Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 94 of 210
Found at i:32393442 original size:57 final size:57
Alignment explanation
Indices: 32393356--32393477 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
32393346 TACACACATA
* * ** *
32393356 ACATACATAAACATTAATAAATAGTCATACACATAACAGTGATATACCACATAATAT
1 ACATACATAAAAATTAATAAACAACCATACACATAACAGTAATATACCACATAATAT
* * * *
32393413 ACATGCATAAAAATTAATAAACAACCATACATATAATAGTAATATGCCACATAATAT
1 ACATACATAAAAATTAATAAACAACCATACACATAACAGTAATATACCACATAATAT
32393470 ACATACAT
1 ACATACAT
32393478 TAAACATGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.52, C:0.17, G:0.05, T:0.26
Consensus pattern (57 bp):
ACATACATAAAAATTAATAAACAACCATACACATAACAGTAATATACCACATAATAT
Found at i:32393555 original size:37 final size:36
Alignment explanation
Indices: 32393512--32393762 Score: 179
Period size: 37 Copynumber: 7.1 Consensus size: 36
32393502 AACAAAACAG
*
32393512 TAATATAACACATAACAAACATACAAATATACATACA
1 TAATATAA-ACATAACATACATACAAATATACATACA
* *
32393549 TAATAT--ACATAACATTATATAACACA-A-ACATAACA
1 TAATATAAACATAACA-TACAT-ACAAATATACAT-ACA
* * *
32393584 TTATAT-AACATAATATACATACAAATATACAAACA
1 TAATATAAACATAACATACATACAAATATACATACA
* *
32393619 TAATAGTAAACAT-A-AT--ATACATATATA-ACA-A
1 TAATA-TAAACATAACATACATACAAATATACATACA
*
32393650 T-ACAT-AACATAACATACATACAAATATACA-AGCA
1 TAATATAAACATAACATACATACAAATATACATA-CA
* *
32393684 TAACAGTAAACATAACATACATACAAATATACAAACA
1 TAATA-TAAACATAACATACATACAAATATACATACA
* * *
32393721 TAACATTAAACATAACACACATGCATAATAGTACATAGCA
1 TAATA-TAAACATAACATACATACA-AATA-TACATA-CA
32393761 TA
1 TA
32393763 CATAACATAA
Statistics
Matches: 175, Mismatches: 17, Indels: 41
0.75 0.07 0.18
Matches are distributed among these distances:
28 5 0.03
29 2 0.01
30 4 0.02
31 2 0.01
32 13 0.07
33 11 0.06
34 18 0.10
35 29 0.17
36 17 0.10
37 60 0.34
38 5 0.03
39 5 0.03
40 4 0.02
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (36 bp):
TAATATAAACATAACATACATACAAATATACATACA
Found at i:32393654 original size:14 final size:13
Alignment explanation
Indices: 32393521--32393840 Score: 123
Period size: 12 Copynumber: 24.2 Consensus size: 13
32393511 GTAATATAAC
*
32393521 ACATAACAAACAT
1 ACATAACATACAT
*
32393534 ACA-AATATACAT
1 ACATAACATACAT
*
32393546 ACATAATATACAT
1 ACATAACATACAT
* * *
32393559 AACATTATATAACACAA
1 -ACA-TA-A-CATACAT
*
32393576 ACATAACATTATAT
1 ACATAACA-TACAT
*
32393590 AACATAATATACAT
1 -ACATAACATACAT
* *
32393604 ACA-AATATACAA
1 ACATAACATACAT
*
32393616 ACATAATAGTA-A-
1 ACATAACA-TACAT
*
32393628 ACATAATATACAT
1 ACATAACATACAT
*
32393641 ATATAACAATACAT
1 ACATAAC-ATACAT
32393655 AACATAACATACAT
1 -ACATAACATACAT
*
32393669 ACA-AATATACA-
1 ACATAACATACAT
32393680 AGCATAACAGTA-A-
1 A-CATAACA-TACAT
32393693 ACATAACATACAT
1 ACATAACATACAT
* *
32393706 ACA-AATATACAA
1 ACATAACATACAT
32393718 ACATAACATTA-A-
1 ACATAACA-TACAT
*
32393730 ACATAACACACAT
1 ACATAACATACAT
* *
32393743 GCATAATAGTACAT
1 ACATAACA-TACAT
32393757 AGCAT-ACATAACAT
1 A-CATAACAT-ACAT
*
32393771 AATAGTAAACATAACAT
1 -ACA-T-AACAT-ACAT
*
32393788 ACATAATATACAT
1 ACATAACATACAT
*
32393801 AGCAGTTTA-A-A-A-
1 A-CA--TAACATACAT
32393813 ACATAACATACAT
1 ACATAACATACAT
*
32393826 ACATAACAGACAT
1 ACATAACATACAT
32393839 AC
1 AC
32393841 CTTTCACCCT
Statistics
Matches: 239, Mismatches: 32, Indels: 72
0.70 0.09 0.21
Matches are distributed among these distances:
9 2 0.01
10 1 0.00
11 9 0.04
12 68 0.28
13 68 0.28
14 46 0.19
15 24 0.10
16 8 0.03
17 13 0.05
ACGTcount: A:0.56, C:0.17, G:0.03, T:0.23
Consensus pattern (13 bp):
ACATAACATACAT
Found at i:32393678 original size:65 final size:65
Alignment explanation
Indices: 32393521--32393726 Score: 222
Period size: 65 Copynumber: 3.1 Consensus size: 65
32393511 GTAATATAAC
* * * * *
32393521 ACATAACAAACATACAAATATACATACATAATA-TACATAACATTATATAACACAAACATAACAT
1 ACATAACATACATACAAATATACAAACATAATAGT--A-AACA-TA-AT-ATACATACATAACAA
*
32393585 TATATA
60 TACATA
* *
32393591 ACATAATATACATACAAATATACAAACATAATAGTAAACATAATATACATATATAACAATACATA
1 ACATAACATACATACAAATATACAAACATAATAGTAAACATAATATACATACATAACAATACATA
* * * *
32393656 ACATAACATACATACAAATATACAAGCATAACAGTAAACATAACATACATACA-AA-TATACA-A
1 ACATAACATACATACAAATATACAAACATAATAGTAAACATAATATACATACATAACAATACATA
32393718 ACATAACAT
1 ACATAACAT
32393727 TAAACATAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
62 10 0.08
63 5 0.04
64 2 0.02
65 64 0.53
66 2 0.02
67 2 0.02
68 4 0.03
69 1 0.01
70 30 0.25
71 1 0.01
ACGTcount: A:0.58, C:0.17, G:0.01, T:0.24
Consensus pattern (65 bp):
ACATAACATACATACAAATATACAAACATAATAGTAAACATAATATACATACATAACAATACATA
Found at i:32393766 original size:9 final size:9
Alignment explanation
Indices: 32393521--32393801 Score: 97
Period size: 9 Copynumber: 30.6 Consensus size: 9
32393511 GTAATATAAC
*
32393521 ACATAACAA
1 ACATAACAT
32393530 ACAT-ACA-
1 ACATAACAT
32393537 A-ATATACAT
1 ACATA-ACAT
*
32393546 ACATAATAT
1 ACATAACAT
32393555 ACATAACATT
1 ACATAACA-T
* *
32393565 ATATAACACAA
1 ACAT-A-ACAT
32393576 ACATAACATT
1 ACATAACA-T
*
32393586 ATATAACAT
1 ACATAACAT
32393595 A-ATATACAT
1 ACATA-ACAT
*
32393604 ACA-AATAT
1 ACATAACAT
32393612 ACA-AACAT
1 ACATAACAT
*
32393620 AATAGTAAACAT
1 -ACA-T-AACAT
32393632 A-ATATACAT
1 ACATA-ACAT
*
32393641 ATATAACAAT
1 ACATAAC-AT
32393651 ACATAACAT
1 ACATAACAT
32393660 AACAT-ACAT
1 -ACATAACAT
*
32393669 ACA-AATAT
1 ACATAACAT
*
32393677 ACA-AGCAT
1 ACATAACAT
32393685 AACAGTAAACAT
1 -ACA-T-AACAT
32393697 AACAT-ACAT
1 -ACATAACAT
*
32393706 ACA-AATAT
1 ACATAACAT
32393714 ACA-AACAT
1 ACATAACAT
32393722 AACATTAAACAT
1 -ACA-T-AACAT
*
32393734 AACA-CACAT
1 -ACATAACAT
* *
32393743 GCATAATAGT
1 ACATAACA-T
*
32393753 ACATAGCAT
1 ACATAACAT
32393762 ACATAACAT
1 ACATAACAT
** *
32393771 A-ATAGTAA
1 ACATAACAT
32393779 ACATAACAT
1 ACATAACAT
*
32393788 ACATAATAT
1 ACATAACAT
32393797 ACATA
1 ACATA
32393802 GCAGTTTAAA
Statistics
Matches: 209, Mismatches: 32, Indels: 62
0.69 0.11 0.20
Matches are distributed among these distances:
6 2 0.01
7 1 0.00
8 52 0.25
9 85 0.41
10 38 0.18
11 6 0.03
12 25 0.12
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (9 bp):
ACATAACAT
Found at i:32393791 original size:35 final size:33
Alignment explanation
Indices: 32393752--32393830 Score: 79
Period size: 35 Copynumber: 2.3 Consensus size: 33
32393742 TGCATAATAG
*
32393752 TACATAGCATACATAACA-TAATAGTAAACATAACA
1 TACATA-CATACATAACAGT-ATA-AAAACATAACA
* * *
32393787 TACATAATATACATAGCAGTTTAAAAACATAACA
1 TACAT-ACATACATAACAGTATAAAAACATAACA
32393821 TACATACATA
1 TACATACATA
32393831 ACAGACATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
33 4 0.11
34 15 0.41
35 16 0.43
36 2 0.05
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.25
Consensus pattern (33 bp):
TACATACATACATAACAGTATAAAAACATAACA
Found at i:32397741 original size:11 final size:12
Alignment explanation
Indices: 32397725--32397761 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
32397715 ACCTTATAAT
32397725 ATACTATAAA-A
1 ATACTATAAATA
32397736 ATACTATAAATA
1 ATACTATAAATA
*
32397748 ATA-AATAAATA
1 ATACTATAAATA
32397759 ATA
1 ATA
32397762 AAATACTAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (12 bp):
ATACTATAAATA
Found at i:32408480 original size:20 final size:20
Alignment explanation
Indices: 32408454--32408562 Score: 76
Period size: 20 Copynumber: 5.2 Consensus size: 20
32408444 TGGTGCATGG
32408454 GTGGCATTCTGCTAGCCTTT
1 GTGGCATTCTGCTAGCCTTT
* *
32408474 ATGGCATAATCTGATCTGGCCTTT
1 GTGGCAT--TCTG--CTAGCCTTT
* * *
32408498 CTGGCATTATGTTAGCCTTT
1 GTGGCATTCTGCTAGCCTTT
* *
32408518 GTGGCA-TCTGATATGGCCTTG
1 GTGGCATTCTGCTA--GCCTTT
* *
32408539 GTGGCATTCTCCTAGCCTTC
1 GTGGCATTCTGCTAGCCTTT
32408559 GTGG
1 GTGG
32408563 TGTAATCTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
19 5 0.07
20 27 0.39
21 11 0.16
22 12 0.17
24 14 0.20
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.38
Consensus pattern (20 bp):
GTGGCATTCTGCTAGCCTTT
Found at i:32408544 original size:41 final size:42
Alignment explanation
Indices: 32408453--32408557 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 42
32408443 GTGGTGCATG
* *
32408453 GGTGGCATTCTGCTAGCCTTTATGGCATAATCTGATCTGGCCTT
1 GGTGGCATTATGCTAGCCTTTATGGC--AATCTGATATGGCCTT
** * *
32408497 TCTGGCATTATGTTAGCCTTTGTGGC-ATCTGATATGGCCTT
1 GGTGGCATTATGCTAGCCTTTATGGCAATCTGATATGGCCTT
* *
32408538 GGTGGCATTCTCCTAGCCTT
1 GGTGGCATTATGCTAGCCTT
32408558 CGTGGTGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 29 0.58
44 21 0.42
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.38
Consensus pattern (42 bp):
GGTGGCATTATGCTAGCCTTTATGGCAATCTGATATGGCCTT
Found at i:32409082 original size:28 final size:28
Alignment explanation
Indices: 32409024--32409088 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
32409014 CAATATCAAC
* * * *
32409024 AAGGGTATTCGCCAAAACTATTATTAGT
1 AAGGGTATTCACCAAAACTATGATAAAT
* *
32409052 AAGGGTATTCACCAAAAGTGTGATAAAT
1 AAGGGTATTCACCAAAACTATGATAAAT
32409080 AAGTGGTAT
1 AAG-GGTAT
32409089 CCGCCAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 25 0.83
29 5 0.17
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.29
Consensus pattern (28 bp):
AAGGGTATTCACCAAAACTATGATAAAT
Found at i:32410367 original size:24 final size:24
Alignment explanation
Indices: 32410336--32410390 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
32410326 ATCCAAACAA
32410336 TGAATTTTAATTAATTCAAAATAT
1 TGAATTTTAATTAATTCAAAATAT
32410360 TGAATTTTAATTAATTCAAAATAT
1 TGAATTTTAATTAATTCAAAATAT
32410384 TGAATTT
1 TGAATTT
32410391 GAAATATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (24 bp):
TGAATTTTAATTAATTCAAAATAT
Found at i:32411880 original size:40 final size:39
Alignment explanation
Indices: 32411828--32411903 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
32411818 AGTAGCGGCG
* *
32411828 TTTATGAGAAAAACA-CTGCAAAAGGTAAGCAATAGCGACA
