Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 92 of 325
Found at i:30569648 original size:7 final size:7
Alignment explanation
Indices: 30569638--30569689 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
30569628 TTGTATACAT
30569638 AATACTA
1 AATACTA
30569645 AATACTA
1 AATACTA
30569652 AATACTA
1 AATACTA
30569659 AATACTA
1 AATACTA
*
30569666 AATATTA
1 AATACTA
*
30569673 AATTCTA
1 AATACTA
*
30569680 AATACGA
1 AATACTA
30569687 AAT
1 AAT
30569690 GAGTATTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.31
Consensus pattern (7 bp):
AATACTA
Found at i:30569869 original size:20 final size:19
Alignment explanation
Indices: 30569825--30569869 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
30569815 CTAATTAAAT
*
30569825 AAATTTTAAAATCTATGTA
1 AAATTGTAAAATCTATGTA
*
30569844 ATAATTGTAAAATCTAATTTA
1 A-AATTGTAAAATCT-ATGTA
30569865 AAATT
1 AAATT
30569870 TACCTCGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 5 0.23
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (19 bp):
AAATTGTAAAATCTATGTA
Found at i:30570646 original size:27 final size:27
Alignment explanation
Indices: 30570616--30570695 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 27
30570606 ATTAAAATTA
30570616 AAATTGCATAAATGAAAAAAAAATATT
1 AAATTGCATAAATGAAAAAAAAATATT
* ** *
30570643 AAATTG--T-ATTGAAAAATTAAT-TA
1 AAATTGCATAAATGAAAAAAAAATATT
*
30570666 AAATTGCATAAAT-TAAAAAAAATATT
1 AAATTGCATAAATGAAAAAAAAATATT
30570692 AAAT
1 AAAT
30570696 ACTATTGAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 9
0.69 0.16 0.16
Matches are distributed among these distances:
23 7 0.17
24 11 0.28
25 9 0.22
26 7 0.17
27 6 0.15
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTGCATAAATGAAAAAAAAATATT
Found at i:30570703 original size:49 final size:50
Alignment explanation
Indices: 30570611--30570711 Score: 159
Period size: 49 Copynumber: 2.0 Consensus size: 50
30570601 ATAAAATTAA
**
30570611 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATTGTATTGAAAAATT
1 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
* *
30570661 AATTAAAATTGCATAAAT-TAAAAAAAATATTAAATACTATTGAAATATT
1 AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
30570710 AA
1 AA
30570712 AATTATCACT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 29 0.62
50 18 0.38
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (50 bp):
AATTAAAATTGCATAAATGAAAAAAAAATATTAAATACTATTGAAAAATT
Found at i:30570886 original size:22 final size:22
Alignment explanation
Indices: 30570861--30570905 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
30570851 CAAAGAGAGC
30570861 TTTGTGAA-AATTTGAGAGAATT
1 TTTG-GAAGAATTTGAGAGAATT
30570883 TTTGGAAGAATTTGAGAGAATT
1 TTTGGAAGAATTTGAGAGAATT
30570905 T
1 T
30570906 GGATAGGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (22 bp):
TTTGGAAGAATTTGAGAGAATT
Found at i:30573017 original size:18 final size:18
Alignment explanation
Indices: 30572979--30573011 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
30572969 AATTTAACTT
30572979 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
30572997 TAATT-AATT-TTTAAA
1 TAATTAAATTATTTAAA
30573012 TTATAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:30574446 original size:25 final size:24
Alignment explanation
Indices: 30574418--30574566 Score: 100
Period size: 25 Copynumber: 5.9 Consensus size: 24
30574408 TTCCTCATAC
30574418 ATTATTTATTTTAAATTGTTTTATT
1 ATTATTTATTTTAAATT-TTTTATT
* * * *
30574443 ATTATTTACTTTAAGTTTTTCACAT
1 ATTATTTATTTTAAATTTTTTA-TT
* ** *
30574468 ATTATGTATTTTAAACTATTTCAAACT
1 ATTATTTATTTTAAA-T-TTT-TTATT
** *
30574495 ATTATCCATTTTAAAATTTTTATAT
1 ATTATTTATTTTAAATTTTTTAT-T
* *
30574520 ATTATTTATTTTAAACTGTTATATGT
1 ATTATTTATTTTAAA-TTTTTTAT-T
*
30574546 ATTATTTATTTTGAATTTTTT
1 ATTATTTATTTTAAATTTTTT
30574567 TATTTTTTTA
Statistics
Matches: 93, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
24 5 0.05
25 49 0.53
26 21 0.23
27 17 0.18
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
ATTATTTATTTTAAATTTTTTATT
Found at i:30574568 original size:36 final size:37
Alignment explanation
Indices: 30574523--30574593 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
30574513 TTTATATATT
*
30574523 ATTTATTTTAAACTGTTATATGTATTATTTATTTTGA
1 ATTTATTTTAAACTGTTATATGTATCATTTATTTTGA
*** *
30574560 ATTT-TTTTATTTTTTTATATGTATCATTTATTTT
1 ATTTATTTTAAACTGTTATATGTATCATTTATTTT
30574594 TAAACTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (37 bp):
ATTTATTTTAAACTGTTATATGTATCATTTATTTTGA
Found at i:30574569 original size:52 final size:49
Alignment explanation
Indices: 30574389--30574566 Score: 140
Period size: 52 Copynumber: 3.4 Consensus size: 49
30574379 TGTTATTTAT
* *
30574389 TTATTTATTTTAAACCTTTTTCCTCATACATTATTTATTTTAAATTGTTTTATTA
1 TTATTTATTTTAAA--TTTTT--T-ATATATTATTTATTTTAAACTG-TTTATTA
* * * * * * *
30574444 TTATTTACTTTAAGTTTTTCACATATTATGTATTTTAAACTATTTCAAACTA
1 TTATTTATTTTAAATTTTTTATATATTATTTATTTTAAACTGTTT---ATTA
** *
30574496 TTATCCATTTTAAAATTTTTATATATTATTTATTTTAAACTGTTATATGTA
1 TTATTTATTTTAAATTTTTTATATATTATTTATTTTAAACTGTT-TAT-TA
*
30574547 TTATTTATTTTGAATTTTTT
1 TTATTTATTTTAAATTTTTT
30574567 TATTTTTTTA
Statistics
Matches: 95, Mismatches: 23, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
49 3 0.03
50 18 0.19
51 18 0.19
52 38 0.40
53 6 0.06
55 12 0.13
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.58
Consensus pattern (49 bp):
TTATTTATTTTAAATTTTTTATATATTATTTATTTTAAACTGTTTATTA
Found at i:30574619 original size:63 final size:61
Alignment explanation
Indices: 30574511--30574631 Score: 145
Period size: 63 Copynumber: 2.0 Consensus size: 61
30574501 CATTTTAAAA
* * * * *
30574511 TTTTTATATATTATTTATTTTAAACTGTTATATGTATTATTTATTTTGAATTT-TTTTATT
1 TTTTTATATATCATTTATTTTAAACTATTATATATATTATCTATTTTAAATTTCTTTTATT
* *
30574571 TTTTTATATGTATCATTTATTTTTAAACTATTTTGTATATTATCTATTTTAAATTTCTTTT
