Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 51 of 77
Found at i:10057475 original size:22 final size:23
Alignment explanation
Indices: 10057410--10057483 Score: 96
Period size: 23 Copynumber: 3.3 Consensus size: 23
10057400 ATCTCAGTCA
*
10057410 ATTTTGTAAGACCTCCGGGCATG
1 ATTTCGTAAGACCTCCGGGCATG
*
10057433 ATTCCGTAAGACCTCCGGGCATG
1 ATTTCGTAAGACCTCCGGGCATG
** *
10057456 ATTTC-TAAGACCTCTTGGCATA
1 ATTTCGTAAGACCTCCGGGCATG
10057478 ATTTCG
1 ATTTCG
10057484 ATTCGCGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (23 bp):
ATTTCGTAAGACCTCCGGGCATG
Found at i:10057544 original size:132 final size:132
Alignment explanation
Indices: 10057307--10057563 Score: 374
Period size: 132 Copynumber: 1.9 Consensus size: 132
10057297 ATCAATTCTA
* * *
10057307 TAAGACCTCTGGGCATGATTTTTAAGACCTCCGGACATAAATTCGATTCACGGTGTTATCCCGAT
1 TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGACATAAATTCGATTCACGGTATTATCCCGAT
* * * * *
10057372 CGATTCTTTATTTTTGACTTACAGTGTTATCTCAGTCAATTTTGTAAGACCTCCGGGCATGATTC
66 CGATTCTTTATTTCTGACTTACAGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTC
10057437 CG
131 CG
* * *
10057439 TAAGACCTCCGGGCATGATTTCTAAGACCTCTTGG-CATAATTTCGATTCGCGGTATTATCCCGA
1 TAAGACCTCCGGGCATGATTTCTAAGACCTC-CGGACATAAATTCGATTCACGGTATTATCCCGA
*
10057503 TCGATTCTTTATTTCTGACTTGC-GATGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCAT
65 TCGATTCTTTATTTCTGACTTACAG-TGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCAT
10057564 AATTTCTAAG
Statistics
Matches: 111, Mismatches: 12, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
131 1 0.01
132 108 0.97
133 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAGACCTCCGGGCATGATTTCTAAGACCTCCGGACATAAATTCGATTCACGGTATTATCCCGAT
CGATTCTTTATTTCTGACTTACAGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTC
CG
Found at i:10057619 original size:22 final size:22
Alignment explanation
Indices: 10057552--10057634 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
10057542 ATTCTGTAAA
*
10057552 ACCTCCGAGCATAATTTCTAAG
1 ACCTCCGAGCATAATTTTTAAG
* * * *
10057574 ATCTCTGA--ACAATTCTGTAAG
1 ACCTCCGAGCATAATT-TTTAAG
* *
10057595 ACCTCCGGGCATGATTTTTAAG
1 ACCTCCGAGCATAATTTTTAAG
10057617 ACCTCCGAGCATAATTTT
1 ACCTCCGAGCATAATTTT
10057635 GATTCGTGGT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
20 5 0.11
21 10 0.22
22 27 0.59
23 4 0.09
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (22 bp):
ACCTCCGAGCATAATTTTTAAG
Found at i:10057726 original size:22 final size:22
Alignment explanation
Indices: 10057701--10057787 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
10057691 GTCAATTCTG
* *
10057701 TAAGACCTCTGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
* *
10057723 TAAGACCTCCGAG--TAATTCTG
1 TAAGACCTCCGGGCATAATT-TC
* *
10057744 TAAGTCCTCCGGGCATGATTTC
1 TAAGACCTCCGGGCATAATTTC
10057766 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGGGCATAATTTC
10057788 GATTCGTGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.08
21 12 0.23
22 32 0.62
23 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCGGGCATAATTTC
Found at i:10057758 original size:43 final size:43
Alignment explanation
Indices: 10057694--10057776 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
10057684 TATCCCAGTC
*
10057694 AATTCTGTAAGACCTCTGGGCATGATTTCTAAGACCTCCGAGT
1 AATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGT
*
10057737 AATTCTGTAAGTCCTCCGGGCATGATTTCTAAGACCTCCG
1 AATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCG
10057777 GGCATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (43 bp):
AATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGAGT
Found at i:10057759 original size:153 final size:151
Alignment explanation
Indices: 10057433--10057841 Score: 541
Period size: 153 Copynumber: 2.7 Consensus size: 151
10057423 TCCGGGCATG
* * * *
10057433 ATTCCGTAAGACCTCCGGGCATGATTTCTAAGACCTCTTGGCATAATTTCGATTCGCGGTATTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTC-CGGCATAATTTCGATTCGTGGTGTTAT
*
10057498 CCCGATCGATTCTTTA-TTTCTGACTTGCGATGTTATCCCAGTCAATTCTGTAAAACCTCCGAGC
65 CCCGATCGATTCTTTATTTTC-GACTTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGC
* *
10057562 ATAATTTCTAAGATCTCTGAACA
129 ATAATTTCTAAGACCTCCGAACA
* *
10057585 ATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGAGCATAATTTTGATTCGTGGTGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCG-GCATAATTTCGATTCGTGGTGTTAT
* * * * * *
10057650 CCCAATCGATTTTTTATCTTTCGACTTACGGTGTTATCCCAGTCAATTCTGTAAGACCTCTGGGC
65 CCCGATCGATTCTTTAT-TTTCGACTTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGC
* **
10057715 ATGATTTCTAAGACCTCCGAGTA
129 ATAATTTCTAAGACCTCCGAACA
* *
10057738 ATTCTGTAAGTCCTCCGGGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGATGTTAT
1 ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCC-GGCATAATTTCGATTCGTGGTGTTAT
* * * *
10057803 CTCGATCGATTCATTATTTTTTGACTTGCGGTGTCATCC
65 CCCGATCGATTCTTTA-TTTTCGACTTGCGGTGTTATCC
10057842 TAATCGTTTT
Statistics
Matches: 223, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
151 1 0.00
152 71 0.32
153 145 0.65
154 6 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (151 bp):
ATTCTGTAAGACCTCCGGGCATGATTTCTAAGACCTCCGGCATAATTTCGATTCGTGGTGTTATC
CCGATCGATTCTTTATTTTCGACTTGCGGTGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCAT
AATTTCTAAGACCTCCGAACA
Found at i:10058368 original size:11 final size:13
Alignment explanation
Indices: 10058344--10058375 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10058334 TTTCAACAAC
10058344 CCCAAACACCATA
1 CCCAAACACCATA
10058357 -CCAAAC-CCATA
1 CCCAAACACCATA
10058368 CCCAAACA
1 CCCAAACA
10058376 GAAATGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (13 bp):
CCCAAACACCATA
Found at i:10067918 original size:12 final size:12
Alignment explanation
Indices: 10067901--10067930 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10067891 CCAACCACTG
*
10067901 ATCTTTTGTCCA
1 ATCTTTTCTCCA
10067913 ATCTTTTCTCCA
1 ATCTTTTCTCCA
10067925 ATCTTT
1 ATCTTT
10067931 AGCCACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.03, T:0.53
Consensus pattern (12 bp):
ATCTTTTCTCCA
Found at i:10071668 original size:25 final size:25
Alignment explanation
Indices: 10071612--10071668 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
10071602 CGGTCAAATC
**
10071612 TTTTTTTTTTTGTATTCTGACTTTT
1 TTTTTTTTTTTGTAAACTGACTTTT
* *
10071637 TAATTTTTTTTTG-AAACTGACTTTG
1 T-TTTTTTTTTTGTAAACTGACTTTT
10071662 TTTTTTT
1 TTTTTTT
10071669 CTGTGCAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
24 5 0.19
25 11 0.42
26 10 0.38
ACGTcount: A:0.14, C:0.07, G:0.09, T:0.70
Consensus pattern (25 bp):
TTTTTTTTTTTGTAAACTGACTTTT
Found at i:10076104 original size:27 final size:27
Alignment explanation
Indices: 10076057--10076118 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
10076047 TTTTATACAC
*
10076057 TATTAAT-AAATTAAATAATACGATCT
1 TATTAATGAAATTAAATAATACAATCT
* *
10076083 TATTAATGAAA-TAAGATGATACAATTT
1 TATTAATGAAATTAA-ATAATACAATCT
10076110 TATTAATGA
1 TATTAATGA
10076119 GTAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (27 bp):
TATTAATGAAATTAAATAATACAATCT
Found at i:10077188 original size:6 final size:6
Alignment explanation
Indices: 10077180--10077218 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
10077170 GCATGCCAAA
*
10077180 GGAAAA GGAAAT GGAAAT GGAAAT GGAAAT GGAAA- GGAA
1 GGAAAT GGAAAT GGAAAT GGAAAT GGAAAT GGAAAT GGAA
10077219 CCAACTCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.10
Consensus pattern (6 bp):
GGAAAT
Found at i:10089913 original size:2 final size:2
Alignment explanation
Indices: 10089908--10089937 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10089898 AAAAAAAAAG
10089908 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10089938 CCTCACCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10091751 original size:31 final size:31
Alignment explanation
Indices: 10091715--10091773 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
10091705 TAACTTACTC
*
10091715 ATTAATAAAGTATTATTATCTAATTCATCTT
1 ATTAATAAAGTATTATCATCTAATTCATCTT
* *
10091746 ATTAATAAATTATTATCATCTGATTCAT
1 ATTAATAAAGTATTATCATCTAATTCAT
10091774 TCACAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTAATAAAGTATTATCATCTAATTCATCTT
Found at i:10093516 original size:28 final size:29
Alignment explanation
Indices: 10093460--10093517 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10093450 ATGAATTATA
*
10093460 TTAATAAAATTATTATTTAATTTCTTAAT
1 TTAATAAAATTATTATTTAATTTCATAAT
*
10093489 TTAATAAAA-TATTATATTTATTT-ATAAT
1 TTAATAAAATTATTAT-TTAATTTCATAAT
10093517 T
1 T
10093518 AAGATGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAATAAAATTATTATTTAATTTCATAAT
Found at i:10098035 original size:175 final size:175
Alignment explanation
Indices: 10097707--10098051 Score: 480
Period size: 175 Copynumber: 2.0 Consensus size: 175
10097697 TTAAACCATG
* *
10097707 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATTAAAAAATGACGTTAGCTTGGATTGAAT
1 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
* * * *
10097772 CACAAGTCAAAAAAATAAGAAGATCAAGAATAAATCATTAGTCAGAGGTTAACAACAACAATCGA
66 CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGAGGTCAACAACAACAATCGA
* *
10097837 GATTAAACTATGATTTTAAATTAATGAGATCGAGATTGAACCGTA
131 GATTAAAATATGATTTTAAATTAAAGAGATCGAGATTGAACCGTA
* * * * * *
10097882 AATCGAAGAATAAAGAGACTGGGATTGAACCACGAGTCAGAAAATGATGTTAACTTGGATTGAAT
1 AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
* * *
10097947 CACAAGTC-AAAAAATAAGAAGACCGAGAATAAACCATGAGTCA-AGGGTCAACAA-GACAATTG
66 CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGA-GGTCAACAACAACAATCG
*
10098009 AGATTAAAATAGTGATTTTAAAATTAAAGAGATCGGGATTGAA
130 AGATTAAAATA-TGATTTT-AAATTAAAGAGATCGAGATTGAA
10098052 TCACGAATTG
Statistics
Matches: 149, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
173 17 0.11
174 46 0.31
175 86 0.58
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.22
Consensus pattern (175 bp):
AATCAAAGAATAAACAGACTGGGATTAAACCACGAATCAAAAAATGACGTTAACTTGGATTGAAT
CACAAGTCAAAAAAATAAGAAGACCAAGAATAAACCATGAGTCAGAGGTCAACAACAACAATCGA
GATTAAAATATGATTTTAAATTAAAGAGATCGAGATTGAACCGTA
Found at i:10098722 original size:108 final size:109
Alignment explanation
Indices: 10098279--10098779 Score: 618
Period size: 108 Copynumber: 4.6 Consensus size: 109
10098269 AATCGAAGAA
* * *
10098279 ATAAAAA-GATCAATGATTAAACCACGAGTCAAAGATTAAAGATAATTGGGACTAAACCGTAAGT
1 ATAAAAATGATCGA-GATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGT
* ** * *
10098343 CAAAGAAATAAGGACGACTAGGATTGAACCGTAAGTCGAGAAGCT
65 CAAAAAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * * * * * * *
10098388 ACAAGAATGATCGGGATTAAACCACGAGTC-AATATT-AAGATAACTGAGACTGAACCATAAGTT
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGTC
*
10098451 AAAGAAATAAAAATGACTAGGATTAAA-CGTAAGTCGAGAAGCT
66 AAAAAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * *
10098494 ATAAAAATGATCGAGATTAATCCAC-AGTCAAAGATTAAAGATAACTGGGACTGAACCGCAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGTC
*
10098558 AAAAAAATAAAAAAAATGACTAGGATTAAACCGTAAGTCTAGAAGCT
66 AAAAAAAT---AAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * *
10098605 ATAAAAATGATCGAGATTAAACCACAAGTTAAAAATTAAAGATAATTGGGACTGAATCGCAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGTC
*
10098670 AAAAAAAT-AAAATGACTACGATTAAACCGTAAGTCGAGAAGCT
66 AAAAAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
* * * * * * *
10098713 ATAAGAATGATCGAGATTAAATCACAAATCAAATATTAACGATGATCGGGACTGAACCGTAAGTC
1 ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGTC
10098778 AA
66 AA
10098780 GGGAATAAAA
Statistics
Matches: 342, Mismatches: 42, Indels: 17
0.85 0.10 0.04
Matches are distributed among these distances:
105 4 0.01
