Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 21 of 30
Found at i:3329431 original size:28 final size:28
Alignment explanation
Indices: 3329400--3329466 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
3329390 AAAGCTCACT
*
3329400 AGTCAGTGGCACCTCTTCAAAGTCCTCA
1 AGTCAGTGGCACCTCTTCAAAGTCCACA
* * * *
3329428 AGTCAGTGGCATCTTTTTAAAGTTCACA
1 AGTCAGTGGCACCTCTTCAAAGTCCACA
3329456 A-TCAGTGGCAC
1 AGTCAGTGGCAC
3329467 TTGCTGTATA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (28 bp):
AGTCAGTGGCACCTCTTCAAAGTCCACA
Found at i:3329673 original size:32 final size:32
Alignment explanation
Indices: 3329635--3329747 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 32
3329625 AGAACACTTC
* *
3329635 TTAAAGCCCACACAAGTCGGTGACAA-CCTTT
1 TTAAAGCCCACACAAGTCGATGGCAACCCTTT
*
3329666 CTTAAAGCCCACACAAGTCAATGGCAACCCTTT
1 -TTAAAGCCCACACAAGTCGATGGCAACCCTTT
*
3329699 TTAAAGCACACACAAGTCGATGGCAACCCTTT
1 TTAAAGCCCACACAAGTCGATGGCAACCCTTT
* *
3329731 TAAAAGCCTACACAAGT
1 TTAAAGCCCACACAAGT
3329748 TGGTGGAATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 67 0.93
33 5 0.07
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.21
Consensus pattern (32 bp):
TTAAAGCCCACACAAGTCGATGGCAACCCTTT
Found at i:3329885 original size:43 final size:43
Alignment explanation
Indices: 3329824--3329910 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
3329814 ATCTCTTTCC
*
3329824 AAGTCCAATGTTGCTGGCCTAGAATCAGCACATTGGCACCTTT
1 AAGTCCAATATTGCTGGCCTAGAATCAGCACATTGGCACCTTT
* * * *
3329867 AAGTCTAATATTGCTGGCCTTGAATCTGCATATTGGCACCTTT
1 AAGTCCAATATTGCTGGCCTAGAATCAGCACATTGGCACCTTT
3329910 A
1 A
3329911 TCATCCTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
AAGTCCAATATTGCTGGCCTAGAATCAGCACATTGGCACCTTT
Found at i:3330004 original size:52 final size:51
Alignment explanation
Indices: 3329938--3330493 Score: 304
Period size: 52 Copynumber: 10.5 Consensus size: 51
3329928 AAGTCTGATA
* * * *
3329938 TCGCTAGCCTTGAATCAACATATCGGCATCTTTAACATTCTTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACA-TCTTAAGCCCAATG
* *
3329990 TCGCTGGCCTTGAATCAGCACATTGGCATTCTTCT--CATCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TAACATCTT-AAGCCCAATG
* * * * ** * * *
3330042 TCGTTGGCCGTGAATCAGCACATTGACATTTTTCGCACCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACATC-TTAAGCCCAATG
* * * * *
3330094 TCACTAGCCTTGGATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACA-TCTTAAGCCCAATG
* * * *
3330146 TCGCTGGCCTTGTATCAGTACATTGGCATTCTTCT--CATCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TAACATCTT-AAGCCCAATG
* * ** * * *
3330198 TCGTTGG-CTGTGAATCAGCACATTGACAT-TCTTCGCACTTTTAAGTCCAATA
1 TCGCTGGCCT-TGAATCAGCACATTGGCATCT-TTAACA-TCTTAAGCCCAATG
** * * * * * *
3330250 TCATTGTCCTTGGATCAGTATATTGGCACCTTTATCATCCTTCTCATCTTTAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTTA--A-------CATC-TTAAGCCCAATG
* ** * * *
3330311 TCACTAACCCTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACA-TCTTAAGCCCAATG
* * *
3330363 TCGCTGGCCTTGAATCAGCACATTGGCATTCTTCT--GATCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCA-TCTT-TAACATCTT-AAGCCCAATG
* * * *
3330415 TCGCTGGCCGTGAATCAGCACATTGACATTCTTT-GCATCTTTAAGCCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCA-TCTTTAACATC-TTAAGCCCAATG
*
3330467 TCGTTGGCCTTGAATCAGC-CTATTGGC
1 TCGCTGGCCTTGAATCAGCAC-ATTGGC
3330494 GCCTTTATGT
Statistics
Matches: 390, Mismatches: 80, Indels: 68
0.72 0.15 0.13
Matches are distributed among these distances:
50 3 0.01
51 19 0.05
52 298 0.76
53 25 0.06
54 3 0.01
59 1 0.00
60 1 0.00
61 40 0.10
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (51 bp):
TCGCTGGCCTTGAATCAGCACATTGGCATCTTTAACATCTTAAGCCCAATG
Found at i:3330116 original size:156 final size:156
Alignment explanation
Indices: 3329924--3330283 Score: 569
Period size: 156 Copynumber: 2.3 Consensus size: 156
3329914 TCCTTCTCAT
** * * * * *
3329924 CTTTAAGTCTGATATCGCTAGCCTTGAATCAACATATCGGCATCTTTAACATTCTTAAGCCCAAT
1 CTTTAAGTCCAATATCACTAGCCTTGGATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAAT
3329989 GTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCCGTG
66 GTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCCGTG
*
3330054 AATCAGCACATTGACATTTTTCGCAC
131 AATCAGCACATTGACATTCTTCGCAC
3330080 CTTTAAGTCCAATATCACTAGCCTTGGATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAAT
1 CTTTAAGTCCAATATCACTAGCCTTGGATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAAT
* * *
3330145 GTCGCTGGCCTTGTATCAGTACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCTGTG
66 GTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCCGTG
3330210 AATCAGCACATTGACATTCTTCGCAC
131 AATCAGCACATTGACATTCTTCGCAC
* * * *
3330236 TTTTAAGTCCAATATCA-TTGTCCTTGGATCAGTATATTGGCACCTTTA
1 CTTTAAGTCCAATATCACTAG-CCTTGGATCAGCATATTGGCATCTTTA
3330284 TCATCCTTCT
Statistics
Matches: 188, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
155 2 0.01
156 186 0.99
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (156 bp):
CTTTAAGTCCAATATCACTAGCCTTGGATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAAT
GTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCCGTG
AATCAGCACATTGACATTCTTCGCAC
Found at i:3330330 original size:217 final size:216
Alignment explanation
Indices: 3329986--3330560 Score: 790
Period size: 217 Copynumber: 2.7 Consensus size: 216
3329976 TCTTAAGCCC
* * * * * * * *
3329986 AATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCGTTGGCC
1 AATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTCGCATCTTTAAGCCCAATATCATTGGCC
* * * * * * * * *
3330051 GTGAATCAGCACATT-G-A-C---AT-T-TTTCGCACCTTTAAGTCCAATATCACTAGCCTTGGA
66 TTGAATCAGCATATTGGCACCTTTATATCCTTCTCATCTTTAAGCCCAATATCACTAACCCTGAA
* *
3330108 TCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGTATCAGTACATTGGC
131 TCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
3330173 ATTCTTCTCATCTTCAAGTCT
196 ATTCTTCTCATCTTCAAGTCT
* * * *
3330194 AATGTCGTTGGCTGTGAATCAGCACATTGACATTCTTCGCA-CTTTTAAGTCCAATATCATTGTC
1 AATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTCGCATC-TTTAAGCCCAATATCATTGGC
* *
3330258 CTTGGATCAGTATATTGGCACCTTTATCATCCTTCTCATCTTTAAGCCCAATATCACTAACCCTG
65 CTTGAATCAGCATATTGGCACCTTTAT-ATCCTTCTCATCTTTAAGCCCAATATCACTAACCCTG
3330323 AATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG
129 AATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG
*
3330388 GCATTCTTCTGATCTTCAAGTCT
194 GCATTCTTCTCATCTTCAAGTCT
* *
3330411 AATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTTGCATCTTTAAGCCCAATATCGTTGGCC
1 AATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTCGCATCTTTAAGCCCAATATCATTGGCC
* * *
3330476 TTGAATCAGCCTATTGGCGCCTTTATGTCCTTCTCATCTTTAAGCCCAATATCACTAACCCTGAA
66 TTGAATCAGCATATTGGCACCTTTATATCCTTCTCATCTTTAAGCCCAATATCACTAACCCTGAA
3330541 TCAGCATATTGGCATCTTTA
131 TCAGCATATTGGCATCTTTA
3330561 TCAGTCTTCC
Statistics
Matches: 321, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
207 1 0.00
208 64 0.20
209 1 0.00
210 1 0.00
211 1 0.00
214 2 0.01
216 59 0.18
217 191 0.60
218 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (216 bp):
AATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTCGCATCTTTAAGCCCAATATCATTGGCC
TTGAATCAGCATATTGGCACCTTTATATCCTTCTCATCTTTAAGCCCAATATCACTAACCCTGAA
TCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGC
ATTCTTCTCATCTTCAAGTCT
Found at i:3330492 original size:104 final size:103
Alignment explanation
Indices: 3329976--3330493 Score: 366
Period size: 104 Copynumber: 4.9 Consensus size: 103
3329966 TCTTTAACAT
* * * * *
3329976 TCTT-AAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCT-CATCTTCAAGTCTA
1 TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTT-TACATCTTTAAGCCCA
* * * *
3330039 ATGTCGTTGGCCGTGAATCAGCACATTGACATTTTTCGCA
65 ATGTCGTTGGCCTTGAATCAGC-CATTGGCATTCTTCTCA
* * * * * * * * *
3330079 CCTTTAAGTCCAATATCACTAGCCTTGGATCAGCATATTGGCA-TCTTTAACAT-TCCTAAGCCC
1 TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTTT-ACATCT-TTAAGCCC
* * *
3330142 AATGTCGCTGGCCTTGTATCAGTACATTGGCATTCTTCTCA
64 AATGTCGTTGGCCTTGAATCAG-CCATTGGCATTCTTCTCA
* * * * ** *
3330183 TCTTCAAGTCTAATGTCGTTGGCTGTGAATCAGCACATTGACATTCTTCGCA-CTTTTAAGTCCA
1 TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTTTACATC-TTTAAGCCCA
* * * * **
3330247 ATATCATTGTCCTTGGATCAGTATATTGGCACCTTTATCATCCTTCTCA
65 ATGTCGTTGGCCTTGAATCAG-CCATTGG---C---AT--T-CTTCTCA
* * * * ** * * *
3330296 TCTTTAAGCCCAATATCACTAACCCTGAATCAGCATATTGGCA-TCTTTAACAT-TCCTAAGCCC
1 TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTTT-ACATCT-TTAAGCCC
* *
3330359 AATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTGA
64 AATGTCGTTGGCCTTGAATCAGC-CATTGGCATTCTTCTCA
* * *
3330400 TCTTCAAGTCTAATGTCGCTGGCCGTGAATCAGCACATTGACATTCTTTGCATCTTTAAGCCCAA
1 TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTTTACATCTTTAAGCCCAA
*
3330465 TATCGTTGGCCTTGAATCAGCCTATTGGC
66 TGTCGTTGGCCTTGAATCAGCC-ATTGGC
3330494 GCCTTTATGT
Statistics
Matches: 313, Mismatches: 78, Indels: 47
0.71 0.18 0.11
Matches are distributed among these distances:
102 1 0.00
103 9 0.03
104 211 0.67
105 12 0.04
107 3 0.01
110 3 0.01
112 6 0.02
113 68 0.22
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (103 bp):
TCTTCAAGTCCAATGTCGCTGGCCGTGAATCAGCACATTGGCATTCTTTACATCTTTAAGCCCAA
TGTCGTTGGCCTTGAATCAGCCATTGGCATTCTTCTCA
Found at i:3333003 original size:13 final size:13
Alignment explanation
Indices: 3332985--3333009 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3332975 CAATTCATCA
3332985 TGTATCGATACAT
1 TGTATCGATACAT
3332998 TGTATCGATACA
1 TGTATCGATACA
3333010 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3333099 original size:13 final size:13
Alignment explanation
Indices: 3333081--3333105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3333071 CAATTATGCA
3333081 TGTATCGATACAT
1 TGTATCGATACAT
3333094 TGTATCGATACA
1 TGTATCGATACA
3333106 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3333720 original size:20 final size:20
Alignment explanation
Indices: 3333655--3333722 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
3333645 TCCCCCTTGA
*
3333655 TAAAATAATTAAGGTTCTCG
1 TAAAATAATTAAGCTTCTCG
* *** * *
3333675 TAAAAAAATTTCTCTCCCTTG
1 TAAAATAATTAAGCT-TCTCG
3333696 ATAAAATAATTAAGCTTCTCG
1 -TAAAATAATTAAGCTTCTCG
3333717 TAAAAT
1 TAAAAT
3333723 TTTCTCCCCC
Statistics
Matches: 33, Mismatches: 13, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
20 16 0.48
21 6 0.18
22 11 0.33
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (20 bp):
TAAAATAATTAAGCTTCTCG
Found at i:3333738 original size:40 final size:41
Alignment explanation
Indices: 3333640--3333741 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 41
3333630 CAAAGTTCGT
*
3333640 TTTTCTCCCCCTTGATAAAATAATTAAGGTTCTCGTAAAAAA
1 TTTTCTCCCCCTTGATAAAATAATTAAGCTTCTCGT-AAAAA
* *
3333682 ATTTCTCTCCCTTGATAAAATAATTAAGCTTCTCGT-AAAA
1 TTTTCTCCCCCTTGATAAAATAATTAAGCTTCTCGTAAAAA
3333722 TTTTCTCCCCCTTGATAAAA
1 TTTTCTCCCCCTTGATAAAA
3333742 ATTTATTTTC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 22 0.40
42 33 0.60
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (41 bp):
TTTTCTCCCCCTTGATAAAATAATTAAGCTTCTCGTAAAAA
Found at i:3335461 original size:21 final size:21
Alignment explanation
Indices: 3335437--3335479 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3335427 AAAAGAGATG
* *
3335437 ATTTGATGTAAAATTGATGAA
1 ATTTGAAGAAAAATTGATGAA
*
3335458 ATTTTAAGAAAAATTGATGAA
1 ATTTGAAGAAAAATTGATGAA
3335479 A
1 A
3335480 AAATGTTAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (21 bp):
ATTTGAAGAAAAATTGATGAA
Found at i:3335594 original size:13 final size:13
Alignment explanation
Indices: 3335573--3335612 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3335563 ATAGTAACCC
3335573 ATGTATCGATACA
1 ATGTATCGATACA
* * *
3335586 TTTTATCGATATA
1 ATGTATCGATACA
3335599 ATGTATCGATACA
1 ATGTATCGATACA
3335612 A
1 A
3335613 AAAACATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3340149 original size:3 final size:3
Alignment explanation
Indices: 3340141--3340177 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
3340131 TCCGAGTCAA
*
3340141 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
3340178 GTCTTTGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:3341809 original size:13 final size:13
Alignment explanation
Indices: 3341791--3341815 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3341781 CAATTCATCA
3341791 TGTATCGATACAT