1 TTTTTATA--TATCATTTA-TTTTAAACTATTATATATATTATCTATTTTAAATTTCTTTT
30574632 TAGGGTCCGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 8 0.16
62 8 0.16
63 30 0.60
64 4 0.08
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (61 bp):
TTTTTATATATCATTTATTTTAAACTATTATATATATTATCTATTTTAAATTTCTTTTATT
Found at i:30575413 original size:20 final size:19
Alignment explanation
Indices: 30575367--30575413 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
30575357 CATCCAAACA
30575367 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
30575386 CCAAAAAAGTAAATCATATT
1 CCAGAAAAGTAAATCAT-TT
30575406 CCAGAAAA
1 CCAGAAAA
30575414 TATTTTTCTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.21
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:30575527 original size:27 final size:26
Alignment explanation
Indices: 30575440--30575585 Score: 176
Period size: 27 Copynumber: 5.7 Consensus size: 26
30575430 AAACGGAGCC
*
30575440 TTATATATTATTTATTTTAAA--CTT
1 TTATATATTATTTATTTTAAATTTTT
* *
30575464 TT-TATA-TA-TTATTTTAAATTGTC
1 TTATATATTATTTATTTTAAATTTTT
30575487 TTATATATTATTTATTTTAAATTTTT
1 TTATATATTATTTATTTTAAATTTTT
30575513 TTCATATATTATTTATTTTAAACTTTTT
1 TT-ATATATTATTTATTTTAAA-TTTTT
* *
30575541 ATATATATTATTTACTTTAAATTGTTT
1 TTATATATTATTTATTTTAAATT-TTT
30575568 TTATATATTATTTTATTT
1 TTATATATTA-TTTATTT
30575586 CATTTTTTCT
Statistics
Matches: 105, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
21 10 0.10
22 2 0.02
23 7 0.07
24 6 0.06
25 2 0.02
26 17 0.16
27 49 0.47
28 12 0.11
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (26 bp):
TTATATATTATTTATTTTAAATTTTT
Found at i:30581848 original size:89 final size:89
Alignment explanation
Indices: 30581692--30581884 Score: 260
Period size: 89 Copynumber: 2.2 Consensus size: 89
30581682 ATGGTGAATC
* * * * *
30581692 TTATCTCCCTAAAGTTGCAGTAAACCAGACTGAAGATAGCGAATCTTATCTATCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTAAACCAGACTGAAGATAACCAATCTTATCTATATAAAGTTGCAG
*
30581757 TAGAGAAGATTAAAGCTATAAACT
66 TAGAGAAGATTAAAGCCATAAACT
* ** * * *
30581781 TTATCTCCCTGAATTTGCAGTGGAGCAGACTGAAGATAACCAATCTTATCTCTATAGAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTAAACCAGACTGAAGATAACCAATCTTATCTATATAAAGTTGCAG
*
30581846 TAGAGTAGATTAAAGCCATAAACT
66 TAGAGAAGATTAAAGCCATAAACT
*
30581870 TTATCCCCCTGAAGT
1 TTATCTCCCTGAAGT
30581885 AACAGTGGGG
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (89 bp):
TTATCTCCCTGAAGTTGCAGTAAACCAGACTGAAGATAACCAATCTTATCTATATAAAGTTGCAG
TAGAGAAGATTAAAGCCATAAACT
Found at i:30581937 original size:133 final size:133
Alignment explanation
Indices: 30581781--30582033 Score: 355
Period size: 133 Copynumber: 1.9 Consensus size: 133
30581771 GCTATAAACT
* * *
30581781 TTATCTCCCTGAATTTGCAGTGGAGCAGACTGAAGATAACCAATCTTATCTCTAT-AGAGTTGCA
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACCAATCTTATCTCGATGA-AGTTGCA
* * *
30581845 GTAGAGTAGATTAAAGCCATAAACTTTATCCCCCTGAAGTAACAGTGGGGCAGGTTTAAGTTACG
65 GTAGAGTAGATTAAAGCCATAAACCTTATCCCCCTGAAGTAACAGTAGAGCAGGTTTAAGTTACG
30581910 AGTC
130 AGTC
* * * *
30581914 TTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGATAGCTAATCTTATCTCGCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACCAATCTTATCTCGATGAAGTTGCAG
* * * * *
30581979 TATAGTAGATTAAAGCTATAAACCTTATCTCCCTGATGTTACAGTAGAGCAGGTT
66 TAGAGTAGATTAAAGCCATAAACCTTATCCCCCTGAAGTAACAGTAGAGCAGGTT
30582034 AAAAATAACA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 103 0.99
134 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (133 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAGATAACCAATCTTATCTCGATGAAGTTGCAG
TAGAGTAGATTAAAGCCATAAACCTTATCCCCCTGAAGTAACAGTAGAGCAGGTTTAAGTTACGA
GTC
Found at i:30582036 original size:44 final size:44
Alignment explanation
Indices: 30581755--30582036 Score: 156
Period size: 44 Copynumber: 6.4 Consensus size: 44
30581745 CTAAAGTTGT
* * * *
30581755 AGTAGAGAAGATTAAAGCTATAAACTTTATCTCCCTGAATTTGC
1 AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTAC
* * * * * ** *
30581799 AGTGGAGCAGACTGAAGATA-ACCAATCTTATCTCTAT-AGAGTTGC
1 AGTAGAGCAGATTAAAGCTATA--AACCTTATCTCCCTGA-AGTTAC
* * * * *
30581844 AGTAGAGTAGATTAAAGCCATAAACTTTATCCCCCTGAAGTAAC
1 AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTAC
* * * * * ** ** *
30581888 AGTGGGGCAGGTTTAAGTTACGAGTCTTATCTCCCTGAAGTTAT
1 AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTAC
* * * * * * *
30581932 AGTGGAGCAGACTGAAGATAGCT-AATCTTATCTCGCTGAAGTTGC
1 AGTAGAGCAGATTAAAGCTA--TAAACCTTATCTCCCTGAAGTTAC
* * *
30581977 AGTATAGTAGATTAAAGCTATAAACCTTATCTCCCTGATGTTAC
1 AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTAC
*
30582021 AGTAGAGCAGGTTAAA
1 AGTAGAGCAGATTAAA
30582037 AATAACAAAT
Statistics
Matches: 169, Mismatches: 61, Indels: 16
0.69 0.25 0.07
Matches are distributed among these distances:
43 2 0.01
44 104 0.62
45 62 0.37
46 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (44 bp):
AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTAC
Found at i:30582048 original size:89 final size:89
Alignment explanation
Indices: 30581913--30582089 Score: 212
Period size: 89 Copynumber: 2.0 Consensus size: 89
30581903 AGTTACGAGT
* * * * * * *
30581913 CTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGATAGCTAATCTTATCTCGCTGAA-GTTGC
1 CTTATCTCCCTGAAGTTACAGTAGAGCAGACTAAAAATAACAAATCTTATCTCACT-AAGGTTGC
*
30581977 AGTATAGTAGATTAAAGCTATAAAC
65 AGTAGAGTAGATTAAAGCTATAAAC
* **
30582002 CTTATCTCCCTGATGTTACAGTAGAGCAGGTTAAAAATAACAAATCTTATCTCACTAAGGTTGCA
1 CTTATCTCCCTGAAGTTACAGTAGAGCAGACTAAAAATAACAAATCTTATCTCACTAAGGTTGCA
* * *
30582067 GTGGAGTAGATTGAAGTTATAAA
66 GTAGAGTAGATTAAAGCTATAAA
30582090 TCCCATACCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
88 2 0.03
89 71 0.97
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTACAGTAGAGCAGACTAAAAATAACAAATCTTATCTCACTAAGGTTGCA
GTAGAGTAGATTAAAGCTATAAAC
Found at i:30582115 original size:222 final size:222
