Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 101 of 207
Found at i:30111976 original size:27 final size:27
Alignment explanation
Indices: 30111945--30112120 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
30111935 TAAATTGTAC
* *
30111945 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGATTATGT
* * *
30111972 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGATTATGT
** *
30111998 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGATTATGT
* *
30112026 GGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGAATTGATTATGT
*
30112053 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGATTATGT
* *
30112079 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGATTATGT
*
30112106 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30112121 GACTTAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.19
27 102 0.81
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGATTATGT
Found at i:30114143 original size:6 final size:6
Alignment explanation
Indices: 30114134--30114204 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
30114124 GAAAAAAAGT
* * *
30114134 AAAATA AAAATA AAACA-A CTAAAA-A AATATA AAAATA AACATA AAATTA
1 AAAATA AAAATA AAA-ATA --AAAATA AAAATA AAAATA AAAATA AAAATA
* *
30114183 AAATTA AAATTA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
30114205 CAAATAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
5 3 0.05
6 46 0.84
7 3 0.05
8 3 0.05
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:30114148 original size:20 final size:19
Alignment explanation
Indices: 30114125--30114168 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
30114115 TAATAAATGG
*
30114125 AAAAAAAGTAAAATAAAAAT
1 AAAAAAACTAAAA-AAAAAT
* *
30114145 AAAACAACTAAAAAAATAT
1 AAAAAAACTAAAAAAAAAT
30114164 AAAAA
1 AAAAA
30114169 TAAACATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAAACTAAAAAAAAAT
Found at i:30114177 original size:12 final size:11
Alignment explanation
Indices: 30114127--30114213 Score: 59
Period size: 12 Copynumber: 7.4 Consensus size: 11
30114117 ATAAATGGAA
30114127 AAAAAGTAAAAT
1 AAAAA-TAAAAT
*
30114139 AAAAATAAAAC
1 AAAAATAAAAT
*
30114150 AACTAAAAAAATAT
1 AA--AAATAAA-AT
30114164 AAAAATAAACAT
1 AAAAATAAA-AT
*
30114176 AAAATTAAAATT
1 AAAAATAAAA-T
*
30114188 AAAATTAAAAAT
1 AAAAAT-AAAAT
*
30114200 AAAAA-CAAAT
1 AAAAATAAAAT
30114210 AAAA
1 AAAA
30114214 TCAATGATCG
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
10 8 0.13
11 8 0.13
12 33 0.53
13 10 0.16
14 3 0.05
ACGTcount: A:0.76, C:0.05, G:0.01, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:30114987 original size:37 final size:37
Alignment explanation
Indices: 30114940--30115013 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
30114930 GACTCAAAGT
30114940 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
30114977 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
1 AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
30115014 CCGAGGTAGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.65, C:0.11, G:0.08, T:0.16
Consensus pattern (37 bp):
AAGAATAAAATTAAGAACAATAACATAAACCATAAGA
Found at i:30115115 original size:4 final size:4
Alignment explanation
Indices: 30115100--30115169 Score: 56
Period size: 4 Copynumber: 17.0 Consensus size: 4
30115090 TAAGAAGAGG
* *
30115100 AATA AGATA AATA AATG AATA AATA AATA GAAGA AA-A TAATA AATTA
1 AATA A-ATA AATA AATA AATA AATA AATA -AATA AATA -AATA AA-TA
30115147 AATA AAT- AA-A AATA AATTA AATA
1 AATA AATA AATA AATA AA-TA AATA
30115170 GGGAAAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 5 0.09
4 34 0.62
5 16 0.29
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:30115122 original size:8 final size:8
Alignment explanation
Indices: 30115100--30115169 Score: 56
Period size: 9 Copynumber: 8.5 Consensus size: 8
30115090 TAAGAAGAGG
30115100 AATAAGATA
1 AATAA-ATA
*
30115109 AATAAATG
1 AATAAATA
30115117 AATAAATA
1 AATAAATA
*
30115125 AATAGAAGA
1 AATA-AATA
30115134 AA-ATAATA
1 AATA-AATA
30115142 AATTAAATA
1 AA-TAAATA
30115151 AAT-AA-A
1 AATAAATA
30115157 AATAAATTA
1 AATAAA-TA
30115166 AATA
1 AATA
30115170 GGGAAAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.08
7 4 0.08
8 20 0.40
9 21 0.42
10 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:30115137 original size:26 final size:27
Alignment explanation
Indices: 30115103--30115163 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
30115093 GAAGAGGAAT
*
30115103 AAGATAAATAAATGAA-TAAATAAATAG
1 AAGATAAAT-AATAAATTAAATAAATAG
30115130 AAGA-AAATAATAAATTAAATAAATA-
1 AAGATAAATAATAAATTAAATAAATAG
*
30115155 AAAATAAAT
1 AAGATAAAT
30115164 TAAATAGGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 8 0.27
26 18 0.60
27 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (27 bp):
AAGATAAATAATAAATTAAATAAATAG
Found at i:30115148 original size:22 final size:21
Alignment explanation
Indices: 30115112--30115179 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 21
30115102 TAAGATAAAT
30115112 AAATGAATAAA-TAAATAGAAGA
1 AAAT-AATAAATTAAATAGAA-A
*
30115134 AAATAATAAATTAAATA-AAT
1 AAATAATAAATTAAATAGAAA
30115154 AAA-AATAAATTAAATAGGGAAA
1 AAATAATAAATTAAATA--GAAA
30115176 AAAT
1 AAAT
30115180 CAACGGAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 8 0.21
22 15 0.38
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (21 bp):
AAATAATAAATTAAATAGAAA
Found at i:30115177 original size:19 final size:19
Alignment explanation
Indices: 30115117--30115169 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
30115107 TAAATAAATG
30115117 AATAAA-TAAATAGAAGAAAA
1 AATAAATTAAATA-AAG-AAA
*
30115137 TAATAAATTAAATAAATAAA
1 -AATAAATTAAATAAAGAAA
30115157 AATAAATTAAATA
1 AATAAATTAAATA
30115170 GGGAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 8 0.27
22 6 0.20
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AATAAATTAAATAAAGAAA
Found at i:30120110 original size:10 final size:10
Alignment explanation
Indices: 30120095--30120144 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
30120085 TAAAGGATAT
*
30120095 ATTAATTTTA
1 ATTAATTTTG
30120105 ATTAATTTT-
1 ATTAATTTTG
30120114 ATGCTCAATTTTG
1 AT--T-AATTTTG
30120127 ATTAATTTTG
1 ATTAATTTTG
30120137 ATT-ATTTT
1 ATTAATTTT
30120145 CGATAGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 7 0.19
10 19 0.53
11 2 0.06
12 6 0.17
13 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (10 bp):
ATTAATTTTG
Found at i:30133768 original size:11 final size:11
Alignment explanation
Indices: 30133752--30133793 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
30133742 AAGAGAGAAT
30133752 GATGATTGAGG
1 GATGATTGAGG
*
30133763 GATGATTGAAG
1 GATGATTGAGG
* *
30133774 AATGATTGTGG
1 GATGATTGAGG
30133785 GATGATTGA
1 GATGATTGA
30133794 AGAATGAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (11 bp):
GATGATTGAGG
Found at i:30133781 original size:22 final size:22
Alignment explanation
Indices: 30133753--30133805 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
30133743 AGAGAGAATG
30133753 ATGATTGAGGGATGATTGAAGA
1 ATGATTGAGGGATGATTGAAGA
*
30133775 ATGATTGTGGGATGATTGAAGA
1 ATGATTGAGGGATGATTGAAGA
*
30133797 ATGAATGAG
1 ATGATTGAG
30133806 AGGGTCTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (22 bp):
ATGATTGAGGGATGATTGAAGA
Found at i:30133800 original size:11 final size:11
Alignment explanation
Indices: 30133753--30133800 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
30133743 AGAGAGAATG
* *
30133753 ATGATTGAGGG
1 ATGATTGAAGA
30133764 ATGATTGAAGA
1 ATGATTGAAGA
** *
30133775 ATGATTGTGGG
1 ATGATTGAAGA
30133786 ATGATTGAAGA
1 ATGATTGAAGA
30133797 ATGA
1 ATGA
30133801 ATGAGAGGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (11 bp):
ATGATTGAAGA
Found at i:30138989 original size:27 final size:27
Alignment explanation
Indices: 30138959--30139055 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
30138949 TATAATGGTC
* *
30138959 ATTTTACCCTATAGGGGTATTTCGATA
1 ATTTTACCCTATCGGGGTATTTCGGTA
* * *
30138986 ATTTTACAC-ATCGAGAGTATTTCGGTT
1 ATTTTACCCTATCG-GGGTATTTCGGTA
* *
30139013 ATTTTACCCT-TCGGGGATATTTTGGTC
1 ATTTTACCCTATCGGGG-TATTTCGGTA
30139040 ATTTTACCCTA-CGGGG
1 ATTTTACCCTATCGGGG
30139056 GTCTCAGTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
26 5 0.09
27 52 0.91
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATCGGGGTATTTCGGTA
Found at i:30140102 original size:7 final size:7
Alignment explanation
Indices: 30140064--30140096 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
30140054 ATAGAAGAAT
*
30140064 AGAGGGA
1 AGAGAGA
30140071 AGAGAGA
1 AGAGAGA
30140078 AGAGAGA
1 AGAGAGA
30140085 AGAGAGA
1 AGAGAGA
30140092 AGAGA
1 AGAGA
30140097 AGAGAGGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (7 bp):
AGAGAGA
Found at i:30142146 original size:21 final size:21
Alignment explanation
Indices: 30142122--30142229 Score: 87
Period size: 21 Copynumber: 5.1 Consensus size: 21
30142112 GTGAAAAAAT
*
30142122 GCTCATAAGATCTGAACAGAA