106 42 0.12
107 75 0.22
108 95 0.28
109 21 0.06
110 23 0.07
111 39 0.11
112 43 0.13
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (109 bp):
ATAAAAATGATCGAGATTAAACCACAAGTCAAAGATTAAAGATAATTGGGACTGAACCGTAAGTC
AAAAAAATAAAAATGACTAGGATTAAACCGTAAGTCGAGAAGCT
Found at i:10098724 original size:219 final size:214
Alignment explanation
Indices: 10098279--10098779 Score: 605
Period size: 219 Copynumber: 2.3 Consensus size: 214
10098269 AATCGAAGAA
* * * *
10098279 ATAAAAA-GATCAATGATTAAACCACGAGTCAAAGATTAAAGATAATTGGGACTAAACCGTAAGT
1 ATAAAAATGATCGA-GATTAATCCACAAGTCAAAGATTAAAGATAA-TGGGACTGAACCGTAAGT
* ** * * *
10098343 CAAAGAAATAAGGACGACTAGGATTGAACCGTAAGTCGAGAAGCTACAAGAATGATCGGGATTAA
64 CAAAAAAATAAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGATTAA
* * * * * * *
10098408 ACCACGAGTCAATATTAAGATAACTGAGACTGAACCATAAGTTAAAGAAATAAAAATGACTAGGA
129 ACCACAAGTAAAAATTAAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGACTACGA
10098473 TTAAACGTAAGTCGAGAAGCT
194 TTAAACGTAAGTCGAGAAGCT
*
10098494 ATAAAAATGATCGAGATTAATCCAC-AGTCAAAGATTAAAGATAACTGGGACTGAACCGCAAGTC
1 ATAAAAATGATCGAGATTAATCCACAAGTCAAAGATTAAAGATAA-TGGGACTGAACCGTAAGTC
* * *
10098558 AAAAAAATAAAAAAAATGACTAGGATTAAACCGTAAGTCTAGAAGCTATAAAAATGATCGAGATT
65 AAAAAAAT---AAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGATT
* * * *
10098623 AAACCACAAGTTAAAAATTAAAGATAATTGGGACTGAATCGCAAGTCAAAAAAAT-AAAATGACT
127 AAACCACAAG-TAAAAATT-AAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGACT
10098687 ACGATTAAACCGTAAGTCGAGAAGCT
190 ACGATTAAA-CGTAAGTCGAGAAGCT
* * * * *
10098713 ATAAGAATGATCGAGATTAAAT-CACAAATCAAATATTAACGATGATCGGGACTGAACCGTAAGT
1 ATAAAAATGATCGAGATT-AATCCACAAGTCAAAGATTAAAGATAAT-GGGACTGAACCGTAAGT
10098777 CAA
64 CAA
10098780 GGGAATAAAA
Statistics
Matches: 245, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
214 43 0.18
215 17 0.07
216 5 0.02
217 55 0.22
218 23 0.09
219 65 0.27
220 37 0.15
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (214 bp):
ATAAAAATGATCGAGATTAATCCACAAGTCAAAGATTAAAGATAATGGGACTGAACCGTAAGTCA
AAAAAATAAAAACGACTAGGATTAAACCGTAAGTCGAGAAGCTACAAAAATGATCGAGATTAAAC
CACAAGTAAAAATTAAGATAACTGAGACTGAACCACAAGTCAAAAAAATAAAAATGACTACGATT
AAACGTAAGTCGAGAAGCT
Found at i:10101274 original size:27 final size:26
Alignment explanation
Indices: 10101242--10101305 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
10101232 ATTATTTTAA
*
10101242 TTTTAATAATAATAATAATAATAAT-AT
1 TTTTAATAAAAATAA-AATAA-AATAAT
10101269 TTTTAATAAAAAATAAAATAAAATAAT
1 TTTTAAT-AAAAATAAAATAAAATAAT
*
10101296 TATTAATAAA
1 TTTTAATAAA
10101306 CCAAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.18
27 20 0.61
28 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
TTTTAATAAAAATAAAATAAAATAAT
Found at i:10102376 original size:17 final size:17
Alignment explanation
Indices: 10102339--10102378 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10102329 ACAAATTTTT
*
10102339 TTTTAAATTTTCTATTT
1 TTTTAAATTTTCTATTA
* *
10102356 TTTTAAATTTTTTGTTA
1 TTTTAAATTTTCTATTA
10102373 TTTTAA
1 TTTTAA
10102379 GTATATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTAAATTTTCTATTA
Found at i:10109140 original size:1 final size:1
Alignment explanation
Indices: 10109136--10109197 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
10109126 TATGAGGCAT
* * * * * ** *
10109136 AAAAAAAACAAAAAAATAAAAACAAAAAAAAAAATAAAACAAGTAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10109198 GGGACATATT
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.05
Consensus pattern (1 bp):
A
Found at i:10109157 original size:18 final size:18
Alignment explanation
Indices: 10109134--10109197 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
10109124 AATATGAGGC
*
10109134 ATAAAAA-AAACAAAAAA
1 ATAAAAACAAAAAAAAAA
10109151 ATAAAAACAAAAAAAAAA
1 ATAAAAACAAAAAAAAAA
*
10109169 AT-AAAACAAGTAAAAAAA
1 ATAAAAACAA-AAAAAAAA
10109187 A-AAAAACAAAA
1 ATAAAAACAAAA
10109198 GGGACATATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.37
18 26 0.63
ACGTcount: A:0.86, C:0.06, G:0.02, T:0.06
Consensus pattern (18 bp):
ATAAAAACAAAAAAAAAA
Found at i:10109162 original size:12 final size:12
Alignment explanation
Indices: 10109136--10109197 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
10109126 TATGAGGCAT
10109136 AAAAAAAACAAAA
1 AAAAAAAAC-AAA
10109149 AAATAAAAACAAA
1 AAA-AAAAACAAA
*
10109162 AAAAAAAATAAA
1 AAAAAAAACAAA
* **
10109174 ACAAGTAA-AAA
1 AAAAAAAACAAA
10109185 AAAAAAAACAAA
1 AAAAAAAACAAA
10109197 A
1 A
10109198 GGGACATATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 8 0.20
12 17 0.43
13 9 0.22
14 6 0.15
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.05
Consensus pattern (12 bp):
AAAAAAAACAAA
Found at i:10109191 original size:17 final size:16
Alignment explanation
Indices: 10109136--10109197 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
10109126 TATGAGGCAT
10109136 AAAAAAAAC--AAAAA
1 AAAAAAAACAAAAAAA
*
10109150 AATAAAAACAAAAAAA
1 AAAAAAAACAAAAAAA
10109166 AAAATAAAACAAGTAAAAA
1 AAAA-AAAACAA--AAAAA
10109185 AAAAAAAACAAAA
1 AAAAAAAACAAAA
10109198 GGGACATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 8 0.20
16 10 0.24
17 7 0.17
18 7 0.17
19 9 0.22
ACGTcount: A:0.87, C:0.06, G:0.02, T:0.05
Consensus pattern (16 bp):
AAAAAAAACAAAAAAA
Found at i:10110906 original size:22 final size:22
Alignment explanation
Indices: 10110875--10110918 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10110865 AAGATTTTAA
*
10110875 GATTTGTAAGACCTCCGGGCAT
1 GATTTCTAAGACCTCCGGGCAT
*
10110897 GATTTCTAAGACCTCTGGGCAT
1 GATTTCTAAGACCTCCGGGCAT
10110919 AAATTGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (22 bp):
GATTTCTAAGACCTCCGGGCAT
Found at i:10111073 original size:109 final size:109
Alignment explanation
Indices: 10110879--10111237 Score: 504
Period size: 109 Copynumber: 3.3 Consensus size: 109
10110869 TTTTAAGATT
* * *
10110879 TGTAAGACCTCCGGGCATGATTTCTAAGACCTCTGGGCATAAATT-GATTCACGGTGTTATCCCA
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
* * *
10110943 ATTGATTCTTTATCTTTTGACTTGTGGTGTTATCCCAGTCGATTC
66 ATCGATTCTTTAT-TTTTGACTTGCGGTGTTATCCCAGTCAATTC
* *
10110988 TGTAAGACCTCCGGGCATAATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCTCG
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
* *
10111053 ATCGATTCTTTATTTATGACTTGCGGTGTTATCCCAATCAATTC
66 ATCGATTCTTTATTTTTGACTTGCGGTGTTATCCCAGTCAATTC
* ** * * *
10111097 TATAAGACCTTTGGGCATGATTTTTAAGACCTTCGGACATAAATTCGATTCGCGGTGTTATCCCG
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
* * * *
10111162 ATCGATTCTTTATTTTTGACTTCCAGTGTTATCTCAGTCAATTT
66 ATCGATTCTTTATTTTTGACTTGCGGTGTTATCCCAGTCAATTC
* *
10111206 TGTAAAACCTCCGAGCATGATTTTTAAGACCT
1 TGTAAGACCTCCGGGCATGATTTTTAAGACCT
10111238 TCGAGCAATT
Statistics
Matches: 220, Mismatches: 29, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
109 191 0.87
110 29 0.13
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (109 bp):
TGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGGGCATAAATTCGATTCACGGTGTTATCCCG
ATCGATTCTTTATTTTTGACTTGCGGTGTTATCCCAGTCAATTC
Found at i:10111280 original size:23 final size:23
Alignment explanation
Indices: 10111250--10111304 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
10111240 GAGCAATTTT
10111250 GTAAGACCTCCGGACATGATTCC
1 GTAAGACCTCCGGACATGATTCC
* *
10111273 GTAAGACCTCCGGGCATGATTTC
1 GTAAGACCTCCGGACATGATTCC
10111296 -TAAGACCTC
1 GTAAGACCTC
10111305 TTGGCATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 9 0.30
23 21 0.70
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (23 bp):
GTAAGACCTCCGGACATGATTCC
Found at i:10111304 original size:22 final size:22
Alignment explanation
Indices: 10111212--10111304 Score: 93
Period size: 22 Copynumber: 4.2 Consensus size: 22
10111202 ATTTTGTAAA
*
10111212 ACCTCCGAGCATGATTTTTAAG
1 ACCTCCGAGCATGATTTCTAAG
* *
10111234 ACCTTCGAGCA--ATTTTGTAAG
1 ACCTCCGAGCATGA-TTTCTAAG
*
10111255 ACCTCCG-GACATGATTCCGTAAG
1 ACCTCCGAG-CATGATTTC-TAAG
*
10111278 ACCTCCGGGCATGATTTCTAAG
1 ACCTCCGAGCATGATTTCTAAG
10111300 ACCTC
1 ACCTC
10111305 TTGGCATAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
20 2 0.03
21 15 0.25
22 21 0.36
23 20 0.34
24 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (22 bp):
ACCTCCGAGCATGATTTCTAAG
Found at i:10111310 original size:22 final size:22
Alignment explanation
Indices: 10111202--10111318 Score: 89
Period size: 22 Copynumber: 5.3 Consensus size: 22
10111192 ATCTCAGTCA
* *
10111202 ATTTTGTAAAACCTCCGAGCATG
1 ATTTCGTAAGACCTCCG-GCATG
* *
10111225 ATTT-TTAAGACCTTCGAGCA--
1 ATTTCGTAAGACCTCCG-GCATG
*
10111245 ATTTTGTAAGACCTCCGGACATG
1 ATTTCGTAAGACCTCCGG-CATG
*
10111268 ATTCCGTAAGACCTCCGGGCATG
1 ATTTCGTAAGACCTCC-GGCATG
* *
10111291 ATTTC-TAAGACCTCTTGGCATA
1 ATTTCGTAAGACCTC-CGGCATG
10111313 ATTTCG
1 ATTTCG
10111319 ATTCGCGGTA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
20 5 0.06
21 12 0.16
22 32 0.42
23 26 0.34
24 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (22 bp):
ATTTCGTAAGACCTCCGGCATG
Found at i:10111321 original size:175 final size:174
Alignment explanation
Indices: 10111099--10111468 Score: 494
Period size: 175 Copynumber: 2.1 Consensus size: 174
10111089 ATCAATTCTA
** * *
10111099 TAAGACCTTTGGGCATGATTTTTAAGACCTTCGGACATAAATTCGATTCGCGGTGTTATCCCGAT
1 TAAGACCTCCGGGCATGATTTCTAAGACCTTCGGACATAAATTCGATTCGCGGTATTATCCCGAT
* * * *
10111164 CGATTCTTTATTTTTGACTTCC-AGTGTTATCTCAGTCAATTTTGTAAAACCTCCGAGCATGATT
66 CGATTATTTATTTCTGACTTCCGA-TGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATT
* * *
10111228 TTTAAGACCTTC-GAGCAATTTTGTAAGACCTCCGGACATGATTCCG
130 TCTAAGACCTCCAGA-CAATTCTGTAAGACCTCCGGACATGATT-CG
* *
10111274 TAAGACCTCCGGGCATGATTTCTAAGACCTCTTGG-CATAATTTCGATTCGCGGTATTATCCCGA
1 TAAGACCTCCGGGCATGATTTCTAAGACCT-TCGGACATAAATTCGATTCGCGGTATTATCCCGA
*
10111338 TCGATTATTTATTTCTGACTTGCGATGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATT
65 TCGATTATTTATTTCTGACTTCCGATGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATT
* * * **
10111403 TCTAAGATCTCCAGATAATTCTGTAAGACCTCCGGGCATGATTTT
130 TCTAAGACCTCCAGACAATTCTGTAAGACCTCCGGACATGATTCG
* *
10111448 TAAGACCTCCGAGCATAATTT
1 TAAGACCTCCGGGCATGATTT
10111469 TGATTCGTGG
Statistics
Matches: 171, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
174 19 0.11
175 146 0.85
176 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (174 bp):
TAAGACCTCCGGGCATGATTTCTAAGACCTTCGGACATAAATTCGATTCGCGGTATTATCCCGAT
CGATTATTTATTTCTGACTTCCGATGTTATCCCAGTCAATTCTGTAAAACCTCCGAGCATGATTT
CTAAGACCTCCAGACAATTCTGTAAGACCTCCGGACATGATTCG
Found at i:10111442 original size:43 final size:45
Alignment explanation
Indices: 10111376--10111467 Score: 134
Period size: 43 Copynumber: 2.1 Consensus size: 45
10111366 TATCCCAGTC
*
10111376 AATTCTGTAAAACCTCCGAGCATGATTTCTAAGATCTCC-AG-AT
1 AATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGAGCAT
* * *
10111419 AATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGAGCAT
1 AATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGAGCAT
10111464 AATT
1 AATT
10111468 TTGATTCGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 35 0.81
44 2 0.05
45 6 0.14
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
AATTCTGTAAAACCTCCGAGCATGATTTCTAAGACCTCCGAGCAT
Found at i:10111469 original size:22 final size:22
Alignment explanation
Indices: 10111387--10111469 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
10111377 ATTCTGTAAA
* *
10111387 ACCTCCGAGCATGATTTCTAAG
1 ACCTCCGAGCATAATTTTTAAG
* *
10111409 ATCTCC-AG-ATAATTCTGTAAG
1 ACCTCCGAGCATAATT-TTTAAG
* *
10111430 ACCTCCGGGCATGATTTTTAAG
1 ACCTCCGAGCATAATTTTTAAG
10111452 ACCTCCGAGCATAATTTT
1 ACCTCCGAGCATAATTTT
10111470 GATTCGTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 5 0.10
21 12 0.24
22 27 0.55
23 5 0.10
