Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 292 of 345
Found at i:99304463 original size:43 final size:43
Alignment explanation
Indices: 99304415--99304585 Score: 218
Period size: 43 Copynumber: 4.0 Consensus size: 43
99304405 CTGGGTAAAT
* *
99304415 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTA
* *
99304458 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTA
* * * *
99304501 TAGCAGTGTTTTTTAAAAAAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTA
* * **
99304544 TACCGGCG-CTTTTATAAAAAATGCCGCTAAAGGTCCTGGTCT
1 TAGCGGCGTTTTTTAT-AAAAGCGCCGCTAAAGGTCCTGGTCT
99304586 TTAGAAGAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.04
43 109 0.96
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCTGGTCTA
Found at i:99306721 original size:19 final size:19
Alignment explanation
Indices: 99306699--99306752 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
99306689 AAATTTGGTG
99306699 TTTGTTAGAAATTTCAATA
1 TTTGTTAGAAATTTCAATA
* **
99306718 TTTGTTAAGAGATTTTGATA
1 TTTGTT-AGAAATTTCAATA
*
99306738 TTTCGTTACAAATTT
1 TTT-GTTAGAAATTT
99306753 TGGTATCCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 19 0.68
21 3 0.11
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (19 bp):
TTTGTTAGAAATTTCAATA
Found at i:99312810 original size:46 final size:46
Alignment explanation
Indices: 99312760--99312932 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
99312750 TGGTTGAGCA
99312760 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
99312806 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
99312851 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
99312899 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
99312933 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:99312916 original size:93 final size:93
Alignment explanation
Indices: 99312757--99312927 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
99312747 GGATGGTTGA
* *
99312757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
99312822 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
99312850 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
99312915 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
99312928 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:99317149 original size:28 final size:29
Alignment explanation
Indices: 99317084--99317145 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
99317074 TTTTTCATTT
*
99317084 ATTTCACAATTTAACCACCAAATTTACAC
1 ATTTTACAATTTAACCACCAAATTTACAC
*
99317113 ATTTTACAATTTAACC-CCTAATTTACA-
1 ATTTTACAATTTAACCACCAAATTTACAC
99317140 ATTTTA
1 ATTTTA
99317146 ACAAAAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.19
28 10 0.32
29 15 0.48
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (29 bp):
ATTTTACAATTTAACCACCAAATTTACAC
Found at i:99317468 original size:21 final size:20
Alignment explanation
Indices: 99317438--99317477 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
99317428 ATGATACATT
*
99317438 GTTTTTATTATTTTACTTAA
1 GTTTTTATTAATTTACTTAA
99317458 GTTTATTATTAATTTACTTA
1 GTTT-TTATTAATTTACTTA
99317478 TTTAACCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
GTTTTTATTAATTTACTTAA
Found at i:99324973 original size:14 final size:14
Alignment explanation
Indices: 99324954--99325004 Score: 75
Period size: 14 Copynumber: 3.4 Consensus size: 14
99324944 AATCTTTAAG
99324954 GATATGCAATCTTA
1 GATATGCAATCTTA
99324968 GATATGATACAATCTTA
1 GATATG---CAATCTTA
99324985 GATATGCAATCTTA
1 GATATGCAATCTTA
99324999 GATATG
1 GATATG
99325005 ATATGCAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 20 0.59
17 14 0.41
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (14 bp):
GATATGCAATCTTA
Found at i:99324990 original size:31 final size:33
Alignment explanation
Indices: 99324944--99325025 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 33
99324934 ATGGAAATAT
99324944 AATCTTTAAGGATATGCAATCTTAGATATGATA-C
1 AATC-TTAA-GATATGCAATCTTAGATATGATAGC
99324978 AATCTT-AGATATGCAATCTTAGATATGATATGC
1 AATCTTAAGATATGCAATCTTAGATATGATA-GC
99325011 AATCTTGAAGATATG
1 AATCTT-AAGATATG
99325026 ATCTTGAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
31 23 0.52
32 1 0.02
33 9 0.20
34 4 0.09
35 7 0.16
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (33 bp):
AATCTTAAGATATGCAATCTTAGATATGATAGC
Found at i:99325024 original size:21 final size:19
Alignment explanation
Indices: 99324954--99325027 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 19
99324944 AATCTTTAAG
99324954 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99324973 GATA--CAATC-T---TA-
1 GATATGCAATCTTAGATAT
99324985 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99325004 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99325025 GAT
1 GAT
99325028 CTTGAATTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 5 0.11
15 1 0.02
16 1 0.02
17 5 0.11
18 2 0.04
19 17 0.37
21 9 0.20
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99330646 original size:7 final size:7
Alignment explanation
Indices: 99330627--99330697 Score: 74
Period size: 7 Copynumber: 9.7 Consensus size: 7
99330617 TCTATTTCAA
99330627 AAAAAAGG
1 AAAAAA-G
99330635 AAAAAA-
1 AAAAAAG
*
99330641 AGAAAAG
1 AAAAAAG
99330648 AAAAAGAG
1 AAAAA-AG
99330656 AAAAAA-
1 AAAAAAG
99330662 ATAAAAAG
1 A-AAAAAG
99330670 AAAAAAGAG
1 -AAAAA-AG
99330679 AAAAAAG
1 AAAAAAG
99330686 AAAAAAG
1 AAAAAAG
99330693 AAAAA
1 AAAAA
99330698 TGGAGAGGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
6 6 0.11
7 24 0.44
8 22 0.40
9 3 0.05
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:99330660 original size:22 final size:21
Alignment explanation
Indices: 99330628--99330697 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 21
99330618 CTATTTCAAA
*
99330628 AAAAAG-GAAAAAAAGAAAAG
1 AAAAAGAGAAAAAAAAAAAAG
99330648 AAAAAGAGAAAAAAATAAAAAG
1 AAAAAGAGAAAAAAA-AAAAAG
99330670 AAAAAAGAGAAAAAAGAAAAAAG
1 -AAAAAGAGAAAAAA-AAAAAAG
99330693 AAAAA
1 AAAAA
99330698 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
20 6 0.13
21 8 0.18
22 10 0.22
23 20 0.44
24 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.01
Consensus pattern (21 bp):
AAAAAGAGAAAAAAAAAAAAG
Found at i:99331702 original size:43 final size:43
Alignment explanation
Indices: 99331654--99331878 Score: 175
Period size: 43 Copynumber: 5.3 Consensus size: 43
99331644 AGCGCCTTAA
99331654 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
* * * *
99331697 TCCCTAAACAGTAGTGG-AGCAGATCGAAGATTTGC----CTTAATC
1 TCCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
99331739 -CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
** ** *** * *
99331781 TCCCTAAGCAGTA--GTAGAGCATATCGAA-GACCCG-CCTTAATC
1 TCCCTAAGCAGTAGGGTA-A-CAGGTTAAATTTGCAGATCTT-ATC
*
99331823 -CCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
1 TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
*
99331865 TCCCTAAGTAGTAG
1 TCCCTAAGCAGTAG
99331879 TGGAGCAGAT
Statistics
Matches: 135, Mismatches: 29, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
39 6 0.04
40 4 0.03
41 42 0.31
42 18 0.13
43 55 0.41
44 4 0.03
45 6 0.04
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATC
Found at i:99331750 original size:41 final size:41
Alignment explanation
Indices: 99331698--99331919 Score: 127
Period size: 41 Copynumber: 5.3 Consensus size: 41
99331688 GATCTTATCT
*
99331698 CCCTAAACAGTAGTGGAGCAGATCGAAGATTTGCCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGATTTGCCTTAATC
* * *
99331739 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGATTTGC----CTTAATC
* * ***
99331781 TCCCTAAGCAGTAGTAGAGCATATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTTGCCTTAATC
* * * *
99331823 CCCTAAGCGGTAG-GGTAACAGGT-TAA-ATTTGCAGATCTT-ATC
1 CCCTAAGCAGTAGTGG-AGCAGATCGAAGATTTGC----CTTAATC
* * **
99331865 TCCCTAAGTAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGATTTGCCTTAATC
99331907 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
99331920 GGTAACAGGT
Statistics
Matches: 131, Mismatches: 30, Indels: 40
0.65 0.15 0.20
Matches are distributed among these distances:
39 9 0.07
40 7 0.05
41 51 0.39
42 12 0.09
43 39 0.30
44 7 0.05
45 6 0.05
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGATTTGCCTTAATC
Found at i:99331752 original size:84 final size:84
Alignment explanation
Indices: 99331646--99332099 Score: 641
Period size: 84 Copynumber: 5.4 Consensus size: 84
99331636 CAAAATTCAG
*
99331646 CGCCTTAAT-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
99331710 GTGGAGCAGATCGAAGATT
66 GTGGAGCAGATCGAAGACT
*
99331729 TGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
99331794 GTAGAGCATATCGAAGACC
66 GTGGAGCAGATCGAAGACT
* *
99331813 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
99331878 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
99331897 CACCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCTCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* **
99331957 ATGGAGCAGATTGACGGCGACT
66 GTGGAGCAGA-T--CGAAGACT
* * * *
99331979 TGCCTTAATCCACTAAGCAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
99332044 GTGGAGTAGATCGAAGATT
66 GTGGAGCAGATCGAAGACT
* *
99332063 CACCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAA
99332100 GTATAGCAGA
Statistics
Matches: 325, Mismatches: 37, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
79 34 0.10
80 1 0.00
82 34 0.10
83 8 0.02
84 214 0.66
86 1 0.00
87 33 0.10