1 GCTCATAAGAGCTGAACAGAA
* *
30142143 GCTCGA-AAGAGCTGAATATAA
1 GCTC-ATAAGAGCTGAACAGAA
*
30142164 GCTCATAAGAGCTGAACAGAT
1 GCTCATAAGAGCTGAACAGAA
* * *
30142185 GCTCGA-AAAAGCTTATCA-AA
1 GCTC-ATAAGAGCTGAACAGAA
* *
30142205 TGCTCATAAGAGTTTAACAGAA
1 -GCTCATAAGAGCTGAACAGAA
30142227 GCT
1 GCT
30142230 TAAAAGAGTC
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
20 3 0.04
21 61 0.90
22 4 0.06
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (21 bp):
GCTCATAAGAGCTGAACAGAA
Found at i:30142181 original size:42 final size:42
Alignment explanation
Indices: 30142118--30142229 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
30142108 AATCGTGAAA
* *
30142118 AAATGCTCATAAGATCTGAACAGAAGCTCGAAAGAGCTGAAT-
1 AAATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGCT-AATC
* *
30142160 ATAA-GCTCATAAGAGCTGAACAGATGCTCGAAAAAGCTTATC
1 A-AATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGCTAATC
* *
30142202 AAATGCTCATAAGAGTTTAACAGAAGCT
1 AAATGCTCATAAGAGCTGAACAGAAGCT
30142230 TAAAAGAGTC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.07
42 54 0.90
43 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (42 bp):
AAATGCTCATAAGAGCTGAACAGAAGCTCGAAAAAGCTAATC
Found at i:30155461 original size:27 final size:27
Alignment explanation
Indices: 30155422--30155508 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
30155412 TTTCATCTCC
30155422 TAATTTTACCCTTCGAGGGTATTACAGA
1 TAATTTTACCCTTCGAGGGTATTAC-GA
*
30155450 -AATTTTACCCTTCGAGGGTATTTCGA
1 TAATTTTACCCTTCGAGGGTATTACGA
* * *
30155476 TAATTTTATCCTTC-AGGGGTATTTCAA
1 TAATTTTACCCTTCGA-GGGTATTACGA
30155503 TAATTT
1 TAATTT
30155509 AACAACCTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.41
Consensus pattern (27 bp):
TAATTTTACCCTTCGAGGGTATTACGA
Found at i:30157038 original size:25 final size:25
Alignment explanation
Indices: 30157004--30157057 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
30156994 TAAACCTCTG
30157004 ACCTCCTTACCACACATGTGACACC
1 ACCTCCTTACCACACATGTGACACC
* * *
30157029 ACCTCCTTACCACACCTGTGTCGCC
1 ACCTCCTTACCACACATGTGACACC
30157054 ACCT
1 ACCT
30157058 TGCCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.46, G:0.09, T:0.22
Consensus pattern (25 bp):
ACCTCCTTACCACACATGTGACACC
Found at i:30165453 original size:50 final size:50
Alignment explanation
Indices: 30165373--30165552 Score: 218
Period size: 51 Copynumber: 3.6 Consensus size: 50
30165363 AGTTGCTAGA
*
30165373 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGAATAGG
* * * ** * *
30165423 TCACATGTGTAGTACTACGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GAATAGG
* * * *
30165474 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGTATCGGATGAAAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAATA-GG
30165525 TCACATGTGTAGTACTATGTGCAGGCTA
1 TCACATGTGTAGTACTATGTGCAGGCTA
30165553 ATAAGTGAAC
Statistics
Matches: 108, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.36
51 67 0.62
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAATAGG
Found at i:30169285 original size:32 final size:35
Alignment explanation
Indices: 30169225--30169291 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 35
30169215 TTATTTTTTT
*
30169225 AATATTATATTTTTAATTGAAATAATTAAA-ATAA
1 AATAATATATTTTTAATTGAAATAATTAAATATAA
* *
30169259 AATAATAT-TTTTTATTTG-AATTATTAAATATAA
1 AATAATATATTTTTAATTGAAATAATTAAATATAA
30169292 TTAAAATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 9 0.31
33 13 0.45
34 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (35 bp):
AATAATATATTTTTAATTGAAATAATTAAATATAA
Found at i:30173710 original size:32 final size:32
Alignment explanation
Indices: 30173674--30173737 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
30173664 AATATTATAA
30173674 TGTGGTTAGATAATATATATTTTATATATCAT
1 TGTGGTTAGATAATATATATTTTATATATCAT
30173706 TGTGGTTAGATAATATATATTTTATATATCAT
1 TGTGGTTAGATAATATATATTTTATATATCAT
30173738 ACCACAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.50
Consensus pattern (32 bp):
TGTGGTTAGATAATATATATTTTATATATCAT
Found at i:30176491 original size:50 final size:49
Alignment explanation
Indices: 30176369--30176605 Score: 289
Period size: 50 Copynumber: 4.8 Consensus size: 49
30176359 TCACATATCG
* * * *
30176369 GTGCCGATGCCATGTCCTAAACATGGTCTTACACTGGCACTCATC-TC-
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCT
* * * * * * *
30176416 GAGCCAATGCCATATCCCAGACATGGTCTTACACTAACTCTTCTCTGTCC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTCT
* *
30176466 GTGCCGATGCCATGTCCCAGGCATGGTCTTACACTAGCACTCCTCAATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTC-GTCT
* *
30176516 GTACCGATGCCATGTCCTAGACATGGTCTTACACTAGCACTCCTCGATCT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCG-TCT
*
30176566 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCAC
30176606 ACTTACTGCC
Statistics
Matches: 159, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
47 35 0.22
49 2 0.01
50 122 0.77
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.27
Consensus pattern (49 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCCTCGTCT
Found at i:30176674 original size:43 final size:44
Alignment explanation
Indices: 30176626--30176717 Score: 150
Period size: 43 Copynumber: 2.1 Consensus size: 44
30176616 ATGGTCCAAC
* *
30176626 CATGGTCTTTTCCGTCAATTCTTTCTTAATTGCCAT-TTATAAA
1 CATGGTATTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
30176669 CATGGTATTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
1 CATGGTATTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
*
30176713 AATGG
1 CATGG
30176718 ACCTTGAGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 34 0.76
44 11 0.24
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (44 bp):
CATGGTATTTTCCGTCAATTCTTCCTTAATTGCCATGTTATAAA
Found at i:30178292 original size:45 final size:43
Alignment explanation
Indices: 30178206--30178292 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 43
30178196 ATTGTAAATT
* * *** *
30178206 AAAATATAATTATTTTTAAATGTGTAATTATTGCAACTTCTAA
1 AAAATATAATTATTTTAAAATGTATAATTATCAAAAATTCTAA
30178249 AAAATTATAATTATTTTCAAAATGTATAATTATCAAAAATTCTA
1 AAAA-TATAATTATTTT-AAAATGTATAATTATCAAAAATTCTA
30178293 TTTTACTTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 4 0.11
44 12 0.33
45 20 0.56
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (43 bp):
AAAATATAATTATTTTAAAATGTATAATTATCAAAAATTCTAA
Found at i:30180258 original size:4 final size:4
Alignment explanation
Indices: 30180249--30180281 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
30180239 ACTTCATGAA
30180249 TTAT TTAT TTAT TTAT TTAT TTAT TTA- TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
30180282 TTGACATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:30184088 original size:41 final size:40
Alignment explanation
Indices: 30184020--30184142 Score: 138
Period size: 42 Copynumber: 3.0 Consensus size: 40
30184010 GTAATCACAT
* * * *
30184020 ATCGATGCCACTGTCCCAGATAGGGTCTTACACGAAACAA
1 ATCGATGCCAATGTCTCAGACATGGTCTTACACGAAACAA
* *
30184060 ATACGATGCCAATGTTTCAGACATGGTCTTACGCGTAACACAA
1 AT-CGATGCCAATGTCTCAGACATGGTCTTACACG-AA-ACAA
* *
30184103 GTCGATGCCAATGTCTCAGACGTGGTCTTACACGATAACA
1 ATCGATGCCAATGTCTCAGACATGGTCTTACACGA-AACA
30184143 TATATCGTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 2 0.03
41 30 0.43
42 32 0.46
43 5 0.07
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (40 bp):
ATCGATGCCAATGTCTCAGACATGGTCTTACACGAAACAA
Found at i:30186629 original size:9 final size:9
Alignment explanation
Indices: 30186617--30186642 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30186607 TCAAGAAACC
30186617 AAATCTTGG
1 AAATCTTGG
30186626 AAATCTTGG
1 AAATCTTGG
30186635 AAATCTTG
1 AAATCTTG
30186643 CAGCTAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (9 bp):
AAATCTTGG
Found at i:30192207 original size:23 final size:23
Alignment explanation
Indices: 30192164--30192207 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
30192154 GCATTCTCTT
**
30192164 AAAATCACAAAAGTTGTATAAAA
1 AAAATCACAAAAGGAGTATAAAA
30192187 AAAATTCACAAAAGGAG-ATAA
1 AAAA-TCACAAAAGGAGTATAA
30192208 TAAGATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAATCACAAAAGGAGTATAAAA
Found at i:30199875 original size:62 final size:62
Alignment explanation
Indices: 30199778--30199901 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
30199768 TTGACGGGCC
*
30199778 ATGTTTTGTTTGCATTACCTTACTTGTCATCTACAAATCATAAGTATGTTATCTATTTTCCT
1 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
30199840 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
1 ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
30199902 CAACTTTATC
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (62 bp):
ATGTTTTGTTTGCATTACCTTACTTGTAATCTACAAATCATAAGTATGTTATCTATTTTCCT
Found at i:30213866 original size:83 final size:83
Alignment explanation
Indices: 30213718--30213886 Score: 250
Period size: 83 Copynumber: 2.0 Consensus size: 83
30213708 AATTAATATA
* * * *
