Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 272 of 295
Found at i:92839094 original size:19 final size:19
Alignment explanation
Indices: 92839070--92839120 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
92839060 ACATTTTAAG
92839070 TTCATCATGTATTAAATTC
1 TTCATCATGTATTAAATTC
* *
92839089 TTCATCTTCGT-TTAAATTT
1 TTCATCAT-GTATTAAATTC
92839108 TCTCATCATGTAT
1 T-TCATCATGTAT
92839121 CGGATCAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (19 bp):
TTCATCATGTATTAAATTC
Found at i:92840480 original size:9 final size:9
Alignment explanation
Indices: 92840466--92840497 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
92840456 CTTAAATTTT
92840466 ATAATTTAA
1 ATAATTTAA
92840475 ATAATTTAA
1 ATAATTTAA
*
92840484 ATAATTCAA
1 ATAATTTAA
92840493 ATAAT
1 ATAAT
92840498 ATGTTAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (9 bp):
ATAATTTAA
Found at i:92843096 original size:35 final size:35
Alignment explanation
Indices: 92843057--92843127 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
92843047 TATCTCCGGA
*
92843057 GCTTGGTAAATATGGAAAG-TGATATTCAAAGATAT
1 GCTTGGCAAATATGG-AAGCTGATATTCAAAGATAT
*
92843092 GCTTGGCAAATATGGAAGCTGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAGCTGATATTCAAAGATAT
92843127 G
1 G
92843128 TGGTCCTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
34 3 0.09
35 30 0.91
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.30
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAGCTGATATTCAAAGATAT
Found at i:92854649 original size:26 final size:26
Alignment explanation
Indices: 92854619--92854726 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
92854609 TGAAATTCCC
92854619 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92854645 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92854671 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92854697 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92854723 ATCA
1 ATCA
92854727 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92857608 original size:20 final size:21
Alignment explanation
Indices: 92857583--92857622 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
92857573 CTTAGAACAT
92857583 AGTTG-TATATAAATGCTTGA
1 AGTTGTTATATAAATGCTTGA
*
92857603 AGTTGTTTATGTAAATGCTT
1 AGTTG-TTATATAAATGCTT
92857623 TCACTTGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (21 bp):
AGTTGTTATATAAATGCTTGA
Found at i:92875748 original size:23 final size:24
Alignment explanation
Indices: 92875711--92875768 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
92875701 TGAAAGTATG
*
92875711 ACAATTGTATAGTATTGATATTGA
1 ACAAATGTATAGTATTGATATTGA
* *
92875735 ACAAA-GTATGGTATTGATATTGT
1 ACAAATGTATAGTATTGATATTGA
92875758 ACAAATGTATA
1 ACAAATGTATA
92875769 AAAATATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (24 bp):
ACAAATGTATAGTATTGATATTGA
Found at i:92876319 original size:17 final size:15
Alignment explanation
Indices: 92876299--92876332 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
92876289 AGGGGAGAAA
92876299 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
92876316 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
92876331 GA
1 GA
92876333 GAAATAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:92876336 original size:17 final size:18
Alignment explanation
Indices: 92876298--92876336 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
92876288 CAGGGGAGAA
92876298 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
92876316 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
92876332 AGAAA
1 AGAAA
92876337 TAGGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:92877746 original size:18 final size:18
Alignment explanation
Indices: 92877723--92877909 Score: 221
Period size: 18 Copynumber: 10.4 Consensus size: 18
92877713 TAAATAAAGG
* * *
92877723 TACTGAATAACTAACTGC
1 TACTGAATAAATGACTGT
* *
92877741 TACTGAATAATTAACTGT
1 TACTGAATAAATGACTGT
*
92877759 TACTAAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * *
92877777 TACTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
92877795 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
92877813 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
* * * *
92877831 TATTGAATAACTGATTAT
1 TACTGAATAAATGACTGT
*
92877849 TACTGAATAATTGACTGT
1 TACTGAATAAATGACTGT
*
92877867 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
**
92877885 TACTGAATAACCGACTGT
1 TACTGAATAAATGACTGT
92877903 TACTGAA
1 TACTGAA
92877910 CAATTGGTCG
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 144 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:92877784 original size:54 final size:54
Alignment explanation
Indices: 92877723--92877933 Score: 271
Period size: 54 Copynumber: 3.9 Consensus size: 54
92877713 TAAATAAAGG
* ** * *
92877723 TACTGAATAACTAACTGCTACTGAATAATTAACTGTTACTAAATAAATGACTGT
1 TACTGAATAACTGACTATTACTGAATAATTGACTGTTACTGAATAAATGACTGT
* *
92877777 TACTGAATAACTGATTATTACTGAATAAATGACTGTTACTGAATAAATGACTGT
1 TACTGAATAACTGACTATTACTGAATAATTGACTGTTACTGAATAAATGACTGT
* * *
92877831 TATTGAATAACTGATTATTACTGAATAATTGACTGTTACTGAATAAATGACTAT
1 TACTGAATAACTGACTATTACTGAATAATTGACTGTTACTGAATAAATGACTGT
* * * *
92877885 TACTGAATAACCGACTGTTACTGAACAATTG-GTCGTTACTGAATGAAAT
1 TACTGAATAACTGACTATTACTGAATAATTGACT-GTTACTGAAT-AAAT
92877934 TGATAAAGTG
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 134 0.96
55 4 0.03
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (54 bp):
TACTGAATAACTGACTATTACTGAATAATTGACTGTTACTGAATAAATGACTGT
Found at i:92886595 original size:6 final size:6
Alignment explanation
Indices: 92886584--92886628 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
92886574 ATTTGTTTTC
* *
92886584 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT GTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
92886629 CGTAGACTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:92891522 original size:17 final size:18
Alignment explanation
Indices: 92891500--92891535 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
92891490 TAGATGAGTT
92891500 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
92891517 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
92891535 A
1 A
92891536 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:92891971 original size:18 final size:19
Alignment explanation
Indices: 92891927--92891972 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
92891917 ATTGAAATGC
* **
92891927 ATATTTAATTGAGAAAGTG
1 ATATTGAATTGAGAAAAAG
92891946 ATATTGAATTGAGAAAAAG
1 ATATTGAATTGAGAAAAAG
92891965 A-ATTGAAT
1 ATATTGAAT
92891973 ACCCTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (19 bp):
ATATTGAATTGAGAAAAAG
Found at i:92895663 original size:32 final size:34
Alignment explanation
Indices: 92895627--92895691 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
92895617 TAACAGTGGT
*
92895627 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
* **
92895659 ACTGGGTCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
92895692 TGGCCCATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 5 0.19
34 13 0.48
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:92897524 original size:26 final size:26
Alignment explanation
Indices: 92897493--92897600 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
92897483 TGAAATTCCC
*
92897493 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
92897519 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
92897545 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
92897571 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
92897597 ATCA
1 ATCA
92897601 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:92904189 original size:2 final size:2
Alignment explanation
Indices: 92904182--92904206 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92904172 TGGTGACCAA
92904182 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
92904207 AAAAAGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:92910855 original size:2 final size:2
Alignment explanation
Indices: 92910848--92910897 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
92910838 GCCAATGAGT
92910848 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
92910890 GA GA GA GA
1 GA GA GA GA
92910898 AAAGAGTGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:92914740 original size:14 final size:14
Alignment explanation
Indices: 92914703--92914745 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
92914693 TTAATTTTAT
92914703 ATTTAACATATAAAAA
1 ATTTAA-ATA-AAAAA
92914719 ATTCTAAATAAAAAA
1 ATT-TAAATAAAAAA
*
92914734 ATTTAAACAAAA
1 ATTTAAATAAAA
92914746 GTGATGGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 8 0.32
15 8 0.32
16 6 0.24
17 3 0.12
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
ATTTAAATAAAAAA
Found at i:92924861 original size:44 final size:43
Alignment explanation
Indices: 92924823--92924941 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
92924813 CGTTTATTTA
* *
92924823 AAAAAACGCCGCTAAAAGTCATGATTTTTAGCGGCGTTTGTTG
1 AAAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTG
* ** * *
92924866 AAAAAGTGCCATTAAAAGTAATGGCTTTTAGCGGCGTTTGTTG
1 AAAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTG
*
92924909 AGAAAGCGCCGCTAAAA-TCCATGACTTTTAGCG
1 AAAAAGCGCCGCTAAAAGT-CATGACTTTTAGCG
92924942 ACAGTTTTCC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAAGTCATGACTTTTAGCGGCGTTTGTTG
Found at i:92925356 original size:21 final size:21
Alignment explanation
Indices: 92925332--92925414 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
92925322 TCTGCTGCCA
*
92925332 TCGCTGCTGCCTCTGCCTCTC
1 TCGCTGCTGCCGCTGCCTCTC