1 TGTATCGATACAT
3341804 TGTATCGATACA
1 TGTATCGATACA
3341816 ATGTGCCATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3341826 original size:33 final size:32
Alignment explanation
Indices: 3341771--3341835 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
3341761 TTTGAAGCAA
3341771 TGTATCGATACAATTCATCATGTATCGATACAT
1 TGTATCGATACAATTCA-CATGTATCGATACAT
*
3341804 TGTATCGATACAATGTGC-CATGTATTGATACA
1 TGTATCGATACAAT-T-CACATGTATCGATACA
3341836 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAATTCACATGTATCGATACAT
Found at i:3341909 original size:19 final size:19
Alignment explanation
Indices: 3341869--3341920 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
3341859 TAGTTTCATG
**
3341869 TATCGATACAATTGTGCATA
1 TATCGATACAA-TGAACATA
3341889 TATCGATACAATGAACATA
1 TATCGATACAATGAACATA
3341908 TATCGATACAATG
1 TATCGATACAATG
3341921 TATCAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
TATCGATACAATGAACATA
Found at i:3346803 original size:156 final size:156
Alignment explanation
Indices: 3346529--3346813 Score: 369
Period size: 156 Copynumber: 1.8 Consensus size: 156
3346519 TAGGTAGACT
*
3346529 TTCAACATGAAAGTATCCTAATAACCTTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
1 TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
* * * ** *
3346594 CTAAAAGAGTACCTTTGGTATAAAAAAGACCTAGTGATTACCTAGGACACAATTC-AAGGAAAAA
66 CTAAAACAGAACCTTTGGCATAAAAAAGACCTAGTGACCACCTAGGACACAATTCTAAAGAAAAA
3346658 TTATTAAAATGCCATTGAGATATACC
131 TTATTAAAATGCCATTGAGATATACC
** * * *
3346684 TTCAACATGAAAGTATCCTGGTAACCCTAAAGGACACGAAAATGAACTTAAGAGGATGAACCTAT
1 TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATG-ACGTAAAAGGATGAACCTAT
** * * *
3346749 CCTAAATACA-AACCTTTGGCATAAAAGTGA-CTTGTTGACCATCTAGGACTCAATTCTAAAGAA
65 CCTAAA-ACAGAACCTTTGGCATAAAAAAGACCTAG-TGACCACCTAGGACACAATTCTAAAGAA
3346812 AA
128 AA
3346814 TTACGAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
155 43 0.39
156 57 0.52
157 9 0.08
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (156 bp):
TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
CTAAAACAGAACCTTTGGCATAAAAAAGACCTAGTGACCACCTAGGACACAATTCTAAAGAAAAA
TTATTAAAATGCCATTGAGATATACC
Found at i:3346823 original size:156 final size:155
Alignment explanation
Indices: 3346529--3346912 Score: 362
Period size: 156 Copynumber: 2.5 Consensus size: 155
3346519 TAGGTAGACT
*
3346529 TTCAACATGAAAGTATCCTAATAACCTTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
1 TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
* * * ** *
3346594 CTAAAAGAGTACCTTTGGTATAAAAAAGACCTAGTGATTACCTAGGACACAATTCAAGGAAAAAT
66 CTAAAACAGAACCTTTGGCATAAAAAAGACCTAGTGACCACCTAGGACACAATTCAAAGAAAAAT
**
3346659 TATTAAAATGCCATTGAGATATACC
131 TACGAAAATGCCATTGAGATATACC
** * * *
3346684 TTCAACATGAAAGTATCCTGGTAACCCTAAAGGACACGAAAATGAACTTAAGAGGATGAACCTAT
1 TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATG-ACGTAAAAGGATGAACCTAT
** * * *
3346749 CCTAAATACA-AACCTTTGGCATAAAAGTGA-CTTGTTGACCATCTAGGACTCAATTCTAAAG-A
65 CCTAAA-ACAGAACCTTTGGCATAAAAAAGACCTAG-TGACCACCTAGGACACAATTC-AAAGAA
* * *
3346811 AAATTACGAAAATACCCTT-ATGGTATACC
127 AAATTACGAAAATGCCATTGA-GATATACC
* ** * * *** * * ** *
3346840 TTCATCGTAAAAAATTATTCTGGCAACCTTAAAGGACAAAAAAATGATATAAAAGGATAAACCTA
1 TTCAAC--ATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTA
3346905 TCCTAAAA
64 TCCTAAAA
3346913 GTATACTTTT
Statistics
Matches: 187, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
155 44 0.24
156 86 0.46
157 27 0.14
158 30 0.16
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.24
Consensus pattern (155 bp):
TTCAACATGAAAGTATCCTAATAACCCTAAAGGACAAGAAAATGACGTAAAAGGATGAACCTATC
CTAAAACAGAACCTTTGGCATAAAAAAGACCTAGTGACCACCTAGGACACAATTCAAAGAAAAAT
TACGAAAATGCCATTGAGATATACC
Found at i:3346932 original size:157 final size:157
Alignment explanation
Indices: 3346551--3346993 Score: 357
Period size: 157 Copynumber: 2.8 Consensus size: 157
3346541 GTATCCTAAT
* * * * * *
3346551 AACCTTAAAGGACAAGAAAATG-ACGTAAAAGGATGAACCTATCCTAAA-AGAGTACCTTTGGTA
1 AACCCTAAAGGACAAAAAAATGAAC-TAAAAGGATAAACCTATCCTAAATACA-AACCTTTGGCA
* * ** * ** * * *
3346614 TAAAAA-AGAC-CTAGTGATTACCTAGGACACAATTCAAG-GAAAAATTATTAAAATGCCATTGA
64 -AAAAAGTGACTC-GGTGACCACCTAGGACTCAATTCAAGAG-AAAATTACCAAAATACCCTTAA
* * ** * * *
3346676 GATATACCTTCAAC--ATGAAAGTATCCTGGT
126 GGTATACCTTCATCGTAAAAAATTATTCTGGC
** * * *
3346706 AACCCTAAAGGACACGAAAATGAACTTAAGAGGATGAACCTATCCTAAATACAAACCTTTGGCAT
1 AACCCTAAAGGACAAAAAAATGAAC-TAAAAGGATAAACCTATCCTAAATACAAACCTTTGGCAA
* * * * *
3346771 AAAAGTGACTTGTTGACCATCTAGGACTCAATTCTAA-AGAAAATTACGAAAATACCCTTATGGT
65 AAAAGTGACTCGGTGACCACCTAGGACTCAATTC-AAGAGAAAATTACCAAAATACCCTTAAGGT
3346835 ATACCTTCATCGTAAAAAATTATTCTGGC
129 ATACCTTCATCGTAAAAAATTATTCTGGC
* * * *
3346864 AACCTTAAAGGACAAAAAAATGATA-TAAAAGGATAAACCTATCCTAAA-AGTATACTTTTGGCA
1 AACCCTAAAGGACAAAAAAATGA-ACTAAAAGGATAAACCTATCCTAAATA-CAAACCTTTGGCA
** ** *
3346927 AAAAAGTGACTCGGTGATTACCTAGGACTCGGTTCAAGAGAAAATTACCAAAATGCCCTTAAGGT
64 AAAAAGTGACTCGGTGACCACCTAGGACTCAATTCAAGAGAAAATTACCAAAATACCCTTAAGGT
3346992 AT
129 AT
3346994 CTTTGACGTG
Statistics
Matches: 229, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
155 24 0.10
156 84 0.37
157 89 0.39
158 31 0.14
159 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (157 bp):
AACCCTAAAGGACAAAAAAATGAACTAAAAGGATAAACCTATCCTAAATACAAACCTTTGGCAAA
AAAGTGACTCGGTGACCACCTAGGACTCAATTCAAGAGAAAATTACCAAAATACCCTTAAGGTAT
ACCTTCATCGTAAAAAATTATTCTGGC
Found at i:3347371 original size:156 final size:153
Alignment explanation
Indices: 3346966--3347413 Score: 437
Period size: 156 Copynumber: 2.9 Consensus size: 153
3346956 CGGTTCAAGA
* * * * * *
3346966 GAAAATTACCAAAATGCCCTTAAGGTAT--CTTTGACGTGAAAGTATTTCAATAACCCTAAAAGC
1 GAAAATTACTAAAATACCCATAAGGTATACCTTCGACGTGAAAGTA-TCCTATAACCCTAAAAG-
* * *
3347029 CAT-AAAAAGATTAGTAAAATGA-CAAACCTATCCCAAATACACACCTTTGGCATAAAATCAACC
64 -ATAAAAAAGATTAGTAAAAGGATGAAA-CTATCCCAAATGCACACCTTTGGCATAAAAT-AACC
*
3347092 TAGTGACAACCTAAGACTTGACTTTAGG
126 AAGTGACAACCTAAGACTTGACTTTAGG
* * * * * **
3347120 G-AAATTA-TGAAAATACCCATAAGGTATACCTTC-A-GTTTAAAAGTATCTCGACAATCTTTGA
1 GAAAATTACT-AAAATACCCATAAGGTATACCTTCGACG--TGAAAGTATC-CTATAACCCTAAA
* * * *
3347181 GGACACAAAAATATTAGTAAAAGGATGAAACTATCCTAAATGCACACCTTTGGCATAAAAGTAAC
62 AGATA-AAAAAGATTAGTAAAAGGATGAAACTATCCCAAATGCACACCTTTGGCATAAAA-TAAC
* * *
3347246 CCAGTGACAACCTGAGACTTGATTTTAGG
125 CAAGTGACAACCTAAGACTTGACTTTAGG
* *
3347275 GAAAATTACTAAAATACCCCTAAAGTATACCTTCGACGTGAAAGTATCCTATTAACCCTAAAAGA
1 GAAAATTACTAAAATACCCATAAGGTATACCTTCGACGTGAAAGTATCCTA-TAACCCTAAAAGA
* * *
3347340 TAAGAAAAGATTAGTAACAA-GATGAATCTATCCCAAATGCACAACTTTGGAATAAAAATAACCA
65 TAA-AAAAGATTAGTAA-AAGGATGAAACTATCCCAAATGCACACCTTTGGCAT-AAAATAACCA
3347404 AGTGACAACC
127 AGTGACAACC
3347414 AAGGACTCAA
Statistics
Matches: 237, Mismatches: 39, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
153 24 0.10
154 3 0.01
155 96 0.41
156 105 0.44
157 8 0.03
158 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (153 bp):
GAAAATTACTAAAATACCCATAAGGTATACCTTCGACGTGAAAGTATCCTATAACCCTAAAAGAT
AAAAAAGATTAGTAAAAGGATGAAACTATCCCAAATGCACACCTTTGGCATAAAATAACCAAGTG
ACAACCTAAGACTTGACTTTAGG
Found at i:3347437 original size:311 final size:309
Alignment explanation
Indices: 3346793--3347453 Score: 689
Period size: 311 Copynumber: 2.1 Consensus size: 309
3346783 TTGACCATCT
* * *
3346793 AGGACTCAATTCTAAAGAAAATTACGAAAATACCCTTATGGTATACCTTCATCGTAAAAAATTAT
1 AGGACTCAATTCTAAAG-AAATTATGAAAATACCCTTAAGGTATACCTTCA-CGTAAAAAAGTAT
* * * *
3346858 TCTGGCAACCTTAAAGGACAAAAAAATGATATAAAAGGATAAACCTATCCTAAAAGTATACTTTT
64 TCTGACAACCTTAAAGGACAAAAAAATGATATAAAAGGATAAACCTATCCTAAAAGCACACCTTT
* * * ** * * *
3346923 GGCAAAAAAGTGACTCGGTGATTACCTAGGACTCGGTTCAAGAGAAAATTACCAAAATGCCCTTA
129 GGCAAAAAAGTAACCCAGTGACAACCTAGGACTCGATTCAAGAGAAAATTACCAAAATACCCCTA
* * *
3346988 AGGTATCTTTGACGTGAAAGTATTTCAATAACCCTAAAAGCCATAAAAAGATTAGTAAAATGACA
194 AAGTATCTTCGACGTGAAAGTATCTCAATAACCCTAAAAG-CATAAAAAGATTAGTAAAATGACA
* * *
3347053 AACCTATCCCAAATACACACCTTTGGCATAAAATCAACCTAGTGACAACCTA
258 AACCTATCCCAAATACACAACTTTGGAATAAAATCAACCAAGTGACAACCTA
* * ** * **
3347105 A-GACTTGACTT-TAGGGAAATTATGAAAATACCCATAAGGTATACCTTCA-GTTTAAAAGTA-T
1 AGGAC-TCAATTCTAAAGAAATTATGAAAATACCCTTAAGGTATACCTTCACGTAAAAAAGTATT
* ** * *
3347166 CTCGACAATCTTTGAGGACACAAAAAT-ATTAGTAAAAGGATGAAA-CTATCCTAAATGCACACC
65 CT-GACAACCTTAAAGGACAAAAAAATGA-TA-TAAAAGGAT-AAACCTATCCTAAAAGCACACC
* * ** * *
3347229 TTTGGCATAAAAGTAACCCAGTGACAACCT-GAGACTTGATTTTAGGGAAAATTACTAAAATACC
126 TTTGGCAAAAAAGTAACCCAGTGACAACCTAG-GACTCGATTCAAGAGAAAATTACCAAAATACC
*
3347293 CCTAAAGTATACCTTCGACGTGAAAGTATC-CTATTAACCCTAAAAG-ATAAGAAAAGATTAGTA
190 CCTAAAGTAT--CTTCGACGTGAAAGTATCTC-AATAACCCTAAAAGCAT-A-AAAAGATTAGTA
** * *
3347356 ACAA-GATGAATCTATCCCAAATGCACAACTTTGGAATAAAAAT-AACCAAGTGACAACC-A
250 A-AATGACAAACCTATCCCAAATACACAACTTTGGAAT-AAAATCAACCAAGTGACAACCTA
*
3347415 AGGACTCAATTCTAAAGAAATTATGAAAATGCCCTTAAG
1 AGGACTCAATTCTAAAGAAATTATGAAAATACCCTTAAG
3347454 TATCCTAGTA
Statistics
Matches: 284, Mismatches: 50, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
307 4 0.01
308 30 0.11
309 82 0.29
310 41 0.14
311 115 0.40
312 12 0.04
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.25
Consensus pattern (309 bp):
AGGACTCAATTCTAAAGAAATTATGAAAATACCCTTAAGGTATACCTTCACGTAAAAAAGTATTC
TGACAACCTTAAAGGACAAAAAAATGATATAAAAGGATAAACCTATCCTAAAAGCACACCTTTGG
CAAAAAAGTAACCCAGTGACAACCTAGGACTCGATTCAAGAGAAAATTACCAAAATACCCCTAAA
GTATCTTCGACGTGAAAGTATCTCAATAACCCTAAAAGCATAAAAAGATTAGTAAAATGACAAAC
CTATCCCAAATACACAACTTTGGAATAAAATCAACCAAGTGACAACCTA
Found at i:3348881 original size:51 final size:50
Alignment explanation
Indices: 3348826--3348922 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 50
3348816 TACATGTATG
*
3348826 AATGTATCGATACATTCTATCTTTTTACCCAGATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTATCTTTTTACCCAAATGTATCGAT-CATTTTTC
3348877 AATGTATCGATACATTCTATCTTTTTACCCAAATGTATCGATCATT
1 AATGTATCGATACATTCTATCTTTTTACCCAAATGTATCGATCATT
3348923 GAATAATGCA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (50 bp):
AATGTATCGATACATTCTATCTTTTTACCCAAATGTATCGATCATTTTTC
Found at i:3353348 original size:79 final size:79
Alignment explanation
Indices: 3353240--3353703 Score: 465
Period size: 80 Copynumber: 5.9 Consensus size: 79
3353230 TCATCGATGT
* * * * * * *
3353240 TTTTATTTCCAAAATAT-AATTTTCCACCATTGGGAACACTCCAACCCTGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGA
*
3353304 TACTCTGACCTCGA
66 TACTCTAACCTCGA
* * *
3353318 CTTTATTTTTAAAACATCGATTTTTCACCATCGGAGAA-ACTCCAACCCCGTTATTTTTGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGG-GAATACTCCAACCCCGTTATTTTCGAGGGG
*
3353382 ATACTCTAACCTCGG
65 ATACTCTAACCTCGA
* * * * * * **
3353397 TTTTATTCCTAAAACATTGATTTTTTCACTATCGGGGATACACTAACCCCGTTATTTTCGAAAGG
1 TTTTATTTCTAAAACATCGA-TTTTTCACCATCGGGAATACTCCAACCCCGTTATTTTCGAGGGG
3353462 ATACTCTAACCTCGA
65 ATACTCTAACCTCGA
* * ** * *
3353477 TTTTATTCCTAAAACATCGATTTTTCCACTATCAAGAATACTCCAACCCCATTA-TTTCTGAGGA
1 TTTTATTTCTAAAACATCGATTTTT-CACCATCGGGAATACTCCAACCCCGTTATTTTC-GAGGG
* *
3353541 GATACTCCAACCCCGA
64 GATACTCTAACCTCGA
* * *
3353557 TTTTATTTCTAAAATA-CTAATTTGTCACCATCAGGG-ATACTCCAACCCCGTTATTTTCGA-GG
1 TTTTATTTCTAAAACATC-GATTTTTCACCATC-GGGAATACTCCAACCCCGTTATTTTCGAGGG
**
3353619 GATACTCCGACCTCGA
64 GATACTCTAACCTCGA
* * * * * * *
3353635 TTTTATTTC-AAAACACCGATCTTTCACTATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACCATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGA
3353699 TACTC
66 TACTC
3353704 CAATCCCATT
Statistics
Matches: 320, Mismatches: 54, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
76 3 0.01
77 36 0.11
78 47 0.15
79 102 0.32
80 132 0.41
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACCATCGGGAATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCTAACCTCGA
Found at i:3353467 original size:80 final size:79
Alignment explanation
Indices: 3353277--3353788 Score: 463
Period size: 80 Copynumber: 6.5 Consensus size: 79
3353267 CATTGGGAAC
* * * * *
3353277 ACTCCAACCCTGTTATTTTCGAGGGGATACTCTGACCTCGACTTTATTTTTAAAACATCGATTTT
1 ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTT
* * *
3353342 TCACCATCGGAGAA
66 TCACTATCGGGGAT
* * * * *
3353356 ACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCTCGGTTTTATTCCTAAAACATTGATTTT
1 ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGA-TTT
3353421 TTCACTATCGGGGAT
65 TTCACTATCGGGGAT
* * * *
