Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 34 of 175
Found at i:9173789 original size:26 final size:26
Alignment explanation
Indices: 9173747--9173805 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
9173737 ACTTATGAAC
9173747 TTTTTAATATTTGTTTAATTTTAAAA
1 TTTTTAATATTTGTTTAATTTTAAAA
*
9173773 TTTTTGAATATTT-TTTAATTTTCAAA
1 TTTTT-AATATTTGTTTAATTTTAAAA
9173799 TTATTTA
1 TT-TTTA
9173806 TTGACGTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTTAATATTTGTTTAATTTTAAAA
Found at i:9174063 original size:23 final size:22
Alignment explanation
Indices: 9174037--9174093 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 22
9174027 CCATTATACC
9174037 AAAACAATAATAATGAGAAAAGA
1 AAAACAATAATAATGA-AAAAGA
*
9174060 AAAACAATAATAA-CAAAAAGA
1 AAAACAATAATAATGAAAAAGA
9174081 AAAA-AA-AATAATG
1 AAAACAATAATAATG
9174094 GGAGGATCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 10 0.32
22 1 0.03
23 13 0.42
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (22 bp):
AAAACAATAATAATGAAAAAGA
Found at i:9178941 original size:21 final size:21
Alignment explanation
Indices: 9178852--9178945 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
9178842 TGAACATGCC
9178852 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
9178873 AACAGGAA-CTTGTAAGAGCTG
1 AACA-GAAGCTCGTAAGAGCTG
* *
9178894 AACAGGAA-CTTGTAAGAGTTG
1 AACA-GAAGCTCGTAAGAGCTG
9178915 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
9178936 AACAGAAGCT
1 AACAGAAGCT
9178946 GAACAGAAGC
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 61 0.91
22 3 0.04
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:9178947 original size:11 final size:11
Alignment explanation
Indices: 9178913--9178956 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
9178903 TTGTAAGAGT
9178913 TGAACAGAAGC
1 TGAACAGAAGC
*
9178924 TCGTA-AG-AGC
1 T-GAACAGAAGC
9178934 TGAACAGAAGC
1 TGAACAGAAGC
9178945 TGAACAGAAGC
1 TGAACAGAAGC
9178956 T
1 T
9178957 CAAAAGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
9 2 0.07
10 6 0.21
11 18 0.64
12 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.27, T:0.14
Consensus pattern (11 bp):
TGAACAGAAGC
Found at i:9186492 original size:31 final size:31
Alignment explanation
Indices: 9186455--9186516 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
9186445 TTGGTCATTG
*
9186455 AACTATTCAAAAGTTTTCT-TTTAAGTCACTA
1 AACTATTCAAAAGTTTT-TATTTAAGCCACTA
9186486 AACTATTCAAAAGTTTTTATTTAAGCCACTA
1 AACTATTCAAAAGTTTTTATTTAAGCCACTA
9186517 GGTTGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTTATTTAAGCCACTA
Found at i:9197488 original size:6 final size:6
Alignment explanation
Indices: 9197463--9197499 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
9197453 CCAAACACAC
9197463 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
9197500 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:9197530 original size:45 final size:45
Alignment explanation
Indices: 9197474--9197628 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
9197464 AGTATACAGT
* *
9197474 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * *
9197519 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
9197564 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
9197609 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
9197629 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:9197571 original size:39 final size:39
Alignment explanation
Indices: 9197483--9197655 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
9197473 TAATCAGTAA
* *
9197483 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
9197526 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
*
9197571 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
9197612 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
9197650 CAGTAA
1 CAGTAA
9197656 GCCGGCAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 68 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:9197916 original size:39 final size:40
Alignment explanation
Indices: 9197832--9197917 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
9197822 TTCTTTACTT
* * * *
9197832 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
9197872 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
9197911 CAGTATT
1 CAGTATT
9197918 CCATAATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.47
40 21 0.52
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:9204544 original size:6 final size:6
Alignment explanation
Indices: 9204519--9204555 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
9204509 CCAAACACAC
9204519 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
9204556 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:9204646 original size:45 final size:44
Alignment explanation
Indices: 9204530--9204683 Score: 220
Period size: 45 Copynumber: 3.5 Consensus size: 44
9204520 AGTATACAGT
*
9204530 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGC-G
* * * *
9204575 AACCTGTAA-AGTAACGGTAACTGTATTCGACACACAAAGTGTCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-CG
*
9204619 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTG-CG
9204664 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
9204684 GTCGGCACAT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
44 36 0.38
45 59 0.62
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (44 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCG
Found at i:9204707 original size:38 final size:39
Alignment explanation
Indices: 9204539--9204710 Score: 123
Period size: 45 Copynumber: 4.2 Consensus size: 39
9204529 TAATCAGTAA
* * *
9204539 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAA----T
* * * * *
9204582 AAAGTAACGGTAACTGTATTCGACACACAAAGTGTCGAGTCAGT
1 -CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGA---A-T
*
9204626 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
* *
9204667 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG-AT
1 CAGTAACAGTAACAGTAGTCGACACACAAAGTGCC-GAAT
9204705 CAGTAA
1 CAGTAA
9204711 GCCGGCAAAT
Statistics
Matches: 110, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
38 15 0.14
39 25 0.23
41 1 0.01
42 1 0.01
44 33 0.30
45 34 0.31
47 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTAGTCGACACACAAAGTGCCGAAT
Found at i:9204971 original size:39 final size:40
Alignment explanation
Indices: 9204887--9204972 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
9204877 TTCTTTACTT
* * * *
9204887 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
9204927 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
9204966 CAGTATT
1 CAGTATT
9204973 CCATAATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.47
40 21 0.52
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:9208689 original size:20 final size:19
Alignment explanation
Indices: 9208664--9208701 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9208654 TATATATACT
9208664 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
9208684 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
9208702 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:9210876 original size:50 final size:50
Alignment explanation
Indices: 9210740--9210904 Score: 152
Period size: 50 Copynumber: 3.3 Consensus size: 50
9210730 GATTTGTAAC
** * * *
9210740 TTGTAGCTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCATTG
1 TTGTAGCTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTA
* ** * ** * * * *
9210790 TTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCTA
1 TTGTAGCTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTA
* *
9210840 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA
1 TTGTAGCTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCA-CTA
*
9210891 -TGTGGCTTTAATCT
1 TTGTAGCTTTAATCT
9210905 ATTCCATTGC
Statistics
Matches: 86, Mismatches: 28, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
50 84 0.98
51 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (50 bp):
TTGTAGCTTTAATCTGTTTAACTGCAATGTCGGGGAAGCAAGATTCACTA
Found at i:9210930 original size:100 final size:100
Alignment explanation
Indices: 9210740--9210941 Score: 253
Period size: 100 Copynumber: 2.0 Consensus size: 100
9210730 GATTTGTAAC
** ** *
9210740 TTGTAGCTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCATTGTTGTAGCTTCAATCT
1 TTGTAGCTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCT
*
9210805 GTTCCACTACACCGCCTGGGAAGTAAG-ATTCGCTA
66 ATTCCACTACACCGCCTGGGAAGTAAGAATT-GCTA