30213718 AAGCCTAAAAGAGAAAGTAGCCCAGTGTGCTAAGCATTGAAGACTGATCCAATAAGCAAATTGGC
1 AAGCCTAAAAGAGAAAGTAGCCCAGTGTGCTAAGCATTAAAGACTGATCCAACAAGAAAACTGGC
30213783 AACCCAAAACCATCCAAC
66 AACCCAAAACCATCCAAC
* * *
30213801 AAGCCTGAAATAGAAAGT-GACCCAGTGTGCTAAGCATTAAAGACTGATCTAACAAGAAAACTGG
1 AAGCCTAAAAGAGAAAGTAG-CCCAGTGTGCTAAGCATTAAAGACTGATCCAACAAGAAAACTGG
*
30213865 CAGCCCAAAACCATCCAAC
65 CAACCCAAAACCATCCAAC
30213884 AAG
1 AAG
30213887 TTGGCCCAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 1 0.01
83 76 0.99
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.15
Consensus pattern (83 bp):
AAGCCTAAAAGAGAAAGTAGCCCAGTGTGCTAAGCATTAAAGACTGATCCAACAAGAAAACTGGC
AACCCAAAACCATCCAAC
Found at i:30215220 original size:15 final size:15
Alignment explanation
Indices: 30215200--30215232 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
30215190 TTGATAACGG
30215200 TTGTCACTTTATTAC
1 TTGTCACTTTATTAC
30215215 TTGTCACTTTATTAC
1 TTGTCACTTTATTAC
30215230 TTG
1 TTG
30215233 ATAATGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.55
Consensus pattern (15 bp):
TTGTCACTTTATTAC
Found at i:30215226 original size:40 final size:40
Alignment explanation
Indices: 30215171--30215257 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
30215161 AACTCGTCAT
30215171 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
1 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
*
30215211 TTACTTGTCACTTTATTACTTGATAATGGTTGTCACTTTA
1 TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
30215251 TTACTTG
1 TTACTTG
30215258 ATAACGGTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (40 bp):
TTACTTGTCACTTTATTACTTGATAACGGTTGTCACTTTA
Found at i:30215243 original size:25 final size:25
Alignment explanation
Indices: 30215215--30215268 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
30215205 ACTTTATTAC
*
30215215 TTGTCACTTTATTACTTGATAATGG
1 TTGTCACTTTATTACTTGATAACGG
30215240 TTGTCACTTTATTACTTGATAACGG
1 TTGTCACTTTATTACTTGATAACGG
30215265 TTGT
1 TTGT
30215269 GTACACTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (25 bp):
TTGTCACTTTATTACTTGATAACGG
Found at i:30219573 original size:51 final size:51
Alignment explanation
Indices: 30219493--30219683 Score: 228
Period size: 51 Copynumber: 3.8 Consensus size: 51
30219483 TACCTATAAA
*
30219493 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-GATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA-AGGAT-ATGGT
* * * * *
30219544 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
* * * *
30219595 CACGTGTGTAGTACTATGTGCAGGCTACTACGTG-ATCTGAA-AAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGA-TATGGT
*
30219645 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCG
30219684 AATGATAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
50 43 0.36
51 74 0.61
52 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAGGATATGGT
Found at i:30225168 original size:27 final size:27
Alignment explanation
Indices: 30225134--30225307 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
30225124 TAAATTGTAC
30225134 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30225161 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
30225187 ATGCACTAAGTGTGAGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30225215 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30225243 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30225270 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30225297 AGCACTGAGTG
1 AGCACTAAGTG
30225308 AGCGGACTCA
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30225302 original size:82 final size:81
Alignment explanation
Indices: 30225131--30225282 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 81
30225121 GAGTAAATTG
* *
30225131 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30225196 GTGTGAGAATTGACCA
66 GTGTGAGAATTGACCA
* * ** *
30225212 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
30225276 AAGTGTG
64 AAGTGTG
30225283 CGAGTTGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 18 0.29
82 44 0.71
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGAGAATTGACCA
Found at i:30233058 original size:51 final size:50
Alignment explanation
Indices: 30232928--30233112 Score: 178
Period size: 51 Copynumber: 3.7 Consensus size: 50
30232918 AAAGTGATGG
* * * *
30232928 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGGAT-G-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGATAGTAT-GA
* * * *
30232978 CCGCATGTGTAGTACTATGTGCAGTCTACTATGCGTGCCGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GA
* * * * * *
30233029 TCACGTGTGTAGTACTATGAGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGA
30233080 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
30233113 TGAACCGATA
Statistics
Matches: 108, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 69 0.64
52 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGA
Found at i:30233182 original size:33 final size:33
Alignment explanation
Indices: 30233140--30233267 Score: 148
Period size: 33 Copynumber: 3.6 Consensus size: 33
30233130 ATATAAAAGG
30233140 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
30233173 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
30233215 GGTTGCTAAGTGCTGATTCTCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
30233248 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
30233268 ACCGTATCAT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
33 41 0.51
34 3 0.04
35 1 0.01
36 1 0.01
37 4 0.05
38 4 0.05
39 1 0.01
40 1 0.01
41 3 0.04
42 21 0.26
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:30233261 original size:75 final size:76
Alignment explanation
Indices: 30233135--30233347 Score: 320
Period size: 75 Copynumber: 2.8 Consensus size: 76
30233125 TTTGAATATA
30233135 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
*
30233200 -TTTAAATGTG
66 CATTAAATGTG
* *
30233210 AAGGGGGTTGCTAAGTGCTGATTCTCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
* *
30233275 CATTGACTGTG
66 CATTAAATGTG
* * * * * *
30233286 AAAGGGGTTGCTAAGTGTTGATTCCCCGAATCACTAGTGGTTGCTAAGTGCTAAATCCACCG
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
30233348 ATAACGGATA
Statistics
Matches: 124, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 63 0.51
76 61 0.49
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (76 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
CATTAAATGTG
Found at i:30254863 original size:27 final size:26
Alignment explanation
Indices: 30254833--30254889 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
30254823 GTTTTTCCAT
*
30254833 AAAGGCATTCCTTTCATATTACACCGC
1 AAAGGC-TTCCTTTCATATTACACCAC
** *
30254860 AAAGGCTTTTTTTCGTATTACACCAC
1 AAAGGCTTCCTTTCATATTACACCAC
30254886 AAAG
1 AAAG
30254890 AATTTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (26 bp):
AAAGGCTTCCTTTCATATTACACCAC
Found at i:30254938 original size:27 final size:27
Alignment explanation
Indices: 30254833--30254933 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 27
30254823 GTTTTTCCAT
* * *
30254833 AAAGGCATTCCTTTCATATTACACCGC
1 AAAGGCTTTTCTTTCATATTACACCAC
*
30254860 AAAGGCTTTT-TTTCGTATTACACCAC
1 AAAGGCTTTTCTTTCATATTACACCAC
** * ** *
30254886 AAAGAATTTTATTTTGTATTACGCCAC
1 AAAGGCTTTTCTTTCATATTACACCAC
30254913 AAAGGCTTTTCTTTCATATTA
1 AAAGGCTTTTCTTTCATATTA
30254934 TGCCATAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 22 0.37
27 38 0.63
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.39
Consensus pattern (27 bp):
AAAGGCTTTTCTTTCATATTACACCAC
Found at i:30256746 original size:109 final size:109
Alignment explanation
Indices: 30256550--30256768 Score: 411
Period size: 109 Copynumber: 2.0 Consensus size: 109
30256540 ACAAATAAGT
* *
30256550 AATTCAACTAGTAAAGTGAAAACATATGAAGTGACATTAAAGTAATGAGTGAATATAACGAATGG
1 AATTAAACTAGTAAAGTGAAAACATACGAAGTGACATTAAAGTAATGAGTGAATATAACGAATGG
30256615 AAGTGAATATGAGTAAATTCCATGAATAAGTTATAAAGTGTACA
66 AAGTGAATATGAGTAAATTCCATGAATAAGTTATAAAGTGTACA
*
30256659 AATTAAACTAGTAAAGTGAAAACATACGAAGTGACATTAAAGTAATGAGTGAATATACCGAATGG
1 AATTAAACTAGTAAAGTGAAAACATACGAAGTGACATTAAAGTAATGAGTGAATATAACGAATGG
30256724 AAGTGAATATGAGTAAATTCCATGAATAAGTTATAAAGTGTACA
66 AAGTGAATATGAGTAAATTCCATGAATAAGTTATAAAGTGTACA
30256768 A
1 A
30256769 TTTTCACAAC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (109 bp):
AATTAAACTAGTAAAGTGAAAACATACGAAGTGACATTAAAGTAATGAGTGAATATAACGAATGG
AAGTGAATATGAGTAAATTCCATGAATAAGTTATAAAGTGTACA
Found at i:30262629 original size:17 final size:17
Alignment explanation
Indices: 30262609--30262656 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
30262599 AAAATGACCC
30262609 CACAAAAAAATTGA-TCT
1 CACAAAAAAATTGACT-T
30262626 CACAAAAAAATTGACTT
1 CACAAAAAAATTGACTT
*
30262643 CATAAAAAAATTGA
1 CACAAAAAAATTGA
30262657 AAATGATCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 28 0.97
18 1 0.03
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.23
Consensus pattern (17 bp):
CACAAAAAAATTGACTT