Alignment explanation
Indices: 30581690--30582115 Score: 500
Period size: 222 Copynumber: 1.9 Consensus size: 222
30581680 TTATGGTGAA
* * *
30581690 TCTTATCTCCCTAAAGTTGCAGTAAACCAGACTGAAGATAGCGAATCTTATCTATCTAAAGTTGT
1 TCTTATCTCCCTAAAGTTACAGTAAACCAGACTGAAGATAGCGAATCTTATCTAGCTAAAGTTGC
* * * * *
30581755 AGTAGAGAAGATTAAAGCTATAAACTTTATCTCCCTGAATTTGCAGTGGAGCAGACTGAAGATAA
66 AGTAGAGAAGATTAAAGCTATAAACCTTATCTCCCTGAATTTACAGTAGAGCAGACTAAAAATAA
* ** * *
30581820 CCAATCTTATCTCTATAGAGTTGCAGTAGAGTAGATTAAAGCCATAAACTTTATCCCCCTGAAGT
131 CAAATCTTATCTCTATAGAGTTGCAGTAGAGTAGATTAAAGCCATAAACTCCATACCCCTGAAAT
30581885 AACAGTGGGGCAGGTTTAAGTTACGAG
196 AACAGTGGGGCAGGTTTAAGTTACGAG
* * ** * * * *
30581912 TCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGATAGCTAATCTTATCTCGCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTACAGTAAACCAGACTGAAGATAGCGAATCTTATCTAGCTAAAGTTGC
* * **
30581977 AGTATAGTAGATTAAAGCTATAAACCTTATCTCCCTG-ATGTTACAGTAGAGCAGGTTAAAAATA
66 AGTAGAGAAGATTAAAGCTATAAACCTTATCTCCCTGAAT-TTACAGTAGAGCAGACTAAAAATA
* * ** *
30582041 ACAAATCTTATCTC-ACTA-AGGTTGCAGTGGAGTAGATTGAAGTTATAAA-TCCCATACCTCTG
130 ACAAATCTTATCTCTA-TAGA-GTTGCAGTAGAGTAGATTAAAGCCATAAACT-CCATACCCCTG
**
30582103 AAATTGCAGTGGG
192 AAATAACAGTGGG
30582116 ATGGATTGAA
Statistics
Matches: 168, Mismatches: 32, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
221 5 0.03
222 163 0.97
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (222 bp):
TCTTATCTCCCTAAAGTTACAGTAAACCAGACTGAAGATAGCGAATCTTATCTAGCTAAAGTTGC
AGTAGAGAAGATTAAAGCTATAAACCTTATCTCCCTGAATTTACAGTAGAGCAGACTAAAAATAA
CAAATCTTATCTCTATAGAGTTGCAGTAGAGTAGATTAAAGCCATAAACTCCATACCCCTGAAAT
AACAGTGGGGCAGGTTTAAGTTACGAG
Found at i:30582246 original size:45 final size:45
Alignment explanation
Indices: 30582182--30582360 Score: 187
Period size: 45 Copynumber: 3.8 Consensus size: 45
30582172 TGAGGCCACA
* * *
30582182 AATCTTATGTCCCTAAAGTTGCAGTAGAGCAGATTAAATATAACG
1 AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTAAATATAACG
* * * * *
30582227 AATCTTATTTTCCTGAAGTTGCAGTGGAATAGATTAAAACTACAAGTCACA
1 AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATT-AAA-T---A-TAACG
* * *
30582278 AATCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACG
1 AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTAAATATAACG
* *
30582323 AATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAA
1 AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTAAA
30582361 GCTACAAGTT
Statistics
Matches: 108, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 66 0.61
46 4 0.04
47 1 0.01
50 4 0.04
51 33 0.31
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCTTATTTCCCTGAAGTTGCAGTAGAGTAGATTAAATATAACG
Found at i:30582305 original size:96 final size:96
Alignment explanation
Indices: 30582178--30582643 Score: 367
Period size: 96 Copynumber: 4.9 Consensus size: 96
30582168 AGATTGAGGC
* * *
30582178 CACAAATCTTATGTCCCTAAAGTTGCAGTAGAGCAGATTAAATATAACGAATCTTATTTTCCTGA
1 CACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATAACGAATCTTATTTCCCTGA
30582243 AGTTGCAGTGGAATAGATTAAAACTACAAGT
66 AGTTGCAGTGGAATAGATTAAAACTACAAGT
* * *
30582274 CACAAATCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACGAATCTTATTTCCCTGA
1 CACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATAACGAATCTTATTTCCCTGA
*
30582339 AGTTGCAGTGGAATAGATTAAAGCTACAAGT
66 AGTTGCAGTGGAATAGATTAAAACTACAAGT
* * * * * * ** ** * *
30582370 TACAAATCCTATAC-CTCTGAAGTTGTAGTAG-GTCGGACCAAATCTACCATGGCAAATCTTATC
1 CACAAATCTTAT-CTCCCTAAAGTTGCAGTAGAG-CAGATTAAAGATA--A---CGAATCTTATT
* *
30582433 TCCCTGAAGTTGCAGTGGAGTAGA-T-----T-GAAGT
59 TCCCTGAAGTTGCAGTGGAATAGATTAAAACTACAAGT
* * * * * * * ** * *
30582464 CACAAGTCTCATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTGGCAAATCTTATTTCCCTAA
1 CACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATAACGAATCTTATTTCCCTGA
* * * *
30582529 AGTTACAATGGAACAAGATTAAAGCTACAAG-
66 AGTTGCAGTGGAA-TAGATTAAAACTACAAGT
* ** * * * * **
30582560 CTACTAATCTTATCTCCCTAAAGTTGCAGTAGAGTTGATTGAAGATCACAAATCTTATGTCGTTG
1 C-ACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATAACGAATCTTATTTCCCTG
*
30582625 AAGTTGCAGTGGAACAGAT
65 AAGTTGCAGTGGAATAGAT
30582644 CCAAGCTACA
Statistics
Matches: 289, Mismatches: 63, Indels: 36
0.74 0.16 0.09
Matches are distributed among these distances:
89 26 0.09
90 3 0.01
91 1 0.00
94 32 0.11
95 3 0.01
96 126 0.44
97 64 0.22
98 1 0.00
100 1 0.00
101 32 0.11
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (96 bp):
CACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTAAAGATAACGAATCTTATTTCCCTGA
AGTTGCAGTGGAATAGATTAAAACTACAAGT
Found at i:30582311 original size:51 final size:49
Alignment explanation
Indices: 30582179--30582458 Score: 186
Period size: 51 Copynumber: 5.8 Consensus size: 49
30582169 GATTGAGGCC
* * * * *
30582179 ACAAATCTTATGTCCCTAAAGTTGCAGTAGAGCAGATT-AAA-TA-TA-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACTACAAT
* * * *
30582224 ACGAATCTTATTTTCCTGAAGTTGCAGTGGAATAGATTAAAACTACAAGT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACTACAA-T
* *
30582274 CACAAATCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGA-T---A-
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA-ACTACAAT
* * * *
30582320 ACGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACTACAA--T
* * * * * ** * *
30582371 ACAAATCCTATAC-CTCTGAAGTTGTAGTAG-GTCGGACCAAATCTACCAT
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGT-AGATTAAAACTACAAT
*
30582420 GGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
1 -ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
30582459 GAAGTCACAA
Statistics
Matches: 176, Mismatches: 40, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
45 68 0.39
46 3 0.02
47 2 0.01
48 3 0.02
49 2 0.01
50 26 0.15
51 71 0.40
52 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (49 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAACTACAAT
Found at i:30582519 original size:286 final size:286
Alignment explanation
Indices: 30581991--30582654 Score: 722
Period size: 286 Copynumber: 2.3 Consensus size: 286
30581981 TAGTAGATTA
* * * * * * *
30581991 AAGCTATAAACCTTATCTCCCTGATGTTACAGTAGAGCAGGTTAAAAATAACAAATCTTATCTCA
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACAAATCTTATCTCA
* * *
30582056 CT-AAGGTTGCAGTGGAGTAGATT--G----AAGTTATAAATCCCATACCTCTGAAATTGCAGTG
66 CTGAA-GTTGCAGTGGAATAGATTAAGCTACAAGTTACAAATCCCATACCTCTGAAATTGCAGTA
** * * * *
30582114 GGATGGATTGAAATTATCATGACAAATCTTATCTCTCTGAAGTTGCAGTGGGGCAGATTGAGGCC
130 GGATGGATCCAAATTACCATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCC
* * * *
30582179 ACAAATCTTATGTCCCTAAAGTTGCAGTAGAGCAGATTAAATATAACGAATCTTATTTTCCTGAA
195 ACAAATCTCATGTCCCTAAAGTTGCAGTAGAGCAGATTAAATATAACAAATCTTATTTCCCTAAA
* * *
30582244 GTTGCAGTGGAA-TAGATTAAAACTAC
260 GTTACAATGGAACAAGATTAAAACTAC
* * *
30582270 AAG-TCACAAATCTTGTCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACGAATCTTATTTC
1 AAGCT-ACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACAAATCTTATCTC
* * * *
30582334 CCTGAAGTTGCAGTGGAATAGATTAAAGCTACAAGTTACAAATCCTATACCTCTGAAGTTGTAGT
65 ACTGAAGTTGCAGTGGAATAGATT-AAGCTACAAGTTACAAATCCCATACCTCTGAAATTGCAGT
* *
30582399 AGG-TCGGA-CCAAATCTACCATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
129 AGGAT-GGATCCAAAT-TACCATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
* * * * * * **
30582462 GTCACAAGTCTCATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TGGCAAATCTTATTTCCC
192 GCCACAAATCTCATGTCCCTAAAGTTGCAGTAGAGCAGATT-AAATATAACAAATCTTATTTCCC
*
30582526 TAAAGTTACAATGGAACAAGATTAAAGCTAC
256 TAAAGTTACAATGGAACAAGATTAAAACTAC
* * * * * * *
30582557 AAGCTACTAATCTTATCTCCCTAAAGTTGCAGTAGAGTTGATTGAAGATCACAAATCTTATGTCG
1 AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACAAATCTTATCTCA
* * *
30582622 TTGAAGTTGCAGTGGAACAGATCCAAGCTACAA
66 CTGAAGTTGCAGTGGAATAGAT-TAAGCTACAA
30582655 ATCGTATCTC
Statistics
Matches: 317, Mismatches: 53, Indels: 22
0.81 0.14 0.06
Matches are distributed among these distances:
278 1 0.00
279 71 0.22
280 2 0.01
282 1 0.00
285 5 0.02
286 138 0.44
287 98 0.31
288 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (286 bp):
AAGCTACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTAAAGATAACAAATCTTATCTCA
CTGAAGTTGCAGTGGAATAGATTAAGCTACAAGTTACAAATCCCATACCTCTGAAATTGCAGTAG
GATGGATCCAAATTACCATGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA
CAAATCTCATGTCCCTAAAGTTGCAGTAGAGCAGATTAAATATAACAAATCTTATTTCCCTAAAG
TTACAATGGAACAAGATTAAAACTAC
Found at i:30582714 original size:44 final size:44
Alignment explanation
Indices: 30582623--30582722 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
30582613 CTTATGTCGT
* *
30582623 TGAAGTTGCAGTGGAACAGATCCAAGCTACAAATCGTATCTCCC
1 TGAAGTTGCAGTGGAACAGATCAAAGCTACAAATCCTATCTCCC
* *
30582667 TGAAGTTGCAGTGGAGCAGA-CTAAAG-TGACAAATCCTATAC-CTC
1 TGAAGTTGCAGTGGAACAGATC-AAAGCT-ACAAATCCTAT-CTCCC
*
30582711 TGAAGTTACAGT
1 TGAAGTTGCAGT
30582723 AGGTCAGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
43 2 0.04
44 45 0.94
45 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAACAGATCAAAGCTACAAATCCTATCTCCC
Found at i:30584528 original size:27 final size:26
Alignment explanation
Indices: 30584501--30584687 Score: 195
Period size: 27 Copynumber: 7.1 Consensus size: 26
30584491 TATCAGTTAT
* * *
30584501 TTTTAAACTGTTTTGTATATTATCTA
1 TTTTAAACTTTTTTATATATTATTTA
* *
30584527 TTTTAAATTTCTTTTTACATATTATTTA
1 TTTTAAA-CT-TTTTTATATATTATTTA
*
30584555 TTTTAAA-ATTTTT-TATA-TA-TTA
1 TTTTAAACTTTTTTATATATTATTTA
30584577 TTTTAAA-TTTTCTTATATATTATTTA
1 TTTTAAACTTTT-TTATATATTATTTA
*
30584603 TTTTAAAATTTTTTCATATATTATTTA
1 TTTTAAACTTTTTT-ATATATTATTTA
30584630 TTTTAAACTTTTTATATATATTATTTA
1 TTTTAAACTTTTT-TATATATTATTTA
* *
30584657 CTTTAAATTGTTTTTATATATTATTTTA
1 TTTTAAACT-TTTTTATATATTA-TTTA
30584685 TTT
1 TTT
30584688 CATATTTTCT
Statistics
Matches: 138, Mismatches: 12, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
22 13 0.09
23 4 0.03
24 7 0.05
25 7 0.05
26 19 0.14
27 57 0.41
28 31 0.22
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTTAAACTTTTTTATATATTATTTA
Found at i:30584575 original size:19 final size:20
Alignment explanation
Indices: 30584548--30584597 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
30584538 TTTTTACATA
*
30584548 TTATTTATTTTAAAATTTT-
1 TTATATATTTTAAAATTTTC
*
30584567 TTATATATTATTTTAAATTTTC
1 TTATATA-T-TTTAAAATTTTC
30584589 TTATATATT
1 TTATATATT
30584598 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 6 0.23
20 2 0.08
21 11 0.42
22 7 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATATTTTAAAATTTTC
Found at i:30586681 original size:25 final size:25
Alignment explanation
Indices: 30586647--30586712 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
30586637 TAAAGCTAAA
30586647 GTCTGCCTCTTGGCACGTTCTATCT
1 GTCTGCCTCTTGGCACGTTCTATCT
* * *
30586672 GTCTGCCTCTTGACATGTTCTCTCT
1 GTCTGCCTCTTGGCACGTTCTATCT
*
30586697 GTTTGCCTCTTGGCAC
1 GTCTGCCTCTTGGCAC
30586713 AAATATTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.08, C:0.32, G:0.20, T:0.41
Consensus pattern (25 bp):
GTCTGCCTCTTGGCACGTTCTATCT
Found at i:30586783 original size:36 final size:36
Alignment explanation
Indices: 30586733--30586815 Score: 139
Period size: 36 Copynumber: 2.3 Consensus size: 36
30586723 TGTTCTTCTG
30586733 TTTTTTCTCCTATTTGTCAGATTCTGGTATTGATTA
1 TTTTTTCTCCTATTTGTCAGATTCTGGTATTGATTA
*
30586769 TTTTTTCTCTTATTTGTCAGATTCTGGTATTGATTA
1 TTTTTTCTCCTATTTGTCAGATTCTGGTATTGATTA
* *
30586805 TCTTTTATCCT
1 TTTTTTCTCCT
30586816 TGAGTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (36 bp):
TTTTTTCTCCTATTTGTCAGATTCTGGTATTGATTA
Found at i:30594302 original size:29 final size:28
Alignment explanation
Indices: 30594245--30594306 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