* * * *
9210840 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCT
* * * * *
9210905 ATTCCATTGCATCGCTTGGGGAGTAAGAATTGCTA
66 ATTCCACTACACCGCCTGGGAAGTAAGAATTGCTA
9210940 TT
1 TT
9210942 CTCAGTCTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 83 0.97
101 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (100 bp):
TTGTAGCTTTAATCTGTTTAACTGCAATGTCGAGGAAGCAAGATTCACCGATGTAGCTTCAATCT
ATTCCACTACACCGCCTGGGAAGTAAGAATTGCTA
Found at i:9211140 original size:132 final size:132
Alignment explanation
Indices: 9210987--9211518 Score: 884
Period size: 132 Copynumber: 4.0 Consensus size: 132
9210977 ACTTGTAATT
* * *
9210987 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATA
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
* * *
9211052 TTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGTTTAGAGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
9211117 TC
131 TC
* * * *
9211119 TTCAACTTACTCCGCTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATTTGCTTCCCACTATC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
9211184 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
9211249 TC
131 TC
*
9211251 TTCAACCTACTCCACCGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
*
9211316 TTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
9211381 TC
131 TC
* ** * *
9211383 TTCAACCAACTCCGTTGCTACTCAGGGAGACAAGGTTCGGTAGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
* * *
9211448 TTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACTA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
9211513 TC
131 TC
9211515 TTCA
1 TTCA
9211519 CTGATCTGTT
Statistics
Matches: 374, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 374 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
TC
Found at i:9211502 original size:44 final size:44
Alignment explanation
Indices: 9211190--9211506 Score: 133
Period size: 44 Copynumber: 7.2 Consensus size: 44
9211180 TATCTTGGAA
* *
9211190 AGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * * ** *
9211234 AGATAAGATCTACAATCTTCAACCTACTCCACCGCTGCTCAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * **** * *
9211278 AGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTTAATCTGC-T-CCACTACTGCTTAGG-G
* * *
9211322 AGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * * * ** ** * * *
9211366 AGATAAGATCTACAATCTTCAACCAACTCCGTTGCTACTCAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
* * * ** * * *
9211410 AGACAAGGTTCGGTAGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTTAATCTGC-T-CCACTACTGCTTAGG-G
* *
9211454 AGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGG
1 AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
9211498 AGATAAGAT
1 AGATAAGAT
9211507 CTACTATCTT
Statistics
Matches: 184, Mismatches: 77, Indels: 24
0.65 0.27 0.08
Matches are distributed among these distances:
42 12 0.07
43 8 0.04
44 149 0.81
45 8 0.04
46 7 0.04
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
AGATAAGATTTGCCATCTTTAATCTGCTCCACTACTGCTTAGGG
Found at i:9223854 original size:20 final size:19
Alignment explanation
Indices: 9223829--9223866 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9223819 TATATATACT
9223829 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
9223849 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
9223867 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:9224023 original size:12 final size:12
Alignment explanation
Indices: 9224006--9224042 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
9223996 TAAAACAATG
9224006 AATAATGTTGAA
1 AATAATGTTGAA
*
9224018 AATAATATT-AA
1 AATAATGTTGAA
9224029 AATAATGTTGAA
1 AATAATGTTGAA
9224041 AA
1 AA
9224043 CATAAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (12 bp):
AATAATGTTGAA
Found at i:9227339 original size:17 final size:17
Alignment explanation
Indices: 9227314--9227353 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
9227304 TGTCAGGTCG
*
9227314 TGTGAGCCACACGGCCT
1 TGTGGGCCACACGGCCT
*
9227331 TGTGGGCCACATGGCCT
1 TGTGGGCCACACGGCCT
9227348 TGTGGG
1 TGTGGG
9227354 ACTATTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (17 bp):
TGTGGGCCACACGGCCT
Found at i:9228871 original size:29 final size:30
Alignment explanation
Indices: 9228825--9228886 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
9228815 ACTTGTTTTA
9228825 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
9228855 TTGTTAA-TTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
9228884 TTG
1 TTG
9228887 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:9230093 original size:19 final size:18
Alignment explanation
Indices: 9230070--9230109 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9230060 CATCTCTCTT
*
9230070 CTTTAAATACATCTTTTC
1 CTTTTAATACATCTTTTC
* *
9230088 CTTTTAGTACCTCTTTTC
1 CTTTTAATACATCTTTTC
9230106 CTTT
1 CTTT
9230110 CATAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.03, T:0.55
Consensus pattern (18 bp):
CTTTTAATACATCTTTTC
Found at i:9232219 original size:22 final size:22
Alignment explanation
Indices: 9232194--9232235 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9232184 TATAATTTTG
9232194 TATCATA-ATACATATCAGAGTA
1 TATCATATA-ACATATCAGAGTA
*
9232216 TATCATATAACGTATCAGAG
1 TATCATATAACATATCAGAG
9232236 CTCATCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (22 bp):
TATCATATAACATATCAGAGTA
Found at i:9232327 original size:5 final size:5
Alignment explanation
Indices: 9232312--9232375 Score: 65
Period size: 5 Copynumber: 12.8 Consensus size: 5
9232302 CATACCAGAA
* * * * * * *
9232312 CATAT CTTAT CATAT CACAA CGTAT CATAT TATAT CATAC CATAT CAGAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
9232362 CATAT CATAT CATA
1 CATAT CATAT CATA
9232376 ACATGTCCTA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:9240122 original size:11 final size:11
Alignment explanation
Indices: 9240106--9240130 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9240096 GCGATTATTG
9240106 TATTTATTGTA
1 TATTTATTGTA
9240117 TATTTATTGTA
1 TATTTATTGTA
9240128 TAT
1 TAT
9240131 AAATGGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:9241885 original size:3 final size:3
Alignment explanation
Indices: 9241877--9241915 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
9241867 ATACTTTTTG
9241877 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9241916 GCATAACAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9243566 original size:23 final size:19
Alignment explanation
Indices: 9243519--9243577 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
9243509 ATATCTATGG
9243519 ATTAATAATACTCTATATA
1 ATTAATAATACTCTATATA
9243538 ATTAATAATACTCTATATA
1 ATTAATAATACTCTATATA
* *
9243557 GATAAATAATAATCTATATA
1 -ATTAATAATACTCTATATA
9243577 A
1 A
9243578 CATAATCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAATAATACTCTATATA
Found at i:9243584 original size:14 final size:14
Alignment explanation
Indices: 9243565--9243591 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9243555 TAGATAAATA
9243565 ATAATCTATATAAC
1 ATAATCTATATAAC
9243579 ATAATCTATATAA
1 ATAATCTATATAA
9243592 TAAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:9245210 original size:18 final size:18
Alignment explanation
Indices: 9245189--9245223 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9245179 TTATTTATAA
*
9245189 TATTCGTGATATTATTAG
1 TATTCGTAATATTATTAG
*
9245207 TATTTGTAATATTATTA
1 TATTCGTAATATTATTA
9245224 TTAATGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (18 bp):
TATTCGTAATATTATTAG
Found at i:9246709 original size:18 final size:18
Alignment explanation
Indices: 9246686--9246743 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
9246676 CAAGGTCACG
*
9246686 ATCAATAGCGTCACTATC
1 ATCAATAGCGTCACTAGC
9246704 ATCAATAGCGTCACTAGC
1 ATCAATAGCGTCACTAGC
* *
9246722 ATCAATATCGTCATTAGC
1 ATCAATAGCGTCACTAGC
9246740 ATCA
1 ATCA
9246744 CTATCATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (18 bp):
ATCAATAGCGTCACTAGC
Found at i:9246757 original size:9 final size:9
Alignment explanation
Indices: 9246686--9246755 Score: 50
Period size: 9 Copynumber: 7.8 Consensus size: 9
9246676 CAAGGTCACG
9246686 ATCAATAGC
1 ATCAATAGC
* * *
9246695 GTCACTATC
1 ATCAATAGC
9246704 ATCAATAGC
1 ATCAATAGC
* *
9246713 GTCACTAGC
1 ATCAATAGC
*
9246722 ATCAATATC
1 ATCAATAGC
* *
9246731 GTCATTAGC
1 ATCAATAGC
* *
9246740 ATCACTATC
1 ATCAATAGC
9246749 ATCAATA
1 ATCAATA
9246756 TCGATATCAT