*
92925353 TCGCT-CGTGCCTCTGCCT-TCC
1 TCGCTGC-TGCCGCTGCCTCT-C
* *
92925374 TCGCTGTTGCCGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCTC
* *
92925395 TCGCTACTGTCGCTGCCTCT
1 TCGCTGCTGCCGCTGCCTCT
92925415 TTTTCTGCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
20 2 0.04
21 49 0.96
ACGTcount: A:0.01, C:0.46, G:0.20, T:0.33
Consensus pattern (21 bp):
TCGCTGCTGCCGCTGCCTCTC
Found at i:92925411 original size:42 final size:42
Alignment explanation
Indices: 92925332--92925412 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
92925322 TCTGCTGCCA
* * *
92925332 TCGCTGCTGCCTCTGCCTCTCTCGCTCGTGCCTCTGCCTTCC
1 TCGCTGCTGCCGCTGCCTCCCTCGCTCGTGCCGCTGCCTTCC
* *
92925374 TCGCTGTTGCCGCTGCCTCCCTCGCTAC-TGTCGCTGCCT
1 TCGCTGCTGCCGCTGCCTCCCTCGCT-CGTGCCGCTGCCT
92925413 CTTTTTCTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.01, C:0.46, G:0.21, T:0.32
Consensus pattern (42 bp):
TCGCTGCTGCCGCTGCCTCCCTCGCTCGTGCCGCTGCCTTCC
Found at i:92929161 original size:12 final size:12
Alignment explanation
Indices: 92929146--92929170 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92929136 TCATCCTCTC
92929146 CATCAGATTCAT
1 CATCAGATTCAT
92929158 CATCAGATTCAT
1 CATCAGATTCAT
92929170 C
1 C
92929171 CCTCGATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (12 bp):
CATCAGATTCAT
Found at i:92931051 original size:43 final size:43
Alignment explanation
Indices: 92931003--92931151 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 43
92930993 TTCGTAAGCT
92931003 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
1 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
* *
92931046 AGTTATGT--A--A-G-T-T-AAGTA-AGTTT-CGTA--A-GCT-
1 AGTTATGTAAATTATGATATCAAATATA-TTTAAGTATTATG-TA
92931077 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
1 AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
* * *
92931120 AGTTATGTAAGTTATGATATGATATATATTTA
1 AGTTATGTAAATTATGATATCAAATATATTTA
92931152 TGTAAGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
31 9 0.11
32 2 0.02
33 1 0.01
34 4 0.05
35 8 0.10
36 2 0.02
37 2 0.02
38 2 0.02
39 8 0.10
40 4 0.05
41 1 0.01
42 2 0.02
43 38 0.46
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.44
Consensus pattern (43 bp):
AGTTATGTAAATTATGATATCAAATATATTTAAGTATTATGTA
Found at i:92931052 original size:34 final size:34
Alignment explanation
Indices: 92931005--92931126 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
92930995 CGTAAGCTAG
92931005 TTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAATTATGATATCAAATATATTTAAGTA
* * *
92931039 TTATGTAAGTTATG-TAAGTTAAGTA-AGTTTCGTAAGCTA
1 TTATGTAAATTATGAT-A-TCAAATATA--TT--TAAG-TA
92931078 GTTATGTAAATTATGATATCAAATATATTTAAGTA
1 -TTATGTAAATTATGATATCAAATATATTTAAGTA
*
92931113 TTATGTAAGTTATG
1 TTATGTAAATTATG
92931127 TAAGTTATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 20
0.72 0.07 0.20
Matches are distributed among these distances:
33 1 0.01
34 28 0.39
35 7 0.10
36 6 0.08
38 6 0.08
39 7 0.10
40 15 0.21
41 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (34 bp):
TTATGTAAATTATGATATCAAATATATTTAAGTA
Found at i:92931053 original size:9 final size:9
Alignment explanation
Indices: 92931039--92931233 Score: 101
Period size: 9 Copynumber: 20.7 Consensus size: 9
92931029 TATTTAAGTA
92931039 TTATGTAAG
1 TTATGTAAG
92931048 TTATGTAAG
1 TTATGTAAG
*
92931057 TTAAGTAAG
1 TTATGTAAG
92931066 TT-TCGTAAGCTAG
1 TTAT-GT-A---AG
*
92931079 TTATGTAAA
1 TTATGTAAG
*
92931088 TTATGATATCAAA
1 TTATG---T-AAG
*
92931101 TATATTTAAG
1 T-TATGTAAG
92931111 TATTATGTAAG
1 T-T-ATGTAAG
92931122 TTATGTAAG
1 TTATGTAAG
*
92931131 TTATGATATG
1 TTATG-TAAG
* * *
92931141 ATATAT-AT
1 TTATGTAAG
92931149 TTATGTAAG
1 TTATGTAAG
* *
92931158 TTATAT-AT
1 TTATGTAAG
*
92931166 TTATCTAAG
1 TTATGTAAG
*
92931175 TTATATAAG
1 TTATGTAAG
92931184 TTATGTAAG
1 TTATGTAAG
* *
92931193 TTATAT-AT
1 TTATGTAAG
*
92931201 TTATCTAAG
1 TTATGTAAG
*
92931210 TTATATAAG
1 TTATGTAAG
92931219 TTATGTAAG
1 TTATGTAAG
92931228 TTATGT
1 TTATGT
92931234 TAAATATTTA
Statistics
Matches: 144, Mismatches: 26, Indels: 32
0.71 0.13 0.16
Matches are distributed among these distances:
8 16 0.11
9 91 0.63
10 13 0.09
11 8 0.06
12 2 0.01
13 10 0.07
14 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:92931095 original size:74 final size:74
Alignment explanation
Indices: 92930974--92931133 Score: 320
Period size: 74 Copynumber: 2.2 Consensus size: 74
92930964 GATTTGTGTA
92930974 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
92931039 TTATGTAAG
66 TTATGTAAG
92931048 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
1 TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
92931113 TTATGTAAG
66 TTATGTAAG
92931122 TTATGTAAGTTA
1 TTATGTAAGTTA
92931134 TGATATGATA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 86 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (74 bp):
TTATGTAAGTTAAGTAAGTTTCGTAAGCTAGTTATGTAAATTATGATATCAAATATATTTAAGTA
TTATGTAAG
Found at i:92931164 original size:17 final size:18
Alignment explanation
Indices: 92931113--92931231 Score: 136
Period size: 17 Copynumber: 6.7 Consensus size: 18
92931103 TATTTAAGTA
*
92931113 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATATAAG
* * *
92931131 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
*
92931149 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
92931166 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
92931184 TTATGTAAGTTATAT-AT
1 TTATGTAAGTTATATAAG
*
92931201 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
92931219 TTATGTAAGTTAT
1 TTATGTAAGTTAT
92931232 GTTAAATATT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
17 39 0.46
18 39 0.46
19 7 0.08
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:92931195 original size:35 final size:35
Alignment explanation
Indices: 92931149--92931231 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
92931139 TGATATATAT
92931149 TTATGTAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAG
92931184 TTATGTAAGTTATATATTTATCTAAGTTATATAAG
1 TTATGTAAGTTATATATTTATCTAAGTTATATAAG
92931219 TTATGTAAGTTAT
1 TTATGTAAGTTAT
92931232 GTTAAATATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.49
Consensus pattern (35 bp):
TTATGTAAGTTATATATTTATCTAAGTTATATAAG
Found at i:92931616 original size:24 final size:24
Alignment explanation
Indices: 92931573--92931643 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
92931563 TTAACTTAAA
* * *
92931573 TGATAAAACAGACGATAATATTTG
1 TGATAAAACGGACAACAATATTTG
*
92931597 TGATAAAATGGACAACAATATTTG
1 TGATAAAACGGACAACAATATTTG
* *
92931621 TGATAAAACGGACGAGAATATTT
1 TGATAAAACGGACAACAATATTT
92931644 CAATAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.28
Consensus pattern (24 bp):
TGATAAAACGGACAACAATATTTG
Found at i:92931760 original size:64 final size:64
Alignment explanation
Indices: 92931691--92931824 Score: 223
Period size: 64 Copynumber: 2.1 Consensus size: 64
92931681 ATATTTTATT
* * * *
92931691 AAATATTTGTATATTAGATTGGATATATTATATTAATAAATAAATTTATTAAAAATTGTGATAA
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAA
*
92931755 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAA
92931819 AAATAT
1 AAATAT
92931825 AGAAATATTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.40
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAA
Found at i:92934032 original size:27 final size:28
Alignment explanation
Indices: 92933993--92934048 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
92933983 TGCAGCAGAG
*
92933993 GAGTGCGACGGTGACGCAGCAGATGGTC
1 GAGTGCGACGGTGACGCAACAGATGGTC
* * *
92934021 GAGT-CGATGGTGATGCAATAGATGGTC
1 GAGTGCGACGGTGACGCAACAGATGGTC
92934048 G
1 G
92934049 GATCCAGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.23, C:0.16, G:0.41, T:0.20
Consensus pattern (28 bp):
GAGTGCGACGGTGACGCAACAGATGGTC
Found at i:92934246 original size:7 final size:7
Alignment explanation
Indices: 92934234--92934271 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
92934224 AAAAGCCTAA
92934234 GGCTGCG
1 GGCTGCG
92934241 GGCTGCG
1 GGCTGCG
92934248 GGCTGCG
1 GGCTGCG
92934255 GGCTGCG
1 GGCTGCG
92934262 GGCTGCG
1 GGCTGCG
92934269 GGC
1 GGC
92934272 ATGAAAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.29, G:0.58, T:0.13
Consensus pattern (7 bp):
GGCTGCG
Found at i:92934662 original size:71 final size:68
Alignment explanation
Indices: 92934530--92934664 Score: 159
Period size: 71 Copynumber: 1.9 Consensus size: 68
92934520 CGTTTTTTAT
*
92934530 AAACGCCACTAATCCCCTATCCAACTAAAACGACACCGTTCTGTTAAACTATAAACTTTTTTTTG
1 AAACGCCACTAATCCCCTATCCAACTAAAACAACACCGTTCTGTTAAACTAT-AACTTTTTTTTG
92934595 CTAA
65 CTAA
* * *
92934599 AAACGCCGCTAAT-CCCTAAATACCAACTAAAACAACTCCGTTTTCT-TTAAACTAT-ACTGTTT
1 AAACGCCACTAATCCCCT--AT-CCAACTAAAACAACACCG--TTCTGTTAAACTATAACTTTTT
92934661 TTTG
61 TTTG
92934665 TGGCGTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
68 4 0.07
69 12 0.21
70 12 0.21
71 16 0.28
72 9 0.16
73 4 0.07
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (68 bp):
AAACGCCACTAATCCCCTATCCAACTAAAACAACACCGTTCTGTTAAACTATAACTTTTTTTTGC
TAA
Found at i:92934912 original size:22 final size:22
Alignment explanation
Indices: 92934887--92934929 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
92934877 TTCTTTAGAT
**
92934887 TAATGATTTTAAATATTAATAG
1 TAATGATGATAAATATTAATAG
*
92934909 TAATGATGATAAATGTTAATA
1 TAATGATGATAAATATTAATA
92934930 TGATGATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (22 bp):
TAATGATGATAAATATTAATAG
Found at i:92935605 original size:21 final size:21
Alignment explanation
Indices: 92935581--92935646 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