30594235 GTAATTTGTA
* *
30594245 ATAAAATATATAAATAAATAATAATAAT
1 ATAAAATATATAAATAAATAAAAAGAAT
*
30594273 AGTAAAATATA-AAAGTACATAAAAAGAAT
1 A-TAAAATATATAAA-TAAATAAAAAGAAT
30594302 ATAAA
1 ATAAA
30594307 TAAATGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (28 bp):
ATAAAATATATAAATAAATAAAAAGAAT
Found at i:30599598 original size:37 final size:38
Alignment explanation
Indices: 30599546--30599704 Score: 170
Period size: 37 Copynumber: 4.3 Consensus size: 38
30599536 AGGCCTAGTC
30599546 AAGGCCAACCTTTAAAAAAGGTTGAGATAGA-CTCGTCT
1 AAGG-CAACCTTTAAAAAAGGTTGAGATAGACCTCGTCT
*
30599584 AAGGCAACCTTTAAAAAAGGTT-AGGATAGACC-CCTCT
1 AAGGCAACCTTTAAAAAAGGTTGA-GATAGACCTCGTCT
* * * *
30599621 AAGACAA-CATT-AAAAAGGTCG-GCATAGACCTTGTCT
1 AAGGCAACCTTTAAAAAAGGTTGAG-ATAGACCTCGTCT
*
30599657 AAGGCAACCTTTAAAAAAGGTTGAGATAGAGC-CGTCT
1 AAGGCAACCTTTAAAAAAGGTTGAGATAGACCTCGTCT
**
30599694 AATACAACCTT
1 AAGGCAACCTT
30599705 AGGAGAAGAT
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
34 1 0.01
35 15 0.15
36 13 0.13
37 50 0.50
38 20 0.20
39 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (38 bp):
AAGGCAACCTTTAAAAAAGGTTGAGATAGACCTCGTCT
Found at i:30602541 original size:15 final size:16
Alignment explanation
Indices: 30602509--30602542 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
30602499 ATTGAAATGT
30602509 GTTATAATATAAATTAA
1 GTTATAATAT-AATTAA
30602526 GTTATAATAT-ATTAA
1 GTTATAATATAATTAA
30602541 GT
1 GT
30602543 GGGGGTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (16 bp):
GTTATAATATAATTAA
Found at i:30603699 original size:24 final size:24
Alignment explanation
Indices: 30603667--30603847 Score: 274
Period size: 24 Copynumber: 7.5 Consensus size: 24
30603657 GAAATGACAT
*
30603667 TGGCACTATGTGTGCGGATTTAAA
1 TGGCACTATGTGTGCGGATTTGAA
30603691 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
30603715 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
30603739 TGGCACTATGTGTGCAGATTTAAA
1 TGGCACTATGTGTGCGGATTTGAA
*
30603763 TAGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
30603787 TGGCACTATGTGTGCAGATTTGGA
1 TGGCACTATGTGTGCGGATTTGAA
* *
30603811 TGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
30603836 -GGCACTATGTGT
1 TGGCACTATGTGT
30603848 ACGGGTTAGC
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
24 141 0.99
25 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:30603856 original size:24 final size:24
Alignment explanation
Indices: 30603668--30603872 Score: 109
Period size: 24 Copynumber: 8.5 Consensus size: 24
30603658 AAATGACATT
*
30603668 GGCACTATGTGTGCGGATTTA--AA
1 GGCACTATGTGTACGGA-TTAGCAA
* *
30603691 TGGCACTATGTGTGCGGATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* *
30603715 TGGCACTATGTGTGCGGATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* *
30603739 TGGCACTATGTGTGCAGATTTA--AA
1 -GGCACTATGTGTACGGA-TTAGCAA
* * *
30603763 TAGCACTATGTGTGCGGATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* * * * *
30603787 TGGCACTATGTGTGCAGATTTGGAT
1 -GGCACTATGTGTACGGATTAGCAA
* *
30603812 GGCACTACGTGTGCGGATTAGCAA
1 GGCACTATGTGTACGGATTAGCAA
* *
30603836 GGCACTATGTGTACGGGTTAGCAT
1 GGCACTATGTGTACGGATTAGCAA
* *
30603860 GGGAATATGTGTA
1 GGCACTATGTGTA
30603873 TCAATTTCCT
Statistics
Matches: 157, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.03
24 150 0.96
25 3 0.02
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTACGGATTAGCAA
Found at i:30611319 original size:24 final size:24
Alignment explanation
Indices: 30611287--30611443 Score: 210
Period size: 24 Copynumber: 6.5 Consensus size: 24
30611277 GAAATGACAT
30611287 TGGCACTATGTGTGCGGATTTAAA
1 TGGCACTATGTGTGCGGATTTAAA
*
30611311 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
*
30611335 TGGCACTATGTGTGCAGATTTAAA
1 TGGCACTATGTGTGCGGATTTAAA
* *
30611359 TAGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTAAA
* **
30611383 TGGCACTATGTGTGCAGATTTGGA
1 TGGCACTATGTGTGCGGATTTAAA
*
30611407 TGGCACTACGTGTGCGGA-TTAGCAA
1 TGGCACTATGTGTGCGGATTTA--AA
30611432 -GGCACTATGTGT
1 TGGCACTATGTGT
30611444 ACGGGTTAGC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
23 2 0.02
24 114 0.97
25 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTAAA
Found at i:30611343 original size:48 final size:48
Alignment explanation
Indices: 30611287--30611443 Score: 244
Period size: 48 Copynumber: 3.3 Consensus size: 48
30611277 GAAATGACAT
*
30611287 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTGAA
*
30611335 TGGCACTATGTGTGCAGATTTAAATAGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTGAA
** * *
30611383 TGGCACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTG-AA
30611432 -GGCACTATGTGT
1 TGGCACTATGTGT
30611444 ACGGGTTAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 99 0.98
49 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (48 bp):
TGGCACTATGTGTGCAGATTTAAATGGCACTATGTGTGCGGATTTGAA
Found at i:30611437 original size:72 final size:72
Alignment explanation
Indices: 30611287--30611467 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 72
30611277 GAAATGACAT
* * *
30611287 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAG
1 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
30611352 ATTTAAA
66 ATTTAAA
* * *
30611359 TAGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGG
1 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
30611424 A-TTAGCAA
66 ATTTA--AA
* * * * *
30611432 -GGCACTATGTGTACGGGTTAGCATGGCAATATGTGT
1 TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGT
30611468 ATGAATTTCC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
71 3 0.03
72 90 0.95
73 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (72 bp):
TGGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCAGATTTGAATGGCACTACGTGTGCAG
ATTTAAA
Found at i:30611452 original size:24 final size:24
Alignment explanation
Indices: 30611288--30611468 Score: 104