1 TTTATGAGAAAAA-AGC-CCAAAAAGTAAGCAATAGCGACA
32411868 TTTATG-GTAAAAAAGCCCAAAAAGTAAGCAATAGCG
1 TTTATGAG-AAAAAAGCCCAAAAAGTAAGCAATAGCG
32411904 GTGTTTGGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 20 0.62
40 12 0.38
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (39 bp):
TTTATGAGAAAAAAGCCCAAAAAGTAAGCAATAGCGACA
Found at i:32412052 original size:48 final size:48
Alignment explanation
Indices: 32411996--32412122 Score: 184
Period size: 48 Copynumber: 2.6 Consensus size: 48
32411986 GCACGAATTA
**
32411996 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCCAAAATCCTTTCCC
1 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCCAAAATCCGGTCCC
* *
32412044 TTTTCTTTCCCAGAT-TTCTCTTTGCTTGAAACCCCAAAATCCGGTCCC
1 TTTTCTTTCTCAG-TCTTTTCTTTGCTTGAAACCCCAAAATCCGGTCCC
* *
32412092 TTTTCTTTCTTAGTCTTTTCGTTGCTTGAAA
1 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAA
32412123 AAAAATACAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 1 0.01
48 67 0.97
49 1 0.01
ACGTcount: A:0.17, C:0.28, G:0.09, T:0.46
Consensus pattern (48 bp):
TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCCAAAATCCGGTCCC
Found at i:32412836 original size:11 final size:11
Alignment explanation
Indices: 32412820--32412845 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32412810 CAAGATTTGA
32412820 TTGATTAATTT
1 TTGATTAATTT
32412831 TTGATTAATTT
1 TTGATTAATTT
32412842 TTGA
1 TTGA
32412846 AAAGTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.62
Consensus pattern (11 bp):
TTGATTAATTT
Found at i:32414342 original size:25 final size:26
Alignment explanation
Indices: 32414313--32414364 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
32414303 ATAAAAAATA
*
32414313 AAAAATAAATATCTAAT-TTATTTTTT
1 AAAAAT-AATATCTAATGTAATTTTTT
*
32414339 AAAAATTATATCTAATGTAATTTTTT
1 AAAAATAATATCTAATGTAATTTTTT
32414365 TATTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
AAAAATAATATCTAATGTAATTTTTT
Found at i:32415561 original size:24 final size:22
Alignment explanation
Indices: 32415534--32415589 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 22
32415524 AATTTCAAAA
32415534 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
32415558 ATAAAAATAAATATTATTTA--
1 ATAAAAATAAATAATATTTATC
*
32415578 ATTAAAATAAAT
1 ATAAAAATAAAT
32415590 TCTTTAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 11 0.37
22 9 0.30
23 4 0.13
24 6 0.20
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:32415964 original size:9 final size:9
Alignment explanation
Indices: 32415950--32416057 Score: 80
Period size: 9 Copynumber: 12.2 Consensus size: 9
32415940 AACTTTGGAT
*
32415950 CATAACTTC
1 CATAACTTA
32415959 CATAACTTA
1 CATAACTTA
*
32415968 CATAA-ATA
1 CATAACTTA
* * *
32415976 TATATCATA
1 CATAACTTA
32415985 TCATAACTTA
1 -CATAACTTA
32415995 CATAACTTA
1 CATAACTTA
32416004 CATAA--TA
1 CATAACTTA
*
32416011 CATAA-ATA
1 CATAACTTA
* * *
32416019 TATATCATA
1 CATAACTTA
*
32416028 CCATAACATA
1 -CATAACTTA
32416038 CATAACTTA
1 CATAACTTA
32416047 CATAACTTA
1 CATAACTTA
32416056 CA
1 CA
32416058 CCCATTAGAT
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
7 7 0.09
8 10 0.12
9 52 0.63
10 13 0.16
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:32416021 original size:43 final size:44
Alignment explanation
Indices: 32415950--32416053 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 44
32415940 AACTTTGGAT
* * *
32415950 CATAACTTCCATAACTTACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAAC-TACATAAATATATATCATACCATAACATA
32415995 CATAACTTACATAA-TACATAAATATATATCATACCATAACATA
1 CATAACTTACATAACTACATAAATATATATCATACCATAACATA
32416038 CATAACTTACATAACT
1 CATAACTTACATAACT
32416054 TACACCCATT
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 41 0.75
44 1 0.02
45 13 0.24
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (44 bp):
CATAACTTACATAACTACATAAATATATATCATACCATAACATA
Found at i:32427302 original size:25 final size:25
Alignment explanation
Indices: 32427255--32427303 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
32427245 AATCTCTAAC
*
32427255 TAACTCAGTATAGTTTCAGAAAGTAT
1 TAACTCAGTATA-TTTCAAAAAGTAT
32427281 TAACTACAGTAT-TTTCAAAAAGT
1 TAACT-CAGTATATTTCAAAAAGT
32427304 TCTATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 5 0.24
27 6 0.29
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (25 bp):
TAACTCAGTATATTTCAAAAAGTAT
Found at i:32434538 original size:11 final size:11
Alignment explanation
Indices: 32434522--32434546 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32434512 ATAGTTTAGC
32434522 TTATTGAATTT
1 TTATTGAATTT
32434533 TTATTGAATTT
1 TTATTGAATTT
32434544 TTA
1 TTA
32434547 AGGTAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TTATTGAATTT
Found at i:32439376 original size:20 final size:20
Alignment explanation
Indices: 32439351--32439389 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
32439341 TGGCTGAGTT
32439351 TTGACATGCAT-TGTGAATAC
1 TTGACA-GCATGTGTGAATAC
*
32439371 TTGACAGCTTGTGTGAATA
1 TTGACAGCATGTGTGAATA
32439390 GCACCATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGACAGCATGTGTGAATAC
Found at i:32448479 original size:460 final size:460
Alignment explanation
Indices: 32447619--32448538 Score: 1621
Period size: 460 Copynumber: 2.0 Consensus size: 460
32447609 TACGGGGCTG
* *
32447619 ACGCTTCCGTCCATGTCCCTTAAGAAGTAAGCTTTTCAATGTATGCAAAGGCGGCCGCTTTGTAT
1 ACGCTTCCGTCCATGTCCCTTAAGAAGTAAGCTTTTCAATGTATGCAAAGACGGCCACTTTGTAT
* * *
32447684 GTTTTGGGAAGGTTGCACAGTCGGTTCGTTAGCTTACTGCGTTAGAGGTTGGCGAGCCCAAGAAA
66 GTTTTGGGAAGGTTGCACAGTCAGTTCGTTAGCTTACTGCGTCAGAAGTTGGCGAGCCCAAGAAA
* *
32447749 CAAAATGGCATGGGATTCGCCATTGAGAAGGGTTGATCTAGCATAAGATGATCCCACAAGAGAGA
131 CAAAATGGCATGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAAGACGATCCCACAAGAGAGA
*
32447814 TTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGACTAAATCCTTGGAGCTGGTGGTCGTAGGC
196 TTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGACTAAATCCTTGGAGCTGGTGGTCGAAGGC
*
32447879 GTCCTCTTCCATTATAACTGGCTTATTCGGTTTAGGAAGGATCATCTAAAAGTCGAGAATTGAAC
261 GTCCTCTTCCACTATAACTGGCTTATTCGGTTTAGGAAGGATCATCTAAAAGTCGAGAATTGAAC
*
32447944 CCAAGGCGGAACGAGACAATTGGAGGCTGGAATCTCCTATAAGAATTTTCTTTCTCTCAACTCTA
326 CCAAGGCGGAACGAGACAACTGGAGGCTGGAATCTCCTATAAGAATTTTCTTTCTCTCAACTCTA
32448009 TTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATTATATTTTTATTTTATTTTTCGTTTCC
391 TTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATTATATTTTTATTTTATTTTTCGTTTCC
32448074 AGATC
456 AGATC
* *
32448079 ACGCTTCCGTCCATGTCCCTTAGGAAGTAAGCTTTTCAATGTATGCAAAGACGGTCACTTTGTAT
1 ACGCTTCCGTCCATGTCCCTTAAGAAGTAAGCTTTTCAATGTATGCAAAGACGGCCACTTTGTAT
*
32448144 GTTTTGGGAAGGTTGCACAGTCAGTTCGTTAGCTTATTGCGTCAGAAGTTGGCGAGCCCAAGAGA
66 GTTTTGGGAAGGTTGCACAGTCAGTTCGTTAGCTTACTGCGTCAGAAGTTGGCGAGCCCAAGA-A
32448209 A-AAAATGG-AGTGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAAGACGATCCCAC-AGAAG
130 ACAAAATGGCA-TGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAAGACGATCCCACAAG-AG
* *
32448271 CGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGTCTAAATCCTTGGAGCTGGTGGTCGAA
193 AGATTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGACTAAATCCTTGGAGCTGGTGGTCGAA
*
32448336 GGCGTCCTCTTCCACTATAACTGGCTTATTCGGTTTAGGAAGGATCATCTAAAAGTCGAGGATTG
258 GGCGTCCTCTTCCACTATAACTGGCTTATTCGGTTTAGGAAGGATCATCTAAAAGTCGAGAATTG
* *
32448401 AATCCAAGGCGGAATGAGACAACTGGAGGCTGGAATCTCCTATAAGAATTTTCTTTCTCTCAACT
323 AACCCAAGGCGGAACGAGACAACTGGAGGCTGGAATCTCCTATAAGAATTTTCTTTCTCTCAACT
*
32448466 CTATTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATTATATTTTTATTTTATTTTTTGTT
388 CTATTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATTATATTTTTATTTTATTTTTCGTT
32448531 TCCAGATC
453 TCCAGATC
32448539 CAAACCTTTT
Statistics
Matches: 438, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
459 3 0.01
460 433 0.99
461 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (460 bp):
ACGCTTCCGTCCATGTCCCTTAAGAAGTAAGCTTTTCAATGTATGCAAAGACGGCCACTTTGTAT
GTTTTGGGAAGGTTGCACAGTCAGTTCGTTAGCTTACTGCGTCAGAAGTTGGCGAGCCCAAGAAA
CAAAATGGCATGGGATTCGCCATTGAGAAGCGTTGATCTAGCATAAGACGATCCCACAAGAGAGA
TTGTTGGCTAGAGTCAGGTTCCACTAAATCGTAAGACTAAATCCTTGGAGCTGGTGGTCGAAGGC
GTCCTCTTCCACTATAACTGGCTTATTCGGTTTAGGAAGGATCATCTAAAAGTCGAGAATTGAAC
CCAAGGCGGAACGAGACAACTGGAGGCTGGAATCTCCTATAAGAATTTTCTTTCTCTCAACTCTA
TTTTTAATTTCTCGAATTTTTGATTCAATATTCTTAATTATATTTTTATTTTATTTTTCGTTTCC
AGATC
Found at i:32456248 original size:36 final size:36
Alignment explanation
Indices: 32456201--32456287 Score: 115
Period size: 35 Copynumber: 2.4 Consensus size: 36
32456191 TCGAGATTTT
* * *
32456201 CAACCAAAACACACCAGATGCTCATAAGAGCTGGTC
1 CAACCAGAACACACCAGATGCTCATAAGAGATAGTC
32456237 CAACCAGAACACACC-GATGCTCATAAGAGATAGTC
1 CAACCAGAACACACCAGATGCTCATAAGAGATAGTC
*
32456272 TAACC-GAAACACACCA
1 CAACCAG-AACACACCA
32456288 AACAGAAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
34 1 0.02
35 30 0.67
36 14 0.31
ACGTcount: A:0.41, C:0.31, G:0.15, T:0.13
Consensus pattern (36 bp):
CAACCAGAACACACCAGATGCTCATAAGAGATAGTC
Found at i:32471058 original size:21 final size:21
Alignment explanation
Indices: 32471034--32471075 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32471024 ATGAGTATGT
*
32471034 GATTGGAATGTGATAAGTTGC
1 GATTGGAACGTGATAAGTTGC
32471055 GATTGGAACGTGATAAGTTGC
1 GATTGGAACGTGATAAGTTGC
32471076 TACGTGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.07, G:0.33, T:0.31
Consensus pattern (21 bp):
GATTGGAACGTGATAAGTTGC
Found at i:32473099 original size:15 final size:14
Alignment explanation
Indices: 32473079--32473123 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
32473069 TAAAACGGGG
32473079 AAGAAAAGAATAAGA
1 AAGAAAAGAA-AAGA
*
32473094 AAGAAACGCAAAAGA
1 AAGAAAAG-AAAAGA
*
32473109 AAGGAAAGAAAAGA
1 AAGAAAAGAAAAGA
32473123 A
1 A
32473124 CATGCCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 7 0.27