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (22 bp):
ACCTCCGAGCATAATTTTTAAG
Found at i:10111561 original size:22 final size:22
Alignment explanation
Indices: 10111536--10111579 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10111526 GTCAATTCTG
*
10111536 TAAGACCTCCGAGCATGATTTC
1 TAAGACCTCCGAGCATAATTTC
*
10111558 TAAGACCTCCGGGCATAATTTC
1 TAAGACCTCCGAGCATAATTTC
10111580 GATTCGTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TAAGACCTCCGAGCATAATTTC
Found at i:10111562 original size:110 final size:110
Alignment explanation
Indices: 10111419--10111633 Score: 331
Period size: 110 Copynumber: 2.0 Consensus size: 110
10111409 ATCTCCAGAT
* * * *
10111419 AATTCTGTAAGACCTCCGGGCATGATTTTTAAGACCTCCGAGCATAATTTTGATTCGTGGTGTTA
1 AATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGTGATGTTA
* *
10111484 TCCCAATCGATTCTTTATCTTTCGACTTACGGTGTTATCCGAGTC
66 TCCCAATCGATTCATTATCTTTCGACTTACGGTGTCATCCGAGTC
*
10111529 AATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCGGGCATAATTTCGATTCGTGATGTTA
1 AATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGTGATGTTA
* * * *
10111594 TCTCGATCGATTCATTATTTTTCGACTTGCGGTGTCATCC
66 TCCCAATCGATTCATTATCTTTCGACTTACGGTGTCATCC
10111634 CAATCGTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 94 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (110 bp):
AATTCTGTAAGACCTCCGAGCATGATTTCTAAGACCTCCGAGCATAATTTCGATTCGTGATGTTA
TCCCAATCGATTCATTATCTTTCGACTTACGGTGTCATCCGAGTC
Found at i:10112158 original size:11 final size:13
Alignment explanation
Indices: 10112134--10112165 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
10112124 TTTCAACAAC
10112134 CCCAAACACCATA
1 CCCAAACACCATA
10112147 -CCAAAC-CCATA
1 CCCAAACACCATA
10112158 CCCAAACA
1 CCCAAACA
10112166 GAAACGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.06
Consensus pattern (13 bp):
CCCAAACACCATA
Found at i:10117993 original size:20 final size:20
Alignment explanation
Indices: 10117968--10118006 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10117958 CTTAGCTTTC
*
10117968 TCTTGTGTTTTCTTCTCTTA
1 TCTTGTATTTTCTTCTCTTA
*
10117988 TCTTGTATTTTCTTTTCTT
1 TCTTGTATTTTCTTCTCTT
10118007 GGCCCTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.18, G:0.08, T:0.69
Consensus pattern (20 bp):
TCTTGTATTTTCTTCTCTTA
Found at i:10125879 original size:21 final size:20
Alignment explanation
Indices: 10125853--10125913 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
10125843 CCATCCTCGA
*
10125853 TTTTTTTTGTTTTCTATTCTT
1 TTTTTTTTATTTTCTATT-TT
* *
10125874 TTTTTTGTATTTTGTATTTT
1 TTTTTTTTATTTTCTATTTT
* *
10125894 TTTTGTTTTTTTTTTTATTT
1 TTTT-TTTTATTTTCTATTT
10125914 CGTATTTTGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.84
Consensus pattern (20 bp):
TTTTTTTTATTTTCTATTTT
Found at i:10125905 original size:19 final size:18
Alignment explanation
Indices: 10125852--10125906 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
10125842 GCCATCCTCG
*
10125852 ATTTTTTTTGTTTTCTATT
1 ATTTTTTTTGTTTT-TTTT
* * *
10125871 CTTTTTTTTGTATTTTGT
1 ATTTTTTTTGTTTTTTTT
10125889 ATTTTTTTTGTTTTTTTT
1 ATTTTTTTTGTTTTTTTT
10125907 TTTATTTCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 17 0.59
19 12 0.41
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (18 bp):
ATTTTTTTTGTTTTTTTT
Found at i:10125919 original size:35 final size:37
Alignment explanation
Indices: 10125852--10125927 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
10125842 GCCATCCTCG
*
10125852 ATTTTTTTTGTTTTCTATTCTTTTTTTTGTATTTTGT
1 ATTTTTTTTGTTTTCTATTCTTTTTTTCGTATTTTGT
10125889 ATTTTTTTTGTTTT-T-TT-TTTTATTTCGTATTTTGT
1 ATTTTTTTTGTTTTCTATTCTTTT-TTTCGTATTTTGT
10125924 ATTT
1 ATTT
10125928 AATATTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 4 0.11
35 18 0.49
36 1 0.03
37 14 0.38
ACGTcount: A:0.09, C:0.04, G:0.08, T:0.79
Consensus pattern (37 bp):
ATTTTTTTTGTTTTCTATTCTTTTTTTCGTATTTTGT
Found at i:10125938 original size:35 final size:33
Alignment explanation
Indices: 10125872--10125940 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 33
10125862 TTTTCTATTC
* *
10125872 TTTTTTTTGTATTTTGTATTTTTTTTGTTTTTT
1 TTTTTTTTGTATTTTGTATTTATATTGTTTTTT
10125905 TTTTTATTTCGTATTTTGTATTTAATATT-TTTTTT
1 TTTTT-TTT-GTATTTTGTATTT-ATATTGTTTTTT
10125940 T
1 T
10125941 GGGGACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 5 0.16
34 3 0.10
35 20 0.65
36 3 0.10
ACGTcount: A:0.12, C:0.01, G:0.07, T:0.80
Consensus pattern (33 bp):
TTTTTTTTGTATTTTGTATTTATATTGTTTTTT
Found at i:10128637 original size:2 final size:2
Alignment explanation
Indices: 10128632--10128664 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10128622 GATACATGTG
*
10128632 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10128665 TCTCACCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10131087 original size:12 final size:12
Alignment explanation
Indices: 10131054--10131088 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
10131044 GATAGCATGC
*
10131054 AAAAGGAAAAGG
1 AAAAGGAAATGG
10131066 AAAAGGAAATGG
1 AAAAGGAAATGG
*
10131078 AAATGGAAATG
1 AAAAGGAAATG
10131089 TAAAGGAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (12 bp):
AAAAGGAAATGG
Found at i:10132338 original size:33 final size:33
Alignment explanation
Indices: 10132296--10132362 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10132286 AGAATGCCAC
10132296 ATACTCTTTCTGATTCATCCCTAATTCAAGAAG
1 ATACTCTTTCTGATTCATCCCTAATTCAAGAAG
*
10132329 ATACTCTTTCTGATTCATCCTTAATTCAAGAAG
1 ATACTCTTTCTGATTCATCCCTAATTCAAGAAG
10132362 A
1 A
10132363 AAATGTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (33 bp):
ATACTCTTTCTGATTCATCCCTAATTCAAGAAG
Found at i:10141297 original size:31 final size:31
Alignment explanation
Indices: 10141250--10141308 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10141240 TAATTTATTT
10141250 ATTAATAAAGTATTATCATCTAATTCATCTC
1 ATTAATAAAGTATTATCATCTAATTCATCTC
* * * *
10141281 ATTATTAAATTATTATCATTTGATTCAT
1 ATTAATAAAGTATTATCATCTAATTCAT
10141309 TAATTTATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTAATAAAGTATTATCATCTAATTCATCTC
Found at i:10143325 original size:17 final size:17
Alignment explanation
Indices: 10143305--10143350 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
10143295 GGTTTTAATC
10143305 TTTTTTTTAGACTTTTTT
1 TTTTTTTTA-ACTTTTTT
10143323 TTTTAGTTTTAACTTTTTT
1 TTTT--TTTTAACTTTTTT
*
10143342 TTATTTTTA
1 TTTTTTTTA
10143351 TTTCAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 4 0.16
19 11 0.44
20 5 0.20
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTTTTTTAACTTTTTT
Found at i:10144424 original size:16 final size:15
Alignment explanation
Indices: 10144387--10144432 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
10144377 TTGATAAAAT
*
10144387 AAGT-AAAA-ATAGA
1 AAGTAAAAAGATAAA
*
10144400 AAGTAAAAAGGTAAA
1 AAGTAAAAAGATAAA
10144415 AAGATAAAAAGATAAA
1 AAG-TAAAAAGATAAA
10144431 AA
1 AA
10144433 AAAAGATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 4 0.15
14 4 0.15
15 6 0.22
16 13 0.48
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (15 bp):
AAGTAAAAAGATAAA
Found at i:10144433 original size:9 final size:8
Alignment explanation
Indices: 10144399--10144432 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
10144389 GTAAAAATAG
10144399 AAAG-TAA
1 AAAGATAA
*
10144406 AAAGGTAA
1 AAAGATAA
10144414 AAAGATAA
1 AAAGATAA
10144422 AAAGATAA
1 AAAGATAA
10144430 AAA
1 AAA
10144433 AAAAGATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.16
8 21 0.84
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (8 bp):
AAAGATAA
Found at i:10149553 original size:31 final size:31
Alignment explanation
Indices: 10149506--10149564 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
10149496 TAATTTATTT
10149506 ATTAATAAAGTATTATCATCTAATTCATCTC
1 ATTAATAAAGTATTATCATCTAATTCATCTC
* * * *
10149537 ATTATTAAATTATTATCATTTGATTCAT
1 ATTAATAAAGTATTATCATCTAATTCAT
10149565 TAATTTATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTAATAAAGTATTATCATCTAATTCATCTC
Found at i:10150897 original size:5 final size:5
Alignment explanation
Indices: 10150889--10150913 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10150879 TAATTTAATT
10150889 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
10150914 AAATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:10151271 original size:28 final size:28
Alignment explanation
Indices: 10151240--10151302 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
10151230 ATTTTATTTA
10151240 ATTATAT-ATGTATT-ATATTAATAAAATT
1 ATTATATAATGTATTAAT-TTAATAAAA-T
* * *
10151268 ATTATTTAATTTCTTAATTTAATAAAAT
1 ATTATATAATGTATTAATTTAATAAAAT
10151296 ATTATAT
1 ATTATAT
10151303 TTATTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 13 0.45
29 14 0.48
30 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTATATAATGTATTAATTTAATAAAAT
Found at i:10151313 original size:28 final size:29
Alignment explanation
Indices: 10151257--10151314 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
10151247 ATGTATTATA
*
10151257 TTAATAAAATTATTATTTAATTTCTTAAT
1 TTAATAAAATTATTATTTAATTTCATAAT
*
10151286 TTAATAAAA-TATTATATTTATTT-ATAAT
1 TTAATAAAATTATTAT-TTAATTTCATAAT
10151314 T
1 T
10151315 AAGATGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAATAAAATTATTATTTAATTTCATAAT
Found at i:10153932 original size:8 final size:8
Alignment explanation
Indices: 10153919--10153943 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10153909 AATATACAGT
10153919 ACAAAGAA
1 ACAAAGAA
10153927 ACAAAGAA
1 ACAAAGAA
10153935 ACAAAGAA
1 ACAAAGAA
10153943 A
1 A
10153944 TAGAATCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (8 bp):
ACAAAGAA
Found at i:10156024 original size:15 final size:15
Alignment explanation
Indices: 10156004--10156033 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10155994 CATATCAGCT
10156004 TATATATAATATTTA
1 TATATATAATATTTA
10156019 TATATATAATATTTA
1 TATATATAATATTTA
10156034 ACATCAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATAATATTTA
Found at i:10163839 original size:17 final size:18
Alignment explanation
Indices: 10163814--10163848 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10163804 AGGATGGTTG
10163814 AATTATTTTTTAA-GCAA
1 AATTATTTTTTAATGCAA
*
10163831 AATTTTTTTTTAATGCAA
1 AATTATTTTTTAATGCAA
10163849 TACTTTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTATTTTTTAATGCAA
Found at i:10164968 original size:3 final size:3
Alignment explanation
Indices: 10164960--10164998 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10164950 ACTGTAAGAT
10164960 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
10164999 CAAGCTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10175114 original size:2 final size:2
Alignment explanation
Indices: 10175107--10175144 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10175097 TCAACAAGTT
*
10175107 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10175145 ACAATAACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10176256 original size:18 final size:19
Alignment explanation
Indices: 10176233--10176268 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10176223 TTTTCTTATT
*
10176233 TATATT-ATTATTTTTTAA
1 TATATTAATTAATTTTTAA
10176251 TATATTAATTAATTTTTA
1 TATATTAATTAATTTTTA
10176269 TTTATTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATATTAATTAATTTTTAA
Found at i:10177274 original size:14 final size:14
Alignment explanation
Indices: 10177240--10177274 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10177230 AGAAAGCTTT
10177240 ATTTTTTTTTTGTA
1 ATTTTTTTTTTGTA
**
10177254 AAATTTTTTTTGTA
1 ATTTTTTTTTTGTA
10177268 ATTTTTT
1 ATTTTTT
10177275 CTCAGTTTTT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
ATTTTTTTTTTGTA