Period size: 24 Copynumber: 7.5 Consensus size: 24
30611278 AAATGACATT
*
30611288 GGCACTATGTGTGCGGATTTA--AA
1 GGCACTATGTGTACGGA-TTAGCAA
* *
30611311 TGGCACTATGTGTGCGGATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* *
30611335 TGGCACTATGTGTGCAGATTTA--AA
1 -GGCACTATGTGTACGGA-TTAGCAA
* * *
30611359 TAGCACTATGTGTGCGGATTTG-AA
1 -GGCACTATGTGTACGGATTAGCAA
* * * * *
30611383 TGGCACTATGTGTGCAGATTTGGAT
1 -GGCACTATGTGTACGGATTAGCAA
* *
30611408 GGCACTACGTGTGCGGATTAGCAA
1 GGCACTATGTGTACGGATTAGCAA
* *
30611432 GGCACTATGTGTACGGGTTAGCAT
1 GGCACTATGTGTACGGATTAGCAA
*
30611456 GGCAATATGTGTA
1 GGCACTATGTGTA
30611469 TGAATTTCCT
Statistics
Matches: 134, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
23 4 0.03
24 127 0.95
25 3 0.02
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (24 bp):
GGCACTATGTGTACGGATTAGCAA
Found at i:30611458 original size:48 final size:47
Alignment explanation
Indices: 30611287--30611467 Score: 211
Period size: 48 Copynumber: 3.8 Consensus size: 47
30611277 GAAATGACAT
30611287 TGGCACTATGTGTGCGGATTTAAATGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGG-TTTAAATGGCACTATGTGTGCGGATTTGAA
* *
30611335 TGGCACTATGTGTGCAGATTTAAATAGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGC-GGTTTAAATGGCACTATGTGTGCGGATTTGAA
* ** * *
30611383 TGGCACTATGTGTGCAGATTTGGATGGCACTACGTGTGCGGATTAGCAA
1 TGGCACTATGTGTGC-GGTTTAAATGGCACTATGTGTGCGGATTTG-AA
* * * *
30611432 -GGCACTATGTGTACGGGTTAGCATGGCAATATGTGT
1 TGGCACTATGTGTGCGGTTTA-AATGGCACTATGTGT
30611468 ATGAATTTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
47 3 0.03
48 110 0.95
49 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (47 bp):
TGGCACTATGTGTGCGGTTTAAATGGCACTATGTGTGCGGATTTGAA
Found at i:30613127 original size:44 final size:44
Alignment explanation
Indices: 30613078--30613603 Score: 339
Period size: 44 Copynumber: 11.9 Consensus size: 44
30613068 GGAATTGTCG
* * *
30613078 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAATATTCGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAA
* * * *
30613122 CTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGATTCTTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAA
* **
30613166 CTACAATCTGCTCCACTGCATTTTCAGGGAGATAAGACTT-GTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAA
* * * * * ** *
30613210 CTTCAACCTGCTCCACTGCAACTCCAAGGAGATGAGGTTTATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAA
* * * * * * *
30613254 CTTTAGTCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAA
* * * * * * * *
30613299 CCTCAATTTGCTCCACTGCATCTTTAAGGAGACAAGACTT-ATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAA
* ** * * * *
30613343 CTTTAA-CATGCTTTACTGCAACTTCAGAGAGACAAGATTTGTTAT
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTCG-TAA
** * * *
30613388 CTTCAATCTATTCCACTGCAACTTCAGGGAGATAATACTT-ATAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAA
* * * ** * *
30613432 CTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAGATTTTC-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTCGTAA
30613477 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAA
* * * * **
30613521 -TTGCAACCTGCTCCACTTCAACTTCAAGTAGATAAGACTT-GTGG
1 CTT-CAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGTAA
* * * *
30613565 CTTTAATTTGCTCCAATACAACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
30613604 TGCTACGATG
Statistics
Matches: 366, Mismatches: 102, Indels: 29
0.74 0.21 0.06
Matches are distributed among these distances:
43 8 0.02
44 257 0.70
45 96 0.26
46 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGTAA
Found at i:30613341 original size:89 final size:88
Alignment explanation
Indices: 30613085--30613601 Score: 427
Period size: 89 Copynumber: 5.9 Consensus size: 88
30613075 TCGCTTCAAT
* * * * * * * * *
30613085 CTGCTCCACTGCAACTTCAGGGAAATAATATTCGC-AACTTCAATCTGCTTCACTACAACTTCAG
1 CTGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAG
**
30613149 GGAGATAAGATTCTTAT--CTACAA
66 GGAGATAAGA--CTTATAGCTTTAA
* ** * * * * * *
30613172 TCTGCTCCACTGCATTTTCAGGGAGATAAGACTTG-TAACTTCAACCTGCTCCACTGCAACTCCA
1 -CTGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCA
* * ** *
30613236 AGGAGATGAGGTTTATAGCTTTAGT
65 GGGAGATAAGACTTATAGCTTTA-A
* * * * * * *
30613261 CTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCCTCAATTTGCTCCACTGCATCTTTAA
1 CTGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAG
*
30613326 GGAGACAAGACTTATAGCTTTAA
66 GGAGATAAGACTTATAGCTTTAA
* * **
30613349 CATGCTTTACTGCAACTTCAGAGAGACAAGATTTGTTATCTTCAATCTATTCCACTGCAACTTCA
1 C-TGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCA
*
30613414 GGGAGATAATACTTATAGCTTTAA
65 GGGAGATAAGACTTATAGCTTTAA
* *
30613438 CCTGCTCTACTGCAACTTCAAAGAGACAAGATTTTCTATCTTCAATCTGCTCCACTGCAACTTCA
1 -CTGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCA
* * *
30613503 GGGAGATAAGACTTGTA-ATTGCAA
65 GGGAGATAAGACTTATAGCTT-TAA
* * * * ** * * * *
30613527 CCTGCTCCACTTCAACTTCA-AGTAGATAAGACTTG-TGGCTTTAATTTGCTCCAATACAACTTC
1 -CTGCTCTACTGCAACTTCAGAG-AGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTC
30613590 AGGGAGATAAGA
64 AGGGAGATAAGA
30613602 TTTGCTACGA
Statistics
Matches: 351, Mismatches: 69, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
86 4 0.01
88 130 0.37
89 216 0.62
90 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (88 bp):
CTGCTCTACTGCAACTTCAGAGAGACAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTCAG
GGAGATAAGACTTATAGCTTTAA
Found at i:30613577 original size:133 final size:134
Alignment explanation
Indices: 30613357--30613604 Score: 291
Period size: 133 Copynumber: 1.9 Consensus size: 134
30613347 AACATGCTTT
* * * * * *
30613357 ACTGCAACTTCAGAGAGACAAGATTTGTTATCTTCAATCTATTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGAGAGACAAGACTTGTAATCTGCAACCTACTCCACTGCAACTTCAAGGAGATA
* * * *
30613422 ATACTTATAGCTTTAACCTGCTCTACTGCAACTTCAAAGAGACAAGATTTTCTATCTTCAATCTG