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:99332049 original size:166 final size:162
Alignment explanation
Indices: 99331646--99332096 Score: 641
Period size: 166 Copynumber: 2.7 Consensus size: 162
99331636 CAAAATTCAG
*
99331646 CGCCTTAATCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAACAGTAG
1 CGCCTTAATCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
** *
99331711 TGGAGCAGATCGAAGATTTGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATC
66 TGGAGCAGATCGAAGATTCACCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATC
* *
99331776 TTATCTCCCTAAGCAGTAGTAGAGCATATCGAAGACC
126 TTATCTCCCTAAGCAGTAATAGAGCAGATCGAAGACC
* *
99331813 CGCCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTA
1 CGCCTTAAT-CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
99331878 GTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTAT
65 GTGGAGCAGATCGAAGATTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTAT
* * ** *
99331943 CTCTCTAAGCAGTAATGGAGCAGATTGACGGCGACT
130 CTCCCTAAGCAGTAATAGAGCAGA-T--CGAAGACC
* * *
99331979 TGCCTTAATCCACTAAGCAGTAGGGTAACAAGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTA
1 CGCCTTAATCC-CTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
99332044 GTGGAGTAGATCGAAGATTCACCTTAACCCCCTAAGCAGTAGGGTAACAGGTT
65 GTGGAGCAGATCGAAGATTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTT
99332097 AAAGTATAGC
Statistics
Matches: 257, Mismatches: 22, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
163 33 0.13
164 1 0.00
165 2 0.01
166 112 0.44
167 9 0.04
168 100 0.39
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (162 bp):
CGCCTTAATCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGATTCACCTTAATCCCCTAAGCAGTAGGGTAACAGGTTCGCAGATCTTATC
TCCCTAAGCAGTAATAGAGCAGATCGAAGACC
Found at i:99332389 original size:87 final size:89
Alignment explanation
Indices: 99332218--99332422 Score: 274
Period size: 87 Copynumber: 2.3 Consensus size: 89
99332208 ATTTGACGGA
* * *
99332218 GAGCAGATCGAAGACATAGAAGATCTGACCTTCGAATATTTTCACATTGAAGCAGATCCAAGATG
1 GAGCAGATCGAAGACATAGAAGATCTGACCTTCGAATAGTTTCACACTGAAACAGATCCAAGATG
*
99332283 ATTTAGCATCCTTGTGTTTACAAG
66 ATTTAGCATCCCTGTGTTTACAAG
* * *
99332307 GAGCAAATCGAAGACATAGTAGATCTGACCTTC-AGGT-GTTT-ACACTGAAACAGATCCAAGAT
1 GAGCAGATCGAAGACATAGAAGATCTGACCTTCGA-ATAGTTTCACACTGAAACAGATCCAAGAT
* *
99332369 GATTTGGCATCCCTGTGTTTACAGG
65 GATTTAGCATCCCTGTGTTTACAAG
*
99332394 GAACAGATCGAAGACATAGCAA-ATCTGAC
1 GAGCAGATCGAAGACATAG-AAGATCTGAC
99332423 ATTCCTGTGC
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
87 65 0.64
88 5 0.05
89 32 0.31
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGAAGATCTGACCTTCGAATAGTTTCACACTGAAACAGATCCAAGATG
ATTTAGCATCCCTGTGTTTACAAG
Found at i:99332437 original size:87 final size:88
Alignment explanation
Indices: 99332265--99332489 Score: 256
Period size: 87 Copynumber: 2.5 Consensus size: 88
99332255 ATTTTCACAT
* * * * * *
99332265 TGAAGCAGATCCAAGATGATTTAGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAAA
* *
99332330 TCTGACCTTCAGGTGTTTACA-C
66 TCTGACATTCAGGTGCTTACAGC
* *
99332352 TGAAACAGATCCAAGATGATTTGGCATCCCTGTGTTTACAGGGAACAGATCGAAGACATAGCAAA
1 TGAAGCAGATCCAAGATGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAAA
**
99332417 TCTGACATTCCTGTGCTTACAGC
66 TCTGACATTCAGGTGCTTACAGC
* * ** *
99332440 -GAAGCAGATCGAAGATTTCAGCGTGGCATCCCTGTGTTTATAGGGAACAA
1 TGAAGCAGATCCAAGA--TGA-TTTGGCATCCCTGTGTTTACAGGGAACAA
99332490 GTTGAAGATA
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
87 87 0.76
88 1 0.01
89 2 0.02
90 25 0.22
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (88 bp):
TGAAGCAGATCCAAGATGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGACATAGCAAA
TCTGACATTCAGGTGCTTACAGC
Found at i:99333028 original size:19 final size:19
Alignment explanation
Indices: 99333004--99333082 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
99332994 AATATTTAAG
99333004 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
99333023 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
99333042 GATA--CAATCTTGGATAT
1 GATATGCAATCTTAGATAT
99333059 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
99333080 GAT
1 GAT
99333083 TTTGTAACCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 30 0.56
21 8 0.15
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:99333051 original size:36 final size:37
Alignment explanation
Indices: 99333010--99333082 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
99333000 TAAGGATATG
99333010 CAATCTTAGATATGATATGCAATCTT-AGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAGATATGATA
*
99333046 CAATCTTGGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATCTT-AAGATATGAT
99333083 TTTGTAACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
38 9 0.26
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAAGATATGATA
Found at i:99337862 original size:21 final size:21
Alignment explanation
Indices: 99337815--99337862 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
99337805 CTATTAACAT
* * **
99337815 ACACGGGCGTGTGAAGTAGTC
1 ACACGAGCGCGTGAAGTAACC
*
99337836 ATACGAGCGCGTGAAGTAACC
1 ACACGAGCGCGTGAAGTAACC
99337857 ACACGA
1 ACACGA
99337863 CTGTGTGACC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (21 bp):
ACACGAGCGCGTGAAGTAACC
Found at i:99341679 original size:22 final size:22
Alignment explanation
Indices: 99341651--99341696 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
99341641 TGATGGTCAA
99341651 TAACCAATTGGGGAAACTTGAC
1 TAACCAATTGGGGAAACTTGAC
99341673 TAACCAATTGGGGAAACTTGAC
1 TAACCAATTGGGGAAACTTGAC
99341695 TA
1 TA
99341697 TCTCTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (22 bp):
TAACCAATTGGGGAAACTTGAC
Found at i:99344642 original size:41 final size:41
Alignment explanation
Indices: 99344596--99344679 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
99344586 GTTATATAAT
*
99344596 TTAGCACACTATGTATGAGCTATCCTGGGTATCCAATGGTA
1 TTAGCACACTATGTATGAGCTATCCAGGGTATCCAATGGTA
99344637 TTAGCACACTATGTATGAGCTATCCAGGGTATCCAATGGTA
1 TTAGCACACTATGTATGAGCTATCCAGGGTATCCAATGGTA
99344678 TT
1 TT
99344680 CAAAATGGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (41 bp):
TTAGCACACTATGTATGAGCTATCCAGGGTATCCAATGGTA
Found at i:99349664 original size:28 final size:28
Alignment explanation
Indices: 99349633--99349686 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
99349623 GAAAGTTCTA
99349633 TCCA-TTTTTGGGTTTTCTTGAAGCTTTC
1 TCCATTTTTTGGG-TTTCTTGAAGCTTTC
* *
99349661 TCCATTTTTTTGGTTTGTTGAAGCTT
1 TCCATTTTTTGGGTTTCTTGAAGCTT
99349687 CATCAACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.11, C:0.15, G:0.19, T:0.56
Consensus pattern (28 bp):
TCCATTTTTTGGGTTTCTTGAAGCTTTC
Found at i:99355052 original size:5 final size:5
Alignment explanation
Indices: 99355042--99355069 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
99355032 CTGTGTGTTC
99355042 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99355070 CACACCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99356257 original size:60 final size:60
Alignment explanation
Indices: 99356134--99356250 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
99356124 GACAAGTTTC
* * *
99356134 AAAGTAAGTTGTTAAGATAAGAGATAGATGTTTAATTTATAAGCAGAAAACCTCAAGAAA
1 AAAGTAAGTTGTTAAGAGAAGAAATAGATGTTTAATTTATAACCAGAAAACCTCAAGAAA
99356194 AAAGTAAGTTGTTAAGAGAAGAAATAGATGTTTTAATTTATAACCAGAAAACCTCAA
1 AAAGTAAGTTGTTAAGAGAAGAAATAGATG-TTTAATTTATAACCAGAAAACCTCAA
99356251 ACAAAAGAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 28 0.53
61 25 0.47
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (60 bp):
AAAGTAAGTTGTTAAGAGAAGAAATAGATGTTTAATTTATAACCAGAAAACCTCAAGAAA
Found at i:99358121 original size:11 final size:11
Alignment explanation
Indices: 99358105--99358180 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
99358095 CTTAATCACT
99358105 TTAATATTAAA
1 TTAATATTAAA
99358116 TTAATA--AAA
1 TTAATATTAAA
*
99358125 -TACTATTAAGA
1 TTAATATTAA-A
*
99358136 TAAATATTAAA
1 TTAATATTAAA
99358147 TTAA-ATTTAATA
1 TTAATA-TTAA-A
99358159 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
99358172 ATAATATTA
1 TTAATATTA
99358181 TTTTTGGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:99358167 original size:37 final size:36
Alignment explanation
Indices: 99358105--99358180 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
99358095 CTTAATCACT
*
99358105 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAAT-AATA
*
99358142 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
99358178 TTA
1 TTA
99358181 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:99363209 original size:16 final size:16
Alignment explanation
Indices: 99363188--99363218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99363178 CTATGCATGC
*
99363188 AAAATATAAAATACAA
1 AAAATACAAAATACAA
99363204 AAAATACAAAATACA
1 AAAATACAAAATACA
99363219 TAATAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAATACAAAATACAA
Found at i:99370132 original size:6 final size:6
Alignment explanation
Indices: 99370121--99370154 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
99370111 TACATATTTT
*
99370121 GATTCA GATTCA GATCCA GATTCA GATTCA GATT
1 GATTCA GATTCA GATTCA GATTCA GATTCA GATT
99370155 ACAAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (6 bp):
GATTCA
Found at i:99370691 original size:31 final size:31
Alignment explanation
Indices: 99370656--99370716 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