Statistics
Matches: 43, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.29
Consensus pattern (9 bp):
ATCAATAGC
Found at i:9246758 original size:27 final size:27
Alignment explanation
Indices: 9246686--9246758 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
9246676 CAAGGTCACG
* * * *
9246686 ATCAATAGCGTCACTATCATCAATAGC
1 ATCACTAGCATCAATATCGTCAATAGC
* *
9246713 GTCACTAGCATCAATATCGTCATTAGC
1 ATCACTAGCATCAATATCGTCAATAGC
*
9246740 ATCACTATCATCAATATCG
1 ATCACTAGCATCAATATCG
9246759 ATATCATCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (27 bp):
ATCACTAGCATCAATATCGTCAATAGC
Found at i:9250932 original size:18 final size:19
Alignment explanation
Indices: 9250900--9250939 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
9250890 TTCATGCTAG
* *
9250900 AAATCCCAAATTAAAATCC
1 AAATCCCAAAATAAAACCC
9250919 AAAT-CCAAAATAAAACCC
1 AAATCCCAAAATAAAACCC
9250937 AAA
1 AAA
9250940 AGTTCAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATCCCAAAATAAAACCC
Found at i:9254727 original size:17 final size:18
Alignment explanation
Indices: 9254707--9254744 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
9254697 ATTTTTTATC
*
9254707 ATTAATTTATTTTC-TTA
1 ATTAATTAATTTTCTTTA
9254724 ATT-ATTAATTTTCTTTA
1 ATTAATTAATTTTCTTTA
9254741 ATTA
1 ATTA
9254745 GTATCGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAATTAATTTTCTTTA
Found at i:9264417 original size:31 final size:31
Alignment explanation
Indices: 9264329--9264429 Score: 99
Period size: 31 Copynumber: 3.4 Consensus size: 31
9264319 ATACTTGAAA
*
9264329 TTGACA-TTTTTCCTAATTTGGTACTTAAAC
1 TTGACATTTTTTCCTAATTTGGTACCTAAAC
**
9264359 TT----TTTTTGTCC-AATTTCATATCC-AAAC
1 TTGACATTTTT-TCCTAATTTGGTA-CCTAAAC
*
9264386 TTGACACTTTTTCCTAATTTGGTACCTAAAC
1 TTGACATTTTTTCCTAATTTGGTACCTAAAC
9264417 TTGACATTTTTTC
1 TTGACATTTTTTC
9264430 TTAAGTTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
27 17 0.31
28 4 0.07
30 7 0.13
31 27 0.49
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.48
Consensus pattern (31 bp):
TTGACATTTTTTCCTAATTTGGTACCTAAAC
Found at i:9264488 original size:91 final size:88
Alignment explanation
Indices: 9264329--9264498 Score: 216
Period size: 91 Copynumber: 1.9 Consensus size: 88
9264319 ATACTTGAAA
* * *
9264329 TTGACATTTTTCCTAATTTGGTACTTAAACTTTTTTTGTCCAATTTCATATCCAAACTTGACACT
1 TTGACATTTTTCCTAAGTTGATACTTAAACTTTTTTGGTCCAATTTCATATCCAAACTTGACACT
9264394 TTTTCCTAATTTGGTACCTAAAC
66 TTTTCCTAATTTGGTACCTAAAC
* * * *
9264417 TTGACATTTTTTCTTAAGTTGATACTTAATCTTTTTTGGGGTCCAATTTGATA-CCTGAACTTGA
1 TTGACA-TTTTTCCTAAGTTGATACTTAAACTTTTTT--GGTCCAATTTCATATCC-AAACTTGA
* *
9264481 CTCTTTTTCTTAATTTGG
62 CACTTTTTCCTAATTTGG
9264499 CATGTAATCT
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
88 6 0.09
89 26 0.38
90 2 0.03
91 35 0.51
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.48
Consensus pattern (88 bp):
TTGACATTTTTCCTAAGTTGATACTTAAACTTTTTTGGTCCAATTTCATATCCAAACTTGACACT
TTTTCCTAATTTGGTACCTAAAC
Found at i:9264507 original size:60 final size:60
Alignment explanation
Indices: 9264401--9264513 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
9264391 ACTTTTTCCT
* *
9264401 AATTTGGTACCTAAACTTGACATTTTTTCTTAAGTTGATACTTAATCTTTTTTGGGGTCC
1 AATTTGATACCTAAACTTGACATTTTTTCTTAAGTTGACACTTAATCTTTTTTGGGGTCC
* * *
9264461 AATTTGATACCTGAACTTGAC-TCTTTTTCTTAATTTGGCA-TGTAATCTTTTTT
1 AATTTGATACCTAAACTTGACAT-TTTTTCTTAAGTTGACACT-TAATCTTTTTT
9264514 TTGTTCGGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
59 2 0.04
60 44 0.96
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (60 bp):
AATTTGATACCTAAACTTGACATTTTTTCTTAAGTTGACACTTAATCTTTTTTGGGGTCC
Found at i:9267179 original size:12 final size:12
Alignment explanation
Indices: 9267162--9267188 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9267152 AAAAGAAATT
9267162 TTTGCCTCGAAA
1 TTTGCCTCGAAA
9267174 TTTGCCTCGAAA
1 TTTGCCTCGAAA
9267186 TTT
1 TTT
9267189 ACCTGATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTGCCTCGAAA
Found at i:9285283 original size:44 final size:44
Alignment explanation
Indices: 9285232--9285598 Score: 241
Period size: 44 Copynumber: 8.2 Consensus size: 44
9285222 AGTGTAAGGA
* *
9285232 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGAGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
** * *
9285276 AGCAGATTGAAGCTAGTTATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* ** * *
9285320 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCCCTG-AG--AT--TACAG-AG---G
* * *
9285373 CAGCAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* * *
9285418 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* ** * *
9285462 AGCGGATT-AAAATAAAAGATCTTATCTCTCTGA-AGTTACAGTA-G
1 AGCAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TTACAG-AGG
* * * *
9285506 AGTAGA-TCATATC-AG--GTCTTATCTCCCTGAGATTACAGCA-G
1 AGCAGATTGA-AGCTAGAAATCTTATCTCCCTGAGATTACAG-AGG
* * *
9285547 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
*
9285591 AGCGGATT
1 AGCAGATT
9285599 AAAACAAAGG
Statistics
Matches: 247, Mismatches: 51, Indels: 50
0.71 0.15 0.14
Matches are distributed among these distances:
41 28 0.11
42 5 0.02
43 11 0.04
44 158 0.64
45 4 0.02
47 2 0.01
48 1 0.00
49 8 0.03
50 1 0.00
51 2 0.01
53 3 0.01
54 19 0.08
55 3 0.01
56 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
Found at i:9285488 original size:142 final size:140
Alignment explanation
Indices: 9285232--9285643 Score: 621
Period size: 142 Copynumber: 3.0 Consensus size: 140
9285222 AGTGTAAGGA
* * *
9285232 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGAGGAGCAGATTGAAGCTAGTTATC
1 AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
9285297 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
9285362 AGAGTAGATCGC
131 AGAGTAGAT--C
*
9285374 AGCAGATTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
9285439 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
9285504 AGAGTAGAT-
131 AGAGTAGATC
* * *
9285513 --C--A-T--A-TCAG--GTCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATC
1 AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
9285568 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTATCTGAAGTTATAGT
66 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
*
9285633 AGAGTGGATC
131 AGAGTAGATC
9285643 A
1 A
9285644 CATCAGGTCT
Statistics
Matches: 253, Mismatches: 15, Indels: 15
0.89 0.05 0.05
Matches are distributed among these distances:
129 113 0.45
131 3 0.01
132 1 0.00
134 1 0.00
135 1 0.00
137 1 0.00
142 133 0.53
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (140 bp):
AGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
AGAGTAGATC
Found at i:9285623 original size:129 final size:129
Alignment explanation
Indices: 9285393--9285664 Score: 472
Period size: 129 Copynumber: 2.1 Consensus size: 129
9285383 AAGCCAGAAA
*
9285393 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
9285458 GTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCATATCAGG
66 GTGGAGCGGATTAAAACAAAAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCACATCAGG
*
9285522 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * *
9285587 GTGGAGCGGATTAAAACAAAGGATCTTATCTATCTGAAGTTATAGTAGAGTGGATCACATCAGG
66 GTGGAGCGGATTAAAACAAAAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCACATCAGG
9285651 TCTTATCTCCCTAA
1 TCTTATCTCCCTAA
9285665 AATCACGGTG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 134 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTAAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAACAAAAGATCTTATCTATCTGAAGTTACAGTAGAGTAGATCACATCAGG
Found at i:9289995 original size:25 final size:25
Alignment explanation
Indices: 9289967--9290017 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
9289957 ATCACTTTAA
* *
9289967 TATTAAATTAATATAATATTTATCT
1 TATTAAAATAATAGAATATTTATCT
9289992 TATTAAAATAATAGAATATTTATCT
1 TATTAAAATAATAGAATATTTATCT
9290017 T
1 T
9290018 TATATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTAAAATAATAGAATATTTATCT
Found at i:9290615 original size:19 final size:19
Alignment explanation
Indices: 9290577--9290616 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9290567 AAAATATCAT
*
9290577 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
* *
9290596 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTGACTTG
9290615 AT
1 AT
9290617 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:9291800 original size:15 final size:15
Alignment explanation