66 AGACTTATAGCTTTAACCTGCTCCAATACAACTTCAAAGAGACAAGATTTTCTATCTTCAATCTG
30613487 CTCC
131 CTCC
* * * * *
30613491 ACTGCAACTTCAGGGAGATAAGACTTGTAAT-TGCAACCTGCTCCACTTCAACTTCAAGTAGATA
1 ACTGCAACTTCAGAGAGACAAGACTTGTAATCTGCAACCTACTCCACTGCAACTTCAAGGAGATA
* * ** ** *
30613555 AGACTTGTGGCTTTAATTTGCTCCAATACAACTTCAGGGAGATAAGATTT
66 AGACTTATAGCTTTAACCTGCTCCAATACAACTTCAAAGAGACAAGATTT
30613605 GCTACGATGA
Statistics
Matches: 92, Mismatches: 22, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
133 65 0.71
134 27 0.29
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (134 bp):
ACTGCAACTTCAGAGAGACAAGACTTGTAATCTGCAACCTACTCCACTGCAACTTCAAGGAGATA
AGACTTATAGCTTTAACCTGCTCCAATACAACTTCAAAGAGACAAGATTTTCTATCTTCAATCTG
CTCC
Found at i:30615565 original size:42 final size:43
Alignment explanation
Indices: 30615516--30615623 Score: 121
Period size: 43 Copynumber: 2.5 Consensus size: 43
30615506 TGAGATTACC
* *
30615516 TGTAAGACCATATCTGGGATATGA-AATCGATATGAGA-CTTCA
1 TGTAAGACCATATCTGGGATATGAGAATCGATACGAGATC-CCA
* * * * * *
30615558 TGTAAGACCATAGCTGGGCTATTAGCATTGGTACGAGATCCCA
1 TGTAAGACCATATCTGGGATATGAGAATCGATACGAGATCCCA
30615601 TGTAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
30615624 GCATTGGTAT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
42 21 0.40
43 31 0.58
44 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATGAGAATCGATACGAGATCCCA
Found at i:30625693 original size:22 final size:22
Alignment explanation
Indices: 30625665--30625720 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
30625655 GAACAATGTC
*
30625665 ACACGCCCGTGTGACCTAGGGG
1 ACACGCCCGTGTGACCTAAGGG
30625687 ACACGCCCGTGTGACCTAAGGG
1 ACACGCCCGTGTGACCTAAGGG
*
30625709 ACACACCCGTGT
1 ACACGCCCGTGT
30625721 TCCCTTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.34, G:0.30, T:0.14
Consensus pattern (22 bp):
ACACGCCCGTGTGACCTAAGGG
Found at i:30626482 original size:18 final size:18
Alignment explanation
Indices: 30626470--30626513 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
30626460 CAGTTACTCT
30626470 ATAACAGTCAGTTATACA
1 ATAACAGTCAGTTATACA
* *
30626488 ATAACAGTCATTTATTCA
1 ATAACAGTCAGTTATACA
*
30626506 GTAACAGT
1 ATAACAGT
30626514 AAATTATTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (18 bp):
ATAACAGTCAGTTATACA
Found at i:30627772 original size:19 final size:20
Alignment explanation
Indices: 30627743--30627782 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
30627733 TTGTTTCATA
30627743 TTCTGTTCTTTCTA-TTCTTT
1 TTCTGTTCTTT-TATTTCTTT
30627763 TTCT-TTCTTTTATTTCTTT
1 TTCTGTTCTTTTATTTCTTT
30627782 T
1 T
30627783 GTTTCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 13 0.68
20 4 0.21
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (20 bp):
TTCTGTTCTTTTATTTCTTT
Found at i:30627782 original size:18 final size:19
Alignment explanation
Indices: 30627743--30627794 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
30627733 TTGTTTCATA
30627743 TTCTGTTCTTTCTA-TTCTTT
1 TTCT-TTCTTT-TATTTCTTT
30627763 TTCTTTCTTTTATTTC-TT
1 TTCTTTCTTTTATTTCTTT
*
30627781 TTGTTTC-TTTATTT
1 TTCTTTCTTTTATTT
30627795 ATATTACTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 10 0.33
19 9 0.30
20 4 0.13
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (19 bp):
TTCTTTCTTTTATTTCTTT
Found at i:30627835 original size:13 final size:13
Alignment explanation
Indices: 30627804--30627828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30627794 TATATTACTT
30627804 TATAATATAATAA
1 TATAATATAATAA
30627817 TATAATATAATA
1 TATAATATAATA
30627829 CTTTAATTAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:30632576 original size:26 final size:26
Alignment explanation
Indices: 30632545--30632652 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
30632535 TGAAATGCCC
* *
30632545 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
30632571 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
30632597 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30632623 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30632649 ATCA
1 ATCA
30632653 ATTTGTACCA
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:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30636477 original size:32 final size:30
Alignment explanation
Indices: 30636438--30636510 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
30636428 ATTATTTAAT
*
30636438 TAATAAATATCGT-TTAACTTTATAATAATAAG
1 TAATAAATATC-TATTAAC-TTA-AATAAAAAG
*
30636470 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTAACTTAAATAAAAAG
30636500 TAATTAAATAT
1 TAA-TAAATAT
30636511 TTATGTTACA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
30 11 0.30
31 11 0.30
32 15 0.41
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (30 bp):
TAATAAATATCTATTAACTTAAATAAAAAG
Found at i:30647525 original size:8 final size:8
Alignment explanation
Indices: 30647514--30647562 Score: 64
Period size: 8 Copynumber: 6.1 Consensus size: 8
30647504 AATCCTTTAA
30647514 AAAAATAT
1 AAAAATAT
30647522 AAAAATAT
1 AAAAATAT
30647530 AAAAATAT
1 AAAAATAT
30647538 -AAAATATT
1 AAAAATA-T
*
30647546 AAAATTAT
1 AAAAATAT
*
30647554 AAAATTAT
1 AAAAATAT
30647562 A
1 A
30647563 TTTTTATCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
7 6 0.16
8 27 0.71
9 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATAT
Found at i:30650677 original size:131 final size:130
Alignment explanation
Indices: 30650521--30650882 Score: 402
Period size: 131 Copynumber: 2.8 Consensus size: 130
30650511 AAAGGAATGT
* * ** * * * * * *
30650521 TCGATCATTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGAGCATGATTCTCGAATTGTCA
1 TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGACA
* * * ** *
30650586 AATGCCGAATATTGCCTTCGTTTTAAATAATTTTTAGGAGATATGAATGAAATCTTGAAGGGATA
66 AATACCGAATATCGCCTTCGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATCTTGAAGGGATA
30650651 C
130 C