15 17 0.65
16 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAAAGA
Found at i:32473340 original size:18 final size:19
Alignment explanation
Indices: 32473296--32473340 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
32473286 TCTTCTTTAA
32473296 CCTT-TAACCTTCCATCTT
1 CCTTATAACCTTCCATCTT
* *
32473314 CCTCA-AACCTTTCATC-T
1 CCTTATAACCTTCCATCTT
32473331 CCTTATAACC
1 CCTTATAACC
32473341 CCTTTTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (19 bp):
CCTTATAACCTTCCATCTT
Found at i:32479584 original size:17 final size:16
Alignment explanation
Indices: 32479546--32479578 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
32479536 TATACCAATC
32479546 AAAATCATGCATCTAAA
1 AAAATCATGCA-CTAAA
32479563 AAAATCATGCA-TAAA
1 AAAATCATGCACTAAA
32479578 A
1 A
32479579 TGAAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATCATGCACTAAA
Found at i:32481661 original size:18 final size:18
Alignment explanation
Indices: 32481628--32481666 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
32481618 GTATTCTTAT
*
32481628 ATTTCTTTTCAATTCTCA
1 ATTTCTTTTCAATTCTAA
32481646 ATTT-TTTTCAATTTCTAA
1 ATTTCTTTTCAA-TTCTAA
32481664 ATT
1 ATT
32481667 ATCCATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTCTTTTCAATTCTAA
Found at i:32485049 original size:21 final size:20
Alignment explanation
Indices: 32484994--32485048 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
32484984 TAAAATATAT
*
32484994 ATAAATTTGAA-TTTTAAAA
1 ATAATTTTGAATTTTTAAAA
*
32485013 ATAATTTTGAATTTTTGAAA
1 ATAATTTTGAATTTTTAAAA
*
32485033 ATTATTTTGAATTTTT
1 ATAATTTTGAATTTTT
32485049 TTTTGTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 10 0.31
20 22 0.69
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
ATAATTTTGAATTTTTAAAA
Found at i:32485906 original size:16 final size:16
Alignment explanation
Indices: 32485857--32485908 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
32485847 AAGTGAAAAG
* *
32485857 AAAATTAGAAGGATGG
1 AAAATTAGAAAGATGA
* * * *
32485873 AAAATTGGAGACACGA
1 AAAATTAGAAAGATGA
32485889 AAAATTAGAAAGATGA
1 AAAATTAGAAAGATGA
32485905 AAAA
1 AAAA
32485909 CAAAAATTTT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.23, T:0.15
Consensus pattern (16 bp):
AAAATTAGAAAGATGA
Found at i:32486066 original size:20 final size:20
Alignment explanation
Indices: 32486041--32486079 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32486031 AAATAACATA
*
32486041 CAATATAGAAAGATTGATTC
1 CAATATAGAAAGAGTGATTC
32486061 CAATATAGAAAGAGTGATT
1 CAATATAGAAAGAGTGATT
32486080 TTTATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (20 bp):
CAATATAGAAAGAGTGATTC
Found at i:32488873 original size:18 final size:19
Alignment explanation
Indices: 32488850--32488889 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
32488840 TTCATGTATA
32488850 TATAAAATA-TAGAAAATG
1 TATAAAATATTAGAAAATG
*
32488868 TAT-AAATATTATAAAATG
1 TATAAAATATTAGAAAATG
32488886 TATA
1 TATA
32488890 TGCATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
TATAAAATATTAGAAAATG
Found at i:32489065 original size:3 final size:3
Alignment explanation
Indices: 32489050--32489100 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
32489040 AAAAAACGTG
* * *
32489050 ATA ATA ATT ATA ATA ATA AT- TTA A-A ATA ATA AAA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
32489096 GTA AT
1 ATA AT
32489101 GTAAAAAAAC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 3 0.08
3 35 0.92
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32490820 original size:128 final size:127
Alignment explanation
Indices: 32490581--32490844 Score: 296
Period size: 128 Copynumber: 2.1 Consensus size: 127
32490571 GCAATTTCAA
* * * * * *
32490581 AGATAAGTCTGGATGTGATCTGCTCCCTGTAACTTCAGAGAGGTAAGATCTGTAATTTTAATCCG
1 AGATAAGACTGGATGCGATATGCTCCCTGCAACTTCAGAGAGATAAGATCTATAATTTTAATCCG
* * * * ** * *
32490646 CTCCGCTGCAACTTCAGGGAGATAGGATTGGATTCTTCTGTCTGCTCCACTGTAACTTCAGGG
66 CTCCACTGCAACTTCAGGAAGATAGAATT-GATTCCTCAATCTGCTCCACTGCAACTTAAGGG
* * **
32490709 AGATAAGACTGTATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCTATGGTTTTAATCCG
1 AGATAAGACTGGATGCGATATGCTCCCTGCAACTTCAGAGAGATAAGATCTATAATTTTAATCCG
* * * *
32490774 CTCCACTGCATCTTCAGGAAGATAGAATT-ATTGGCCTCAATTTGCTCCGCTGCATCTTAAGGG
66 CTCCACTGCAACTTCAGGAAGATAGAATTGATT--CCTCAATCTGCTCCACTGCAACTTAAGGG
32490837 AGATAAGA
1 AGATAAGA
32490845 TTCGACATCT
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
126 3 0.03
128 109 0.97
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (127 bp):
AGATAAGACTGGATGCGATATGCTCCCTGCAACTTCAGAGAGATAAGATCTATAATTTTAATCCG
CTCCACTGCAACTTCAGGAAGATAGAATTGATTCCTCAATCTGCTCCACTGCAACTTAAGGG
Found at i:32490912 original size:50 final size:50
Alignment explanation
Indices: 32490853--32491012 Score: 144
Period size: 50 Copynumber: 3.2 Consensus size: 50
32490843 GATTCGACAT
* *
32490853 CTTCAATCTGTTTAACTGCAATGTCCAGAAAACAAGATCCGCCGTCGTGA
1 CTTCAATCTGTTTAATTGCAATGTCCAGGAAACAAGATCCGCCGTCGTGA
** ** * *** * * *
32490903 CTTCAATCTGTTCCATTGCACCG-CTAGGGAGGTAAGATTCGCCGTTGTGG
1 CTTCAATCTGTTTAATTGCAATGTCCA-GGAAACAAGATCCGCCGTCGTGA
***
32490953 CTTCAATCAT-TTTAATTGCAATGTTGGGGAAACAAGATCCGCCGTCGTGA
1 CTTCAATC-TGTTTAATTGCAATGTCCAGGAAACAAGATCCGCCGTCGTGA
32491003 CTTCAATCTG
1 CTTCAATCTG
32491013 CTCTACTACA
Statistics
Matches: 80, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
49 3 0.04
50 76 0.95
51 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (50 bp):
CTTCAATCTGTTTAATTGCAATGTCCAGGAAACAAGATCCGCCGTCGTGA
Found at i:32491033 original size:50 final size:49
Alignment explanation
Indices: 32490882--32491061 Score: 146
Period size: 50 Copynumber: 3.6 Consensus size: 49
32490872 AATGTCCAGA
*
32490882 AAACAAGATCCGCCGTCGTGACTTCAATCTGTTCCATTGCACCGCTAGGG
1 AAACAAGATCCGCCGTCGTGACTTCAATCTG-TCTATTGCACCGCTAGGG
*** * * * * ** * *
32490932 AGGTAAGATTCGCCGTTGTGGCTTCAATCAT-TTTAATTGCAATGTTGGGG
1 AAACAAGATCCGCCGTCGTGACTTCAATC-TGTCT-ATTGCACCGCTAGGG
* *
32490982 AAACAAGATCCGCCGTCGTGACTTCAATCTGCTCTACTACACCGCTAGGG
1 AAACAAGATCCGCCGTCGTGACTTCAATCTG-TCTATTGCACCGCTAGGG
** * * *
32491032 AAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 AAACAAGATCCGCCGTCGTGACTTCAATCT
32491062 ATTCCACTAT
Statistics
Matches: 96, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
49 2 0.02
50 91 0.95
51 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (49 bp):
AAACAAGATCCGCCGTCGTGACTTCAATCTGTCTATTGCACCGCTAGGG
Found at i:32491357 original size:88 final size:88
Alignment explanation
Indices: 32491264--32491427 Score: 247
Period size: 88 Copynumber: 1.9 Consensus size: 88
32491254 AGACTGGTGT
* * * * * *
32491264 CTTCGATCTGCTTCGCTGCCAGTATAGGAAGGCAAGATCTTCCATTTTCAACCTACTCCACTGCT
1 CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTGCT
* *
32491329 GCTCAGGGAGACAAGACTAGTAC
66 ACTCAAGGAGACAAGACTAGTAC
*
32491352 CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCT
1 CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTGCT
32491417 ACTCAAGGAGA
66 ACTCAAGGAGA
32491428 TAAGGCTGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (88 bp):
CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACTGCT
ACTCAAGGAGACAAGACTAGTAC
Found at i:32491414 original size:45 final size:45
Alignment explanation
Indices: 32491279--32491415 Score: 118
Period size: 45 Copynumber: 3.1 Consensus size: 45
32491269 ATCTGCTTCG
* * * * *
32491279 CTGCCAGTATAGGAAGGCAAGATCTTCCATTTTCAACCTACTCCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
*** * ** * * *
32491324 CTGCTGCT-CAGGGAGACAAGA-CTAG-TACCTTCGATCTACTTCA
1 CTGCCAATACAGGAAGACAAGATCT-GCTATTTTCAACCTACTCCA
32491367 CTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
1 CTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
32491412 CTGC
1 CTGC
32491416 TACTCAAGGA
Statistics
Matches: 66, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 19 0.29
44 23 0.35
45 24 0.36
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (45 bp):
CTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCA
Found at i:32496249 original size:26 final size:26
Alignment explanation
Indices: 32496174--32496231 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
32496164 GATTATGAAT
* *
32496174 GAATAAAAGAATGATG--TGGAAAAA
1 GAATAAAAGAATAATGACTCGAAAAA
*
32496198 GAATAAAAGAATAATTACTCGAAAAA
1 GAATAAAAGAATAATGACTCGAAAAA
32496224 GAATAAAA
1 GAATAAAA
32496232 AGACTACTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 14 0.48
26 15 0.52
ACGTcount: A:0.62, C:0.03, G:0.17, T:0.17
Consensus pattern (26 bp):
GAATAAAAGAATAATGACTCGAAAAA
Found at i:32496249 original size:27 final size:27
Alignment explanation
Indices: 32496193--32496256 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
32496183 AATGATGTGG
* *
32496193 AAAAAGAAT-AAAAGAATAATTACTCG
1 AAAAAGAATAAAAAGAATAATGACTCA
* * *
32496219 AAAAAGAATAAAAAGACTACTGGCTCA
1 AAAAAGAATAAAAAGAATAATGACTCA
32496246 AAAAATGAATA
1 AAAAA-GAATA
32496257 CGAAAAGTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 9 0.29
27 17 0.55
28 5 0.16
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.17
Consensus pattern (27 bp):
AAAAAGAATAAAAAGAATAATGACTCA
Found at i:32503537 original size:26 final size:26
Alignment explanation
Indices: 32503494--32503561 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
32503484 AAAAAAATAA
* * * *
32503494 ATGTATACATATATTATAGGAAATGC
1 ATGTATATATAAAATATAGAAAATGC
*
32503520 ATGTATATATAAAATATAGAAAATGT
1 ATGTATATATAAAATATAGAAAATGC
*
32503546 ATATATATTATAAAAT
1 ATGTATA-TATAAAAT
32503562 GTATATGCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 27 0.77
27 8 0.23
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (26 bp):
ATGTATATATAAAATATAGAAAATGC
Found at i:32506920 original size:11 final size:11
Alignment explanation
Indices: 32506899--32506945 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
32506889 GTGTAGTTTG