Found at i:10177540 original size:17 final size:17
Alignment explanation
Indices: 10177518--10177580 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
10177508 GATAAGGAAG
*
10177518 AAGAAGAAGGAAAAAGA
1 AAGAAGAAAGAAAAAGA
10177535 AAGAAGAAAGAAAAAG-
1 AAGAAGAAAGAAAAAGA
* *
10177551 GAGAA-AAAAAAAAAGA
1 AAGAAGAAAGAAAAAGA
*
10177567 AA-AAAAAAGAAAAA
1 AAGAAGAAAGAAAAA
10177581 AAATAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 11 0.28
16 13 0.33
17 15 0.38
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAGAAAAAGA
Found at i:10177555 original size:13 final size:12
Alignment explanation
Indices: 10177521--10177583 Score: 67
Period size: 11 Copynumber: 5.2 Consensus size: 12
10177511 AAGGAAGAAG
10177521 AAGAAGGAAAAAGA
1 AAGAA-GAAAAA-A
10177535 AAGAAGAAAGAAA
1 AAGAAGAAA-AAA
*
10177548 AAGGAGAAAAAA
1 AAGAAGAAAAAA
*
10177560 AAAAAG-AAAAA
1 AAGAAGAAAAAA
10177571 AA-AAGAAAAAA
1 AAGAAGAAAAAA
10177582 AA
1 AA
10177584 TAATTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
10 3 0.07
11 14 0.32
12 7 0.16
13 13 0.30
14 7 0.16
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAA
Found at i:10177569 original size:10 final size:10
Alignment explanation
Indices: 10177528--10177583 Score: 60
Period size: 10 Copynumber: 5.4 Consensus size: 10
10177518 AAGAAGAAGG
10177528 AAAAAGAAAGA
1 AAAAAGAAA-A
*
10177539 AGAAAGAAAA
1 AAAAAGAAAA
*
10177549 AGGAGAA-AAAA
1 A--AAAAGAAAA
10177560 AAAAAGAAAA
1 AAAAAGAAAA
10177570 AAAAAGAAAA
1 AAAAAGAAAA
10177580 AAAA
1 AAAA
10177584 TAATTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 3 0.08
10 20 0.53
11 13 0.34
12 2 0.05
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:10178163 original size:46 final size:46
Alignment explanation
Indices: 10178105--10178197 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
10178095 AATAAAGCTA
10178105 ATGATGAAAGTTATTTATGTCAAAGCTGGTGTTGGTAAAAATTTTT
1 ATGATGAAAGTTATTTATGTCAAAGCTGGTGTTGGTAAAAATTTTT
10178151 ATGATGAAAGTTATTTATGTCAAAGCTGGTGTTGGTAAAAATTTTT
1 ATGATGAAAGTTATTTATGTCAAAGCTGGTGTTGGTAAAAATTTTT
10178197 A
1 A
10178198 AGGACAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (46 bp):
ATGATGAAAGTTATTTATGTCAAAGCTGGTGTTGGTAAAAATTTTT
Found at i:10178593 original size:3 final size:3
Alignment explanation
Indices: 10178587--10178634 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
10178577 TATCATCATC
10178587 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10178635 TTAGTATTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10180377 original size:15 final size:15
Alignment explanation
Indices: 10180357--10180390 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10180347 TTATTCTTAA
10180357 TTTATTAGTTAATTT
1 TTTATTAGTTAATTT
**
10180372 TTTATTTTTTAATTT
1 TTTATTAGTTAATTT
10180387 TTTA
1 TTTA
10180391 ACAAGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTATTAGTTAATTT
Found at i:10181789 original size:22 final size:23
Alignment explanation
Indices: 10181761--10181811 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
10181751 ACTCTTTTGT
10181761 TTTTTTTTTTTTG-TATTTTAGC
1 TTTTTTTTTTTTGTTATTTTAGC
* *
10181783 TTTTTTTTTTTTGTTTTTTTATC
1 TTTTTTTTTTTTGTTATTTTAGC
10181806 TTTTTT
1 TTTTTT
10181812 CTATTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.06, C:0.04, G:0.06, T:0.84
Consensus pattern (23 bp):
TTTTTTTTTTTTGTTATTTTAGC
Found at i:10182086 original size:13 final size:13
Alignment explanation
Indices: 10182064--10182096 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10182054 AAATGTAATA
10182064 AAAG-AAATTTGG
1 AAAGTAAATTTGG
10182076 AAAGTAAATTTGG
1 AAAGTAAATTTGG
*
10182089 GAAGTAAA
1 AAAGTAAA
10182097 AAGTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (13 bp):
AAAGTAAATTTGG
Found at i:10192418 original size:26 final size:26
Alignment explanation
Indices: 10192378--10192458 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
10192368 TAAAGAAAAA
10192378 TTTTTATATTAATTTAAAAAACTATT
1 TTTTTATATTAATTTAAAAAACTATT
** **
10192404 TATTTT-TATTAATTTATTAATTTATT
1 T-TTTTATATTAATTTAAAAAACTATT
10192430 TTTTTATATTAATTTAAAAAACTATT
1 TTTTTATATTAATTTAAAAAACTATT
10192456 TTT
1 TTT
10192459 ATTAAAGATT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
25 4 0.09
26 37 0.82
27 4 0.09
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTTATATTAATTTAAAAAACTATT
Found at i:10200567 original size:2 final size:2
Alignment explanation
Indices: 10200555--10200596 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
10200545 GAATCCTATG
* *
10200555 AT AT CAT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10200597 ATGGAGTCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:10203811 original size:32 final size:32
Alignment explanation
Indices: 10203750--10203811 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
10203740 TAATGAAAAC
* * * *
10203750 CATAAAACAGAGTGAATAAATAAATAATTATG
1 CATAAAACAAAATGAATAAACAAACAATTATG
*
10203782 CATAAAACAAAATGAATAAACAGACAATTA
1 CATAAAACAAAATGAATAAACAAACAATTA
10203812 AAGAATAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (32 bp):
CATAAAACAAAATGAATAAACAAACAATTATG
Found at i:10204810 original size:45 final size:45
Alignment explanation
Indices: 10204737--10204896 Score: 198
Period size: 45 Copynumber: 3.6 Consensus size: 45
10204727 AAACAATGGT
*
10204737 TTAACTACTTTG-AAAAAATAAATAAGGCTCCTTTAAGCAGAGGC
1 TTAACAACTTTGAAAAAAATAAATAAGGCTCCTTTAAGCAGAGGC
* * * * *
10204781 TCAACAACTTTGAAAAAAATAAATAAGGCTCCTCTAAGCAAATGT
1 TTAACAACTTTGAAAAAAATAAATAAGGCTCCTTTAAGCAGAGGC
** **
10204826 TTAACAACTTTGAAAAAAATAAATAAAACTCCTTTAATTAGAGGC
1 TTAACAACTTTGAAAAAAATAAATAAGGCTCCTTTAAGCAGAGGC
*
10204871 TTAACGACTTT-AGAAAAAATAAATAA
1 TTAACAACTTTGA-AAAAAATAAATAA
10204897 AGATCTAAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
44 11 0.11
45 87 0.89
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.27
Consensus pattern (45 bp):
TTAACAACTTTGAAAAAAATAAATAAGGCTCCTTTAAGCAGAGGC
Found at i:10204871 original size:90 final size:89
Alignment explanation
Indices: 10204663--10204897 Score: 255
Period size: 90 Copynumber: 2.6 Consensus size: 89
10204653 AGACTTTTGG
* * *
10204663 AATAATATAAAAACT-CTTCTAAGTAGAAGCTCCACAACTTTTG--AAAATTAAATAAAACTCCT
1 AATAA-AT-AAAACTCCTT-TAAGTAGAGGCTCAACAAC-TTTGAAAAAAATAAATAAAACTCCT
*
10204725 CTAAACAATGGTTTAACTACTTTGAAAA
62 CTAAACAATGGTTTAACAACTTTGAAAA
** * **
10204753 AATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAACTTTGAAAAAAATAAATAAGGCTCCTCTAA
1 AATAAATAAAACTCCTTTAAGTAGAGGCTCAACAACTTTGAAAAAAATAAATAAAACTCCTCTAA
*
10204818 GCAAAT-GTTTAACAACTTTGAAAAA
66 AC-AATGGTTTAACAACTTTG-AAAA
* * *
10204843 AATAAATAAAACTCCTTTAATTAGAGGCTTAACGACTTT-AGAAAAAATAAATAAA
1 AATAAATAAAACTCCTTTAAGTAGAGGCTCAACAACTTTGA-AAAAAATAAATAAA
10204898 GATCTAAACA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
87 4 0.03
88 20 0.16
89 40 0.33
90 58 0.48
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.27
Consensus pattern (89 bp):
AATAAATAAAACTCCTTTAAGTAGAGGCTCAACAACTTTGAAAAAAATAAATAAAACTCCTCTAA
ACAATGGTTTAACAACTTTGAAAA
Found at i:10204897 original size:45 final size:45
Alignment explanation
Indices: 10204663--10204897 Score: 192
Period size: 45 Copynumber: 5.2 Consensus size: 45
10204653 AGACTTTTGG
* * * **
10204663 AATAATATAAAAACTCTTCTAAGTAGAAGCTCCACAACTTTTG--AAA
1 AATAA-AT-AAAACTCCTCTAAGCAGAGGCTTAACAAC-TTTGAAAAA
* * * *
10204709 ATTAAATAAAACTCCTCTAAACA-ATGGTTTAACTACTTTG-AAAA
1 AATAAATAAAACTCCTCTAAGCAGA-GGCTTAACAACTTTGAAAAA
** * *
10204753 AATAAATAAGGCTCCTTTAAGCAGAGGCTCAACAACTTTGAAAAA
1 AATAAATAAAACTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAA
** * * *
10204798 AATAAATAAGGCTCCTCTAAGCAAATGTTTAACAACTTTGAAAAA
1 AATAAATAAAACTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAA
* ** *
10204843 AATAAATAAAACTCCTTTAATTAGAGGCTTAACGACTTT-AGAAAA
1 AATAAATAAAACTCCTCTAAGCAGAGGCTTAACAACTTTGA-AAAA
10204888 AATAAATAAA
1 AATAAATAAA
10204898 GATCTAAACA
Statistics
Matches: 153, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
43 5 0.03
44 53 0.35
45 91 0.59
46 4 0.03
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.27
Consensus pattern (45 bp):
AATAAATAAAACTCCTCTAAGCAGAGGCTTAACAACTTTGAAAAA
Found at i:10207368 original size:15 final size:15
Alignment explanation
Indices: 10207350--10207581 Score: 56
Period size: 16 Copynumber: 15.4 Consensus size: 15
10207340 TTGAAGATTC
10207350 GGATTTTAAGGGTTT
1 GGATTTTAAGGGTTT
*
10207365 GGA-TTTAA-GTTTT
1 GGATTTTAAGGGTTT
*
10207378 AAGGGTTTT-AGGGTTT
1 --GGATTTTAAGGGTTT
*
10207394 GG-TTTTAA-GGTAT
1 GGATTTTAAGGGTTT
*
10207407 GAAATGTTT-AGGGTTT
1 G-GAT-TTTAAGGGTTT
* *
10207423 TGATTTT-AGAGTTT
1 GGATTTTAAGGGTTT
10207437 GAAGATTTT-AGGGTTT
1 G--GATTTTAAGGGTTT
* **
10207453 CGATTTTAA-AATTT
1 GGATTTTAAGGGTTT
* *
10207467 -GAGGTTT-GGGGTTT
1 GGA-TTTTAAGGGTTT
* *
10207481 TGA-TTTAGGGGGTTT
1 GGATTTTA-AGGGTTT
* * *
10207496 AGATTTAAAGGATTTT
1 GGATTTTAAGG-GTTT
*
10207512 GGATTTTTAGGGATTT
1 GGATTTTAAGGG-TTT
** *
10207528 CAAATTTTAGGGGTTTT
1 -GGATTTTAAGGG-TTT
*
10207545 GGATTTTAGGGGTTTT
1 GGATTTTAAGGG-TTT
* *
10207561 GAATTTTAGGGGTTT
1 GGATTTTAAGGGTTT
10207576 GGATTT
1 GGATTT
10207582 AAGAGATTTT
Statistics
Matches: 161, Mismatches: 35, Indels: 42
0.68 0.15 0.18
Matches are distributed among these distances:
13 18 0.11
14 32 0.20
15 32 0.20
16 68 0.42
17 11 0.07
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.47
Consensus pattern (15 bp):
GGATTTTAAGGGTTT
Found at i:10207436 original size:14 final size:14
Alignment explanation
Indices: 10207413--10207460 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
10207403 GTATGAAATG
*
10207413 TTTAGGGTTTTGAT
1 TTTAGGGTTTAGAT
*
10207427 TTTAGAGTTTGAAGAT
1 TTTAGGGTTT--AGAT
*
10207443 TTTAGGGTTTCGAT
1 TTTAGGGTTTAGAT
10207457 TTTA
1 TTTA
10207461 AAATTTGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.57
16 12 0.43
ACGTcount: A:0.21, C:0.02, G:0.25, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTAGAT
Found at i:10207447 original size:30 final size:29
Alignment explanation
Indices: 10207351--10207486 Score: 102
Period size: 30 Copynumber: 4.7 Consensus size: 29
10207341 TGAAGATTCG
* *
10207351 GATTTTAAGGGTTTGGA-TTTAAGTTTTAA
1 GATTTT-AGGGTTTTGATTTTAAGTTTGAA
* * *
10207380 GGGTTTTAGGG-TTTGGTTTTAAGGTATGAA
1 -GATTTTAGGGTTTTGATTTTAA-GTTTGAA
10207410 -ATGTTTAGGGTTTTGATTTTAGAGTTTGAA
1 GAT-TTTAGGGTTTTGATTTTA-AGTTTGAA
* *
10207440 GATTTTAGGGTTTCGATTTTAAAATTTG-A
1 GATTTTAGGGTTTTGATTTT-AAGTTTGAA
* *
10207469 G-GTTTGGGGTTTTGATTT
1 GATTTTAGGGTTTTGATTT
10207487 AGGGGGTTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
28 18 0.21
29 18 0.21
30 46 0.53
31 4 0.05
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.49
Consensus pattern (29 bp):
GATTTTAGGGTTTTGATTTTAAGTTTGAA
Found at i:10207615 original size:17 final size:16
Alignment explanation
Indices: 10207516--10207619 Score: 93
Period size: 16 Copynumber: 6.4 Consensus size: 16
10207506 GATTTTGGAT
* **
10207516 TTTTAGGGATTTCAAA
1 TTTTAGGGGTTTTGAA
*
10207532 TTTTAGGGGTTTTGGA
1 TTTTAGGGGTTTTGAA
10207548 TTTTAGGGGTTTTGAA
1 TTTTAGGGGTTTTGAA
*
10207564 TTTTAGGGG-TTTGGA
1 TTTTAGGGGTTTTGAA
* ** *
10207579 TTTAAGAGATTTTTGGAT
1 TTTTAG-GGGTTTT-GAA
*
10207597 TTTTAGGGGTTTCGAA
1 TTTTAGGGGTTTTGAA
10207613 TTTTAGG
1 TTTTAGG
10207620 ACTTAAAGGT
Statistics
Matches: 69, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
15 10 0.14
16 46 0.67
17 7 0.10
18 6 0.09
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (16 bp):
TTTTAGGGGTTTTGAA
Found at i:10209866 original size:21 final size:21
Alignment explanation
Indices: 10209823--10209953 Score: 163
Period size: 21 Copynumber: 6.1 Consensus size: 21
10209813 GTTTTACATT
*
10209823 TCAAAGATTCTCATTTGAAAAC
1 TCAAAGATTCTCA-TTCAAAAC
10209845 TCAAAGATTCTCATTCAAAAC
1 TCAAAGATTCTCATTCAAAAC