Found at i:30264908 original size:28 final size:28
Alignment explanation
Indices: 30264845--30264967 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
30264835 ATATTAAGTC
*
30264845 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30264872 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30264900 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30264928 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30264957 CGCACACTTAG
1 CGCACACTTAG
30264968 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.25
28 48 0.56
29 16 0.19
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30273194 original size:28 final size:28
Alignment explanation
Indices: 30273135--30273256 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
30273125 ATATTAAGTC
*
30273135 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
30273162 -GCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
30273189 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
30273217 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
30273246 CGCACACTTAG
1 CGCACACTTAG
30273257 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 21 0.25
27 4 0.05
28 44 0.52
29 16 0.19
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:30273203 original size:54 final size:57
Alignment explanation
Indices: 30273134--30273256 Score: 171
Period size: 54 Copynumber: 2.2 Consensus size: 57
30273124 TATATTAAGT
* * *
30273134 CCGCACACTCAGTGCTATATAATC-AACT-GCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
* * *
30273188 TCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
30273245 CCGCACACTTAG
1 CCGCACACTTAG
30273257 CGCCAATCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 21 0.36
55 4 0.07
56 18 0.31
57 16 0.27
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATACAATTCAAAC
Found at i:30277759 original size:30 final size:28
Alignment explanation
Indices: 30277673--30277797 Score: 153
Period size: 28 Copynumber: 4.4 Consensus size: 28
30277663 AGATGTGGCG
* * * *
30277673 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
30277702 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
30277730 CTAAGTGTGCGAGTTTGATATTATATAGCA
1 CTAAGTGTGCGAGTTTG--ATTATATAGCA
*
30277760 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
30277787 CTGAGTGTGCG
1 CTAAGTGTGCG
30277798 GACTTAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
27 20 0.24
28 25 0.29
29 18 0.21
30 22 0.26
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:30277777 original size:57 final size:57
Alignment explanation
Indices: 30277673--30277797 Score: 171
Period size: 57 Copynumber: 2.2 Consensus size: 57
30277663 AGATGTGGCG
* * * *
30277673 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
* *
30277730 CTAAGTGTGCGAGTTTGATATTATATAGCACTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTT-AAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
*
30277787 CTGAGTGTGCG
1 CTAAGTGTGCG
30277798 GACTTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 38 0.63
58 22 0.37
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (57 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCAAGTTTGATTATATAGCA
Found at i:30277808 original size:27 final size:27
Alignment explanation
Indices: 30277698--30277810 Score: 84
Period size: 27 Copynumber: 4.0 Consensus size: 27
30277688 TAAATTGTAC
** * *
30277698 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
**
30277726 AGCACTAAGTGTGCGAGTTTGATATTATAT
1 AGCACTAAGTGTGC-AACTTGA-A-TATAT
* *
30277756 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
30277783 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
30277810 A
1 A
30277811 CTTTTGAATC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
27 25 0.34
28 25 0.34
29 5 0.07
30 18 0.25
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:30286728 original size:27 final size:27
Alignment explanation
Indices: 30286688--30286863 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30286678 GTATTGAGTC
* * *
30286688 CGCACAC--AGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30286713 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30286740 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30286768 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30286795 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30286822 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30286849 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30286864 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
25 7 0.05
27 98 0.76
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30286832 original size:82 final size:81
Alignment explanation
Indices: 30286707--30286862 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30286697 TGCTATATAA
* *
30286707 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30286772 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30286789 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30286853 CACTTAGTGC
65 CACTTAGTGC
30286863 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30294898 original size:27 final size:27
Alignment explanation
Indices: 30294868--30295045 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30294858 ATATTGAGTC
* * * *
30294868 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30294895 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30294922 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30294950 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30294977 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30295004 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30295031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30295046 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30295007 original size:82 final size:81
Alignment explanation
Indices: 30294889--30295044 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30294879 TGCTATATAA
* *
30294889 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30294954 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30294971 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30295035 CACTTAGTGC
65 CACTTAGTGC
30295045 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30299009 original size:25 final size:25
Alignment explanation
Indices: 30298964--30299011 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
30298954 GAATCTTTAC
*
30298964 TATTTATTGTGTCATTTTATTTATT
1 TATTTATTGTATCATTTTATTTATT
*
30298989 TATTTATT-TATCCTTTCTATTTA
1 TATTTATTGTATCATTT-TATTTA
30299012 ATTAGGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.21, C:0.08, G:0.04, T:0.67
Consensus pattern (25 bp):
TATTTATTGTATCATTTTATTTATT
Found at i:30303470 original size:23 final size:23
Alignment explanation
Indices: 30303428--30303493 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
30303418 TAGGAGTTAA
* *
30303428 AAAAGAATAAATT-GTAATTTTT
1 AAAAGAGTAAATTAATAATTTTT
* *
30303450 ATAATAGTAAATTAATAATTTTT
1 AAAAGAGTAAATTAATAATTTTT
*
30303473 AAAAGATTAAATTAA-AATTTT
1 AAAAGAGTAAATTAATAATTTT
30303494 ATCATTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 16 0.44
23 20 0.56
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
AAAAGAGTAAATTAATAATTTTT
Found at i:30303698 original size:14 final size:15
Alignment explanation
Indices: 30303679--30303708 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30303669 CTTAAACCAG
30303679 ATTTTT-AAATTTTT
1 ATTTTTAAAATTTTT
30303693 ATTTTTAAAATTTTT
1 ATTTTTAAAATTTTT
30303708 A
1 A
30303709 AAATTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTTAAAATTTTT
Found at i:30306800 original size:26 final size:26
Alignment explanation
Indices: 30306754--30306806 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
30306744 CTGATCAAAA
* *
30306754 AGGGGTTTCTAAGTGCAGATTCTCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
**
30306780 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCTAAGTGCAGATTCCCCG
30306806 A
1 A
30306807 ATTATTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCAGATTCCCCG
Found at i:30306823 original size:67 final size:68
Alignment explanation
Indices: 30306713--30306843 Score: 162
Period size: 67 Copynumber: 1.9 Consensus size: 68
30306703 ATTGAATGTA
*
30306713 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGG-GGTTTCTAAGTGCAGATTCT
1 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCAGATTCT
30306777 CCG
66 CCG
** * *
30306780 AGGGGTTGCTAAGTGTTGATTCCCCGAATTA-T-TGATTC-TAAAGGTGGTTGCTAAGTGCTGAT
1 AGGGGTTGCTAAGTGCAGATTCCCCGAA--ACTCTGA-TCAAAAAGGTGGTTGCTAAGTGCAGAT
30306842 TC
63 TC
30306844 CACCGTATCC
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
67 34 0.62
68 20 0.36
69 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (68 bp):
AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCAGATTCT
CCG
Found at i:30306830 original size:42 final size:43
Alignment explanation
Indices: 30306783--30306933 Score: 148
Period size: 42 Copynumber: 3.6 Consensus size: 43