3353436 ACACTAACCCCGTTATTTTCGAAAGGATACTCTAACCTCGATTTTATTCCTAAAACATCGATTTT
1 ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTT
** *
3353501 TCCACTATCAAGAAT
66 T-CACTATCGGGGAT
* * * * *
3353516 ACTCCAACCCCATTA-TTTCTG-AGGAGATACTCCAACCCCGATTTTATTTCTAAAATA-CTAAT
1 ACTCCAACCCCGTTATTTTC-GAAGG-GATACTCTAACCTCGATTTTATTTCTAAAACATC-GAT
* * *
3353578 TTGTCACCATCAGGGAT
63 TTTTCACTATCGGGGAT
** * *
3353595 ACTCCAACCCCGTTATTTTCG-AGGGATACTCCGACCTCGATTTTATTTC-AAAACACCGATCTT
1 ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTT
3353658 TCACTATCGGGGAT
66 TCACTATCGGGGAT
* * * * **
3353672 ACTCTAACCCCGTTA-TTTCCAAGGGGATACTCCAATCC-C-ATTTTTATCTT-TAAAATATTAA
1 ACTCCAACCCCGTTATTTTCGAA-GGGATACTCTAA-CCTCGA-TTTTAT-TTCTAAAACA-TCG
3353733 ATTTTT--C-ATCGGGGGATGT
61 ATTTTTCACTATC-GGGGA--T
* *
3353752 ACTCCAACCCCGTTATTTTTGAAGGAATACTCTAACC
1 ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACC
3353789 CCATTTTTAT
Statistics
Matches: 359, Mismatches: 56, Indels: 36
0.80 0.12 0.08
Matches are distributed among these distances:
76 4 0.01
77 39 0.11
78 48 0.13
79 104 0.29
80 159 0.44
81 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (79 bp):
ACTCCAACCCCGTTATTTTCGAAGGGATACTCTAACCTCGATTTTATTTCTAAAACATCGATTTT
TCACTATCGGGGAT
Found at i:3353500 original size:159 final size:158
Alignment explanation
Indices: 3353280--3353715 Score: 520
Period size: 159 Copynumber: 2.8 Consensus size: 158
3353270 TGGGAACACT
* * * *
3353280 CCAACCCTGTTATTTTCGAGGGGATACTCTGACCTCGACTTTATTTTTAAAACATCGATTTTTCA
1 CCAACCCCGTTATTTTCGAAGGGATACTCTGACCTCGATTTTATTTCTAAAACATCGATTTTTCA
* * * * *
3353345 CCATCGGAGAAACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCTCGGTTTTATTCCTAAA
66 CTATCGGAGAAACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCTAAA
* * * * *
3353410 ACATTGATTTTTTCACTATCGGGGATACA
131 ACACT-AATTTGTCACCATCAGGGATACA
* * * *
3353439 CTAACCCCGTTATTTTCGAAAGGATACTCTAACCTCGATTTTATTCCTAAAACATCGATTTTTCC
1 CCAACCCCGTTATTTTCGAAGGGATACTCTGACCTCGATTTTATTTCTAAAACATCGATTTTT-C
* * * *
3353504 ACTATC-AAGAATACTCCAACCCCATTATTTCTGAGGAGATACTCCAACCCCGATTTTATTTCTA
65 ACTATCGGAGAA-ACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCTA
* *
3353568 AAATACTAATTTGTCACCATCAGGGATACT
129 AAACACTAATTTGTCACCATCAGGGATACA
* * *
3353598 CCAACCCCGTTATTTTCG-AGGGATACTCCGACCTCGATTTTATTTC-AAAACACCGATCTTTCA
1 CCAACCCCGTTATTTTCGAAGGGATACTCTGACCTCGATTTTATTTCTAAAACATCGATTTTTCA
* * * ** *
3353661 CTATCGGGGATACTCTAACCCCGTTATTTCCAAGGGGATACTCCAATCCC-ATTTT
66 CTATCGGAGAAACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTT
3353716 TATCTTTAAA
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
155 5 0.02
156 40 0.17
157 15 0.06
158 24 0.10
159 94 0.40
160 56 0.24
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (158 bp):
CCAACCCCGTTATTTTCGAAGGGATACTCTGACCTCGATTTTATTTCTAAAACATCGATTTTTCA
CTATCGGAGAAACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTCCTAAA
ACACTAATTTGTCACCATCAGGGATACA
Found at i:3353760 original size:236 final size:239
Alignment explanation
Indices: 3353337--3353815 Score: 523
Period size: 236 Copynumber: 2.0 Consensus size: 239
3353327 TAAAACATCG
* * * *
3353337 ATTTTTCACCATCGGAGAAACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCTCGGTTTTA
1 ATTTGTCACCATCGGAGAAACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTTA
** * *
3353402 TTCCTAAAACATTGATTTTTTCACTATCGGGGATACACTAACCCCGTTATTTTCGAAAGGATACT
66 TTCCTAAAACACCGATTCTTTCACTATCGGGGATACACTAACCCCGTTATTTTCCAAAGGATACT
* ** *
3353467 CTAACCTCGATTTTATTCCTAAAACATCGATTTTTCCACTATCAAGAATACTCCAACCCCATTAT
131 CCAACCTCGATTTTATTCCTAAAACATAAATTTTTCCACTAGCAAGAATACTCCAACCCCATTAT
* *
3353532 TTCTG-AGGAGATACTCCAACCCCGA-TTTTATTTCTAAAATACTA
196 TTCTGAAGGA-ATACTCCAACCCC-ATTTTTATCTCCAAAATACTA
* *
3353576 ATTTGTCACCATCAGG-GATACTCCAACCCCGTTATTTTCGA-GGGATACTCCGACCTCGATTTT
1 ATTTGTCACCATC-GGAGAAACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTT
* * *
3353639 ATTTC-AAAACACCGA-TCTTTCACTATCGGGGATACTCTAACCCCGTTA-TTTCCAAGGGGATA
65 ATTCCTAAAACACCGATTCTTTCACTATCGGGGATACACTAACCCCGTTATTTTCCAA-AGGATA
* * * *** *
3353701 CTCCAATCC-C-ATTTT-TATCTTTAAAATATTAAATTTTT-CA-TCGGGGGATGTACTCCAACC
129 CTCCAA-CCTCGATTTTAT-TC-CTAAAACA-TAAATTTTTCCACTAGCAAGA-ATACTCCAACC
* * * *
3353761 CCGTTATTTTTGAAGGAATACTCTAACCCCATTTTTATCTCCAAAATATTA
189 CCATTATTTCTGAAGGAATACTCCAACCCCATTTTTATCTCCAAAATACTA
3353812 ATTT
1 ATTT
3353816 TTTTCATCGG
Statistics
Matches: 201, Mismatches: 30, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
234 1 0.00
235 17 0.08
236 102 0.51
237 21 0.10
238 23 0.11
239 35 0.17
240 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (239 bp):
ATTTGTCACCATCGGAGAAACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTTA
TTCCTAAAACACCGATTCTTTCACTATCGGGGATACACTAACCCCGTTATTTTCCAAAGGATACT
CCAACCTCGATTTTATTCCTAAAACATAAATTTTTCCACTAGCAAGAATACTCCAACCCCATTAT
TTCTGAAGGAATACTCCAACCCCATTTTTATCTCCAAAATACTA
Found at i:3353792 original size:80 final size:81
Alignment explanation
Indices: 3353671--3353841 Score: 229
Period size: 80 Copynumber: 2.1 Consensus size: 81
3353661 CTATCGGGGA
* * * **
3353671 TACTCTAACCCCGTTATTTCCAAGGGGATACTCCAATCCCATTTTTATCTTTAAAATATTAA-AT
1 TACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCATTTTTATCTCCAAAATATTAATAT
3353735 TTTTCATCGGGGGATG
66 TTTTCATCGGGGGATG
** * *
3353751 TACTCCAACCCCGTTATTTTTGAA-GGAATACTCTAACCCCATTTTTATCTCCAAAATATTAATT
1 TACTCCAACCCCGTTA-TTTCCAAGGGAATACTCCAACCCCATTTTTATCTCCAAAATATTAATA
3353815 TTTTTCATCGGGGGATG
65 TTTTTCATCGGGGGATG
*
3353832 TATTCCAACC
1 TACTCCAACC
3353842 ACGTACCCCG
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 48 0.61
81 31 0.39
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCATTTTTATCTCCAAAATATTAATAT
TTTTCATCGGGGGATG
Found at i:3356693 original size:153 final size:158
Alignment explanation
Indices: 3356351--3356786 Score: 488
Period size: 153 Copynumber: 2.7 Consensus size: 158
3356341 TTTTTTTTTG
* * * * * ** * *
3356351 AAAATATCATTTCGTACTTTATTGGAAGCCTTAAAAGATACAAAAAGTTTATGAAATCTTTTATA
1 AAAATACCATTTCGCACCTTAATAGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
* * * *
3356416 CCCCTACAGACTCCTTATAGGAATATAAAGATTAGAAAAATT-ATTAATATTTACTTTAATAATG
66 CCCCTACGGAC-CC-CATAGAAATATAAAGATTAG-AAAATTGATTAATATTTACTTCAATAAT-
*
3356480 AAGGTGTTAATTTAATTTAACTTATTTATTTTTTAA
127 -AGGTGTTAATTTAA-TT-A-TTATTTATTTTCTAA
* * * *
3356516 AAAATATCATTTCGTACTTTAATAGAAGCCCAAAAAAATACGAAAAGTTTTTGAAATCTTTT-TA
1 AAAATACCATTTCGCACCTTAATAGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
*
3356580 CCCCTATGGACCCCATAGAAATATAAAGATTAGAAAATTGATTAATATTTACTTCAATAAT-GGT
66 CCCCTACGGACCCCATAGAAATATAAAGATTAGAAAATTGATTAATATTTACTTCAATAATAGGT
*
3356644 GTTAATTTAA-T-TTATTTA-TTTCTGA
131 GTTAATTTAATTATTATTTATTTTCTAA
* * * *
3356669 CAAATACCATTTCGCACCTTAATAGAAGTCCGAAAAGATACGAAAAGTTCTTGAAATCTTTTATA
1 AAAATACCATTTCGCACCTTAATAGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
* * * *
3356734 CCCCTGCGAACCCCATAGGAATATAAAAAGATTAGAAAAATGATTAATATTTA
66 CCCCTACGGACCCCATA-GAA-ATATAAAGATTAGAAAATTGATTAATATTTA
3356787 AATATCTTTA
Statistics
Matches: 240, Mismatches: 27, Indels: 17
0.85 0.10 0.06
Matches are distributed among these distances:
153 59 0.25
154 23 0.10
155 3 0.01
156 29 0.12
157 1 0.00
159 13 0.05
161 6 0.03
162 38 0.16
163 2 0.01
164 11 0.05
165 55 0.23
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (158 bp):
AAAATACCATTTCGCACCTTAATAGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATA
CCCCTACGGACCCCATAGAAATATAAAGATTAGAAAATTGATTAATATTTACTTCAATAATAGGT
GTTAATTTAATTATTATTTATTTTCTAA
Found at i:3357712 original size:3 final size:3
Alignment explanation
Indices: 3357698--3357747 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
3357688 ATATTAAGCC
*
3357698 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3357746 TA
1 TA
3357748 TGTTAGAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3361313 original size:2 final size:2
Alignment explanation
Indices: 3361308--3361340 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3361298 TAATGTAGAA
3361308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3361341 AGTTTGAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3362319 original size:19 final size:19
Alignment explanation
Indices: 3362295--3362333 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3362285 CTACAGTTAG
*
3362295 TGTTTACATTATAATAATT
1 TGTTTACATTATAACAATT
* *
3362314 TGTTTATATTTTAACAATT
1 TGTTTACATTATAACAATT
3362333 T
1 T
3362334 ATATGATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
TGTTTACATTATAACAATT
Found at i:3363726 original size:22 final size:21
Alignment explanation
Indices: 3363692--3363738 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
3363682 TTATACTATA
* *
3363692 ATATTATATATATTTATTCTTT
1 ATATAATAGATATTTATT-TTT
3363714 ATATAATAGATATTTATTTTT
1 ATATAATAGATATTTATTTTT
3363735 ATAT
1 ATAT
3363739 GATAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
ATATAATAGATATTTATTTTT
Found at i:3365630 original size:33 final size:33
Alignment explanation
Indices: 3365588--3365652 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
3365578 TTAGAAGCAA
*
3365588 TGTATCGATACAAT-TCATCATATATCGATACAT
1 TGTATCGATACAATAT-ACCATATATCGATACAT
*
3365621 TGTATCGATACAATATACCATGTATCGATACA
1 TGTATCGATACAATATACCATATATCGATACA
3365653 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATATACCATATATCGATACAT
Found at i:3366464 original size:28 final size:28
Alignment explanation
Indices: 3366428--3366483 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
3366418 GGTCTTAAAG
3366428 TACTATTACTAAAATAACCTTAATAGAC
1 TACTATTACTAAAATAACCTTAATAGAC
3366456 TACTATTACTAAAATAACCTTAATAGAC
1 TACTATTACTAAAATAACCTTAATAGAC
3366484 ATGTTTCGAC
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:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (28 bp):
TACTATTACTAAAATAACCTTAATAGAC
Found at i:3366641 original size:74 final size:75
Alignment explanation
Indices: 3366459--3366664 Score: 211
Period size: 74 Copynumber: 2.7 Consensus size: 75
3366449 AATAGACTAC
* ** * *
3366459 TATTACTAAAATAACCTTAATAGACATGTTTCGACACAAAAGGTTTTCACATGATCCTAGAATCA
1 TATTACTAAAATAACCTTAATAGAAATGTTTCGACATGAAA--TTTCCACATGATCATAGAATCA
* *
3366524 GTTTTAAGGTAT
64 GATTTAAGGTAG
* * *
3366536 TATTACTAAAATAACCTTAATGGACAA-GTTTCGACATGAAATTTCCACATGATCATATACTC-G
1 TATTACTAAAATAACCTTAATAGA-AATGTTTCGACATGAAATTTCCACATGATCATAGAATCAG
3366599 ATTTAAGGTAG
65 ATTTAAGGTAG
* * * **
3366610 TATTAC-ATAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATC
1 TATTACTA-AAATAACCTTAATAGAAATGTTTCGACATGAAATTTC-CACATGATC
3366665 CTAAGGTAAT
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
73 3 0.03
74 44 0.40
75 26 0.24
77 35 0.32
78 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (75 bp):
TATTACTAAAATAACCTTAATAGAAATGTTTCGACATGAAATTTCCACATGATCATAGAATCAGA
TTTAAGGTAG
Found at i:3366758 original size:84 final size:84
Alignment explanation
Indices: 3366617--3366784 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
3366607 TAGTATTACA
3366617 TAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATCCTAAGGTAATGGAAATT
1 TAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATCCTAAGGTAATGGAAATT
3366682 CTCGCAATGACCTTAAATT
66 CTCGCAATGACCTTAAATT
3366701 TAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATCCTAAGGTAATGGAAATT
1 TAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATCCTAAGGTAATGGAAATT
*
3366766 CTTGCAATGACCTTAAATT
66 CTCGCAATGACCTTAAATT
3366785 AGGTAGAATA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (84 bp):
TAAATACCCTTAGTAGAAATGTTTCGACCTGAACGTTCTCACATGATCCTAAGGTAATGGAAATT
CTCGCAATGACCTTAAATT
Found at i:3367016 original size:58 final size:58
Alignment explanation
Indices: 3366885--3367031 Score: 170
Period size: 58 Copynumber: 2.5 Consensus size: 58
3366875 ATGAAATTGC
* * * *
3366885 AAAATAGTCCCTAATATGTATGAAATTGCATAAGGATCCCTAAATCATGAAAAATGACT
1 AAAATAGT-CCTAAAATGCATGAAATTGCATAAGGATCCCTAAATCATAAAAAATAACT
* * * * *
3366944 AACATAGCCCTAAAATGCATGAATTTGCATAATGG-TCCTTAAATCATAAAAAATAATT
1 AAAATAGTCCTAAAATGCATGAAATTGCATAA-GGATCCCTAAATCATAAAAAATAACT
* *
3367002 AAAATAGTCTTAAAATACATGAAATTGCAT
1 AAAATAGTCCTAAAATGCATGAAATTGCAT
3367032 GATAGTCCCT
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
58 65 0.89
59 8 0.11
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (58 bp):
AAAATAGTCCTAAAATGCATGAAATTGCATAAGGATCCCTAAATCATAAAAAATAACT
Found at i:3368657 original size:29 final size:32