*
10209866 TCAAAGATTATCATTCAAAAC
1 TCAAAGATTCTCATTCAAAAC
* * *
10209887 TCAAAAATTTTCATTGAAAAC
1 TCAAAGATTCTCATTCAAAAC
*
10209908 TCAAATATTCTCATTCAAAAC
1 TCAAAGATTCTCATTCAAAAC
* * *
10209929 TTAAAGATTCTTATTTGAAAAC
1 TCAAAGATTCTCA-TTCAAAAC
10209951 TCA
1 TCA
10209954 TAACTTTATC
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
21 73 0.77
22 22 0.23
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (21 bp):
TCAAAGATTCTCATTCAAAAC
Found at i:10210228 original size:19 final size:20
Alignment explanation
Indices: 10210204--10210249 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
10210194 TCAAATGATG
10210204 ATGCAAACAT-ATGCATGTA
1 ATGCAAACATAATGCATGTA
*
10210223 ATGCAAACATAATGCATTTA
1 ATGCAAACATAATGCATGTA
10210243 ATGCAAA
1 ATGCAAA
10210250 TAGATGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (20 bp):
ATGCAAACATAATGCATGTA
Found at i:10210384 original size:17 final size:18
Alignment explanation
Indices: 10210362--10210395 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10210352 AAAATATAAA
10210362 AAAAAACACAAA-AAAAG
1 AAAAAACACAAACAAAAG
*
10210379 AAAAAAGACAAACAAAA
1 AAAAAACACAAACAAAA
10210396 AATTACAGGA
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:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (18 bp):
AAAAAACACAAACAAAAG
Found at i:10211995 original size:20 final size:21
Alignment explanation
Indices: 10211935--10211999 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
10211925 TTTTTGATTC
*
10211935 TTTTAAATGAAAATAATAATAAG
1 TTTTAAAT-AAAATAATAA-AAT
* *
10211958 TATTAATTAAAATTAATAAAAT
1 TTTTAAATAAAA-TAATAAAAT
10211980 TTTTAAATAAAA-AATAAAAT
1 TTTTAAATAAAATAATAAAAT
10212000 GTGTGCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 8 0.22
22 16 0.44
23 12 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (21 bp):
TTTTAAATAAAATAATAAAAT
Found at i:10213634 original size:292 final size:292
Alignment explanation
Indices: 10213110--10213694 Score: 967
Period size: 292 Copynumber: 2.0 Consensus size: 292
10213100 AGCCTTACCC
*
10213110 ACCCTCTTGTAAAAAAATACCTAAGTCCAAAACGTGTAGGAATAAAAGTTGTGTGTAATACAAAA
1 ACCCTCTTGTAAAAAAATACCTAAGTCCAAAACATGTAGGAATAAAAGTTGTGTGTAATACAAAA
* * *
10213175 CAAAAAAAATCTAAAAACTCAAAAAAATGTTTTTTTCTCAAACCGCATCCTCACACTAACTCAAT
66 AAAAAAAAATCTAAAAACTCAAAAAAATGATTTTTTCTCAAACCACATCCTCACACTAACTCAAT
* * * *
10213240 TTTGTTTCGTTTTCCTTTTCTTTTTATATAAATTATATCATACAGTTCTGCATCAAGGTATTTGT
131 TTTGTTTCATTTTCCTTTTCTTTTTACATAAATCATATCATACAGTTCTGCATCAAGGTACTTGT
*
10213305 TTTAGGACATCTTTCTCTCGAGAAGTTCTTCATAGATCCCATAGAATTATAGATTCATTCAAATC
196 TCTAGGACATCTTTCTCTCGAGAAGTTCTTCATAGATCCCATAGAATTATAGATTCATTCAAATC
* *
10213370 TCATGTAACAAAAGTTGTATGGAATTAATGAG
261 TCATGTAACAAAAGTTATATGAAATTAATGAG
** *
10213402 ACCCTCTTGTGGAAAAATACCTGAGTCCAAAACATGTAGGAATAAAAGTTGTGTGTAATACAAAA
1 ACCCTCTTGTAAAAAAATACCTAAGTCCAAAACATGTAGGAATAAAAGTTGTGTGTAATACAAAA
*
10213467 TAAAAAAAAATCTCAAAACTCAAAAAAAAT-ATTTTTTCTCAAACCACATCCTCACACTAACTCA
66 -AAAAAAAAATCTAAAAACTC-AAAAAAATGATTTTTTCTCAAACCACATCCTCACACTAACTCA
* * *
10213531 ATTTTGTTTTATTTT-CTTTTTTTTTTACATAAATCATATCATACAGTTCTGCATCGAGGTACTT
129 ATTTTGTTTCATTTTCCTTTTCTTTTTACATAAATCATATCATACAGTTCTGCATCAAGGTACTT
*
10213595 GTTCTAGGATATCTTTCTCTCGAGAAGTTCTTCATAGATCCCATAGAATTATAGATTCATTCAAA
194 GTTCTAGGACATCTTTCTCTCGAGAAGTTCTTCATAGATCCCATAGAATTATAGATTCATTCAAA
10213660 TCTCATGTAACAAAAGTTATATGAAATTAATGAG
259 TCTCATGTAACAAAAGTTATATGAAATTAATGAG
10213694 A
1 A
10213695 ATTTTTAATG
Statistics
Matches: 272, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
292 201 0.74
293 63 0.23
294 8 0.03
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (292 bp):
ACCCTCTTGTAAAAAAATACCTAAGTCCAAAACATGTAGGAATAAAAGTTGTGTGTAATACAAAA
AAAAAAAAATCTAAAAACTCAAAAAAATGATTTTTTCTCAAACCACATCCTCACACTAACTCAAT
TTTGTTTCATTTTCCTTTTCTTTTTACATAAATCATATCATACAGTTCTGCATCAAGGTACTTGT
TCTAGGACATCTTTCTCTCGAGAAGTTCTTCATAGATCCCATAGAATTATAGATTCATTCAAATC
TCATGTAACAAAAGTTATATGAAATTAATGAG
Found at i:10217144 original size:35 final size:35
Alignment explanation
Indices: 10217098--10217224 Score: 148
Period size: 35 Copynumber: 3.5 Consensus size: 35
10217088 ATGCATTAGT
* *
10217098 ATTTTTAGAAAATACATTTGCATTTCATGTA-CATC
1 ATTTTAAGAAAAGACATTTGCATTTCATG-AGCATC
* *
10217133 TTTTTAAGAAAAGACATTTGCATCTCATGAGCATC
1 ATTTTAAGAAAAGACATTTGCATTTCATGAGCATC
* * *
10217168 ATTTTAAGAAAAAACATTTACATTTCATTTGCATCATC
1 ATTTTAAGAAAAGACATTTGCATTTCA--TG-AGCATC
10217206 ATTTTAAGAAAAGACATTT
1 ATTTTAAGAAAAGACATTT
10217225 CCATCATAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
34 1 0.01
35 52 0.67
37 2 0.03
38 23 0.29
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
ATTTTAAGAAAAGACATTTGCATTTCATGAGCATC
Found at i:10217677 original size:42 final size:42
Alignment explanation
Indices: 10217601--10217747 Score: 161
Period size: 42 Copynumber: 3.5 Consensus size: 42
10217591 CGTTTATATT
* * * * * *
10217601 TTCTCGGTGGTGATGTCCAAGTGTTAAGGCTTGAATTACATC
1 TTCTCAGTAGTGATATCCGAGTGTCAAGGTTTGAATTACATC
* *
10217643 TTCTCAGTTA-TGATATCCGAGTGTCAATGTTTGAATTGCATC
1 TTCTCAG-TAGTGATATCCGAGTGTCAAGGTTTGAATTACATC
* *
10217685 TTCTCAGTAGTGATATCTGAGTGTCAAGGTTTGAATTACATT
1 TTCTCAGTAGTGATATCCGAGTGTCAAGGTTTGAATTACATC
* * *
10217727 TTCTCGGTGGTGATATTCGAG
1 TTCTCAGTAGTGATATCCGAG
10217748 CATTAAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.02
42 84 0.97
43 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (42 bp):
TTCTCAGTAGTGATATCCGAGTGTCAAGGTTTGAATTACATC
Found at i:10217864 original size:42 final size:42
Alignment explanation
Indices: 10217818--10217971 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 42
10217808 CTGAAATCAT
* *
10217818 TTGCATATTCTCGGTGGTGATATCCGAA-TGTTAAGGCTTAAA
1 TTGCATTTTCTCGGTGGTGATATCC-AAGTGTCAAGGCTTAAA
* * *
10217860 TTGCATTTTCTCGGTGGTGATATCCAAGTGTCAATGTTTGAA
1 TTGCATTTTCTCGGTGGTGATATCCAAGTGTCAAGGCTTAAA
* * * * * *
10217902 TTACATTTTCTCAGTGGTGATATCTAAGTGTCGAGGTTTGAA
1 TTGCATTTTCTCGGTGGTGATATCCAAGTGTCAAGGCTTAAA
**
10217944 TTGCATTTTCTCATTGGTGATATCCAAG
1 TTGCATTTTCTCGGTGGTGATATCCAAG
10217972 CATTAAAAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
41 2 0.02
42 96 0.98
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (42 bp):
TTGCATTTTCTCGGTGGTGATATCCAAGTGTCAAGGCTTAAA
Found at i:10217896 original size:224 final size:225
Alignment explanation
Indices: 10217601--10218016 Score: 611
Period size: 224 Copynumber: 1.9 Consensus size: 225
10217591 CGTTTATATT
* * * *
10217601 TTCTCGGTGGTGATGTCCAAGTGTTAAGGCTTGAATTACATCTTCTCAGTTATGATATCCGAGTG
1 TTCTCGGTGGTGATATCCAAGTGTTAAGGCTTAAATTACATCTTCTCAGTGATGATATCCAAGTG
* *
10217666 TCAATGTTTGAATTGCATCTTCTCAGTAGTGATATCTGAGTGTCAAGGTTTGAATTACATTTTCT
66 TCAATGTTTGAATTACATCTTCTCAGTAGTGATATCTAAGTGTCAAGGTTTGAATTACATTTTCT
* * * * *
10217731 CGGTGGTGATATTCGAGCATTAAAAAATTATTTACATTTTTT-TATGGTGATATTCGAGTTTTTT
131 CAGTGGTGATATCCAAGCATTAAAAAATCATTTACATTTTTTCGATGGTGATATTCGAGTTTTTT
10217795 TCATTGGTGATATCTGAAATCATTTGCATA
196 TCATTGGTGATATCTGAAATCATTTGCATA
* * * *
10217825 TTCTCGGTGGTGATATCCGAA-TGTTAAGGCTTAAATTGCATTTTCTCGGTGGTGATATCCAAGT
1 TTCTCGGTGGTGATATCC-AAGTGTTAAGGCTTAAATTACATCTTCTCAGTGATGATATCCAAGT
* * * *
10217889 GTCAATGTTTGAATTACATTTTCTCAGTGGTGATATCTAAGTGTCGAGGTTTGAATTGCATTTTC
65 GTCAATGTTTGAATTACATCTTCTCAGTAGTGATATCTAAGTGTCAAGGTTTGAATTACATTTTC
* * *
10217954 TCATTGGTGATATCCAAGCATTAAAAAATCATTTGCATTTTTTCGATGGTGATATTTGAGTTT
130 TCAGTGGTGATATCCAAGCATTAAAAAATCATTTACATTTTTTCGATGGTGATATTCGAGTTT
10218017 CCTACGGTGG
Statistics
Matches: 168, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
224 149 0.89
225 19 0.11
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (225 bp):
TTCTCGGTGGTGATATCCAAGTGTTAAGGCTTAAATTACATCTTCTCAGTGATGATATCCAAGTG
TCAATGTTTGAATTACATCTTCTCAGTAGTGATATCTAAGTGTCAAGGTTTGAATTACATTTTCT
CAGTGGTGATATCCAAGCATTAAAAAATCATTTACATTTTTTCGATGGTGATATTCGAGTTTTTT
TCATTGGTGATATCTGAAATCATTTGCATA
Found at i:10217993 original size:84 final size:83
Alignment explanation
Indices: 10217811--10218008 Score: 182
Period size: 84 Copynumber: 2.3 Consensus size: 83
10217801 GTGATATCTG
* * *
10217811 AAATCATTTGCATATTCTCGGTGGTGATATCCGAATGTTAAGGCTTAAATTGCATTTTCTCGGTG
1 AAATCATTTGCATTTTCTC-GTGGTGATATCCGAATGTCAAGGCTTAAATTGCATTTTCTCAGTG
** *
10217876 GTGATATCCAAGTGTCAAT
65 GTGATATCCAAGCATCAAA
*** * * * * * * * *
10217895 GTTTGAATTACATTTTCTCAGTGGTGATAT-CTAAGTGTCGAGGTTTGAATTGCATTTTCTCATT
1 AAATCATTTGCATTTTCTC-GTGGTGATATCCGAA-TGTCAAGGCTTAAATTGCATTTTCTCAGT
*
10217959 GGTGATATCCAAGCATTAAA
64 GGTGATATCCAAGCATCAAA
*
10217979 AAATCATTTGCATTTTTTCGATGGTGATAT
1 AAATCATTTGCATTTTCTCG-TGGTGATAT
10218009 TTGAGTTTCC
Statistics
Matches: 86, Mismatches: 26, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
83 4 0.05
84 82 0.95
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (83 bp):
AAATCATTTGCATTTTCTCGTGGTGATATCCGAATGTCAAGGCTTAAATTGCATTTTCTCAGTGG
TGATATCCAAGCATCAAA
Found at i:10218165 original size:99 final size:99
Alignment explanation
Indices: 10217970--10218153 Score: 296
Period size: 99 Copynumber: 1.9 Consensus size: 99
10217960 GTGATATCCA
* * * *
10217970 AGCATTAAAAAATCATTTGCATTTTTTCGATGGTGATATTTGAGTTTCCTACGGTGGTGATATCC
1 AGCATTAAAAAATCATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTACAGTGGCGATATCC
*
10218035 AAAGTCATTTGTATATTCTCAATGATGATATTTG
66 AAAGTCATTTGCATATTCTCAATGATGATATTTG
* *
10218069 AGCATTAAAAAATCATTTGTATTTTCTCGATGGTGATATTCGAGTTTCCTTCAGTGGCGATATCC
1 AGCATTAAAAAATCATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTACAGTGGCGATATCC
*
10218134 GAAGTCATTTGCATATTCTC
66 AAAGTCATTTGCATATTCTC
10218154 GGTGGTGATA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (99 bp):
AGCATTAAAAAATCATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTACAGTGGCGATATCC
AAAGTCATTTGCATATTCTCAATGATGATATTTG
Found at i:10218186 original size:99 final size:99
Alignment explanation
Indices: 10217944--10218169 Score: 281
Period size: 99 Copynumber: 2.3 Consensus size: 99
10217934 GAGGTTTGAA
* * * * * * *
10217944 TTGCATTTTCTCATTGGTGATATCCAAGCATTAAAAAATCATTTGCATTTTTTCGATGGTGATAT
1 TTGCATATTCTCAATGATGATATTCGAGCATTAAAAAATAATTTGCATTTTCTCGATGGTGATAT
* * *
10218009 TTGAGTTTCCTACGGTGGTGATATCCAAAGTCAT
66 TCGAGTTTCCTACAGTGGCGATATCCAAAGTCAT
* * * *
10218043 TTGTATATTCTCAATGATGATATTTGAGCATTAAAAAATCATTTGTATTTTCTCGATGGTGATAT
1 TTGCATATTCTCAATGATGATATTCGAGCATTAAAAAATAATTTGCATTTTCTCGATGGTGATAT
* *
10218108 TCGAGTTTCCTTCAGTGGCGATATCCGAAGTCAT
66 TCGAGTTTCCTACAGTGGCGATATCCAAAGTCAT
** *
10218142 TTGCATATTCTCGGTGGTGATATTCGAG
1 TTGCATATTCTCAATGATGATATTCGAG
10218170 TTTAAAGTTT
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
99 108 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (99 bp):
TTGCATATTCTCAATGATGATATTCGAGCATTAAAAAATAATTTGCATTTTCTCGATGGTGATAT
TCGAGTTTCCTACAGTGGCGATATCCAAAGTCAT
Found at i:10218245 original size:54 final size:54
Alignment explanation
Indices: 10218139--10218245 Score: 119
Period size: 54 Copynumber: 2.0 Consensus size: 54
10218129 TATCCGAAGT
** * *
10218139 CATTTGCATATTCTCGGTGGTGATATTCGAGTTTAAAGTTTAAATTTGCATTTG
1 CATTTGCATATTCTCAATGGTGATATTCGAGTTTAAAGCTTAAATTTACATTTG
* * *
10218193 CATTTGCATTTTCTCAATGGTGATA-TCTTAGTATTAAAGCTTGAA-TTACATTT
1 CATTTGCATATTCTCAATGGTGATATTC-GAGT-TTAAAGCTTAAATTTACATTT
10218246 TCTTGATGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.05
54 32 0.73
55 10 0.23
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (54 bp):
CATTTGCATATTCTCAATGGTGATATTCGAGTTTAAAGCTTAAATTTACATTTG
Found at i:10218419 original size:147 final size:149
Alignment explanation
Indices: 10218089--10218432 Score: 451
Period size: 153 Copynumber: 2.3 Consensus size: 149
10218079 AATCATTTGT
* * *
10218089 ATTTTCTCGATGGTGATATTCGAGTTTCCTTCAGTGGCGATATCCGAAGTCATTTGCATATTCTC
1 ATTTTCTTGATGGTGATATTCGAGTTTCCTTCAGTGACGATATCAGAAGTCATTTGCATATTCTC