99370646 ATCTACACAT
*
99370656 CCGTGTGATGTGCCCGTATGAGCTCACACGA
1 CCGTGTGATGTGCCCGTATGAGCCCACACGA
*
99370687 CCGTGTGATGTGCCCGTATGGGCCCACACG
1 CCGTGTGATGTGCCCGTATGAGCCCACACG
99370717 CCCACAACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.21
Consensus pattern (31 bp):
CCGTGTGATGTGCCCGTATGAGCCCACACGA
Found at i:99372753 original size:14 final size:14
Alignment explanation
Indices: 99372734--99372762 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
99372724 AACTCATATA
99372734 CTTATGTCCATTTC
1 CTTATGTCCATTTC
99372748 CTTATGTCCATTTC
1 CTTATGTCCATTTC
99372762 C
1 C
99372763 AAAAATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (14 bp):
CTTATGTCCATTTC
Found at i:99378978 original size:21 final size:21
Alignment explanation
Indices: 99378954--99378993 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99378944 AAGTATCTTA
* * *
99378954 TCTCTATAGAAAATTTCTCCT
1 TCTCAATAAAAAATCTCTCCT
99378975 TCTCAATAAAAAATCTCTC
1 TCTCAATAAAAAATCTCTC
99378994 ATTGTTCACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (21 bp):
TCTCAATAAAAAATCTCTCCT
Found at i:99379406 original size:32 final size:33
Alignment explanation
Indices: 99379342--99379410 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
99379332 ACTTTTACAC
* *
99379342 AAAACAAATCTTTACAAGGTCTTTTTTATCCTT
1 AAAAAAAATCTTTACAAGGTCTCTTTTATCCTT
99379375 AAAAAAAATCTTTACAAGGTC-CTTTTATCCTT
1 AAAAAAAATCTTTACAAGGTCTCTTTTATCCTT
99379407 AAAA
1 AAAA
99379411 CTAAGGTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 14 0.41
33 20 0.59
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.38
Consensus pattern (33 bp):
AAAAAAAATCTTTACAAGGTCTCTTTTATCCTT
Found at i:99385925 original size:27 final size:26
Alignment explanation
Indices: 99385869--99385925 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
99385859 CAACCTTAAC
** * *
99385869 CCTAGGGGTGTATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
*
99385895 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
99385922 CCTA
1 CCTA
99385926 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:99387855 original size:19 final size:18
Alignment explanation
Indices: 99387818--99387861 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
99387808 ATACATACAG
99387818 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
99387835 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
99387854 TACTAATT
1 TAATAATT
99387862 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:99389929 original size:39 final size:40
Alignment explanation
Indices: 99389894--99390034 Score: 205
Period size: 40 Copynumber: 3.5 Consensus size: 40
99389884 GCAAGCCTAT
* *
99389894 GGGTCTTTAA-CCCGGATACCATTCCAGCACGA-AGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCA-TATAGCCTGC
* * *
99389933 GGGTCTTTATGCTCGGATACAATTCAAGCATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
*
99389973 GGGTCTTTAAGCTCGGATACAATTCCAGCATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
99390013 GGGTCTTTAAGCCCGGATACAA
1 GGGTCTTTAAGCCCGGATACAA
99390035 CATCAAATAT
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 10 0.11
40 82 0.89
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
Found at i:99391317 original size:21 final size:21
Alignment explanation
Indices: 99391292--99391332 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99391282 CGGCAATTTC
99391292 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
99391313 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
99391333 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:99391342 original size:21 final size:21
Alignment explanation
Indices: 99391303--99391342 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99391293 ATTCATACCT
* *
99391303 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
99391324 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
99391343 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:99397297 original size:40 final size:40
Alignment explanation
Indices: 99397228--99397407 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
99397218 GCAAGCCTAT
* * *
99397228 GGGTCTTTAA-CCCAGATACCATTCCAGCATGA-AGCCTGT
1 GGGTCTTTAAGCCCGGATACAATTCCAGCAT-ATAGCCTGC
* * *
99397267 GGGTCTTTATGCCCGGATACAATTCTAGCATATAGCCTAC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
*
99397307 GGGTCTTTAAGCCCGGATACAATTCCAGTATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
99397347 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
1 GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
*
99397387 GGGTTTTTAAGCCCGGATACA
1 GGGTCTTTAAGCCCGGATACA
99397408 GCATCAAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
39 10 0.08
40 117 0.92
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
GGGTCTTTAAGCCCGGATACAATTCCAGCATATAGCCTGC
Found at i:99398695 original size:21 final size:21
Alignment explanation
Indices: 99398670--99398710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
99398660 CGGCAATTTC
99398670 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTATTCAACCATG
*
99398691 AATTCAACTTATTCAACCAT
1 AATTCAACCTATTCAACCAT
99398711 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTCAACCTATTCAACCATG
Found at i:99398720 original size:21 final size:21
Alignment explanation
Indices: 99398681--99398720 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99398671 ATTCATACCT
* *
99398681 TTCAACCATGAATTCAACTTA
1 TTCAACCATCAATTAAACTTA
*
99398702 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
99398721 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTA
Found at i:99405059 original size:27 final size:27
Alignment explanation
Indices: 99404997--99405053 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
99404987 GGAGAAGATG
99404997 AATGCATCAAATGCCTTTTGTTTTATT
1 AATGCATCAAATGCCTTTTGTTTTATT
99405024 AATGCATCAAATGCCTTTTGTTTTATT
1 AATGCATCAAATGCCTTTTGTTTTATT
99405051 AAT
1 AAT
99405054 TTATCACTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (27 bp):
AATGCATCAAATGCCTTTTGTTTTATT
Found at i:99406570 original size:20 final size:20
Alignment explanation
Indices: 99406545--99406592 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
99406535 AAATTCTAAA
* *
99406545 AAAGATAAATACATTTAATT
1 AAAGATAAATAAATATAATT
*
99406565 AAAGATAATTAAATATAATT
1 AAAGATAAATAAATATAATT
99406585 AAA-ATAAA
1 AAAGATAAA
99406593 ATCCTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAGATAAATAAATATAATT
Found at i:99406603 original size:19 final size:18
Alignment explanation
Indices: 99406579--99406622 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
99406569 ATAATTAAAT
99406579 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
99406599 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
99406616 ATAATTA
1 ATAATTA
99406623 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:99406618 original size:28 final size:27
Alignment explanation
Indices: 99406587--99406651 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
99406577 ATATAATTAA
99406587 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
99406615 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
99406643 AATATAAAT
1 AATA-AAAT
99406652 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:99406638 original size:16 final size:16
Alignment explanation
Indices: 99406617--99406647 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99406607 ATAATCCTAA
*
99406617 TAATTATCTTAATATT
1 TAATTATCCTAATATT
99406633 TAATTATCCTAATAT
1 TAATTATCCTAATAT
99406648 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:99407230 original size:8 final size:8
Alignment explanation
Indices: 99407217--99407247 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
99407207 TTAATATGAC
99407217 TTTTTTCTT
1 TTTTTTC-T
99407226 TTTTTTCT
1 TTTTTTCT
99407234 TTTTTTCT
1 TTTTTTCT
99407242 TTTTTT
1 TTTTTT
99407248 AATAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTCT
Found at i:99407231 original size:9 final size:9
Alignment explanation
Indices: 99407217--99407247 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
99407207 TTAATATGAC
99407217 TTTTTTCTT
1 TTTTTTCTT
99407226 TTTTTTC-T
1 TTTTTTCTT
99407234 TTTTTTCTT
1 TTTTTTCTT
99407243 TTTTT
1 TTTTT
99407248 AATAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:99408266 original size:13 final size:12
Alignment explanation
Indices: 99408240--99408278 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
99408230 ATCTGAAAAT
*
99408240 AATAAATAATAA
1 AATAAAAAATAA
*
99408252 AATAATAAGATAA
1 AATAA-AAAATAA
99408265 AATAAAAAATAA
1 AATAAAAAATAA
99408277 AA
1 AA
99408279 ATTGGGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:99411970 original size:10 final size:10
Alignment explanation
Indices: 99411955--99411986 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
99411945 TAAATACATT
99411955 TAATTAAAGA
1 TAATTAAAGA
99411965 TAATTAAAGA
1 TAATTAAAGA
99411975 TAATTAAA-A
1 TAATTAAAGA
99411984 TAA
1 TAA
99411987 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:99411998 original size:19 final size:18
Alignment explanation
Indices: 99411974--99412017 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
99411964 ATAATTAAAG
99411974 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
99411994 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
99412011 ATAATTA
1 ATAATTA
99412018 TCTTAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:99412013 original size:28 final size:27