32506899 TTTATTGTTATT
1 TTTA-TGTTATT
32506911 TTTATGTTATT
1 TTTATGTTATT
32506922 TTTAAT-TTATT
1 TTT-ATGTTATT
* *
32506933 TTAAAGTTATT
1 TTTATGTTATT
32506944 TT
1 TT
32506946 GCTAGTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 1 0.03
11 24 0.77
12 6 0.19
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.70
Consensus pattern (11 bp):
TTTATGTTATT
Found at i:32506943 original size:66 final size:64
Alignment explanation
Indices: 32506869--32507017 Score: 167
Period size: 65 Copynumber: 2.3 Consensus size: 64
32506859 ATGATGAGGA
* * * * * * *
32506869 TAAA-TTATTTTGTTAGTA-TTGTGTAGTTTGTTTATTGTTATTTTTATGTTATTTTTAATTTAT
1 TAAAGTTATTTTGTTAGTATTTGTG-AGGTT-ATGAATGTAATTTTTAT-TAATTTTTAAATTAT
32506932 TT
63 TT
*
32506934 TAAAGTTATTTTGCTAGTAATTTGTGAGGTTATGAATGTAATTTTTATTAATTTTTAAATTATTT
1 TAAAGTTATTTTGTTAGT-ATTTGTGAGGTTATGAATGTAATTTTTATTAATTTTTAAATTATTT
*
32506999 TAACGTTATTTTGTTAGTA
1 TAAAGTTATTTTGTTAGTA
32507018 ATTTTTGTGA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 1 0.01
65 35 0.49
66 25 0.35
67 5 0.07
68 5 0.07
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.59
Consensus pattern (64 bp):
TAAAGTTATTTTGTTAGTATTTGTGAGGTTATGAATGTAATTTTTATTAATTTTTAAATTATTT
Found at i:32511009 original size:32 final size:32
Alignment explanation
Indices: 32510973--32511034 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
32510963 TTATTAAAGA
*
32510973 TTACATCTATTTCTATTGTTAAAAAATAATCC
1 TTACATCTATTTCTATTATTAAAAAATAATCC
32511005 TTACATCTATTTCTATTATTAAAAAATAAT
1 TTACATCTATTTCTATTATTAAAAAATAAT
32511035 TTTTATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (32 bp):
TTACATCTATTTCTATTATTAAAAAATAATCC
Found at i:32519268 original size:21 final size:21
Alignment explanation
Indices: 32519243--32519337 Score: 84
Period size: 21 Copynumber: 4.5 Consensus size: 21
32519233 TAGTTGGGGT
* *
32519243 TTAAGGTTTAAGTGTTTAGGG
1 TTAAGGGTTAAGGGTTTAGGG
*
32519264 TTAAGGGTTAGGGGTTTAGGG
1 TTAAGGGTTAAGGGTTTAGGG
* * *
32519285 TTAAGGGTTAGGGGTTTATGA
1 TTAAGGGTTAAGGGTTTAGGG
* ** *
32519306 TTGAA-GGTTTAGGGGATATGG
1 TT-AAGGGTTAAGGGTTTAGGG
32519327 TTAAGGGTTAA
1 TTAAGGGTTAA
32519338 TGTATTATGG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (21 bp):
TTAAGGGTTAAGGGTTTAGGG
Found at i:32519270 original size:7 final size:7
Alignment explanation
Indices: 32519243--32519300 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
32519233 TAGTTGGGGT
*
32519243 TTAAGGT
1 TTAAGGG
*
32519250 TTAAGTG
1 TTAAGGG
*
32519257 TTTAGGG
1 TTAAGGG
32519264 TTAAGGG
1 TTAAGGG
*
32519271 TTAGGGG
1 TTAAGGG
*
32519278 TTTAGGG
1 TTAAGGG
32519285 TTAAGGG
1 TTAAGGG
*
32519292 TTAGGGG
1 TTAAGGG
32519299 TT
1 TT
32519301 TATGATTGAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (7 bp):
TTAAGGG
Found at i:32519522 original size:14 final size:14
Alignment explanation
Indices: 32519503--32519543 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
32519493 GTTTGTGGGT
32519503 TTAAGGTTTAAGGG
1 TTAAGGTTTAAGGG
32519517 TTAAGGGTTT-AGGG
1 TTAA-GGTTTAAGGG
*
32519531 TTAAGGTCTAAGG
1 TTAAGGTTTAAGG
32519544 AATAGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (14 bp):
TTAAGGTTTAAGGG
Found at i:32522096 original size:67 final size:67
Alignment explanation
Indices: 32521968--32522096 Score: 147
Period size: 67 Copynumber: 1.9 Consensus size: 67
32521958 TAATATGGAC
* ** *
32521968 ATATAACCTATATTCCAATTTTATTAATAATAAATTTTATAATTTATCGAATAAATGTAAATTCG
1 ATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTATAAAATAAATATAAATTCG
32522033 AT
66 AT
* * *
32522035 ATATAACCTATATTTCAAATTTATTAGTAA-ACAATTTT-TAAATTT-TAAAAATAATTATAAAT
1 ATATAACCTATATTCCAAATTTATTAATAATA-AATTTTAT-AATTTAT-AAAATAAATATAAAT
32522097 AAGAAGTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
66 3 0.06
67 49 0.94
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (67 bp):
ATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTATAAAATAAATATAAATTCG
AT
Found at i:32522373 original size:39 final size:36
Alignment explanation
Indices: 32522325--32522443 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 36
32522315 ACATAAGTTA
32522325 AATAACATACAATATATAAACATATATAGAAACTTATAT
1 AATAACATACAATATATAAAC-T-TATA-AAACTTATAT
32522364 AATAACATACAATATA-ATAACTTATACATAAC-T-TA-
1 AATAACATACAATATATA-AACTTATA-A-AACTTATAT
** *
32522399 AATAACATACAATATATAAACTTGCATAACTTATAT
1 AATAACATACAATATATAAACTTATAAAACTTATAT
32522435 AATAACATA
1 AATAACATA
32522444 ATACATGGCC
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
33 3 0.04
34 1 0.01
35 24 0.34
36 12 0.17
37 6 0.09
38 5 0.07
39 19 0.27
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (36 bp):
AATAACATACAATATATAAACTTATAAAACTTATAT
Found at i:32522421 original size:35 final size:35
Alignment explanation
Indices: 32522313--32522421 Score: 132
Period size: 35 Copynumber: 3.0 Consensus size: 35
32522303 AACTTACATA
*
32522313 ATACATAAGTTAAATAACATACAATATATAAACATAT
1 ATACATAACTTAAATAACATACAATATATAAAC-T-T
*
32522350 ATAGA-AACTTATATAATAACATACAATATA-ATAACTT
1 ATACATAAC-T-TA-AATAACATACAATATATA-AACTT
32522387 ATACATAACTTAAATAACATACAATATATAAACTT
1 ATACATAACTTAAATAACATACAATATATAAACTT
32522422 GCATAACTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
35 21 0.33
36 5 0.08
37 11 0.17
38 7 0.11
39 19 0.30
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (35 bp):
ATACATAACTTAAATAACATACAATATATAAACTT
Found at i:32522466 original size:9 final size:9
Alignment explanation
Indices: 32522454--32522585 Score: 119
Period size: 9 Copynumber: 14.8 Consensus size: 9
32522444 ATACATGGCC
32522454 TACATAACT
1 TACATAACT
32522463 TACATAACT
1 TACATAACT
* *
32522472 TACATTATT
1 TACATAACT
*
32522481 TAGATAA--
1 TACATAACT
* *
32522488 TACATAGCC
1 TACATAACT
32522497 TACATAACTT
1 TACATAAC-T
*
32522507 ATATATAAACT
1 -TACAT-AACT
*
32522518 TACATAAAT
1 TACATAACT
*
32522527 TAAATAACT
1 TACATAACT
32522536 TACATAACT
1 TACATAACT
32522545 TACATAACT
1 TACATAACT
*
32522554 CACATAA--
1 TACATAACT
*
32522561 TACACAACT
1 TACATAACT
32522570 TACATAACT
1 TACATAACT
32522579 TACATAA
1 TACATAA
32522586 TACANNNNNN
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
7 10 0.10
9 76 0.78
10 4 0.04
11 5 0.05
12 3 0.03
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (9 bp):
TACATAACT
Found at i:32522491 original size:25 final size:25
Alignment explanation
Indices: 32522454--32522589 Score: 96
Period size: 25 Copynumber: 5.2 Consensus size: 25
32522444 ATACATGGCC
*
32522454 TACATAACTTACATAACTTACATTATT
1 TACATAACTTACATAACTTACA-TA-A
* * *
32522481 TAGATAA--TACATAGCCTACATAACTTA
1 TACATAACTTACATAACTTACAT-A---A
* * *
32522508 TATATAAACTTACATAAATTAAATAA
1 TACATAA-CTTACATAACTTACATAA
*
32522534 CTTACATAACTTACATAACTCACATAA
1 --TACATAACTTACATAACTTACATAA
*
32522561 TACACAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
32522586 TACA
1 TACA
32522590 NNNNNNNNNN
Statistics
Matches: 86, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
24 1 0.01
25 39 0.45
26 1 0.01
27 28 0.33
28 6 0.07
29 1 0.01
30 10 0.12
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:32522571 original size:34 final size:34
Alignment explanation
Indices: 32522454--32522585 Score: 138
Period size: 34 Copynumber: 3.7 Consensus size: 34
32522444 ATACATGGCC
* * *
32522454 TACATAACTTACATAACTTACATTATTTAGATAA
1 TACATAACTTACATAACTTACATAACTTACATAA
* * *
32522488 TACATAGCCTACATAACTTATATATAAACTTACATAAA
1 TACATAACTTACATAAC-T-TACAT-AACTTACAT-AA
* *
32522526 TTAAATAACTTACATAACTTACATAACTCACATAA
1 -TACATAACTTACATAACTTACATAACTTACATAA
*
32522561 TACACAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
32522586 TACANNNNNN
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
34 38 0.47
35 3 0.04
36 12 0.15
37 10 0.12
38 3 0.04
39 14 0.17
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAACTTACATAA
Found at i:32528519 original size:21 final size:21
Alignment explanation
Indices: 32528493--32528564 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
32528483 CTACAACTTA
*
32528493 AAGCAGAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
32528514 AAGCAGAGACTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
*
32528535 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
32528556 AAGCAGAGG
1 AAGCAGAGG
32528565 TTCAAAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.38, C:0.18, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:32529031 original size:43 final size:42
Alignment explanation
Indices: 32528980--32529076 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
32528970 TCATGTTCTA
32528980 TAGCGGCGTTTCTGAAGAAAGCG-TCGCTAAAGAAC-ATGATCTT
1 TAGCGGCGTTT-TGAAGAAAGCGCT-GCTAAAGAACAAT-ATCTT
* * ***
32529023 TAGTGGCGTTTTTATTTAAGCGCTGCTAAAGAACAATATCTT
1 TAGCGGCGTTTTGAAGAAAGCGCTGCTAAAGAACAATATCTT
32529065 TAGCGGCGTTTT
1 TAGCGGCGTTTT
32529077 TCTCCATGCG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
42 33 0.72
43 13 0.28
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (42 bp):
TAGCGGCGTTTTGAAGAAAGCGCTGCTAAAGAACAATATCTT
Found at i:32529053 original size:42 final size:41
Alignment explanation
Indices: 32529005--32529239 Score: 213
Period size: 42 Copynumber: 5.5 Consensus size: 41
32528995 AGAAAGCGTC
*
32529005 GCTAAAGAACATGATCTTTAGTGGCGTTTTTATTTAAGCGCT
1 GCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTTAAGCGCT
** * *
32529047 GCTAAAGAACAAT-ATCTTTAGCGGCGTTTTTCTCCATGCGCC
1 GCTAAAGAAC-ATGATCTTTAGCGGCGTTTTT-TTTAAGCGCT
* * *
32529089 GCTAAAGAACATGATCTTTAGCGGTGACTTTTTTTAAAGTG-T
1 GCTAAAGAACATGATCTTTAGCGGCG--TTTTTTTTAAGCGCT
* * * *
32529131 CGCTAAAGAACATGATCATTAGCGGCGCATTTTTCTAAGAGCT
1 -GCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTTAAGCGCT
* *
32529174 GCTAAAGAACATGATCTTTAGCGACGCATTTTTTTTCGAAGCGCC
1 GCTAAAGAACATGATCTTTAGCG--GCGTTTTTTTT--AAGCGCT
* *
32529219 GCTAAAGAACATTACCTTTAG
1 GCTAAAGAACATGATCTTTAG
32529240 GTTCTTTAGC
Statistics