Alignment explanation
Indices: 3368601--3368679 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 32
3368591 GGTCAGCCAT
*
3368601 CTTAGGGATAATG-CTCAAAGAATTCAACC-C
1 CTTAGGGATAAAGACTCAAAGAATTCAACCAC
3368631 CTTAGGGATAAAGAC-C-AAGAATTCAACCAAC
1 CTTAGGGATAAAGACTCAAAGAATTCAACC-AC
3368662 CTCCTAGGGATAAAGACT
1 CT--TAGGGATAAAGACT
3368680 AAAAAGCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
29 12 0.29
30 13 0.31
31 4 0.10
33 13 0.31
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (32 bp):
CTTAGGGATAAAGACTCAAAGAATTCAACCAC
Found at i:3368741 original size:23 final size:24
Alignment explanation
Indices: 3368715--3368760 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
3368705 GGTTTCCACG
* *
3368715 TTTGATTTAAA-TTCTAGTTTTAA
1 TTTGATTCAAACTTCTAATTTTAA
3368738 TTTGATTCAAACTTCTAATTTTA
1 TTTGATTCAAACTTCTAATTTTA
3368761 TTTTCTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54
Consensus pattern (24 bp):
TTTGATTCAAACTTCTAATTTTAA
Found at i:3370649 original size:19 final size:21
Alignment explanation
Indices: 3370606--3370658 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
3370596 CACACCCAGA
*
3370606 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCCT
3370626 TGTATCGATACATGT-T-CCT
1 TGTATCGATACATGTATGCCT
3370645 TGTATCGATACATG
1 TGTATCGATACATG
3370659 GACAATTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCCT
Found at i:3370669 original size:20 final size:19
Alignment explanation
Indices: 3370625--3370674 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
3370615 ACATTATGCT
** *
3370625 TTGTATCGATACATGTTCC
1 TTGTATCGATACATGGACA
3370644 TTGTATCGATACATGGACAA
1 TTGTATCGATACATGGAC-A
3370664 TTGTATCGATA
1 TTGTATCGATA
3370675 TATGAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATGGACA
Found at i:3370732 original size:20 final size:20
Alignment explanation
Indices: 3370707--3370760 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
3370697 CTACCACTGT
*
3370707 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
3370727 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
3370747 TTGTATCGATACAT
1 TTGTATCGATACAT
3370761 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:3372365 original size:9 final size:9
Alignment explanation
Indices: 3372348--3372381 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
3372338 GTCAACTATC
3372348 AATGATGAT
1 AATGATGAT
3372357 GAA-GATGAT
1 -AATGATGAT
3372366 AATGATGAT
1 AATGATGAT
3372375 AATGATG
1 AATGATG
3372382 GTGACTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:3379507 original size:13 final size:13
Alignment explanation
Indices: 3379489--3379513 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3379479 CATTATGCTT
3379489 TGTATCGATACAA
1 TGTATCGATACAA
3379502 TGTATCGATACA
1 TGTATCGATACA
3379514 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3379510 original size:33 final size:32
Alignment explanation
Indices: 3379468--3379532 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
3379458 ACACACCCAG
*
3379468 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
3379501 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
3379533 TGGACAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:3379544 original size:20 final size:20
Alignment explanation
Indices: 3379498--3379554 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
3379488 TTGTATCGAT
*
3379498 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
3379517 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
3379536 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
3379555 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:3379611 original size:20 final size:20
Alignment explanation
Indices: 3379583--3379636 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
3379573 CTACCACTGT
*
3379583 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
3379603 TTGTGTCGATACATGATGAA
1 TTGTATCGATACATGATGAA
3379623 TTGTATCGATACAT
1 TTGTATCGATACAT
3379637 TGCTTCTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:3386059 original size:51 final size:51
Alignment explanation
Indices: 3385992--3386103 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
3385982 AATAACAAGG
* *
3385992 TTGGAGTATCCCCGATTGT-GAAAAATCGATGA-TTTAGAAATAAAATCGGGA
1 TTGGAGTATCCCCGATTATAG-AAAATCGAT-ACTTTAAAAATAAAATCGGGA
* *
3386043 TTGGAGTATCCTCGATTATAGAAAATTGATACTTTAAAAATAAAATCGGGA
1 TTGGAGTATCCCCGATTATAGAAAATCGATACTTTAAAAATAAAATCGGGA
*
3386094 TTGGAATATC
1 TTGGAGTATC
3386104 TCTGTGAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 1 0.02
51 52 0.96
52 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTATAGAAAATCGATACTTTAAAAATAAAATCGGGA
Found at i:3386244 original size:28 final size:28
Alignment explanation
Indices: 3386170--3386244 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
3386160 AATAAAGCTA
* ***
3386170 GGGTTGGAGAATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
3386198 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
3386226 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
3386245 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.21
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:3386341 original size:51 final size:50
Alignment explanation
Indices: 3386227--3386343 Score: 144
Period size: 51 Copynumber: 2.3 Consensus size: 50
3386217 GAAATAACGG
* *
3386227 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCA
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATAA
** * * * *
3386277 GAGTTAAAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATTAA
1 G-GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAA-TAA
3386329 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
3386344 TCGGAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
50 1 0.02
51 50 0.93
52 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATAA
Found at i:3386370 original size:237 final size:237
Alignment explanation
Indices: 3385955--3386384 Score: 530
Period size: 237 Copynumber: 1.8 Consensus size: 237
3385945 TTTGGAGATC
*
3385955 ATAACGGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATCG
1 ATAACGGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATAG
* ** * *
3386020 ATGATTTAGAAATAAAATCGGGATTGGAGTATCCTCGATTATAGAAAATTGATACTTTAAAAATA
66 ATGATTTAGAAATAAAATCGAGATTAAAATATCCCCGATTATAGAAAATTGATACTTTAAAAATA
** * * *
3386085 AAATCGGGATTGGAATATCTCTGTGAAAATAATGGGGTTAGAGTATCCCCGATTATGAGAAATCA
131 AAATAAGGATTGGAATATCCCTGTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCA
3386150 GTATTTTGGAAATAAAGCTAGGGTTGGAGAATCCCCTCGGAA
196 GTATTTTGGAAATAAAGCTAGGGTTGGAGAATCCCCTCGGAA
* * **
3386192 ATAACGGGGTTGGAGTATCCCC-GATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATT
1 ATAACGGGGTTGGAGTATCCCCTCA-AAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAA-T
* * * * * * ** *
3386256 AG-TGTTTTGGAAATAAAATC-AGAGTTAAAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAA
64 AGATGATTTAGAAATAAAATCGAGA-TTAAAATATCCCCGATTATAGAAAATTGATACTTTAAAA
* *
3386319 ATAAAATTAAGG-TTGGAGTATCCCCTCG-G-AAATAACGGGGTTGGAGTATCCCCGATTATGAA
128 ATAAAA-TAAGGATTGGAATAT-CCCT-GTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAA
3386381 AAAT
190 AAAT
3386385 TGATGTTTTA
Statistics
Matches: 161, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
236 3 0.02
237 148 0.92
238 9 0.06
239 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (237 bp):
ATAACGGGGTTGGAGTATCCCCTCAAAAATAACAAGGTTGGAGTATCCCCGATTGTGAAAAATAG
ATGATTTAGAAATAAAATCGAGATTAAAATATCCCCGATTATAGAAAATTGATACTTTAAAAATA
AAATAAGGATTGGAATATCCCTGTGAAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCA
GTATTTTGGAAATAAAGCTAGGGTTGGAGAATCCCCTCGGAA
Found at i:3386420 original size:51 final size:51
Alignment explanation
Indices: 3386354--3386485 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
3386344 TCGGAAATAA
*
3386354 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAGAAATAAAAC
* * * **
3386405 CGGGGTTAGAGTATCCCCGATTAAGAAAAATTGACGTTTTGGAAATGGAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAGAAATAAAAC
* *
3386456 CGGGATTGGAGTATCCCCGA-GATGAAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAAT
3386486 CTAGAAATTT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 8 0.11
51 63 0.89
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTAGAAATAAAAC
Found at i:3386437 original size:130 final size:130
Alignment explanation
Indices: 3386199--3386437 Score: 336
Period size: 130 Copynumber: 1.8 Consensus size: 130
3386189 GAAATAACGG
* *
3386199 GGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
1 GGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTT
* * ** * *
3386264 GGAAATAAAATCAGAGTTAAAATATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATTAA
66 AGAAATAAAACCAGAGTTAAAATATCCCCGATTAAGAAAAATTGGTGTTTTAGAAATAAAATTAA
**
3386329 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT-GATGTTT
1 GGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAG-TGTTT
* * * *
3386393 TAGAAATAAAACCGGGGTTAGAGTATCCCCGATTAAGAAAAATTG
65 TAGAAATAAAACCAGAGTTAAAATATCCCCGATTAAGAAAAATTG
3386438 ACGTTTTGGA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
129 1 0.01
130 93 0.99
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (130 bp):
GGTTGGAGTATCCCCGAGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTT
AGAAATAAAACCAGAGTTAAAATATCCCCGATTAAGAAAAATTGGTGTTTTAGAAATAAAATTAA
Found at i:3388700 original size:11 final size:10
Alignment explanation
Indices: 3388676--3388731 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
3388666 AATCCTACTA
3388676 TTTTTCTATT-
1 TTTTTCT-TTC
3388686 TTTTTCCTTTC
1 TTTTT-CTTTC
3388697 TTTTTCTTTC
1 TTTTTCTTTC
3388707 TTTTT-TTTC
1 TTTTTCTTTC
* *
3388716 TCTCTCTTT-
1 TTTTTCTTTC
3388725 TTTTTCT
1 TTTTTCT
3388732 CTATTTTTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 12 0.31
10 20 0.51
11 7 0.18
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:3388706 original size:15 final size:14
Alignment explanation
Indices: 3388684--3388731 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
3388674 TATTTTTCTA
3388684 TTTT-TTTCCTTTCT
1 TTTTCTTTCCTTT-T
3388698 TTTTCTTT-CTTTT
1 TTTTCTTTCCTTTT
*
3388711 TTTTCTCTCTCTTTT
1 TTTTCTTTC-CTTTT
3388726 TTTTCT
1 TTTTCT
3388732 CTATTTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 8 0.27
14 8 0.27
15 14 0.47
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCTTTCCTTTT
Found at i:3388712 original size:25 final size:24
Alignment explanation
Indices: 3388676--3388743 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
3388666 AATCCTACTA
3388676 TTTTTCTATTTTTTTCCTTTCTTT
1 TTTTTCTATTTTTTTCCTTTCTTT
*
3388700 TTCTTTCT-TTTTTTTCTCTCTCTTT
1 TT-TTTCTATTTTTTTC-CTTTCTTT
* *
3388725 TTTTTCTCTATTTTTCCTT
1 TTTTTCTATTTTTTTCCTT
3388744 CACTTTCCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
24 17 0.45
25 21 0.55
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTCTATTTTTTTCCTTTCTTT
Found at i:3388713 original size:13 final size:15
Alignment explanation
Indices: 3388692--3388733 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
3388682 TATTTTTTTC
3388692 CTTTCTTTTTCT-T-T
1 CTTT-TTTTTCTCTCT
3388706 CTTTTTTTTCTCTCT
1 CTTTTTTTTCTCTCT
3388721 CTTTTTTTTCTCT
1 CTTTTTTTTCTCT
3388734 ATTTTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
CTTTTTTTTCTCTCT
Found at i:3388738 original size:13 final size:13
Alignment explanation
Indices: 3388676--3388739 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
3388666 AATCCTACTA
3388676 TTTT-TCTATTTT
1 TTTTCTCTATTTT
* * *
3388688 TTTCCTTTCTTTT
1 TTTTCTCTATTTT
3388701 TCTTTCT-T-TTTT
1 T-TTTCTCTATTTT
* *
3388713 TTCTCTCTCTTTT
1 TTTTCTCTATTTT
3388726 TTTTCTCTATTTT
1 TTTTCTCTATTTT
3388739 T
1 T
3388740 CCTTCACTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
11 4 0.10
12 9 0.22
13 24 0.59
14 4 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTCTATTTT
Found at i:3389474 original size:167 final size:164
Alignment explanation
Indices: 3389301--3389918 Score: 483
Period size: 167 Copynumber: 3.7 Consensus size: 164
3389291 ATTTATGGGT
* * *
3389301 TAGAAAA-TATGATTTTTTGAAAATATGGGCATTTGAAGAGAAAAAATTCAAAATTTATAAAAAT
1 TAGAAAACT-TGATTTTTTGAAAATA-AGGCATTTCAAGAGAAAAAATTCAAAATTTATGAAAAT
* *
3389365 ATATTAATTTTTTAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATA
64 ATATTAATTTTTTAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAAT-
* *
3389430 AAAAACCAATAAAAATCCCTCTGAAAAAATATACGGAG