Indices: 9291776--9291807 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9291766 TATGCATGCA
*
9291776 AAATATAAAAGACAT
1 AAATACAAAAGACAT
9291791 AAATACAAAAGACAT
1 AAATACAAAAGACAT
9291806 AA
1 AA
9291808 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:9298203 original size:16 final size:16
Alignment explanation
Indices: 9298182--9298246 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
9298172 TTCGCTGTAT
*
9298182 TGGAATAGAGGCGCAA
1 TGGAATAGAGGCGTAA
9298198 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
9298214 TGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAA
9298230 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
9298246 T
1 T
9298247 AGCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.18
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:9310444 original size:27 final size:28
Alignment explanation
Indices: 9310371--9310445 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
9310361 GAAAAAACAG
*
9310371 ACCATTGGCGTCTCTCAG-TATGGCACC
1 ACCATTGGCGCCTCTCAGATATGGCACC
** * *
9310398 AATAATGGCGCCTCCCAGATA-GGCACC
1 ACCATTGGCGCCTCTCAGATATGGCACC
*
9310425 ACCATTGGCGCCTCTGAGATA
1 ACCATTGGCGCCTCTCAGATA
9310446 AGCGCCAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (28 bp):
ACCATTGGCGCCTCTCAGATATGGCACC
Found at i:9315859 original size:27 final size:28
Alignment explanation
Indices: 9315820--9315895 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
9315810 TATTTTTTAG
* *
9315820 AATTTTTAGAATTTTTTTAAA-AATATA
1 AATTTTAAAAATTTTTTTAAATAATATA
* * * *
9315847 AATTTTGAAAA-TTTTATAAATATTTTA
1 AATTTTAAAAATTTTTTTAAATAATATA
*
9315874 AATTTTAAAAATTATTTTAAAT
1 AATTTTAAAAATTTTTTTAAAT
9315896 TATTTTTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
26 8 0.21
27 23 0.59
28 8 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTTTAAAAATTTTTTTAAATAATATA
Found at i:9315864 original size:18 final size:17
Alignment explanation
Indices: 9315843--9315886 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9315833 TTTTTAAAAA
9315843 TATAAATTTTGAAAATTT
1 TATAAATTTT-AAAATTT
*
9315861 TATAAATATTTTAAATTT
1 TATAAAT-TTTAAAATTT
*
9315879 TAAAAATT
1 TATAAATT
9315887 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TATAAATTTTAAAATTT
Found at i:9315891 original size:19 final size:18
Alignment explanation
Indices: 9315855--9315896 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9315845 TAAATTTTGA
*
9315855 AAATTTTATAAATATTTT
1 AAATTTTAAAAATATTTT
9315873 AAATTTTAAAAATTATTTT
1 AAATTTTAAAAA-TATTTT
9315892 AAATT
1 AAATT
9315897 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTTTAAAAATATTTT
Found at i:9318276 original size:20 final size:19
Alignment explanation
Indices: 9318251--9318294 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
9318241 ACTTCATGCT
*
9318251 ATTTTTTTA-ATTTTTATGAA
1 ATTTTTATATATTTTT-TG-A
9318271 ATTTTTATATATTTTTTGA
1 ATTTTTATATATTTTTTGA
9318290 ATTTT
1 ATTTT
9318295 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
ATTTTTATATATTTTTTGA
Found at i:9319866 original size:91 final size:90
Alignment explanation
Indices: 9319703--9319867 Score: 212
Period size: 91 Copynumber: 1.8 Consensus size: 90
9319693 CAGTTATTTA
*
9319703 CAAACACTAGTGGTTTATCTACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCAC
1 CAAACACTAGTGGTTTATCCACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCAC
9319768 AACCTACTGACAACATATTAACCTG
66 AACCTACTGACAACATATTAACCTG
* * * *
9319793 CAAACATTGGTGGTTTATCCAC-AACTTTTACTTGCAACTTTTATCTT-CAAATCC-GTTGTGTA
1 CAAACACTAGTGGTTTATCCACAAAC--TTACTGGCAACTTTTAT-TTGCAAA-CCTG-TGTGCA
9319855 TTCACAA-CTACTG
61 TTCACAACCTACTG
9319868 GCAGCGTATT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
89 3 0.05
90 19 0.29
91 27 0.42
92 16 0.25
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.35
Consensus pattern (90 bp):
CAAACACTAGTGGTTTATCCACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCAC
AACCTACTGACAACATATTAACCTG
Found at i:9319878 original size:91 final size:89
Alignment explanation
Indices: 9319702--9319906 Score: 211
Period size: 90 Copynumber: 2.3 Consensus size: 89
9319692 ACAGTTATTT
* *
9319702 ACAAACACTAGTGGTTTATCTACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCA
1 ACAAACATTAGTGGTTTATCCAC-AACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCA
* *
9319767 CAACCTACTGACAACATATTAACCT
65 CAACCTACTGACAACATATTAAACA
* * * *
9319792 GCAAACATTGGTGGTTTATCCACAACTTTTACTTGCAACTTTTATCTT-CAAATCC-GTTGTGTA
1 ACAAACATTAGTGGTTTATCCACAAC--TTACTGGCAACTTTTAT-TTGCAAA-CCTG-TGTGCA
* * *
9319855 TTCACAA-CTACTGGCAGCGTATTAAACA
61 TTCACAACCTACTGACAACATATTAAACA
* *
9319883 AC-AACATTTGTGGTTCATCCACAA
1 ACAAACATTAGTGGTTTATCCACAA
9319907 ACTGGAGTGT
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
89 3 0.03
90 39 0.41
91 38 0.40
92 16 0.17
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (89 bp):
ACAAACATTAGTGGTTTATCCACAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCAC
AACCTACTGACAACATATTAAACA
Found at i:9322195 original size:44 final size:43
Alignment explanation
Indices: 9322113--9322231 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 43
9322103 AGGATTCCGT
**
9322113 TATGTG-TTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGAC
1 TATGTGATTA-CGTGTAAGACCACGTCTAGGACAATGGCATCG-C
* *
9322157 T-TGTGACTTACGTGTAAGACC-CTGTCTGGGACAATGGCATCGT
1 TATGTGA-TTACGTGTAAGACCAC-GTCTAGGACAATGGCATCGC
*
9322200 TATGTGATTACATGTAAGACCACGTCTAGGAC
1 TATGTGATTACGTGTAAGACCACGTCTAGGAC
9322232 GTTGGCATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
43 27 0.42
44 34 0.53
45 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TATGTGATTACGTGTAAGACCACGTCTAGGACAATGGCATCGC
Found at i:9322238 original size:43 final size:43
Alignment explanation
Indices: 9322110--9322239 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 43
9322100 CATAGGATTC
9322110 CGTTATGTG-TTATCGTGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTTATGTGATTA-CGTGTAAGACCACGTCTAGGACGTTGGCAT
* * **
9322153 CGACT-TGTGACTTACGTGTAAGACC-CTGTCTGGGACAATGGCAT
1 CG-TTATGTGA-TTACGTGTAAGACCAC-GTCTAGGACGTTGGCAT
*
9322197 CGTTATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTTATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
9322240 TGTACGAAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
43 35 0.49
44 34 0.47
45 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
CGTTATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:9326111 original size:3 final size:3
Alignment explanation
Indices: 9326103--9326143 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9326093 TAAACTAAAT
9326103 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
9326144 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:9328914 original size:15 final size:15
Alignment explanation
Indices: 9328891--9328929 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
9328881 AAATTCAACC
*
9328891 CTTAATTTTTTAATA
1 CTTAATTTTTTAACA
9328906 CTT-ATTTTTTAACA
1 CTTAATTTTTTAACA
9328920 CTTAATTTTT
1 CTTAATTTTT
9328930 CAATTTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTAATTTTTTAACA
Found at i:9333492 original size:43 final size:43
Alignment explanation
Indices: 9333398--9333620 Score: 299
Period size: 43 Copynumber: 5.2 Consensus size: 43
9333388 TTATTGAAAT
* * *
9333398 AAACGCCGCTAAAGGTCATGTTCTTTA--GTCGCTTTTCCTGA-
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCC-CAC
* *
9333439 AAACGCCGCTAAAGGCCATGTTCTTTAGCGACGCCTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
9333482 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* * *
9333525 AAACGCCACTAAATGCCATGTTCTTTAGCTGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* ** * *
9333568 AAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTCTCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
9333611 AAACGCCGCT
1 AAACGCCGCT
9333621 GTAATAGGCC
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 26 0.16
42 1 0.01
43 134 0.83
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:9346417 original size:32 final size:32
Alignment explanation
Indices: 9346373--9346439 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
9346363 AATTTTAAAT
*
9346373 TAAAACTGTAATAAATTAATAATATTAATTAC
1 TAAAACTATAATAAATTAATAATATTAATTAC
9346405 TAAAACTATAATAAATTAATAATATTAATTAC
1 TAAAACTATAATAAATTAATAATATTAATTAC
9346437 TAA
1 TAA
9346440 GATTTAGATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.37
Consensus pattern (32 bp):