92935571 ATCATAAACT
92935581 CTTAACCCTTAACCCATAATC
1 CTTAACCCTTAACCCATAATC
* * *
92935602 CTTATCCAC-TAACCCCTAACC
1 CTTAACC-CTTAACCCATAATC
* **
92935623 CCTAATTCTTAACCCATAACTC
1 CTTAACCCTTAACCCATAA-TC
92935645 CT
1 CT
92935647 AAATCTTAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 5
0.68 0.21 0.11
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.30, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CTTAACCCTTAACCCATAATC
Found at i:92935642 original size:28 final size:28
Alignment explanation
Indices: 92935583--92935648 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
92935573 CATAAACTCT
* *
92935583 TAACCCTTAACCCATAATCCTTATCCAC
1 TAACCCCTAACCCATAATCCTTACCCAC
* *
92935611 TAACCCCTAACCCCTAATTCTTAACCCA-
1 TAACCCCTAACCCATAATCCTT-ACCCAC
*
92935639 TAACTCCTAA
1 TAACCCCTAA
92935649 ATCTTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 28 0.88
29 4 0.12
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (28 bp):
TAACCCCTAACCCATAATCCTTACCCAC
Found at i:92935647 original size:21 final size:21
Alignment explanation
Indices: 92935588--92935655 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
92935578 ACTCTTAACC
* *
92935588 CTTAACCCATAA-TCCTTATC
1 CTTAACCCATAACTCCTAATT
* * *
92935608 CACTAACCCCTAACCCCTAATT
1 C-TTAACCCATAACTCCTAATT
*
92935630 CTTAACCCATAACTCCTAAAT
1 CTTAACCCATAACTCCTAATT
92935651 CTTAA
1 CTTAA
92935656 ACTCCAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.81
22 6 0.16
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (21 bp):
CTTAACCCATAACTCCTAATT
Found at i:92940782 original size:47 final size:47
Alignment explanation
Indices: 92940662--92940783 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
92940652 TTTACATAAT
* * * * * * *
92940662 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATAAGTAAGCACATATCACACC
* *
92940709 GATGTCATATCCCAGATATGGTCTTATATAGT-AGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATA-AGTAAGCACATATCACACC
92940756 GATGCCATATCCCAGATATGGTCTTATA
1 GATGCCATATCCCAGATATGGTCTTATA
92940784 CAGAAATCAC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 62 0.97
48 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (47 bp):
GATGCCATATCCCAGATATGGTCTTATAAGTAAGCACATATCACACC
Found at i:92940802 original size:7 final size:7
Alignment explanation
Indices: 92940790--92940818 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
92940780 TATACAGAAA
92940790 TCACTTG
1 TCACTTG
92940797 TCACTTG
1 TCACTTG
92940804 TCACTTG
1 TCACTTG
92940811 TCACTTG
1 TCACTTG
92940818 T
1 T
92940819 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:92940852 original size:31 final size:31
Alignment explanation
Indices: 92940817--92941025 Score: 301
Period size: 31 Copynumber: 6.7 Consensus size: 31
92940807 CTTGTCACTT
* *
92940817 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** *
92940848 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92940879 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92940910 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92940941 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
92940972 GTAGCTGAAACTACCACTTTTCGCTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
92941003 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
92941026 GTTGTCATTT
Statistics
Matches: 160, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 160 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:92941109 original size:50 final size:50
Alignment explanation
Indices: 92941003--92941179 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
92940993 CGCTGATCAG
* * * *
92941003 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
92941054 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
92941104 GTAGCCGAAGTTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
92941154 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
92941180 GTTTCCATGG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:92942653 original size:53 final size:53
Alignment explanation
Indices: 92942595--92942701 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
92942585 ACATGAAGCT
92942595 AGAGTATGAAAACCAGCTTGAACCCTCCTCCATGGCTGTTTTTCAGCTGATGA
1 AGAGTATGAAAACCAGCTTGAACCCTCCTCCATGGCTGTTTTTCAGCTGATGA
92942648 AGAGTATGAAAACCAGCTTGAACCCTCCTCCATGGCTGTTTTTCAGCTGATGA
1 AGAGTATGAAAACCAGCTTGAACCCTCCTCCATGGCTGTTTTTCAGCTGATGA
92942701 A
1 A
92942702 TATGAAGAGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (53 bp):
AGAGTATGAAAACCAGCTTGAACCCTCCTCCATGGCTGTTTTTCAGCTGATGA
Found at i:92948953 original size:29 final size:29
Alignment explanation
Indices: 92948911--92948967 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
92948901 TTATGGAAGA
* * *
92948911 GGTGGAGAACTTGTTCGTTGAGAGTTCGC
1 GGTGAAGAACTTGTTCATTGAGAATTCGC
92948940 GGTGAAGAACTTGTTCATTGAGAATTCG
1 GGTGAAGAACTTGTTCATTGAGAATTCG
92948968 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCATTGAGAATTCGC
Found at i:92949879 original size:17 final size:17
Alignment explanation
Indices: 92949854--92949887 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92949844 ATTTTGATAT
*
92949854 TTATTTTTTTAAAATAA
1 TTATATTTTTAAAATAA
*
92949871 TTATATTTTTAATATAA
1 TTATATTTTTAAAATAA
92949888 AATTAAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATTTTTAAAATAA
Found at i:92950544 original size:55 final size:56
Alignment explanation
Indices: 92950436--92950546 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 56
92950426 TTGATATAAT
* * **
92950436 AATAAATTTAATCCTTAATATTTATATATTCTATCGATTTGATTTTAACTCTAAAA
1 AATAAATTTAATCCTTAATATTTATATATTCTATCAATTTAATCATAACTCTAAAA
* *
92950492 AATAAATTTAAT-CTTAATATTTATA-CTTCTTATCAATTTAATCATAATTCTAAAA
1 AATAAATTTAATCCTTAATATTTATATATTC-TATCAATTTAATCATAACTCTAAAA
92950547 TATCATCTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 3 0.06
55 33 0.69
56 12 0.25
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (56 bp):
AATAAATTTAATCCTTAATATTTATATATTCTATCAATTTAATCATAACTCTAAAA
Found at i:92960785 original size:41 final size:41
Alignment explanation
Indices: 92960738--92960816 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
92960728 ACCCTTTGAC
92960738 ATTAACAGTCATACTAAATTTAAAGATATTAAATTACAAAA
1 ATTAACAGTCATACTAAATTTAAAGATATTAAATTACAAAA
92960779 ATTAACAGTCATACTAAATTTAAAGATATTAAATTACA
1 ATTAACAGTCATACTAAATTTAAAGATATTAAATTACA
92960817 CTTTTATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (41 bp):
ATTAACAGTCATACTAAATTTAAAGATATTAAATTACAAAA
Found at i:92964633 original size:61 final size:61
Alignment explanation
Indices: 92964538--92964666 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 61
92964528 GTGTGCTAGG
* * * *
92964538 CCGTGTGAGCATATTAACTTGCATTAAATAGGTGCAGGGGTCACA-AGGCCAAGCCACACGC
1 CCGTGTGAGCATACTAACTTGCATTAAATAGGTGCAGAGGTCACACA-ACCAAGCCACACAC
* * * *
92964599 CCGTGTGATCATACTGACTTGTATTAAATAGGTGCAGATGTCACACAACCAAGCCACACAC
1 CCGTGTGAGCATACTAACTTGCATTAAATAGGTGCAGAGGTCACACAACCAAGCCACACAC
92964660 CCGTGTG
1 CCGTGTG
92964667 CTAGGTCGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
61 58 0.98
62 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (61 bp):
CCGTGTGAGCATACTAACTTGCATTAAATAGGTGCAGAGGTCACACAACCAAGCCACACAC
Found at i:92965655 original size:17 final size:17
Alignment explanation
Indices: 92965617--92965656 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
92965607 AGGGCCTTAA
92965617 AATTTGAATTCCATAAC
1 AATTTGAATTCCATAAC
* *
92965634 TATTTGAATTCCATAGC
1 AATTTGAATTCCATAAC
92965651 AATTTG
1 AATTTG
92965657 GTCATTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (17 bp):
AATTTGAATTCCATAAC
Found at i:92966971 original size:21 final size:21
Alignment explanation
Indices: 92966947--92966996 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
92966937 ATCCTCCTCA
92966947 TGGAACTGATCTATCTTTCCT
1 TGGAACTGATCTATCTTTCCT
* * *
92966968 TGGAACTGGTTTATCTTTCTT
1 TGGAACTGATCTATCTTTCCT
*
92966989 TGAAACTG
1 TGGAACTG
92966997 CCACAATGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (21 bp):
TGGAACTGATCTATCTTTCCT
Found at i:92974056 original size:21 final size:21
Alignment explanation
Indices: 92974032--92974072 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
92974022 TAATTACACA
92974032 AAATACCAAGCCATTATCATT
1 AAATACCAAGCCATTATCATT
92974053 AAATACCAAGCCATTATCAT
1 AAATACCAAGCCATTATCAT
92974073 CCACTTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATACCAAGCCATTATCATT
Found at i:92974787 original size:9 final size:9
Alignment explanation
Indices: 92974746--92974827 Score: 55
Period size: 8 Copynumber: 9.1 Consensus size: 9
92974736 AATTTAAAAC
92974746 ATATTTTAAA
1 ATATTTT-AA
*
92974756 AAATTGTT-A
1 ATATT-TTAA
*
92974765 AT-TTTTAT
1 ATATTTTAA
*
92974773 AT-TTTTAT
1 ATATTTTAA
92974781 ATATTTTTAA
1 ATA-TTTTAA
*
92974791 ATAATTTAA
1 ATATTTTAA
*
92974800 ATAATTTAA
1 ATATTTTAA
92974809 ATATTTTTAA
1 ATA-TTTTAA
92974819 AT-TTTTAA
1 ATATTTTAA
92974827 A
1 A
92974828 AAATTTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
7 2 0.03
8 19 0.31
9 19 0.31
10 19 0.31
11 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (9 bp):
ATATTTTAA
Found at i:92974812 original size:28 final size:27
Alignment explanation
Indices: 92974776--92974836 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
92974766 TTTTTATATT
* *
92974776 TTTATATATTTTTAAATAATTTAAATAA
1 TTTAAATATTTTTAAAT-ATTTAAAAAA
*
92974804 TTTAAATATTTTTAAATTTTTAAAAAA
1 TTTAAATATTTTTAAATATTTAAAAAA
92974831 TTTAAA
1 TTTAAA
92974837 AATTAACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTAAATATTTTTAAATATTTAAAAAA
Found at i:92974819 original size:10 final size:10
Alignment explanation
Indices: 92974771--92974824 Score: 60
