Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3329
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: 1261902
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 3 of 4
Found at i:771667 original size:18 final size:18
Alignment explanation
Indices: 771629--771668 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
771619 TATAATAGAT
*
771629 AAAATAATGTGATATATA
1 AAAATAATGTGATATAAA
*
771647 AAAATAATGTGAT-TGAA
1 AAAATAATGTGATATAAA
771664 AAAAT
1 AAAAT
771669 TTGAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (18 bp):
AAAATAATGTGATATAAA
Found at i:773039 original size:9 final size:9
Alignment explanation
Indices: 773010--773046 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
773000 TGAGTTTTCG
773010 AATTCGAAT
1 AATTCGAAT
*
773019 AACTCGAAT
1 AATTCGAAT
773028 AATTCGAAT
1 AATTCGAAT
*
773037 AATCCGAAT
1 AATTCGAAT
773046 A
1 A
773047 TCGAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:773445 original size:21 final size:21
Alignment explanation
Indices: 773416--773455 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
773406 TCCCTCAAAC
773416 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
773438 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
773456 ACTTCTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:774636 original size:14 final size:14
Alignment explanation
Indices: 774617--774646 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
774607 TATAAGATCG
774617 AAGATTCATCTAAC
1 AAGATTCATCTAAC
774631 AAGATTCATCTAAC
1 AAGATTCATCTAAC
774645 AA
1 AA
774647 CCATGGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
AAGATTCATCTAAC
Found at i:784059 original size:18 final size:18
Alignment explanation
Indices: 784036--784070 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
784026 ATTCTCAATC
*
784036 CGTTCAATCTGATCTTGT
1 CGTTCAATCTAATCTTGT
784054 CGTTCAATCTAATCTTG
1 CGTTCAATCTAATCTTG
784071 CTCAAGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (18 bp):
CGTTCAATCTAATCTTGT
Found at i:793621 original size:24 final size:24
Alignment explanation
Indices: 793574--793634 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
793564 AGCCTGTACT
* *
793574 TATTTTAATGTTATTTAAATACATA
1 TATTTTAAT-TTATTGAAAAACATA
*
793599 TATTTTAATTTATTGAAAAACATT
1 TATTTTAATTTATTGAAAAACATA
793623 TA-TTT-ATTTATT
1 TATTTTAATTTATT
793635 TTTTTTGGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 7 0.21
23 3 0.09
24 14 0.42
25 9 0.27
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (24 bp):
TATTTTAATTTATTGAAAAACATA
Found at i:794576 original size:79 final size:79
Alignment explanation
Indices: 794438--794583 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
794428 ACATTTATAA
* *
794438 GTGTTCTATCATATAGCCTATACCCTCCATGCTCTCAAACGCTAGTTAGACCCAGTGATGTTCAA
1 GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCCAGTGATGTTCAA
794503 TGTAGTGTATGTGT
66 TGTAGTGTATGTGT
* * *
794517 GTGTTCTATCAGATA-CCTTATACCATCCATGTTCTCAAATGCTAGTTAG-GCCAGCTGATGTTC
1 GTGTTCTATCAGATAGCC-TATACCATCCATGCTCTCAAACGCTAGTTAGACCCAG-TGATGTTC
794580 AATG
64 AATG
794584 CAGTATGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 6 0.10
79 54 0.90
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (79 bp):
GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCCAGTGATGTTCAA
TGTAGTGTATGTGT
Found at i:794903 original size:18 final size:18
Alignment explanation
Indices: 794872--794911 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
794862 TCTAGCAATG
*
794872 GTTTTTTTCTC-AAAAGT
1 GTTTTTTTCCCAAAAAGT
794889 GTTTTTTGTCCCAAAAAGT
1 GTTTTTT-TCCCAAAAAGT
794908 GTTT
1 GTTT
794912 CTAAGAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 3 0.15
19 10 0.50
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (18 bp):
GTTTTTTTCCCAAAAAGT
Found at i:796752 original size:18 final size:18
Alignment explanation
Indices: 796729--796767 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
796719 ATCAAATATT
796729 TTGATCACTGAACATTCA
1 TTGATCACTGAACATTCA
*
796747 TTGATCACTGAATATTCA
1 TTGATCACTGAACATTCA
796765 TTG
1 TTG
796768 TGATTCGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (18 bp):
TTGATCACTGAACATTCA
Found at i:801896 original size:57 final size:58
Alignment explanation
Indices: 801804--801919 Score: 198
Period size: 57 Copynumber: 2.0 Consensus size: 58
801794 TGTTTCGGTG
*
801804 TCATATTACAATGAACACTTTTGCCCTTTGCCACCTGTCATATTACAAGTTTCATATA
1 TCATATTAAAATGAACACTTTTGCCCTTTGCCACCTGTCATATTACAAGTTTCATATA
* *
801862 TCATATTAAAATGAGCAC-TTTGCCCTTTGTCACCTGTCATATTACAAGTTTCATATA
1 TCATATTAAAATGAACACTTTTGCCCTTTGCCACCTGTCATATTACAAGTTTCATATA
801919 T
1 T
801920 TTCCTAGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
57 39 0.71
58 16 0.29
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.39
Consensus pattern (58 bp):
TCATATTAAAATGAACACTTTTGCCCTTTGCCACCTGTCATATTACAAGTTTCATATA
Found at i:805812 original size:37 final size:34
Alignment explanation
Indices: 805740--805829 Score: 90
Period size: 37 Copynumber: 2.5 Consensus size: 34
805730 GTTCTTTTTG
* * *
805740 TAATTTTCTTTTCAATTTTTACATATATTTTAAAATT
1 TAATTTT-TTTT-AAATTTTACATAAATTTCAAAA-T
*
805777 TGAGATTTTTTTTAAATTTTATATAAATTTCAAAAT
1 T-A-ATTTTTTTTAAATTTTACATAAATTTCAAAAT
*
805813 TAATTTTTTTTTAATTT
1 TAATTTTTTTTAAATTT
805830 ATAATACCTC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 14 0.30
35 1 0.02
36 2 0.04
37 19 0.41
38 5 0.11
39 5 0.11
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (34 bp):
TAATTTTTTTTAAATTTTACATAAATTTCAAAAT
Found at i:806599 original size:27 final size:26
Alignment explanation
Indices: 806540--806605 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
806530 TTTTAAATGA
806540 TTAAAAATTGTAAAAATATATGAATAT
1 TTAAAAATT-TAAAAATATATGAATAT
* *
806567 TAAAAAATTTAAAAATTATCAT-AATTT
1 TTAAAAATTTAAAAA-TAT-ATGAATAT
*
806594 TTAAAATTTTAA
1 TTAAAAATTTAA
806606 TAAAAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.18
27 25 0.76
28 2 0.06
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (26 bp):
TTAAAAATTTAAAAATATATGAATAT
Found at i:809216 original size:95 final size:96
Alignment explanation
Indices: 809046--809331 Score: 439
Period size: 95 Copynumber: 3.0 Consensus size: 96
809036 TGCTGTTGAT
* * *
809046 CATCTTGTACAGATCTGGGAAATTAAACTCAGATCAGATGATGAATCAAAAACAATTGAATCGAA
1 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
**
809111 AACATAAAGAACAAGTAAATCGTCGACACCA
66 AACATAAAGAACAAGTAAATCAACGACACCA
* *
809142 CGTCTTGTACAGATCTGGGAAATTTAACTCAGATCAGGT-ATGAATAAAAAACAATCGAATCGAA
1 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
809206 AACATAAAGAACAAGTAAATCAACGACACCA
66 AACATAAAGAACAAGTAAATCAACGACACCA
* * * * * *
809237 CATCTCGTACAGATCTGGGAATTTTAACTCAGATCAGATGGTGAATAAAAAATAATCAAATCAAA
1 CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
*
809302 AACATAAAGAACAAGTAAATCAACAACACC
66 AACATAAAGAACAAGTAAATCAACGACACC
809332 GAAACGTTAT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
95 87 0.50
96 86 0.50
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (96 bp):
CATCTTGTACAGATCTGGGAAATTTAACTCAGATCAGATGATGAATAAAAAACAATCGAATCGAA
AACATAAAGAACAAGTAAATCAACGACACCA
Found at i:809890 original size:20 final size:21
Alignment explanation
Indices: 809848--809893 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
809838 AAACTATATT
*
809848 TTAAATATTTAAATATTACTA
1 TTAAATATTTAAATATTAATA
**
809869 TTAAATATTTGTA-ATTAATA
1 TTAAATATTTAAATATTAATA
809889 TTAAA
1 TTAAA
809894 AAAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAAATATTTAAATATTAATA
Found at i:811936 original size:12 final size:12
Alignment explanation
Indices: 811919--811957 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
811909 AAAAGTTTAT
811919 ATGTTTAAAAAA
1 ATGTTTAAAAAA
*
811931 ATGTTTATAAAAT
1 ATGTTTA-AAAAA
*
811944 ATTTTTAAAAAA
1 ATGTTTAAAAAA
811956 AT
1 AT
811958 TGATTATAAA
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:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (12 bp):
ATGTTTAAAAAA
Found at i:811950 original size:25 final size:26
Alignment explanation
Indices: 811917--811967 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
811907 ATAAAAGTTT
*
811917 ATATGTTTAAAAAAA-TGTTTATAAA
1 ATATGTTTAAAAAAATTGATTATAAA
*
811942 ATATTTTTAAAAAAATTGATTATAAA
1 ATATGTTTAAAAAAATTGATTATAAA
811968 CATTTATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATGTTTAAAAAAATTGATTATAAA
Found at i:815717 original size:12 final size:12
Alignment explanation
Indices: 815700--815724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
815690 CAGCAGAAAG
815700 GAGTGAAGAGAA
1 GAGTGAAGAGAA
815712 GAGTGAAGAGAA
1 GAGTGAAGAGAA
815724 G
1 G
815725 GCATTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGTGAAGAGAA
Found at i:821151 original size:84 final size:84
Alignment explanation
Indices: 821006--821186 Score: 238
Period size: 84 Copynumber: 2.2 Consensus size: 84
820996 ATCGACCGAA
* * * * * *
821006 AACAGCAGTCCATT-GGCGCCATCTTTTACTTGAGGTGTCGCCCTCCCAAGCTGTCGAAGGTTTC
1 AACAGCAGTCCGTTCGTC-CCACCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTC
*
821070 CTGTATAATCAAGGCTGGAC
65 CTGTAGAATCAAGGCTGGAC
* * *
821090 AACGGCAGTCCGTTCGTCCCACCTTGTACTTCAGGCGTCGCCCTCCCAGGCTGTCGAAGGTTTCT
1 AACAGCAGTCCGTTCGTCCCACCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTCC
* *
821155 TGTAGATTCCAGGCTGGAC
66 TGTAGAATCAAGGCTGGAC
821174 AACAGCAGTCCGT
1 AACAGCAGTCCGT
821187 CCGCGCTAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 81 0.98
85 2 0.02
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (84 bp):
AACAGCAGTCCGTTCGTCCCACCTTGTACTTCAGGCGTCGCCCTCCCAAGCTGTCGAAGGTTTCC
TGTAGAATCAAGGCTGGAC
Found at i:827512 original size:19 final size:19
Alignment explanation
Indices: 827490--827555 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
827480 ACCAAAAATT
827490 TATTTTAAAAATAAAAAAA
1 TATTTTAAAAATAAAAAAA
*
827509 TATTTTAAAAATATATTAAAA
1 TATTTTAAAAATA-A-AAAAA
* *
827530 T-TTTAAAAAATAAAAATA
1 TATTTTAAAAATAAAAAAA
827548 TATATTTA
1 TAT-TTTA
827556 TTATATTCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.11
19 15 0.39
20 14 0.37
21 5 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTTTAAAAATAAAAAAA
Found at i:839317 original size:51 final size:51
Alignment explanation
Indices: 839260--839358 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
839250 TACCTTTTTT
839260 GGAATATGGATTTTGTAGTTTCGGATTTCTTTTACTACATAAATTTTTATG
1 GGAATATGGATTTTGTAGTTTCGGATTTCTTTTACTACATAAATTTTTATG
839311 GGAATATGGATTTTGTAGTTTCGGATTTCTTTTACTACATAAATTTTT
1 GGAATATGGATTTTGTAGTTTCGGATTTCTTTTACTACATAAATTTTT
839359 GTAATATCGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.49
Consensus pattern (51 bp):
GGAATATGGATTTTGTAGTTTCGGATTTCTTTTACTACATAAATTTTTATG
Found at i:841801 original size:22 final size:22
Alignment explanation
Indices: 841773--841841 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
841763 TTAAAAAGTT
841773 GGATCGAGAGAAAGAACACCAG
1 GGATCGAGAGAAAGAACACCAG
841795 GGATCGAGAGAAAGAACACCAG
1 GGATCGAGAGAAAGAACACCAG
*
841817 GGATCAAGAGAAAGAACACCAG
1 GGATCGAGAGAAAGAACACCAG
841839 GGA
1 GGA
841842 AGTGTCACAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.46, C:0.17, G:0.32, T:0.04
Consensus pattern (22 bp):
GGATCGAGAGAAAGAACACCAG
Found at i:845733 original size:651 final size:650
Alignment explanation
Indices: 844486--845783 Score: 2274
Period size: 651 Copynumber: 2.0 Consensus size: 650
844476 CGCAACCTTA
* *
844486 TGAACTGAACCATCCTCTCCATAAATCATTAAGTAAGCATAACAGGCAAGACAAATATTATTCAA
1 TGAACTGAACCATCCCCTCCATAAATCATTAAGGAAGCATAACAGGCAAGACAAATATTATTCAA
*
844551 CATGTCATCAGCAAGTTTCACTTCAAAATCTTGTTCCTTACCCATATTGAGCGTCGCGGCCCACT
66 CATGTCATCAGCAAATTTCACTTCAAAATCTTGTTCCTTACCCATATTGAGCGTCGCGGCCCACT
* *
844616 TTTTCAACTGGTTATAGCCGGAATCCTTAGGTGTACGCCAGTCTTCCATCTCTTTGATTGCGGCA
131 TTTTCAACTGGTTACAGCCGGAATCCTTAGGTGTACGCCAGTCTTCCATCTCTTTGAATGCGGCA
*
844681 CAAATCAAAACTTCAATATTTTTATGGCCAAACTTAGTAGCTTTTCCACGATCCACTTCGATTAG
196 CAAACCAAAACTTCAATATTTTTATGGCCAAACTTAGTAGCTTTTCCACGATCCACTTCGATTAG
* * *
844746 AGCCGCGATACCTTTGAGGTAGTCTGGTGTTTCCCCATAGCGAGTTTTGTCCGATGCTTCTTGTA
261 AGCCGCGATACCTTTGAGGTAGTCTGGTGTTTCCCCATAACGAGTTTCGTCCAATGCTTCTTGTA
* *
844811 AGCCATGGAAGTGTGCAACTTCCACACTGTTGTTGTCTTTGTTAAAAAGGCCGGATAGCCAGGAA
326 AACCATGGAAGTGTGCAACTTCCACACTGTTGTTGTCCTTGTTAAAAAGGCCGGATAGCCAGGAA
* *
844876 CTATAATTACGCTTCAATATCTCCCCAGCCAGCAAACTTCCGTGGTCTTGATCAACAGTAATAGT
391 CTATAATTACGCTTCAACATCTCCCCAGCCAGCAAACTTCCGTGGTCTTGATCAACAGGAATAGT
* * *
844941 AACATCATTCATTTCAGTACCTTGTACTCCAGCTTCTGAAACCCCGTCTCTTTTGTTGCTTCCAC
456 AACATCATTCATTTCAGTAACTTGTACTCCAGCTTCTGAAACCCCATCTCTTTTGTTGCTCCCAC
845006 TGAGCATTAAGTTCATCTGATTATCACTGTGCGACAATGGTGGTGTGTTTGTATTGTATTGTGCT
521 TGAGCATTAAGTTCATCTGATTATCACTGTGCGACAATGGTGGTGTGTTTGTATTGTATTGTGCT
* *
845071 TCAGACGCCTCACGCCCACCCTTTTGAAGCATTCCACTAGTAATAGTGTTCCCCAATGGTATGAA
586 TCAGACGCCTCACGCCCACCCTGTTCAAGCATTCC-CTAGTAATAGTGTTCCCCAATGGTATGAA
845136 C
650 C
* *
845137 TGAATTGAACCATCCCCTCCATAGATCATTAAGGAAGCATAACAGGCAAGACAAATATTATTCAA
1 TGAACTGAACCATCCCCTCCATAAATCATTAAGGAAGCATAACAGGCAAGACAAATATTATTCAA
* *
845202 CGTGTCATCAGCAAATTTCACTTCAAAGTCTTGTTCCTTACCCATATTGAGCGTCGCGGCCCACT
66 CATGTCATCAGCAAATTTCACTTCAAAATCTTGTTCCTTACCCATATTGAGCGTCGCGGCCCACT
845267 TTTTCAACTGGTTACAGCCGGAATCCTTAGGTGTACGCCAGTCTTCCATCTCTTTGAATGCGGCA
131 TTTTCAACTGGTTACAGCCGGAATCCTTAGGTGTACGCCAGTCTTCCATCTCTTTGAATGCGGCA
**
845332 CAAACCAGCACTTCAATATTTTTATGGCCAAACTTAGTAGCTTTTCCACGATCCACTTCGATTAC
196 CAAACCAAAACTTCAATATTTTTATGGCCAAACTTAGTAGCTTTTCCACGATCCACTTCGATTA-
** *
845397 G-GTTGCGATACGTTTGAGGTAGTCTGGTGTTTCCCCATAACGAGTTTCGTCCAATGCTTCTTGT
260 GAGCCGCGATACCTTTGAGGTAGTCTGGTGTTTCCCCATAACGAGTTTCGTCCAATGCTTCTTGT
*
845461 AAACCATGGAAGTGTGCAACTTCCACACTGTTGTTGTCCTTGTTAAAAAGTCCGGATAGCCAGGA
325 AAACCATGGAAGTGTGCAACTTCCACACTGTTGTTGTCCTTGTTAAAAAGGCCGGATAGCCAGGA
* *
845526 ACTATAATTACGCTTCAACATCTCCCTAGCCAGCAAACTTTCGTGGTCTTGATCAACAGGAATAG
390 ACTATAATTACGCTTCAACATCTCCCCAGCCAGCAAACTTCCGTGGTCTTGATCAACAGGAATAG
845591 TAACATCATTCATTTCAGTAACTTGTACTCCAGCTTCTGAAACCCCATCTCTTTTGTTGCTCCCA
455 TAACATCATTCATTTCAGTAACTTGTACTCCAGCTTCTGAAACCCCATCTCTTTTGTTGCTCCCA
*
845656 CTGAGCATTAAGTTCATCTGATTATCACTGTGCGACAATGGTGGTGTGTTTGTGTTGTATTGTGC
520 CTGAGCATTAAGTTCATCTGATTATCACTGTGCGACAATGGTGGTGTGTTTGTATTGTATTGTGC
* *
845721 TTCAGACGCCTCACTCCCACCCTGTTCAAGCATTCCCTGGTAATAGTGTTCCCCAATGGTATG
585 TTCAGACGCCTCACGCCCACCCTGTTCAAGCATTCCCTAGTAATAGTGTTCCCCAATGGTATG
845784 CCATGGGGAC
Statistics
Matches: 613, Mismatches: 33, Indels: 3
0.94 0.05 0.00
Matches are distributed among these distances:
650 26 0.04
651 586 0.96
652 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (650 bp):
TGAACTGAACCATCCCCTCCATAAATCATTAAGGAAGCATAACAGGCAAGACAAATATTATTCAA
CATGTCATCAGCAAATTTCACTTCAAAATCTTGTTCCTTACCCATATTGAGCGTCGCGGCCCACT
TTTTCAACTGGTTACAGCCGGAATCCTTAGGTGTACGCCAGTCTTCCATCTCTTTGAATGCGGCA
CAAACCAAAACTTCAATATTTTTATGGCCAAACTTAGTAGCTTTTCCACGATCCACTTCGATTAG
AGCCGCGATACCTTTGAGGTAGTCTGGTGTTTCCCCATAACGAGTTTCGTCCAATGCTTCTTGTA
AACCATGGAAGTGTGCAACTTCCACACTGTTGTTGTCCTTGTTAAAAAGGCCGGATAGCCAGGAA
CTATAATTACGCTTCAACATCTCCCCAGCCAGCAAACTTCCGTGGTCTTGATCAACAGGAATAGT
AACATCATTCATTTCAGTAACTTGTACTCCAGCTTCTGAAACCCCATCTCTTTTGTTGCTCCCAC
TGAGCATTAAGTTCATCTGATTATCACTGTGCGACAATGGTGGTGTGTTTGTATTGTATTGTGCT
TCAGACGCCTCACGCCCACCCTGTTCAAGCATTCCCTAGTAATAGTGTTCCCCAATGGTATGAAC
Found at i:850164 original size:30 final size:30
Alignment explanation
Indices: 850108--850167 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
850098 GGAAAAGTCG
* *
850108 AAATTAAATTATATTTTTTACTATTTTAAA
1 AAATTAAATTAAATTTTTTACAATTTTAAA
850138 AAATTAAATTAAA-TTTTTATCAATTTTAAA
1 AAATTAAATTAAATTTTTTA-CAATTTTAAA
850168 GATAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATTAAATTAAATTTTTTACAATTTTAAA
Found at i:854921 original size:31 final size:30
Alignment explanation
Indices: 854879--854955 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
854869 TCAAAACTAA
* *
854879 AAATTAAAAAGTATAGGGACTAAATTTAACT
1 AAATT-AAAAGTATAGAGACCAAATTTAACT
* *
854910 AATTTGAAAAGTATAGAGACCAAATTTAATT
1 AAATT-AAAAGTATAGAGACCAAATTTAACT
854941 AAATTAAAA-TATAGA
1 AAATTAAAAGTATAGA
854956 AACTAAAGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 6 0.15
30 4 0.10
31 30 0.75
ACGTcount: A:0.53, C:0.05, G:0.12, T:0.30
Consensus pattern (30 bp):
AAATTAAAAGTATAGAGACCAAATTTAACT
Found at i:856707 original size:128 final size:128
Alignment explanation
Indices: 856518--856765 Score: 442
Period size: 128 Copynumber: 1.9 Consensus size: 128
856508 TAGATTATTA
*
856518 GGCCCATGAGCACCTCTACTTGTAGGTTCTAGGTCTTCTATAATAGGTGTGTCAGGCTCATCAAG
1 GGCCCATGAGCACCTCTACTTGTAGGTCCTAGGTCTTCTATAATAGGTGTGTCAGGCTCATCAAG
*
856583 TTTCCAACAACAGATTATTAGCAAATCCCACTACAAAGCAATGTTCTTAGCCTTGCCCGGCCC