Matches: 157, Mismatches: 26, Indels: 17
0.79 0.13 0.09
Matches are distributed among these distances:
41 2 0.01
42 87 0.55
43 37 0.24
44 7 0.04
45 24 0.15
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
GCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCGCT
Found at i:32529153 original size:85 final size:83
Alignment explanation
Indices: 32529004--32529229 Score: 226
Period size: 85 Copynumber: 2.7 Consensus size: 83
32528994 AAGAAAGCGT
* * *
32529004 CGCTAAAGAACATGATCTTTAGTGGCGTTTTTATTTAAGCGCTGCTAAAGAACAATATCTTTAGC
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTATTAAAGCGCTGCTAAAGAACAATATCATTAGC
* *
32529069 GGCG-TTTTTCTCCATGCGC
66 GGCGATTTTTCT--AAGAGC
* *
32529088 CGCTAAAGAACATGATCTTTAGCGGTGACTTTTT-TTAAAGTG-TCGCTAAAGAAC-ATGATCAT
1 CGCTAAAGAACATGATCTTTAGCGGCG--TTTTTATTAAAGCGCT-GCTAAAGAACAAT-ATCAT
32529150 TAGCGGCGCATTTTTCTAAGAGC
62 TAGCGGCG-ATTTTTCTAAGAGC
* * * * *
32529173 TGCTAAAGAACATGATCTTTAGCGACGCATTTTTTTTCGAAGCGCCGCTAAAGAACA
1 CGCTAAAGAACATGATCTTTAGCG--GCGTTTTTATT-AAAGCGCTGCTAAAGAACA
32529230 TTACCTTTAG
Statistics
Matches: 117, Mismatches: 13, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
84 28 0.24
85 60 0.51
86 7 0.06
87 22 0.19
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (83 bp):
CGCTAAAGAACATGATCTTTAGCGGCGTTTTTATTAAAGCGCTGCTAAAGAACAATATCATTAGC
GGCGATTTTTCTAAGAGC
Found at i:32529175 original size:127 final size:129
Alignment explanation
Indices: 32528997--32529239 Score: 323
Period size: 127 Copynumber: 1.9 Consensus size: 129
32528987 GTTTCTGAAG
* * * * *
32528997 AAAGCGTCGCTAAAGAACATGATCTTTAGTGGCGTTTTTATTTAAGCGCTGCTAAAGAACAAT-A
1 AAAGCGTCGCTAAAGAACATGATCATTAGCGGCGATTTTATCTAAGAGCTGCTAAAGAAC-ATGA
* *
32529061 TCTTTAGCG-GC-GTTTTTCTCCATGCGCCGCTAAAGAACATGATCTTTAGCGGTGACTTTTTTT
65 TCTTTAGCGAGCAGTTTTTCTCCAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGACTTTTTTT
*
32529124 AAAGTGTCGCTAAAGAACATGATCATTAGCGGCGCATTTT-TCTAAGAGCTGCTAAAGAACATGA
1 AAAGCGTCGCTAAAGAACATGATCATTAGCGGCG-ATTTTATCTAAGAGCTGCTAAAGAACATGA
* * * *
32529188 TCTTTAGCGACGCATTTTTTTTCGAAGCGCCGCTAAAGAACATTACCTTTAG
65 TCTTTAGCGA-GCAGTTTTTCTCCAAGCGCCGCTAAAGAACATGACCTTTAG
32529240 GTTCTTTAGC
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
126 2 0.02
127 59 0.60
128 4 0.04
129 2 0.02
130 32 0.32
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (129 bp):
AAAGCGTCGCTAAAGAACATGATCATTAGCGGCGATTTTATCTAAGAGCTGCTAAAGAACATGAT
CTTTAGCGAGCAGTTTTTCTCCAAGCGCCGCTAAAGAACATGACCTTTAGCGGTGACTTTTTTT
Found at i:32529472 original size:72 final size:72
Alignment explanation
Indices: 32529355--32529500 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
32529345 GGGCGCTAAA
* *
32529355 AAGCGCCACTAAAGGCCTAAAAAATGCCGCTAAAAACCTGTTCTGGTGTAGTGCCTATGTTGAAA
1 AAGCGCCACTAAAGGACTAAAAAACGCCGCTAAAAACCTGTTCTGGTGTAGTGCCTATGTTGAAA
32529420 GTATTAT
66 GTATTAT
*
32529427 AAGCGCCGCTAAAGGACTAAAAAACGCCGCTAAAAACCTGTTCTGGTGTAGTGCCTATGTTGAAA
1 AAGCGCCACTAAAGGACTAAAAAACGCCGCTAAAAACCTGTTCTGGTGTAGTGCCTATGTTGAAA
32529492 GTATTAT
66 GTATTAT
32529499 AA
1 AA
32529501 ATAATAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (72 bp):
AAGCGCCACTAAAGGACTAAAAAACGCCGCTAAAAACCTGTTCTGGTGTAGTGCCTATGTTGAAA
GTATTAT
Found at i:32532876 original size:5 final size:5
Alignment explanation
Indices: 32532844--32532888 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
32532834 TTTCTTTCAT
*
32532844 TTTTA TTTT- TATTA -TTTA -TTTA -TTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
32532889 TCTTTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
4 14 0.39
5 22 0.61
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:32532898 original size:15 final size:15
Alignment explanation
Indices: 32532844--32532888 Score: 53
Period size: 13 Copynumber: 3.3 Consensus size: 15
32532834 TTTCTTTCAT
*
32532844 TTTTATTTT-TATTA
1 TTTTATTTTATTTTA
32532858 -TTTA-TTTA-TTTA
1 TTTTATTTTATTTTA
32532870 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
32532885 TTTT
1 TTTT
32532889 TCTTTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
12 6 0.23
13 8 0.31
14 4 0.15
15 8 0.31
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:32537963 original size:6 final size:6
Alignment explanation
Indices: 32537944--32538096 Score: 85
Period size: 7 Copynumber: 22.3 Consensus size: 6
32537934 CAGAATCAAA
*
32537944 AAAATC AAAA-- AAAATT AAAATC AAAAAATC AAAAAATC AAAAAATC
1 AAAATC AAAATC AAAATC AAAATC --AAAATC --AAAATC --AAAATC
32537990 AAAAATC AAAAATC AAAAATC AAAAATC AAAAATC AAAAATC AAAAATC
1 -AAAATC -AAAATC -AAAATC -AAAATC -AAAATC -AAAATC -AAAATC
*
32538039 AAAAATC AAAAATC AAAAATC AAAAATC AAAAATTA AAAATC AAAAATC
1 -AAAATC -AAAATC -AAAATC -AAAATC -AAAA-TC AAAATC -AAAATC
32538088 AAAAATC AA
1 -AAAATC AA
32538097 GAAAAAGAAA
Statistics
Matches: 138, Mismatches: 3, Indels: 12
0.90 0.02 0.08
Matches are distributed among these distances:
4 4 0.03
6 12 0.09
7 99 0.72
8 23 0.17
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:32537963 original size:7 final size:7
Alignment explanation
Indices: 32537960--32538096 Score: 238
Period size: 7 Copynumber: 19.1 Consensus size: 7
32537950 AAAAAAAATT
32537960 AAAATCAA
1 AAAATC-A
32537968 AAAATCAA
1 AAAATC-A
32537976 AAAATCAA
1 AAAATC-A
32537984 AAAATCA
1 AAAATCA
32537991 AAAATCA
1 AAAATCA
32537998 AAAATCA
1 AAAATCA
32538005 AAAATCA
1 AAAATCA
32538012 AAAATCA
1 AAAATCA
32538019 AAAATCA
1 AAAATCA
32538026 AAAATCA
1 AAAATCA
32538033 AAAATCA
1 AAAATCA
32538040 AAAATCA
1 AAAATCA
32538047 AAAATCA
1 AAAATCA
32538054 AAAATCA
1 AAAATCA
32538061 AAAATCA
1 AAAATCA
*
32538068 AAAATTA
1 AAAATCA
32538075 AAAATCA
1 AAAATCA
32538082 AAAATCA
1 AAAATCA
32538089 AAAATCA
1 AAAATCA
32538096 A
1 A
32538097 GAAAAAGAAA
Statistics
Matches: 127, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
7 105 0.83
8 22 0.17
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATCA
Found at i:32538967 original size:12 final size:12
Alignment explanation
Indices: 32538952--32538977 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32538942 ACCAAAAAAA
32538952 AATGAAAAAATG
1 AATGAAAAAATG
32538964 AATGAAAAAATG
1 AATGAAAAAATG
32538976 AA
1 AA
32538978 AAAATGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (12 bp):
AATGAAAAAATG
Found at i:32538973 original size:20 final size:18
Alignment explanation
Indices: 32538946--32538998 Score: 88
Period size: 20 Copynumber: 2.8 Consensus size: 18
32538936 AGTCAAACCA
32538946 AAAAAAAATGAAAAAATG
1 AAAAAAAATGAAAAAATG
32538964 AATGAAAAAATGAAAAAATG
1 AA--AAAAAATGAAAAAATG
32538984 AAAAAAAATGAAAAA
1 AAAAAAAATGAAAAA
32538999 TTAAAAATGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.45
20 18 0.55
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAAAATGAAAAAATG
Found at i:32538998 original size:8 final size:8
Alignment explanation
Indices: 32538948--32538989 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
32538938 TCAAACCAAA
32538948 AAAAAATG
1 AAAAAATG
32538956 AAAAAATG
1 AAAAAATG
32538964 ----AATG
1 AAAAAATG
32538968 AAAAAATG
1 AAAAAATG
32538976 AAAAAATG
1 AAAAAATG
32538984 AAAAAA
1 AAAAAA
32538990 AATGAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.13
8 26 0.87
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:32540327 original size:88 final size:88
Alignment explanation
Indices: 32540178--32541151 Score: 1903
Period size: 88 Copynumber: 11.1 Consensus size: 88
32540168 AACATATCAG
* * *
32540178 TGAAGACAACAGATCTTGCATTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
*
32540243 TTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
*
32540266 TGAAGACAAAAGATCTTGCCTTCCTGCATTGAAAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540331 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540354 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540419 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540442 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540507 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540530 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540595 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540618 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540683 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540706 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540771 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540794 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540859 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540882 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32540947 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32540970 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32541035 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32541058 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
32541123 CTCTCGGTTGTGATGGAGCTGGT
66 CTCTCGGTTGTGATGGAGCTGGT
32541146 TGAAGA
1 TGAAGA
32541152 NNNNNNNNNN
Statistics
Matches: 880, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 880 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCT
CTCTCGGTTGTGATGGAGCTGGT
Found at i:32549178 original size:17 final size:17
Alignment explanation
Indices: 32549152--32549186 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32549142 CCTCCTCGCA
* *
32549152 CGTGTTGCGCCTGCGCG
1 CGTGTAGCGCCTCCGCG
32549169 CGTGTAGCGCCTCCGCG
1 CGTGTAGCGCCTCCGCG
32549186 C
1 C
32549187 CAAATTCACG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.40, G:0.37, T:0.20
Consensus pattern (17 bp):
CGTGTAGCGCCTCCGCG
Found at i:32554360 original size:98 final size:98
Alignment explanation
Indices: 32554228--32554489 Score: 346
Period size: 103 Copynumber: 2.6 Consensus size: 98
32554218 AAAAAACGAA
** * * *
32554228 ACAAAAAAAAATTTTTTTTGGTGCTAGCCTGTCAATGGCCGGCACTCAGTACAATTTAAAAAAAA
1 ACAAAAAAAAA-AATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
* *