Alignment explanation
Indices: 99411982--99412046 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
99411972 AGATAATTAA
99411982 AATAAAATCCTAAAATTTAAATAATCCT
1 AATAAAATCCTAAAATTT-AATAATCCT
* * * *
99412010 AATAATTATCTTAATATTTAATTATCCT
1 AATAA-AATCCTAAAATTTAATAATCCT
99412038 AATATAAAT
1 AATA-AAAT
99412047 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAAAATCCTAAAATTTAATAATCCT
Found at i:99412033 original size:16 final size:16
Alignment explanation
Indices: 99412012--99412042 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99412002 ATAATCCTAA
*
99412012 TAATTATCTTAATATT
1 TAATTATCCTAATATT
99412028 TAATTATCCTAATAT
1 TAATTATCCTAATAT
99412043 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTATCCTAATATT
Found at i:99422694 original size:22 final size:22
Alignment explanation
Indices: 99422664--99422710 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
99422654 TCTATCTATT
*
99422664 TATCTATTTATCTATGCATATA
1 TATCCATTTATCTATGCATATA
99422686 TATCCATTTATCTATGCATATA
1 TATCCATTTATCTATGCATATA
99422708 TAT
1 TAT
99422711 ATATATGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.15, G:0.04, T:0.49
Consensus pattern (22 bp):
TATCCATTTATCTATGCATATA
Found at i:99424030 original size:31 final size:30
Alignment explanation
Indices: 99423984--99424055 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 30
99423974 GGAGGGTTGC
*
99423984 TAAAATAGAAATAATTTAAAATGTGAGTGAT
1 TAAAATA-AAATAATTTAAAATGTGAATGAT
*
99424015 TAAAATAAAATTAATTTAAAATGTTAATGAT
1 TAAAATAAAA-TAATTTAAAATGTGAATGAT
*
99424046 TAAATTAAAA
1 TAAAATAAAA
99424056 ATATAATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.35
Consensus pattern (30 bp):
TAAAATAAAATAATTTAAAATGTGAATGAT
Found at i:99424511 original size:12 final size:11
Alignment explanation
Indices: 99424492--99424519 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
99424482 TTCATTATAC
99424492 TGTTTTTTTTT
1 TGTTTTTTTTT
99424503 TGTTTTTTTTT
1 TGTTTTTTTTT
99424514 TGTTTT
1 TGTTTT
99424520 CTATATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:99429463 original size:12 final size:12
Alignment explanation
Indices: 99429426--99429492 Score: 50
Period size: 12 Copynumber: 5.6 Consensus size: 12
99429416 TATTTTTTAT
*
99429426 TTATTTATATAA
1 TTATTTATATTA
*
99429438 TTATTCAT-TATA
1 TTATTTATAT-TA
99429450 TTATTTATATTA
1 TTATTTATATTA
* *
99429462 TTAGTATAAATT-
1 TTA-TTTATATTA
99429474 TTA-TTATATTA
1 TTATTTATATTA
99429485 TATATTTA
1 T-TATTTA
99429493 CTACATACAT
Statistics
Matches: 42, Mismatches: 7, Indels: 11
0.70 0.12 0.18
Matches are distributed among these distances:
10 5 0.12
11 2 0.05
12 25 0.60
13 10 0.24
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:99430966 original size:32 final size:32
Alignment explanation
Indices: 99430903--99430966 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
99430893 ATAATGCATG
99430903 ATACTTAATATATACATACAAAGATAATAATA
1 ATACTTAATATATACATACAAAGATAATAATA
* * *
99430935 ATACATTAATATATATA-AGAATGATAATAATA
1 ATAC-TTAATATATACATACAAAGATAATAATA
99430967 TATATATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (32 bp):
ATACTTAATATATACATACAAAGATAATAATA
Found at i:99431088 original size:12 final size:14
Alignment explanation
Indices: 99431068--99431105 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
99431058 TAATCTATAT
99431068 AATAAAATAATTA-
1 AATAAAATAATTAG
99431081 AA-AAAATAATTTAG
1 AATAAAATAA-TTAG
99431095 AATAAAATAAT
1 AATAAAATAAT
99431106 ACATAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 7 0.32
13 5 0.23
14 3 0.14
15 7 0.32
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AATAAAATAATTAG
Found at i:99431113 original size:15 final size:14
Alignment explanation
Indices: 99431066--99431461 Score: 78
Period size: 15 Copynumber: 28.3 Consensus size: 14
99431056 ATTAATCTAT
99431066 ATAATAAAATAAT-
1 ATAATAAAATAATA
* *
99431079 -TAAAAAAATAATTT
1 ATAATAAAATAA-TA
*
99431093 AGAATAAAATAATA
1 ATAATAAAATAATA
99431107 CATAATAAAA-AATA
1 -ATAATAAAATAATA
*
99431121 AGTAAT-TAATAAT-
1 A-TAATAAAATAATA
99431134 ATAATAAACAT-ATA
1 ATAATAAA-ATAATA
99431148 AT-A-AAAAT-ATA
1 ATAATAAAATAATA
* **
99431159 ATATTTTAATAATA
1 ATAATAAAATAATA
*
99431173 AT-TTCAAAATATATA
1 ATAAT-AAAATA-ATA
*
99431188 ATAATAATAT-ATA
1 ATAATAAAATAATA
99431201 A-AAT-AAATAAT-
1 ATAATAAAATAATA
*
99431212 TTACATAGTAAATAA-A
1 ATA-ATA--AAATAATA
* *
99431228 ATAATTATATAATA
1 ATAATAAAATAATA
*
99431242 TATAATATAAA-AGTA
1 -ATAATA-AAATAATA
* * *
99431257 TATAGGTTCAAAATTACA
1 -ATA--AT-AAAATAATA
* *
99431275 ATAAT-ATATAGT-
1 ATAATAAAATAATA
99431287 AT-AT-AAATAATTA
1 ATAATAAAATAA-TA
99431300 ATTAATAAAAT-ATA
1 A-TAATAAAATAATA
* *
99431314 ATAGTTAAGGATAATA
1 ATA-ATAA-AATAATA
99431330 ATATATATAAATAATA
1 ATA-ATA-AAATAATA
*
99431346 AT-ATAAAATACTA
1 ATAATAAAATAATA
99431359 ATATGTATAAAAT-AT-
1 ATA---ATAAAATAATA
99431374 ATAAT-AAATAATA
1 ATAATAAAATAATA
* *
99431387 TGTAATAATCATATATA
1 -ATAATAA-AATA-ATA
*
99431404 A-AAT-AAATAACA
1 ATAATAAAATAATA
*
99431416 TATAATAAAATAATC
1 -ATAATAAAATAATA
99431431 AT-ATAACATATAAT-
1 ATAATAA-A-ATAATA
*
99431445 ATAAGAAAATAA-A
1 ATAATAAAATAATA
99431458 ATAA
1 ATAA
99431462 ATAATTATAA
Statistics
Matches: 280, Mismatches: 48, Indels: 110
0.64 0.11 0.25
Matches are distributed among these distances:
11 20 0.07
12 32 0.11
13 56 0.20
14 50 0.18
15 67 0.24
16 35 0.12
17 18 0.06
18 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAATAAAATAATA
Found at i:99431146 original size:11 final size:11
Alignment explanation
Indices: 99431108--99431161 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
99431098 AAAATAATAC
99431108 ATAATAAAAAAT
1 ATAAT-AAAAAT
*
99431120 AAGTAATTAATAAT
1 -A-TAA-TAAAAAT
*
99431134 ATAATAAACAT
1 ATAATAAAAAT
99431145 ATAATAAAAAT
1 ATAATAAAAAT
99431156 ATAATA
1 ATAATA
99431162 TTTTAATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 21 0.60
12 3 0.09
13 2 0.06
14 8 0.23
15 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:99431246 original size:20 final size:20
Alignment explanation
Indices: 99431180--99431251 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
99431170 ATAATTTCAA
99431180 AATATATAATAATAA-TATAT
1 AATATATAA-AATAATTATAT
*
99431200 AA-A-AT-AAATAATTTACAT
1 AATATATAAAATAA-TTATAT
* *
99431218 AGTAAATAAAATAATTATAT
1 AATATATAAAATAATTATAT
*
99431238 AATATATAATATAA
1 AATATATAAAATAA
99431252 AAGTATATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 5 0.12
17 1 0.02
18 7 0.17
19 2 0.05
20 20 0.49
21 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (20 bp):
AATATATAAAATAATTATAT
Found at i:99431362 original size:25 final size:25
Alignment explanation
Indices: 99431326--99431477 Score: 97
Period size: 25 Copynumber: 6.2 Consensus size: 25
99431316 AGTTAAGGAT
99431326 AATAATATATATAAATAATAATATAA
1 AATAATA-ATATAAATAATAATATAA
* ** *
99431352 AATACTAATATGTATAA-AATATAT
1 AATAATAATATAAATAATAATATAA
* * *
99431376 AATAAATAATATGTAATAATCATATAT
1 AAT-AATAATAT-AAATAATAATATAA
99431403 AA-AATAA-ATAACAT-AT-A-ATAA
1 AATAATAATATAA-ATAATAATATAA
*
99431424 AATAATCATATAACAT-ATAATATAA
1 AATAATAATATAA-ATAATAATATAA
* *
99431449 GAA-AATAAAATAAATAATTATA-AA
1 -AATAATAATATAAATAATAATATAA
99431473 AATAA
1 AATAA
99431478 ATAAAACATA
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.05
22 5 0.05
23 14 0.14
24 20 0.20
25 37 0.37
26 12 0.12
27 8 0.08
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATAATATAAATAATAATATAA
Found at i:99431378 original size:47 final size:49
Alignment explanation
Indices: 99431278--99431379 Score: 119
Period size: 47 Copynumber: 2.2 Consensus size: 49
99431268 AATTACAATA
*
99431278 ATAT-ATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGGAT
1 ATATAATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGAAT
99431326 A-ATAATA-TATATAAATAA-TAA-T-ATAAAATACTAATATGTATAA-AAT
1 ATATAATAGTATATAAATAATTAATTAATAAAATA-TAATA-GT-TAAGAAT
99431372 ATATAATA
1 ATATAATA
99431380 AATAATATGT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
44 8 0.17
45 6 0.12
46 8 0.17
47 22 0.46
48 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (49 bp):
ATATAATAGTATATAAATAATTAATTAATAAAATATAATAGTTAAGAAT
Found at i:99431404 original size:36 final size:34
Alignment explanation
Indices: 99431364--99431481 Score: 91
Period size: 34 Copynumber: 3.4 Consensus size: 34
99431354 TACTAATATG
* * *
99431364 TATAAAATATATAATAAATAATATGTAATAATCATA
1 TATAAAATAAATAACAAATAATA--AAATAATCATA
*
99431400 TATAAAATAAATAACATATAATAAAATAATCATA
1 TATAAAATAAATAACAAATAATAAAATAATCATA
* * *
99431434 TA-ACATATAATATAA-GAA-AATAAAATAAATAAT-
1 TATA-AAATAA-ATAACAAATAATAAAAT-AATCATA
99431467 TATAAAAATAAATAA
1 TAT-AAAATAAATAA
99431482 AACATAGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
33 15 0.22
34 28 0.41
35 5 0.07
36 20 0.29
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (34 bp):
TATAAAATAAATAACAAATAATAAAATAATCATA
Found at i:99432167 original size:13 final size:13
Alignment explanation
Indices: 99432149--99432173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99432139 GATTGCTTGC
99432149 AATAAAATAAAAA
1 AATAAAATAAAAA
99432162 AATAAAATAAAA
1 AATAAAATAAAA
99432174 GTAGAAAGAG
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):
AATAAAATAAAAA
Found at i:99437445 original size:25 final size:25
Alignment explanation
Indices: 99437411--99437460 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
99437401 GAATATCGTG
99437411 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