Period size: 9 Copynumber: 5.7 Consensus size: 10
92974761 GTTAATTTTT
*
92974771 ATATTTTTAT
1 ATATTTTTAA
92974781 ATATTTTTAA
1 ATATTTTTAA
*
92974791 ATA-ATTTAA
1 ATATTTTTAA
*
92974800 ATA-ATTTAA
1 ATATTTTTAA
92974809 ATATTTTTAA
1 ATATTTTTAA
92974819 AT-TTTT
1 ATATTTT
92974825 AAAAAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
9 21 0.52
10 19 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:92974837 original size:8 final size:9
Alignment explanation
Indices: 92974786--92974840 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
92974776 TTTATATATT
92974786 TTTAAATAA
1 TTTAAATAA
92974795 TTTAAATAA
1 TTTAAATAA
*
92974804 TTTAAATATT
1 TTTAAATA-A
*
92974814 TTTAAAT-T
1 TTTAAATAA
*
92974822 TTTAAAAAA
1 TTTAAATAA
92974831 TTTAAA-AA
1 TTTAAATAA
92974839 TT
1 TT
92974841 AACTAATTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
8 11 0.27
9 23 0.56
10 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
TTTAAATAA
Found at i:92975804 original size:14 final size:15
Alignment explanation
Indices: 92975780--92975812 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
92975770 CTGCAACACG
92975780 CAAACGAAGAAAAAA
1 CAAACGAAGAAAAAA
92975795 CAAA-GAAGAAAAAA
1 CAAACGAAGAAAAAA
92975809 CAAA
1 CAAA
92975813 AAAAGAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (15 bp):
CAAACGAAGAAAAAA
Found at i:92976864 original size:3 final size:3
Alignment explanation
Indices: 92976858--92976895 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92976848 ATTATTATTA
92976858 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
92976896 AATTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:92977007 original size:27 final size:26
Alignment explanation
Indices: 92976977--92977053 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 26
92976967 TTTATTTAAA
*
92976977 CTTTATTAGTTTTTATTGTTATTATTT
1 CTTTATTA-TTTTTATTGTTATTAATT
92977004 CTTTATTATTTGTTCACTTGCTTATTAATT
1 CTTTATTATTT-TT-A-TTG-TTATTAATT
92977034 CTTTTATT-TTTTTATT-TTAT
1 C-TTTATTATTTTTATTGTTAT
92977054 AATCGGTTCA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
25 4 0.09
26 3 0.07
27 12 0.27
28 2 0.05
29 5 0.11
30 12 0.27
31 6 0.14
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (26 bp):
CTTTATTATTTTTATTGTTATTAATT
Found at i:92977280 original size:19 final size:18
Alignment explanation
Indices: 92977219--92977280 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
92977209 TCATATTTTC
*
92977219 TTTT-TTTGTTTCATTAA
1 TTTTATTTGTTTCATTTA
* ** *
92977236 TATTATTTGTTATTTTTTG
1 TTTTATTTGTT-TCATTTA
92977255 TTTTATTTGTTTCATTTA
1 TTTTATTTGTTTCATTTA
92977273 TTTATATT
1 TTT-TATT
92977281 CTTTTTATAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
17 3 0.09
18 13 0.39
19 17 0.52
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (18 bp):
TTTTATTTGTTTCATTTA
Found at i:92978729 original size:9 final size:9
Alignment explanation
Indices: 92978717--92978758 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
92978707 AAAAATATAT
92978717 TTTTATAAA
1 TTTTATAAA
92978726 TTTTATAAA
1 TTTTATAAA
*
92978735 TTTTAGAAA
1 TTTTATAAA
*
92978744 TTTTAAAATA
1 TTTTATAA-A
92978754 TTTTA
1 TTTTA
92978759 ATGATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TTTTATAAA
Found at i:92980694 original size:21 final size:21
Alignment explanation
Indices: 92980637--92980694 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
92980627 AAACATGAGG
* * *
92980637 TTTTATAAGAAATCATCTGGAT
1 TTTTATAAGAAA-AACCTAGAT
*
92980659 TTTTATAA-AGGAAACCTAGAT
1 TTTTATAAGA-AAAACCTAGAT
92980680 TTTTATAAGAAAAAC
1 TTTTATAAGAAAAAC
92980695 TAAAGTTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (21 bp):
TTTTATAAGAAAAACCTAGAT
Found at i:92983540 original size:29 final size:29
Alignment explanation
Indices: 92983498--92983556 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
92983488 GCCAAGTTTG
92983498 AACAGCTCATTAGACAAAGAGTGATACTT
1 AACAGCTCATTAGACAAAGAGTGATACTT
92983527 AACAGCTCATTAGACAAAGAGTGATACTT
1 AACAGCTCATTAGACAAAGAGTGATACTT
92983556 A
1 A
92983557 CCCCCCAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (29 bp):
AACAGCTCATTAGACAAAGAGTGATACTT
Found at i:92986309 original size:30 final size:31
Alignment explanation
Indices: 92986245--92986317 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 31
92986235 ATACATTATA
* *
92986245 ATATTATAATAATATATAATTATTAAGTATAT
1 ATATTA-AATAATATATAATTAATAAGTAAAT
* *
92986277 ATATTAAATTATATATTA-TAATAAGTAAAT
1 ATATTAAATAATATATAATTAATAAGTAAAT
*
92986307 ATAATAAATAA
1 ATATTAAATAA
92986318 AAGAAACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 19 0.54
31 10 0.29
32 6 0.17
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (31 bp):
ATATTAAATAATATATAATTAATAAGTAAAT
Found at i:92986329 original size:10 final size:10
Alignment explanation
Indices: 92986316--92986354 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
92986306 TATAATAAAT
92986316 AAAAGAAACA
1 AAAAGAAACA
*
92986326 AAAAGAAATA
1 AAAAGAAACA
*
92986336 GAAAGAAACA
1 AAAAGAAACA
92986346 AAATAGAAA
1 AAA-AGAAA
92986355 GGAAACAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 19 0.79
11 5 0.21
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:92986351 original size:15 final size:16
Alignment explanation
Indices: 92986331--92986361 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
92986321 AAACAAAAAG
92986331 AAATAGAAA-GAAACA
1 AAATAGAAAGGAAACA
92986346 AAATAGAAAGGAAACA
1 AAATAGAAAGGAAACA
92986362 GGGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.06, G:0.16, T:0.06
Consensus pattern (16 bp):
AAATAGAAAGGAAACA
Found at i:92986359 original size:20 final size:20
Alignment explanation
Indices: 92986312--92986354 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
92986302 TAAATATAAT
92986312 AAATA-AAAGAAACAAAAAG
1 AAATAGAAAGAAACAAAAAG
92986331 AAATAGAAAGAAACAAAATAG
1 AAATAGAAAGAAACAAAA-AG
92986352 AAA
1 AAA
92986355 GGAAACAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 12 0.55
21 5 0.23
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.07
Consensus pattern (20 bp):
AAATAGAAAGAAACAAAAAG
Found at i:92986401 original size:25 final size:25
Alignment explanation
Indices: 92986339--92986401 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
92986329 AGAAATAGAA
* * *
92986339 AGAAACAAAATAGAAAGGAAACAGGG
1 AGAAA-AAAAAAGAAAAGAAAAAGGG
*
92986365 AGAAAAATAAAGAAAAGAAAAAGGG
1 AGAAAAAAAAAGAAAAGAAAAAGGG
92986390 A-AAGAAAAAAAG
1 AGAA-AAAAAAAG
92986402 GAGAAATTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 2 0.06
25 24 0.77
26 5 0.16
ACGTcount: A:0.70, C:0.03, G:0.24, T:0.03
Consensus pattern (25 bp):
AGAAAAAAAAAGAAAAGAAAAAGGG
Found at i:92987984 original size:9 final size:9
Alignment explanation
Indices: 92987966--92988002 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
92987956 TATAGTTTGA
*
92987966 TATTCAAAT
1 TATTCGAAT
92987975 TATTCGAAT
1 TATTCGAAT
*
92987984 TATTCGAGT
1 TATTCGAAT
92987993 TATTCGAAT
1 TATTCGAAT
92988002 T
1 T
92988003 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:92988034 original size:23 final size:22
Alignment explanation
Indices: 92988002--92988052 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
92987992 TTATTCGAAT
92988002 TCGAAAACTCAACTCGATTAAC
1 TCGAAAACTCAACTCGATTAAC
* * *
92988024 TCGAATAACTCGATTCGTTTAAC
1 TCGAA-AACTCAACTCGATTAAC
92988047 TCGAAA
1 TCGAAA
92988053 TTCAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (22 bp):
TCGAAAACTCAACTCGATTAAC
Found at i:92988532 original size:40 final size:40
Alignment explanation
Indices: 92988423--92988562 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
92988413 GACTTCGATT
* * * * * * **
92988423 CGATGAGACATTAGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGCCAAATTATTACTTCGAATT-AGC
* * **
92988464 CGATGAGGCAGTGGGTGCC-AA-T-TTACTTCGGCTTAGC
1 CGATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGC
* * *
92988501 CGTTGAGACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGC
*
92988541 CGATGAGGCACTGGGTGCCAAA
1 CGATGAGACACTGGGTGCCAAA
92988563 CTGGTGTGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
39 2 0.03
40 32 0.42
41 15 0.19
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGCCAAATTATTACTTCGAATTAGC
Found at i:92989545 original size:17 final size:16
Alignment explanation
Indices: 92989525--92989558 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92989515 AAATATATAT
92989525 TTTATATGTAAATATGA
1 TTTAT-TGTAAATATGA
*
92989542 TTTATTTTAAATATGA
1 TTTATTGTAAATATGA
92989558 T
1 T
92989559 AATAATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
TTTATTGTAAATATGA
Found at i:92991325 original size:22 final size:23
Alignment explanation
Indices: 92991300--92991349 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
92991290 GGGATTGATG
**
92991300 GTATTTTGAGGA-AGAATCGATT
1 GTATTTTGAGGAGAGAAGAGATT
*
92991322 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGAGAGAAGAGATT
92991345 GTATT
1 GTATT
92991350 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (23 bp):
GTATTTTGAGGAGAGAAGAGATT
Found at i:92991936 original size:21 final size:20
Alignment explanation
Indices: 92991899--92991939 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
92991889 TTTTTTTGTT
* *
92991899 GTTTTTTTTCTTAAAAAAAG
1 GTTTTTTTTATGAAAAAAAG
92991919 GTTTTTTTTATGATAAAAAAG
1 GTTTTTTTTATGA-AAAAAAG
92991940 AGAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (20 bp):
GTTTTTTTTATGAAAAAAAG
Found at i:92992024 original size:38 final size:38
Alignment explanation
Indices: 92991957--92992065 Score: 182
Period size: 38 Copynumber: 2.8 Consensus size: 38
92991947 ATAAAGTATG