* *
10218154 GGTGGTGATATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTTGCATTTTCTCAATGGTGATAT
66 AGTGGTGAAATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTTGC----TCTCAATGGTGATAT
**
10218219 CTTAGTATTAAAGCTTGAATTAC
127 CCGAGTATTAAAGCTTGAATTAC
* * ** * *
10218242 ATTTTCTTGATGGTCATATTTGAGTTTCCTTTGGTGATGATATCAGAAGTCATTTGCATATTCTT
1 ATTTTCTTGATGGTGATATTCGAGTTTCCTTCAGTGACGATATCAGAAGTCATTTGCATATTCTC
* **
10218307 AGTGGTGAAA-TCTGAGTTTAAAGTTTGAATTTGCATTTGCATTT-C-CTCGGTGGTGATATCCG
66 AGTGGTGAAATTC-GAGTTTAAAGTTTAAATTTGCATTTGCATTTGCTCTCAATGGTGATATCCG
10218369 AGTATTAAAGCTTGAATTAC
130 AGTATTAAAGCTTGAATTAC
* * *
10218389 ATTTTTTTGATGGTGATATTCGTGTTTCCTTCAGTGACAATATC
1 ATTTTCTTGATGGTGATATTCGAGTTTCCTTCAGTGACGATATC
10218433 CAAAGTAGGG
Statistics
Matches: 166, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
147 69 0.42
152 3 0.02
153 94 0.57
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (149 bp):
ATTTTCTTGATGGTGATATTCGAGTTTCCTTCAGTGACGATATCAGAAGTCATTTGCATATTCTC
AGTGGTGAAATTCGAGTTTAAAGTTTAAATTTGCATTTGCATTTGCTCTCAATGGTGATATCCGA
GTATTAAAGCTTGAATTAC
Found at i:10218600 original size:21 final size:20
Alignment explanation
Indices: 10218571--10218615 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10218561 AATAAAATAT
*
10218571 TATTTTTTTTAAAATATAAAA
1 TATTATTTTTAAAATAT-AAA
*
10218592 TATTATTTTTTAAATATAAA
1 TATTATTTTTAAAATATAAA
10218612 TATT
1 TATT
10218616 TAAAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTTTTAAAATATAAA
Found at i:10218603 original size:22 final size:22
Alignment explanation
Indices: 10218562--10218615 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 22
10218552 CCCGAAATTA
10218562 ATAAAATATTATTTTTTTTAAAAT
1 ATAAAATATTA-TTTTTTT-AAAT
10218586 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
10218607 AT-AAATATT
1 ATAAAATATT
10218616 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 6 0.20
24 11 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:10218624 original size:30 final size:30
Alignment explanation
Indices: 10218588--10218644 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10218578 TTTAAAATAT
* * *
10218588 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
10218618 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
10218645 AATAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:10219158 original size:49 final size:48
Alignment explanation
Indices: 10219041--10219168 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 48
10219031 AGAAGAGATT
* * *
10219041 TTTTTCAAAATAGAATTTTAAAGTCGTTGAGCCTCTA-TTGACAGGAGC
1 TTTTTCAAAATAAAATTTTAAAGTTGTTGAGCCTCTACTT-AGAGGAGC
* **
10219089 TTTTTCTAATATATGATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC
1 TTTTTC-AAAATAAAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC
* * *
10219138 TTTCTCAAGATAAAATTTTTAAAGTTATTGA
1 TTTTTCAAAATAAAA-TTTTAAAGTTGTTGA
10219169 ACCTTTGCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 12 0.18
49 53 0.79
50 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (48 bp):
TTTTTCAAAATAAAATTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGC
Found at i:10220866 original size:19 final size:18
Alignment explanation
Indices: 10220826--10220866 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10220816 TATAAAATAG
* *
10220826 TAAATTAAAATTAATTAA
1 TAAATTAAAATAAATAAA
10220844 TAAATTAAAAGTAAATAAA
1 TAAATTAAAA-TAAATAAA
10220863 TAAA
1 TAAA
10220867 AAATGTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAATTAAAATAAATAAA
Found at i:10221865 original size:79 final size:79
Alignment explanation
Indices: 10221752--10221921 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 79
10221742 CTATCCCAAA
* * * * * * * *
10221752 ATAAATTTTGTCCACTAATCCACATCATTTGCATCATTTGATCATAATTCATAGGCTTTTTAGCA
1 ATAAATTTCGTCCACTAATCCACATCATTTGCATCATTTAATCATAACTCACAAGCTTCTCAACA
10221817 CTAACAATTTTAGC
66 CTAACAATTTTAGC
* * ** *
10221831 ATAAATTTCGTCTACTGATCCACATTGTTTGCATCATTTAATCATAACTCACAAGCTTCTCAACC
1 ATAAATTTCGTCCACTAATCCACATCATTTGCATCATTTAATCATAACTCACAAGCTTCTCAACA
**
10221896 CTAGTAATTTTAGC
66 CTAACAATTTTAGC
10221910 ATAAATTTCGTC
1 ATAAATTTCGTC
10221922 AATCGATTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (79 bp):
ATAAATTTCGTCCACTAATCCACATCATTTGCATCATTTAATCATAACTCACAAGCTTCTCAACA
CTAACAATTTTAGC
Found at i:10222551 original size:7 final size:7
Alignment explanation
Indices: 10222541--10222591 Score: 66
Period size: 7 Copynumber: 7.1 Consensus size: 7
10222531 CACTTTTTTC
10222541 TTTCATT
1 TTTCATT
10222548 TTTCATT
1 TTTCATT
10222555 TTTCATT
1 TTTCATT
*
10222562 TTTTATT
1 TTTCATT
**
10222569 TTCTTTTT
1 TT-TCATT
10222577 TTTCATT
1 TTTCATT
10222584 TTTCATT
1 TTTCATT
10222591 T
1 T
10222592 CATTTTTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
7 33 0.85
8 6 0.15
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCATT
Found at i:10222581 original size:22 final size:22
Alignment explanation
Indices: 10222553--10222610 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
10222543 TCATTTTTCA
10222553 TTTTTCATTTTTTATTTTC-TTT
1 TTTTTCATTTTTTA-TTTCATTT
*
10222575 TTTTTCATTTTTCATTTCATTT
1 TTTTTCATTTTTTATTTCATTT
10222597 TTTTGTCATTTTTT
1 TTTT-TCATTTTTT
10222611 CTCCATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 20 0.62
23 8 0.25
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTCATTTTTTATTTCATTT
Found at i:10222588 original size:29 final size:29
Alignment explanation
Indices: 10222536--10222627 Score: 103
Period size: 29 Copynumber: 2.9 Consensus size: 29
10222526 TTTTACACTT
10222536 TTTTCTTTCATTTTTCATTTTTCATTTTTTA
1 TTTTCTTT--TTTTTCATTTTTCATTTTTTA
*
10222567 TTTTCTTTTTTTTCATTTTTCATTTCATTTT
1 TTTTCTTTTTTTTCATTTTTCATTT--TTTA
*
10222598 TTTGTCATTTTTTCTCCATTTTTCATTTTT
1 TTT-TC-TTTTTT-TTCATTTTTCATTTTT
10222628 CCTTGTCTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
29 17 0.31
31 14 0.26
32 4 0.07
33 6 0.11
34 13 0.24
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.74
Consensus pattern (29 bp):
TTTTCTTTTTTTTCATTTTTCATTTTTTA
Found at i:10222598 original size:34 final size:33
Alignment explanation
Indices: 10222546--10222625 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 33
10222536 TTTTCTTTCA
*
10222546 TTTTTCATTTTTCATTT--TTTATTT-TC-TTT
1 TTTTTCATTTTTCATTTCATTTTTTTGTCATTT
10222575 TTTTTCATTTTTCATTTCATTTTTTTGTCATTT
1 TTTTTCATTTTTCATTTCATTTTTTTGTCATTT
*
10222608 TTTCTCCATTTTTCATTT
1 TTT-TTCATTTTTCATTT
10222626 TTCCTTGTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 17 0.39
31 6 0.14
32 2 0.05
33 6 0.14
34 13 0.30
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.74
Consensus pattern (33 bp):
TTTTTCATTTTTCATTTCATTTTTTTGTCATTT
Found at i:10223129 original size:16 final size:16
Alignment explanation
Indices: 10223104--10223143 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10223094 CCCAGTATAG
*
10223104 AGGGTGATCCTTGATT
1 AGGGTTATCCTTGATT
10223120 AGGGTTATCCTTGATT
1 AGGGTTATCCTTGATT
*
10223136 AAGGTTAT
1 AGGGTTAT
10223144 TTAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.40
Consensus pattern (16 bp):
AGGGTTATCCTTGATT
Found at i:10224201 original size:196 final size:195
Alignment explanation
Indices: 10223852--10224427 Score: 753
Period size: 196 Copynumber: 2.9 Consensus size: 195
10223842 GACTAACTGG
* * * ** * *
10223852 AGATACGAAGTTGTTCTTTCCCAGTTCTAGGAATAACTCGGTGTAAGTTACAGGGATAAGATCAA
1 AGATACAAAGTTGTT-TTTTCTAGTTCTAGGAATAACTCAATGTAAGTCACAAGGATAAGATCAA
* * * *
10223917 TGTGGGTCCTTTTTTGGTTATTCTGAGATCTTCTTAAACCACT-AGCTTAGTTATTAGGCTTTGA
65 TGTGGGCCCTTTCTTAGTTATTTTGAGATCTTCTTAAACCACTCA-CTTAGTTATTAGGCTTTGA
* * * * *
10223981 CGCTGATGTAGTAATATAACTAGACCCATAAGTAGGTACTTGAAAGGTTGATTGAT-GGATAAAC
129 AGCTGATGTAGTGATATGACTAGACCCATATGTAGGTACTTGAAAGGTTGATTGATAAG-TAAAC
10224045 TAA
193 TAA
* *
10224048 AGATACAAAGTTGTTTTTTGCTAGTTCTAGGAATAACTCAATGTATGTCACAAGGATAAAATCAA
1 AGATACAAAGTTGTTTTTT-CTAGTTCTAGGAATAACTCAATGTAAGTCACAAGGATAAGATCAA
* * *
10224113 TGTGGGCCCTTTCTTAGTTATTTTGAGATCTTTTTAAACCACTCACTTGGTTTTTAGGCTTTGAA
65 TGTGGGCCCTTTCTTAGTTATTTTGAGATCTTCTTAAACCACTCACTTAGTTATTAGGCTTTGAA
* *
10224178 GCTGATGTAGTGATATGACTAGACCCATATGTAGGTAATTGAAAGGCTT-ATTGGTAAGTAAACT
130 GCTGATGTAGTGATATGACTAGACCCATATGTAGGTACTTGAAAGG-TTGATTGATAAGTAAACT
*
10224242 AG
194 AA
* * *
10224244 AGATACAAAATTGTTTTTTATCAGTTATAGGAATAACTCAATGTAAGTCACAAGGATAAGATCAA
1 AGATACAAAGTTGTTTTTTCT-AGTTCTAGGAATAACTCAATGTAAGTCACAAGGATAAGATCAA
* * * * * *
10224309 TGTAGGCCTTTTCTTAGTTATTTTGATATCTCCTTAAACCACTCACTTAGTTGTTAGGCTTTAAA
65 TGTGGGCCCTTTCTTAGTTATTTTGAGATCTTCTTAAACCACTCACTTAGTTATTAGGCTTT-GA
* *
10224374 AGCTGATGTAGTGATATGACTAGACCTATATGTAGGTACTTGAAAGGCTGATTG
129 AGCTGATGTAGTGATATGACTAGACCCATATGTAGGTACTTGAAAGGTTGATTG
10224428 GTAGGTTGAA
Statistics
Matches: 333, Mismatches: 40, Indels: 13
0.86 0.10 0.03
Matches are distributed among these distances:
195 4 0.01
196 275 0.83
197 54 0.16
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (195 bp):
AGATACAAAGTTGTTTTTTCTAGTTCTAGGAATAACTCAATGTAAGTCACAAGGATAAGATCAAT
GTGGGCCCTTTCTTAGTTATTTTGAGATCTTCTTAAACCACTCACTTAGTTATTAGGCTTTGAAG
CTGATGTAGTGATATGACTAGACCCATATGTAGGTACTTGAAAGGTTGATTGATAAGTAAACTAA
Found at i:10227414 original size:20 final size:20
Alignment explanation
Indices: 10227380--10227417 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10227370 ATAAAGTTAT
**
10227380 TTTATTATTGTTTTATTTCA
1 TTTATTATTAATTTATTTCA
10227400 TTTATTATTAATTTATTT
1 TTTATTATTAATTTATTT
10227418 AATATCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTATTATTAATTTATTTCA
Found at i:10230044 original size:14 final size:14
Alignment explanation
Indices: 10230027--10230059 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10230017 TTATTGATGG
10230027 TTATTTATTTTAAA
1 TTATTTATTTTAAA
10230041 TTATTTATTTTAAA
1 TTATTTATTTTAAA
10230055 TTATT
1 TTATT
10230060 AAATATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTATTTTAAA
Found at i:10232130 original size:13 final size:13
Alignment explanation
Indices: 10232114--10232138 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10232104 AAAAAAGGAC
10232114 AAAAATAAAAATA
1 AAAAATAAAAATA
10232127 AAAAATAAAAAT
1 AAAAATAAAAAT
10232139 TTTGGTTTAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:10236358 original size:21 final size:21
Alignment explanation
Indices: 10236325--10236383 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
10236315 GAAAAAAAAT
* *
10236325 AAAAAAGAAGAAAAAGGGAAAG
1 AAAAAA-ATGAAAAAAGGAAAG
*
10236347 AAAAAAATGAAAAAATGAAAG
1 AAAAAAATGAAAAAAGGAAAG
10236368 AGAAAAAATGAAAAAA
1 A-AAAAAATGAAAAAA
10236384 TAGAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (21 bp):
AAAAAAATGAAAAAAGGAAAG
Found at i:10236359 original size:8 final size:8
Alignment explanation
Indices: 10236348--10236392 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
10236338 AAGGGAAAGA
10236348 AAAAAATG
1 AAAAAATG
10236356 AAAAAATG
1 AAAAAATG
*
10236364 -AAAGA-G
1 AAAAAATG
10236370 AAAAAATG
1 AAAAAATG
10236378 AAAAAATAG
1 AAAAAAT-G
10236387 AAAAAA
1 AAAAAA
10236393 AGACTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 1 0.03
7 8 0.25
8 16 0.50
9 7 0.22
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:10236360 original size:22 final size:22
Alignment explanation
Indices: 10236334--10236383 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
10236324 TAAAAAAGAA
*
10236334 GAAAAAGGGAAAGA-AAAAAAT
1 GAAAAAAGGAAAGAGAAAAAAT
*
10236355 GAAAAAATGAAAGAGAAAAAAT
1 GAAAAAAGGAAAGAGAAAAAAT
10236377 GAAAAAA
1 GAAAAAA
10236384 TAGAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (22 bp):
GAAAAAAGGAAAGAGAAAAAAT
Found at i:10236384 original size:22 final size:22
Alignment explanation
Indices: 10236342--10236393 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