30306773 TTCTCCGAGG
* * *
30306783 GGTTGCTAAGTGTTGATTCC-CCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
* * *
30306825 GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTAT-AAAGGT
* * * * * * *
30306868 GGTTGTTATGTGATCATTCC-CCGTATCACTGAATAT-AAGGT
1 GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
30306909 GGTTGCTAAGTGCTGATTCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
30306934 GTAACGGTTA
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
40 4 0.05
41 16 0.18
42 34 0.39
43 28 0.32
44 5 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCGAATCATTGATTATAAAGGT
Found at i:30320620 original size:23 final size:21
Alignment explanation
Indices: 30320588--30320638 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
30320578 TATATTTTAA
*
30320588 TAATTTATTAA-TAAAATTGAGTT
1 TAATTAATTAAGT-AAATTGA--T
30320611 TAATTAATTAAGTAAATTGAT
1 TAATTAATTAAGTAAATTGAT
30320632 TAATTAA
1 TAATTAA
30320639 AGTGGTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (21 bp):
TAATTAATTAAGTAAATTGAT
Found at i:30321051 original size:7 final size:7
Alignment explanation
Indices: 30321039--30321080 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
30321029 ATTTTTTAAG
30321039 CATCCCT
1 CATCCCT
30321046 CATCCCT
1 CATCCCT
30321053 CATCCCT
1 CATCCCT
30321060 CATCCTTCT
1 CATCC--CT
*
30321069 CATCTCT
1 CATCCCT
30321076 CATCC
1 CATCC
30321081 TCTCTCTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 25 0.81
9 6 0.19
ACGTcount: A:0.14, C:0.52, G:0.00, T:0.33
Consensus pattern (7 bp):
CATCCCT
Found at i:30321058 original size:14 final size:15
Alignment explanation
Indices: 30321039--30321084 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 15
30321029 ATTTTTTAAG
30321039 CATCCCTCATCC-CT
1 CATCCCTCATCCTCT
30321053 CATCCCTCATCCTTCT
1 CATCCCTCATCC-TCT
*
30321069 CATCTCTCATCCTCT
1 CATCCCTCATCCTCT
30321084 C
1 C
30321085 TCTCAACTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 12 0.41
15 4 0.14
16 13 0.45
ACGTcount: A:0.13, C:0.52, G:0.00, T:0.35
Consensus pattern (15 bp):
CATCCCTCATCCTCT
Found at i:30325638 original size:6 final size:6
Alignment explanation
Indices: 30325627--30325652 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30325617 GTAAATAAAT
30325627 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
30325653 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:30353475 original size:30 final size:30
Alignment explanation
Indices: 30353439--30353496 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
30353429 CATGTTGGCA
*
30353439 GTTATCTACTGGCCCTTCGGGGTGACACTG
1 GTTATCTACTAGCCCTTCGGGGTGACACTG
* *
30353469 GTTATCTACTAGTCCTTTGGGGTGACAC
1 GTTATCTACTAGCCCTTCGGGGTGACAC
30353497 CATGTTGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.33
Consensus pattern (30 bp):
GTTATCTACTAGCCCTTCGGGGTGACACTG
Found at i:30353607 original size:35 final size:36
Alignment explanation
Indices: 30353526--30353607 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 36
30353516 TAGTCTTTCA
* * **
30353526 GGGTGACACTGTGTAAATGGTATATAAAGGTCTTTTG
1 GGGTGACACCGTGTAAATGG-ATATAAAGGTCCTACG
** *
30353563 GGGCAACACCGTGTAAATGG-TATACAGGTCCTACG
1 GGGTGACACCGTGTAAATGGATATAAAGGTCCTACG
30353598 GGGTGACACC
1 GGGTGACACC
30353608 TCAAAAAGGG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
35 19 0.53
37 17 0.47
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (36 bp):
GGGTGACACCGTGTAAATGGATATAAAGGTCCTACG
Found at i:30360195 original size:16 final size:16
Alignment explanation
Indices: 30360174--30360206 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30360164 TTGAGTTGAG
30360174 AAAATT-ATTGAATTAA
1 AAAATTAATT-AATTAA
30360190 AAAATTAATTAATTAA
1 AAAATTAATTAATTAA
30360206 A
1 A
30360207 TAATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATTAATTAATTAA
Found at i:30366428 original size:17 final size:18
Alignment explanation
Indices: 30366397--30366432 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
30366387 GATATTCCCC
30366397 TTTCCCTTTCCAATCCCTA
1 TTTCCCTTT-CAATCCCTA
30366416 TTTCCCTTT-AATCCCTA
1 TTTCCCTTTCAATCCCTA
30366433 ATCCCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
19 9 0.53
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCCCTTTCAATCCCTA
Found at i:30375555 original size:4 final size:4
Alignment explanation
Indices: 30375546--30375573 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
30375536 TATTTTTATT
30375546 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
30375574 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:30377966 original size:17 final size:18
Alignment explanation
Indices: 30377929--30377966 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
30377919 GATTGAGAGT
* *
30377929 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
30377947 GAAAAGAAAT-TGAAAAA
1 GAAAAGAAATGTGAAAAA
30377964 GAA
1 GAA
30377967 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.63, C:0.03, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:30377979 original size:13 final size:12
Alignment explanation
Indices: 30377948--30378002 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
30377938 TGTGAAACAG
*
30377948 AAAAGAAATTGA
1 AAAAGAAGTTGA
30377960 AAAAGAAGTTGA
1 AAAAGAAGTTGA
*
30377972 AGAAAGAAG-AGA
1 A-AAAGAAGTTGA
*
30377984 AAATG-AGTTAGA
1 AAAAGAAGTT-GA
30377996 AAAAGAA
1 AAAAGAA
30378003 ACAAAAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 21 0.62
13 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.13
Consensus pattern (12 bp):
AAAAGAAGTTGA
Found at i:30381418 original size:20 final size:20
Alignment explanation
Indices: 30381353--30381418 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
30381343 AGAATAAATC
30381353 ATTTTATCTTTTAGTAGTTT
1 ATTTTATCTTTTAGTAGTTT
** * * *
30381373 ATTAGATATTCTAGGAATATTTT
1 ATTTTATCTTTTA-G--TAGTTT
30381396 ATTTTATCTTTTAGTAGTTT
1 ATTTTATCTTTTAGTAGTTT
30381416 ATT
1 ATT
30381419 AGAATAAGGG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 17 0.52
21 1 0.03
22 1 0.03
23 14 0.42
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.59
Consensus pattern (20 bp):
ATTTTATCTTTTAGTAGTTT
Found at i:30381483 original size:16 final size:16
Alignment explanation
Indices: 30381462--30381496 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
30381452 GACTATTTTC
30381462 TCTATTTAAATTCAGT
1 TCTATTTAAATTCAGT
30381478 TCTATTTAAATTCAGT
1 TCTATTTAAATTCAGT
30381494 TCT
1 TCT
30381497 TTAATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (16 bp):
TCTATTTAAATTCAGT
Found at i:30389639 original size:22 final size:22
Alignment explanation
Indices: 30389614--30389656 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
30389604 TTACAAAATT
30389614 TAAAAAA-TTAAATTCTTAAAAA
1 TAAAAAATTTAAATT-TTAAAAA
30389636 TAAAAAATTTAAATTTTAAAA
1 TAAAAAATTTAAATTTTAAAA
30389657 TTTTAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAAAATTTAAATTTTAAAAA
Found at i:30390114 original size:16 final size:16
Alignment explanation
Indices: 30390092--30390133 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30390082 TTTTTGTATT
30390092 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
* *
30390108 TTTTTAAAATTAAATA
1 ATTTTAATATTAAATA
*
30390124 ATATTAATAT
1 ATTTTAATAT
30390134 AACTTATTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:30396725 original size:24 final size:24
Alignment explanation
Indices: 30396698--30396751 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
30396688 AAAAGCCTAC
30396698 AACGGGTAGCTCCAAAGAGCACTT
1 AACGGGTAGCTCCAAAGAGCACTT
* *
30396722 AACGGGTAGCTTCGAAGAGCACTT
1 AACGGGTAGCTCCAAAGAGCACTT
30396746 AACGGG
1 AACGGG
30396752 AAGCACCGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (24 bp):
AACGGGTAGCTCCAAAGAGCACTT
Found at i:30413100 original size:50 final size:50
Alignment explanation
Indices: 30412975--30413321 Score: 347
Period size: 50 Copynumber: 6.8 Consensus size: 50
30412965 ATTTGGGTAA
* * * *
30412975 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATAGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * * *
30413031 AGAGGTTCGATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
30413081 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
30413131 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
30413181 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGAACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * *
30413231 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
30413280 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30413322 TGTTATATTC
Statistics
Matches: 247, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
49 36 0.15
50 172 0.70
53 3 0.01
55 1 0.00
56 35 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:30413208 original size:150 final size:152
Alignment explanation
Indices: 30412973--30413322 Score: 386
Period size: 150 Copynumber: 2.3 Consensus size: 152
30412963 ACATTTGGGT
* * *