92991957 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGAATA
*
92991996 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
* *
92992034 GTTTTAATTAATAATAAAACAAAGTAGCATGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGG
92992066 AGGGAGTGGA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 52 0.78
39 15 0.22
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.31
Consensus pattern (38 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGAATA
Found at i:92993157 original size:18 final size:18
Alignment explanation
Indices: 92993134--92993178 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
92993124 ATTTCCTAGC
*
92993134 TTATTTGTTATTA-TCTTT
1 TTATTTGTTATTATTC-AT
92993152 TTATTTGTT-TTATTCAT
1 TTATTTGTTATTATTCAT
92993169 TTATTTGTTA
1 TTATTTGTTA
92993179 CCTTGAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (18 bp):
TTATTTGTTATTATTCAT
Found at i:92996141 original size:3 final size:3
Alignment explanation
Indices: 92996133--92996171 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
92996123 AATCTAGTCC
*
92996133 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92996172 CTTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:92998392 original size:4 final size:4
Alignment explanation
Indices: 92998385--92998423 Score: 62
Period size: 4 Copynumber: 9.8 Consensus size: 4
92998375 GAACTGTTAG
92998385 TTTA TTTA TTTA TTTA TTTA TTTA TTT- TTTA TTTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTT
92998424 CCTTGGGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 26 0.79
5 4 0.12
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:92998641 original size:19 final size:20
Alignment explanation
Indices: 92998619--92998658 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
92998609 AATTTTGATT
*
92998619 AATTAGTTAATT-AATTTAA
1 AATTAATTAATTAAATTTAA
92998638 AATTAATTAATTAAATTTAA
1 AATTAATTAATTAAATTTAA
92998658 A
1 A
92998659 GTCCTCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
AATTAATTAATTAAATTTAA
Found at i:93015637 original size:85 final size:87
Alignment explanation
Indices: 93015430--93015881 Score: 430
Period size: 87 Copynumber: 5.5 Consensus size: 87
93015420 TTTCTGTTCT
*
93015430 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* *
93015495 TTTCTGTTTTCTTCAATTATGTT
66 TTTCTGCTTTC-TCAATTATGTC
**
93015518 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGG-CACGCTGAGGT-ATTTTGA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
*
93015580 TTTCTGCTTTC-CAATT-TCTGC
66 TTTCTGCTTTCTCAATTATGT-C
93015601 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-GTAATTTC
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
*
93015665 AATTTCTG-TTTGTC-A--A----
64 AATTTCTGCTTTCTCAATTATGTC
* * **
93015681 ----A-AAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTT
* *
93015740 CAATTTCTG-TTTTTCAATTTTGT-
63 CAATTTCTGCTTTCTCAATTATGTC
* *
93015763 TCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACGCTGAGGTATTTTCA
1 T-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
** * *
93015825 ATTAAT--TTTTTCAATTTTG-C
65 ATTTCTGCTTTCTCAATTATGTC
93015845 TTTC--AAATCAACTCATA---CGAGAGGTGAGTTGAGCCTC
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
93015882 GGTCACATGC
Statistics
Matches: 317, Mismatches: 21, Indels: 63
0.79 0.05 0.16
Matches are distributed among these distances:
72 2 0.01
73 35 0.11
74 1 0.00
75 8 0.03
76 19 0.06
77 21 0.07
80 13 0.04
81 2 0.01
82 16 0.05
83 28 0.09
85 52 0.16
86 19 0.06
87 58 0.18
88 43 0.14
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (87 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
TTTCTGCTTTCTCAATTATGTC
Found at i:93015710 original size:73 final size:73
Alignment explanation
Indices: 93015591--93015827 Score: 248
Period size: 73 Copynumber: 3.1 Consensus size: 73
93015581 TTCTGCTTTC
*
93015591 CAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 CAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
93015656 A-GTAATTT
65 AGGTATTTT
* *
93015664 CAATTTCTGTTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATG
1 CAATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACG
*
93015728 CTGAGGTCTTTT
62 CTGAGGTATTTT
93015740 CAATTTCTGTTTTTCAATTTTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CAATTTCTG-TTTTCAA-----------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
93015805 AGG--ACGCTGAGGTATTTT
54 AGGACACGCTGAGGTATTTT
93015823 CAATT
1 CAATT
93015828 AATTTTTTCA
Statistics
Matches: 138, Mismatches: 8, Indels: 26
0.80 0.05 0.15
Matches are distributed among these distances:
72 2 0.01
73 49 0.36
74 2 0.01
75 8 0.06
76 18 0.13
77 3 0.02
83 18 0.13
87 36 0.26
88 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (73 bp):
CAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTT
Found at i:93015813 original size:158 final size:156
Alignment explanation
Indices: 93015506--93015827 Score: 429
Period size: 160 Copynumber: 2.0 Consensus size: 156
93015496 TTCTGTTTTC
* *
93015506 TTCAA-TTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCACGCTGA
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTAGGCACGCTGA
*
93015570 GGTATTTTGATTTCTGCTTTCCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
66 GGTATTTTAATTTCTGCTTTCCAATTTCTGC-TTCAAAAAAATCAACTCATATTGCGAGAGGTGA
93015635 GTTGAGCCTCAGGACACGCTGA-GTAAT
130 GTTGAGCCTCAGGA-ACGCTGAGGTAAT
* *
93015662 TTCAATTTCTGTTTGTCAAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTCAATTTATGTTTGTC-AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTAGG--CAC--
* * * ***
93015727 GCTGAGGTCTTTTCAATTTCTGTTTTTCAATTT-TG-TTCGTCAAAATCAACTCATATTGCGAGA
61 GCTGAGGTATTTT-AATTTCTGCTTTCCAATTTCTGCTTCAAAAAAATCAACTCATATTGCGAGA
*
93015790 GGTGAGTTGAGCCTCAGG-ACGCTGAGGTATT
125 GGTGAGTTGAGCCTCAGGAACGCTGAGGTAAT
93015821 TTCAATT
1 TTCAATT
93015828 AATTTTTTCA
Statistics
Matches: 146, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
156 5 0.03
157 9 0.06
158 45 0.31
159 11 0.08
160 46 0.32
162 14 0.10
163 16 0.11
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (156 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTAGGCACGCTGA
GGTATTTTAATTTCTGCTTTCCAATTTCTGCTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
TTGAGCCTCAGGAACGCTGAGGTAAT
Found at i:93015921 original size:245 final size:241
Alignment explanation
Indices: 93015434--93015881 Score: 617
Period size: 245 Copynumber: 1.9 Consensus size: 241
93015424 TGTTCTTTTC
*
93015434 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
**
93015499 TGTTTTCTTCAATTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCA
66 TGTTTTCTTCAATTATGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCA
* **
93015564 CGCTGAGGTATTTTGATTTCTGCTTTCCAATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAG
131 CGCTGAGGTATTTTAATTAATGCTTTCCAATTTCTGCTTTC---AAAATCAACTCATA-T-CGAG
** *
93015629 AGGTGAGTTGAGCCTCAGGACACGCTGAGTAATTTCAATTTCTGTTTGTCA
191 AGGTGAGTTGAGCCTCAGGACACGCCAAGTAATTTCAATTTCTGTTTGGCA
**
93015680 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGG---ACATGCTGAGGTAATTTCAAT
*
93015744 TTCTG-TTT-TTCAATTTTGTTCGTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
63 TTCTGTTTTCTTCAATTATGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-A
* *
93015806 GG-ACGCTGAGGTATTTTCAATTAAT-TTTTTCAATTT-TGCTTTC-AAATCAACTCATA-CGAG
127 GGCACGCTGAGGTATTTT-AATTAATGCTTTCCAATTTCTGCTTTCAAAATCAACTCATATCGAG
93015866 AGGTGAGTTGAGCCTC
191 AGGTGAGTTGAGCCTC
93015882 GGTCACATGC
Statistics
Matches: 186, Mismatches: 11, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
237 20 0.11
240 13 0.07
244 7 0.04
245 62 0.33
246 57 0.31
247 3 0.02
248 24 0.13
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (241 bp):
AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAATTTC
TGTTTTCTTCAATTATGTTCGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGCA
CGCTGAGGTATTTTAATTAATGCTTTCCAATTTCTGCTTTCAAAATCAACTCATATCGAGAGGTG
AGTTGAGCCTCAGGACACGCCAAGTAATTTCAATTTCTGTTTGGCA
Found at i:93016957 original size:12 final size:12
Alignment explanation
Indices: 93016942--93016974 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
93016932 TTGTTTGCTT
93016942 TTTTTGTT-TTC
1 TTTTTGTTCTTC
*
93016953 CTTTTGTTCTTC
1 TTTTTGTTCTTC
93016965 TTTTTGTTCT
1 TTTTTGTTCT
93016975 CTGCTTACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTTTGTTCTTC
Found at i:93021013 original size:75 final size:74
Alignment explanation
Indices: 93020841--93021115 Score: 296
Period size: 74 Copynumber: 3.7 Consensus size: 74
93020831 CAATATTGAA
* * * ** *
93020841 TGTGAGCCCAGCTC-ACTTGGATAAGCCAAAAATATTTGCACCTAGTG-TAGTCGGATAAACCGA
1 TGTGAGCCTAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACC-A
*
93020904 CGATAACAAT
65 AGATAACAAT
*
93020914 TGTGGAGCCTAGCTTTAGTT-GATAAACCAACGATATTTGCACCCAGTGCTAGTCGGTATAAA-C
1 TGT-GAGCCTAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGG-ATAAACC
93020977 AATGATAACAAT
64 AA-GATAACAAT
* * * *
93020989 TGTAAGCCCAACTCTAGTTGGATAAACCAACGATA-TTGCACCACA-TGCTAGTCGAATAAACCG
1 TGTGAGCCTAGCTCTAGTTGGATAAACCAACGATATTTGCACC-CAGTGCTAGTCGGATAAACC-
*
93021052 AAGATAATAA-
64 AAGATAACAAT
* *
93021062 TGTGAGCCTAGCTGTAGTTGGATAAAACCAACGGTATTTGCACCC-GTGCTAGTC
1 TGTGAGCCTAGCTCTAGTTGGAT-AAACCAACGATATTTGCACCCAGTGCTAGTC
93021116 AGACAGACGC
Statistics
Matches: 171, Mismatches: 19, Indels: 23
0.80 0.09 0.11
Matches are distributed among these distances:
73 27 0.16
74 90 0.53
75 49 0.29
76 5 0.03
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (74 bp):
TGTGAGCCTAGCTCTAGTTGGATAAACCAACGATATTTGCACCCAGTGCTAGTCGGATAAACCAA
GATAACAAT
Found at i:93022003 original size:11 final size:11
Alignment explanation