TAAAACTATAATAAATTAATAATATTAATTAC
Found at i:9348419 original size:30 final size:30
Alignment explanation
Indices: 9348379--9348458 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
9348369 CAAGTGTATG
* *
9348379 GCCGTGTGGGCCATAAGGGCTATTGGCCAA
1 GCCGTGTGGGCCACAAGGGCTATGGGCCAA
* * * *
9348409 GCCGTATGGGCCACACGGGTTATGGGCCAG
1 GCCGTGTGGGCCACAAGGGCTATGGGCCAA
9348439 GCCGTGTGGGCCACAAGGGC
1 GCCGTGTGGGCCACAAGGGC
9348459 AAGGGCAAGG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.16
Consensus pattern (30 bp):
GCCGTGTGGGCCACAAGGGCTATGGGCCAA
Found at i:9350349 original size:24 final size:24
Alignment explanation
Indices: 9350306--9350366 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
9350296 GTGGCATATG
* * *
9350306 GCCGTGTGACAACCCATGTCTCAA
1 GCCGTGTGACAGCTCATGTCACAA
* *
9350330 GCCGTGTGACAGCTCGTGTCACAG
1 GCCGTGTGACAGCTCATGTCACAA
*
9350354 GCCGTATG-CAGCT
1 GCCGTGTGACAGCT
9350367 GAATGTCTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (24 bp):
GCCGTGTGACAGCTCATGTCACAA
Found at i:9351327 original size:20 final size:20
Alignment explanation
Indices: 9351294--9351341 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
9351284 CAGAGCACTA
* * *
9351294 AAGTGAAAATAGAGGCATCG
1 AAGTGCAAACAGAGGCACCG
*
9351314 AAGTGCAAACAGAGTCACCG
1 AAGTGCAAACAGAGGCACCG
9351334 AAGTGCAA
1 AAGTGCAA
9351342 CCCCATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTGCAAACAGAGGCACCG
Found at i:9359375 original size:84 final size:84
Alignment explanation
Indices: 9359259--9359612 Score: 426
Period size: 84 Copynumber: 4.2 Consensus size: 84
9359249 GACCGTGTGT
* * * * *
9359259 CCAAA-ACACATGCCCATGTGGGATCCCCAAATCACCAAGTTGGCCACATGGTCGTGTGGCATCA
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
*
9359323 AATCACATAACCCTAACTC
66 AATCACATAACCCTAATTC
* * * *
9359342 CCAAACACACACGCCCGTGAGGGATCCTTAAATCTCTAAGTTGGCCACACGGTCATGTGGCATCA
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
9359407 AATCACATAACCCTAATTC
66 AATCACATAACCCTAATTC
* * * * * * * * * *
9359426 CCTAACACATATGCTCGTGTGGGATCTCTAAATTACCAAGTTGGCCAAAC-GACTGTCTGGCATC
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTC-GTGTGGCATC
9359490 AAATCACATAACCCTAATTC
65 AAATCACATAACCCTAATTC
* * * * * * *
9359510 TCGAACACACACGCTCAT-ATAGGATCCCTAAATCCCCAAGTTGGCCACACGGTTGTGTGGCATC
1 CCAAACACACACGCCCGTGA-GGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATC
9359574 AAATCACATAACCCTAATTC
65 AAATCACATAACCCTAATTC
9359594 CCAAACACACACGCCCGTG
1 CCAAACACACACGCCCGTG
9359613 TGAGAAAGGG
Statistics
Matches: 224, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
83 7 0.03
84 216 0.96
85 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (84 bp):
CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
AATCACATAACCCTAATTC
Found at i:9360310 original size:5 final size:6
Alignment explanation
Indices: 9360295--9360336 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
9360285 TTTTCATATC
9360295 AAAAAT AAAAAT AAAAAT AAGAAA- AAACGAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AA-AAAT AAA--AAT AAAAAT AAAA
9360337 TCTAACCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 1 0.03
6 23 0.72
7 5 0.16
8 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:9363747 original size:17 final size:18
Alignment explanation
Indices: 9363703--9363748 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
9363693 AATAAATAAT
9363703 ATTAACTTTATTAAACATA
1 ATTAA-TTTATTAAACATA
**
9363722 ATTAA-TTATTAATTATA
1 ATTAATTTATTAAACATA
9363739 A-TAATTTATT
1 ATTAATTTATT
9363749 TTTCTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
19 5 0.21
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAATTTATTAAACATA
Found at i:9372866 original size:17 final size:17
Alignment explanation
Indices: 9372844--9372882 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9372834 CATTCTATTA
9372844 ATTTAATAATAA-TTAAT
1 ATTTAAT-ATAATTTAAT
*
9372861 ATTTAATTTAATTTAAT
1 ATTTAATATAATTTAAT
9372878 ATTTA
1 ATTTA
9372883 CCTTGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATATAATTTAAT
Found at i:9373312 original size:34 final size:34
Alignment explanation
Indices: 9373202--9373314 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
9373192 TCGAATAATG
* * * * *
9373202 ATAAGCATGTCTTTTGCTACTATATTGATTTGTT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
* * *
9373236 ATAAGCATATCTATTCCTACCGTATTGATCTATT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
* *
9373270 ATAAGCATGTCCATTACTACCATTTTGATCTATT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
9373304 ATAAGCATGTC
1 ATAAGCATGTC
9373315 ATAATGCATT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (34 bp):
ATAAGCATGTCTATTACTACCATATTGATCTATT
Found at i:9374670 original size:24 final size:24
Alignment explanation
Indices: 9374626--9374671 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9374616 GAAGGATTTG
*
9374626 TGCTAGTGTATTTAGCCAGCTTTT
1 TGCTAGTGTATTTAGCAAGCTTTT
*
9374650 TGCTAGTGTATTTAGTAAGCTT
1 TGCTAGTGTATTTAGCAAGCTT
9374672 CAAGCCGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.46
Consensus pattern (24 bp):
TGCTAGTGTATTTAGCAAGCTTTT
Found at i:9377831 original size:45 final size:45
Alignment explanation
Indices: 9377741--9377922 Score: 161
Period size: 45 Copynumber: 4.0 Consensus size: 45
9377731 GTTACATTTG
* * * * * *
9377741 TCCACAACATACTAGCAGTTTTTATCCA-CACCAATAACTGGTTTA
1 TCCACAACGTACTAGCAGCTTTTAT-TATCACTAATGAGTGGTTTA
* * * * *
9377786 TCTACAACGTACTAGTAGCTTTTATTTTCACTGATGAGTGATTTA
1 TCCACAACGTACTAGCAGCTTTTATTATCACTAATGAGTGGTTTA
** * *
9377831 TCCACAATTTACTAGCAGATTTTA-TATGTACTAATGAGTGGTTTA
1 TCCACAACGTACTAGCAGCTTTTATTAT-CACTAATGAGTGGTTTA
* * * *
9377876 TCCACAACATACTAGCAACTTTTATTAGCACCAATGAGTGGTTTA
1 TCCACAACGTACTAGCAGCTTTTATTATCACTAATGAGTGGTTTA
9377921 TC
1 TC
9377923 AATATCGTAC
Statistics
Matches: 107, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
44 2 0.02
45 103 0.96
46 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (45 bp):
TCCACAACGTACTAGCAGCTTTTATTATCACTAATGAGTGGTTTA
Found at i:9378404 original size:67 final size:67
Alignment explanation
Indices: 9378280--9378642 Score: 300
Period size: 67 Copynumber: 5.4 Consensus size: 67
9378270 ATGGGCTATA
* * ** * * * * * * * *
9378280 ATGGGGTATGATGTGTAAAATCATAGCTTAACTATAGCAACATAAAGCGTACTCCAAGAAATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAAGACATTAA
9378345 AC
66 AC
* * * * * * *
9378347 ATGGGGTATGATGTGTAAGACCATAGCTCGGTTATGGTAATATATAGAGTCCCCCAAGACATTGA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAAGACATTAA
9378412 AC
66 AC
* * *
9378414 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTTCACTAGGACATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAAGACATTAA
9378479 AC
66 AC
* * * * * * *
9378481 AT-GTGTATGATTTGTAAAACCATAGCACGATTATGGTC-ACATAAAGAG-CCTGCTAGGATATT
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGG-CAACATAGAGAGTCC-GCTAAGACATT
*
9378543 AAAA
64 AAAC
* * * * ** * * * * *
9378547 ATAGGGCATGATGTGTAAAACCATAGCTTGGCTATGGCCACATAGAGAGACTGTTAAGATATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAAGACATTAA
9378612 AC
66 AC
* *
9378614 ATGGGGCATTATGTGTAAGACCATAGCTC
1 ATGGGGTATGATGTGTAAGACCATAGCTC
9378643 AACTATGACA
Statistics
Matches: 242, Mismatches: 49, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
65 1 0.00
66 54 0.22
67 186 0.77
68 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (67 bp):
ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAAGACATTAA
AC
Found at i:9383365 original size:67 final size:67
Alignment explanation
Indices: 9383257--9383560 Score: 389
Period size: 67 Copynumber: 4.6 Consensus size: 67
9383247 GGGTTGTAAT
*
9383257 AGGTATAATGTGTAAGACCATAGCTCAACTAT-AGCAACATAGAGAGTCTGCCAGGACATTAAAC
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGA-CAACATAGAGAGTCTGCCAGGACATTAAAC
9383321 ATG
65 ATG
* * * *
9383324 AGGTATGATATGTAAGACCATAACTCAACTATGGCAACATAGAGAGTCTGTCAGGACATTAAACA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
9383389 TG
66 TG
* *** * *
9383391 TGGTATGATGTGTAAGACCATAGCTCGGTTATGACAACATAGAGAATCTGCTAGGACATTAAACA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
9383456 TG
66 TG
* * * * ** * *
9383458 -GTGTATGATGTGTAAAACCATAGCTCGA-TATGACCATATAGAGAGTCTGTGAGAATATTAAAC
1 AG-GTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAAC
9383521 ATG
65 ATG
*
9383524 GGGTATGATGTGTAAGACCATAGCTCAACTATGACAA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAA
9383561 ATACAAAGTT
Statistics