66 TTCCCAACAACAGATTATTAGCAAATCCCACTACAAAGCAATGTTCTTAGCCTTGCCCGGCCC
* *
856646 GGCCTATGAGCACCTCTACTTGTAGGTCCTAGGTCTTCTATAATAGGTGTGTCGGGCTCATCAAG
1 GGCCCATGAGCACCTCTACTTGTAGGTCCTAGGTCTTCTATAATAGGTGTGTCAGGCTCATCAAG
* *
856711 TTCCCAACAATAGATTATTAGCAAATCCCACTAGAAAGCAATGTTCTTAGCCTTG
66 TTCCCAACAACAGATTATTAGCAAATCCCACTACAAAGCAATGTTCTTAGCCTTG
856766 TTGAGCATCA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 114 1.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (128 bp):
GGCCCATGAGCACCTCTACTTGTAGGTCCTAGGTCTTCTATAATAGGTGTGTCAGGCTCATCAAG
TTCCCAACAACAGATTATTAGCAAATCCCACTACAAAGCAATGTTCTTAGCCTTGCCCGGCCC
Found at i:858761 original size:3 final size:3
Alignment explanation
Indices: 858753--858783 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
858743 TTTACCGCAA
858753 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
858784 TTATTATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:862431 original size:19 final size:19
Alignment explanation
Indices: 862386--862440 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
862376 TTAAAATTTT
* *
862386 AAATTATTAAAAATTATAAA
1 AAATTA-TAAAATTTTTAAA
*
862406 AACATTATAAAATTTTTATA
1 AA-ATTATAAAATTTTTAAA
862426 AAATTAT-AAATTTTT
1 AAATTATAAAATTTTT
862441 TTATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 8 0.26
19 5 0.16
20 14 0.45
21 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTATAAAATTTTTAAA
Found at i:862443 original size:20 final size:20
Alignment explanation
Indices: 862409--862449 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
862399 TTATAAAAAC
862409 ATTATAAAATTTTTA-TAAA
1 ATTATAAAATTTTTATTAAA
*
862428 ATTATAAATTTTTTTATTAAA
1 ATTATAAA-ATTTTTATTAAA
862449 A
1 A
862450 AATAACAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 6 0.32
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATAAAATTTTTATTAAA
Found at i:862520 original size:23 final size:23
Alignment explanation
Indices: 862466--862520 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
862456 AAATTAACAA
*
862466 TACCTTATGAAGGCATATTTGAT
1 TACCTTATTAAGGCATATTTGAT
862489 TACCTTATTAAGGCATATTTGAT
1 TACCTTATTAAGGCATATTTGAT
862512 TACCTTATT
1 TACCTTATT
862521 TACCATATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.44
Consensus pattern (23 bp):
TACCTTATTAAGGCATATTTGAT
Found at i:862533 original size:23 final size:23
Alignment explanation
Indices: 862466--862533 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
862456 AAATTAACAA
* *
862466 TACCTTATGAAGGCATATTTGAT
1 TACCTTATTAAGCCATATTTGAT
*
862489 TACCTTATTAAGGCATATTTGAT
1 TACCTTATTAAGCCATATTTGAT
*
862512 TACCTTATTTA-CCATATATTGA
1 TACCTTATTAAGCCATAT-TTGA
862534 ACATAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.12
23 36 0.88
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (23 bp):
TACCTTATTAAGCCATATTTGAT
Found at i:862645 original size:21 final size:20
Alignment explanation
Indices: 862621--862666 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
862611 CAATTAATGC
*
862621 TATTTAAGTTAAAAATTTTGT
1 TATTTAAGGT-AAAATTTTGT
*
862642 TATTTTAGGTAAAATTTTGT
1 TATTTAAGGTAAAATTTTGT
862662 TATTT
1 TATTT
862667 TGTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (20 bp):
TATTTAAGGTAAAATTTTGT
Found at i:862675 original size:28 final size:28
Alignment explanation
Indices: 862635--862690 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
862625 TAAGTTAAAA
862635 ATTTTGTTATTTTAGGTAAAATTTTGTT
1 ATTTTGTTATTTTAGGTAAAATTTTGTT
862663 ATTTTGTTATTTTAGGTAAAATTTTGTT
1 ATTTTGTTATTTTAGGTAAAATTTTGTT
862691 TATGGATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (28 bp):
ATTTTGTTATTTTAGGTAAAATTTTGTT
Found at i:875296 original size:21 final size:21
Alignment explanation
Indices: 875270--875310 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
875260 ATCTGCACAA
* *
875270 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
875291 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
875311 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:880954 original size:15 final size:15
Alignment explanation
Indices: 880919--880948 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
880909 AGACTCCTGA
880919 AATCCACGATAAGAG
1 AATCCACGATAAGAG
880934 AATCCACGATAAGAG
1 AATCCACGATAAGAG
880949 TCTCCAGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (15 bp):
AATCCACGATAAGAG
Found at i:882672 original size:15 final size:15
Alignment explanation
Indices: 882652--882682 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
882642 TTACAAGAAA
882652 TCTCAAAAGTCTTAT
1 TCTCAAAAGTCTTAT
882667 TCTCAAAAGTCTTAT
1 TCTCAAAAGTCTTAT
882682 T
1 T
882683 ATTATGTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TCTCAAAAGTCTTAT
Found at i:882979 original size:360 final size:362
Alignment explanation
Indices: 882308--883029 Score: 1062
Period size: 360 Copynumber: 2.0 Consensus size: 362
882298 AATCATCACA
* *
882308 TTATTATTATGTCAGTACTCGTGCACTAGACTTGATTTTGTACATAAAAGAGCCATAAATTAACT
1 TTATTATTATGTCAGTACTCGTGCACTAGACTTGATTTTGGACATAAAAAAGCCAT-AA-TAACT
* * *
882373 ATTTTATTTGGATTTGAGTTTAAGTGTTAGATACATATTCATGTCTAATATAGGTACGTTAAACT
64 ATTTTATTTGGATTTGAGTTTAAGTGTTAAATACAGATTCATGTC----ACA-GTA-GTTAAACT
* * *
882438 TTTTTGAAATTTTTTTCATGTACCTATATTTAAAATTGTGTCGATACATTACTCGTTTATAAATC
123 TTTTTGAAATTTTTCTCATGTACCTATATTTAAAATTGTGTCGACACATTACTCATTTATAAATC
*
882503 TCATCACAATATAATGTTTTCTCATACATTACATTTCTTTTGTAGACCTAGTAAAAAGTTATTAT
188 TCATCACAATATAATGTTTTCTCATACATTACATTTCTTTTGTAGACCTAGTAAAAAGTGATTAT
* *
882568 TTAAGTTCGAGTGTCGCATTTGGGATCACTTCTAACTTTGATTTGTTTAATTATTTTTCTAAA-A
253 TTAAGTTCGAGTGTCGCATTTGGAATCACCTCTAACTTTGATTTGTTTAATTATTTTTCTAAATA
882632 TTTTCATATATTACAAGAAATCTCAAAAGTCTTATTCTCAAAAGTC
318 -TTTCATATATTACAAGAAATCTCAAAAGTCTTATTCTCAAAAGTC
* * *
882678 TTATTATTATGTCCGTCCTTCGTGCACTAGACTTGTTTTTGGACATAAAAAAGCCAT-A-AACTA
1 TTATTATTATGTCAGTAC-TCGTGCACTAGACTTGATTTTGGACATAAAAAAGCCATAATAACTA
* * * *
882741 TTTTATTTGGATTTGGGTTTAAGTGTTAAATATAGATTCGTGTC-CA-T-GTTAAACTTTTTTTT
65 TTTTATTTGGATTTGAGTTTAAGTGTTAAATACAGATTCATGTCACAGTAGTTAAAC-TTTTTTG
* * *
882803 TAATTTTTCTCATGTACCTATATTTAAAATTGTGTCG-CACATTATTTATTTATAAATCTCATCA
129 AAATTTTTCTCATGTACCTATATTTAAAATTGTGTCGACACATTACTCATTTATAAATCTCATCA
882867 CAATATAATGTCTTTCCTCATACATTACATTTCTTTTGTAGACCTAGTAAAAAGTGATTATTTAA
194 CAATATAATGT-TTT-CTCATACATTACATTTCTTTTGTAGACCTAGTAAAAAGTGATTATTTAA
* *
882932 GTTCGAGTGTCGTATTTGGAATCACCTCTAACTTTGATTTGTTTAATTATTTTTCTAAGTATTTC
257 GTTCGAGTGTCGCATTTGGAATCACCTCTAACTTTGATTTGTTTAATTATTTTTCTAAATATTTC
*
882997 ATATATTACAAGAAATCTCAATAGTCTTATTCT
322 ATATATTACAAGAAATCTCAAAAGTCTTATTCT
883030 AAACCAATGT
Statistics
Matches: 323, Mismatches: 24, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
358 41 0.13
359 44 0.14
360 140 0.43
361 1 0.00
362 1 0.00
367 44 0.14
369 1 0.00
370 16 0.05
371 35 0.11
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (362 bp):
TTATTATTATGTCAGTACTCGTGCACTAGACTTGATTTTGGACATAAAAAAGCCATAATAACTAT
TTTATTTGGATTTGAGTTTAAGTGTTAAATACAGATTCATGTCACAGTAGTTAAACTTTTTTGAA
ATTTTTCTCATGTACCTATATTTAAAATTGTGTCGACACATTACTCATTTATAAATCTCATCACA
ATATAATGTTTTCTCATACATTACATTTCTTTTGTAGACCTAGTAAAAAGTGATTATTTAAGTTC
GAGTGTCGCATTTGGAATCACCTCTAACTTTGATTTGTTTAATTATTTTTCTAAATATTTCATAT
ATTACAAGAAATCTCAAAAGTCTTATTCTCAAAAGTC
Found at i:886362 original size:26 final size:27
Alignment explanation
Indices: 886323--886377 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
886313 TGATGCTCGT
*
886323 ATGGTATTTGGTATTTAAACTCAGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
* *
886350 ATGGT-TTGGGTATTTCAACTCGGTGA
1 ATGGTATTGGGTATTTAAACTCAGTGA
886376 AT
1 AT
886378 TTGTATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.40
Consensus pattern (27 bp):
ATGGTATTGGGTATTTAAACTCAGTGA
Found at i:886550 original size:29 final size:29
Alignment explanation
Indices: 886492--886550 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
886482 TCAGTTAAAG
*
886492 AATTTGGGTTTTTATGGTTATATTTCTAT
1 AATTTGGGTTTTTATGGTTATATTTATAT
*
886521 AATTTGGGGTTTTT-T-GTTATTTATTATAT
1 AATTT-GGGTTTTTATGGTTATAT-TTATAT
886550 A
1 A
886551 TAGATAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 6 0.23
29 12 0.46
30 8 0.31
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.59
Consensus pattern (29 bp):
AATTTGGGTTTTTATGGTTATATTTATAT
Found at i:888464 original size:25 final size:26