Indices: 93021974--93022006 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
93021964 TTTTTGTTTA
93021974 TTCACTTTAAT
1 TTCACTTTAAT
93021985 TT-ACTTTAAT
1 TTCACTTTAAT
93021995 TTCACTTTAAT
1 TTCACTTTAAT
93022006 T
1 T
93022007 ACAAATTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (11 bp):
TTCACTTTAAT
Found at i:93024946 original size:10 final size:10
Alignment explanation
Indices: 93024927--93024960 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
93024917 GTTTTGTTTT
93024927 ATTCACTTTA
1 ATTCACTTTA
*
93024937 ATTTACTTTA
1 ATTCACTTTA
93024947 ATTCACTTTA
1 ATTCACTTTA
93024957 ATTC
1 ATTC
93024961 CAAAATTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (10 bp):
ATTCACTTTA
Found at i:93028336 original size:22 final size:22
Alignment explanation
Indices: 93028311--93028367 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
93028301 AATAAGTTTA
*
93028311 GCACAAAGCCATAGTTAAGATG
1 GCACAGAGCCATAGTTAAGATG
** * *
93028333 GCACAGAGCCATTTTTAGGTTG
1 GCACAGAGCCATAGTTAAGATG
93028355 GCACAGAGCCATA
1 GCACAGAGCCATA
93028368 ATCAGATTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (22 bp):
GCACAGAGCCATAGTTAAGATG
Found at i:93028765 original size:27 final size:27
Alignment explanation
Indices: 93028727--93028788 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
93028717 CAAAGCAATC
* *
93028727 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
93028754 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
93028781 ATTTTACA
1 ATTTTACA
93028789 ATTTGAGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:93028797 original size:27 final size:27
Alignment explanation
Indices: 93028741--93028931 Score: 187
Period size: 27 Copynumber: 7.1 Consensus size: 27
93028731 TACCCTACAG
* **
93028741 GGGTATTTCGATAATTTTAC-ACTACAA
1 GGGTATTTCGATAATTTTACAAAT-TGA
*
93028768 GGGTATTTCGATAATTTTACAATTTGA
1 GGGTATTTCGATAATTTTACAAATTGA
* *
93028795 GGGTATTT-TAGTAATTTTAAAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATTGA
* **
93028822 GGGTATTTTGATAATTTTACAAACCG-
1 GGGTATTTCGATAATTTTACAAATTGA
* *
93028848 GAAGTATTTCGATAATTTTATAAATTGA
1 G-GGTATTTCGATAATTTTACAAATTGA
93028876 GGGTATTTC-AGTAATTTTAC-AATCTGA
1 GGGTATTTCGA-TAATTTTACAAAT-TGA
93028903 GGGTATTTC-AGTAATTTTACAAATTGA
1 GGGTATTTCGA-TAATTTTACAAATTGA
93028930 GG
1 GG
93028932 TCTTAACGAC
Statistics
Matches: 139, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.04
27 126 0.91
28 7 0.05
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAATTGA
Found at i:93028799 original size:54 final size:55
Alignment explanation
Indices: 93028741--93028931 Score: 207
Period size: 54 Copynumber: 3.5 Consensus size: 55
93028731 TACCCTACAG
* ** *
93028741 GGGTATTTCGA-TAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAATTTGA
1 GGGTATTTCGAGTAATTTTACAAAT-TGAGGGTATTTCGATAATTTTACAATCTGA
* * * * *
93028795 GGGTATTT-TAGTAATTTTAAAAATTGAGGGTATTTTGATAATTTTACAAACCG-
1 GGGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAATCTGA
* *
93028848 GAAGTATTTCGA-TAATTTTATAAATTGAGGGTATTTC-AGTAATTTTACAATCTGA
1 G-GGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGA-TAATTTTACAATCTGA
93028903 GGGTATTTC-AGTAATTTTACAAATTGAGG
1 GGGTATTTCGAGTAATTTTACAAATTGAGG
93028932 TCTTAACGAC
Statistics
Matches: 113, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
53 4 0.04
54 105 0.93
55 4 0.04
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (55 bp):
GGGTATTTCGAGTAATTTTACAAATTGAGGGTATTTCGATAATTTTACAATCTGA
Found at i:93028862 original size:81 final size:81
Alignment explanation
Indices: 93028770--93028925 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 81
93028760 CACTACAAGG
* * *
93028770 GTATTTCGATAATTTTACAATTTGAGGGTATTTTAGTAATTTTAAAAAT-TGAGGGTATTT-TGA
1 GTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTT-AAAATCTGAGGGTATTTCAG-
93028833 TAATTTTACAAACCGGAA
64 TAATTTTACAAACCGGAA
* *
93028851 GTATTTCGATAATTTTATAAATTGAGGGTATTTCAGTAATTTTACAATCTGAGGGTATTTCAGTA
1 GTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTAAAATCTGAGGGTATTTCAGTA
93028916 ATTTTACAAA
66 ATTTTACAAA
93028926 TTGAGGTCTT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
80 4 0.06
81 63 0.93
82 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAATTGAGGGTATTTCAGTAATTTTAAAATCTGAGGGTATTTCAGTA
ATTTTACAAACCGGAA
Found at i:93030630 original size:44 final size:44
Alignment explanation
Indices: 93030580--93030665 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
93030570 AACCTCAGAC
*
93030580 TCCTTGCCACACATGTAGCGCCACCTTGCCACTAGATCCCTTAG
1 TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTTAG
*
93030624 TCCTTGCCACACATGTAGCGCTACCTTGACACTAGATCCCTT
1 TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTT
93030666 CTCTTTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.21, C:0.37, G:0.15, T:0.27
Consensus pattern (44 bp):
TCCTTGCCACACATGTAGCGCCACCTTGACACTAGATCCCTTAG
Found at i:93030650 original size:22 final size:22
Alignment explanation
Indices: 93030581--93030651 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
93030571 ACCTCAGACT
*
93030581 CCTTGCCACACATGTAGCGCCA
1 CCTTGCCACACATGTAGCGCTA
* * *
93030603 CCTTGCCAC-TA-G-ATCCCTTA
1 CCTTGCCACACATGTAGCGC-TA
93030623 GTCCTTGCCACACATGTAGCGCTA
1 --CCTTGCCACACATGTAGCGCTA
93030647 CCTTG
1 CCTTG
93030652 ACACTAGATC
Statistics
Matches: 36, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 3 0.08
20 2 0.06
21 1 0.03
22 23 0.64
23 1 0.03
24 3 0.08
25 3 0.08
ACGTcount: A:0.20, C:0.38, G:0.17, T:0.25
Consensus pattern (22 bp):
CCTTGCCACACATGTAGCGCTA
Found at i:93032958 original size:54 final size:52
Alignment explanation
Indices: 93032898--93033133 Score: 188
Period size: 54 Copynumber: 4.4 Consensus size: 52
93032888 ACCCTATAGG
**
93032898 GGTATTTTAGTAATTTTACACTATAAGGGTACGTTGATAATTTTACAAATCGA
1 GGTATTTTAGTAATTTTACA-TATAAGGGTATATTGATAATTTTACAAATCGA
* * * * *
93032951 GGTTATTTCAGTAATTTTATAATTTAAGGGTATTTTGGTAATTTTACAAATCGAA
1 GG-TATTTTAGTAATTTTA-CATATAAGGGTATATTGATAATTTTACAAATCG-A
* * * * *
93033006 GGTA-TTTCGATAATTTTACAAACTGAGGGTATATTGATAATTTTACAATTTGA
1 GGTATTTTAG-TAATTTTACATA-TAAGGGTATATTGATAATTTTACAAATCGA
* * * * * *
93033059 GGGTATTTTAGTAATTTTACAAATCGAGAGTAT-TTCAATAATTTTACAATTTGA
1 -GGTATTTTAGTAATTTTACATAT-AAGGGTATATT-GATAATTTTACAAATCGA
* *
93033113 GGTTATTCTGGTAATTTTACA
1 GG-TATTTTAGTAATTTTACA
93033134 AATCGAGGTT
Statistics
Matches: 152, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
53 12 0.08
54 132 0.87
55 8 0.05
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.43
Consensus pattern (52 bp):
GGTATTTTAGTAATTTTACATATAAGGGTATATTGATAATTTTACAAATCGA
Found at i:93032965 original size:27 final size:27
Alignment explanation
Indices: 93032935--93033141 Score: 188
Period size: 27 Copynumber: 7.7 Consensus size: 27
93032925 GGTACGTTGA
*
93032935 TAATTTTACAAATCGAGGTTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* * ** **
93032962 TAATTTTATAATTTAAGGGTATTTTGG
1 TAATTTTACAAATCGAGGGTATTTCAG
*
93032989 TAATTTTACAAATCGAAGGTATTTC-G
1 TAATTTTACAAATCGAGGGTATTTCAG
*
93033015 ATAATTTTACAAA-CTGAGGGTATATTGA-
1 -TAATTTTACAAATC-GAGGGTAT-TTCAG
* * *
93033043 TAATTTTACAATTTGAGGGTATTTTAG
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
93033070 TAATTTTACAAATCGAGAGTATTTCAA
1 TAATTTTACAAATCGAGGGTATTTCAG
* * * *
93033097 TAATTTTACAATTTGAGGTTA-TTCTGG
1 TAATTTTACAAATCGAGGGTATTTC-AG
93033124 TAATTTTACAAATCGAGG
1 TAATTTTACAAATCGAGG
93033142 TTTTAATGAC
Statistics
Matches: 142, Mismatches: 31, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
26 8 0.06
27 132 0.93
28 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:93033018 original size:81 final size:80
Alignment explanation
Indices: 93032897--93033134 Score: 259
Period size: 81 Copynumber: 2.9 Consensus size: 80
93032887 TACCCTATAG
* * * *
93032897 GGGTATTTTAGTAATTTTACACTAT-AAGGGTACGTT-GATAATTTTACAAATCGAGGTTATTTC
1 GGGTATTTTAGTAATTTTACA-AATCGAGAGTA-TTTCGATAATTTTACAAATCGAGGTTATTTC
*
93032960 AGTAATTTTATAATTTAA
64 A-TAATTTTACAATTTAA
* *
93032978 GGGTATTTTGGTAATTTTACAAATCGA-AGGTATTTCGATAATTTTACAAA-CTGAGGGTATATT
1 GGGTATTTTAGTAATTTTACAAATCGAGA-GTATTTCGATAATTTTACAAATC-GAGGTTAT-TT
* *
93033041 GATAATTTTACAATTTGA
63 CATAATTTTACAATTTAA
* * * **
93033059 GGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCAATAATTTTACAATTTGAGGTTATTCTGG
1 GGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCGATAATTTTACAAATCGAGGTTATT-TCA
93033124 TAATTTTACAA
65 TAATTTTACAA
93033135 ATCGAGGTTT
Statistics
Matches: 134, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
80 6 0.04
81 124 0.93
82 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCGATAATTTTACAAATCGAGGTTATTTCAT
AATTTTACAATTTAA
Found at i:93041462 original size:85 final size:85
Alignment explanation
Indices: 93041351--93041670 Score: 419
Period size: 85 Copynumber: 3.8 Consensus size: 85
93041341 TAATGTCGAC
* * * *
93041351 GTCCCAGACGTGGTCTTACATGTAATTCAGTATCAATGCCTTTGTCCCAGACAGGGTCTTATACG
1 GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACG
* * *
93041416 AAAACAGACATGATGCTGAT
66 AAAATAGATACGATGCTGAT
* * * * *
93041436 GTCCTAGACATGGTCTTACACATAATTCAATATCGTTGCCTCTGTCCCAGACAGGGTCTTTTACG
1 GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACG
*
93041501 -AAATAGATACGATGCCGAT
66 AAAATAGATACGATGCTGAT
* * * * *
93041520 GTCCCAGACATGGCCTTACACGTAATTTAGTATCGTTGCCTCTGTCCCAGACAGGGTTTTTTACG
1 GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACG
93041585 AAAATAGATACGATG-TCGAT
66 AAAATAGATACGATGCT-GAT
* * * *
93041605 GTCCTAGACATGGTCTTACACGTAATTCAGTATCGATGCCTGTGTCCCAGACATGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACG
93041670 A
66 A
93041671 TAATTCAGAT
Statistics