128 AAAAACTAAAAAAAATCCC-CTGAAAAAATATACGGAG
* * *
3389468 TAGAAAACTCGATTTTTTGGGAAAA-AAGGCATTTCAA-AGAAAAAAATCCAAAACTTATGAAAA
1 TAGAAAACTTGATTTTTT--GAAAATAAGGCATTTCAAGAG-AAAAAATTCAAAATTTATGAAAA
* ** * * *
3389531 T-TAATTAATTTTTTAAAAATAATTTAATATGAACCAAATGATGATATTTGATGAGTTTTAAAAT
63 TAT-ATTAATTTTTTAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAA-
* * * *
3389595 TTGAAAACTAAAAAAAATCCCCTGAAAAACTTTACGGAG
126 ATAAAAACTAAAAAAAATCCCCTGAAAAAATATACGGAG
* * * * *
3389634 TAGAAAACTCT-ATATTTTGAAAATAAAAGAATTTTAAG-G-AAAAATTAAAAATTTTATGAAAA
1 TAGAAAACT-TGATTTTTTGAAAAT-AAGGCATTTCAAGAGAAAAAATTCAAAA-TTTATGAAAA
* * * ** * *
3389696 TATGTGAATTTGTGCAAACTAATTTAATATAAAATAAATAAATAA-ATTTTATGAATTTTGAAAA
63 TATATTAATTTTTTAAAACTAATTTAATATGAAATAAAT-AATAATATTTGATGAATTTT-AAAA
* *** * *
3389760 CTAAAAACTAAAAAAAATCCCCCT-CCCAAATTTATGGAG
126 ATAAAAACTAAAAAAAAT-CCCCTGAAAAAATATACGGAG
* * * * * * * **
3389799 TAGAAAACTCT-A-TATTTCAAAAGT-AGGAAAATTT-TA-AGAAAAAATTCAAAACTCACGCTA
1 TAGAAAACT-TGATTTTTTGAAAA-TAAGG--CATTTCAAGAGAAAAAATTCAAAATTTATGAAA
* * * * *
3389859 ATAAATAAATTTTTGAAAACTAATTTAATAGTG-ATTAAATAATAATATTTGGTGAATTTT
62 ATATATTAATTTTTTAAAACTAATTTAATA-TGAAATAAATAATAATATTTGATGAATTTT
3389919 GATGTTTGAA
Statistics
Matches: 362, Mismatches: 67, Indels: 47
0.76 0.14 0.10
Matches are distributed among these distances:
163 7 0.02
164 71 0.20
165 105 0.29
166 57 0.16
167 114 0.31
168 3 0.01
169 5 0.01
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (164 bp):
TAGAAAACTTGATTTTTTGAAAATAAGGCATTTCAAGAGAAAAAATTCAAAATTTATGAAAATAT
ATTAATTTTTTAAAACTAATTTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATAAA
AACTAAAAAAAATCCCCTGAAAAAATATACGGAG
Found at i:3389769 original size:165 final size:159
Alignment explanation
Indices: 3389339--3389918 Score: 495
Period size: 165 Copynumber: 3.5 Consensus size: 159
3389329 GCATTTGAAG
* * *
3389339 AGAAAAAATTCAAAATTTATAAAAATATATTAATTTTTTAAAACTGATTTAATATGAATTAAATA
1 AGAAAAAATTCAAAATTTAT-GAAA-ATATTAATTTTTTAAAACTAATTTAATATGAAATAAATA
* * *
3389404 ATAATATTTGATGAATTTTAAAAATAAAAAACCAATAAAAATCCCTCTGAAAAAATATACGGAGT
64 ATAA-ATTTGATGAATTTTAAAAAT-AAAAACTAAAAAAAATCCC-CTG-AAAAATTTACGGAGT
* * * * * *
3389469 AGAAAACTCGATTTTTTGGGAAA-AAAGGCATTTCAA
125 AGAAAACTCTATATTTT-GAAAATAAAAGAATTT-TA
* * * **
3389505 AGAAAAAAATCCAAAACTTATGAAAATTAATTAATTTTTTAAAAATAATTTAATATGAACCAAAT
1 AG-AAAAAATTCAAAATTTATGAAAA-T-ATTAATTTTTTAAAACTAATTTAATATGAAATAAAT
* * * * *
3389570 GATGATATTTGATGAGTTTTAAAATTTGAAAACTAAAAAAAATCCCCTGAAAAACTTTACGGAGT
63 AAT-AAATTTGATGAATTTTAAAA-ATAAAAACTAAAAAAAATCCCCTGAAAAA-TTTACGGAGT
3389635 AGAAAACTCTATATTTTGAAAATAAAAGAATTTTA
125 AGAAAACTCTATATTTTGAAAATAAAAGAATTTTA
* * * ** *
3389670 AGGAAAAATTAAAAATTTTATGAAAATATGTGAATTTGTGCAAACTAATTTAATATAAAATAAAT
1 AGAAAAAATTCAAAA-TTTATGAAAATAT-T-AATTTTTTAAAACTAATTTAATATGAAATAAAT
* * *** *
3389735 AAATAAATTTTATGAATTTTGAAAACTAAAAACTAAAAAAAATCCCCCTCCCAAATTTATGGAGT
63 -AATAAATTTGATGAATTTT-AAAAATAAAAACTAAAAAAAAT-CCCCTGAAAAATTTACGGAGT
* *
3389800 AGAAAACTCTATA-TTTCAAAAGTAGGAA-AATTTTA
125 AGAAAACTCTATATTTTGAAAA-TA-AAAGAATTTTA
* * * * * *
3389835 AGAAAAAATTCAAAACTCACGCTAATAA-ATAAATTTTTGAAAACTAATTTAATAGTG-ATTAAA
1 AGAAAAAATTCAAAATTTATG--AA-AATATTAATTTTTTAAAACTAATTTAATA-TGAAATAAA
*
3389898 TAATAATATTTGGTGAATTTT
62 TAATAA-ATTTGATGAATTTT
3389919 GATGTTTGAA
Statistics
Matches: 338, Mismatches: 56, Indels: 42
0.78 0.13 0.10
Matches are distributed among these distances:
163 7 0.02
164 61 0.18
165 122 0.36
166 61 0.18
167 85 0.25
168 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (159 bp):
AGAAAAAATTCAAAATTTATGAAAATATTAATTTTTTAAAACTAATTTAATATGAAATAAATAAT
AAATTTGATGAATTTTAAAAATAAAAACTAAAAAAAATCCCCTGAAAAATTTACGGAGTAGAAAA
CTCTATATTTTGAAAATAAAAGAATTTTA
Found at i:3391158 original size:84 final size:84
Alignment explanation
Indices: 3390978--3391208 Score: 231
Period size: 84 Copynumber: 2.8 Consensus size: 84
3390968 CTAATGAATT
* * * * * *
3390978 AGCAAAGGATAAAAGGTTTAGT-TAGGACTAAGCCGA-TAAGAAAACAAGGGAT-AAAAAGTTGA
1 AGCAAAGGATAAAAGATTTACTCGA-GACTAAGCTGACT-AGTAAATAAGGGATGAAAAAGTTGA
*
3391040 CTAGAACTGAACCAACAAGTT
64 CTAGAACTGAACCAACAAGTC
** * * * *
3391061 AATAGAGGGTAAAAGCTTTACTCGAGACTAAGCTGACTAGTAAATAAGGGATGAAATAGTTGACT
1 AGCAAAGGATAAAAGATTTACTCGAGACTAAGCTGACTAGTAAATAAGGGATGAAAAAGTTGACT
* *
3391126 -GAGATTGAACCGACAAGTC
66 AGA-ACTGAACCAACAAGTC
*
3391145 AGCAAAGGATAAAAGATTTAC-CTGGGACTAAGCTGAC-AGGTAAATAAGGGATGAAAAAGTTGA
1 AGCAAAGGATAAAAGATTTACTC-GAGACTAAGCTGACTA-GTAAATAAGGGATGAAAAAGTTGA
3391208 C
64 C
3391209 CGGGGACTAA
Statistics
Matches: 121, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
83 42 0.35
84 79 0.65
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (84 bp):
AGCAAAGGATAAAAGATTTACTCGAGACTAAGCTGACTAGTAAATAAGGGATGAAAAAGTTGACT
AGAACTGAACCAACAAGTC
Found at i:3391610 original size:42 final size:42
Alignment explanation
Indices: 3391530--3391614 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
3391520 CGATAGGCAA
* *
3391530 ACAAAGGATCAATAAGTCTTCTAGGCCTGAACCAACGGGTAG
1 ACAAAGGACCAATAAGTCTTCTAGGCCGGAACCAACGGGTAG
* * *
3391572 ACAAAGGACCAATAAGTC-TCTTGAGCCGGAGCCGACGGGTAG
1 ACAAAGGACCAATAAGTCTTCTAG-GCCGGAACCAACGGGTAG
3391614 A
1 A
3391615 AAAAATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.16
Consensus pattern (42 bp):
ACAAAGGACCAATAAGTCTTCTAGGCCGGAACCAACGGGTAG
Found at i:3391635 original size:42 final size:42
Alignment explanation
Indices: 3391589--3391714 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 42
3391579 ACCAATAAGT
* *
3391589 CTCTTGAGCCGGAGCCGACGGGTAGA-AAAAATATGAAGAAGC
1 CTCTTGAGCCTGAGCCGACGGGCAGACAAAAA-ATGAAGAAGC
* *
3391631 CTCTT-ATGCCTGAGTCGACGGGCAGACAAAAAATGAAAAAGC
1 CTCTTGA-GCCTGAGCCGACGGGCAGACAAAAAATGAAGAAGC
** **
3391673 CTCCCGAGTTTGAGCCGACGGGCAGACAAAAAATGAAGAAGC
1 CTCTTGAGCCTGAGCCGACGGGCAGACAAAAAATGAAGAAGC
3391715 GTCCTAGGTC
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.90
43 6 0.08
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.14
Consensus pattern (42 bp):
CTCTTGAGCCTGAGCCGACGGGCAGACAAAAAATGAAGAAGC
Found at i:3391738 original size:42 final size:42
Alignment explanation
Indices: 3391646--3391844 Score: 116
Period size: 42 Copynumber: 4.7 Consensus size: 42
3391636 ATGCCTGAGT
* * *
3391646 CGACGGGCAGACAAAAAATGAAAAAGCCTCCCGAGTTTGAGC
1 CGACGGGCAGACAAAAAATGAAAAAGCCTCCAGAGTCTAAGC
* *
3391688 CGACGGGCAGACAAAAAATGAAGAAGCGTCCTAG-GTCTAAGC
1 CGACGGGCAGACAAAAAATGAAAAAGCCTCC-AGAGTCTAAGC
* * * * * * * * * * *
3391730 TGATGGGCATATAAAAGATTAAAAAGTCTCCCGGGTCTGAGT
1 CGACGGGCAGACAAAAAATGAAAAAGCCTCCAGAGTCTAAGC
* * * * * *
3391772 CGACGGGAAGACAAAAGAT-AAAGTAGTCTCCCTGA-TATAAGC
1 CGACGGGCAGACAAAAAATGAAA-AAGCCT-CCAGAGTCTAAGC
* * * *
3391814 CGATGAGCAGACAAAAGATGAAAAAGTCTCC
1 CGACGGGCAGACAAAAAATGAAAAAGCCTCC
3391845 TGGGTCTGAG
Statistics
Matches: 120, Mismatches: 32, Indels: 11
0.74 0.20 0.07
Matches are distributed among these distances:
41 6 0.05
42 107 0.89
43 7 0.06
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (42 bp):
CGACGGGCAGACAAAAAATGAAAAAGCCTCCAGAGTCTAAGC
Found at i:3391738 original size:84 final size:83
Alignment explanation
Indices: 3391600--3392244 Score: 259
Period size: 84 Copynumber: 7.8 Consensus size: 83
3391590 TCTTGAGCCG
* * * * * * *
3391600 GAGCCGACGGGTAGA-AAAAATATGAAGAAGCCTCTTATGCCTGAG-TCGACGGGCAGACAAAAA
1 GAGCCGACGGGAAGACAAAAA-ATGAAGAAG-CTCCTAGGTCTAAGCT-GATGGGCAGACAAAAG
* *
3391663 ATGAAAAAGCCTCCCGAGTTT
63 ATGAAAAAGTCTCCCGAGTCT
* * *
3391684 GAGCCGACGGGCAGACAAAAAATGAAGAAGCGTCCTAGGTCTAAGCTGATGGGCATATAAAAGAT
1 GAGCCGACGGGAAGACAAAAAATGAAGAAGC-TCCTAGGTCTAAGCTGATGGGCAGACAAAAGAT
* *
3391749 TAAAAAGTCTCCCGGGTCT
65 GAAAAAGTCTCCCGAGTCT
* * * * * * * *
3391768 GAGTCGACGGGAAGACAAAAGATAAAGTAGTCTCCCT-GATATAAGCCGATGAGCAGACAAAAGA
1 GAGCCGACGGGAAGACAAAAAATGAAGAAG-CT-CCTAGGTCTAAGCTGATGGGCAGACAAAAGA
* *
3391832 TGAAAAAGTCTCCTGGGTCT
64 TGAAAAAGTCTCCCGAGTCT
** * * * * * * * * *
3391852 GAGCTAACAAGCAA-ACAAAAAGATAAAGAAGTTTCTCGGGTTTGAA-CCGATGGGTAGACAAAA
1 GAGCCGAC-GGGAAGACAAAAA-ATGAAGAAGCTCCT-AGGTCT-AAGCTGATGGGCAGACAAAA
* * *
3391915 GATGAAGAAA-TAC-CTCGGGTTT
62 GATGAA-AAAGT-CTCCCGAGTCT
* * * * * * * ** *
3391937 GAGCTGA-TGGATAGACAAAAGATGAAGAAGTCTCCTGGGTTTGAGTTGA-CAGCAGATAAAAGA
1 GAGCCGACGGGA-AGACAAAAAATGAAGAAG-CTCCTAGGTCTAAGCTGATGGGCAGACAAAAGA
*
3392000 TG-AAAAGTCTCCCGAGTTT
64 TGAAAAAGTCTCCCGAGTCT
* ** * * * * * *
3392019 GACCCGATAGGTAGATAAAAGATGAAAAAGTTTCCCAAGG-CTAAGCTGAT-GG--G-C---AGA
1 GAGCCGACGGGAAGACAAAAAATGAAGAAG-CT-CCTAGGTCTAAGCTGATGGGCAGACAAAAGA
*
3392076 TGAAGAAGTCTCCCGAGTCT
64 TGAAAAAGTCTCCCGAGTCT
** * * * * *
3392096 GAGCCGATAGGTAGATAAAATATGAAGAAGTCTCCCTA-GTCTAAGCTGACGGGAAGACAAAAGA
1 GAGCCGACGGGAAGACAAAAAATGAAGAAG-CT-CCTAGGTCTAAGCTGATGGGCAGACAAAAGA
* **
3392160 TGAAGAAGTCT-CTTAGGTCT
64 TGAAAAAGTCTCCCGA-GTCT
* * * * * * * * * *
3392180 GAGCTGACGGGCAGACAAAAGATAAAGAAGTCTCTTGGGTCTGAGCCGACGGCCAGACAAAAGAT
1 GAGCCGACGGGAAGACAAAAAATGAAGAAG-CTCCTAGGTCTAAGCTGATGGGCAGACAAAAGAT
3392245 CAAAGGTATC
Statistics
Matches: 434, Mismatches: 95, Indels: 64
0.73 0.16 0.11
Matches are distributed among these distances:
76 6 0.01
77 57 0.13
78 2 0.00
80 2 0.00
81 5 0.01
82 39 0.09
83 28 0.06
84 222 0.51
85 67 0.15
86 6 0.01
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (83 bp):
GAGCCGACGGGAAGACAAAAAATGAAGAAGCTCCTAGGTCTAAGCTGATGGGCAGACAAAAGATG
AAAAAGTCTCCCGAGTCT
Found at i:3391977 original size:42 final size:41
Alignment explanation
Indices: 3391696--3392244 Score: 226
Period size: 42 Copynumber: 13.3 Consensus size: 41
3391686 GCCGACGGGC
* * * *
3391696 AGACAAAAAATGAAGAAG-CGTCCTAGGTCTAAGCTGATGGGC
1 AGACAAAAGATGAAGAAGTC-TCCTGGGTCTGAGCTGAT-GGT
* * * * * * *
3391738 ATATAAAAGATTAAAAAGTCTCCCGGGTCTGAG-TCGACGGGA
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCT-GA-TGGT
* * * * * * *
3391780 AGACAAAAGATAAAGTAGTCTCCCT-GATATAAGCCGATGAGC
1 AGACAAAAGATGAAGAAGTCT-CCTGGGTCTGAGCTGATG-GT
* * ** *
3391822 AGACAAAAGATGAAAAAGTCTCCTGGGTCTGAGCTAACAAGC
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGA-TGGT
* * * * * *
3391864 AAACAAAAAGATAAAGAAGT-TTCTCGGGTTTGAACCGATGGGT
1 AGAC-AAAAGATGAAGAAGTCTCCT-GGGTCTGAGCTGAT-GGT
* * *
3391907 AGACAAAAGATGAAGAAAT-ACCTCGGGTTTGAGCTGATGGAT
1 AGACAAAAGATGAAGAAGTCTCCT-GGGTCTGAGCTGATGG-T
* * ** *
3391949 AGACAAAAGATGAAGAAGTCTCCTGGGTTTGAGTTGACAGC
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGATGGT
* * * * * *
3391990 AGATAAAAGATGAA-AAGTCTCCCGAGTTTGACCCGATAGGT
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGAT-GGT
* * * ** *
3392031 AGATAAAAGATGAAAAAGTTTCCCAAGG-CTAAGCTGATGG-
1 AGACAAAAGATGAAGAAGTCT-CCTGGGTCTGAGCTGATGGT
* * *
3392071 -G-C---AGATGAAGAAGTCTCCCGAGTCTGAGCCGATAGGT
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGAT-GGT
* * * * * *
3392108 AGATAAAATATGAAGAAGTCTCCCT-AGTCTAAGCTGACGGGA
1 AGACAAAAGATGAAGAAGTCT-CCTGGGTCTGAGCTGA-TGGT
* * * *
3392150 AGACAAAAGATGAAGAAGTCTCTTAGGTCTGAGCTGACGGGC
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGA-TGGT
* * * * *
3392192 AGACAAAAGATAAAGAAGTCTCTTGGGTCTGAGCCGACGGCC
1 AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGATGG-T
3392234 AGACAAAAGAT
1 AGACAAAAGAT
3392245 CAAAGGTATC
Statistics
Matches: 381, Mismatches: 98, Indels: 56
0.71 0.18 0.10
Matches are distributed among these distances:
34 3 0.01
35 20 0.05
36 2 0.01
38 1 0.00
39 1 0.00
40 17 0.04
41 41 0.11
42 259 0.68
43 37 0.10
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (41 bp):
AGACAAAAGATGAAGAAGTCTCCTGGGTCTGAGCTGATGGT
Found at i:3392103 original size:77 final size:76
Alignment explanation
Indices: 3391997--3392144 Score: 224
Period size: 77 Copynumber: 1.9 Consensus size: 76
3391987 AGCAGATAAA
* *
3391997 AGATGAAAAGTCTCCCGAGTTTGACCCGATAGGTAGATAAAAGATGAAAAAGTTTCCCAAGGCTA
1 AGATGAAAAGTCTCCCGAGTCTGACCCGATAGGTAGATAAAAGATGAAAAAGTCTCCCAAGGCTA
3392062 AGCTGATGGGC
66 AGCTGATGGGC
* * * * *
3392073 AGATGAAGAAGTCTCCCGAGTCTGAGCCGATAGGTAGATAAAATATGAAGAAGTCTCCCTAGTCT
1 AGATGAA-AAGTCTCCCGAGTCTGACCCGATAGGTAGATAAAAGATGAAAAAGTCTCCCAAGGCT
3392138 AAGCTGA
65 AAGCTGA
3392145 CGGGAAGACA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
76 7 0.11
77 57 0.89
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.22
Consensus pattern (76 bp):
AGATGAAAAGTCTCCCGAGTCTGACCCGATAGGTAGATAAAAGATGAAAAAGTCTCCCAAGGCTA
AGCTGATGGGC
Found at i:3392369 original size:44 final size:43
Alignment explanation
Indices: 3392321--3392642 Score: 202
Period size: 44 Copynumber: 7.3 Consensus size: 43
3392311 ATGCAAATTG