Alignment explanation
Indices: 888435--888483 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
888425 TCATATGGTA
888435 TTTGG-TATTTAAACTCAGTGAATGG
1 TTTGGATATTTAAACTCAGTGAATGG
* *
888460 TTTGGATATTTCAACTCGGTGAAT
1 TTTGGATATTTAAACTCAGTGAAT
888484 TTGTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (26 bp):
TTTGGATATTTAAACTCAGTGAATGG
Found at i:891346 original size:19 final size:19
Alignment explanation
Indices: 891311--891348 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
891301 TTAAATTATG
**
891311 TATATATTATTTCCCTTAA
1 TATATATTATTAACCTTAA
891330 TATATATTATTAACCTTAA
1 TATATATTATTAACCTTAA
891349 GCTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (19 bp):
TATATATTATTAACCTTAA
Found at i:893711 original size:17 final size:17
Alignment explanation
Indices: 893689--893721 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
893679 TAATAAAAAT
893689 ATAATTT-TATTATTTAA
1 ATAATTTATATT-TTTAA
893706 ATAATTTATATTTTTA
1 ATAATTTATATTTTTA
893722 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTATATTTTTAA
Found at i:902296 original size:15 final size:15
Alignment explanation
Indices: 902276--902307 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
902266 ACTACACTAG
902276 TAGTCATCCAATTAT
1 TAGTCATCCAATTAT
902291 TAGTCATCCAATTAT
1 TAGTCATCCAATTAT
902306 TA
1 TA
902308 TTATTTTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (15 bp):
TAGTCATCCAATTAT
Found at i:908739 original size:15 final size:15
Alignment explanation
Indices: 908719--908750 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
908709 TAGCATTGTT
908719 ATATCTAATCATACC
1 ATATCTAATCATACC
908734 ATATCTAATCATACC
1 ATATCTAATCATACC
908749 AT
1 AT
908751 TTCCTGGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATCTAATCATACC
Found at i:914101 original size:16 final size:16
Alignment explanation
Indices: 914080--914114 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
914070 ACCCATGATT
914080 AAAATT-TTAAAATTCA
1 AAAATTATTAAAATT-A
914096 AAAATTATTAAAATTA
1 AAAATTATTAAAATTA
914112 AAA
1 AAA
914115 TTCATCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTATTAAAATTA
Found at i:914158 original size:15 final size:15
Alignment explanation
Indices: 914096--914159 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
914086 TTAAAATTCA
* *
914096 AAAATTATTAAAATT
1 AAAATTAATCAAATT
* *
914111 AAAATTCATCAATTT
1 AAAATTAATCAAATT
914126 AAAA--AATACAAAATTT
1 AAAATTAAT-C-AAA-TT
914142 AAAATTAATCAAATT
1 AAAATTAATCAAATT
914157 AAA
1 AAA
914160 GCAAAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 2 0.05
14 1 0.03
15 22 0.58
16 9 0.24
17 1 0.03
18 3 0.08
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTAATCAAATT
Found at i:927719 original size:14 final size:14
Alignment explanation
Indices: 927700--927743 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
927690 CAATAGATAA
*
927700 TTATTATTCTTATT
1 TTATTATTATTATT
*
927714 TTATTATTATAATT
1 TTATTATTATTATT
927728 TTA-TATTATT-TT
1 TTATTATTATTATT
927740 TTAT
1 TTAT
927744 AAATTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 5 0.19
13 6 0.23
14 15 0.58
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTATTATTATT
Found at i:929419 original size:16 final size:17
Alignment explanation
Indices: 929381--929422 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
929371 TAATAAACCC
*
929381 ATTTTTATGATTAGACTT
1 ATTTTTAT-AATAGACTT
929399 A-TTTTATAATAGA-TT
1 ATTTTTATAATAGACTT
929414 ATTTTTATA
1 ATTTTTATA
929423 GGTGTCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 12 0.55
17 6 0.27
18 1 0.05
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (17 bp):
ATTTTTATAATAGACTT
Found at i:929627 original size:10 final size:10
Alignment explanation
Indices: 929602--929636 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
929592 TAATAAATAT
929602 ATATTTT-AA
1 ATATTTTAAA
929611 A-ATTTTAAA
1 ATATTTTAAA
929620 ATATTTTAAA
1 ATATTTTAAA
929630 ATATTTT
1 ATATTTT
929637 TATTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 5 0.21
9 4 0.17
10 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:929923 original size:45 final size:46
Alignment explanation
Indices: 929837--929931 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 46
929827 ATTTGATTCG
*
929837 TTTTTCTTTTGTATTTTTTTATATTCGTTTCACTGTGAGTTATTTGA
1 TTTTTCTTTTGTA-TTTTTTATATTCGTTTCACTGTAAGTTATTTGA
* *
929884 TTTTTCTTTTGTA-TTTTTATGTTCGTTTCAGTGTAAGTTATTTGA
1 TTTTTCTTTTGTATTTTTTATATTCGTTTCACTGTAAGTTATTTGA
929929 TTT
1 TTT
929932 GATGTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 32 0.71
47 13 0.29
ACGTcount: A:0.15, C:0.07, G:0.14, T:0.64
Consensus pattern (46 bp):
TTTTTCTTTTGTATTTTTTATATTCGTTTCACTGTAAGTTATTTGA
Found at i:933884 original size:15 final size:15
Alignment explanation
Indices: 933860--933922 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
933850 AAATATGATT
*
933860 TTAATTTTTTTAAAA
1 TTAATATTTTTAAAA
*
933875 TTAATATTTTATTAAA
1 TTAATATTTT-TAAAA
933891 -TAA-ATTTTT-AAA
1 TTAATATTTTTAAAA
933903 TTCACATATTTTTAATAA
1 TT-A-ATATTTTTAA-AA
933921 TT
1 TT
933923 TCTAATCAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
12 3 0.08
13 2 0.05
14 6 0.15
15 13 0.33
16 10 0.26
17 1 0.03
18 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATATTTTTAAAA
Found at i:933891 original size:16 final size:16
Alignment explanation
Indices: 933860--933900 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
933850 AAATATGATT
933860 TTAATTTTT-TTAAAA
1 TTAATTTTTATTAAAA
933875 TTAATATTTTATT-AAA
1 TTAAT-TTTTATTAAAA
*
933891 TAAATTTTTA
1 TTAATTTTTA
933901 AATTCACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTAATTTTTATTAAAA
Found at i:934690 original size:40 final size:40
Alignment explanation
Indices: 934646--934728 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
934636 ATCCATGCCT
* *
934646 CAATGTAAAAATAATTGTCAAATTTAGAGTCCAACCTAGA
1 CAATGTAAAAACAATTGTCAAATTTAGAATCCAACCTAGA
* * * *
934686 CAATGTGAGAACAATTGTCAAATTTAGAATCTAACTTAGA
1 CAATGTAAAAACAATTGTCAAATTTAGAATCCAACCTAGA
934726 CAA
1 CAA
934729 AAAAAAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (40 bp):
CAATGTAAAAACAATTGTCAAATTTAGAATCCAACCTAGA
Found at i:947681 original size:27 final size:27
Alignment explanation
Indices: 947651--947727 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
947641 ATTTTAATGT
947651 TCAATTTGGTATCTATATTTTTTTTTC
1 TCAATTTGGTATCTATATTTTTTTTTC
947678 TCAATTTTTGAGT-T-T-TGA-TTTTTTTTC
1 TCAA--TTTG-GTATCTAT-ATTTTTTTTTC
**
947705 TCAATTAAGTATCTATATTTTTT
1 TCAATTTGGTATCTATATTTTTT
947728 GGGATAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
24 2 0.05
25 3 0.08
26 2 0.05
27 24 0.60
28 2 0.05
29 5 0.12
30 2 0.05
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.62
Consensus pattern (27 bp):
TCAATTTGGTATCTATATTTTTTTTTC
Found at i:948423 original size:24 final size:25
Alignment explanation
Indices: 948379--948447 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
948369 TATTTAAGCT
* *
948379 AAACTCAAATGCCAAATTGAG-AAA
1 AAACTCAGATACCAAATTGAGAAAA
* * *
948403 AAGCTTAGATATCAAATTGAGAAAA
1 AAACTCAGATACCAAATTGAGAAAA
948428 AAACTCAGATACCAAATTGA
1 AAACTCAGATACCAAATTGA
948448 ACATTAAAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (25 bp):
AAACTCAGATACCAAATTGAGAAAA
Found at i:952550 original size:24 final size:24
Alignment explanation
Indices: 952450--952617 Score: 97
Period size: 24 Copynumber: 6.9 Consensus size: 24
952440 TGAGCACATA
* *
952450 AACGGGAAGCTCTTTCGAGCCACAT
1 AACGGGAAGCTCATACGAGCCA-AT
* * * *
952475 AACGGGAAGCTCATATGATCTATGT
1 AACGGGAAGCTCATACGAGCCA-AT
** *
952500 AACGGGAAGCTCCGGA-GAGCCATT
1 AACGGGAAGCT-CATACGAGCCAAT
*
952524 AACGGGAAGCTCATACGAGACAAT
1 AACGGGAAGCTCATACGAGCCAAT
* *
952548 AACGGAAAGTTCA-AGCGAGCCAAT
1 AACGGGAAGCTCATA-CGAGCCAAT
* * ** * *
952572 ATCGAGAAGCTCCGAAGAGCCATT
1 AACGGGAAGCTCATACGAGCCAAT
* *
952596 AATCAGGAAGCTCATAAGAGCC
1 AA-CGGGAAGCTCATACGAGCC
952618 TTTAATCAGG
Statistics
Matches: 107, Mismatches: 31, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
23 3 0.03
24 53 0.50
25 49 0.46
26 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.26, T:0.17
Consensus pattern (24 bp):
AACGGGAAGCTCATACGAGCCAAT
Found at i:952607 original size:25 final size:25
Alignment explanation
Indices: 952577--952629 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