10236332 AAGAAAAAGG
10236342 GAAAGAAAAAAATGAAAAAAT-
1 GAAAGAAAAAAATGAAAAAATA
10236363 GAAAGAGAAAAAATGAAAAAATA
1 GAAAGA-AAAAAATGAAAAAATA
10236386 GAAA-AAAA
1 GAAAGAAAA
10236394 GACTCAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.31
22 16 0.55
23 4 0.14
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAAGAAAAAAATGAAAAAATA
Found at i:10237315 original size:63 final size:63
Alignment explanation
Indices: 10237096--10237379 Score: 275
Period size: 63 Copynumber: 4.5 Consensus size: 63
10237086 ATAAGTGGGC
* * * * *
10237096 AAAATTTGTTCTGAAATGGTTAGTGTTGAGAAACCTATAATTGGTGACCAAGTGATGAAAGAT
1 AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAACCTATAAGTGGTGACCAAGTGATGGAAGAT
* * * * * * *
10237159 GAAATTTGTTCTTAAATGGTTAATGCCGAGAAACCTATGAGTGATGACCAAGTGATGG-AGAAT
1 AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAACCTATAAGTGGTGACCAAGTGATGGAAG-AT
* * * * * *
10237222 GAAATTTGTTTTAAAATGGTTAGTGTTGAAAAACTTATGAGTGGTGACCAAGTGATGGAGGAT
1 AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAACCTATAAGTGGTGACCAAGTGATGGAAGAT
* * * * * * * * *
10237285 AAAATTTGTTCTGAAATGGCTAGTACTGAAAAGCTTATAAATGGTGATCAAGTGATAGAAGAC
1 AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAACCTATAAGTGGTGACCAAGTGATGGAAGAT
* * *
10237348 AGAATTCGTTCTAAAATGGCTAGTGCT-AAAAA
1 AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAA
10237380 GCTCAAAATG
Statistics
Matches: 183, Mismatches: 36, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
62 6 0.03
63 176 0.96
64 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (63 bp):
AAAATTTGTTCTAAAATGGTTAGTGCTGAAAAACCTATAAGTGGTGACCAAGTGATGGAAGAT
Found at i:10237337 original size:126 final size:126
Alignment explanation
Indices: 10237097--10237372 Score: 306
Period size: 126 Copynumber: 2.2 Consensus size: 126
10237087 TAAGTGGGCA
* * * *
10237097 AAATTTGTTCTGAAATGGTTAGTGTTGAGAAACCTATAATTGGTGACCAAGTGATGAAAGATGAA
1 AAATTTGTTCTAAAATGGTTAGTGTTGAAAAACCTATAAGTGGTGACCAAGTGATGAAAGATAAA
* * * * *
10237162 ATTTGTTCTTAAATGGTTAATGCCGAGAAACCTATGAGTGATGACCAAGTGATGGAGAATG
66 ATTTGTTCTGAAATGGCTAATACCGAGAAACCTATAAATGATGACCAAGTGATGGAGAATG
* * * * *
10237223 AAATTTGTTTTAAAATGGTTAGTGTTGAAAAACTTATGAGTGGTGACCAAGTGATGGAGGATAAA
1 AAATTTGTTCTAAAATGGTTAGTGTTGAAAAACCTATAAGTGGTGACCAAGTGATGAAAGATAAA
* * * * * *
10237288 ATTTGTTCTGAAATGGCTAGTACTGA-AAAGCTTATAAATGGTGATCAAGTGATAGAAGACA-G
66 ATTTGTTCTGAAATGGCTAATACCGAGAAA-CCTATAAATGATGACCAAGTGAT-GGAGA-ATG
* *
10237350 -AATTCGTTCTAAAATGGCTAGTG
1 AAATTTGTTCTAAAATGGTTAGTG
10237373 CTAAAAAGCT
Statistics
Matches: 124, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
125 3 0.02
126 115 0.93
127 5 0.04
128 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.31
Consensus pattern (126 bp):
AAATTTGTTCTAAAATGGTTAGTGTTGAAAAACCTATAAGTGGTGACCAAGTGATGAAAGATAAA
ATTTGTTCTGAAATGGCTAATACCGAGAAACCTATAAATGATGACCAAGTGATGGAGAATG
Found at i:10237755 original size:46 final size:46
Alignment explanation
Indices: 10237702--10237911 Score: 289
Period size: 46 Copynumber: 4.6 Consensus size: 46
10237692 TTGATGAAGT
10237702 CCTTTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
1 CCTTTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
* * *
10237748 CCTTTGAGTCTTAAATGAGAATCTTTAAGATGTTTTCAAATGAAAA
1 CCTTTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
* * * * *
10237794 ACTTTGAGTCTTAAATAAGAATATTTAAAATGTTTTCAAATAAGAA
1 CCTTTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
* *
10237840 -ATGTTGAGTCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAA
1 CCT-TTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
*
10237886 CCTTTGAATCTTAAATGAA-AATCTTT
1 CCTTTGAGTCTTAAAT-AAGAATCTTT
10237912 GAGAATCTTT
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 140 0.98
47 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (46 bp):
CCTTTGAGTCTTAAATAAGAATCTTTAAGACGTTTTCAAATGAGAA
Found at i:10237922 original size:31 final size:31
Alignment explanation
Indices: 10237880--10237947 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
10237870 CGTTTTCAAA
10237880 TGAGAACCTTTGAATCTTAAATGAA-AATCTT
1 TGAGAACCTTTGAATCTTAAAT-AAGAATCTT
* * *
10237911 TGAGAATCTTTGAGTTTTAAATAAGAATCTT
1 TGAGAACCTTTGAATCTTAAATAAGAATCTT
*
10237942 TAAGAA
1 TGAGAA
10237948 GAACTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (31 bp):
TGAGAACCTTTGAATCTTAAATAAGAATCTT
Found at i:10238628 original size:83 final size:83
Alignment explanation
Indices: 10238421--10238876 Score: 383
Period size: 83 Copynumber: 5.5 Consensus size: 83
10238411 CAAGGAGCCT
* * * * * * *
10238421 TTTATTTTTCAAAATTGTTGTTCCTCTGTTTAGAGAAGACTTTTATTTTCCAAAGTTGTAATGCC
1 TTTATTTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAG-CTTTTATTTTTCAAAGTTATTATGCC
** ** *
10238486 TCTGTTTAGAAAAGC---C
65 TCTACTTAGAGGAGCTTTA
* * *
10238502 TTTATTTTTCAAAGTTGTTGTGCCTCTG-CTAGAGGAGCTTTT-TATTTTCTAAATTTATTATGC
1 TTTATTTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAGCTTTTAT-TTTTC-AAAGTTATTATGC
* *
10238565 CCCTATTTAGAGGAGCTTTA
64 CTCTACTTAGAGGAGCTTTA
* * *
10238585 TTTATTTTCCAAAGTTGTTATGCCTCTGTTTAGAGGGGCTTTTATTTTTCAAAGTTATTGTGCCT
1 TTTATTTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAGCTTTTATTTTTCAAAGTTATTATGCCT
* * *
10238650 TTACTTAAAGGAGTTTTA
66 CTACTTAGAGGAGCTTTA
* * * *
10238668 TTTATTTTTTTCAAAGTTATTGA-GCCTCTGTTTAGAGAAGCCTTTATTTTTCAAAGTTGTTGA-
1 TTTA--TTTTTCAAAGTTGTT-ATGCCTCTGTTTAGAGGAGCTTTTATTTTTCAAAGTTATT-AT
*
10238731 GCCTCTGCTTAGAGGAGCTTTA
62 GCCTCTACTTAGAGGAGCTTTA
* * ** * * *
10238753 TTTATTTTTCAAAGTTATTGA-GCCTTTACTTAGAGGAGCCTTTATTTTTCAAAATTGTTGA-GC
1 TTTATTTTTCAAAGTTGTT-ATGCCTCTGTTTAGAGGAGCTTTTATTTTTCAAAGTTATT-ATGC
* * *
10238816 TTCTACTTACAGGAACTTTA
64 CTCTACTTAGAGGAGCTTTA
* * *
10238836 TTTATTTTTCAAAGTTGTTGA-GCCTTTGATTGGAGGAGCTT
1 TTTATTTTTCAAAGTTGTT-ATGCCTCTGTTTAGAGGAGCTT
10238877 GATTTATTTT
Statistics
Matches: 315, Mismatches: 49, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.00
79 9 0.03
80 29 0.09
81 26 0.08
83 162 0.51
84 17 0.05
85 70 0.22
86 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (83 bp):
TTTATTTTTCAAAGTTGTTATGCCTCTGTTTAGAGGAGCTTTTATTTTTCAAAGTTATTATGCCT
CTACTTAGAGGAGCTTTA
Found at i:10238716 original size:168 final size:166
Alignment explanation
Indices: 10238502--10238860 Score: 413
Period size: 168 Copynumber: 2.2 Consensus size: 166
10238492 TAGAAAAGCC
* * * *
10238502 TTTATTTTTCAAAGTTGTTGTGCCTCTGCTAGAGGAGCTTTTTA-TTTTCTAAATTTATT-ATGC
1 TTTATTTTTCAAAGTTGTTGAGCCTCTGCTAGAGAAGCTCTTTATTTTTC-AAAGTTATTGA-GC
* * ** * *
10238565 CCCTATTTAGAGGAGCTTTATTTATTTTCCAAAGTTGTT-ATGCCTCTGTTTAGAGGGGCTTTTA
64 CCCTACTTAGAGGAGCTTTATTTATTTTCCAAAGTTATTGA-GCCTCTACTTAGAGGAGCCTTTA
* * **
10238629 TTTTTCAAAGTTATTGTGCCTT-TACTTAAAGGAGTTTTA
128 TTTTTCAAAATTATTGAG-CTTCTACTTAAAGGAACTTTA
* * *
10238668 TTTATTTTTTTCAAAGTTATTGAGCCTCTGTTTAGAGAAGC-CTTTATTTTTCAAAGTTGTTGAG
1 TTTA--TTTTTCAAAGTTGTTGAGCCTCTG-CTAGAGAAGCTCTTTATTTTTCAAAGTTATTGAG
* * * *
10238732 CCTCTGCTTAGAGGAGCTTTATTTATTTTTCAAAGTTATTGAGCCTTTACTTAGAGGAGCCTTTA
63 CCCCTACTTAGAGGAGCTTTATTTATTTTCCAAAGTTATTGAGCCTCTACTTAGAGGAGCCTTTA
* *
10238797 TTTTTCAAAATTGTTGAGCTTCTACTTACAGGAACTTTA
128 TTTTTCAAAATTATTGAGCTTCTACTTAAAGGAACTTTA
10238836 TTTATTTTTCAAAGTTGTTGAGCCT
1 TTTATTTTTCAAAGTTGTTGAGCCT
10238861 TTGATTGGAG
Statistics
Matches: 162, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
166 24 0.15
167 3 0.02
168 120 0.74
169 15 0.09
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.47
Consensus pattern (166 bp):
TTTATTTTTCAAAGTTGTTGAGCCTCTGCTAGAGAAGCTCTTTATTTTTCAAAGTTATTGAGCCC
CTACTTAGAGGAGCTTTATTTATTTTCCAAAGTTATTGAGCCTCTACTTAGAGGAGCCTTTATTT
TTCAAAATTATTGAGCTTCTACTTAAAGGAACTTTA
Found at i:10238814 original size:40 final size:40
Alignment explanation
Indices: 10238413--10238874 Score: 288
Period size: 40 Copynumber: 11.2 Consensus size: 40
10238403 ATGATTGTCA
* ** *
10238413 AGGAGCCTTTTATTTTTCAAAATTGTTGTTCCTCTGTTTAG
1 AGGAGCC-TTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
* * * * *
10238454 AGAAGACTTTTATTTTCCAAAGTTG-TAATGCCTCTGTTTAG
1 AGGAG-CCTTTATTTTTCAAAGTTGTTGA-GCCTCTGCTTAG
** *
10238495 AAAAGCCTTTATTTTTCAAAGTTGTTGTGCCTCTGC-TAG
1 AGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
* * * * **
10238534 AGGAG-CTTTTTATTTTCTAAATTTATT-ATGCCCCTATTTAG
1 AGGAGCCTTTAT-TTTTC-AAAGTTGTTGA-GCCTCTGCTTAG
*
10238575 AGGAG-CTTTATTTATTTTCCAAAGTTGTT-ATGCCTCTGTTTAG
1 AGGAGCCTTTA--T-TTTT-CAAAGTTGTTGA-GCCTCTGCTTAG
* * * * * * *
10238618 AGGGGCTTTTATTTTTCAAAGTTATTGTGCCTTTACTTAA
1 AGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
** * *
10238658 AGGAGTTTTATTTATTTTTTTCAAAGTTATTGAGCCTCTGTTTAG
1 AGGAG---CCTTTA--TTTTTCAAAGTTGTTGAGCCTCTGCTTAG
*
10238703 AGAAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
1 AGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
* * * *
10238743 AGGAGCTTTATTTATTTTTCAAAGTTATTGAGCCTTTACTTAG
1 AGGAGC---CTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
* * * *
10238786 AGGAGCCTTTATTTTTCAAAATTGTTGAGCTTCTACTTAC
1 AGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
* * * * *
10238826 AGGAACTTTATTTATTTTTCAAAGTTGTTGAGCCTTTGATTGG
1 AGGAGC---CTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
10238869 AGGAGC
1 AGGAGC
10238875 TTGATTTATT
Statistics
Matches: 329, Mismatches: 69, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
38 5 0.02
39 11 0.03
40 123 0.37
41 51 0.16
42 6 0.02
43 100 0.30
44 5 0.02
45 28 0.09
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (40 bp):
AGGAGCCTTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAG
Found at i:10238855 original size:43 final size:43
Alignment explanation
Indices: 10238502--10238887 Score: 261
Period size: 43 Copynumber: 9.2 Consensus size: 43
10238492 TAGAAAAGCC
* * * *
10238502 TTTATTTTTCAAAGTTGTTGTGCCTCTGC-TAGAGGAGC-TT-
1 TTTATTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCTTTA
* ** *
10238542 TTTA-TTTTCTAAATTTATT-ATGCCCCTATTTAGAGGAGCTTTA
1 TTTATTTTTC-AAAGTTATTGA-GCTTCTACTTAGAGGAGCTTTA
* * * ** *
10238585 TTTATTTTCCAAAGTTGTT-ATGCCTCTGTTTAGAGGGGC--T-
1 TTTATTTTTCAAAGTTATTGA-GCTTCTACTTAGAGGAGCTTTA
* * *
10238625 TTTATTTTTCAAAGTTATTGTGCCTT-TACTTAAAGGAGTTTTA
1 TTTATTTTTCAAAGTTATTGAG-CTTCTACTTAGAGGAGCTTTA
* ** * *
10238668 TTTATTTTTTTCAAAGTTATTGAGCCTCTGTTTAGAGAAGC---C
1 TTTA--TTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCTTTA
* * *
10238710 TTTATTTTTCAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTA
1 TTTATTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCTTTA
*
10238753 TTTATTTTTCAAAGTTATTGAGCCTT-TACTTAGAGGAGC---C
1 TTTATTTTTCAAAGTTATTGAG-CTTCTACTTAGAGGAGCTTTA
* * * *
10238793 TTTATTTTTCAAAATTGTTGAGCTTCTACTTACAGGAACTTTA
1 TTTATTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCTTTA
* * *
10238836 TTTATTTTTCAAAGTTGTTGAGCCTT-TGA-TTGGAGGAGCTTGA
1 TTTATTTTTCAAAGTTATTGAG-CTTCT-ACTTAGAGGAGCTTTA
10238879 TTTATTTTT
1 TTTATTTTT
10238888 TTGAAAGTCA
Statistics
Matches: 275, Mismatches: 47, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
39 8 0.03
40 105 0.38
41 12 0.04
42 7 0.03
43 106 0.39
44 12 0.04
45 25 0.09
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.47
Consensus pattern (43 bp):
TTTATTTTTCAAAGTTATTGAGCTTCTACTTAGAGGAGCTTTA
Found at i:10242080 original size:12 final size:11
Alignment explanation
Indices: 10242053--10242079 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
10242043 TCCAAATGGA
10242053 TTTTTCTTTTT
1 TTTTTCTTTTT
10242064 TTTTTCTTTTT
1 TTTTTCTTTTT
10242075 TTTTT
1 TTTTT
10242080 TAAACATAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:10242186 original size:52 final size:51
Alignment explanation
Indices: 10242130--10243419 Score: 351
Period size: 48 Copynumber: 26.5 Consensus size: 51
10242120 AAAATACTTT
* *
10242130 TCTCACTTGAGGCTCGATAACTTTTTAAAATTTAAAAT-TTGAAAAAGACTCC