32554293 GA-TTTTTTTTGTGTCAGAGTCAGATATCAGTAT
65 AATTTTTTTTTGTGTCAGAATCAGATATCAGTAT
* * *
32554326 ACAAAAAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTCCAATTTAAAAAAAA
1 AC-AAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
*
32554391 AATTTCTTTTTTTTTTGTGTCAGAATTAGATATCAGTAT
65 AA-----TTTTTTTTTGTGTCAGAATCAGATATCAGTAT
*
32554430 ACGAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
1 ACAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
32554490 TTTTTTTTCT
Statistics
Matches: 143, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
98 49 0.34
99 9 0.06
103 54 0.38
104 31 0.22
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (98 bp):
ACAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAAA
ATTTTTTTTTGTGTCAGAATCAGATATCAGTAT
Found at i:32554505 original size:104 final size:104
Alignment explanation
Indices: 32554228--32554489 Score: 358
Period size: 98 Copynumber: 2.6 Consensus size: 104
32554218 AAAAAACGAA
*** * * *
32554228 ACAAAAAAAAATTTTTTTTGGTGCTAGCCTGTCAATGGCCGGCACTCAGTACAATTTAAAAAAAA
1 ACAAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
* *
32554293 GA------TTTTTTTTGTGTCAGAGTCAGATATCAGTAT
66 AATTTCTTTTTTTTTTGTGTCAGAATCAGATATCAGTAT
* * *
32554326 ACAAAAAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTCCAATTTAAAAAAAA
1 ACAAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
*
32554391 AATTTCTTTTTTTTTTGTGTCAGAATTAGATATCAGTAT
66 AATTTCTTTTTTTTTTGTGTCAGAATCAGATATCAGTAT
*
32554430 AC-GAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
1 ACAAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAA
32554490 TTTTTTTTCT
Statistics
Matches: 143, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
98 58 0.41
103 54 0.38
104 31 0.22
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (104 bp):
ACAAAAAAAAAAAATTTTAGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAAAAAAA
AATTTCTTTTTTTTTTGTGTCAGAATCAGATATCAGTAT
Found at i:32554612 original size:107 final size:108
Alignment explanation
Indices: 32554486--32554894 Score: 367
Period size: 107 Copynumber: 3.8 Consensus size: 108
32554476 AGTACAATTT
* * *
32554486 AAAATTTTTTTTCTTTTTTTCGTATACTGATATTTGATTCTGACACAAAAAAAAAGAACTT-TTT
1 AAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTCTTT
* * * **
32554550 TTT-AAATTGTACTGGGTGCTGGCCTGTCAATGGCCGGCACCCC
66 TTTAAAATTGTACTGGGTGCTGGCCT-TAAATGGCCAGTACCAA
*
32554593 AAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAATTTCTTT
1 AAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTCTTT
*** **** * ***
32554658 TTT-AAATTGTACTGGGAATTTTTTTTAAAT----TGTACTGG
66 TTTAAAATTGTACTGGGTGCTGGCCTTAAATGGCCAGTACCAA
* * *
32554696 GAAA-TTTTTTTATTTTTTTCGTATATTGATATCTGATTCTGACACGGAAAAAAAAAAAGAAATT
1 AAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACAC----AAAAAAAAAGAATTT
* *
32554760 -TTTTTTAAAATTGTACTGGGTG-TCGGCCATTGACA-GGCCAATACCTAAAA
62 CTTTTTTAAAATTGTACTGGGTGCT-GGCC-TT-AAATGGCCAGTACC---AA
* *
32554810 AAAATTGTTTTTTATTTTTTTCGTATACTGATATTTGACTT-TGACAC-AAAAAAAAGAATTTGT
1 AAAATT-TTTTTTATTTTTTTCGTATACTGATATCTGA-TTCTGACACAAAAAAAAAGAATTTCT
32554873 TTTTTAAAATTGTACTGGGTGC
64 TTTTTAAAATTGTACTGGGTGC
32554895 CGGTCATTGA
Statistics
Matches: 244, Mismatches: 37, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
102 40 0.16
103 6 0.02
105 7 0.03
106 26 0.11
107 63 0.26
108 23 0.09
111 16 0.07
112 22 0.09
114 3 0.01
115 1 0.00
116 35 0.14
117 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (108 bp):
AAAATTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAATTTCTTT
TTTAAAATTGTACTGGGTGCTGGCCTTAAATGGCCAGTACCAA
Found at i:32554701 original size:24 final size:23
Alignment explanation
Indices: 32554655--32554707 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
32554645 AAAGAATTTC
32554655 TTTTTTAAATTGTACTGGGAATT
1 TTTTTTAAATTGTACTGGGAATT
*
32554678 TTTTTTAAATTGTACTGGGAAAT
1 TTTTTTAAATTGTACTGGGAATT
32554701 TTTTTTA
1 TTTTTTA
32554708 TTTTTTTCGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (23 bp):
TTTTTTAAATTGTACTGGGAATT
Found at i:32554906 original size:112 final size:112
Alignment explanation
Indices: 32554701--32554911 Score: 309
Period size: 112 Copynumber: 1.8 Consensus size: 112
32554691 ACTGGGAAAT
*
32554701 TTTTTTATTTTTTTCGTATATTGATATCTGATTCTGACACGGAAAAAAAAAAAGAAATTTTTTTT
1 TTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACAC----AAAAAAAAAGAAATTTTTTTT
*
32554766 AAAATTGTACTGGGTGTCGGCCATTGACAGGCCAATACCTAAAAAAAATTG
62 AAAATTGTACTGGGTGCCGGCCATTGACAGGCCAATACCTAAAAAAAATTG
* *
32554817 TTTTTTATTTTTTTCGTATACTGATATTTGACTT-TGACAC-AAAAAAAAGAATTTGTTTTTTAA
1 TTTTTTATTTTTTTCGTATACTGATATCTGA-TTCTGACACAAAAAAAAAGAAATT-TTTTTTAA
*
32554880 AATTGTACTGGGTGCCGGTCATTGACAGGCCA
64 AATTGTACTGGGTGCCGGCCATTGACAGGCCA
32554912 GCACCAAAAT
Statistics
Matches: 88, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
111 13 0.15
112 38 0.43
116 35 0.40
117 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (112 bp):
TTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACAAAAAAAAAGAAATTTTTTTTAAAA
TTGTACTGGGTGCCGGCCATTGACAGGCCAATACCTAAAAAAAATTG
Found at i:32555815 original size:24 final size:24
Alignment explanation
Indices: 32555788--32555843 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
32555778 TATTAAATAT
32555788 ATATATTTGATTAAAAATAAAAAA
1 ATATATTTGATTAAAAATAAAAAA
*
32555812 ATATATTTGATTAAAAATAAAAAT
1 ATATATTTGATTAAAAATAAAAAA
32555836 ATATATTT
1 ATATATTT
32555844 AATATATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
ATATATTTGATTAAAAATAAAAAA
Found at i:32556409 original size:1 final size:1
Alignment explanation
Indices: 32556403--32556459 Score: 78
Period size: 1 Copynumber: 57.0 Consensus size: 1
32556393 TAACACACAC
* * * *
32556403 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAACAAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32556460 TCTATTTTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32556996 original size:22 final size:24
Alignment explanation
Indices: 32556971--32557015 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
32556961 TTTATACAAC
32556971 ATTATCAAT-AATAATA-TAATAT
1 ATTATCAATAAATAATAGTAATAT
*
32556993 ATTATCATTAAATAATAGTAATA
1 ATTATCAATAAATAATAGTAATA
32557016 ATTTTATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTATCAATAAATAATAGTAATAT
Found at i:32564532 original size:20 final size:20
Alignment explanation
Indices: 32564485--32564523 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32564475 AATTTAAAAT
*
32564485 AATAAAATTTGAATCGATTA
1 AATAATATTTGAATCGATTA
* *
32564505 AATGATATTTGAATTGATT
1 AATAATATTTGAATCGATT
32564524 TGATAATATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
AATAATATTTGAATCGATTA
Found at i:32564826 original size:11 final size:12
Alignment explanation
Indices: 32564796--32564831 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
32564786 ATGTATTAAT
32564796 TTATTTTTCATA
1 TTATTTTTCATA
*
32564808 TTATTTTTGATA
1 TTATTTTTCATA
32564820 TTATTTTT-ATA
1 TTATTTTTCATA
32564831 T
1 T
32564832 CATGTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (12 bp):
TTATTTTTCATA
Found at i:32564846 original size:23 final size:24
Alignment explanation
Indices: 32564785--32564847 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
32564775 TAATTTATTG
32564785 CATGTATTAATTTATTTTTCATAT
1 CATGTATTAATTTATTTTTCATAT
* * *
32564809 TAT-TTTTGATATTATTTTT-ATAT
1 CATGTATTAAT-TTATTTTTCATAT
32564832 CATGTATTAATTTATT
1 CATGTATTAATTTATT
32564848 GCATGTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 16 0.52
24 15 0.48
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
CATGTATTAATTTATTTTTCATAT
Found at i:32574758 original size:16 final size:17
Alignment explanation
Indices: 32574737--32574770 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
32574727 GAAATATAAT
32574737 ATAAAAACAAGAA-AAA
1 ATAAAAACAAGAAGAAA
*
32574753 ATAAAAATAAGAAGAAA
1 ATAAAAACAAGAAGAAA
32574770 A
1 A
32574771 ATAAGAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
ATAAAAACAAGAAGAAA
Found at i:32574997 original size:6 final size:6
Alignment explanation
Indices: 32574986--32575043 Score: 82
Period size: 6 Copynumber: 9.3 Consensus size: 6
32574976 AACGTAGATT
32574986 AATAAA AAT-AA AATAAA CGAATAACA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA --AATAA-A AATAAA AATAAA AATAAA AATAAA
32575036 AATAAA AA
1 AATAAA AA
32575044 AGAAACACAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.10
6 32 0.67
7 5 0.10
8 5 0.10
9 1 0.02
ACGTcount: A:0.79, C:0.03, G:0.02, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:32578513 original size:25 final size:25
Alignment explanation
Indices: 32578485--32578759 Score: 317
Period size: 25 Copynumber: 11.4 Consensus size: 25
32578475 GGAGTTTAGC
32578485 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
32578510 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
32578535 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
32578560 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
*
32578585 GTGCTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
* *
32578610 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
32578635 GTGCTCTCTGATT-TCTAGCA-AGTCA
1 GTGCTCTCTGATTAT-TAGCACA-TCA
32578660 GTGCTCTCT-A--ATTA-CTACA-C-
1 GTGCTCTCTGATTATTAGC-ACATCA
* * *
32578680 --GCTCTCTGATT-TCTAGAACGTTA
1 GTGCTCTCTGATTAT-TAGCACATCA
* *
32578703 GTGCTCTCCGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
* *
32578728 GTGCTCTCT-A-TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACATCA
32578750 GTGCTCTCTG
1 GTGCTCTCTG
32578760 TTTTATAGTG
Statistics
Matches: 220, Mismatches: 14, Indels: 34
0.82 0.05 0.13
Matches are distributed among these distances:
18 7 0.03
19 1 0.00
20 1 0.00
21 6 0.03
22 21 0.10
23 4 0.02
24 2 0.01
25 177 0.80
26 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:32579441 original size:2 final size:2