30412973 AAAGAGATCCCATGTAAGACCATGTATGGGACATGGCATAGGCATCATTGAGATTATGAGAGGTT
1 AAAGAG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCA-TGAG--TATGAGAGGTC
* * * * * * ** *
30413038 CGATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATG
62 CCACGTAAGACCATGTCTGGGACATGGCATGGGAACCGAGATGAGAACTCCCATGTAAGACCATA
* * *
30413103 TCTGGGACATGGCGTTGGCA-CCGAG
127 TCTGGGACATGGCATTGGCAGACAAG
30413128 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C-TGAG-ATGAGAGGTCCC
1 A-AAGA-GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGTATGAGAGGTCCC
* * * *
30413190 CCGTAAGACCATGTCTGGGACATGGCATGGGAACCTATATGAGAACTCTCATGTAAGACCATATC
64 ACGTAAGACCATGTCTGGGACATGGCATGGGAACCGAGATGAGAACTCCCATGTAAGACCATATC
*
30413255 TGGGATATGGCATTGGCAGTACAAG
129 TGGGACATGGCATTGGCAG-ACAAG
* * * *
30413280 AAACA-TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCAT
1 AAAGAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
30413323 GTTATATTCA
Statistics
Matches: 166, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
149 34 0.20
150 79 0.48
151 3 0.02
152 4 0.02
153 4 0.02
155 2 0.01
156 39 0.23
157 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (152 bp):
AAAGAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATGAGTATGAGAGGTCCCAC
GTAAGACCATGTCTGGGACATGGCATGGGAACCGAGATGAGAACTCCCATGTAAGACCATATCTG
GGACATGGCATTGGCAGACAAG
Found at i:30426712 original size:13 final size:12
Alignment explanation
Indices: 30426694--30426761 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 12
30426684 ATTTTCTTGT
30426694 TTTTCTTTTCAC
1 TTTTCTTTTCAC
30426706 ATTTTCTTTTCAC
1 -TTTTCTTTTCAC
30426719 -TTTCTTTTTCTAC
1 TTTTC-TTTTC-AC
*
30426732 TTTTGTTTT--C
1 TTTTCTTTTCAC
*
30426742 -TTT-TTTTCAT
1 TTTTCTTTTCAC
30426752 TTTTCTTTTC
1 TTTTCTTTTC
30426762 TTTTTCACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
8 4 0.09
9 3 0.07
10 1 0.02
11 7 0.15
12 10 0.22
13 18 0.39
14 3 0.07
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.72
Consensus pattern (12 bp):
TTTTCTTTTCAC
Found at i:30426741 original size:19 final size:19
Alignment explanation
Indices: 30426719--30426784 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
30426709 TTCTTTTCAC
*
30426719 TTTCTTTTTCTACTTTTGT
1 TTTCTTTTTCTACTTTTCT
* *
30426738 TTTCTTTTTTTCATTTTTCT
1 TTTCTTTTTCT-ACTTTTCT
30426758 TTTCTTTTTC-ACTTCCTTCT
1 TTTCTTTTTCTACTT--TTCT
30426778 TTT-TTTT
1 TTTCTTTT
30426785 CCTTTTTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 14 0.36
20 22 0.56
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCTTTTTCTACTTTTCT
Found at i:30426746 original size:20 final size:20
Alignment explanation
Indices: 30426675--30426766 Score: 78
Period size: 22 Copynumber: 4.2 Consensus size: 20
30426665 CAATCAGGCC
30426675 TTTTTTCACATTTTCTTGTT-T
1 TTTTTTCAC-TTTTCTT-TTCT
30426696 TTCTTTTCACATTTTCTTTTCACTT
1 TT-TTTTCAC-TTTTCTTTT--C-T
*
30426721 TCTTTTTCTACTTTTGTTTTCT
1 T-TTTTTC-ACTTTTCTTTTCT
*
30426743 TTTTTTCATTTTTCTTTTCT
1 TTTTTTCACTTTTCTTTTCT
30426763 TTTT
1 TTTT
30426767 CACTTCCTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
20 15 0.25
21 10 0.16
22 17 0.28
23 1 0.02
25 15 0.25
26 3 0.05
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTCACTTTTCTTTTCT
Found at i:30431047 original size:29 final size:31
Alignment explanation
Indices: 30430996--30431053 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
30430986 TGAATTATTT
*
30430996 TTAAAAATTTGGTTGC-TCTTTTTGTAAACA
1 TTAAAAATTAGGTTGCTTCTTTTTGTAAACA
*
30431026 TTAAAAATTAGGTT-CTTTTTTTTGTAAA
1 TTAAAAATTAGGTTGCTTCTTTTTGTAAA
30431054 TATTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (31 bp):
TTAAAAATTAGGTTGCTTCTTTTTGTAAACA
Found at i:30431336 original size:12 final size:12
Alignment explanation
Indices: 30431319--30431348 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30431309 TTTAAGAACT
*
30431319 CTACTCTAGCTC
1 CTACTCTAGCGC
30431331 CTACTCTAGCGC
1 CTACTCTAGCGC
30431343 CTACTC
1 CTACTC
30431349 CTTTCACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.43, G:0.10, T:0.30
Consensus pattern (12 bp):
CTACTCTAGCGC
Found at i:30438670 original size:16 final size:16
Alignment explanation
Indices: 30438649--30438681 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30438639 AAGTTAGGTT
30438649 ATAACTCGATATCATC
1 ATAACTCGATATCATC
30438665 ATAACTCGATATCATC
1 ATAACTCGATATCATC
30438681 A
1 A
30438682 GGAGTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (16 bp):
ATAACTCGATATCATC
Found at i:30445775 original size:24 final size:24
Alignment explanation
Indices: 30445748--30445793 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
30445738 TTATTTCTGG
*
30445748 TTATTTTCTTTGTTT-TTTTTAAAT
1 TTATTTTATTT-TTTCTTTTTAAAT
30445772 TTATTTTATTTTTTCTTTTTAA
1 TTATTTTATTTTTTCTTTTTAA
30445794 GTCACATCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (24 bp):
TTATTTTATTTTTTCTTTTTAAAT
Found at i:30448982 original size:7 final size:7
Alignment explanation
Indices: 30448966--30448998 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
30448956 TTTAATTTTC
30448966 TTTT-AA
1 TTTTAAA
30448972 TTTTAAA
1 TTTTAAA
30448979 TTTTAAA
1 TTTTAAA
30448986 TTTTAAA
1 TTTTAAA
30448993 TTTTAA
1 TTTTAA
30448999 TTTAAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.15
7 22 0.85
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Found at i:30454136 original size:17 final size:18
Alignment explanation
Indices: 30454106--30454143 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
30454096 CCTAGTTAAT
30454106 TTTTATTTAGTTTTTA-G
1 TTTTATTTAGTTTTTATG
30454123 TTTTAGTTTA-TTTTTATG
1 TTTTA-TTTAGTTTTTATG
30454141 TTT
1 TTT
30454144 GCGCAGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.16, C:0.00, G:0.11, T:0.74
Consensus pattern (18 bp):
TTTTATTTAGTTTTTATG
Found at i:30454756 original size:18 final size:19
Alignment explanation
Indices: 30454725--30454761 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
30454715 TTCCATTAGG
30454725 TTAATTTAGGTTAATTAAT
1 TTAATTTAGGTTAATTAAT
*
30454744 TTAA-TTAGTTTAATTAAT
1 TTAATTTAGGTTAATTAAT
30454762 CCATTGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TTAATTTAGGTTAATTAAT
Found at i:30466656 original size:20 final size:21
Alignment explanation
Indices: 30466636--30466712 Score: 84
Period size: 21 Copynumber: 3.7 Consensus size: 21
30466626 ATACCAATAT
30466636 AAAAATATCGATACTTTTATA
1 AAAAATATCGATACTTTTATA
* **
30466657 AAAAAAATTAATACTTTTATAA
1 AAAAATATCGATACTTTTAT-A
* **
30466679 AAAAATATCGATACTCTT-GG
1 AAAAATATCGATACTTTTATA
30466699 AAAAATATCGATAC
1 AAAAATATCGATAC
30466713 CACTGGGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 14 0.30
21 17 0.37
22 15 0.33
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (21 bp):
AAAAATATCGATACTTTTATA
Found at i:30466692 original size:22 final size:22
Alignment explanation
Indices: 30466636--30466693 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
30466626 ATACCAATAT
30466636 AAAAATATCGATACTTTTATAA
1 AAAAATATCGATACTTTTATAA
**
30466658 AAAAA-ATTAATACTTTTATAA
1 AAAAATATCGATACTTTTATAA
30466679 AAAAATATCGATACT
1 AAAAATATCGATACT
30466694 CTTGGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (22 bp):
AAAAATATCGATACTTTTATAA
Found at i:30468894 original size:20 final size:20
Alignment explanation
Indices: 30468857--30468895 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30468847 AAATCAATTT
*
30468857 AAAATGATTTTAACCAAGTC
1 AAAATGATTTCAACCAAGTC
* *
30468877 AAAATTATTTCAATCAAGT
1 AAAATGATTTCAACCAAGT
30468896 TGAAGTCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
AAAATGATTTCAACCAAGTC
Found at i:30469371 original size:27 final size:27
Alignment explanation
Indices: 30469340--30469394 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
30469330 CCAACGACTC
30469340 TATTCATGACACCAACAACCTCAACGG
1 TATTCATGACACCAACAACCTCAACGG
*
30469367 TATTCATGACACCAGCAACCTCAACGG
1 TATTCATGACACCAACAACCTCAACGG
30469394 T
1 T
30469395 TGGAAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.33, G:0.13, T:0.20
Consensus pattern (27 bp):
TATTCATGACACCAACAACCTCAACGG
Found at i:30470288 original size:64 final size:64
Alignment explanation
Indices: 30470213--30470348 Score: 263
Period size: 64 Copynumber: 2.1 Consensus size: 64
30470203 GTAATGGTAT
30470213 ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
1 ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
*
30470277 ATAATAAGGGAGAGTTAAGTCATTGTACTATATTAGAATGACTCTATGATTAAATAAATTATAA
1 ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
30470341 ATAATAAG
1 ATAATAAG
30470349 TGAAGAGCCA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (64 bp):
ATAATAAGGGAGAGTTAAGTCATTGTAATATATTAGAATGACTCTATGATTAAATAAATTATAA
Found at i:30474112 original size:13 final size:12
Alignment explanation
Indices: 30474082--30474137 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
30474072 AATGTGAAAC
*
30474082 AAAAAGAAATTG
1 AAAAAGAAGTTG
30474094 AAAAAGAAGTTG
1 AAAAAGAAGTTG
*
30474106 AAGAAAGAAG-AG
1 AA-AAAGAAGTTG