Matches: 206, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
66 56 0.27
67 150 0.73
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (67 bp):
AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
TG
Found at i:9402128 original size:27 final size:25
Alignment explanation
Indices: 9402086--9402141 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
9402076 TAAAAGTAAA
* *
9402086 AAATAAATAAAGATAA-TTGAAATTG
1 AAATAAATAAAAATAAGTAGAAA-TG
9402111 AAATAAGAGTAAAAATAAGTAGAAATG
1 AAATAA-A-TAAAAATAAGTAGAAATG
9402138 AAAT
1 AAAT
9402142 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 14 0.54
28 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.23
Consensus pattern (25 bp):
AAATAAATAAAAATAAGTAGAAATG
Found at i:9402772 original size:5 final size:5
Alignment explanation
Indices: 9402762--9402791 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9402752 AAGATTTTAT
9402762 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
9402792 CAAATATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:9403008 original size:20 final size:20
Alignment explanation
Indices: 9402983--9403028 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
9402973 TTTTCAATAA
9402983 TTTATTATCAAA-TCAATATT
1 TTTATTAT-AAATTCAATATT
*
9403003 TTTATTCTAAATTTCAATATT
1 TTTATTATAAA-TTCAATATT
9403024 TTTAT
1 TTTAT
9403029 CTTAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 7 0.30
21 13 0.57
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTATAAATTCAATATT
Found at i:9404158 original size:20 final size:20
Alignment explanation
Indices: 9404133--9404172 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9404123 AGTAGTGAAC
9404133 TTGAGACAAAGATGCTTGAT
1 TTGAGACAAAGATGCTTGAT
9404153 TTGAGACAAAGATGCTTGAT
1 TTGAGACAAAGATGCTTGAT
9404173 ATAGGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
TTGAGACAAAGATGCTTGAT
Found at i:9406176 original size:23 final size:21
Alignment explanation
Indices: 9406126--9406176 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
9406116 CTCGTCTTTT
*
9406126 TCTTTTGTTTCTTTTTCTAAC
1 TCTTTTCTTTCTTTTTCTAAC
9406147 TCATTTTCTCTTCTTTCTTC-AAC
1 TC-TTTTCT-TTCTTT-TTCTAAC
9406170 ATCTTTT
1 -TCTTTT
9406177 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.63
Consensus pattern (21 bp):
TCTTTTCTTTCTTTTTCTAAC
Found at i:9406195 original size:17 final size:18
Alignment explanation
Indices: 9406170--9406204 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9406160 TTTCTTCAAC
*
9406170 ATCTTTTTCA-ATTTCTT
1 ATCTGTTTCACATTTCTT
9406187 ATCTGTTTCACATTTCTT
1 ATCTGTTTCACATTTCTT
9406205 TTCACTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (18 bp):
ATCTGTTTCACATTTCTT
Found at i:9416784 original size:39 final size:38
Alignment explanation
Indices: 9416691--9416790 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 38
9416681 AAAATCCTTG
*
9416691 TTATAATTATTGTAATTATAATTTATGATCGAACAATA
1 TTATAATTATTGTAATTATAATTTATGATCAAACAATA
* * * *
9416729 TTATAATTATTGTAATTGTAATTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAATTTAT-GATCAAACAATA
9416768 TTATAATTA-TGATAATTATAATT
1 TTATAATTATTG-TAATTATAATT
9416791 ATTATATTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
38 26 0.48
39 28 0.52
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTATGATCAAACAATA
Found at i:9430344 original size:21 final size:21
Alignment explanation
Indices: 9430320--9430374 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9430310 TTTTACTTTA
**
9430320 TGTTTAGCTCTTTTGAGCTTC
1 TGTTTAGCTCTTACGAGCTTC
9430341 TGTTTAGCTCTTACGAGCTTC
1 TGTTTAGCTCTTACGAGCTTC
*
9430362 TGTTTAACTCTTA
1 TGTTTAGCTCTTA
9430375 TCAATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (21 bp):
TGTTTAGCTCTTACGAGCTTC
Found at i:9435200 original size:21 final size:24
Alignment explanation
Indices: 9435176--9435221 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9435166 TGCTTTTAAG
9435176 TAATCA-TTTTAAAT-TA-AATTA
1 TAATCATTTTTAAATGTATAATTA
*
9435197 TAATTATTTTTAAATGTATAATTA
1 TAATCATTTTTAAATGTATAATTA
9435221 T
1 T
9435222 CATAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 2 0.10
24 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATCATTTTTAAATGTATAATTA
Found at i:9435336 original size:76 final size:76
Alignment explanation
Indices: 9435252--9435403 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
9435242 ATTATCAAAC
* *
9435252 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTTTAAATGTCAATTTAATAATACAATAA
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATATCAATTTAATAATACAATAA
9435317 AAAATAAAAGG
66 AAAATAAAAGG
9435328 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATATCAATTTAATAATACAATAA
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATATCAATTTAATAATACAATAA
9435393 AAAATAAAAGG
66 AAAATAAAAGG
9435404 CTTTCTCATT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (76 bp):
TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATATCAATTTAATAATACAATAA
AAAATAAAAGG
Found at i:9436435 original size:24 final size:22
Alignment explanation
Indices: 9436400--9436480 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 22
9436390 ATGATAACGG
*
9436400 TAAATTAAATTATAATTATTTT
1 TAAATTTAATTATAATTATTTT
* *
9436422 TAAATATGTAATTATCATAATTTT
1 TAAAT-T-TAATTATAATTATTTT
*
9436446 T--ATTAAATTATAATTATTTT
1 TAAATTTAATTATAATTATTTT
9436466 TAAATGTATAATTAT
1 TAAAT-T-TAATTAT
9436481 TACTCCTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 14 0.30
21 1 0.02
22 9 0.20
23 2 0.04
24 20 0.43
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (22 bp):
TAAATTTAATTATAATTATTTT
Found at i:9436443 original size:27 final size:26
Alignment explanation
Indices: 9436411--9436462 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
9436401 AAATTAAATT
*
9436411 ATAATTATTT-TTAAATATGTAATTATC
1 ATAATT-TTTATTAAAT-TATAATTATC
9436438 ATAATTTTTATTAAATTATAATTAT
1 ATAATTTTTATTAAATTATAATTAT
9436463 TTTTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
ATAATTTTTATTAAATTATAATTATC
Found at i:9436477 original size:18 final size:18
Alignment explanation
Indices: 9436438--9436481 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
9436428 TGTAATTATC
9436438 ATAATT-TTTATTAAATT
1 ATAATTATTTATTAAATT
9436455 ATAATTATTT-TTAAATGT
1 ATAATTATTTATTAAAT-T
9436473 ATAATTATT
1 ATAATTATT
9436482 ACTCCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAATTATTTATTAAATT
Found at i:9444909 original size:22 final size:22
Alignment explanation
Indices: 9444870--9444914 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9444860 TTAATATATG
* *
9444870 AAATATAAATTTTAAATTTTTT
1 AAATATAAATATTAAATTATTT
9444892 AAATAATAAATATT-AATTATTT
1 AAAT-ATAAATATTAAATTATTT
9444914 A
1 A
9444915 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAATATAAATATTAAATTATTT
Found at i:9445179 original size:13 final size:13
Alignment explanation
Indices: 9445163--9445187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9445153 TTCAGAATTG
9445163 CTTTTGAAAAGCA
1 CTTTTGAAAAGCA
9445176 CTTTTGAAAAGC
1 CTTTTGAAAAGC
9445188 TAAAAATTTC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTGAAAAGCA
Found at i:9446942 original size:11 final size:11
Alignment explanation
Indices: 9446928--9446965 Score: 67
Period size: 11 Copynumber: 3.4 Consensus size: 11
9446918 TTTTTTTAAA
9446928 TTTTAAAATAT
1 TTTTAAAATAT
9446939 TTTTAAAATAT
1 TTTTAAAATAT
9446950 TTTTAAAATACT
1 TTTTAAAATA-T
9446962 TTTT
1 TTTT
9446966 TTAAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 21 0.81
12 5 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:9446973 original size:22 final size:21
Alignment explanation
Indices: 9446918--9446975 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
9446908 ATATTTTTAT
9446918 TTTTTTTAAA-TTTTAAAATA
1 TTTTTTTAAATTTTTAAAATA
**
9446938 TTTTTAAAATATTTTTAAAATA
1 TTTTTTTAA-ATTTTTAAAATA
9446960 CTTTTTTTAAATTTTT
1 -TTTTTTTAAATTTTT
9446976 TTTAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.23
21 1 0.03
22 16 0.52
23 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTTAAATTTTTAAAATA
Found at i:9446975 original size:11 final size:11
Alignment explanation
Indices: 9446928--9446982 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
9446918 TTTTTTTAAA
*
9446928 TTTTAAAATAT
1 TTTTAAAATTT
9446939 TTTTAAAATATT
1 TTTTAAAAT-TT
*
9446951 TTTAAAATACTTT
1 TTTTAAA-A-TTT
*
9446964 TTTTAAATTTT
1 TTTTAAAATTT
9446975 TTTTAAAA
1 TTTTAAAA
9446983 ATTGGTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 19 0.53