952567 CCAATATCGA
*
952577 GAAGCTCCGAAGAGCCATTAATCAG
1 GAAGCTCAGAAGAGCCATTAATCAG
* *
952602 GAAGCTCATAAGAGCCTTTAATCAG
1 GAAGCTCAGAAGAGCCATTAATCAG
952627 GAA
1 GAA
952630 ACTTTGATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (25 bp):
GAAGCTCAGAAGAGCCATTAATCAG
Found at i:952973 original size:19 final size:19
Alignment explanation
Indices: 952936--952974 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
952926 GGCAATAATA
*
952936 CAATTACATACATACAATT
1 CAATTACATACATAAAATT
952955 CAATTA-ATACATATAAATT
1 CAATTACATACATA-AAATT
952974 C
1 C
952975 TCACATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (19 bp):
CAATTACATACATAAAATT
Found at i:965200 original size:4 final size:4
Alignment explanation
Indices: 965191--965216 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
965181 GACCTCATGT
965191 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
965217 CCCACTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:966421 original size:31 final size:30
Alignment explanation
Indices: 966386--966455 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
966376 TAAATTATGT
* * *
966386 ATTTAGTCCATGTATTTTTTGAATTTGTCAA
1 ATTTAGTCCATATACTTTTTGAATTT-TAAA
*
966417 ATTTAGTTCATATACTTTTTGAATTTTAAA
1 ATTTAGTCCATATACTTTTTGAATTTTAAA
966447 ATTTTAGTC
1 A-TTTAGTC
966456 TTAGCCCAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.53
Consensus pattern (30 bp):
ATTTAGTCCATATACTTTTTGAATTTTAAA
Found at i:967863 original size:5 final size:5
Alignment explanation
Indices: 967849--967901 Score: 54
Period size: 5 Copynumber: 10.8 Consensus size: 5
967839 TTTAATTTAT
* * * * *
967849 ATTCA ATTCG GTTCG ATTCG ATTCG ATTTG ATTCA ATTCG GTTCG ATTC-
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG
967898 ATTC
1 ATTC
967902 ATTTATTTAA
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (5 bp):
ATTCG
Found at i:967872 original size:15 final size:15
Alignment explanation
Indices: 967849--967898 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
967839 TTTAATTTAT
967849 ATTCAATTCGGTTCG
1 ATTCAATTCGGTTCG
* * *
967864 ATTCGATTCGATTTG
1 ATTCAATTCGGTTCG
967879 ATTCAATTCGGTTCG
1 ATTCAATTCGGTTCG
967894 ATTCA
1 ATTCA
967899 TTCATTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (15 bp):
ATTCAATTCGGTTCG
Found at i:968238 original size:26 final size:26
Alignment explanation
Indices: 968195--968250 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
968185 TTCGTTAATA
968195 ATTTCAAAATTATATTTGAGTTTAT-TT
1 ATTTCAAAATTATATTT--GTTTATATT
* *
968222 ATTT-AAAATTGTGTTTGTTTATATT
1 ATTTCAAAATTATATTTGTTTATATT
968247 ATTT
1 ATTT
968251 TGTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 6 0.23
25 6 0.23
26 10 0.38
27 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (26 bp):
ATTTCAAAATTATATTTGTTTATATT
Found at i:986412 original size:20 final size:19
Alignment explanation
Indices: 986387--986457 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
986377 ATGAAAGGTT
*
986387 AATTTATTAATATTTCTAA
1 AATTTATTAAAATTTCTAA
* *
986406 GAATTTACTAAAATTTATAA
1 -AATTTATTAAAATTTCTAA
* *
986426 AATTTTATGAAAATATCTAA
1 AA-TTTATTAAAATTTCTAA
986446 AGATTTATTAAA
1 A-ATTTATTAAA
986458 TTTTTTAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.05
20 38 0.93
21 1 0.02
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (19 bp):
AATTTATTAAAATTTCTAA
Found at i:986493 original size:28 final size:28
Alignment explanation
Indices: 986469--986522 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
986459 TTTTTAATAC
986469 TTTACTAAAAAATCAAAATATTTAAGAA
1 TTTACTAAAAAATCAAAATATTTAAGAA
*
986497 TTTACTAAAAAATCAAAATATCTAAG
1 TTTACTAAAAAATCAAAATATTTAAG
986523 GATTGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (28 bp):
TTTACTAAAAAATCAAAATATTTAAGAA
Found at i:1001375 original size:12 final size:13
Alignment explanation
Indices: 1001358--1001387 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1001348 AATCCTTGAC
1001358 AAAAATATAT-TA
1 AAAAATATATATA
1001370 AAAAATATATATA
1 AAAAATATATATA
1001383 AAAAA
1 AAAAA
1001388 AGTTAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAATATATATA
Found at i:1008911 original size:47 final size:41
Alignment explanation
Indices: 1008815--1008895 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
1008805 AATAGTCTTT
1008815 TATAAATTTGAATTTGAGAATTGAAAGCTCGATCGGTTTTC
1 TATAAATTTGAATTTGAGAATTGAAAGCTCGATCGGTTTTC
1008856 TATAAATTTGAATTTGAGAATTGAAAGCTCGATCGGTTTT
1 TATAAATTTGAATTTGAGAATTGAAAGCTCGATCGGTTTT
1008896 ATCTCTTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (41 bp):
TATAAATTTGAATTTGAGAATTGAAAGCTCGATCGGTTTTC
Found at i:1011800 original size:12 final size:12
Alignment explanation
Indices: 1011779--1011808 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1011769 CGTTTTGTAA
1011779 TTCTTCATCGTC
1 TTCTTCATCGTC
*
1011791 TTCTTTATCGTC
1 TTCTTCATCGTC
1011803 TTCTTC
1 TTCTTC
1011809 TTGTTATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.30, G:0.07, T:0.57
Consensus pattern (12 bp):
TTCTTCATCGTC
Found at i:1017707 original size:21 final size:20
Alignment explanation
Indices: 1017683--1017723 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1017673 GAACATATGG
1017683 ATTATGATGTACAATTTATAT
1 ATTATGATGT-CAATTTATAT
* *
1017704 ATTATTATGTTAATTTATAT
1 ATTATGATGTCAATTTATAT
1017724 TTTACAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTATGATGTCAATTTATAT
Found at i:1017811 original size:18 final size:17
Alignment explanation
Indices: 1017783--1017817 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1017773 ATTATTAAGA
*
1017783 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1017800 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1017818 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1017850 original size:120 final size:120
Alignment explanation
Indices: 1017707--1017954 Score: 496
Period size: 120 Copynumber: 2.1 Consensus size: 120
1017697 TTTATATATT
1017707 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1017772 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1017827 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1 ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
1017892 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
66 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1017947 ATTATGTT
1 ATTATGTT
1017955 TAAATATGAT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 128 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
ATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATT
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
Found at i:1017931 original size:18 final size:17
Alignment explanation
Indices: 1017903--1017937 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1017893 ATTATTAAGA
*
1017903 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1017920 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1017938 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1018194 original size:16 final size:16
Alignment explanation
Indices: 1018173--1018240 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
1018163 GATTTGCTAT
1018173 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1018189 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
1018205 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
1018221 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
1018237 TACA
1 TACA
1018241 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:1032935 original size:3 final size:3
Alignment explanation
Indices: 1032927--1032959 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1032917 GCCCAAAGCA
1032927 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1032960 TTATCAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1033806 original size:21 final size:20
Alignment explanation
Indices: 1033777--1033832 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
1033767 ATTATTTTTT
1033777 AAAATTTTAAAAAATTCAAAA
1 AAAATTTTAAAAAATT-AAAA
*
1033798 AATATTTT-AAAAATTAAAA
1 AAAATTTTAAAAAATTAAAA
*
1033817 AAAATTATAAGAAAAT
1 AAAATTTTAA-AAAAT
1033833 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 10 0.33
20 8 0.27
21 12 0.40
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTTTAAAAAATTAAAA
Found at i:1033811 original size:20 final size:20
Alignment explanation