* * *
3392321 TTTGACTAGGGTGGTAATCATACGTCAAACAAGAAAGTGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGAAAGTGGAAGA
* * **
3392365 TTTGACCAGGGTGGTAACCATACATCAAATCAG-AATTAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGTGGAAG-A
* * * * * * * *
3392409 TCTGACTAAGCTGGTAACCATATGTCAGACAGAAAAGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAG-AAAGTGGAAGA
* * * *
3392453 TTTGACCAAGGTGGTAACCATTCGTCAAACCGAAA-TGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGTG-GAAG-A
* * *** * * *
3392497 TCTGACCAGGGTGGTAACCATATGTTGGATAGGAAAGAGGCAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACA-GAAAGTGGAAGA
* * *
3392541 TTTGACCAAGGTGGTAACCATACGTTAAATCAG-AA-TGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGTG-GAAG-A
* * * *
3392585 TTTGACTAGGGTGGTAACCATACGTCAGACAGGAAAGAGGTAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACA-GAAAGTGGAAGA
*
3392629 TTTGACCAAGGTGG
1 TTTGACCAGGGTGG
3392643 CAGTTGTAGA
Statistics
Matches: 205, Mismatches: 59, Indels: 28
0.70 0.20 0.10
Matches are distributed among these distances:
42 2 0.01
43 19 0.09
44 166 0.81
45 16 0.08
46 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGTGGAAGA
Found at i:3392451 original size:88 final size:88
Alignment explanation
Indices: 3392323--3392642 Score: 419
Period size: 88 Copynumber: 3.6 Consensus size: 88
3392313 GCAAATTGTT
* * * *
3392323 TGACTAGGGTGGTAATCATACGTCAAACA-AGAAAGTGGCAGATTTGACCAGGGTGGTAACCATA
1 TGACTAGGGTGGTAACCATACGTCAGACAGA-AAAGAGGCAGATTTGACCAAGGTGGTAACCATA
* *
3392387 CATCAAATCAGAATTAAAAGAATC
65 CGTCAAATCAGAATGAAAAGAATC
* * * *
3392411 TGACTAAGCTGGTAACCATATGTCAGACAGAAAAGAGGCAGATTTGACCAAGGTGGTAACCATTC
1 TGACTAGGGTGGTAACCATACGTCAGACAGAAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
*
3392476 GTCAAA-CCGAAATGAAAAGAATC
66 GTCAAATCAG-AATGAAAAGAATC
* * ** * *
3392499 TGACCAGGGTGGTAACCATATGTTGGATAGGAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
1 TGACTAGGGTGGTAACCATACGTCAGACAGAAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
* *
3392564 GTTAAATCAGAATGAAAAGAATT
66 GTCAAATCAGAATGAAAAGAATC
* *
3392587 TGACTAGGGTGGTAACCATACGTCAGACAGGAAAGAGGTAGATTTGACCAAGGTGG
1 TGACTAGGGTGGTAACCATACGTCAGACAGAAAAGAGGCAGATTTGACCAAGGTGG
3392643 CAGTTGTAGA
Statistics
Matches: 201, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
87 2 0.01
88 196 0.98
89 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (88 bp):
TGACTAGGGTGGTAACCATACGTCAGACAGAAAAGAGGCAGATTTGACCAAGGTGGTAACCATAC
GTCAAATCAGAATGAAAAGAATC
Found at i:3393053 original size:27 final size:27
Alignment explanation
Indices: 3393015--3393070 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
3393005 TCGATACATC
*
3393015 TTTCATTGTATCGATACATTCTGGGTT
1 TTTCATTGTATCGATACATTCTAGGTT
3393042 TTTCATTGTATCGATACATTCTAGGTT
1 TTTCATTGTATCGATACATTCTAGGTT
3393069 TT
1 TT
3393071 AACCTAGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (27 bp):
TTTCATTGTATCGATACATTCTAGGTT
Found at i:3393107 original size:78 final size:78
Alignment explanation
Indices: 3392965--3393113 Score: 221
Period size: 78 Copynumber: 1.9 Consensus size: 78
3392955 TGATACATCC
*
3392965 TTCATTGTATCGATACATTCTAGGGTTTTACCCAGATGTATCGATACATCTTTCATTGTATCGAT
1 TTCATTGTATCGATACATTCTAGGGTTTTACCCAGATGTATCGATACATCTTTCAATGTATCGAT
3393030 ACATTCTGGGTTT
66 ACATTCTGGGTTT
* * * *
3393043 TTCATTGTATCGATACATTCTA-GGTTTTAACCTAGATGTATTGATACAT-TTCTTAATGTTTCG
1 TTCATTGTATCGATACATTCTAGGGTTTT-ACCCAGATGTATCGATACATCTT-TCAATGTATCG
3393106 ATACATTC
64 ATACATTC
3393114 AAGCATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
77 8 0.12
78 56 0.88
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (78 bp):
TTCATTGTATCGATACATTCTAGGGTTTTACCCAGATGTATCGATACATCTTTCAATGTATCGAT
ACATTCTGGGTTT
Found at i:3395180 original size:80 final size:80
Alignment explanation
Indices: 3395046--3395411 Score: 327
Period size: 79 Copynumber: 4.6 Consensus size: 80
3395036 TTATTCATGT
* * * * * *
3395046 TTTTATTT-CTAAAACATTGATTTTCCATAATCGGGGATATTCTAACCCCATTATTT-TCAAGAG
1 TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCTATTATTTCT-AAGAG
*
3395109 GATACTCTAACCCCCG
65 GATACTCTAACCCCAG
* * * * *
3395125 TTTTGTTTCCAAAAACATCGATTTTTCATAATTTGGGATACTCCAACCCTGTTATTTCTAAGGGG
1 TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCTATTATTTCTAAGAGG
* * *
3395190 ATACTTTAACCTCGG
66 ATACTCTAACCCCAG
* * * *
3395205 TTTTA-TTCCTAAAACATCAAATTTTCACAATTGGGGATACTCCAACCCCATTATTTC--AGAGG
1 TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCTATTATTTCTAAGA-G
* **
3395267 CGATACTCCAA-CCTTG
65 -GATACTCTAACCCCAG
* * * *
3395283 ATTTTATTT-CTAAAATATCGATTTTTCACAATCGAGGATACTCCAACCCTATTATTTCTAAGAG
1 -TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCTATTATTTCTAAGAG
*
3395347 GATACT-TCAACCCTAG
65 GATACTCT-AACCCCAG
* * * * **
3395363 TTTTATTTCC-AAAACACCAATTTTCCATCATCAGGGATACTCCAACCCT
1 TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCT
3395412 GATTTTATTT
Statistics
Matches: 232, Mismatches: 44, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
77 2 0.01
78 3 0.01
79 155 0.67
80 68 0.29
81 4 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTATTTCCTAAAACATCGATTTTTCATAATTGGGGATACTCCAACCCTATTATTTCTAAGAGG
ATACTCTAACCCCAG
Found at i:3395409 original size:51 final size:51
Alignment explanation
Indices: 3395346--3395469 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
3395336 ATTTCTAAGA
* *
3395346 GGATACTTCAACCCT-AGTTTTATTTCCAAAACACCAATTTTCCATCATCAG
1 GGATACTCCAACCCTGA-TTTTATTTCCAAAACACCAATTTTCCATAATCAG
* * *
3395397 GGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGG
1 GGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCCATAATCAG
* *
3395448 GGATACTCTAACTCCTTATTTT
1 GGATACTCCAAC-CCTGATTTT
3395470 CGAGGGGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
51 55 0.86
52 9 0.14
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (51 bp):
GGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCCATAATCAG
Found at i:3395535 original size:129 final size:130
Alignment explanation
Indices: 3395268--3395515 Score: 342
Period size: 130 Copynumber: 1.9 Consensus size: 130
3395258 TTTCAGAGGC
* * * *
3395268 GATACTCCAACCTTGATTTTATTTCTAAAATATCGATTTTTCACAATCGAGGATACTCCAACCCT
1 GATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCT
*
3395333 ATTATTTCTAAGAGGATACTTCAACCCTAGTTTTATTTCCAAAACACCAATTTTCCATCATCAGG
66 ATTATTTCTAAGAGGATACTTCAACCCAAGTTTTATTTCCAAAACACCAATTTTCCATCATCAGG
* * *
3395398 GATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCTAACTCC
1 GATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAAC-CC
* * *
3395463 --TTATTT-TCGAGGGGATAC-TCTAACCCAAGTTTTATTTCTAAAACACCAATTTT
65 TATTATTTCT-AAGAGGATACTTC-AACCCAAGTTTTATTTCCAAAACACCAATTTT
3395516 TCACAATTGG
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
128 3 0.03
129 44 0.42
130 55 0.53
131 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (130 bp):
GATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCACAATCGAGGATACTCCAACCCT
ATTATTTCTAAGAGGATACTTCAACCCAAGTTTTATTTCCAAAACACCAATTTTCCATCATCAGG
Found at i:3395548 original size:208 final size:209
Alignment explanation
Indices: 3395205--3395584 Score: 484
Period size: 208 Copynumber: 1.8 Consensus size: 209
3395195 TTAACCTCGG
*
3395205 TTTTATTCCTAAAACATCAAATTTTCACAATTGGGGATACTCCAACCCCATTATTTCAGAGGCGA
1 TTTTATTCCTAAAACATCAAATTTTCACAATCGGGGATACTCCAACCCCATTATTTCAGAGGCGA
** * * * *
3395270 TACTCCAACCTTGATTTTATTTCTAAAATATCGATTTTTCACAATCGAGGATACTCCAACCCTAT
66 TACTCCAACCAAGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCAT
* * *
3395335 TATTTCTAAGAGGATACTTCAACCCTAGT-TTTATTTCCAAAACACCAATTTTCCATCATCAGGG
131 TATTTCTAAGAGGATACTCCAACCCCA-TCTTTATCTCCAAAACACCAATTTTCCATCATCAGGG
3395399 ATACTCCAACCCTGA
195 ATACTCCAACCCTGA
* * * *
3395414 TTTTATTTCC-AAAACATC-GATTTTCCATAATCGGGGATACTCTAACTCC-TTATTTTC-GAGG
1 TTTTA-TTCCTAAAACATCAAATTTT-CACAATCGGGGATACTCCAACCCCATTA-TTTCAGAGG
* * * * *
3395475 GGATACTCTAACCCAAG-TTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAGCC
63 CGATACTCCAA-CCAAGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACC
* *
3395539 CCGTTATTTCTAAGGGGATACTCCAACCCCATCTTTATCTCCAAAA
127 CCATTATTTCTAAGAGGATACTCCAACCCCATCTTTATCTCCAAAA
3395585 TATTAAATTT
Statistics
Matches: 145, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
207 1 0.01
208 100 0.69
209 40 0.28
210 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (209 bp):
TTTTATTCCTAAAACATCAAATTTTCACAATCGGGGATACTCCAACCCCATTATTTCAGAGGCGA
TACTCCAACCAAGATTTTATTTCTAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCAT
TATTTCTAAGAGGATACTCCAACCCCATCTTTATCTCCAAAACACCAATTTTCCATCATCAGGGA
TACTCCAACCCTGA
Found at i:3395576 original size:79 final size:77
Alignment explanation
Indices: 3395396--3395584 Score: 200
Period size: 78 Copynumber: 2.4 Consensus size: 77
3395386 TCCATCATCA
* * * * * *
3395396 GGGATACTCCAACCCTGATTTTATTTCCAAAACATCGATTTTCCATAATCGGGGATACTCTAACT
1 GGGATACTCCAACCC-AATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
*
3395461 CCTTATTTTCGAG
65 CCTTATTTTCAAG
* * * * *
3395474 GGGATACTCTAACCCAAGTTTTATTTCTAAAACACCAATTTTTCACAATTGGGGATACTCCAGCC
1 GGGATACTCCAACCCAA-TTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
3395539 CCGTTA-TTTCTAAG
65 CC-TTATTTTC-AAG
* *
3395553 GGGATACTCCAACCCCATCTTTATCTCCAAAA
1 GGGATACTCCAACCCAAT-TTTATTTCCAAAA
3395585 TATTAAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
77 1 0.01
78 59 0.65
79 31 0.34
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (77 bp):
GGGATACTCCAACCCAATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACCC
CTTATTTTCAAG
Found at i:3403728 original size:13 final size:13
Alignment explanation
Indices: 3403710--3403798 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
3403700 ACATAAGTGT
3403710 TGTATCGATACAA
1 TGTATCGATACAA
3403723 TGTATCGATACACAA
1 TGTATCGAT--ACAA
3403738 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
3403755 TGTATCGATACACAA
1 TGTATCGAT--ACAA
*
3403770 GTGTTGTATCGATACAT
1 ----TGTATCGATACAA
3403787 TGTATCGATACA
1 TGTATCGATACA
3403799 TTGATCTTTG
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 30 0.48
15 8 0.13
17 7 0.11
19 18 0.29
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3403734 original size:32 final size:32
Alignment explanation
Indices: 3403689--3403798 Score: 193
Period size: 32 Copynumber: 3.4 Consensus size: 32
3403679 ACAAACAGTA
* *
3403689 AATGTATCAATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACACAAGTGTTGTATCGATAC
3403721 AATGTATCGATACACAAGTGTTGTATCGATAC
1 AATGTATCGATACACAAGTGTTGTATCGATAC
3403753 AATGTATCGATACACAAGTGTTGTATCGATAC
1 AATGTATCGATACACAAGTGTTGTATCGATAC
*
3403785 ATTGTATCGATACA
1 AATGTATCGATACA
3403799 TTGATCTTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 75 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (32 bp):
AATGTATCGATACACAAGTGTTGTATCGATAC
Found at i:3403747 original size:19 final size:19
Alignment explanation
Indices: 3403691--3403785 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
3403681 AAACAGTAAA
* *
3403691 TGTATCAATACATAAGTGT
1 TGTATCGATACACAAGTGT
3403710 TGTATCGAT--ACAA----
1 TGTATCGATACACAAGTGT
3403723 TGTATCGATACACAAGTGT
1 TGTATCGATACACAAGTGT
3403742 TGTATCGAT--ACAA----
1 TGTATCGATACACAAGTGT
3403755 TGTATCGATACACAAGTGT
1 TGTATCGATACACAAGTGT
3403774 TGTATCGATACA
1 TGTATCGATACA
3403786 TTGTATCGAT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 18 0.29
15 8 0.13
17 7 0.11
19 29 0.47
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (19 bp):
TGTATCGATACACAAGTGT
Found at i:3408641 original size:33 final size:32
Alignment explanation
Indices: 3408603--3408669 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
3408593 GTTACAAGCT
3408603 ATGTATCGATACAATTCAT-CATGTATCGATACA
1 ATGTATCGATAC-ATT-ATACATGTATCGATACA
3408636 ATGTATCGATACATTATACCATGTATCGATACA
1 ATGTATCGATACATTATA-CATGTATCGATACA
3408669 A
1 A
3408670 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 2 0.06
32 3 0.09
33 27 0.84
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (32 bp):
ATGTATCGATACATTATACATGTATCGATACA
Found at i:3408654 original size:20 final size:20
Alignment explanation
Indices: 3408631--3408668 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
3408621 TCATGTATCG
3408631 ATACAATGTATCGATACATT
1 ATACAATGTATCGATACATT
*
3408651 ATACCATGTATCGATACA
1 ATACAATGTATCGATACA
3408669 AACAGTGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACAATGTATCGATACATT
Found at i:3408667 original size:13 final size:13
Alignment explanation
Indices: 3408623--3408648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3408613 ACAATTCATC
3408623 ATGTATCGATACA
1 ATGTATCGATACA
3408636 ATGTATCGATACA
1 ATGTATCGATACA
3408649 TTATACCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3409406 original size:44 final size:44
Alignment explanation
Indices: 3409356--3409454 Score: 180
Period size: 44 Copynumber: 2.2 Consensus size: 44
3409346 TCAAAGCAAT
*
3409356 TCTCCCCCTTTGTCAAATGTAAAAATTTATTTATTTTCAATATC
1 TCTCCCCCTTTATCAAATGTAAAAATTTATTTATTTTCAATATC
*
3409400 TCTCCCCGTTTATCAAATGTAAAAATTTATTTATTTTCAATATC
1 TCTCCCCCTTTATCAAATGTAAAAATTTATTTATTTTCAATATC
3409444 TCTCCCCCTTT
1 TCTCCCCCTTT
3409455 TCGTTATAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.04, T:0.45
Consensus pattern (44 bp):
TCTCCCCCTTTATCAAATGTAAAAATTTATTTATTTTCAATATC
Found at i:3417409 original size:20 final size:20
Alignment explanation
Indices: 3417356--3417413 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
3417346 TCCCGTAGCC
* *
3417356 ATGTATCGATACAATT-CATA
1 ATGTATCGATAC-ATTGTACA
3417376 ATGTATCGATACATTGTACA
1 ATGTATCGATACATTGTACA
3417396 ATGTATCGATACATTGTA
1 ATGTATCGATACATTGTA
3417414 TCGATACATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACA
Found at i:3417422 original size:13 final size:13
Alignment explanation
Indices: 3417392--3417422 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3417382 CGATACATTG
*
3417392 TACAATGTATCGA
1 TACATTGTATCGA
3417405 TACATTGTATCGA
1 TACATTGTATCGA
3417418 TACAT
1 TACAT
3417423 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:3417515 original size:19 final size:19
Alignment explanation
Indices: 3417470--3417530 Score: 95
Period size: 20 Copynumber: 3.1 Consensus size: 19
3417460 ACTGCCAATC
*
3417470 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTA
3417489 TCCATGTATCGATACAATTA
1 T-CATGTATCGATACAATTA
3417509 TCATGTATCGATACAATGTA
1 TCATGTATCGATACAAT-TA
3417529 TC
1 TC
3417531 GATATAAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 17 0.44
20 22 0.56
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
TCATGTATCGATACAATTA
Found at i:3420889 original size:31 final size:31
Alignment explanation
Indices: 3420851--3420916 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
3420841 TGCATGCAAG
*
3420851 GCAATGTAGCATGCAATCATGGGAGG-CACAT
1 GCAATGTAGCATGCAATCAT-GGAGGACACAA
3420882 GCAATGTAGCATGCAATCATGGAGGACACAA
1 GCAATGTAGCATGCAATCATGGAGGACACAA
3420913 GCAA
1 GCAA
3420917 ATGGAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (31 bp):
GCAATGTAGCATGCAATCATGGAGGACACAA
Found at i:3422502 original size:16 final size:15
Alignment explanation
Indices: 3422470--3422512 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
3422460 AAAATTTTAA
*
3422470 AAAAT-ATAATAAA-
1 AAAATAATAAAAAAT
3422483 AAAATAATAACAAAAT
1 AAAATAATAA-AAAAT
3422499 AAAATAATAAAAAA
1 AAAATAATAAAAAA
3422513 AATTTTCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 7 0.27
16 10 0.38
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAATAAAAAAT
Found at i:3422513 original size:11 final size:11
Alignment explanation
Indices: 3422467--3422500 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
3422457 AGTAAAATTT
3422467 TAAAAAATATAA
1 TAAAAAA-ATAA
3422479 TAAAAAAATAA
1 TAAAAAAATAA
*
3422490 TAACAAAATAA
1 TAAAAAAATAA
3422501 AATAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:3433030 original size:21 final size:21
Alignment explanation
Indices: 3432986--3433031 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3432976 TTTTTACCAA
*
3432986 AATGTATCGATACATGGCCTT
1 AATGTATCGATACAAGGCCTT
3433007 AATGTATCGATACAAGGTCC-T
1 AATGTATCGATACAAGG-CCTT
3433028 AATG
1 AATG
3433032 GTCAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACAAGGCCTT
Found at i:3435528 original size:51 final size:51
Alignment explanation
Indices: 3435438--3435537 Score: 123
Period size: 51 Copynumber: 2.0 Consensus size: 51
3435428 CCATTTATGT
* * * *
3435438 TTTTATTTCGAAAATACTGATTTTCCACCATTGGCGATACCCCAACCCCGG
1 TTTTATTTCCAAAACACTGATTTTCCACAATAGGCGATACCCCAACCCCGG
*
3435489 TTTTATTTCCAAAACA-TCGATTTTCCACAATCAGG-GATACTCCAACCCC
1 TTTTATTTCCAAAACACT-GATTTTCCACAAT-AGGCGATACCCCAACCCC
3435538 ATTATTTCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 39 0.93
52 2 0.05
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (51 bp):
TTTTATTTCCAAAACACTGATTTTCCACAATAGGCGATACCCCAACCCCGG
Found at i:3435622 original size:79 final size:78
Alignment explanation
Indices: 3435488--3435856 Score: 314
Period size: 79 Copynumber: 4.7 Consensus size: 78
3435478 CCCAACCCCG
* *
3435488 GTTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCCATTATTTCTGAGGGG
1 GTTTTATTTCCAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCCATTATTTCTGAGGGG
*
3435553 ATATTCCAATCCTGA
65 ATACTCCAA-CCTGA
* * * * *
3435568 -TTTTATTTCTAAAACACCGATTTTTCAAAATCGGAGATACTCCAATCCCGTTATTTGC-GATGG
1 GTTTTATTTCCAAAACACCGATTTTTCACAATCGG-GATACTCCAACCCCATTATTT-CTGAGGG
*
3435631 GATACTCCAACCTCA
64 GATACTCCAACCTGA
** * * ** * *
3435646 GTTTTATTTCCAAAACACTAATTTTTTACCATCGGGGATACTCCAACCCTGTTATTTTTGAGGGA
1 GTTTTATTTCCAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCCATTATTTCTGAGGGG
*
3435711 ATACTCTAACCTCGA
65 ATACTCCAACCT-GA
* * * * * * * *
3435726 TTTTTATTTCTAAAACACTGA-TTTTCTATAATCGGCGATACTCTAACCCCATTATTTTTCAAGG
1 GTTTTATTTCCAAAACACCGATTTTTC-ACAATCGG-GATACTCCAACCCCATTATTTCTGAGGG
**
3435790 GATACTCCAACCCCA
64 GATACTCCAACCTGA
* * * * * * *
3435805 GCTTTATCTCTAAAACATC-AATTTTCACCACCGGGGATACTCCAACCCCATT
1 GTTTTATTTCCAAAACACCGATTTTTCACAATC-GGGATACTCCAACCCCATT
3435857 TTTATCTCTA
Statistics
Matches: 233, Mismatches: 46, Indels: 22
0.77 0.15 0.07
Matches are distributed among these distances:
78 26 0.11
79 148 0.64
80 59 0.25
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
GTTTTATTTCCAAAACACCGATTTTTCACAATCGGGATACTCCAACCCCATTATTTCTGAGGGGA
TACTCCAACCTGA
Found at i:3435701 original size:158 final size:159
Alignment explanation
Indices: 3435473--3435856 Score: 456
Period size: 158 Copynumber: 2.4 Consensus size: 159
3435463 CACCATTGGC
* * * * * *
3435473 GATACCCCAACCCCGGTTTTATTTCCAAAACATCGATTTTCCACAATCAGGGATACTCCAACCCC
1 GATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCC
* *
3435538 ATTATTTCTGAGGGGATATTCCAATCCT-GA-TTTTATTTCTAAAACACCGATTTT-TCAAAATC
66 ATTATTTCTGAGGGAATACTCCAA-CCTCGATTTTTATTTCTAAAACACCGATTTTCT-AAAATC
* * *
3435600 GGAGATACTCCAATCCCGTTA-TTTGCGATGG
129 GGAGATACTCCAACCCCATTATTTTGC-AAGG
* *
3435631 GATACTCCAACCTCAGTTTTATTTCCAAAACA-CTAATTTTTTACCATCGGGGATACTCCAACCC
1 GATACTCCAACCCCAGTTTTATTTCCAAAACATC-AATTTTTCACCATCGGGGATACTCCAACCC
** * * * *
3435695 TGTTATTTTTGAGGGAATACTCTAACCTCGATTTTTATTTCTAAAACACTGATTTTCTATAATCG
65 CATTATTTCTGAGGGAATACTCCAACCTCGATTTTTATTTCTAAAACACCGATTTTCTAAAATCG
* * *
3435760 GCGATACTCTAACCCCATTATTTTTCAAGG
130 GAGATACTCCAACCCCATTATTTTGCAAGG
* * * *
3435790 GATACTCCAACCCCAGCTTTATCTCTAAAACATCAA-TTTTCACCACCGGGGATACTCCAACCCC
1 GATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCC
3435854 ATT
66 ATT
3435857 TTTATCTCTA
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
157 4 0.02
158 102 0.54
159 78 0.41
160 6 0.03
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (159 bp):
GATACTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCACCATCGGGGATACTCCAACCCC
ATTATTTCTGAGGGAATACTCCAACCTCGATTTTTATTTCTAAAACACCGATTTTCTAAAATCGG
AGATACTCCAACCCCATTATTTTGCAAGG
Found at i:3443139 original size:79 final size:79
Alignment explanation
Indices: 3443036--3443691 Score: 432
Period size: 79 Copynumber: 8.3 Consensus size: 79
3443026 TCCCAACGAA
* * * *
3443036 AAAATTAATGTTTTGAAAATAAAAATGGGGTTGGAGTATCCCCTCGAAAACAACGAGGTTGGAGT
1 AAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAGT
*
3443101 ATCCTTAATGGT-G
66 ATCCTTGATGGTGG
* * * * * * * *
3443114 AAAAGTTGGTATTTTGGGAATAAAAATAGGGTTGGAGTATTCCCTAGAAAATAACGAGGTTGAAG
1 AAAA-TTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAG
* *
3443179 TATCCCTGATTGTGG
65 TATCCTTGATGGTGG
** * * ** * * * * *
3443194 AAAATCAATGTTTTAGAAATAAAACCGGGGTTGGA-TATACCCT-TAGGAATAACGGGATTGGAG
1 AAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGA-AAACAACGGGGTTGGAG
3443257 TATCCTTGATGGTGG
65 TATCCTTGATGGTGG
* * * * ** * * * *
3443272 AAAATTGGTGTTTTAGAAATAAAACTACGGTTGAAGTATCCCCTC-AGAAATAATGGGGTTAGAG
1 AAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGA-AAACAACGGGGTTGGAG
**
3443336 TATCCCCGATGGTGG
65 TATCCTTGATGGTGG
** * * * *
3443351 AAAATCAATATTTTGAAAAT-AAAATCGGGGTTGGAGTATCTCCTCAAAAACAATGGGGTTGGAG
1 AAAATTGATATTTTGGAAATAAAAAT-GGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAG
* * *
3443415 TATCATCGATGGTGA
65 TATCCTTGATGGTGG
* * * *
3443430 AAAATTGATATTTTGGAAAT-AAAATCGGGGTTGGAGTATCCCCTTGAAATCAATGGGGTTAGAG
1 AAAATTGATATTTTGGAAATAAAAAT-GGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAG
* * *
3443494 TATCCTCGATAGTAG
65 TATCCTTGATGGTGG
* * ** * * * * * * *
3443509 AAAATTGGTGTTTAAGAAAT-AAAATCGAGGTTAGAATATCCCTTTGGAAATAACGGGGTTGGAG
1 AAAATTGATATTTTGGAAATAAAAAT-GGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAG
***
3443573 TATCCCCAATGGTGG
65 TATCCTTGATGGTGG
* * * * * * * * * *
3443588 AAAATCGGTGTTTT-AAAATTAAAATCGGGGTTAGGA-TATCCCTTTGGAAATAACAGGGTTGGA
1 AAAATTGATATTTTGGAAATAAAAAT-GGGGTT-GGAGTATCCCCTCGAAAACAACGGGGTTGGA
*
3443651 GTATACC-CGATGGTGG
64 GTAT-CCTTGATGGTGG
* *
3443667 AAAATTGATGTTTTAGAAATAAAAA
1 AAAATTGATATTTTGGAAATAAAAA
3443692 CATCAATGAA
Statistics
Matches: 467, Mismatches: 100, Indels: 20
0.80 0.17 0.03
Matches are distributed among these distances:
77 1 0.00
78 73 0.16
79 375 0.80
80 18 0.04
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
AAAATTGATATTTTGGAAATAAAAATGGGGTTGGAGTATCCCCTCGAAAACAACGGGGTTGGAGT
ATCCTTGATGGTGG
Found at i:3443470 original size:158 final size:157
Alignment explanation
Indices: 3443036--3443690 Score: 571
Period size: 158 Copynumber: 4.2 Consensus size: 157
3443026 TCCCAACGAA
* * *
3443036 AAAATTAATGTTTTGA-AAATAAAAAT-GGGGTTGGAGTATCCCCTCGAAAACAACGAGGTTGGA
1 AAAATCAATGTTTTGAGAAAT-AAAATCGGGGTTGGAGTAT-CCCTCAAAAACAACGGGGTTGGA
* * * * *
3443099 GTATCCTTAATGGTGAAAAGTTGGTATTTTGGGAATAAAAAT-AGGGTTGGAGTATTCCCTAGAA
64 GTATCCTCAATGGTGAAAAATTGGTATTTTGGAAAT-AAAATCGGGGTTGGAGTATCCCCTAG-A
* * *
3443163 AATAACGAGGTT-GAAGTATCCCTGATTGTGG
127 AATAACGGGGTTAG-AGTATCCCCGATGGTGG
* * ** * *
3443194 AAAATCAATGTTTT-AGAAATAAAACCGGGGTTGGA-TATACCCTTAGGAATAACGGGATTGGAG
1 AAAATCAATGTTTTGAGAAATAAAATCGGGGTTGGAGTAT-CCCTCAAAAACAACGGGGTTGGAG
** * * * *
3443257 TATCCTTGATGGTGGAAAATTGGTGTTTTAGAAATAAAACTAC--GGTTGAAGTATCCCCTCAGA
65 TATCCTCAATGGTGAAAAATTGGTATTTTGGAAATAAAA-T-CGGGGTTGGAGTATCCCCT-AGA
*
3443320 AATAATGGGGTTAGAGTATCCCCGATGGTGG
127 AATAACGGGGTTAGAGTATCCCCGATGGTGG
* *
3443351 AAAATCAATATTTTGA-AAATAAAATCGGGGTTGGAGTATCTCCTCAAAAACAATGGGGTTGGAG
1 AAAATCAATGTTTTGAGAAATAAAATCGGGGTTGGAGTATC-CCTCAAAAACAACGGGGTTGGAG
* * * *
3443415 TATCATCGATGGTGAAAAATTGATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGAAAT
65 TATCCTCAATGGTGAAAAATTGGTATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAT
* * * *
3443480 CAATGGGGTTAGAGTATCCTCGATAGTAG
130 -AACGGGGTTAGAGTATCCCCGATGGTGG
*** * * * * *** *
3443509 AAAATTGGTG-TTTAAGAAATAAAATCGAGGTTAGAATATCCCTTTGGAAATAACGGGGTTGGAG
1 AAAATCAATGTTTTGAGAAATAAAATCGGGGTTGGAGTATCCC-TCAAAAACAACGGGGTTGGAG
* * * * * * *
3443573 TATCCCCAATGGTGGAAAATCGGTGTTTT-AAAATTAAAATCGGGGTTAGGA-TATCCCTTTGGA
65 TATCCTCAATGGTGAAAAATTGGTATTTTGGAAA-TAAAATCGGGGTT-GGAGTATCCC-CTAGA
* * *
3443636 AATAACAGGGTTGGAGTATACCCGATGGTGG
127 AATAACGGGGTTAGAGTATCCCCGATGGTGG
**
3443667 AAAATTGATGTTTT-AGAAATAAAA
1 AAAATCAATGTTTTGAGAAATAAAA
3443691 ACATCAATGA
Statistics
Matches: 406, Mismatches: 72, Indels: 38
0.79 0.14 0.07
Matches are distributed among these distances:
156 5 0.01
157 142 0.35
158 247 0.61
159 12 0.03
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (157 bp):
AAAATCAATGTTTTGAGAAATAAAATCGGGGTTGGAGTATCCCTCAAAAACAACGGGGTTGGAGT
ATCCTCAATGGTGAAAAATTGGTATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTAGAAATA
ACGGGGTTAGAGTATCCCCGATGGTGG
Found at i:3443576 original size:237 final size:236
Alignment explanation
Indices: 3443204--3443690 Score: 583
Period size: 237 Copynumber: 2.1 Consensus size: 236
3443194 AAAATCAATG
* * * *
3443204 TTTTAGAAATAAAACCGGGGTTGGATATACCCTTAGGAATAACGGGATTGGAGTATCCTTGATGG
1 TTTTAGAAATAAAACCGGGGTTGGATATACCCTTAGAAATAACGGGATTAGAGTATCCTCGATAG