99437436 TCCAATCATGCTGGATGTGATGTTC
1 TCCAATCATGCTGGATGTGATGTTC
99437461 GCATTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (25 bp):
TCCAATCATGCTGGATGTGATGTTC
Found at i:99439389 original size:12 final size:12
Alignment explanation
Indices: 99439374--99439407 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
99439364 ACAAGGCGAA
*
99439374 AAAGAAGGAAAG
1 AAAGAAGAAAAG
99439386 AAAGAAGAAAAG
1 AAAGAAGAAAAG
99439398 AAAGAA-AAAA
1 AAAGAAGAAAA
99439408 AATGTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:99440460 original size:766 final size:767
Alignment explanation
Indices: 99438814--99440623 Score: 2552
Period size: 766 Copynumber: 2.4 Consensus size: 767
99438804 GGCACTGGGT
* * * * * * *
99438814 AGTTTCGAAAAATAGCCCCTGTTTCACTATTTAATGAGTTTCTATCAAGTTTTAAGATCGTTTTC
1 AGTTTCAAAAAACAACCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
* * * *
99438879 ACACACCTAATAGCGAGATTAATCCACCAC-ATAGTCATACACATAAAATCCTATAAACGGCACC
66 ACACACCTGATAGCGAGATTAATCCACCACGA-AGTCATACACTTAAAATCCTACAAACGGAACC
* * * *** *
99438943 AAAACCAACGATTAAAACTTCGATTTAACACAAACATTACCACCTT-ATTTTTTTCTTTTCTTAA
130 AAAACCAACGATTACAACTTCGATTTAACACGAACATTACCA-CTTAAATTCACTCTTTTCTCAA
* *
99439007 AGAAATAGTTCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCT
194 AGAAACAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCT
* *
99439072 TAATTTTTCGGAGGGTTGTCTATCACCACGTGCTCTTCTTCTATCCACAACAACCAGCCACAACA
259 TAATTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACA
* *
99439137 CTATATCGATCATAAAATCATTAATCTATGGATTCTTTTTCTTAAAATAACAAAACCCCAACCTT
324 CTATATCAATCATAAAATCATTAATCTACGGATTCTTTTTCTTAAAATAACAAAACCCCAACCTT
** *
99439202 ATTAAGAACTAATCTTCCACACAACTTACCAACACAACCAAGCCACCATGAGGACAAAAAAGAAT
389 ATTAAGAACTAATCTT-CACACAACTTACCAACACAACCAAGCCACCACAAGGACAAAAAAGAAA
* * *
99439267 CTAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACTAAAGAAAGATTTTGC
453 CAAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACAAAAAAAAGATTTTGC
* *
99439332 AATTGGCACAATAACAAAAGGAGTCGACATTGACAAGGCGAAAAAGAAGGAAAGAAAGAAGAAAA
518 AATTGGCACAATAACAAAAGGAGTCGACATTGACAAGGCAAAAAACAAGGAAAGAAAGAAGAAAA
* ** *
99439397 GAAAGAAAAAAAATGTAAAACAAAGTTGAAAGATGGGAAAGAAACGTGCAACCAAAGAGAAGTTG
583 AAAAGAAAAAAAATGTAAAACAAAAATGAAAGATGGGAAAGAAACGTGCAACAAAAGAGAAGTTG
* * *
99439462 GTTTGATGGTTGCCGAAAGAGAAAAATAATAGGGATTTTATTTAAAAGAATAAAATTACACGGCT
648 GTTTGATGGTTGCCGAAAGAGAAAAATAATAGGGATTTAATTTAAAAAAATAAAATTACACGGCC
* *** * * * * * *
99439527 GTGTGGTGTACACAATCTACTATACGGCTTGACACACGACCGTGTGGCACTGGAA
713 ATGTGGCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACTGGAA
* * * *
99439582 AGTTTCAAAAAACAACCCATGTTTCACGATTTAATGAGTTTCTATCGAGTTTTAGTATTGTTTCC
1 AGTTTCAAAAAACAACCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
* * * * * * *
99439647 ACACACTTGATAACGAGATTAATCCATCATGCAGTCGTACTCTTAAAATCCTACAAACGGAACCA
66 ACACACCTGATAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAACGGAACCA
* ** *
99439712 AAACCAACGATTACAACTTCAATTTAAC-CGAAGGTTACCACTTAAATTCGCTCTTTTCTCAAAG
131 AAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACTCTTTTCTCAAAG
* *
99439776 AAACAGCCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAACAACTACTCCAAAACCTTA
196 AAACAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCTTA
**
99439841 ATTTGTCAAAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACACT
261 ATTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACACT
99439906 ATATCAATCATAAAAATCATTAATCTACGGAATT-TTTTTCTTAAAATAACAAAACCCCAACCTT
326 ATATCAATCAT-AAAATCATTAATCTACGG-ATTCTTTTTCTTAAAATAACAAAACCCCAACCTT
*
99439970 ATTAAGAACTAATCTT-GCACAAC-TACCAACACAACCAAGCCACCACAAGGA-AAAGAAAGAAA
389 ATTAAGAACTAATCTTCACACAACTTACCAACACAACCAAGCCACCACAAGGACAAA-AAAGAAA
* *
99440032 CAAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTTACGCAACAAAAAAAAATATTTTG
453 CAAGCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAAC-AAAAAAAAGATTTTG
* * *
99440097 CAATTGGCACAATAATAAAAGGAGTCGGCATTGATAAGGCAAAAAACAAGGAAAGAAAGAA-AAA
517 CAATTGGCACAATAACAAAAGGAGTCGACATTGACAAGGCAAAAAACAAGGAAAGAAAGAAGAAA
99440161 AAAAAG-AAAAAAATGTAAAACAAAAATGAAAAGA-GGGAAAGAAACGTGCAACAAAAGAGAAGT
582 AAAAAGAAAAAAAATGTAAAACAAAAATG-AAAGATGGGAAAGAAACGTGCAACAAAAGAGAAGT
99440224 TGGTTTGACT-GTTGCCGAAAGAGAAAAATAATAGGGATTTAATTTAAAAAAAAATAAAATTACA
646 TGGTTTGA-TGGTTGCCGAAAGAGAAAAATAATAGGGATTTAATTT--AAAAAAATAAAATTACA
* **
99440288 CGGCCATGTGGCACACACAACCTACCACACATCCTGACACACGGTCGTGTGACACTAGG-A
708 CGGCCATGTGGCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACT-GGAA
** *
99440348 AGTTTTGAAAAACAACCCATGCTTT-ACAATTTAATGAGTTTCTATCTAGTTTTAGGATTGTTTT
1 AGTTTCAAAAAACAACCCATG-TTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTT
* * *
99440412 CACACACCTGATAGGGAGATTAATCCACCACGAATTCATACACTTAAAATCCTACAAA-TGACAC
65 CACACACCTGATAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAACGGA-AC
* *
99440476 CAAAACCAACGATTACAACTTCGATTTAGCACGAACATTACCACTTAAATTCACTATTTTCTCAA
129 CAAAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACTCTTTTCTCAA
* ** * * * *
99440541 AAAAACAGTCCCTATATTCATAAACAAACAGTTACTACAAACTTACAGCAACTACTCTAGAAA-T
194 AGAAACAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCA-AAACC
99440605 TTAATTTGTCGGAGGGTTG
258 TTAATTTGTCGGAGGGTTG
99440624 AAAGAAGGGA
Statistics
Matches: 919, Mismatches: 108, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
764 93 0.10
765 95 0.10
766 269 0.29
767 259 0.28
768 200 0.22
769 3 0.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (767 bp):
AGTTTCAAAAAACAACCCATGTTTCACAATTTAATGAGTTTCTATCAAGTTTTAGGATTGTTTTC
ACACACCTGATAGCGAGATTAATCCACCACGAAGTCATACACTTAAAATCCTACAAACGGAACCA
AAACCAACGATTACAACTTCGATTTAACACGAACATTACCACTTAAATTCACTCTTTTCTCAAAG
AAACAGTCCCTATATTCATAAACAAGTAGTTACCACAAACTTGCAGCAACTACTCCAAAACCTTA
ATTTGTCGGAGGGTTGTCTATCACCACGTGCTCTTCTCCTATCCACAACAACCAGCCACAACACT
ATATCAATCATAAAATCATTAATCTACGGATTCTTTTTCTTAAAATAACAAAACCCCAACCTTAT
TAAGAACTAATCTTCACACAACTTACCAACACAACCAAGCCACCACAAGGACAAAAAAGAAACAA
GCGAACAACAGAATCATAACAAGCCTCAACAGTGTTCTCACGCAACAAAAAAAAGATTTTGCAAT
TGGCACAATAACAAAAGGAGTCGACATTGACAAGGCAAAAAACAAGGAAAGAAAGAAGAAAAAAA
AGAAAAAAAATGTAAAACAAAAATGAAAGATGGGAAAGAAACGTGCAACAAAAGAGAAGTTGGTT
TGATGGTTGCCGAAAGAGAAAAATAATAGGGATTTAATTTAAAAAAATAAAATTACACGGCCATG
TGGCACACACAACCTACCACACAGCCTGACACACGACCGTGTGACACTGGAA
Found at i:99441948 original size:18 final size:19
Alignment explanation
Indices: 99441915--99441951 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
99441905 GATATGATAC
*
99441915 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
99441934 TAAAA-TATATAAAAAAAT
1 TAAAATTATATAAAAAAAT
99441952 CAGGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:99442248 original size:23 final size:22
Alignment explanation
Indices: 99442205--99442262 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
99442195 AAAAGGTATC
* *
99442205 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
99442226 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
99442249 TGCATATCATATCT
1 TACAAATCATATCT
99442263 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:99442265 original size:19 final size:19
Alignment explanation
Indices: 99442241--99442277 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
99442231 AATCATATCT
99442241 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99442260 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
99442278 TAAAGATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99442285 original size:17 final size:19
Alignment explanation
Indices: 99442244--99442285 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
99442234 CATATCTTCT
*
99442244 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCA
99442263 AAGATTGCATATCAT-T-A
1 AAGATTGCATATCATATCA
99442280 AAGATT
1 AAGATT
99442286 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCA
Found at i:99442433 original size:21 final size:20
Alignment explanation
Indices: 99442396--99442434 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
99442386 TTGGACTTCG
**
99442396 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
99442416 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
99442435 TCTGGGCTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:99442689 original size:45 final size:45
Alignment explanation
Indices: 99442633--99442826 Score: 221
Period size: 45 Copynumber: 4.3 Consensus size: 45
99442623 CGATATCAGC
* * *
99442633 TATCTTTGATCTGCTCCTCTTCTAATTCAGAGATACCAAATTTGT
1 TATCTTCGATCTGCTCCTCTTCTAATACAGAGATACCAAATCTGT
* ** **
99442678 TATCTTCGATCTGCTCCTCGTCTAATACAGAGACGCCAAATCTAC
1 TATCTTCGATCTGCTCCTCTTCTAATACAGAGATACCAAATCTGT
* *
99442723 T-TCTTCAATCTACTCC-CTGTCTAATACAGAGATACCAAATCTGT
1 TATCTTCGATCTGCTCCTCT-TCTAATACAGAGATACCAAATCTGT
* * * *
99442767 TATCTCCGATTTGCTCCTCATCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCTCTTCTAATACAGAGATACCAAATCTGT
* *
99442812 CATCTTGGATCTGCT
1 TATCTTCGATCTGCT
99442827 TCGATGTAAA
Statistics
Matches: 121, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.01
44 35 0.29
45 84 0.69
46 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCTCTTCTAATACAGAGATACCAAATCTGT
Found at i:99443079 original size:78 final size:78
Alignment explanation
Indices: 99442840--99443211 Score: 568
Period size: 78 Copynumber: 4.8 Consensus size: 78
99442830 ATGTAAACAC
*
99442840 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
99442905 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