Indices: 1033780--1033832 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
1033770 ATTTTTTAAA
1033780 ATTTTAAAAAATTCAAAAAAT
1 ATTTTAAAAAATT-AAAAAAT
*
1033801 ATTTT-AAAAATTAAAAAAA
1 ATTTTAAAAAATTAAAAAAT
*
1033820 ATTATAAGAAAAT
1 ATTTTAA-AAAAT
1033833 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 10 0.36
20 8 0.29
21 10 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
ATTTTAAAAAATTAAAAAAT
Found at i:1037474 original size:12 final size:12
Alignment explanation
Indices: 1037448--1037481 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1037438 CCACATATCA
*
1037448 ATTAA-TCCTTT
1 ATTAATTCCTTC
1037459 ATTAATTCCTTC
1 ATTAATTCCTTC
1037471 ATTAATTCCTT
1 ATTAATTCCTT
1037482 TGTTTAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTAATTCCTTC
Found at i:1040575 original size:15 final size:15
Alignment explanation
Indices: 1040551--1040594 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 15
1040541 TTATCAAAAT
1040551 ACAA-GTAATTTTCA
1 ACAATGTAATTTTCA
1040565 ACAATGTAA--TT-A
1 ACAATGTAATTTTCA
1040577 A-AATGTAATTTTCA
1 ACAATGTAATTTTCA
1040591 ACAA
1 ACAA
1040595 GGTAGCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 4 0.16
14 6 0.24
15 6 0.24
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (15 bp):
ACAATGTAATTTTCA
Found at i:1040770 original size:30 final size:30
Alignment explanation
Indices: 1040707--1040763 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1040697 CTTAGTGAAG
* *
1040707 ATTTTAAAAAAATTGAGGAGTTTAATTAAA
1 ATTTTAAAAAAATTGAAGAGCTTAATTAAA
1040737 ATTTTCAAAAAAATTGAAG-GCTTAATT
1 ATTTT-AAAAAAATTGAAGAGCTTAATT
1040764 CGAATTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (30 bp):
ATTTTAAAAAAATTGAAGAGCTTAATTAAA
Found at i:1045040 original size:13 final size:14
Alignment explanation
Indices: 1045019--1045093 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
1045009 AATTTTCCTT
1045019 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
**
1045033 TTTCTTTTTCCCTC
1 TTTCTTTTTCTTTC
* * *
1045047 TTTC-CTTTCTCTG
1 TTTCTTTTTCTTTC
* *
1045060 TTTCGTTCTACTTCTC
1 TTTC-TTTTTCTT-TC
1045076 TGTTCTTTTTCTTTC
1 T-TTCTTTTTCTTTC
1045091 TTT
1 TTT
1045094 ATTTCCTTGT
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
13 10 0.22
14 18 0.40
15 6 0.13
16 8 0.18
17 3 0.07
ACGTcount: A:0.01, C:0.27, G:0.04, T:0.68
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:1047020 original size:40 final size:40
Alignment explanation
Indices: 1046976--1047059 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
1046966 GGTCCAATTT
1046976 GTTTGTTCGATTCAATTGAAATAATTTAATTTAATTTAGG
1 GTTTGTTCGATTCAATTGAAATAATTTAATTTAATTTAGG
*
1047016 GTTTGTTCGATTCAATTGAAATAGTTTAATTTAATTTAGG
1 GTTTGTTCGATTCAATTGAAATAATTTAATTTAATTTAGG
1047056 GTTT
1 GTTT
1047060 TTAGATATGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.49
Consensus pattern (40 bp):
GTTTGTTCGATTCAATTGAAATAATTTAATTTAATTTAGG
Found at i:1049341 original size:10 final size:10
Alignment explanation
Indices: 1049305--1049347 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
1049295 GGTATACAAC
1049305 TTATTAAAAA
1 TTATTAAAAA
1049315 TT-TTAAAAA
1 TTATTAAAAA
* *
1049324 GTA-CAAAAA
1 TTATTAAAAA
1049333 TTATTAAAAA
1 TTATTAAAAA
1049343 TTATT
1 TTATT
1049348 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 15 0.56
10 12 0.44
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:1051542 original size:10 final size:10
Alignment explanation
Indices: 1051529--1051583 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
1051519 ATTATTTTTT
1051529 AAAATTTTAA
1 AAAATTTTAA
1051539 AAAATTTTAA
1 AAAATTTTAA
*
1051549 AAAATATTTTA
1 AAAAT-TTTAA
1051560 AAAA--TTAA
1 AAAATTTTAA
*
1051568 AAAATTATAA
1 AAAATTTTAA
1051578 GAAAAT
1 -AAAAT
1051584 ATTTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
8 7 0.18
10 18 0.47
11 13 0.34
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:1051557 original size:12 final size:11
Alignment explanation
Indices: 1051529--1051563 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
1051519 ATTATTTTTT
1051529 AAAATTTT-AA
1 AAAATTTTAAA
1051539 AAAATTTTAAA
1 AAAATTTTAAA
1051550 AAATATTTTAAA
1 AAA-ATTTTAAA
1051562 AA
1 AA
1051564 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.35
11 5 0.22
12 10 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:1051560 original size:30 final size:30
Alignment explanation
Indices: 1051525--1051588 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
1051515 ATTAATTATT
* *
1051525 TTTTAAAATTTTAAAAAATTTTAA-AAAATA
1 TTTTAAAA-ATTAAAAAATTATAAGAAAATA
1051555 TTTTAAAAATTAAAAAATTATAAGAAAATA
1 TTTTAAAAATTAAAAAATTATAAGAAAATA
1051585 TTTT
1 TTTT
1051589 TTAAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (30 bp):
TTTTAAAAATTAAAAAATTATAAGAAAATA
Found at i:1051609 original size:14 final size:13
Alignment explanation
Indices: 1051582--1051606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1051572 TTATAAGAAA
1051582 ATATTTTTTAAAT
1 ATATTTTTTAAAT
1051595 ATATTTTTTAAA
1 ATATTTTTTAAA
1051607 ATAATTAATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTTTTTAAAT
Found at i:1054318 original size:12 final size:12
Alignment explanation
Indices: 1054292--1054325 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1054282 CCACATATCA
*
1054292 ATTAA-TCCTTT
1 ATTAATTCCTTC
1054303 ATTAATTCCTTC
1 ATTAATTCCTTC
1054315 ATTAATTCCTT
1 ATTAATTCCTT
1054326 TGTTTAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTAATTCCTTC
Found at i:1057054 original size:37 final size:37
Alignment explanation
Indices: 1057006--1057080 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
1056996 TGAAAATTTA
1057006 TTATTTCACTTTACATGGAGCTTATTAAGTGCTTGAT
1 TTATTTCACTTTACATGGAGCTTATTAAGTGCTTGAT
1057043 TTATTTCACTTTACATGGAGCTTATTAAGTGCTTGAT
1 TTATTTCACTTTACATGGAGCTTATTAAGTGCTTGAT
1057080 T
1 T
1057081 CATAGTAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (37 bp):
TTATTTCACTTTACATGGAGCTTATTAAGTGCTTGAT
Found at i:1073915 original size:19 final size:20
Alignment explanation
Indices: 1073882--1073920 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1073872 TTTTATGTAC
1073882 TCTAAATAGGGGGATAGAGT
1 TCTAAATAGGGGGATAGAGT
1073902 TCTAAATA-GGGGATAGAGT
1 TCTAAATAGGGGGATAGAGT
1073921 GACGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (20 bp):
TCTAAATAGGGGGATAGAGT
Found at i:1073930 original size:21 final size:20
Alignment explanation
Indices: 1073883--1073930 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
1073873 TTTATGTACT
*
1073883 CTAAATAGGGGGATAGAGTT
1 CTAAATAGGGGGATAGAGTA
1073903 CTAAATA-GGGGATAGAGTGA
1 CTAAATAGGGGGATAGAGT-A
1073923 CGTAAATA
1 C-TAAATA
1073931 TTGACTCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 8 0.32
21 6 0.24
ACGTcount: A:0.40, C:0.06, G:0.31, T:0.23
Consensus pattern (20 bp):
CTAAATAGGGGGATAGAGTA
Found at i:1074491 original size:16 final size:17
Alignment explanation
Indices: 1074452--1074492 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
1074442 AATAAATAAT
1074452 TAATAA-TATATTTAAA
1 TAATAATTATATTTAAA
1074468 -AATAAATTAT-TTTAAA
1 TAAT-AATTATATTTAAA
1074484 TAATAATTA
1 TAATAATTA
1074493 AAAATATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 13 0.59
17 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATATTTAAA
Found at i:1074522 original size:27 final size:29
Alignment explanation
Indices: 1074492--1074549 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
1074482 AATAATAATT
1074492 AAAAAT-ATCAAAACTAT-GTTTATATTA
1 AAAAATAATCAAAACTATAGTTTATATTA
* * *
1074519 AAAAATAATTAAAATTATATTTTATATTA
1 AAAAATAATCAAAACTATAGTTTATATTA
1074548 AA
1 AA
1074550 TTATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 6 0.23
28 9 0.35
29 11 0.42
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (29 bp):
AAAAATAATCAAAACTATAGTTTATATTA
Found at i:1075282 original size:30 final size:30
Alignment explanation
Indices: 1075226--1075282 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1075216 TTTTATATAA
**
1075226 TATTTTTAAAATATATTTATTCATTTTCAC
1 TATTTTTAAAATATAAATATTCATTTTCAC
*
1075256 TATTTTT-AAATATAAAATATTTATTTT
1 TATTTTTAAAATAT-AAATATTCATTTT
1075283 ATATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 6 0.26
30 17 0.74
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTTTTAAAATATAAATATTCATTTTCAC
Found at i:1075302 original size:21 final size:20
Alignment explanation