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTT--AATCTTGAAAAAGACTCC
* * * *
10242182 TCTCAAC-AGAGGCTTAACAAC--TTTAAAATTTCATCTTGAAAAAGGCTCC
1 TCTC-ACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * *
10242231 TCTCAGTAGAGGCTCCATAAC--TTTAAAATCTT--TTTTGGAAAAG-CTTC
1 TCTCACTAGAGGCTCAATAACTTTTTAAAAT-TTAATCTTGAAAAAGACTCC
* * * *
10242278 TCTCAAC-AGAGACTCAACAAC--TTTAAAATCTCATCTTGAAAAAG-CTCC
1 TCTC-ACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * * *
10242326 TCTCAGC-AAAGGCTCAACAAC-TTTAAAAATTCTCATCTTAAAAAAGGCTCT
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATT-TAATCTTGAAAAAGACTCC
* ** * * * * * *
10242377 TCTGAGC-AGAGGCTCAACGA--TTTTAAAA-ATCATTTTGAAAAGGGCTCA
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * * *
10242425 TCTCAGTAGAGGCTCAACAAC--TTTAAAATCTCATTTTGAAAAAGGCTCA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * * * * *
10242474 TCTTAGTATAGGCTCAATGAC--TTTAAAA-GTCATCTTGAAAAGGGCTCA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * *
10242522 TCTCAGC-AGAGGCTCAACAAC--TTGAAAATCTT--TTTTGAAAAAG-CTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAAT-TTAATCTTGAAAAAGACTCC
* * *
10242569 TCTCAAC-AGAGGCTCAACAAC--TTTAAAATCTCATCTTGAAAAA-ACTCC
1 TCTC-ACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * *
10242617 TCTCAGC-AAAGGCTCAACAAC-TTTAAAAATTCTCATCTTAAAAAAGGCTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATT-TAATCTTGAAAAAGACTCC
* ** * * * * * *
10242668 TCTGAGC-AGAGGCTCAACGAC--TTTAAAA-ATCATTTTGAAAAGGGCTCA
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * *
10242716 TCTCAGTAGAGGCTCAACAAC--TTTAAAATCTCATCTTGAAAAAGGCTCA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * * * * *
10242765 TATCAGTATAGGCTCAATGAC--TTTAAAA-GTCATCTTGAAAAGGTCTCA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * * * **
10242813 TCTCAGTAGAGGGTCAACAAC--TTTAAAATCTCATCTTAAAAAAGGCTTA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * *
10242862 TCTCAGC-AGAGGCTCAACAA--TTTTAAAATCTCATCTTGAAAAAGGCTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
** * * **
10242911 TCTCAGC-AGAGGCTCAACGAC--TTTAAAA-ATCATCTTGAAAAAGGGTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * *
10242959 TCTCAGC-AGAGGCTCAATAAC--TTTAAAATCTCATCTTGAAAAA-AGTTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGA-CTCC
* * * * * *
10243008 TCTCAGTAGAGGCTCAATGAC--TTTAAAA-ATCATCTTGAAAAGGGCTCC
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * *
10243056 TCCCAGC-AGAGGCTCAATAAC--TTTAAAATCTCATTTTG-CAAAG-CTCC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * *
10243103 TCACAGC-AGAGGCTCAATAAC-TTTAAAAATTTCATCTTGAAAAGGGCTCA
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * * *
10243153 TCTCAGTAGAGGCTCCACAAC--TTTAAAATTT-CTTTTGGAAAAG-CTCC
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* ** * * *
10243200 TCTCAAC-AGAGGCTCAACAAC--TTTAAAA-TCCATCTTGAAAAGGGCTCA
1 TCTC-ACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * *
10243248 TCTCAGC-AGAGGCTCAACAAC-TTTAAAAATTCTTATCTTGAAAAA-AGCTCA
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATT-TAATCTTGAAAAAGA-CTCC
* * ** * * * * *
10243299 TCTCAGTAGAGGCTTAACGAC--TTTAAAA-ATCATCTTAAAAAAGGCTCA
1 TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
* * * * *
10243347 TCTCAGC-AGAAGCTCAATAAC--TTTAAAATCTCATCTTGAAAAA-AGTTTC
1 TCTCA-CTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGA-CTCC
*
10243396 TCTCAGC-AGAGGCTCAACAACTTT
1 TCTCA-CTAGAGGCTCAATAACTTT
10243420 AAAATCTCAT
Statistics
Matches: 1007, Mismatches: 175, Indels: 113
0.78 0.14 0.09
Matches are distributed among these distances:
46 3 0.00
47 117 0.12
48 406 0.40
49 314 0.31
50 77 0.08
51 74 0.07
52 14 0.01
53 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (51 bp):
TCTCACTAGAGGCTCAATAACTTTTTAAAATTTAATCTTGAAAAAGACTCC
Found at i:10242499 original size:97 final size:98
Alignment explanation
Indices: 10242168--10243432 Score: 1391
Period size: 97 Copynumber: 13.0 Consensus size: 98
10242158 AATTTAAAAT
* * * * *
10242168 TTGAAAAAGACTCCTCTCAACAGAGGCTTAACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* * * * *
10242233 TCAGTAGAGGCTCCATAACTTTAAAATCT-TTT
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * *
10242265 TTGGAAAA-GCTTC-TCTCAACAGAGACTCAACAACTTTAAAATCTCATCTTGAAAAA-GCTCCT
1 TTGAAAAAGGC-TCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCT
*
10242327 CTCAGCAAAGGCTCAACAACTTTAAAAATTCTCATC
65 CTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATC
* * * * * * * * *
10242363 TTAAAAAAGGCTCTTCTGAGCAGAGGCTCAACGATTTTAAAA-ATCATTTTGAAAAGGGCTCATC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* *
10242427 TCAGTAGAGGCTCAACAACTTTAAAATCTCATT
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * ** * * *
10242460 TTGAAAAAGGCTCATCTTAGTATAGGCTCAATGACTTTAAAA-GTCATCTTGAAAAGGGCTCATC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* * *
10242524 TCAGCAGAGGCTCAACAACTTGAAAATCT-TTT
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * *
10242556 TTGAAAAA-GCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAA-ACTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
*
10242619 TCAGCAAAGGCTCAACAACTTTAAAAATTCTCATC
66 TCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATC
* * * * * * * *
10242654 TTAAAAAAGGCTCCTCTGAGCAGAGGCTCAACGACTTTAAAA-ATCATTTTGAAAAGGGCTCATC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
*
10242718 TCAGTAGAGGCTCAACAACTTTAAAATCTCATC
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * ** * *
10242751 TTGAAAAAGGCTCATATCAGTATAGGCTCAATGACTTTAAAA-GTCATCTTG-AAAAGGTCTCAT
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGG-CTCCT
* *
10242814 CTCAGTAGAGGGTCAACAACTTTAAAATCTCATC
65 CTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * *
10242848 TTAAAAAAGGCTTATCTCAGCAGAGGCTCAACAATTTTAAAATCTCATCTTGAAAAAGGCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* *
10242913 TCAGCAGAGGCTCAACGACTTTAAAA-ATCATC
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * * *
10242945 TTGAAAAAGGGTCCTCTCAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAAAAGTTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* ** *
10243010 TCAGTAGAGGCTCAATGACTTTAAAA-ATCATC
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * * * *
10243042 TTGAAAAGGGCTCCTCCCAGCAGAGGCTCAATAACTTTAAAATCTCATTTTG-CAAA-GCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
* * *
10243105 ACAGCAGAGGCTCAATAACTTTAAAAATTTCATC
66 TCAGCAGAGGCTCAACAACTTT-AAAATCTCATC
* * * * * *
10243139 TTGAAAAGGGCTCATCTCAGTAGAGGCTCCACAACTTTAAAATTTC-TTTTGGAAAA-GCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
*
10243202 TCAACAGAGGCTCAACAACTTTAAAATC-CATC
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * *
10243234 TTGAAAAGGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAAATTCTTATCTTGAAAAAAGCTCA
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCATCTTGAAAAAGGCTCC
* * * *
10243299 TCTCAGTAGAGGCTTAACGACTTTAAAA-ATCATC
64 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC
* * * * * *
10243333 TTAAAAAAGGCTCATCTCAGCAGAAGCTCAATAACTTTAAAATCTCATCTTGAAAAAAGTTTCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
10243398 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
66 TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
10243431 TT
1 TT
10243433 TTCTTAAAAT
Statistics
Matches: 1000, Mismatches: 143, Indels: 49
0.84 0.12 0.04
Matches are distributed among these distances:
95 141 0.14
96 97 0.10
97 482 0.48
98 102 0.10
99 178 0.18
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (98 bp):
TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCCTC
TCAGCAGAGGCTCAACAACTTTAAAATCTCATC
Found at i:10242595 original size:243 final size:240
Alignment explanation
Indices: 10242168--10243429 Score: 1337
Period size: 243 Copynumber: 5.2 Consensus size: 240
10242158 AATTTAAAAT
* * * * * *
10242168 TTGAAAAAGACTCCTCTCAACAGAGGCTTAACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
* * * * * *
10242233 TCAGTAGAGGCTCCATAACTTTAAAATCTTTTTTGGAAAA-GCTTC-TCTCAACAGAGACTCAAC
66 TCAGTAGAGGCTCAATAACTTTAAAATC-ATCTTGAAAAAGGC-TCATCTCAGCAGAGGCTCAAC
* *
10242296 AACTTTAAAATCTCATCTTGAAAAAGCTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTCTCA
129 AACTTAAAAATCT-ATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTCA
* * * * *
10242361 TCTTAAAAAAGGCTCTTCTGAGCAGAGGCTCAACGATTTTAAAAATCATT
191 TCTTAAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCATC
* * * *
10242411 TTGAAAAGGGCTCATCTCAGTAGAGGCTCAACAACTTTAAAATCTCATTTTGAAAAAGGCTCATC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
* * * *
10242476 TTAGTATAGGCTCAATGACTTTAAAAGTCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCAACA
66 TCAGTAGAGGCTCAATAACTTTAAAA-TCATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACA
* * * *
10242541 ACTTGAAAATCTTTTTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAATCTCATCTT
130 ACTTAAAAATCTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT
*
10242606 GAAAAAA--CTCCTCTCAGCAAAGGCTCAACAACTTTAAAAATTCTCATC
195 -AAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA---TCATC
* * * * * *
10242654 TTAAAAAAGGCTCCTCTGAGCAGAGGCTCAACGACTTTAAAA-ATCATTTTGAAAAGGGCTCATC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
* * * * *
10242718 TCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGAAAAAGGCTCATATCAGTATAGGCTCAAT
66 TCAGTAGAGGCTCAATAACTTTAAAA--TCATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAAC
* * * * * *
10242783 GACTTTAAAAGTC-ATCTTGAAAAGGTCTCATCTCAGTAGAGGGTCAACAACTTTAAAATCTCAT
129 AAC-TTAAAAATCTATCTTGAAAAAG-CTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
** * *
10242847 CTTAAAAAAGGCTTATCTCAGCAGAGGCTCAACAATTTTAAAATCTCATC
192 CTTAAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCATC
* * * *
10242897 TTGAAAAAGGCTCCTCTCAGCAGAGGCTCAACGACTTTAAAA-ATCATCTTGAAAAAGGGTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
* * * * * *
10242961 TCAGCAGAGGCTCAATAACTTTAAAATCTCATCTTGAAAAAAGTTCCTCTCAGTAGAGGCTCAAT
66 TCAGTAGAGGCTCAATAACTTTAAAA--TCATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAAC
* * * *
10243026 GACTTTAAAAATC-ATCTTGAAAAGGGCTCCTCCCAGCAGAGGCTCAATAACTTTAAAATCTCAT
129 AAC-TTAAAAATCTATCTTGAAAA-AGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
*** * *
10243090 -TTTGCAAA-GCTCCTCACAGCAGAGGCTCAATAACTTTAAAAATTTCATC
192 CTTAAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAA--TCATC
* * * * *
10243139 TTGAAAAGGGCTCATCTCAGTAGAGGCTCCACAACTTTAAAATTTC-TTTTGGAAAA-GCTCCTC
1 TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
** * *
10243202 TCAACAGAGGCTCAACAACTTTAAAATCCATCTTGAAAAGGGCTCATCTCAGCAGAGGCTCAACA
66 TCAGTAGAGGCTCAATAACTTTAAAAT-CATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACA
* * * * *
10243267 ACTTTAAAAATTCTTATCTTGAAAAAAGCTCATCTCAGTAGAGGCTTAACGACTTTAAAA-ATCA
130 AC-TTAAAAA-TC-TATCTTG-AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA
* * * *
10243331 TCTTAAAAAAGGCTCATCTCAGCAGAAGCTCAATAACTTTAAAATCTCATC
191 TCTTAAAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATCATC
** *
10243382 TTGAAAAAAGTTTC-TCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT
1 TTG-AAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCAT
10243430 CTTTTCTTAA
Statistics
Matches: 862, Mismatches: 130, Indels: 53
0.82 0.12 0.05
Matches are distributed among these distances:
239 1 0.00
240 68 0.08
241 69 0.08
242 111 0.13
243 465 0.54
244 120 0.14
245 28 0.03
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (240 bp):
TTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATATCATTTTGAAAAAGGCTCCTC
TCAGTAGAGGCTCAATAACTTTAAAATCATCTTGAAAAAGGCTCATCTCAGCAGAGGCTCAACAA
CTTAAAAATCTATCTTGAAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTA
AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCATC
Done.