* * * *
3443269 TGGAAAATTGGTGTTTTAGAAATAAAACTACGGTTGAAGTATCCCCTCAGAAATAATGGGGTTAG
66 TAGAAAATTGGTGTTTAAGAAATAAAACGACGGTTGAAGTATCCCCTCAGAAATAACGGGGTTAG
*
3443334 AGTATCCCCGATGGTGGAAAATCAATATTTTGAAAA-TAAAATCGGGGTT-GGAGTATCTCC-TC
131 AGTATCCCCAATGGTGGAAAATCAATATTTT-AAAATTAAAATCGGGGTTAGGA-TATC-CCTTC
** *
3443396 AAAAACAATGGGGTTGGAGTAT-CATCGATGGTGAAAAATTGATA
193 AAAAACAACAGGGTTGGAGTATAC-CCGATGGTGAAAAATTGATA
* * * * *
3443440 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTT-GAAATCAATGGGGTTAGAGTATCCTCGAT
1 TTTTAGAAATAAAACCGGGGTTGGA-TATACCCTTAGAAAT-AACGGGATTAGAGTATCCTCGAT
* **
3443504 AGTAGAAAATTGGTGTTTAAGAAATAAAATCGA-GGTTAGAA-TATCCCTTTGGAAATAACGGGG
64 AGTAGAAAATTGGTGTTTAAGAAATAAAA-CGACGGTT-GAAGTATCCCCTCAGAAATAACGGGG
* ** *
3443567 TTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAAAATTAAAATCGGGGTTAGGATATCCCTT
127 TTAGAGTATCCCCAATGGTGGAAAATCAATATTTTAAAATTAAAATCGGGGTTAGGATATCCCTT
*** * * *
3443632 TGGAAATAACAGGGTTGGAGTATACCCGATGGTGGAAAATTGATG
192 CAAAAACAACAGGGTTGGAGTATACCCGATGGTGAAAAATTGATA
3443677 TTTTAGAAATAAAA
1 TTTTAGAAATAAAA
3443691 ACATCAATGA
Statistics
Matches: 212, Mismatches: 31, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
236 33 0.16
237 170 0.80
238 9 0.04
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (236 bp):
TTTTAGAAATAAAACCGGGGTTGGATATACCCTTAGAAATAACGGGATTAGAGTATCCTCGATAG
TAGAAAATTGGTGTTTAAGAAATAAAACGACGGTTGAAGTATCCCCTCAGAAATAACGGGGTTAG
AGTATCCCCAATGGTGGAAAATCAATATTTTAAAATTAAAATCGGGGTTAGGATATCCCTTCAAA
AACAACAGGGTTGGAGTATACCCGATGGTGAAAAATTGATA
Found at i:3446162 original size:51 final size:51
Alignment explanation
Indices: 3446062--3446179 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
3446052 ATACATTAAG
* *
3446062 AAATGTATCAATACATCTAGGTTAAACCCAAAAATTTATCGACACAATGAA
1 AAATGTATCGATACATCTAGGTTAAACCCAAAAATGTATCGACACAATGAA
* ** * * *
3446113 AAATGTATCGATACATCTAGGTTCAAA-CCTATTATGTCTCGATATAATGAA
1 AAATGTATCGATACATCTAGGTT-AAACCCAAAAATGTATCGACACAATGAA
3446164 AAATGTATCGATACAT
1 AAATGTATCGATACAT
3446180 TTACTTATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 55 0.95
52 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (51 bp):
AAATGTATCGATACATCTAGGTTAAACCCAAAAATGTATCGACACAATGAA
Found at i:3448416 original size:19 final size:20
Alignment explanation
Indices: 3448375--3448425 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
3448365 CACACCCAGA
3448375 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCTT
*
3448395 TGTATTGATACATATT-CTT
1 TGTATCGATACATATTGCTT
3448414 TGTATCGATACA
1 TGTATCGATACA
3448426 ACATGAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATATTGCTT
Found at i:3448551 original size:20 final size:20
Alignment explanation
Indices: 3448526--3448563 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3448516 CAACGACTAT
*
3448526 AATTGTATTAATACATTAGG
1 AATTGTATCAATACATTAGG
*
3448546 AATTGTATCGATACATTA
1 AATTGTATCAATACATTA
3448564 AGCCCAATGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (20 bp):
AATTGTATCAATACATTAGG
Found at i:3449039 original size:36 final size:33
Alignment explanation
Indices: 3448991--3449083 Score: 118
Period size: 36 Copynumber: 2.8 Consensus size: 33
3448981 CTAAGTGATT
*
3448991 GAGAGGTTCTATCTTAGCCATTGAAAAAGGTAGG
1 GAGAGGTTCTATCTTAGCC-TTGAAAAAGATAGG
3449025 GAAAGAGGTTCTATCTTAGCCTATG-AAAAGATAGG
1 G--AGAGGTTCTATCTTAGCCT-TGAAAAAGATAGG
*
3449060 GAG-GTTTCTATCTTAGCCTTGAAA
1 GAGAGGTTCTATCTTAGCCTTGAAA
3449084 GATAGTGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
31 2 0.04
32 17 0.32
33 2 0.04
34 1 0.02
35 11 0.21
36 20 0.38
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (33 bp):
GAGAGGTTCTATCTTAGCCTTGAAAAAGATAGG
Found at i:3450702 original size:21 final size:22
Alignment explanation
Indices: 3450678--3450729 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
3450668 GAACAAGAAG
3450678 AGAAAATGAATGAGTTG-GAAA
1 AGAAAATGAATGAGTTGCGAAA
3450699 AGAAAA-GAAATGAGTTGCGAAA
1 AGAAAATG-AATGAGTTGCGAAA
*
3450721 TGAAAATGA
1 AGAAAATGA
3450730 TGAATTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.04
21 15 0.56
22 10 0.37
23 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.27, T:0.17
Consensus pattern (22 bp):
AGAAAATGAATGAGTTGCGAAA
Found at i:3451995 original size:13 final size:13
Alignment explanation
Indices: 3451977--3452017 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
3451967 ACAAAGAAAT
3451977 TTATATCGATACA
1 TTATATCGATACA
3451990 TTATATCGATACA
1 TTATATCGATACA
* *
3452003 ATGTATCGATACA
1 TTATATCGATACA
3452016 TT
1 TT
3452018 GCTTCAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.39
Consensus pattern (13 bp):
TTATATCGATACA
Found at i:3452927 original size:29 final size:29
Alignment explanation
Indices: 3452903--3452958 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
3452893 ATTATTGTTC
3452903 ATTGGTTTAAAGGTGAGAACATATTAATT
1 ATTGGTTTAAAGGTGAGAACATATTAATT
* *
3452932 ATTGGTTTAATGGTGAGAACGTATTAA
1 ATTGGTTTAAAGGTGAGAACATATTAA
3452959 GGGGGAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.38
Consensus pattern (29 bp):
ATTGGTTTAAAGGTGAGAACATATTAATT
Found at i:3453735 original size:24 final size:25
Alignment explanation
Indices: 3453693--3453741 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
3453683 AAATGTATCG
*
3453693 ATACATATTGCTTTGTATCGATACA
1 ATACATATTGCTTTATATCGATACA
*
3453718 ATACATGTT-CTTTATATCGATACA
1 ATACATATTGCTTTATATCGATACA
3453742 TGTTCTTTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (25 bp):
ATACATATTGCTTTATATCGATACA
Found at i:3453742 original size:19 final size:19
Alignment explanation
Indices: 3453718--3453760 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3453708 TATCGATACA
3453718 ATACATGTTCTTTATATCG
1 ATACATGTTCTTTATATCG
*
3453737 ATACATGTTCTTTGTATCG
1 ATACATGTTCTTTATATCG
3453756 ATACA
1 ATACA
3453761 ACATGAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (19 bp):
ATACATGTTCTTTATATCG
Found at i:3453877 original size:32 final size:32
Alignment explanation
Indices: 3453828--3453897 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
3453818 GATACATGGT
* *
3453828 GAATTGTACCGACACATTAAGCCCAATGGCTA
1 GAATTTTACCGACACATTAAGCCCAACGGCTA
* * *
3453860 TAATTTTACCGATACATTGAGCCCAACGGCTA
1 GAATTTTACCGACACATTAAGCCCAACGGCTA
3453892 GAATTT
1 GAATTT
3453898 CAAATGCATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (32 bp):
GAATTTTACCGACACATTAAGCCCAACGGCTA
Found at i:3454350 original size:36 final size:34
Alignment explanation
Indices: 3454305--3454397 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 34
3454295 TTAAGTGATT
3454305 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATA-GG
*
3454340 AGAGAGGTTCTATCTTAGCCTATG-AAAAGATAGG
1 -GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGG
*
3454374 GAG-GTTTCTATCTTAGCC-TTGAAA
1 GAGAGGTTCTATCTTAGCCTTTGAAA
3454398 GATAGTGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 2 0.04
32 16 0.30
33 3 0.06
34 2 0.04
35 8 0.15
36 22 0.42
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGG
Found at i:3455566 original size:20 final size:21
Alignment explanation
Indices: 3455526--3455575 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
3455516 TTGCAATTTA
*
3455526 TATCGATACAACAAGTTAATG
1 TATCGATACAACAAGTGAATG
*
3455547 TATCGATAC-ATAAGTGAATG
1 TATCGATACAACAAGTGAATG
*
3455567 CATCGATAC
1 TATCGATAC
3455576 TGGACCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (21 bp):
TATCGATACAACAAGTGAATG
Found at i:3455720 original size:52 final size:50
Alignment explanation
Indices: 3455613--3455731 Score: 141
Period size: 50 Copynumber: 2.3 Consensus size: 50
3455603 TCTGGAAAGA
* * * * *
3455613 AAATGTATCGATACATTCTTT-ATTGTATCGATACATTCTAGTTTTGATCC
1 AAATATATCGATACATT-TTTCGTTGTATCAACACATTCTAGTTTTGACCC
* *
3455663 AAATATATTGATCCATTTTTCGTTGTATCAACACATTCTGAGTTTTTGACCC
1 AAATATATCGATACATTTTTCGTTGTATCAACACATTCT-AG-TTTTGACCC
3455715 AAATATATCGATACATT
1 AAATATATCGATACATT
3455732 CTTCAATGTA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.05
50 29 0.51
51 2 0.04
52 23 0.40
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (50 bp):
AAATATATCGATACATTTTTCGTTGTATCAACACATTCTAGTTTTGACCC
Found at i:3455742 original size:52 final size:50
Alignment explanation
Indices: 3455613--3455743 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 50
3455603 TCTGGAAAGA
* * * * *
3455613 AAATGTATCGATACATTCTTTATTGTATCGATACATTCTAGTTTTGATCC
1 AAATATATCGATACATTCTTCATTGTATCAACACATTCTAGTTTTGACCC
* * * *
3455663 AAATATATTGATCCATTTTTCGTTGTATCAACACATTCTGAGTTTTTGACCC
1 AAATATATCGATACATTCTTCATTGTATCAACACATTCT-AG-TTTTGACCC
*
3455715 AAATATATCGATACATTCTTCAATGTATC
1 AAATATATCGATACATTCTTCATTGTATC
3455744 GATACATCCA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
50 31 0.48
51 2 0.03
52 32 0.49
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (50 bp):
AAATATATCGATACATTCTTCATTGTATCAACACATTCTAGTTTTGACCC
Found at i:3460149 original size:26 final size:31
Alignment explanation
Indices: 3460109--3460177 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
3460099 ATTGAGCAAA
3460109 ATATATATAAGTAATA-TATTT-A-AAT-ATT
1 ATATAT-TAAGTAATATTATTTGATAATAATT
3460137 ATATATTAA-TAATATTATTTGATAATAATT
1 ATATATTAAGTAATATTATTTGATAATAATT
*
3460167 ATATTTTAAGT
1 ATATATTAAGT
3460178 TACTGATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 5 0.14
27 8 0.23
28 7 0.20
29 3 0.09
30 11 0.31
31 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (31 bp):
ATATATTAAGTAATATTATTTGATAATAATT
Found at i:3460262 original size:30 final size:30
Alignment explanation
Indices: 3460211--3460269 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
3460201 ATATAGGTTA
* *
3460211 TAAACTTTTAATTTCATTAAATTACATCAC
1 TAAACTTTTAATTTCAATAAATTAAATCAC
*
3460241 TAAACTTTT-ATTATTAATAAATTAAATCA
1 TAAACTTTTAATT-TCAATAAATTAAATCA
3460270 TTTACGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAACTTTTAATTTCAATAAATTAAATCAC
Found at i:3464393 original size:2 final size:2
Alignment explanation
Indices: 3464386--3464414 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3464376 TCTTGTATTT
3464386 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3464415 GACCATAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3466170 original size:13 final size:13
Alignment explanation
Indices: 3466152--3466177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3466142 CAATTTTTTG
3466152 TGTATCGATACAT
1 TGTATCGATACAT
3466165 TGTATCGATACAT
1 TGTATCGATACAT
3466178 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3468730 original size:13 final size:13
Alignment explanation
Indices: 3468712--3468750 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
3468702 ATAATCACCC
3468712 TGTATCGATACAA
1 TGTATCGATACAA
3468725 TGTATCGATACAA
1 TGTATCGATACAA
3468738 TGTATCGATACAA
1 TGTATCGATACAA
3468751 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3470849 original size:15 final size:15
Alignment explanation
Indices: 3470829--3470859 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3470819 ATTTCGTTTG
*
3470829 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
3470844 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
3470859 G
1 G
3470860 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:3472697 original size:20 final size:21
Alignment explanation
Indices: 3472658--3472708 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
3472648 TATGCAAGTT
*
3472658 TTCATT-TTTC-TTAGCTAAC
1 TTCATTATTTCATTAGCCAAC
3472677 -TCATTATTTCATTAGCCAAC
1 TTCATTATTTCATTAGCCAAC
*
3472697 TTCTTTATTTCA
1 TTCATTATTTCA
3472709 ACTTGCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 8 0.30
21 10 0.37
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.51
Consensus pattern (21 bp):
TTCATTATTTCATTAGCCAAC
Found at i:3474949 original size:13 final size:13
Alignment explanation
Indices: 3474931--3474956 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3474921 CAATTTTTTG
3474931 TGTATCGATACAT
1 TGTATCGATACAT
3474944 TGTATCGATACAT
1 TGTATCGATACAT
3474957 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3476697 original size:20 final size:20
Alignment explanation
Indices: 3476651--3476697 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
3476641 GTTTGAGAAG
3476651 TTTAAAAAATTATAATTTAA
1 TTTAAAAAATTATAATTTAA
*
3476671 TTCTAAAAAATT-TAATTATCA
1 TT-TAAAAAATTATAATT-TAA
3476692 TTTAAA
1 TTTAAA
3476698 CAAGAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAAAATTATAATTTAA
Done.