99442918 ATGAAGGTCCA-ATCTGTTAT-TCTTTGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
99442981 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
99442995 ATGAAGGTCATATCTGCTGTGTCTTCGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
99443060 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
99443073 ATGAAGGTTAGATCTACTGTGTCTTTGATCTGTTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
99443138 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * ** *
99443151 ATGAAGGTCATATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGGCAAATC
1 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
99443212 TGTTTCTTCG
Statistics
Matches: 269, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
76 2 0.01
77 70 0.26
78 195 0.72
79 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:99451144 original size:22 final size:21
Alignment explanation
Indices: 99451109--99451184 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
99451099 AAAAGGTATC
* *
99451109 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99451130 TACAAAATCATATCTTCTAATAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99451153 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99451172 TGC-AATCATATCT
1 TACAAATCATATCT
99451185 AAGATTGTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.14
19 9 0.21
20 1 0.02
21 3 0.07
22 15 0.35
23 9 0.21
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99451196 original size:35 final size:36
Alignment explanation
Indices: 99451157--99451227 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
99451147 TAATATTTCA
99451157 TATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
99451192 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAAGATTG
99451228 CATATCATTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:99451216 original size:19 final size:19
Alignment explanation
Indices: 99451145--99451235 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
99451135 AATCATATCT
* *
99451145 TCTAATATTTCATATCATA
1 TCTAAGATTGCATATCATA
99451164 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
99451182 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
99451199 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
99451218 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
99451236 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:99451242 original size:36 final size:35
Alignment explanation
Indices: 99451157--99451243 Score: 115
Period size: 36 Copynumber: 2.5 Consensus size: 35
99451147 TAATATTTCA
*
99451157 TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TATCATATCGAAGATTGCAATCATATCTAAGATTG
*
99451192 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCGAAGATTGCA-ATCATATCTAAGATTG
99451228 CATATCAT-T-GAAGATT
1 --TATCATATCGAAGATT
99451244 ATATTTCCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
35 19 0.40
36 22 0.46
37 1 0.02
38 6 0.12
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TATCATATCGAAGATTGCAATCATATCTAAGATTG
Found at i:99451514 original size:18 final size:18
Alignment explanation
Indices: 99451491--99451529 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
99451481 AATACTTATA
99451491 AATATCGATACCAAATTG
1 AATATCGATACCAAATTG
99451509 AATATCGATACCAAATTG
1 AATATCGATACCAAATTG
99451527 AAT
1 AAT
99451530 TTCTGTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (18 bp):
AATATCGATACCAAATTG
Found at i:99455901 original size:17 final size:17
Alignment explanation
Indices: 99455881--99455940 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
99455871 TTTTACCTTC
*
99455881 AAATTATTTTTGTAGTT
1 AAATGATTTTTGTAGTT
99455898 AAATGA-TTTT-TA-TT
1 AAATGATTTTTGTAGTT
*
99455912 CAAATTATTTTTGTAGTT
1 -AAATGATTTTTGTAGTT
99455930 AAATGATTTTT
1 AAATGATTTTT
99455941 ACTTATAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.06
15 7 0.19
16 8 0.22
17 17 0.47
18 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.57
Consensus pattern (17 bp):
AAATGATTTTTGTAGTT
Found at i:99455919 original size:32 final size:32
Alignment explanation
Indices: 99455878--99455941 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
99455868 CTATTTTACC
99455878 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
1 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
99455910 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
1 TTCAAATTATTTTTGTAGTTAAATGATTTTTA
99455942 CTTATAAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (32 bp):
TTCAAATTATTTTTGTAGTTAAATGATTTTTA
Found at i:99455921 original size:15 final size:16
Alignment explanation
Indices: 99455878--99455941 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
99455868 CTATTTTACC
99455878 TTCAAATTATTTTTGTAG
1 TTCAAATTA-TTTT-TAG
*
99455896 TT-AAATGATTTTTA-
1 TTCAAATTATTTTTAG
99455910 TTCAAATTATTTTTGTAG
1 TTCAAATTA-TTTT-TAG
*
99455928 TT-AAATGATTTTTA
1 TTCAAATTATTTTTA
99455942 CTTATAAACT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 2 0.05
15 9 0.23
16 12 0.31
17 12 0.31
18 4 0.10
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (16 bp):
TTCAAATTATTTTTAG
Found at i:99457185 original size:15 final size:16
Alignment explanation
Indices: 99457165--99457215 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
99457155 TTTAATATAT
*
99457165 TTTTTAA-ATATTTTA
1 TTTTTAATATATTTAA
99457180 TTTTTAATATATTTAA
1 TTTTTAATATATTTAA
* **
99457196 TTTATGTTATATTTAA
1 TTTTTAATATATTTAA
99457212 TTTT
1 TTTT
99457216 GGTATTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 7 0.23
16 23 0.77
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTAATATATTTAA
Found at i:99457759 original size:27 final size:27
Alignment explanation
Indices: 99457719--99457773 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
99457709 CTAGAAAAGA
99457719 GAAAGCAAGCTTTCTTGGCTTAATTGG
1 GAAAGCAAGCTTTCTTGGCTTAATTGG
*
99457746 GAAAGCAAGTTTTCTTGGCTTAATTGG
1 GAAAGCAAGCTTTCTTGGCTTAATTGG
99457773 G
1 G
99457774 TAAGTAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (27 bp):
GAAAGCAAGCTTTCTTGGCTTAATTGG
Found at i:99458866 original size:27 final size:26
Alignment explanation
Indices: 99458818--99458871 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
99458808 TATTCAACAC
* **
99458818 TTAGGGGTATTTTGGTCGTTTTCGCCT
1 TTAGGGGTATTTCGGTAATTTTC-CCT
99458845 TTAGGGGTATTTCGGTAATTTTCCCT
1 TTAGGGGTATTTCGGTAATTTTCCCT
99458871 T
1 T
99458872 AATTATGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.11, C:0.15, G:0.26, T:0.48
Consensus pattern (26 bp):
TTAGGGGTATTTCGGTAATTTTCCCT
Found at i:99459186 original size:28 final size:28
Alignment explanation
Indices: 99459154--99459268 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 28
99459144 TACATGTATC
* *
99459154 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
99459182 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCC-AATCACAT-TCATA
* *
99459211 TGGCTCATTAGGCCCAAGTCACATTTATA
1 TGGCCCATTAGGCCCAA-TCACATTCATA
** *
99459240 TGGCCTGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
99459268 T
1 T
99459269 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
28 28 0.38
29 44 0.60
30 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:99463610 original size:28 final size:29
Alignment explanation
Indices: 99463570--99463684 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
99463560 TACATGTATC
* *
99463570 TGGCCTATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
99463598 TGGCCCATTAAGCCCAAATCAC-TTGTATA
1 TGGCCCATTAAGCCCAAATCACATT-CATA
*
99463627 TGGCCCATTAAGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
** *
99463656 TGGCCTGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
99463684 T
1 T
99463685 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 29 0.38
29 46 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:99463765 original size:17 final size:18
Alignment explanation
Indices: 99463743--99463786 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
99463733 TGCCTACTAT
99463743 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
99463760 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
*
99463779 TGGCCCAT
1 GGGCCCAT
99463787 TTTTCCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
18 7 0.30
19 9 0.39
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:99463774 original size:18 final size:19
Alignment explanation
Indices: 99463751--99463788 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
99463741 ATGGGCCCAA
99463751 TAGCCCA-TCGGGCCCATT
1 TAGCCCATTCGGGCCCATT
*
99463769 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCGGGCCCATT
99463788 T
1 T
99463789 TTCCAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.16, C:0.37, G:0.18, T:0.29
Consensus pattern (19 bp):
TAGCCCATTCGGGCCCATT
Found at i:99465159 original size:16 final size:16
Alignment explanation
Indices: 99465134--99465164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99465124 AAAAATTCAA
*
99465134 GATTTTGGGATTTTTG
1 GATTTCGGGATTTTTG
99465150 GATTTCGGGATTTTT
1 GATTTCGGGATTTTT
99465165 AGGGTGTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.29, T:0.55
Consensus pattern (16 bp):
GATTTCGGGATTTTTG
Found at i:99465988 original size:23 final size:22
Alignment explanation
Indices: 99465924--99465988 Score: 60
Period size: 23 Copynumber: 3.0 Consensus size: 22
99465914 TCCTTTTAAT
* *
99465924 AACTCTTTGGAGTTACCTGTTA
1 AACTCTTAGGAGTTTCCTGTTA
* * * *
99465946 AGCTC-AATGAGCTTCCTGTTCA