12 7 0.19
13 9 0.25
14 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:9447945 original size:59 final size:60
Alignment explanation
Indices: 9447865--9448026 Score: 159
Period size: 59 Copynumber: 2.7 Consensus size: 60
9447855 ACTTTAACTT
* * *
9447865 TTCAATATTTACACATTTTATTAATTTGGTCTTAATTCTAAAA-ATTGAATAAATTTAGCC
1 TTCAATATTTACAAAATTTATT-ATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
* * * *
9447925 TTCAATA-TTACAAAATTTATTATTTAGTTTTAATTCTAAAACATTTAATAACTTTAGTC
1 TTCAATATTTACAAAATTTATTATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
** ** * *
9447984 TGGAACGTTTACAAAATTTATCAATTTAAT-TATAATTCTAAAA
1 TTCAATATTTACAAAATTTAT-TATTTAGTCT-TAATTCTAAAA
9448027 GTTAAAAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 18 0.21
59 29 0.34
60 21 0.25
61 17 0.20
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (60 bp):
TTCAATATTTACAAAATTTATTATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
Found at i:9448557 original size:28 final size:27
Alignment explanation
Indices: 9448526--9448594 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
9448516 TTTTCTCTTT
* * *
9448526 TCAATTTTTAGATTTAGAATTAAATTGA
1 TCAATTTTTAAAATTAGAACTAAA-TGA
9448554 TCAATTTTTTAAAATTAGAACTAAATGA
1 TCAA-TTTTTAAAATTAGAACTAAATGA
*
9448582 TAAATTTTGTAAA
1 TCAATTTT-TAAA
9448595 CATTGAAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 14 0.40
29 17 0.49
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (27 bp):
TCAATTTTTAAAATTAGAACTAAATGA
Found at i:9448571 original size:29 final size:28
Alignment explanation
Indices: 9448526--9448594 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
9448516 TTTTCTCTTT
* * *
9448526 TCAA-TTTTTAGATTTAGAATTAAATTGA
1 TCAATTTTTTAAAATTAGAACTAAA-TGA
9448554 TCAATTTTTTAAAATTAGAACTAAATGA
1 TCAATTTTTTAAAATTAGAACTAAATGA
* *
9448582 TAAATTTTGTAAA
1 TCAATTTTTTAAA
9448595 CATTGAAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
TCAATTTTTTAAAATTAGAACTAAATGA
Found at i:9452935 original size:46 final size:45
Alignment explanation
Indices: 9452868--9453111 Score: 294
Period size: 46 Copynumber: 5.6 Consensus size: 45
9452858 TTTGAGTACT
* *
9452868 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
9452914 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
9452950 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
9452996 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
9453042 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
9453087 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
9453112 ATCTTACGTA
Statistics
Matches: 175, Mismatches: 13, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.09
44 3 0.02
45 19 0.11
46 100 0.57
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:9452950 original size:36 final size:36
Alignment explanation
Indices: 9452904--9452976 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
9452894 GGTAGCTTTA
9452904 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
9452940 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
9452976 G
1 G
9452977 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:9452971 original size:82 final size:85
Alignment explanation
Indices: 9452868--9453111 Score: 302
Period size: 82 Copynumber: 2.8 Consensus size: 85
9452858 TTTGAGTACT
* *
9452868 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
9452933 GATAAGTG-C-TA-T-ACTTA
65 GATAAGTGCCTTACTAACTTA
* *
9452950 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
9453015 GATAAGTGGTAGCCTTAGCTACACTTA
65 GATAA---GT-GCCTTA-CTA-ACTTA
* * * *
9453042 TCTAATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
9453105 ATAAGTG
66 ATAAGTG
9453112 ATCTTACGTA
Statistics
Matches: 141, Mismatches: 10, Indels: 19
0.83 0.06 0.11
Matches are distributed among these distances:
82 64 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 3 0.02
91 20 0.14
92 34 0.24
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTAACTTA
Found at i:9457604 original size:41 final size:41
Alignment explanation
Indices: 9457547--9457706 Score: 241
Period size: 41 Copynumber: 3.9 Consensus size: 41
9457537 AATGAGATAA
* *
9457547 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGATGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
9457588 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* * *
9457629 TTCAGACTTTACGTCTAGCAGGCTTGACGTCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
9457670 TTCAGACTTTACGTCTAGTAGGC-TAATTGCCGGTGAA
1 TTCAGACTTTACGTCTAGCAGGCTTGA-TGCCGGTGAA
9457707 TCTGTTGAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 107 0.98
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:9459812 original size:23 final size:23
Alignment explanation
Indices: 9459782--9459827 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9459772 TGCACTTTCT
*
9459782 TTTAACAAGTCCTAAGTTTGAAA
1 TTTAACAAGTCCTAAGTTCGAAA
9459805 TTTAACAAGTCCTAAGTTCGAAA
1 TTTAACAAGTCCTAAGTTCGAAA
9459828 CCCTTCCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (23 bp):
TTTAACAAGTCCTAAGTTCGAAA
Found at i:9460275 original size:68 final size:68
Alignment explanation
Indices: 9460144--9460272 Score: 181
Period size: 68 Copynumber: 1.9 Consensus size: 68
9460134 TTTTTTAACG
* *
9460144 TACATTGTGAGTATGGTAAATTCTAATATTGTAAAAATAATTATTTCAAATATTATTATATTTTC
1 TACATTGTGAGTATGGTAAATTCTAATATTGAAAAAATAATTATTTCAAATATCATTATATTTTC
9460209 CCC
66 CCC
*
9460212 TACATTGTGAGTATGGTAAA-TCTAATATAT-AAAATCAATTAATTATTTCGAATATCATTAT
1 TACATTGTGAGTATGGTAAATTCTAATAT-TGAAAA--AA-TAATTATTTCAAATATCATTAT
9460273 TTTAGTAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
67 11 0.20
68 21 0.39
69 2 0.04
70 20 0.37
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (68 bp):
TACATTGTGAGTATGGTAAATTCTAATATTGAAAAAATAATTATTTCAAATATCATTATATTTTC
CCC
Found at i:9460503 original size:70 final size:69
Alignment explanation
Indices: 9460399--9460541 Score: 157
Period size: 70 Copynumber: 2.1 Consensus size: 69
9460389 TTTCACATAT
*
9460399 AAAAACAATGGCATTTGAAATAATTAATTAATTTT-T-ATATTAAAAATTGCTA-TACCCACAAT
1 AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATT-AAAATT--TACTA-CCACAAT
*
9460461 GTAGGTGA
62 GTACGTGA
* ** * * *
9460469 AAAAATAATGACATTTGAAATGGTTATTTGATTTTATAATATTAGAATTTACTACCACAATGTAC
1 AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATTAAAATTTACTACCACAATGTAC
9460534 GTGA
66 GTGA
9460538 AAAA
1 AAAA
9460542 TAAATATTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
69 20 0.32
70 31 0.50
71 6 0.10
72 5 0.08
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (69 bp):
AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATTAAAATTTACTACCACAATGTAC
GTGA
Found at i:9465070 original size:110 final size:110
Alignment explanation
Indices: 9464831--9465057 Score: 404
Period size: 110 Copynumber: 2.1 Consensus size: 110
9464821 TATACCGAAA
9464831 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAAAAATTTGTACTGTGACT
1 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAAAAATTTGTACTGTGACT
9464896 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAT
66 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAT
9464941 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAA-TAAAAAAAATTTTGTACTGTGTA
1 TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAAAAA-TTTGTACTGTG-A
* *
9465005 TTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-TTTTTTTTTGT
64 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAT
9465051 TTTTTTC
1 TTTTTTC
9465058 TTTTTCGTAT
Statistics
Matches: 113, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
109 9 0.08
110 69 0.61
111 35 0.31
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (110 bp):
TTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAAAAATTTGTACTGTGACT
GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAT
Found at i:9467525 original size:36 final size:36
Alignment explanation
Indices: 9467476--9467548 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
9467466 TCTCCCCGAG
* * *
9467476 ACGAAGGCACTTTGATTTTGATTTATACACTCGGGA
1 ACGAAGGCACTTTGACTTTGACTTATACAATCGGGA
**
9467512 ACGAAGGTGCTTTGACTTTGACTTATACAATCGGGA
1 ACGAAGGCACTTTGACTTTGACTTATACAATCGGGA
9467548 A
1 A
9467549 GGATAGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (36 bp):
ACGAAGGCACTTTGACTTTGACTTATACAATCGGGA
Found at i:9470436 original size:14 final size:14
Alignment explanation
Indices: 9470417--9470456 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