Indices: 1075280--1075320 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1075270 AAATATTTAT
1075280 TTTATATTATAAA-AAATAAA
1 TTTAT-TTATAAATAAATAAA
1075300 TTTATTTATAAATTAAATAAA
1 TTTATTTATAAA-TAAATAAA
1075321 GAATAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 5 0.26
21 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTATTTATAAATAAATAAA
Found at i:1075638 original size:22 final size:22
Alignment explanation
Indices: 1075613--1075654 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1075603 TATTTTTAAA
1075613 ATTTTAAAAAATTAAAAAATAT
1 ATTTTAAAAAATTAAAAAATAT
*
1075635 ATTTTAAAAATTTAAAAAAT
1 ATTTTAAAAAATTAAAAAAT
1075655 TATAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATTTTAAAAAATTAAAAAATAT
Found at i:1075641 original size:30 final size:32
Alignment explanation
Indices: 1075603--1075680 Score: 108
Period size: 30 Copynumber: 2.5 Consensus size: 32
1075593 AAGCAGTAAT
1075603 TATTTTTAAAATTTTAAAAAA-T-TAA-AAAA
1 TATTTTTAAAATTTTAAAAAATTATAAGAAAA
*
1075632 TATATTTTAAAAATTTAAAAAATTATAAGAAAA
1 TAT-TTTTAAAATTTTAAAAAATTATAAGAAAA
1075665 TATTTTTAAATATTTT
1 TATTTTTAAA-ATTTT
1075681 TTAAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 3 0.07
30 17 0.40
31 1 0.02
32 10 0.24
33 11 0.26
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
TATTTTTAAAATTTTAAAAAATTATAAGAAAA
Found at i:1075645 original size:31 final size:32
Alignment explanation
Indices: 1075603--1075680 Score: 99
Period size: 31 Copynumber: 2.5 Consensus size: 32
1075593 AAGCAGTAAT
*
1075603 TATTTTTAAAATTTTAAAAAATTA-AA-AAATA
1 TATTTTAAAAATTTTAAAAAATTATAAGAAA-A
1075634 TATTTTAAAAA-TTTAAAAAATTATAAGAAAA
1 TATTTTAAAAATTTTAAAAAATTATAAGAAAA
*
1075665 TATTTTTAAATATTTT
1 TA-TTTTAAAAATTTT
1075681 TTAAATAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 12 0.29
31 15 0.37
32 11 0.27
33 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
TATTTTAAAAATTTTAAAAAATTATAAGAAAA
Found at i:1076658 original size:23 final size:23
Alignment explanation
Indices: 1076632--1076683 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1076622 ATATGAGCAC
* *
1076632 CTGTAATATCCCGAAAATTATTA
1 CTGTAATACCCCGAAAATTACTA
1076655 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCGAAAATTACTA
*
1076678 CAGTAA
1 CTGTAA
1076684 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (23 bp):
CTGTAATACCCCGAAAATTACTA
Found at i:1077141 original size:14 final size:15
Alignment explanation
Indices: 1077114--1077145 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1077104 TTTTAGATTA
1077114 ATTAATTAAATTAAT
1 ATTAATTAAATTAAT
1077129 ATTAATT-AATTAAT
1 ATTAATTAAATTAAT
1077143 ATT
1 ATT
1077146 TTAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAATTAAATTAAT
Found at i:1087698 original size:30 final size:31
Alignment explanation
Indices: 1087631--1087700 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
1087621 TTTAAAATTT
* * *
1087631 ATTTATTTATTTTCACTATTTTTAAATATAA
1 ATTTATTTATTTTCACTATTATAAAAAATAA
* *
1087662 A-ATATTTATTTTTA-TATTATAAAAAATAA
1 ATTTATTTATTTTCACTATTATAAAAAATAA
1087691 ATTTATTTAT
1 ATTTATTTAT
1087701 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 13 0.41
30 18 0.56
31 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (31 bp):
ATTTATTTATTTTCACTATTATAAAAAATAA
Found at i:1088306 original size:20 final size:21
Alignment explanation
Indices: 1088259--1088307 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1088249 ATTATTTTTT
1088259 TAAAAAATTCAAAAAAATATA
1 TAAAAAATTCAAAAAAATATA
*
1088280 TTAAAAATT-AAAAAAAT-TA
1 TAAAAAATTCAAAAAAATATA
1088299 TAAGAAAAT
1 TAA-AAAAT
1088308 ATTTTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 13 0.52
21 8 0.32
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAAATTCAAAAAAATATA
Found at i:1088306 original size:21 final size:21
Alignment explanation
Indices: 1088261--1088306 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1088251 TATTTTTTTA
**
1088261 AAAAATTCAAAAAAATATATT
1 AAAAATTCAAAAAAATATAAG
1088282 AAAAATT-AAAAAAATTATAAG
1 AAAAATTCAAAAAAA-TATAAG
1088303 AAAA
1 AAAA
1088307 TATTTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATTCAAAAAAATATAAG
Found at i:1089584 original size:16 final size:17
Alignment explanation
Indices: 1089560--1089608 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
1089550 AATTTTATCA
*
1089560 TTATTAATT-TAAAATT
1 TTATAAATTATAAAATT
1089576 TTATAAATTATAAAA-T
1 TTATAAATTATAAAATT
* *
1089592 GTCTAAATTA-AAAATT
1 TTATAAATTATAAAATT
1089608 T
1 T
1089609 ACCATTTTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.15
16 18 0.67
17 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:1090742 original size:39 final size:39
Alignment explanation
Indices: 1090688--1090764 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
1090678 AATTTGTGTC
1090688 ACATGGAGGGACCATTTCCCACCAATCAACAGTACTTTA
1 ACATGGAGGGACCATTTCCCACCAATCAACAGTACTTTA
1090727 ACATGGAGGGACCATTTCCCACCAATCAACAGTACTTT
1 ACATGGAGGGACCATTTCCCACCAATCAACAGTACTTT
1090765 TTATTTAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (39 bp):
ACATGGAGGGACCATTTCCCACCAATCAACAGTACTTTA
Found at i:1095858 original size:15 final size:15
Alignment explanation
Indices: 1095834--1095877 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 15
1095824 TTATCAAAAT
1095834 ACAA-GTAATTTTCA
1 ACAATGTAATTTTCA
1095848 ACAATGTAA--TT-A
1 ACAATGTAATTTTCA
1095860 A-AATGTAATTTTCA
1 ACAATGTAATTTTCA
1095874 ACAA
1 ACAA
1095878 GGTAGCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 7 0.28
12 2 0.08
13 4 0.16
14 6 0.24
15 6 0.24
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (15 bp):
ACAATGTAATTTTCA
Found at i:1096052 original size:30 final size:30
Alignment explanation
Indices: 1095989--1096045 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1095979 CTTAGTGAAG
* *
1095989 ATTTTAAAAAAATTGAGGAGTTTAATTAAA
1 ATTTTAAAAAAATTGAAGAGCTTAATTAAA
1096019 ATTTTCAAAAAAATTGAAG-GCTTAATT
1 ATTTT-AAAAAAATTGAAGAGCTTAATT
1096046 CGAATTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (30 bp):
ATTTTAAAAAAATTGAAGAGCTTAATTAAA
Found at i:1100376 original size:27 final size:27
Alignment explanation
Indices: 1100324--1100376 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
1100314 ACTGACCAAA
* *
1100324 TTTTCCTTTTTCTTTTTCTTTCTTTCT
1 TTTTCCTTTTTCTCTTTCTCTCTTTCT
*
1100351 TTTTCCTTCTTTC-CTTTCTCTGTTTC
1 TTTTCCTT-TTTCTCTTTCTCTCTTTC
1100377 GTTCTACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTCCTTTTTCTCTTTCTCTCTTTCT
Found at i:1103863 original size:21 final size:19
Alignment explanation
Indices: 1103823--1103866 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
1103813 ACAACAACCC
*
1103823 TTTTTTTTGAAAACACGAA
1 TTTTTTTTGAAAACAAGAA
*
1103842 TTTTTTTTTAAAACGCAAGAA
1 TTTTTTTTGAAAA--CAAGAA
1103863 TTTT
1 TTTT
1103867 AGAAACACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (19 bp):
TTTTTTTTGAAAACAAGAA
Found at i:1103962 original size:16 final size:16
Alignment explanation
Indices: 1103941--1103976 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1103931 CGAATTTTCT
1103941 TTTTG-AAACACAAAAA
1 TTTTGAAAACAC-AAAA
1103957 TTTTGAAAACACAAAA
1 TTTTGAAAACACAAAA
1103973 TTTT
1 TTTT
1103977 ATTTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (16 bp):
TTTTGAAAACACAAAA
Found at i:1103982 original size:21 final size:21
Alignment explanation
Indices: 1103956--1104028 Score: 121
Period size: 21 Copynumber: 3.4 Consensus size: 21
1103946 AAACACAAAA
1103956 ATTTTGAAAACACAAAATTTT
1 ATTTTGAAAACACAAAATTTT
1103977 ATTTTGAAAACACAAAATTTT
1 ATTTTGAAAACACAAAATTTT
1103998 ATTTTGAAAACACAAAAGATTTT
1 ATTTTGAAAACAC-AAA-ATTTT
1104021 -TTTTGAAA
1 ATTTTGAAA
1104029 TACGGAAATT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
21 34 0.68
22 11 0.22
23 5 0.10
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (21 bp):
ATTTTGAAAACACAAAATTTT
Found at i:1104062 original size:18 final size:17
Alignment explanation
Indices: 1104020--1104301 Score: 90
Period size: 17 Copynumber: 15.6 Consensus size: 17
1104010 CAAAAGATTT
*
1104020 TTTTTGAAATACGGAAA
1 TTTTTGAAACACGGAAA
* *
1104037 TTTATGAAACACGGTCAA
1 TTTTTGAAACACGG-AAA
*
1104055 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGGAAA
* **
1104073 TTTTTGAAAGACGGGATTT
1 TTTTTGAAACAC-GGA-AA
* *
1104092 TTTTTAAAAACACGAAAA
1 TTTTT-GAAACACGGAAA
* *
1104110 TTTATAAAACACGGAAA