*
30474118 AAAATG-AGTTAG
1 AAAAAGAAGTT-G
30474130 AAAAAGAA
1 AAAAAGAA
30474138 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 22 0.63
13 8 0.23
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAGTTG
Found at i:30479443 original size:24 final size:25
Alignment explanation
Indices: 30479407--30479462 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
30479397 AGCAATTAAT
30479407 TAAT-TTTTTTAAAAA-TTTTAAAA
1 TAATATTTTTTAAAAATTTTTAAAA
*
30479430 TATTATTTTTTAAAAATTTTTAAAA
1 TAATATTTTTTAAAAATTTTTAAAA
30479455 TAATATTT
1 TAATATTT
30479463 ATAAGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 11 0.38
25 15 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATATTTTTTAAAAATTTTTAAAA
Found at i:30484928 original size:28 final size:28
Alignment explanation
Indices: 30484875--30484932 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
30484865 CAAACAAAGG
*
30484875 CATGAATTTAATATGTAATATACTAAGA
1 CATGAATTTAATATGTAACATACTAAGA
* *
30484903 CATG-ATTTAAATATGTAGCATGCTAAGA
1 CATGAATTT-AATATGTAACATACTAAGA
30484931 CA
1 CA
30484933 AAATAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (28 bp):
CATGAATTTAATATGTAACATACTAAGA
Found at i:30489472 original size:141 final size:141
Alignment explanation
Indices: 30489217--30489500 Score: 523
Period size: 141 Copynumber: 2.0 Consensus size: 141
30489207 TCCAGCAACC
30489217 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
1 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
*
30489282 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGTAATAAATCTGTCTGAAATTG
66 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
30489347 GACATGCTTAA
131 GACATGCTTAA
* * *
30489358 TGTTAAGACACATTTTAAACACACGATTAAAGCTTCAATAGGGCAATATTGAACACAATTAAATA
1 TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
30489423 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
66 TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
*
30489488 GACTTGCTTAA
131 GACATGCTTAA
30489499 TG
1 TG
30489501 GACAAACAAA
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 138 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.30
Consensus pattern (141 bp):
TGTTAAGACAAATTTTAAACACACGATTAAAGCTTCAATAAGACAATATTGAACACAATTAAATA
TGTAATAAGCTAAGACACATTAAGAAAACTAATTTGCTAATATGCAATAAATCTGTCTGAAATTG
GACATGCTTAA
Found at i:30489566 original size:28 final size:28
Alignment explanation
Indices: 30489509--30489568 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
30489499 TGGACAAACA
*
30489509 AAGACATTAATTTAATATGTAATATACT
1 AAGACATTAATTTAATATGTAACATACT
* * *
30489537 AAGACA-TGATTTAAATATGTAGCATGCT
1 AAGACATTAATTT-AATATGTAACATACT
30489565 AAGA
1 AAGA
30489569 AAAAATAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (28 bp):
AAGACATTAATTTAATATGTAACATACT
Found at i:30496349 original size:25 final size:25
Alignment explanation
Indices: 30496315--30496367 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
30496305 ATTTTACCTA
30496315 AATCTTATTCGAGAACTTCGTTATC
1 AATCTTATTCGAGAACTTCGTTATC
*
30496340 AATCTTATTCGAGAACTTTGTTATC
1 AATCTTATTCGAGAACTTCGTTATC
30496365 AAT
1 AAT
30496368 ATTCTTTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (25 bp):
AATCTTATTCGAGAACTTCGTTATC
Found at i:30497325 original size:20 final size:20
Alignment explanation
Indices: 30497283--30497325 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
30497273 GAATGTTAAA
*
30497283 TTAGTATGTTTTGACATGTT
1 TTAGTATGTTTTGACATGGT
*
30497303 TTAGTGTGTTTTGA-ATAGGT
1 TTAGTATGTTTTGACAT-GGT
30497323 TTA
1 TTA
30497326 AAATGTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.21, C:0.02, G:0.23, T:0.53
Consensus pattern (20 bp):
TTAGTATGTTTTGACATGGT
Found at i:30511809 original size:38 final size:40
Alignment explanation
Indices: 30511724--30511821 Score: 130
Period size: 38 Copynumber: 2.5 Consensus size: 40
30511714 ATATTATAAG
* *
30511724 TATAATTACCATAATTATAATAATGTTTGACCCAAAAAAT
1 TATAATTACAATAATTATAATAATATTTGACCCAAAAAAT
* *
30511764 TACAATTACAATAATTATAATAATATTCT-A-TC-AAAAAT
1 TATAATTACAATAATTATAATAATATT-TGACCCAAAAAAT
30511802 TATAATTACAATAATTATAA
1 TATAATTACAATAATTATAA
30511822 CAAGGATTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 25 0.48
39 1 0.02
40 25 0.48
41 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (40 bp):
TATAATTACAATAATTATAATAATATTTGACCCAAAAAAT
Found at i:30517917 original size:38 final size:40
Alignment explanation
Indices: 30517860--30517938 Score: 108
Period size: 38 Copynumber: 2.0 Consensus size: 40
30517850 CTTAAAACAT
* *
30517860 ATTAAAGATGCTCAGATTATGACA-TATTTAAA-ACTTAA
1 ATTAAAGATGCTCAAATTATGACACAATTTAAAGACTTAA
* *
30517898 ATTAATGATGTTCAAATTATGACACAATTTAAAGACTTAA
1 ATTAAAGATGCTCAAATTATGACACAATTTAAAGACTTAA
30517938 A
1 A
30517939 CTATAATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 21 0.60
39 7 0.20
40 7 0.20
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (40 bp):
ATTAAAGATGCTCAAATTATGACACAATTTAAAGACTTAA
Found at i:30529645 original size:23 final size:24
Alignment explanation
Indices: 30529609--30529656 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
30529599 TTCATCAAAT
30529609 GTTTCTCATCAAGTTTTTAAGCAA
1 GTTTCTCATCAAGTTTTTAAGCAA
*
30529633 GTTTC-CATCAAGTTTTTAATCAA
1 GTTTCTCATCAAGTTTTTAAGCAA
30529656 G
1 G
30529657 CTTTTATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (24 bp):
GTTTCTCATCAAGTTTTTAAGCAA
Found at i:30529654 original size:12 final size:12
Alignment explanation
Indices: 30529616--30529662 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
30529606 AATGTTTCTC
30529616 ATCAAGTTTTTA
1 ATCAAGTTTTTA
* **
30529628 AGCAAG-TTTCC
1 ATCAAGTTTTTA
30529639 ATCAAGTTTTTA
1 ATCAAGTTTTTA
*
30529651 ATCAAGCTTTTA
1 ATCAAGTTTTTA
30529663 TCTTTTGAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (12 bp):
ATCAAGTTTTTA
Found at i:30537171 original size:27 final size:27
Alignment explanation
Indices: 30537141--30537195 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
30537131 CGAACAATTG
* *
30537141 ATTACAACTTTATTCCATTGCATCTCT
1 ATTACAACTCTATTCCATTACATCTCT
* *
30537168 ATTATAGCTCTATTCCATTACATCTCT
1 ATTACAACTCTATTCCATTACATCTCT
30537195 A
1 A
30537196 GTATAGCTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTACAACTCTATTCCATTACATCTCT
Found at i:30537200 original size:27 final size:27
Alignment explanation
Indices: 30537151--30537208 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
30537141 ATTACAACTT
* *
30537151 TATTCCATTGCATCTCTATTATAGCTC
1 TATTCCATTACATCTCTAGTATAGCTC
30537178 TATTCCATTACATCTCTAGTATAGCTC
1 TATTCCATTACATCTCTAGTATAGCTC
30537205 TATT
1 TATT
30537209 TAAATGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (27 bp):
TATTCCATTACATCTCTAGTATAGCTC
Found at i:30542805 original size:7 final size:7
Alignment explanation
Indices: 30542793--30542853 Score: 68
Period size: 7 Copynumber: 8.6 Consensus size: 7
30542783 GTTTTGGGGT
30542793 TTTAGGG
1 TTTAGGG
30542800 TTTAGGG
1 TTTAGGG
*
30542807 TTTAGTGT
1 TTTAG-GG
*
30542815 TTTAAGG
1 TTTAGGG
*
30542822 TTTATGG
1 TTTAGGG
30542829 TTTAGGG
1 TTTAGGG
*
30542836 TTTAGGA
1 TTTAGGG
*
30542843 TTTGGGG
1 TTTAGGG
30542850 TTTA
1 TTTA
30542854 ATGTTAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:30543479 original size:6 final size:6
Alignment explanation
Indices: 30543465--30543502 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
30543455 AAAAATCAGA
* *
30543465 TTAGGG TTAGTG TTAAGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TT
30543503 TTTGTTAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.39
Consensus pattern (6 bp):
TTAGGG
Found at i:30543823 original size:232 final size:234
Alignment explanation
Indices: 30543322--30543896 Score: 840
Period size: 232 Copynumber: 2.4 Consensus size: 234
30543312 GAACACCTCT
* * *
30543322 AGTTTAGGGTTTGTCAATTAAATCATTTAAAAAATTTTAAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
30543387 TATTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAT
66 TATTTTT-A-AAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAAT
30543452 TTTAAAAATCAGATTAGGGTTAGTGTTAAGGTTAGGGTTAGGGTTAGGGTTTTTGTTAGGGTTTT
129 TTTAAAAATCAGATTAGGGTTAG-G---AGGTTAGGGTTAGGG-TA--GTTTTTGTTAGGGTTTT
*
30543517 GGTGTTTTTAAGGGTTTTTAAGGAAAAATCAAATAAGTTAGGGTTTAG
187 GGTGTTTTTAAGGGTTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
* *
30543565 AGTTTAGGGTTTATCAATTAAATTATTTATAAATTTTTCAAAATTGGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
30543630 TA-TTTTAAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAAATTT
66 TATTTTTAAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAATTT
*
30543694 T-AAAATTAGATTAGGGTTA-G-GGTTAGGGTTA-GG-A-TTTTTGTTAGGGTTTTGGTGTTTTT
131 TAAAAATCAGATTAGGGTTAGGAGGTTAGGGTTAGGGTAGTTTTTGTTAGGGTTTTGGTG--TTT
30543753 AAGTTAAGGGTTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
194 ---TTAAGGGTTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
* * *
30543797 AGTTTAGAGTTTGTCAATTAAATTATTTATAAAGTTTTCAAAATTAGATTAGTTTTCGTGTTTAT