Matches: 204, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
84 74 0.36
85 130 0.64
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATTCAGTATCGATGCCTCTGTCCCAGACAGGGTCTTATACG
AAAATAGATACGATGCTGAT
Found at i:93041488 original size:43 final size:44
Alignment explanation
Indices: 93041351--93041677 Score: 234
Period size: 43 Copynumber: 7.7 Consensus size: 44
93041341 TAATGTCGAC
* * * * *
93041351 GTCCCAGACGTGGTCTTACATG-TAATTCAGTATCAATGCCTTT
1 GTCCCAGACATGGTCTTACACGATAATTCAATATCGATGCCTAT
* * * *
93041394 GTCCCAGACAGGGTCTTATACGA-AA-ACAGACAT-GATG-CTGAT
1 GTCCCAGACATGGTCTTACACGATAATTCA-ATATCGATGCCT-AT
* * *
93041436 GTCCTAGACATGGTCTTACAC-ATAATTCAATATCGTTGCCTCT
1 GTCCCAGACATGGTCTTACACGATAATTCAATATCGATGCCTAT
* ** *
93041479 GTCCCAGACAGGGTCTTTTACGA-AA-T-AGATA-CGATGCCGAT
1 GTCCCAGACATGGTCTTACACGATAATTCA-ATATCGATGCCTAT
* * * * *
93041520 GTCCCAGACATGGCCTTACACG-TAATTTAGTATCGTTGCCTCT
1 GTCCCAGACATGGTCTTACACGATAATTCAATATCGATGCCTAT
* * ** * * *
93041563 GTCCCAGACAGGGTTTTTTACGA-AAAT-AGATA-CGATGTCGAT
1 GTCCCAGACATGGTCTTACACGATAATTCA-ATATCGATGCCTAT
* * *
93041605 GTCCTAGACATGGTCTTACACG-TAATTCAGTATCGATGCCTGT
1 GTCCCAGACATGGTCTTACACGATAATTCAATATCGATGCCTAT
93041648 GTCCCAGACATGGTCTTACACGATAATTCA
1 GTCCCAGACATGGTCTTACACGATAATTCA
93041678 GATCAATACC
Statistics
Matches: 212, Mismatches: 53, Indels: 37
0.70 0.18 0.12
Matches are distributed among these distances:
41 31 0.15
42 65 0.31
43 106 0.50
44 10 0.05
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGATAATTCAATATCGATGCCTAT
Found at i:93041633 original size:169 final size:169
Alignment explanation
Indices: 93041351--93041664 Score: 459
Period size: 169 Copynumber: 1.9 Consensus size: 169
93041341 TAATGTCGAC
* * * *
93041351 GTCCCAGACGTGGTCTTACATGTAATTCAGTATCAATGCCTTTGTCCCAGACAGGGTCTTATACG
1 GTCCCAGACATGGCCTTACACGTAATTCAGTATCAATGCCTCTGTCCCAGACAGGGTCTTATACG
* *
93041416 AAAACAGACATGATGCTGATGTCCTAGACATGGTCTTACACATAATTCAATATCGTTGCCTCTGT
66 AAAACAGACACGATGCTGATGTCCTAGACATGGTCTTACACATAATTCAATATCGATGCCTCTGT
93041481 CCCAGACAGGGTCTTTTACGAAATAGATACGATGCCGAT
131 CCCAGACAGGGTCTTTTACGAAATAGATACGATGCCGAT
* ** * *
93041520 GTCCCAGACATGGCCTTACACGTAATTTAGTATCGTTGCCTCTGTCCCAGACAGGGTTTTTTACG
1 GTCCCAGACATGGCCTTACACGTAATTCAGTATCAATGCCTCTGTCCCAGACAGGGTCTTATACG
* * * * *
93041585 AAAATAGATACGATG-TCGATGTCCTAGACATGGTCTTACACGTAATTCAGTATCGATGCCTGTG
66 AAAACAGACACGATGCT-GATGTCCTAGACATGGTCTTACACATAATTCAATATCGATGCCTCTG
*
93041649 TCCCAGACATGGTCTT
130 TCCCAGACAGGGTCTT
93041665 ACACGATAAT
Statistics
Matches: 127, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
168 1 0.01
169 126 0.99
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (169 bp):
GTCCCAGACATGGCCTTACACGTAATTCAGTATCAATGCCTCTGTCCCAGACAGGGTCTTATACG
AAAACAGACACGATGCTGATGTCCTAGACATGGTCTTACACATAATTCAATATCGATGCCTCTGT
CCCAGACAGGGTCTTTTACGAAATAGATACGATGCCGAT
Found at i:93046480 original size:15 final size:17
Alignment explanation
Indices: 93046460--93046497 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
93046450 AATTGGAAAG
93046460 ATGAAAAG-TT-ATTAA
1 ATGAAAAGTTTAATTAA
93046475 ATG-AAAGTTTAATTAA
1 ATGAAAAGTTTAATTAA
93046491 ATGAAAA
1 ATGAAAA
93046498 AGAAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 5 0.25
16 8 0.40
17 3 0.15
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
ATGAAAAGTTTAATTAA
Found at i:93047280 original size:17 final size:17
Alignment explanation
Indices: 93047231--93047280 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
93047221 ATTCATTAAA
*
93047231 GCCCGATAAATGGA-AGT
1 GCCCGATAAAT-GATAAT
* *
93047248 GCCCGATCAATAATAAT
1 GCCCGATAAATGATAAT
93047265 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
93047281 AAGATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:93047633 original size:57 final size:58
Alignment explanation
Indices: 93047503--93047635 Score: 132
Period size: 57 Copynumber: 2.3 Consensus size: 58
93047493 AATGACTTTA
* * * *
93047503 TTATAGAAAA-GACTTAGCCCGGACGGGTAATCCTGATATAAGTCCTCTCGAGCATATG
1 TTATA-AAAAGGATTTAGCCCGGACGAGTAATCCTGATACAAGTCCTCTAGAGCATATG
* ** *
93047561 TTATGAATTGG-TTTAGCCCGGACGAGTAAT-CTAGAT-CAAGCTCCT-TAGAGTATATG
1 TTATAAAAAGGATTTAGCCCGGACGAGTAATCCT-GATACAAG-TCCTCTAGAGCATATG
93047617 TTATAAAAAGGATTTAGCC
1 TTATAAAAAGGATTTAGCC
93047636 TAGACTGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
56 22 0.37
57 33 0.55
58 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (58 bp):
TTATAAAAAGGATTTAGCCCGGACGAGTAATCCTGATACAAGTCCTCTAGAGCATATG
Found at i:93051207 original size:21 final size:20
Alignment explanation
Indices: 93051183--93051222 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93051173 TTTTAATTCA
93051183 TTTAAAATAAATTATTTTTAG
1 TTTAAAATAAATT-TTTTTAG
* *
93051204 TTTAATATATATTTTTTTA
1 TTTAAAATAAATTTTTTTA
93051223 TTTTTCAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TTTAAAATAAATTTTTTTAG
Found at i:93051342 original size:22 final size:23
Alignment explanation
Indices: 93051314--93051357 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
93051304 ATTTTATTTT
* *
93051314 ATATAAATTACATA-TTATATAA
1 ATATAAAATAAATATTTATATAA
93051336 ATATAAAATAAATATTTATATA
1 ATATAAAATAAATATTTATATA
93051358 TTAGAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATAAAATAAATATTTATATAA
Found at i:93051671 original size:32 final size:34
Alignment explanation
Indices: 93051609--93051686 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 34
93051599 ACACATATAA
93051609 AAAAAATAATAAATTATATATAATTTTACATTTT
1 AAAAAATAATAAATTATATATAATTTTACATTTT
** **
93051643 AAAAAATAATTCA-TATATA-AATTTTACATGCT
1 AAAAAATAATAAATTATATATAATTTTACATTTT
*
93051675 AAGAAATAATAA
1 AAAAAATAATAA
93051687 TATTTAGAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 20 0.54
33 6 0.16
34 11 0.30
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAAAATAATAAATTATATATAATTTTACATTTT
Found at i:93052149 original size:30 final size:31
Alignment explanation
Indices: 93052090--93052153 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
93052080 ACTTAACAAG
93052090 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
93052121 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
93052151 CAA
1 CAA
93052154 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 11 0.35
31 17 0.55
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:93063482 original size:6 final size:6
Alignment explanation
Indices: 93063471--93063514 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
93063461 TAAGTTCAGG
93063471 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT ACTTTA- A-TTAT ATT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A-TTTAT ATTTAT ATT
93063515 ACTAATATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 3 0.09
5 1 0.03
6 27 0.77
7 4 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTAT
Found at i:93067523 original size:39 final size:36
Alignment explanation
Indices: 93067473--93067556 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 36
93067463 TATAAATAAT
* *
93067473 TAAATTTTAAAATATGATTCAATATTTTTTATATTTTTCA
1 TAAA-TTTAAAATATAATTC-ATATATTTT-TA-TTTTCA
*
93067513 TAAATTTAAAATTTAATTCATATATTTTTATTTTCA
1 TAAATTTAAAATATAATTCATATATTTTTATTTTCA
*
93067549 TGAATTTA
1 TAAATTTA
93067557 GTTCTACTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
36 13 0.32
37 2 0.05
38 8 0.20
39 13 0.32
40 4 0.10
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (36 bp):
TAAATTTAAAATATAATTCATATATTTTTATTTTCA
Found at i:93068506 original size:30 final size:27
Alignment explanation
Indices: 93068471--93068527 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
93068461 AACTATTTAG
*
93068471 ATTAAATAATAACATTATAAAAAATATAAA
1 ATTAAATAAT-AC-CTATAAAAAAT-TAAA
*
93068501 ATTAAATTATACCTATAAAAAATTAAA
1 ATTAAATAATACCTATAAAAAATTAAA
93068528 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 10 0.40
29 2 0.08
30 9 0.36
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (27 bp):
ATTAAATAATACCTATAAAAAATTAAA
Found at i:93089620 original size:33 final size:33
Alignment explanation
Indices: 93089554--93089651 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
93089544 TGTTGGGCTG
*
93089554 CACTGATATTGTTACTGAATTGGGCTAAAGCCCA
1 CACTGATATTGTTACTGAA-TGGGCTAAGGCCCA
** * *
93089588 CGTTGGTATTGTTACTTAATGGGCTAAGGCCCA
1 CACTGATATTGTTACTGAATGGGCTAAGGCCCA
93089621 CACTGATATTGTTACTGAATGGGCTAAGGCC
1 CACTGATATTGTTACTGAATGGGCTAAGGCC
93089652 GTAACTCATA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
33 40 0.73
34 15 0.27
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (33 bp):
CACTGATATTGTTACTGAATGGGCTAAGGCCCA
Found at i:93092577 original size:21 final size:21
Alignment explanation
Indices: 93092522--93092577 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
93092512 GTGCAAGCTG
* *
93092522 CACACGCTCGCGTGGAGGAGA
1 CACACGCTCGTGTGGAAGAGA
* *
93092543 CACGCCCTCGTGTGGAAGAGA
1 CACACGCTCGTGTGGAAGAGA
*
93092564 CACACGCTCTTGTG
1 CACACGCTCGTGTG
93092578 ATCTAGTTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.30, G:0.32, T:0.16
Consensus pattern (21 bp):
CACACGCTCGTGTGGAAGAGA
Found at i:93095801 original size:36 final size:35
Alignment explanation
Indices: 93095754--93095877 Score: 126
Period size: 36 Copynumber: 3.5 Consensus size: 35
93095744 TAGTTCGCCA
*
93095754 ATTTACGATCACAACTATCATTTTCAACGCTCGCTG
1 ATTTACGATCACAACT-TCATTTTAAACGCTCGCTG
* ** * *
93095790 ATTTATGATCACAACTTCA-TTTAAACATTTTGCTA
1 ATTTACGATCACAACTTCATTTTAAAC-GCTCGCTG
* *
93095825 ATTTACGACCACAACTGTCATTTTTAAA-GCTCGTTG
1 ATTTACGATCACAACT-TCA-TTTTAAACGCTCGCTG
93095861 ATTTACGATCACAACTT
1 ATTTACGATCACAACTT
93095878 TAGTTGATAG
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