Alignment explanation
Indices: 32579436--32579460 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32579426 GTTATGTGTG
32579436 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 T
32579461 GAAAGTTAAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32579490 original size:16 final size:16
Alignment explanation
Indices: 32579469--32579500 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32579459 ATGAAAGTTA
32579469 AATTTTGAGGCTTTAT
1 AATTTTGAGGCTTTAT
32579485 AATTTTGAGGCTTTAT
1 AATTTTGAGGCTTTAT
32579501 GACCTCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
AATTTTGAGGCTTTAT
Found at i:32588253 original size:6 final size:6
Alignment explanation
Indices: 32588242--32588321 Score: 97
Period size: 6 Copynumber: 13.3 Consensus size: 6
32588232 TCACTCATCT
* *
32588242 TAATAA TAATAA TAATAA TAATAA TAATAA TGATAA TAATAA TACTAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * *
32588290 TACTAA TACTAA TACTAA TACTAA TATTAA TA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TA
32588322 CTTACCTCAC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.35
Consensus pattern (6 bp):
TAATAA
Found at i:32589088 original size:16 final size:16
Alignment explanation
Indices: 32589067--32589105 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32589057 TTTGCTTTGT
* *
32589067 TTTTATTTCCTTTTTA
1 TTTTATTTACTTTATA
32589083 TTTTATTTACTTTATA
1 TTTTATTTACTTTATA
*
32589099 TTATATT
1 TTTTATT
32589106 AATTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTACTTTATA
Found at i:32589470 original size:7 final size:7
Alignment explanation
Indices: 32589458--32589491 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
32589448 TAGAATTTAA
32589458 TAATAAC
1 TAATAAC
32589465 TAATAAC
1 TAATAAC
32589472 TAATAAC
1 TAATAAC
32589479 TAATAAC
1 TAATAAC
32589486 TAATAA
1 TAATAA
32589492 TAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATAAC
Found at i:32589470 original size:10 final size:10
Alignment explanation
Indices: 32589455--32589501 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
32589445 TCTTAGAATT
32589455 TAATAATAAC
1 TAATAATAAC
32589465 TAATAACTAA-
1 TAATAA-TAAC
32589475 TAACTAATAAC
1 TAA-TAATAAC
*
32589486 TAATAATAAA
1 TAATAATAAC
32589496 TAATAA
1 TAATAA
32589502 ATATCTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (10 bp):
TAATAATAAC
Found at i:32589504 original size:21 final size:20
Alignment explanation
Indices: 32589455--32589501 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
32589445 TCTTAGAATT
32589455 TAATAATAACTAATAACTAA
1 TAATAATAACTAATAACTAA
32589475 TAACTAATAACTAATAA-TAAA
1 TAA-TAATAACTAATAACT-AA
32589496 TAATAA
1 TAATAA
32589502 ATATCTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAACTAATAACTAA
Found at i:32596743 original size:17 final size:16
Alignment explanation
Indices: 32596716--32596748 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
32596706 TAATTGGTAG
32596716 CTAATCACTCTAAACC
1 CTAATCACTCTAAACC
32596732 CTAATACACTCTAAACC
1 CTAAT-CACTCTAAACC
32596749 ACTCTAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.24
Consensus pattern (16 bp):
CTAATCACTCTAAACC
Found at i:32616195 original size:25 final size:25
Alignment explanation
Indices: 32616161--32616208 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
32616151 TCTTGAATTG
*
32616161 TTAATGAAGTGATTGCATCGAGCAT
1 TTAATAAAGTGATTGCATCGAGCAT
32616186 TTAATAAAGTGATTGCATCGAGC
1 TTAATAAAGTGATTGCATCGAGC
32616209 TTCATGGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (25 bp):
TTAATAAAGTGATTGCATCGAGCAT
Found at i:32622470 original size:15 final size:15
Alignment explanation
Indices: 32622458--32622497 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
32622448 CGGAGGTGAT
32622458 GGATACATCGGTGGC
1 GGATACATCGGTGGC
32622473 GGATACATCGGTGGC
1 GGATACATCGGTGGC
32622488 GGATACATCG
1 GGATACATCG
32622498 ATGTTACCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.20, G:0.38, T:0.20
Consensus pattern (15 bp):
GGATACATCGGTGGC
Found at i:32627156 original size:17 final size:18
Alignment explanation
Indices: 32627136--32627175 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
32627126 TAAGATGACT
*
32627136 ATAAAAAA-ATTCAATAA
1 ATAAAAAATATTAAATAA
*
32627153 ATAAAAAATATTAAATTA
1 ATAAAAAATATTAAATAA
32627171 ATAAA
1 ATAAA
32627176 TATCAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAAATATTAAATAA
Found at i:32627176 original size:15 final size:15
Alignment explanation
Indices: 32627158--32627198 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
32627148 AATAAATAAA
32627158 AAATATTAAATTAAT
1 AAATATTAAATTAAT
*
32627173 AAATATCAAATTAAT
1 AAATATTAAATTAAT
32627188 ATAATA-TAAAT
1 A-AATATTAAAT
32627199 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATTAAATTAAT
Found at i:32655057 original size:18 final size:18
Alignment explanation
Indices: 32655025--32655068 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
32655015 GGCCCCCAAG
*
32655025 TTTTTTATAATTTTAT-T
1 TTTTTTATAAATTTATAT
32655042 TTTTTTATAAAATTTATAAT
1 TTTTTTAT-AAATTTAT-AT
32655062 TTTTTTA
1 TTTTTTA
32655069 ATGATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
20 8 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTATAAATTTATAT
Found at i:32656120 original size:13 final size:13
Alignment explanation
Indices: 32656102--32656126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32656092 TAATTTAATA
32656102 TTATTTTGTGTGT
1 TTATTTTGTGTGT
32656115 TTATTTTGTGTG
1 TTATTTTGTGTG
32656127 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:32667669 original size:20 final size:20
Alignment explanation
Indices: 32667641--32667678 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32667631 TCATAAAATT
*
32667641 TAAATAAATTAAACATATTA
1 TAAAAAAATTAAACATATTA
*
32667661 TAAAAAAATTAATCATAT
1 TAAAAAAATTAAACATAT
32667679 ACTTTTTGTC
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:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAAAAAATTAAACATATTA
Found at i:32670570 original size:34 final size:34
Alignment explanation
Indices: 32670477--32670710 Score: 147
Period size: 34 Copynumber: 6.9 Consensus size: 34
32670467 ATGTTATAAC
* *
32670477 AGATCAATACGGTAGTAATAA-CATGCTTATAACA
1 AGATCAATACAGTAGTAATAATCATGCTTA-AAAA
* *
32670511 A-ATCAATACAGTAGCAATTATCATGCTTAAAAA
1 AGATCAATACAGTAGTAATAATCATGCTTAAAAA
* * * * *
32670544 AGATCATTATATTAGTAATAAACATGCTT-ATAA
1 AGATCAATACAGTAGTAATAATCATGCTTAAAAA
* * * * *
32670577 CGAGTCAATACAATAGCAATTATCATGCTTAAAAC
1 AGA-TCAATACAGTAGTAATAATCATGCTTAAAAA
* * *
32670612 ATATCATTACAGTAGTAATAATCATGCTT-ATAA
1 AGATCAATACAGTAGTAATAATCATGCTTAAAAA
* * * * *
32670645 TGAGTCGATA-ATATAGCAATTATCATGCTTAAAACA
1 AGA-TCAATACA-GTAGTAATAATCATGCTTAAAA-A
* * * *
32670681 A-ATCATTACAGTAGCAATAAGCTTGCTTAA
1 AGATCAATACAGTAGTAATAATCATGCTTAA
32670711 CATGTATTTA
Statistics
Matches: 148, Mismatches: 43, Indels: 18
0.71 0.21 0.09
Matches are distributed among these distances:
33 29 0.20
34 111 0.75
35 7 0.05
36 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (34 bp):
AGATCAATACAGTAGTAATAATCATGCTTAAAAA
Found at i:32670585 original size:68 final size:67
Alignment explanation
Indices: 32670479--32670709 Score: 286
Period size: 68 Copynumber: 3.4 Consensus size: 67
32670469 GTTATAACAG
* * * * *
32670479 ATCAATACGGTAGTAAT-AACATGCTTATAACAAATCAATACAGTAGCAATTATCATGCTTAAAA
1 ATCATTACAGTAGTAATAAACATGCTTATAACGAGTCAATACAATAGCAATTATCATGCTTAAAA
32670543 AA
66 AA
* *
32670545 GATCATTATATTAGTAATAAACATGCTTATAACGAGTCAATACAATAGCAATTATCATGCTTAAA
1 -ATCATTACAGTAGTAATAAACATGCTTATAACGAGTCAATACAATAGCAATTATCATGCTTAAA
*
32670610 ACAT
65 A-AA
* * *
32670614 ATCATTACAGTAGTAATAATCATGCTTATAATGAGTCGATA-ATATAGCAATTATCATGCTTAAA
1 ATCATTACAGTAGTAATAAACATGCTTATAACGAGTCAATACA-ATAGCAATTATCATGCTTAAA
32670678 ACAA
65 A-AA
* * *
32670682 ATCATTACAGTAGCAATAAGCTTGCTTA
1 ATCATTACAGTAGTAATAAACATGCTTA
32670710 ACATGTATTT
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
67 14 0.10
68 129 0.90
69 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (67 bp):
ATCATTACAGTAGTAATAAACATGCTTATAACGAGTCAATACAATAGCAATTATCATGCTTAAAA
AA
Found at i:32670708 original size:102 final size:101
Alignment explanation
Indices: 32670465--32670710 Score: 246
Period size: 102 Copynumber: 2.4 Consensus size: 101
32670455 ATGCAACATG
* * * *
32670465 ACATG-TTATAACAGATCAATACGGTAGTAATAACATGCTTATAACAAATCAATACAGTAGCAAT
1 ACATGCTTATAACAAATCAATACAGTAGCAATAACATGCTTAAAACAAATCAATACAGTAGCAAT
* * *
32670529 TATCATGCTTAAAAAAGATCATTATATTAGTAATAA
66 AATCATGCTTAAAAAAGATCATAATATTAGCAATAA
* * * * * * *
32670565 ACATGCTTATAACGAGTCAATACAATAGCAATTATCATGCTTAAAACATATCATTACAGTAGTAA
1 ACATGCTTATAACAAATCAATACAGTAGCAA-TAACATGCTTAAAACAAATCAATACAGTAGCAA
* * *
32670630 TAATCATGCTT-ATAATGAGTCGATAATA-TAGCAATTA
65 TAATCATGCTTAAAAAAGA-TC-ATAATATTAGCAATAA
* * * *
32670667 TCATGCTTAAAACAAATCATTACAGTAGCAATAAGCTTGCTTAA
1 ACATGCTTATAACAAATCAATACAGTAGCAATAA-CATGCTTAA
32670711 CATGTATTTA
Statistics
Matches: 116, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
100 5 0.04
101 26 0.22
102 80 0.69
103 5 0.04
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.30
Consensus pattern (101 bp):
ACATGCTTATAACAAATCAATACAGTAGCAATAACATGCTTAAAACAAATCAATACAGTAGCAAT
AATCATGCTTAAAAAAGATCATAATATTAGCAATAA
Found at i:32680383 original size:21 final size:19
Alignment explanation
Indices: 32680339--32680383 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
32680329 ACAGAGAAAT
32680339 GGTGTGTTTTCACAAACTC
1 GGTGTGTTTTCACAAACTC
*
32680358 GGTGTGTTTTCGCAAACTC
1 GGTGTGTTTTCACAAACTC
*
32680377 AGTGTGT
1 GGTGTGT
32680384 AATCTCCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.38
Consensus pattern (19 bp):
GGTGTGTTTTCACAAACTC
Found at i:32682997 original size:41 final size:41
Alignment explanation
Indices: 32682952--32683036 Score: 127
Period size: 41 Copynumber: 2.1 Consensus size: 41