1 AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
*
30543862 TATTTTTTAAGAAAATATGAATTAAATTAGGGTTT
66 TA-TTTTTAA-AAAA-ATCAATTAAATTAGGGTTT
30543897 TGGTGTTTTT
Statistics
Matches: 310, Mismatches: 13, Indels: 25
0.89 0.04 0.07
Matches are distributed among these distances:
227 20 0.06
229 3 0.01
230 1 0.00
232 105 0.34
233 11 0.04
234 6 0.02
235 4 0.01
236 18 0.06
237 1 0.00
239 17 0.05
240 57 0.18
241 1 0.00
242 4 0.01
243 62 0.20
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.43
Consensus pattern (234 bp):
AGTTTAGGGTTTGTCAATTAAATTATTTATAAAATTTTCAAAATTGGATTAGTTTTCGTGTTTAT
TATTTTTAAAAAAATCAATTAAATTAGGGTTTAGGATTACTTGAGTAATTTAATTAAAAAAATTT
TAAAAATCAGATTAGGGTTAGGAGGTTAGGGTTAGGGTAGTTTTTGTTAGGGTTTTGGTGTTTTT
AAGGGTTTTTAAGAAAAAATCAAATAAGTTAGGGTTTAG
Found at i:30545755 original size:18 final size:18
Alignment explanation
Indices: 30545729--30545771 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30545719 GACTCAAAAA
* * *
30545729 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30545747 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30545765 AGGATAC
1 AGGATAC
30545772 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30547606 original size:11 final size:10
Alignment explanation
Indices: 30547592--30547681 Score: 60
Period size: 11 Copynumber: 8.6 Consensus size: 10
30547582 TAGGGATTTA
30547592 AGAGAAATTTG
1 AGAGAAA-TTG
30547603 AGAGGAAATTG
1 AGA-GAAATTG
30547614 AGAGCAAATTG
1 AGAG-AAATTG
*
30547625 AGATTAAA-T-
1 AGA-GAAATTG
* *
30547634 AG-GGATTTG
1 AGAGAAATTG
30547643 AGAGAAATTTGG
1 AGAGAAA-TT-G
*
30547655 AAAGAAATTG
1 AGAGAAATTG
30547665 AGAGGAAATTG
1 AGA-GAAATTG
30547676 AGAGAA
1 AGAGAA
30547682 TAATAGAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 4 0.06
10 10 0.16
11 35 0.56
12 11 0.18
ACGTcount: A:0.47, C:0.01, G:0.30, T:0.22
Consensus pattern (10 bp):
AGAGAAATTG
Found at i:30547636 original size:51 final size:51
Alignment explanation
Indices: 30547579--30547678 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
30547569 AAATAATTAA
*
30547579 AAATAGGGATTTAAGAGAAATTT-GAGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGGA-AAGAAATTGAGAGCAAATTGAGATT
* *
30547630 AAATAGGGATTTGAGAGAAATTTGGAAAGAAATTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTGGAAAGAAATTGAGAGCAAATTGAGA
30547679 GAATAATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.46, C:0.01, G:0.29, T:0.24
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTGGAAAGAAATTGAGAGCAAATTGAGATT
Found at i:30549050 original size:25 final size:22
Alignment explanation
Indices: 30549006--30549050 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30548996 CTTATTTCTT
30549006 GCAACAACATGAGAGGGGAGGA
1 GCAACAACATGAGAGGGGAGGA
30549028 GCAACAACATGAGAGGGGAGGA
1 GCAACAACATGAGAGGGGAGGA
30549050 G
1 G
30549051 AGGTCCTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.42, T:0.04
Consensus pattern (22 bp):
GCAACAACATGAGAGGGGAGGA
Found at i:30553214 original size:31 final size:32
Alignment explanation
Indices: 30553155--30553219 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
30553145 AGCAAATTAC
30553155 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30553187 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
30553218 AA
1 AA
30553220 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:30554230 original size:13 final size:13
Alignment explanation
Indices: 30554212--30554239 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30554202 ACACCTTCCG
30554212 AAAGTGACTAAGA
1 AAAGTGACTAAGA
30554225 AAAGTGACTAAGA
1 AAAGTGACTAAGA
30554238 AA
1 AA
30554240 TTTTGCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (13 bp):
AAAGTGACTAAGA
Found at i:30556732 original size:106 final size:107
Alignment explanation
Indices: 30556328--30556749 Score: 579
Period size: 107 Copynumber: 4.0 Consensus size: 107
30556318 AGGAATATTT
* *
30556328 TTCT-AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
30556392 CGACTTT-TCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
66 CGA-TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
** * *
30556433 TT-TCAAAGCGAGGCAATATTT-GCATTTGGAAAATTGAGAAAACATGCCCTAACGTGTTGGGTT
1 TTCTCAAA-TAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTT
* *
30556496 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * *
30556539 TTTTAAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAATGTGCCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
* *
30556604 CGACTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
* * * *
30556646 TTCTCAAATAAGGCAATGTTTCGCGTTTGG-AAATTCGAGG-AACGTGCCCTAATGTGCTGGGTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATT-GAGGAAACGTGCCCTAACGTGTTGGGTT
* ** *
30556709 TTGATTTCTCGTTTAACTAAATAGCCAAATATCCTTTTAAA
65 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
30556750 TTTCAATCCA
Statistics
Matches: 280, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
104 4 0.01
105 77 0.28
106 87 0.31
107 112 0.40
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (107 bp):
TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAACGTGCCCTAACGTGTTGGGTTT
CGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAA
Found at i:30556749 original size:212 final size:212
Alignment explanation
Indices: 30556332--30556746 Score: 620
Period size: 212 Copynumber: 2.0 Consensus size: 212
30556322 ATATTTTTCT
30556332 AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
* *
30556397 TTTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGCGAGGCAATATTTGCATTTGG
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGCAAGGCAATATTTGCATTTGG
* *
30556462 AAAATTGAGAAAACATGCCCTAACGTGTTGGGTTTCGATTTCTCGTTCGACCAAATAGCCAAATA
131 AAAATTGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAATA
30556527 TCCTTTTTAAACTTTTA
196 TCCTTTTTAAACTTTTA
* * *
30556544 AAATAAGGCAATATTTCGCATTTGGAAAATTGAGGAAATGTGCCCTAACGTGTTGGGTTTCGACT
1 AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
* * * *
30556609 TCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAATTCTCAAA-TAAGGCAATGTTTCGCGTT
66 TCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAATT-TCAAAGCAAGGCAATATTT-GCATT
* * * * * *
30556673 TGG-AAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTTGATTTCTCGTTTAACTAAATAGCCA
128 TGGAAAATT-GAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCA
30556736 AATATCCTTTT
192 AATATCCTTTT
30556747 AAATTTCAAT
Statistics
Matches: 182, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
212 92 0.51
213 75 0.41
214 15 0.08
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (212 bp):
AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTTCGACT
TCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAATTTCAAAGCAAGGCAATATTTGCATTTGG
AAAATTGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCAACCAAATAGCCAAATA
TCCTTTTTAAACTTTTA
Found at i:30568450 original size:44 final size:44
Alignment explanation
Indices: 30568378--30568629 Score: 176
Period size: 44 Copynumber: 5.8 Consensus size: 44
30568368 AGAATTTCAG
* * *
30568378 ATCTTATCTCCCTGAGATTATAGCGGAGCAGATTTAAGCTAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
* * ** * *
30568422 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AAAATAAATG
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT-AGTA
* ** * * * *
30568466 ATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCATC-AG--
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCTAGTA
* * ** * *
30568507 GTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AATTTCA
1 ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTA-GT-A
* * *
30568552 GATCTTATCTCCCTGAGGTTACAGTAGAGCAGATTGAAGCCAG-A
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
30568596 GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
1 -ATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
30568630 CGCATCAAGT
Statistics
Matches: 160, Mismatches: 37, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
41 30 0.19
42 1 0.01
43 5 0.03
44 90 0.56
45 1 0.01
46 32 0.20
47 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTA
Found at i:30568803 original size:84 final size:85
Alignment explanation
Indices: 30568641--30568803 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 85
30568631 GCATCAAGTC
* *
30568641 TTATCTCCCTAAGCAGTACTGGAGCAGACAGAAGAAATCAAGTCCTATCTTCCTAAGCAGTAGTG
1 TTATCTCCCTAAGCAGTAATGGAGCAGAC---AGAAATCAAGTCCTATCTCCCTAAGCAGTAGTG
* ***
30568706 GAGTAGGTTGAACCTTGCAGATT
63 GAGCAGACAGAACCTTGCAGATT
* * *
30568729 TTATCTCCCTAAGCAGTAATGGAGCAGATC-G-CATCAAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TTATCTCCCTAAGCAGTAATGGAGCAGA-CAGAAATCAAGTCCTATCTCCCTAAGCAGTAGTGGA
30568792 GCAGACAGAACC
65 GCAGACAGAACC
30568804 AATCCTATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 36 0.55
85 1 0.02
88 27 0.42
89 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (85 bp):
TTATCTCCCTAAGCAGTAATGGAGCAGACAGAAATCAAGTCCTATCTCCCTAAGCAGTAGTGGAG
CAGACAGAACCTTGCAGATT
Done.