34 6 0.09
35 22 0.31
36 36 0.51
38 6 0.09
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.37
Consensus pattern (35 bp):
ATTTACGATCACAACTTCATTTTAAACGCTCGCTG
Found at i:93095813 original size:71 final size:71
Alignment explanation
Indices: 93095745--93095877 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
93095735 CCGTTTAAGT
* * *
93095745 AGTTCGCCAATTTACGATCACAACTATCATTTTCAACGCTCGCTGATTTATGATCACAACTTCAT
1 AGTTCGCCAATTTACGACCACAACTATCATTTTCAAAGCTCGCTGATTTACGATCACAACTTCAT
93095810 TTAAAC
66 TTAAAC
* * * * * *
93095816 ATTTTGCTAATTTACGACCACAACTGTCATTTTTAAAGCTCGTTGATTTACGATCACAACTT
1 AGTTCGCCAATTTACGACCACAACTATCATTTTCAAAGCTCGCTGATTTACGATCACAACTT
93095878 TAGTTGATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (71 bp):
AGTTCGCCAATTTACGACCACAACTATCATTTTCAAAGCTCGCTGATTTACGATCACAACTTCAT
TTAAAC
Found at i:93095971 original size:107 final size:107
Alignment explanation
Indices: 93095791--93095984 Score: 271
Period size: 107 Copynumber: 1.8 Consensus size: 107
93095781 CGCTCGCTGA
* *
93095791 TTTATGATCACAACTTCATTTAAACATTTTGCTAATTTACGACCACAACTGTCATTTTTAAAGCT
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTAATTTACGACCACAACTGTCATTTTTAAAGCT
**
93095856 CGTTGATTTACGATCACAACTTTAGTTGATAGAGTTTGTCGG
66 CGCCGATTTACGATCACAACTTTAGTTGATAGAGTTTGTCGG
** * * * *
93095898 TTTATGATTGCAACTCCATTTAAACAGTTTGCTGATTTACGATCATAATTGTCATTTTTAAAGCT
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTAATTTACGACCACAACTGTCATTTTTAAAGCT
* * *
93095963 TGCCGATTTATGATTACAACTT
66 CGCCGATTTACGATCACAACTT
93095985 CAATTCATTG
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
107 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (107 bp):
TTTATGATCACAACTCCATTTAAACAGTTTGCTAATTTACGACCACAACTGTCATTTTTAAAGCT
CGCCGATTTACGATCACAACTTTAGTTGATAGAGTTTGTCGG
Found at i:93096046 original size:134 final size:134
Alignment explanation
Indices: 93095898--93096347 Score: 453
Period size: 134 Copynumber: 3.5 Consensus size: 134
93095888 AGTTTGTCGG
** *
93095898 TTTATGATTGCAACTCCATTTAAACAGTTTGCTGATTTACGATCATAATTGTCATTTTTAAAGCT
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTGATTTACGATCACAATTGTCATTTTTAAAGCT
* ** *
93095963 TGCCGATTTATGATTACAACTTCAATTCATTGATTTATGATCATGAACAATTCATTAAGAGTTCG
66 CGTTGATTTATGATTACAACTTCAATACATTGATTTATGATCATGAACAATTCATTAAGAGTTCG
*
93096028 TTGA
131 TAGA
* * *
93096032 TTTATGATCACAACTCCATTTAAACAGTTTGCTAATTTACGATTACAACTGTCATTTTTAAAGCT
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTGATTTACGATCACAATTGTCATTTTTAAAGCT
* * * * * *
93096097 CGTTGATTTATGA-T--AA---C--TGC-TT-A--CA--ATCATGAATAATTCATGAAAAGTTCA
66 CGTTGATTTATGATTACAACTTCAATACATTGATTTATGATCATGAACAATTCATTAAGAGTTCG
*
93096148 CAGA
131 TAGA
* * * *
93096152 TTTATGATCACAACTCTATTTAAATAGTTTGCTGATTTACGATCACAGTTATCATTTTTAAAGCT
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTGATTTACGATCACAATTGTCATTTTTAAAGCT
* * * * * *
93096217 CGTTGATTTACGATCACAGCTTTAGA-AAATTGATTTATGATCATGAACAATTCATTAAGAGTTT
66 CGTTGATTTATGATTACAACTTCA-ATACATTGATTTATGATCATGAACAATTCATTAAGAGTTC
*
93096281 GTCGA
130 GTAGA
* * * * * * * *
93096286 TTTACGATCGCAACACCATTTAAATAGTTCGTTGATTTACGATCAAAATTCTCATTTTTAAA
1 TTTATGATCACAACTCCATTTAAACAGTTTGCTGATTTACGATCACAATTGTCATTTTTAAA
93096348 ACTCTTTGGT
Statistics
Matches: 254, Mismatches: 47, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
120 94 0.37
122 1 0.00
123 1 0.00
124 1 0.00
125 2 0.01
126 2 0.01
128 1 0.00
129 2 0.01
130 1 0.00
131 2 0.01
132 1 0.00
133 1 0.00
134 145 0.57
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (134 bp):
TTTATGATCACAACTCCATTTAAACAGTTTGCTGATTTACGATCACAATTGTCATTTTTAAAGCT
CGTTGATTTATGATTACAACTTCAATACATTGATTTATGATCATGAACAATTCATTAAGAGTTCG
TAGA
Found at i:93096215 original size:120 final size:120
Alignment explanation
Indices: 93096002--93096226 Score: 333
Period size: 120 Copynumber: 1.9 Consensus size: 120
93095992 TTGATTTATG
* * ***
93096002 ATCATGAACAATTCATTAAGAGTTCGTTGATTTATGATCACAACTCCATTTAAACAGTTTGCTAA
1 ATCATGAACAATTCATGAAAAGTTCACAGATTTATGATCACAACTCCATTTAAACAGTTTGCTAA
* *
93096067 TTTACGATTACAACTGTCATTTTTAAAGCTCGTTGATTTATGATAACTGCTTACA
66 TTTACGATCACAACTATCATTTTTAAAGCTCGTTGATTTATGATAACTGCTTACA
* * * *
93096122 ATCATGAATAATTCATGAAAAGTTCACAGATTTATGATCACAACTCTATTTAAATAGTTTGCTGA
1 ATCATGAACAATTCATGAAAAGTTCACAGATTTATGATCACAACTCCATTTAAACAGTTTGCTAA
**
93096187 TTTACGATCACAGTTATCATTTTTAAAGCTCGTTGATTTA
66 TTTACGATCACAACTATCATTTTTAAAGCTCGTTGATTTA
93096227 CGATCACAGC
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
120 92 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (120 bp):
ATCATGAACAATTCATGAAAAGTTCACAGATTTATGATCACAACTCCATTTAAACAGTTTGCTAA
TTTACGATCACAACTATCATTTTTAAAGCTCGTTGATTTATGATAACTGCTTACA
Found at i:93096436 original size:35 final size:35
Alignment explanation
Indices: 93096276--93096437 Score: 102
Period size: 35 Copynumber: 4.6 Consensus size: 35
93096266 ATTCATTAAG
* **
93096276 AGTTTGTCGATTTACGATCGCAACA-CCATTTAAAT
1 AGTTTGTTGATTTACGATCATAA-ATCCATTTAAAT
*
93096311 AGTTCGTTGATTTACGATCA-AAATTCTCATTTTTAAA-
1 AGTTTGTTGATTTACGATCATAAA-TC-CA--TTTAAAT
* * * * *
93096348 ACTCT-TTGGTTTACGATCATGAAAAATTCA-TT-AAG
1 AGTTTGTTGATTTACGATCAT---AAATCCATTTAAAT
** *
93096383 AGTTCATCGATTTACGATCATAAATCCATTTAAAT
1 AGTTTGTTGATTTACGATCATAAATCCATTTAAAT
93096418 AGTTTGTTGATTTACGATCA
1 AGTTTGTTGATTTACGATCA
93096438 CAACTAACAT
Statistics
Matches: 96, Mismatches: 18, Indels: 26
0.69 0.13 0.19
Matches are distributed among these distances:
33 7 0.07
34 6 0.06
35 41 0.43
36 28 0.29
37 2 0.02
38 8 0.08
39 1 0.01
40 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (35 bp):
AGTTTGTTGATTTACGATCATAAATCCATTTAAAT
Found at i:93096473 original size:107 final size:107
Alignment explanation
Indices: 93096247--93096473 Score: 296
Period size: 107 Copynumber: 2.1 Consensus size: 107
93096237 TTTAGAAAAT
* ** *
93096247 TGATTTATGATCATGAACAATTCATTAAGAGTTTGTCGATTTACGATCGCAACACCATTTAAATA
1 TGATTTATGATCATGAAAAATTCATTAAGAGTTCATCGATTTACGATCACAACACCATTTAAATA
* ** *
93096312 GTTCGTTGATTTACGATCAAAATTCTCATTTTTAAAACTCTT
66 GTTCGTTGATTTACGATCAAAACTAACATTTTTAAAACTCTC
* * *
93096354 TGGTTTACGATCATGAAAAATTCATTAAGAGTTCATCGATTTACGATCATAA-ATCCATTTAAAT
1 TGATTTATGATCATGAAAAATTCATTAAGAGTTCATCGATTTACGATCACAACA-CCATTTAAAT
* * *
93096418 AGTTTGTTGATTTACGATCACAACTAACATTTTTAAAGCT-TGC
65 AGTTCGTTGATTTACGATCAAAACTAACATTTTTAAAACTCT-C
93096461 TGATTTATGATCA
1 TGATTTATGATCA
93096474 CAGTTTTAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
106 2 0.02
107 100 0.98
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (107 bp):
TGATTTATGATCATGAAAAATTCATTAAGAGTTCATCGATTTACGATCACAACACCATTTAAATA
GTTCGTTGATTTACGATCAAAACTAACATTTTTAAAACTCTC
Found at i:93096569 original size:241 final size:241
Alignment explanation
Indices: 93096117--93096571 Score: 574
Period size: 241 Copynumber: 1.9 Consensus size: 241
93096107 TGATAACTGC
* * * *
93096117 TTACAATCATGAATAATTCATGAAAAGTTCACAGATTTATGATCACAACTCTATTTAAATAGTTT
1 TTACAATCATGAAAAATTCATGAAAAGTTCACAGATTTACGATCACAAATCCATTTAAATAGTTT
** * *
93096182 GCTGATTTACGATCACAGTTATCATTTTTAAAGCTCGTTGATTTACGATCACAGCTTTAGAAAAT
66 GCTGATTTACGATCACAACTAACATTTTTAAAGCTCGCTGATTTACGATCACAGCTTTAGAAAAT
** * * *
93096247 TGATTTATGATCATGAACAATTCATTAAGAGTTTGTCGATTTACGATCGCAACACCATTTAAATA
131 TGATTTACAATCATGAACAATTCATTAAGAGTTTCTCGATTTACAATCACAACACCATTTAAATA
* *
93096312 GTTCGTTGATTTACGATCAAAATTCTCATTTTTAAAACTCTTTGGT
196 GTCCGTTGACTTACGATCAAAATTCTCATTTTTAAAACTCTTTGGT
* * * *
93096358 TTACGATCATGAAAAATTCATTAAGAGTTCATC-GATTTACGATCATAAATCCATTTAAATAGTT
1 TTACAATCATGAAAAATTCATGAAAAGTTCA-CAGATTTACGATCACAAATCCATTTAAATAGTT
* * * * ***
93096422 TGTTGATTTACGATCACAACTAACATTTTTAAAGCTTGCTGATTTATGATCACAGTTTTAGTTCA
65 TGCTGATTTACGATCACAACTAACATTTTTAAAGCTCGCTGATTTACGATCACAGCTTTAGAAAA
* * * *
93096487 TTGATTTACAATCCTGAACAATTCATTAAGAGTTTC-CTGATTTACAATCATAACTCCATTCTCA
130 TTGATTTACAATCATGAACAATTCATTAAGAGTTTCTC-GATTTACAATCACAACACCATT-TAA
* *
93096551 A-GGTCCGTTGGCTTACGATCA
193 ATAGTCCGTTGACTTACGATCA
93096572 CGACCTTCGA
Statistics
Matches: 179, Mismatches: 32, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
240 1 0.01
241 174 0.97
242 4 0.02
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (241 bp):
TTACAATCATGAAAAATTCATGAAAAGTTCACAGATTTACGATCACAAATCCATTTAAATAGTTT
GCTGATTTACGATCACAACTAACATTTTTAAAGCTCGCTGATTTACGATCACAGCTTTAGAAAAT
TGATTTACAATCATGAACAATTCATTAAGAGTTTCTCGATTTACAATCACAACACCATTTAAATA
GTCCGTTGACTTACGATCAAAATTCTCATTTTTAAAACTCTTTGGT
Found at i:93102945 original size:27 final size:26
Alignment explanation
Indices: 93102915--93102992 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
93102905 TGGCACATTC
93102915 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
* *
93102942 GTCACTTGACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
93102969 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
93102993 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
26 4 0.10
27 34 0.83
28 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:93103064 original size:28 final size:28
Alignment explanation
Indices: 93103033--93103131 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
93103023 GTAAATCTAC
93103033 AAACCAAGGGTATTTCAGTAATTTTGTT
1 AAACCAAGGGTATTTCAGTAATTTTGTT
* *
93103061 AAACCAATGGTATTTTCA-TAATTTT-TAG
1 AAACCAAGGGTA-TTTCAGTAATTTTGT-T
* * *
93103089 AAAGTCAAGGGTATTTCTGTAACTTTG-T
1 AAA-CCAAGGGTATTTCAGTAATTTTGTT
* *
93103117 AAATCAGGGGTATTT
1 AAACCAAGGGTATTT
93103132 TGTTAATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
27 12 0.21
28 28 0.48
29 18 0.31
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (28 bp):
AAACCAAGGGTATTTCAGTAATTTTGTT
Done.