1 TTTTTGAAACACGGAAA
* *
1104127 TTTTTTTCTGAAAACAAGAAAA
1 ---TTTT-TG-AAACACGGAAA
* *
1104149 TTTTCGAAAAAC-GAGAA
1 TTTTTGAAACACGGA-AA
*
1104166 TGTTTGAAAACACGGGAAA
1 TTTTTG-AAACAC-GGAAA
* *
1104185 TTTTTGAAAACATGAAAA
1 TTTTTG-AAACACGGAAA
** *
1104203 TTTTTGTTACAC-TAGAA
1 TTTTTGAAACACGGA-AA
1104220 -TTTTGAAAACAC-GAAGA
1 TTTTTG-AAACACGGAA-A
* *
1104237 TTTTTGAAACA-TGAGGA
1 TTTTTGAAACACGGA-AA
*
1104254 TTTTTGAAAACAC-GAAGC
1 TTTTTG-AAACACGGAA-A
* *
1104272 TTTTTGAAACATGAGAAT
1 TTTTTGAAACACG-GAAA
1104290 TTTTTGAGAACA
1 TTTTTGA-AACA
1104302 TGAAAACACG
Statistics
Matches: 196, Mismatches: 43, Indels: 50
0.68 0.15 0.17
Matches are distributed among these distances:
16 8 0.04
17 68 0.35
18 62 0.32
19 38 0.19
20 10 0.05
21 1 0.01
22 9 0.05
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGGAAA
Found at i:1104067 original size:19 final size:18
Alignment explanation
Indices: 1104053--1104307 Score: 153
Period size: 18 Copynumber: 14.1 Consensus size: 18
1104043 AAACACGGTC
1104053 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
** *
1104071 AATTTTTGAAAGACGGGAT
1 AATTTTTGAAA-ACACGAA
** *
1104090 TTTTTTTAAAAACACGAA
1 AATTTTTGAAAACACGAA
*
1104108 AATTTAT-AAAACACGGAA
1 AATTTTTGAAAACAC-GAA
* *
1104126 ATTTTTTTCTGAAAACAAGAA
1 A--ATTTT-TGAAAACACGAA
* *
1104147 AATTTTCGAAAA-ACGAG
1 AATTTTTGAAAACACGAA
* *
1104164 AATGTTTGAAAACACGGGA
1 AATTTTTGAAAACAC-GAA
*
1104183 AATTTTTGAAAACATGAA
1 AATTTTTGAAAACACGAA
** * *
1104201 AATTTTTG-TTACACTAG
1 AATTTTTGAAAACACGAA
1104218 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* * *
1104235 GATTTTTG-AAACATGAG
1 AATTTTTGAAAACACGAA
*
1104252 GATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
** *
1104270 GCTTTTTG-AAACATGAGA
1 AATTTTTGAAAACACGA-A
* * *
1104288 ATTTTTTGAGAACATGAA
1 AATTTTTGAAAACACGAA
1104306 AA
1 AA
1104308 CACGAAAATT
Statistics
Matches: 178, Mismatches: 46, Indels: 26
0.71 0.18 0.10
Matches are distributed among these distances:
16 5 0.03
17 54 0.30
18 68 0.38
19 37 0.21
20 3 0.02
21 5 0.03
22 6 0.03
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:1104074 original size:36 final size:35
Alignment explanation
Indices: 1104020--1104193 Score: 111
Period size: 36 Copynumber: 4.8 Consensus size: 35
1104010 CAAAAGATTT
* *
1104020 TTTTTG-AAATACGGAAATTTATGAAACACGGTCAA
1 TTTTTGAAAACACGAAAATTTATGAAACACGGT-AA
* * **
1104055 TTTTTGAAAACACGAAAATTTTTGAAAGACGGGATTT
1 TTTTTGAAAACACGAAAATTTATGAAACAC-GG-TAA
* * *
1104092 TTTTTAAAAACACGAAAATTTATAAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTATGAAACACGGTAA
* *
1104127 TTTTTTTCTGAAAACAAGAAAATTT-TCGAAAAACGAG-AA
1 ---TTTT-TGAAAACACGAAAATTTAT-GAAACACG-GTAA
* * *
1104166 TGTTTGAAAACACGGGAAATTTTTGAAA
1 TTTTTGAAAACAC-GAAAATTTATGAAA
1104194 ACATGAAAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 21
0.72 0.13 0.14
Matches are distributed among these distances:
35 14 0.13
36 35 0.32
37 29 0.27
38 6 0.06
39 23 0.21
40 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTATGAAACACGGTAA
Found at i:1104105 original size:37 final size:38
Alignment explanation
Indices: 1103903--1104207 Score: 154
Period size: 37 Copynumber: 8.0 Consensus size: 38
1103893 ACACGAAAAA
* * *
1103903 TTTG-AAACACGAGAATTTTTTCAAAACAC-GAATTTTCTT
1 TTTGAAAACACGA-AAATTTTT-GAAACACGGAAATTT-TT
* *
1103942 TTTG-AAACAC-AAAAATTTTGAAAACAC-AAAATTTTAT
1 TTTGAAAACACGAAAATTTTTG-AAACACGGAAATTTT-T
**
1103979 TTTGAAAACAC-AAAATTTTATTTTGAAAACACAAAAGATTTTT
1 TTTGAAAACACGAAAA---T-TTTTG-AAACACGGAA-ATTTTT
* * * *
1104022 TTTG-AAATACGGAAATTTATGAAACACGGTCAA---TT
1 TTTGAAAACACGAAAATTTTTGAAACACGG-AAATTTTT
* *
1104057 TTTGAAAACACGAAAATTTTTGAAAGACGG-GATTTTT
1 TTTGAAAACACGAAAATTTTTGAAACACGGAAATTTTT
* * *
1104094 TTTAAAAACACGAAAATTTATAAAACACGGAAATTTTT
1 TTTGAAAACACGAAAATTTTTGAAACACGGAAATTTTT
* * * *
1104132 TTCTGAAAACAAGAAAATTTTCGAAAAAC-GAGAA---TG
1 TT-TGAAAACACGAAAATTTTTGAAACACGGA-AATTTTT
* * *
1104168 TTTGAAAACACGGGAAATTTTTGAAAACATGAAAATTTTT
1 TTTGAAAACAC-GAAAATTTTTG-AAACACGGAAATTTTT
1104208 GTTACACTAG
Statistics
Matches: 206, Mismatches: 36, Indels: 47
0.71 0.12 0.16
Matches are distributed among these distances:
34 1 0.00
35 14 0.07
36 34 0.17
37 56 0.27
38 29 0.14
39 37 0.18
40 2 0.01
42 17 0.08
43 11 0.05
44 5 0.02
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (38 bp):
TTTGAAAACACGAAAATTTTTGAAACACGGAAATTTTT
Found at i:1104222 original size:35 final size:35
Alignment explanation
Indices: 1104138--1104307 Score: 139
Period size: 35 Copynumber: 4.8 Consensus size: 35
1104128 TTTTTTCTGA
* * * * *
1104138 AAACAAGAAAATTTTCGAAAA-ACGAGAATGTTTG
1 AAACATGAGAATTTTTGAAAACACGAAAATTTTTG
* * *
1104172 AAAACACGGGAAATTTTTGAAAACATGAAAATTTTTG
1 -AAACATGAG-AATTTTTGAAAACACGAAAATTTTTG
** *
1104209 TTACACT-AGAA-TTTTGAAAACACGAAGATTTTTG
1 AAACA-TGAGAATTTTTGAAAACACGAAAATTTTTG
* **
1104243 AAACATGAGGATTTTTGAAAACACGAAGCTTTTTG
1 AAACATGAGAATTTTTGAAAACACGAAAATTTTTG
* *
1104278 AAACATGAGAATTTTTTGAGAACATGAAAA
1 AAACATGAGAA-TTTTTGAAAACACGAAAA
1104308 CACGAAAATT
Statistics
Matches: 107, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
33 1 0.01
34 27 0.25
35 40 0.37
36 29 0.27
37 10 0.09
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.29
Consensus pattern (35 bp):
AAACATGAGAATTTTTGAAAACACGAAAATTTTTG
Found at i:1104439 original size:18 final size:18
Alignment explanation
Indices: 1104416--1104465 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1104406 AAGTGAAGAT
*
1104416 TTTTTGAAATACGAGAAA
1 TTTTTGAAATACGAAAAA
*
1104434 TTTTTGAAGATA-TAAAAA
1 TTTTTGAA-ATACGAAAAA
*
1104452 TTTTTGAAACACGA
1 TTTTTGAAATACGA
1104466 TTTTTCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 21 0.81
19 3 0.12
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (18 bp):
TTTTTGAAATACGAAAAA
Found at i:1105276 original size:19 final size:19
Alignment explanation
Indices: 1105248--1105321 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
1105238 GACTTTAAAA
1105248 TTTT-TTTTTTCTTTCTCT
1 TTTTCTTTTTTCTTTCTCT
*
1105266 TTTTCTTTTTTCTTTTTCT
1 TTTTCTTTTTTCTTTCTCT
* * *
1105285 TCTCCCTTTTTC-TTCTTCTT
1 TTTTCTTTTTTCTTTC-TC-T
*
1105305 TTTTCTTTCTTCTTTCT
1 TTTTCTTTTTTCTTTCT
1105322 TCTTCTTCGG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 6 0.14
19 24 0.56
20 10 0.23
21 3 0.07
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTCTTTTTTCTTTCTCT
Found at i:1105277 original size:7 final size:7
Alignment explanation
Indices: 1105248--1105325 Score: 54
Period size: 7 Copynumber: 11.3 Consensus size: 7
1105238 GACTTTAAAA
*
1105248 TTTTTTT
1 TTTTTTC
1105255 TTTCTTTC
1 TTT-TTTC
1105263 TCTTTTTC
1 T-TTTTTC
1105271 TTTTTTC
1 TTTTTTC
1105278 -TTTTTC
1 TTTTTTC
* *
1105284 -TTCTCC
1 TTTTTTC
*
1105290 CTTTTTC
1 TTTTTTC
*
1105297 -TTCTTC
1 TTTTTTC
1105303 TTTTTTC
1 TTTTTTC
*
1105310 TTTCTTC
1 TTTTTTC
*
1105317 TTTCTTC
1 TTTTTTC
1105324 TT
1 TT
1105326 CTTCGGGCCG
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
6 15 0.25
7 33 0.56
8 9 0.15
9 2 0.03
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTC
Found at i:1105327 original size:13 final size:12
Alignment explanation
Indices: 1105253--1105329 Score: 75
Period size: 13 Copynumber: 6.0 Consensus size: 12
1105243 TAAAATTTTT
1105253 TTTTTCTT-TCTC
1 TTTTTCTTCT-TC
*
1105265 TTTTTCTTTTTTC
1 TTTTTC-TTCTTC
*
1105278 TTTTTCTTCTCCC
1 TTTTTCTTCT-TC
1105291 TTTTTCTTCTTC
1 TTTTTCTTCTTC
1105303 TTTTTTCTTTCTTC
1 -TTTTTC-TTCTTC
1105317 TTTCTTCTTCTTC
1 TTT-TTCTTCTTC
1105330 GGGCCGCACC
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
12 10 0.18
13 36 0.64
14 10 0.18
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTCTTC
Found at i:1105489 original size:19 final size:17
Alignment explanation
Indices: 1105465--1105503 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1105455 TTTCTTGTTT
1105465 TTTTGCTGCTGCGTTTTTG
1 TTTTGCTGCT-C-TTTTTG
*
1105484 TTTTGCTTCTCTTTTTG
1 TTTTGCTGCTCTTTTTG
1105501 TTT
1 TTT
1105504 CAATTTCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTTGCTGCTCTTTTTG
Found at i:1109583 original size:21 final size:21
Alignment explanation
Indices: 1109557--1109597 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1109547 AGACGAGCAA
* *
1109557 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1109578 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1109598 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Done.