1 AACTCTTAGGAGTTTCCTGTT-A
99465968 AACTCTTAGGAGTTTCCTGTT
1 AACTCTTAGGAGTTTCCTGTT
99465989 TAACCCGGAT
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
21 10 0.32
22 9 0.29
23 12 0.39
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (22 bp):
AACTCTTAGGAGTTTCCTGTTA
Found at i:99470807 original size:11 final size:11
Alignment explanation
Indices: 99470791--99470827 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
99470781 CATTCTTTTC
99470791 TTTTCTTTCTT
1 TTTTCTTTCTT
99470802 TTTTCTTTCTT
1 TTTTCTTTCTT
*
99470813 TTTTTTTTCTT
1 TTTTCTTTCTT
99470824 TTTT
1 TTTT
99470828 GGGTGATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:99470810 original size:15 final size:15
Alignment explanation
Indices: 99470786--99470824 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
99470776 AAACACATTC
99470786 TTTTCTTTTCTTTCTT
1 TTTTC-TTTCTTTCTT
*
99470802 TTTTCTTTCTTTTTT
1 TTTTCTTTCTTTCTT
99470817 TTTTCTTT
1 TTTTCTTT
99470825 TTTGGGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTCTTTCTTTCTT
Found at i:99474346 original size:44 final size:46
Alignment explanation
Indices: 99474297--99474384 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
99474287 CATCTGTTCT
*
99474297 ATTCAACCAAACACAAT-AA-TA-AGATTACATTTCTATTCCATTCC
1 ATTCAACCAAACA-AATGAATTACAGATTACAGTTCTATTCCATTCC
* *
99474341 ATTCAACCAAACAATTGAATTACTGATTACAGTTCTATTCCATT
1 ATTCAACCAAACAAATGAATTACAGATTACAGTTCTATTCCATT
99474385 ACAGTTCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.05
44 15 0.39
45 2 0.05
46 19 0.50
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (46 bp):
ATTCAACCAAACAAATGAATTACAGATTACAGTTCTATTCCATTCC
Found at i:99474387 original size:16 final size:16
Alignment explanation
Indices: 99474366--99474451 Score: 86
Period size: 16 Copynumber: 5.4 Consensus size: 16
99474356 TGAATTACTG
*
99474366 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCA
99474382 ATTACAGTTCTATTCA
1 ATTACAGTTCTATTCA
*
99474398 ATTATAGCTT-TATTCA
1 ATTACAG-TTCTATTCA
*
99474414 ATTACAGCTCTA-TCA
1 ATTACAGTTCTATTCA
* ** *
99474429 ATTATAGCCCTATTCC
1 ATTACAGTTCTATTCA
99474445 ATTACAG
1 ATTACAG
99474452 GGAGACAAAC
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
15 14 0.24
16 43 0.73
17 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (16 bp):
ATTACAGTTCTATTCA
Found at i:99474433 original size:31 final size:32
Alignment explanation
Indices: 99474375--99474451 Score: 111
Period size: 31 Copynumber: 2.4 Consensus size: 32
99474365 GATTACAGTT
* *
99474375 CTATTCCATTACAGTTCTATTCAATTATAGCT
1 CTATTCCATTACAGCTCTATTCAATTATAGCC
* *
99474407 TTATTCAATTACAGCTCTA-TCAATTATAGCC
1 CTATTCCATTACAGCTCTATTCAATTATAGCC
99474438 CTATTCCATTACAG
1 CTATTCCATTACAG
99474452 GGAGACAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 23 0.59
32 16 0.41
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (32 bp):
CTATTCCATTACAGCTCTATTCAATTATAGCC
Found at i:99481458 original size:24 final size:23
Alignment explanation
Indices: 99481431--99481511 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 23
99481421 TAGCTCGAAA
99481431 GAGCATCCCGTTATTAGCTCTCTC
1 GAGCATCCCGTTATTAGCTCT-TC
* * * *
99481455 GAGCTTCCCATTATATGGTTCTTGC
1 GAGCATCCCGTTAT-TAGCTCTT-C
* *
99481480 GAGCTTCCCGTTAATAGCTCTTC
1 GAGCATCCCGTTATTAGCTCTTC
99481503 GGAGCATCC
1 -GAGCATCC
99481512 GGATCGGTCA
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.02
24 26 0.58
25 18 0.40
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (23 bp):
GAGCATCCCGTTATTAGCTCTTC
Found at i:99481662 original size:25 final size:25
Alignment explanation
Indices: 99481634--99481685 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
99481624 CCCGCTTGAA
99481634 CTTCCCGA-TATATGGCTATTCGAAG
1 CTTCCCGATTA-ATGGCTATTCGAAG
* * *
99481659 CTTCCTGATTAATGGCTCTTCGGAG
1 CTTCCCGATTAATGGCTATTCGAAG
99481684 CT
1 CT
99481686 ACGGGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
CTTCCCGATTAATGGCTATTCGAAG
Found at i:99488441 original size:49 final size:47
Alignment explanation
Indices: 99488302--99488669 Score: 576
Period size: 47 Copynumber: 7.7 Consensus size: 47
99488292 TTAGGATTCT
* *
99488302 ATGTGATGGATGTGAACA-TGTATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
99488349 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
99488396 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
99488445 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
99488494 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
99488541 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
99488588 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
99488635 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
99488670 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 208 0.68
49 95 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:99488589 original size:192 final size:188
Alignment explanation
Indices: 99488302--99488669 Score: 585
Period size: 192 Copynumber: 1.9 Consensus size: 188
99488292 TTAGGATTCT
*
99488302 ATGTGATGGATGTGAACATGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
99488367 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAA
66 TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTG--TATATATGTGACAA
* * *
99488432 GGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
129 GGCCGAATGGCCAACGCGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCG
*
99488494 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAACA-TGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
99488558 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGG
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGACAAG
* * *
99488623 GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
130 GCCGAATGGCCAACGCGATGAATGTGAAAGTGTATAAATGTGATAAG
99488670 TCCCGAAGGG
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
188 10 0.06
189 1 0.01
190 43 0.26
191 1 0.01
192 109 0.66
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGATGAATGTGAACATGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGACAAGG
CCGAATGGCCAACGCGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCG
Found at i:99488844 original size:37 final size:37
Alignment explanation
Indices: 99488788--99488866 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
99488778 CCGAGCTCTA
* * *
99488788 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
99488825 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
99488862 AAGAC
1 AAGAC
99488867 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:99490523 original size:40 final size:40
Alignment explanation
Indices: 99490082--99490505 Score: 708
Period size: 40 Copynumber: 10.7 Consensus size: 40
99490072 GAGAATTGAG
99490082 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
99490122 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
99490162 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
99490202 AGTGATATATCTGGGCTAAGTACCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
99490242 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
99490282 AGTGATATATCCGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
99490321 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
99490361 AGTGATATATCTGGGCTAAGT-CCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
99490400 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* ** * *
99490440 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
99490480 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
99490506 AGAGTAATCA
Statistics
Matches: 361, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 76 0.21
40 285 0.79
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:99494331 original size:49 final size:47
Alignment explanation
Indices: 99494193--99494655 Score: 730
Period size: 47 Copynumber: 9.7 Consensus size: 47
99494183 TAGGATTCAT
* * *
99494193 TGTGATGGATGTGAACA-TGTATATACGAGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGA
99494240 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
*
99494287 TGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGA
*
99494336 TGGGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGA
99494385 TGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGA
99494434 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
99494481 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
*
99494528 TGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * *
99494575 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAA
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * *
99494622 CGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGTGATGAATGTGAAAGTGTATATATGTGATAAG
99494656 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 251 0.64
49 143 0.36
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
Found at i:99494830 original size:37 final size:37
Alignment explanation
Indices: 99494774--99494852 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
99494764 CCGAGCTCTA
* * *
99494774 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
99494811 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
99494848 AAGAC
1 AAGAC
99494853 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:99502387 original size:59 final size:59
Alignment explanation
Indices: 99502295--99502433 Score: 233
Period size: 59 Copynumber: 2.4 Consensus size: 59
99502285 TGTTGTTGTT
* *
99502295 TACAAATTGCTTAACACTTGGTATACATGGCTGCTGGTTAGAAAAGATAACAATTGATA