32682942 TTAATTATTT
* *
32682952 CCTGAATTGCACATACGTGTTC-TTGTTTGTACTTTGGTACC
1 CCTGAATTACACATACGTG-CCGTTGTTTGTACTTTGGTACC
*
32682993 CCTGAATTACACATACGTGCCGTTGTTTGTACTTTGGTGCC
1 CCTGAATTACACATACGTGCCGTTGTTTGTACTTTGGTACC
32683034 CCT
1 CCT
32683037 ATTTGTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.03
41 39 0.98
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (41 bp):
CCTGAATTACACATACGTGCCGTTGTTTGTACTTTGGTACC
Found at i:32684108 original size:85 final size:86
Alignment explanation
Indices: 32683964--32684136 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 86
32683954 CTTAAGTATT
32683964 AAGTAAATATATTATATTATATAATAATATATTAATGTATAATAAAACAAAATAAAAGAAATAGA
1 AAGTAAATATATTATATTATATAATAATATATTAATGTATAATAAAACAAAATAAAAGAAATAGA
32684029 AAAAGAAAAAGAAACAAAGTG
66 AAAAGAAAAAGAAACAAAGTG
32684050 AAGTAAATATA-TATATTATATAATAATATATTAATGTATAATAAAACAAAATAAAAGAAATAGA
1 AAGTAAATATATTATATTATATAATAATATATTAATGTATAATAAAACAAAATAAAAGAAATAGA
32684114 AAAAGAAAAAGAAACAAAGTG
66 AAAAGAAAAAGAAACAAAGTG
32684135 AA
1 AA
32684137 ACGAAACAGA
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 76 0.87
86 11 0.13
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (86 bp):
AAGTAAATATATTATATTATATAATAATATATTAATGTATAATAAAACAAAATAAAAGAAATAGA
AAAAGAAAAAGAAACAAAGTG
Found at i:32684162 original size:12 final size:12
Alignment explanation
Indices: 32684145--32684170 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32684135 AAACGAAACA
32684145 GAAAGAAAGAAG
1 GAAAGAAAGAAG
32684157 GAAAGAAAGAAG
1 GAAAGAAAGAAG
32684169 GA
1 GA
32684171 GAAAGGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (12 bp):
GAAAGAAAGAAG
Found at i:32684542 original size:20 final size:20
Alignment explanation
Indices: 32684506--32684543 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32684496 GTGAAATTTG
*
32684506 TGTGAAAATATAGAATTAAT
1 TGTGAAAATATAAAATTAAT
32684526 TGTGAAGAA-ATAAAATTA
1 TGTGAA-AATATAAAATTA
32684544 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTGAAAATATAAAATTAAT
Found at i:32685099 original size:40 final size:39
Alignment explanation
Indices: 32685052--32685149 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 39
32685042 CGACTTCGAG
* *
32685052 TCGATGAG-ACAGGTGTGTCAATTTATTACTTCGAATTAAT
1 TCGATGAGCACAGG-GTGTCAATCTATTACTTAGAATT-AT
* *
32685092 TTGATGAGGCACTGGGTGTCAATCTATTACTTAGAATTAT
1 TCGATGA-GCACAGGGTGTCAATCTATTACTTAGAATTAT
*
32685132 TCGATGAGGCACTGGGTG
1 TCGATGA-GCACAGGGTG
32685150 CCAAACTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 25 0.49
41 22 0.43
42 4 0.08
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.35
Consensus pattern (39 bp):
TCGATGAGCACAGGGTGTCAATCTATTACTTAGAATTAT
Found at i:32685111 original size:41 final size:40
Alignment explanation
Indices: 32685066--32685149 Score: 132
Period size: 41 Copynumber: 2.1 Consensus size: 40
32685056 TGAGACAGGT
* * *
32685066 GTGTCAATTTATTACTTCGAATTAATTTGATGAGGCACTGG
1 GTGTCAATCTATTACTTAGAATT-ATTCGATGAGGCACTGG
32685107 GTGTCAATCTATTACTTAGAATTATTCGATGAGGCACTGG
1 GTGTCAATCTATTACTTAGAATTATTCGATGAGGCACTGG
32685147 GTG
1 GTG
32685150 CCAAACTGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 19 0.47
41 21 0.52
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (40 bp):
GTGTCAATCTATTACTTAGAATTATTCGATGAGGCACTGG
Found at i:32686820 original size:20 final size:21
Alignment explanation
Indices: 32686787--32686826 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32686777 CCCCTGCAGT
*
32686787 TCAATTTTTAAAAT-TTTTCC
1 TCAATGTTTAAAATGTTTTCC
*
32686807 TCAATGTTTCAAATGTTTTC
1 TCAATGTTTAAAATGTTTTC
32686827 GATTTCGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (21 bp):
TCAATGTTTAAAATGTTTTCC
Found at i:32690739 original size:3 final size:3
Alignment explanation
Indices: 32690731--32690756 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32690721 ATATTATAAA
32690731 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
32690757 ATTGTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32690968 original size:11 final size:11
Alignment explanation
Indices: 32690952--32690977 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
32690942 AGAAGAAGAA
32690952 AGAAACATAAC
1 AGAAACATAAC
32690963 AGAAACATAAC
1 AGAAACATAAC
32690974 AGAA
1 AGAA
32690978 TAGAAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.15, G:0.12, T:0.08
Consensus pattern (11 bp):
AGAAACATAAC
Found at i:32701955 original size:34 final size:35
Alignment explanation
Indices: 32701888--32702010 Score: 124
Period size: 35 Copynumber: 3.5 Consensus size: 35
32701878 AGTAAATTAA
* * * *
32701888 CAATCCAACCAAAACACACTAGATGCGCATAAGAGC
1 CAATCCATCCGAAACACACCA-ATGCTCATAAGAGC
*
32701924 CAATCCATCCG-AACACATCAATGCTCATAAGAGC
1 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
* * *
32701958 TAATCCCTCCGAAACACACCAGTGCTCATAAGAGC
1 CAATCCATCCGAAACACACCAATGCTCATAAGAGC
* *
32701993 TAGTCCAAT-CGAAACACA
1 CAATCC-ATCCGAAACACA
32702011 TCGAGACAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
34 22 0.30
35 42 0.57
36 10 0.14
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.15
Consensus pattern (35 bp):
CAATCCATCCGAAACACACCAATGCTCATAAGAGC
Found at i:32701974 original size:35 final size:35
Alignment explanation
Indices: 32701910--32702012 Score: 129
Period size: 35 Copynumber: 3.0 Consensus size: 35
32701900 AACACACTAG
* *
32701910 ATGCGCATAAGAGCCAATCCATCCG-AACACATCA
1 ATGCTCATAAGAGCTAATCCATCCGAAACACATCA
* *
32701944 ATGCTCATAAGAGCTAATCCCTCCGAAACACACCA
1 ATGCTCATAAGAGCTAATCCATCCGAAACACATCA
* *
32701979 GTGCTCATAAGAGCTAGTCCAAT-CGAAACACATC
1 ATGCTCATAAGAGCTAATCC-ATCCGAAACACATC
32702013 GAGACAGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
34 22 0.37
35 36 0.61
36 1 0.02
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (35 bp):
ATGCTCATAAGAGCTAATCCATCCGAAACACATCA
Found at i:32702954 original size:10 final size:10
Alignment explanation
Indices: 32702939--32702963 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32702929 TTTTTTATTC
32702939 TTTAATTTTG
1 TTTAATTTTG
32702949 TTTAATTTTG
1 TTTAATTTTG
32702959 TTTAA
1 TTTAA
32702964 ACTTTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTAATTTTG
Found at i:32704284 original size:16 final size:16
Alignment explanation
Indices: 32704263--32704304 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
32704253 CTTTCCATTT
32704263 CAAATTCATATATGCA
1 CAAATTCATATATGCA
* *
32704279 CAAATTCAAATATTCA
1 CAAATTCATATATGCA
*
32704295 -AGATTCATAT
1 CAAATTCATAT
32704305 TAGTTCATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (16 bp):
CAAATTCATATATGCA
Found at i:32706249 original size:12 final size:14
Alignment explanation
Indices: 32706211--32706248 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
32706201 AAAATTATAA
32706211 AATAATAAAAATTC
1 AATAATAAAAATTC
32706225 AATAATTAAAAATTC
1 AATAA-TAAAAATTC
32706240 AATAA-AAAA
1 AATAATAAAA
32706249 TGTGGTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 5 0.22
15 14 0.61
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAATAAAAATTC
Found at i:32706494 original size:20 final size:18
Alignment explanation
Indices: 32706465--32706504 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
32706455 ATTTTAAGTT
32706465 TTTAAATTTATTCGATTTAG
1 TTTAAATTTA-T-GATTTAG
*
32706485 TTTAATTTTATGATTTAG
1 TTTAAATTTATGATTTAG
32706503 TT
1 TT
32706505 CTTGTACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 1 0.05
20 9 0.47
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.60
Consensus pattern (18 bp):
TTTAAATTTATGATTTAG
Found at i:32709160 original size:21 final size:21
Alignment explanation
Indices: 32709117--32709161 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32709107 AACACGGCAC
*
32709117 TGTGGCTACTCCACACGCCCG
1 TGTGGCTACTCCACACACCCG
* * *
32709138 TGTGGCTATTTCACACACTCG
1 TGTGGCTACTCCACACACCCG
32709159 TGT
1 TGT
32709162 ACGTAGACCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.33, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTGGCTACTCCACACACCCG
Found at i:32715479 original size:26 final size:26
Alignment explanation
Indices: 32715450--32715537 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
32715440 TATAACAATC
32715450 ATTTTACCTTATAGGGTATTTCAGTA
1 ATTTTACCTTATAGGGTATTTCAGTA
**
32715476 ATTTTATCCTTCA-AGGGTATTTTGGTA
1 ATTTTA-CCTT-ATAGGGTATTTCAGTA
* * *
32715503 CTTTTACC-CATCGAGGGTATTTCAGTC
1 ATTTTACCTTAT--AGGGTATTTCAGTA
32715530 ATTTTACC
1 ATTTTACC
32715538 CATCAAGGGT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
24 1 0.02
26 8 0.16
27 39 0.80
28 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.16, T:0.44
Consensus pattern (26 bp):
ATTTTACCTTATAGGGTATTTCAGTA
Found at i:32715486 original size:27 final size:25
Alignment explanation
Indices: 32715450--32715563 Score: 77
Period size: 27 Copynumber: 4.3 Consensus size: 25
32715440 TATAACAATC
32715450 ATTTTACCTTATAGGGTATTTCAGTA
1 ATTTTACCTTA-AGGGTATTTCAGTA
**
32715476 ATTTTATCCTTCAAGGGTATTTTGGTA
1 ATTTTA-CCTT-AAGGGTATTTCAGTA
* ** *
32715503 CTTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTA-CC-TTAAGGGTATTTCAGTA
* *
32715530 ATTTTACCCATCAAGGGTACTTT-AGTT
1 ATTTTA-CC-TTAAGGGTA-TTTCAGTA
32715557 ATTTTAC
1 ATTTTAC
32715564 AACCTTTCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 7 0.10
27 60 0.83
28 5 0.07
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (25 bp):
ATTTTACCTTAAGGGTATTTCAGTA
Found at i:32727168 original size:18 final size:18
Alignment explanation
Indices: 32727124--32727171 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
32727114 AAATAAAAAA
32727124 AATATTTTGAAATTGAAT
1 AATATTTTGAAATTGAAT
*
32727142 AACGA-TTTGTAAA-TGAAT
1 AA-TATTTTG-AAATTGAAT
32727160 AATATTTTGAAA
1 AATATTTTGAAA
32727172 ACAAACAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (18 bp):
AATATTTTGAAATTGAAT
Done.