCCGCTAATGCTTTGGGTTTTAGAGGCGTTTTCTGAAT
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
* ** *
16174272 TGCGCCGCTAATGCTAGGGGTTTTAGTGGCGTTTT
1 AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTT
16174307 TATTAAAGCG
Statistics
Matches: 352, Mismatches: 48, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 269 0.76
42 42 0.12
44 39 0.11
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.34
Consensus pattern (41 bp):
AGCGCCGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTGAAA
Found at i:16175168 original size:311 final size:311
Alignment explanation
Indices: 16174597--16175527 Score: 1116
Period size: 311 Copynumber: 2.9 Consensus size: 311
16174587 ATTATCACTA
** *
16174597 TAGTTTAGGGTATATGATTTTATTTAAGATTTAAGGTCGGTTTAAGAGTTCATATTTTAAGGTTT
1 TAGTTTAGGGTATATGA-TAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGG---
* * * * *
16174662 TAATTAAGGAGTATATATGGATTTAGGGATTATGGATTACGAATTATGG-TTTAATGAAGGGTTG
62 T--TTAGGGAGTATATATGGATTTAGGGA-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTTG
*
16174726 GGATTTAAGGTTTA-AGGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAGGGATTT
124 GGATTTAAGGTTTAGA-GGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAAGGATTT
* ** * * * *
16174790 GGGGTTTTTGAATTTAAGGGTCAGGTACTTAGGGTTTCGGGTTT-GA-ATTATTTTTTATTAATA
188 AGGGTTTAGGATTTTAAGGGTC-GG--GTTAGGGTTTTGGGTTTAGATATTA-TTTTTATTTATA
*
16174853 TTTTAAATATGTTCTTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
249 TTTTAAATATGTTATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
* *
16174916 TAGTTTAGGGTATATGATAAACTTAAGATTTAAGGCCGGTTTAGGAGTTCATATTTTAAGGTTTA
1 TAGTTTAGGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTTA
16174981 GGGAGTATATATGGATTTA-GG-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
66 GGGAGTATATATGGATTTAGGGATAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
** * *
16175044 AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGACATTAGGGGTTAAGAGTTAAGGATTTAAGGTTTA
131 AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAAGGATTTAGGGTTTA
* * *
16175109 GGGTTTTAGGGGTCGGGTTAGGGTTTTAGGTTTAGATTATTATTATTTATTTATATTTTAAATAT
196 GGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGA-TATTATT-TTTATTTATATTTTAAATAT
* *
16175174 GTTATTATGTAATTGT-AAA-AGATAATAATAAAATTGTTTAGGGTTTTTAAT
259 GTTATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
* *
16175225 TAG-TTAGGGGTATATGATAAATTTTAGATTTAAAGTCGGTTTAGGAGTTCATATTTTAAGGTTT
1 TAGTTTA-GGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTT
* *
16175289 ATGGAGTACTATATATGGATTTATGGATTAGGGATTAGGGATTAT-GTTTTAATTAAGGGTTAGT
65 A-GG-G-AGTATATATGGATTTAGGGA-TAGGGATTAGGGATTATGGTTTTAATTAAGGGTT-G-
* *
16175353 TAGGATTTAAGGGTTAG-GGATTAGGGGTTTAGGGATTAGGGGTTAGATGTTAGTGGTTAAGAGT
124 --GGATTTAAGGTTTAGAGG-TTAGGGG--T-----TTAGGGGTTAGATGTTAGAGGTTAAGAGT
* * *
16175417 TAAGGATTTAGGGTTTAGGATTTCAAAGGTCGGGTTAGGGTTTTGGGTTTAGAT-TT-TTTTAAT
179 TAAGGATTTAGGGTTTAGGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGATATTATTTTTAT
* * **
16175480 TTAGATTTTAAATATGTTTTTATG-CCTTGTAAAAGAGATAATAATAAA
244 TTATATTTTAAATATGTTATTATGTAATTGTAAAAGAGATAATAATAAA
16175528 TTTAATGTAT
Statistics
Matches: 537, Mismatches: 48, Indels: 51
0.84 0.08 0.08
Matches are distributed among these distances:
308 17 0.03
309 89 0.17
310 25 0.05
311 126 0.23
312 18 0.03
313 23 0.04
314 16 0.03
315 19 0.04
317 2 0.00
318 60 0.11
319 17 0.03
320 5 0.01
321 29 0.05
322 15 0.03
323 2 0.00
324 1 0.00
325 73 0.14
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (311 bp):
TAGTTTAGGGTATATGATAAATTTAAGATTTAAGGTCGGTTTAGGAGTTCATATTTTAAGGTTTA
GGGAGTATATATGGATTTAGGGATAGGGATTAGGGATTATGGTTTTAATTAAGGGTTGGGATTTA
AGGTTTAGAGGTTAGGGGTTTAGGGGTTAGATGTTAGAGGTTAAGAGTTAAGGATTTAGGGTTTA
GGATTTTAAGGGTCGGGTTAGGGTTTTGGGTTTAGATATTATTTTTATTTATATTTTAAATATGT
TATTATGTAATTGTAAAAGAGATAATAATAAAATTGTTTAGGATTTTGAAT
Found at i:16175384 original size:15 final size:15
Alignment explanation
Indices: 16175366--16175396 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16175356 GATTTAAGGG
16175366 TTAGGGATTAGGGGT
1 TTAGGGATTAGGGGT
16175381 TTAGGGATTAGGGGT
1 TTAGGGATTAGGGGT
16175396 T
1 T
16175397 AGATGTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
TTAGGGATTAGGGGT
Found at i:16175860 original size:19 final size:19
Alignment explanation
Indices: 16175836--16175884 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
16175826 AAATTATAAG
*
16175836 AAATAAAATTAAAATACAA
1 AAATAAAATTAAAATAAAA
* *
16175855 AAATAAAAATGAAATAAAA
1 AAATAAAATTAAAATAAAA
16175874 AAACTAAAATT
1 AAA-TAAAATT
16175885 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATAAAATTAAAATAAAA
Done.