1 TACAAATTGCTTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
* *
99502354 TACAAATTGCTTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAGTTGGTA
1 TACAAATTGCTTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
*
99502413 TACAAATTGCTTAATAGTTGG
1 TACAAATTGCTTAACAGTTGG
99502434 ATAACAAATA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 75 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (59 bp):
TACAAATTGCTTAACAGTTGGTATACATGGCTGCTAGTTAGAAAAGATAACAATTGATA
Found at i:99502854 original size:21 final size:21
Alignment explanation
Indices: 99502830--99502883 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
99502820 AACTTCTTGA
99502830 TGAGTTGGGGCAGTAGGT-AT
1 TGAGTTGGGGCAGTAGGTAAT
*
99502850 CTGAGTTGGGGTAGTAGGTAAT
1 -TGAGTTGGGGCAGTAGGTAAT
99502872 TGAGTTGGGGCA
1 TGAGTTGGGGCA
99502884 CCTTGTTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.06, G:0.44, T:0.30
Consensus pattern (21 bp):
TGAGTTGGGGCAGTAGGTAAT
Found at i:99503687 original size:83 final size:84
Alignment explanation
Indices: 99503590--99503767 Score: 234
Period size: 83 Copynumber: 2.1 Consensus size: 84
99503580 TAAAAAAAAC
* *
99503590 TCATTGCATGCATATTAAAAAATAGGCAAC-AC-ACCAACAATCATTGTATGCATATTAAAAAAT
1 TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAA-
*
99503653 AGTCAACAGCTTTCCAACAA
65 AGTCAACAACTTTCCAACAA
* * * *
99503673 TCATTACATGCATATTAAAAAATAGTCAACAACTTTCCAATAATCATTGCATACATATTAAAAAA
1 TCATTGCATGCATATTAAAAAATAGGCAACAAC-TACCAACAATCATTGCATACATATTAAAAAA
* * *
99503738 AGTTAATAACTTTCCAACAG
65 AGTCAACAACTTTCCAACAA
99503758 TCATTGCATG
1 TCATTGCATG
99503768 TGATCAGCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
83 28 0.35
84 2 0.02
85 25 0.31
86 26 0.32
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (84 bp):
TCATTGCATGCATATTAAAAAATAGGCAACAACTACCAACAATCATTGCATACATATTAAAAAAA
GTCAACAACTTTCCAACAA
Found at i:99503750 original size:42 final size:43
Alignment explanation
Indices: 99503590--99503767 Score: 238
Period size: 43 Copynumber: 4.2 Consensus size: 43
99503580 TAAAAAAAAC
* *
99503590 TCATTGCATGCATATTAAAAAATAGGCAAC-AC--ACCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
99503630 TCATTGTATGCATATTAAAAAATAGTCAACAGCTTTCCAACAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* *
99503673 TCATTACATGCATATTAAAAAATAGTCAACAACTTTCCAATAA
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
* * * *
99503716 TCATTGCATACATATTAAAAAA-AGTTAATAACTTTCCAACAG
1 TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
99503758 TCATTGCATG
1 TCATTGCATG
99503768 TGATCAGCAA
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 28 0.23
41 1 0.01
42 25 0.21
43 66 0.55
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (43 bp):
TCATTGCATGCATATTAAAAAATAGTCAACAACTTTCCAACAA
Found at i:99505428 original size:15 final size:16
Alignment explanation
Indices: 99505403--99505436 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
99505393 TCAGATGCAT
99505403 CACTATCACTACCAGA
1 CACTATCACTACCAGA
99505419 CACT-TCACTACCAGA
1 CACTATCACTACCAGA
99505434 CAC
1 CAC
99505437 GTTTTCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.18
Consensus pattern (16 bp):
CACTATCACTACCAGA
Found at i:99505787 original size:62 final size:62
Alignment explanation
Indices: 99505721--99505955 Score: 353
Period size: 62 Copynumber: 3.8 Consensus size: 62
99505711 TAGGAGCTTG
* * *
99505721 GATACAAATAATGACAGATATACACAATAAACATCAATTCAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
*
99505783 GATACAAACAATGGCAGATATACACAATAAACATCAGTTTAATAATGTATAATTTAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
* * * **
99505845 GATACAAACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCA
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG-TA-TAATTTAATGGCA
* *
99505909 GATACAAACAATGGCAGATATACACAATAAAGATCAATTTGATAATG
1 GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATG
99505956 ACATTCATAC
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
62 103 0.64
63 1 0.01
64 56 0.35
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.26
Consensus pattern (62 bp):
GATACAAACAATGGCAGATATACACAATAAACATCAATTTAATAATGTATAATTTAATGGCA
Found at i:99505976 original size:112 final size:111
Alignment explanation
Indices: 99505852--99506105 Score: 391
Period size: 112 Copynumber: 2.3 Consensus size: 111
99505842 GCAGATACAA
**
99505852 ACAATGGCAGATATACACAATAAACATCAATTTGATAATGACATTCATACAATGGCAGATACAAA
1 ACAATGGCAGATATA-ACAATAAACATCAATTTGATAATGACATTCATACAATAACAGATACAAA
99505917 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
65 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
* * * *
99505964 ACAATGGCAGATATATACAATAAAGATCAGTTTGATAATGGCATTCATACAATAATAGATACAAA
1 ACAATGGCAGATATA-ACAATAAACATCAATTTGATAATGACATTCATACAATAACAGATACAAA
* * *
99506029 CAATGGCAGATATACACAATAAAGTTCAGTTTGATAATGGCATTCAT
65 CAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
*
99506076 ACAATGGCAGATACAACCAATAAACATCAA
1 ACAATGGCAGATATAA-CAATAAACATCAA
99506106 AATCAAAATC
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
111 1 0.01
112 127 0.99
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (111 bp):
ACAATGGCAGATATAACAATAAACATCAATTTGATAATGACATTCATACAATAACAGATACAAAC
AATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
Found at i:99505985 original size:48 final size:48
Alignment explanation
Indices: 99505916--99506016 Score: 175
Period size: 48 Copynumber: 2.1 Consensus size: 48
99505906 GCAGATACAA
99505916 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
* * *
99505964 ACAATGGCAGATATATACAATAAAGATCAGTTTGATAATGGCATTCAT
1 ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
99506012 ACAAT
1 ACAAT
99506017 AATAGATACA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (48 bp):
ACAATGGCAGATATACACAATAAAGATCAATTTGATAATGACATTCAT
Found at i:99506016 original size:32 final size:32
Alignment explanation
Indices: 99505978--99506080 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
99505968 TGGCAGATAT
99505978 ATACAATAAAGATCAGTTTGATAATGGCATTC
1 ATACAATAAAGATCAGTTTGATAATGGCATTC
* *
99506010 ATACAATAATAGATACA----AACAATGGCAGATAT-
1 ATACAATAA-AGAT-CAGTTTGATAATGGC--AT-TC
* *
99506042 ACACAATAAAGTTCAGTTTGATAATGGCATTC
1 ATACAATAAAGATCAGTTTGATAATGGCATTC
99506074 ATACAAT
1 ATACAAT
99506081 GGCAGATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 20
0.67 0.09 0.25
Matches are distributed among these distances:
30 9 0.17
31 4 0.07
32 27 0.50
33 5 0.09
34 9 0.17
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (32 bp):
ATACAATAAAGATCAGTTTGATAATGGCATTC
Found at i:99506032 original size:48 final size:48
Alignment explanation
Indices: 99505923--99506032 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
99505913 CAAACAATGG
* * **
99505923 CAGATATACACAATAAAGATCAATTTGATAATGACATTCATACAATGG
1 CAGATACAAACAATAAAGATCAATTTGATAATGACATTCATACAATAA
* * * *
99505971 CAGATATATACAATAAAGATCAGTTTGATAATGGCATTCATACAATAA
1 CAGATACAAACAATAAAGATCAATTTGATAATGACATTCATACAATAA
*
99506019 TAGATACAAACAAT
1 CAGATACAAACAAT
99506033 GGCAGATATA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (48 bp):
CAGATACAAACAATAAAGATCAATTTGATAATGACATTCATACAATAA
Found at i:99506088 original size:64 final size:64
Alignment explanation
Indices: 99505964--99506096 Score: 212
Period size: 64 Copynumber: 2.1 Consensus size: 64
99505954 TGACATTCAT
* *
99505964 ACAATGGCAGATATATACAATAAAGATCAGTTTGATAATGGCATTCATACAATAATAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATAACAGATACAA
* **
99506028 ACAATGGCAGATATACACAATAAAGTTCAGTTTGATAATGGCATTCATACAATGGCAGATACAA
1 ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATAACAGATACAA
*
99506092 CCAAT
1 ACAAT
99506097 AAACATCAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (64 bp):
ACAATGGCAGATATACACAATAAAGATCAGTTTGATAATGGCATTCATACAATAACAGATACAA
Found at i:99506245 original size:6 final size:6
Alignment explanation
Indices: 99506236--99506320 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
99506226 CAAAATAACC
*
99506236 CTAAAT CTAAAT CTAAAT CTAAAT CAAAAT C-AAATT CT-AAT CCTAAAT
1 CTAAAT CTAAAT CTAAAT CTAAAT CTAAAT CTAAA-T CTAAAT -CTAAAT
* * * *
99506284 -TGAGAT CGAAAT CGAAAT -TGAAAT CAAAAT CTAAAT C
1 CT-AAAT CTAAAT CTAAAT CT-AAAT CTAAAT CTAAAT C
99506321 AGAATCAGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.08
6 56 0.88
7 3 0.05
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.28
Consensus pattern (6 bp):
CTAAAT
Found at i:99506366 original size:18 final size:18
Alignment explanation
Indices: 99506345--99506383 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
99506335 TCAAAATTGT
99506345 AATCAAAATAAAAATAGA
1 AATCAAAATAAAAATAGA
* *
99506363 AATCAAAATCAAAATCGA
1 AATCAAAATAAAAATAGA
99506381 AAT
1 AAT
99506384 TAAATTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.18
Consensus pattern (18 bp):
AATCAAAATAAAAATAGA
Found at i:99506949 original size:31 final size:29
Alignment explanation
Indices: 99506913--99506985 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 29
99506903 GGTAACTGTT
*
99506913 AGTTAGTGACTGTTTTGTCACTTTTTTATA
1 AGTTAGTGACTGTTTTGTCACTTTTTGA-A
* *
99506943 ACGTTAGTGACCGTTTTGTTACTTTTTGAA
1 A-GTTAGTGACTGTTTTGTCACTTTTTGAA
99506973 AGTTAAGTGACTG
1 AGTT-AGTGACTG
99506986 AAATGAAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.08
30 10 0.27
31 24 0.65
ACGTcount: A:0.22, C:0.11, G:0.21, T:0.47
Consensus pattern (29 bp):
AGTTAGTGACTGTTTTGTCACTTTTTGAA
Done.