9470407 TTGATAGCCA
9470417 GTAAAATGTTTTCT
1 GTAAAATGTTTTCT
*
9470431 GTAAAATGATTTCT
1 GTAAAATGTTTTCT
*
9470445 GGAAAATGTTTT
1 GTAAAATGTTTT
9470457 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (14 bp):
GTAAAATGTTTTCT
Found at i:9470465 original size:20 final size:20
Alignment explanation
Indices: 9470440--9470479 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9470430 TGTAAAATGA
*
9470440 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9470460 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9470480 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9470468 original size:34 final size:35
Alignment explanation
Indices: 9470425--9470491 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
9470415 CAGTAAAATG
*
9470425 TTTTCTGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
9470459 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
9470492 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCTGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:9470495 original size:14 final size:15
Alignment explanation
Indices: 9470419--9470495 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
9470409 GATAGCCAGT
*
9470419 AAAATG-TTTTCTGT
1 AAAATGATTTTCTGG
9470433 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
9470447 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
9470467 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
9470482 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
9470496 TGTTTGATTG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 26 0.51
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:9483759 original size:27 final size:28
Alignment explanation
Indices: 9483699--9483770 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
9483689 AAAAATAAAA
*
9483699 ATTTACCAAAATGT-TATAACTTTTTTTTT
1 ATTTACCAAAATATATATAA--TTTTTTTT
9483728 ATTTACCAAAATATATATAA-TTTTTTT
1 ATTTACCAAAATATATATAATTTTTTTT
9483755 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
9483771 TAAAAAAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 23 0.56
29 13 0.32
30 5 0.12
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.50
Consensus pattern (28 bp):
ATTTACCAAAATATATATAATTTTTTTT
Found at i:9483792 original size:16 final size:17
Alignment explanation
Indices: 9483771--9483803 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9483761 CAAAATATAT
9483771 TAAAAAA-ACAAAAAAA
1 TAAAAAATACAAAAAAA
*
9483787 TAAAAAATAGAAAAAAA
1 TAAAAAATACAAAAAAA
9483804 AACCTGAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (17 bp):
TAAAAAATACAAAAAAA
Found at i:9483932 original size:27 final size:27
Alignment explanation
Indices: 9483835--9483919 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
9483825 TCCCTGGTGG
*
9483835 AGGGAACACTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
9483862 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
9483889 AGGGAACCCTGTTGGCGGCACCAAACA
1 AGGGAACCCTGTTGGCGGCACCAAACA
9483916 AGGG
1 AGGG
9483920 TTCCTTGTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.31, C:0.27, G:0.32, T:0.11
Consensus pattern (27 bp):
AGGGAACCCTGTTGGCGGCACCAAACA
Found at i:9484782 original size:15 final size:14
Alignment explanation
Indices: 9484742--9484770 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9484732 TTTTTGTATC
9484742 AATTTAATTATTCT
1 AATTTAATTATTCT
9484756 AATTTAATTATTCT
1 AATTTAATTATTCT
9484770 A
1 A
9484771 GTTTTAGTTA
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:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (14 bp):
AATTTAATTATTCT
Found at i:9487174 original size:18 final size:18
Alignment explanation
Indices: 9487148--9487185 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9487138 ATCCCAATGA
* *
9487148 TCGCCACCACCTTCTTCT
1 TCGCAACCACATTCTTCT
9487166 TCGCAACCACATTCTTCT
1 TCGCAACCACATTCTTCT
9487184 TC
1 TC
9487186 ACCACCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (18 bp):
TCGCAACCACATTCTTCT
Found at i:9487192 original size:18 final size:18
Alignment explanation
Indices: 9487151--9487192 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9487141 CCAATGATCG
* *
9487151 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
9487169 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
9487187 CCACCA
1 CCACCA
9487193 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:9488114 original size:24 final size:24
Alignment explanation
Indices: 9488077--9488149 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
9488067 GGTAAGACAT
*
9488077 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACTGCTCCTCTCTTCACCC
*
9488101 TTTCCACTGTTCCTCTCTTCACCC
1 TTTCCACTGCTCCTCTCTTCACCC
*
9488125 TTTCCA-TAGCTCCTCTATTCACCC
1 TTTCCACT-GCTCCTCTCTTCACCC
9488149 T
1 T
9488150 ATCGATTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 43 0.98
ACGTcount: A:0.12, C:0.45, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTCCACTGCTCCTCTCTTCACCC
Found at i:9493318 original size:14 final size:14
Alignment explanation
Indices: 9493295--9493334 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9493285 ACAGAAAAGT
*
9493295 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
9493309 AAATCATTTTACGG
1 AAAACATTTTACAG
9493323 AAAACATTTTAC
1 AAAACATTTTAC
9493335 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:9493373 original size:3 final size:3
Alignment explanation
Indices: 9493365--9493399 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9493355 AGTAACATCT
9493365 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9493400 CTATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9493774 original size:27 final size:27
Alignment explanation
Indices: 9493706--9493780 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
9493696 ATTCCTCCAC
* **
9493706 TGGTGCCGCCAACAAGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
9493733 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
9493760 TGGTGCCGCCAACAGTGTTCC
1 TGGTGCCGCCAACAGGGTTCC
9493781 ATCCATTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.25
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:9493847 original size:19 final size:19
Alignment explanation
Indices: 9493812--9493848 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9493802 ATCAGTCCAG
*
9493812 ATTTTTTTTTCTGTTTTTT
1 ATTTTTTTTTATGTTTTTT
9493831 ATTTTTTTTTAT-TTTTTT
1 ATTTTTTTTTATGTTTTTT
9493849 GATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.86
Consensus pattern (19 bp):
ATTTTTTTTTATGTTTTTT
Found at i:9493884 original size:26 final size:27
Alignment explanation
Indices: 9493850--9493912 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
9493840 TATTTTTTTG
9493850 ATAT-ATTTTGATAAAT-AAAAAAATT
1 ATATAATTTTGATAAATGAAAAAAATT
9493875 ATATAATTTTGATAAATGAAAAAAATT
1 ATATAATTTTGATAAATGAAAAAAATT
9493902 ATA-ACATTTTG
1 ATATA-ATTTTG
9493913 GTAATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 4 0.11
26 13 0.37
27 18 0.51
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (27 bp):
ATATAATTTTGATAAATGAAAAAAATT
Found at i:9493896 original size:25 final size:25
Alignment explanation
Indices: 9493850--9493904 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 25
9493840 TATTTTTTTG
9493850 ATATATTTTGATAAATAAAAAAATT
1 ATATATTTTGATAAATAAAAAAATT
9493875 ATATAATTTTGATAAATGAAAAAAATT
1 ATAT-ATTTTGATAAAT-AAAAAAATT
9493902 ATA
1 ATA
9493905 ACATTTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (25 bp):
ATATATTTTGATAAATAAAAAAATT
Found at i:9495224 original size:31 final size:30
Alignment explanation
Indices: 9495142--9495224 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
9495132 GATTTGTTAT
9495142 TTTTATTAAAGTTTAGTGATTGAATTGTA--A
1 TTTTATTAAAGTTTAGTGATT--ATTGTATTA
* * *
9495172 TTTT-TTAAAGTTTAATAATTATTTTATTA
1 TTTTATTAAAGTTTAGTGATTATTGTATTA
*
9495201 TTTTAATTAAAGTTGAGTGATTAT
1 TTTT-ATTAAAGTTTAGTGATTAT
9495225 CAGTTTACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 5 0.12
29 19 0.44
30 4 0.09
31 15 0.35
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (30 bp):
TTTTATTAAAGTTTAGTGATTATTGTATTA
Found at i:9496059 original size:16 final size:16
Alignment explanation
Indices: 9496038--9496073 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9496028 CTTTTTTGTA
* *
9496038 AATTTATAATAAATTC
1 AATTTATAAGAAATGC
9496054 AATTTATAAGAAATGC
1 AATTTATAAGAAATGC
9496070 AATT
1 AATT
9496074 ACTTAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
AATTTATAAGAAATGC
Done.