30650652 TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATT-AC
1 TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-CGCGAATTGAC
** * * ** * *
30650716 TAAATATTGAATCTCGTCTTCGTTTTGGAGAATTTTAAAAGACATGAATGAAATTTTGAAGTGAT
65 -AAATACCGAATATCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTGAAGGGAT
*
30650781 AT
129 AC
*
30650783 TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTTCGCGAATTGCC
1 TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGA-TTCGCGAATTGAC
* * * * *
30650848 AAACATCGAATCTCGTCTTCGTTTTGAAGAATTTT
65 AAATACCGAATATCGCCTTCGTTTTAAAGAATTTT
30650883 TTGAATAAAT
Statistics
Matches: 198, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
131 166 0.84
132 32 0.16
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (130 bp):
TCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCGCGAATTGACA
AATACCGAATATCGCCTTCGTTTTAAAGAATTTTAAAAGACATGAATGAAATCTTGAAGGGATAC
Found at i:30653930 original size:87 final size:87
Alignment explanation
Indices: 30653806--30653970 Score: 276
Period size: 87 Copynumber: 1.9 Consensus size: 87
30653796 AGGGAGACAT
* * * * *
30653806 GATCTTAAATTTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTTAAATCTGCTT
1 GATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCGGCTT
30653871 CACTGCAACTTCAAGAAAACGG
66 CACTGCAACTTCAAGAAAACGG
*
30653893 GATCTAAAATTTCAACCTACTCCATTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCGGCTT
1 GATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCGGCTT
30653958 CACTGCAACTTCA
66 CACTGCAACTTCA
30653971 GGAAGCCGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (87 bp):
GATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCGGCTT
CACTGCAACTTCAAGAAAACGG
Found at i:30654060 original size:44 final size:43
Alignment explanation
Indices: 30653989--30654307 Score: 426
Period size: 44 Copynumber: 7.3 Consensus size: 43
30653979 AGATTCGTCG
* * *
30653989 TCTTCGATCTGCGCTCTGTCAACACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTGC-CTCTGACAATACAGAGACGCCAAATCTGCTA
*
30654033 TCTTCGATCTGTCCTCTGACAATACAGAGACGCCAAATTTGCTA
1 TCTTCGATCTG-CCTCTGACAATACAGAGACGCCAAATCTGCTA
*
30654077 TCTTCGATCTG-CTCTTCGCCAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGCCTC-T-GACAATACAGAGACGCCAAATCTGCTA
* *
30654121 TGTTCGATCTGCCCTCTGACAATACAGAGACGCCAAAGCTGCTA
1 TCTTCGATCTG-CCTCTGACAATACAGAGACGCCAAATCTGCTA
30654165 TCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTG-CCTCTGACAATACAGAGACGCCAAATCTGCTA
* * *
30654209 TCTTTGATCTGCTCTCT-ACCAATACAGAGACGTCAAATTTGCTA
1 TCTTCGATCTGC-CTCTGA-CAATACAGAGACGCCAAATCTGCTA
* *
30654253 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTA
1 TCTTCGATCTGC-CTCTGACAATACAGAGACGCCAAATCTGCTA
*
30654297 TATTCGATCTG
1 TCTTCGATCTG
30654308 TTTCCGCCAA
Statistics
Matches: 247, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 236 0.96
45 2 0.01
46 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (43 bp):
TCTTCGATCTGCCTCTGACAATACAGAGACGCCAAATCTGCTA
Found at i:30654231 original size:132 final size:132
Alignment explanation
Indices: 30653989--30654307 Score: 478
Period size: 132 Copynumber: 2.4 Consensus size: 132
30653979 AGATTCGTCG
* * * * *
30653989 TCTTCGATCTGCGCTCTGTCAACACAGAGATGCCAAATCTGCTATCTTCGATCTGTCCTCTGACA
1 TCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
* *
30654054 ATACAGAGACGCCAAATTTGCTATCTTCGATCTGCTCTTCGCCAATACAGAGACGCCAAATCTGC
66 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTCACCAATACAGAGACGCCAAATCTGC
30654119 TA
131 TA
* *
30654121 TGTTCGATCTGCCCTCTGACAATACAGAGACGCCAAAGCTGCTATCTTCGATCTGCCCTCTGACA
1 TCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
* * *
30654186 ATACAGAGACGCCAAATCTGCTATCTTTGATCTGCTC-TCTACCAATACAGAGACGTCAAATTTG
66 ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTC-ACCAATACAGAGACGCCAAATCTG
30654250 CTA
130 CTA
* * * *
30654253 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATATTCGATCTG
1 TCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTG
30654308 TTTCCGCCAA
Statistics
Matches: 168, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 2 0.01
132 166 0.99
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (132 bp):
TCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACA
ATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTTCACCAATACAGAGACGCCAAATCTGC
TA
Found at i:30654345 original size:43 final size:44
Alignment explanation
Indices: 30653991--30654345 Score: 241
Period size: 44 Copynumber: 8.1 Consensus size: 44
30653981 ATTCGTCGTC
* * * * * * * **
30653991 TTCGATCTGCGCTCTGTCAACACAGAGATGCCAAATCTGCTATC
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
* * * * **
30654035 TTCGATCTG-TCCTCTGACAATACAGAGACGCCAAATTTGCTATC
1 TTCGATCTGCT-CTCCGCCAATACAGAAACGCCAAATATGCTAGA
* * *
30654079 TTCGATCTGCTCTTCGCCAATACAGAGACGCCAAATCTGCTATG-
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTA-GA
* * * * ** **
30654123 TTCGATCTGCCCTCTGACAATACAGAGACGCCAAAGCTGCTATC
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
* * * * * **
30654167 TTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTATC
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
* ** * * * **
30654211 TTTGATCTGCTCTCTACCAATACAGAGACGTCAAATTTGCTATC
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
* * *
30654255 TTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCTATA
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
* *
30654299 TTCGATCTG-TTTCCGCCAATACAGAAATGCCAAATATGC-AGGA
1 TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTA-GA
30654342 TTCG
1 TTCG
30654346 CCAATGTTGC
Statistics
Matches: 272, Mismatches: 34, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.00
43 31 0.11
44 239 0.88
45 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATATGCTAGA
Found at i:30666156 original size:130 final size:130
Alignment explanation
Indices: 30665907--30666145 Score: 345
Period size: 130 Copynumber: 1.8 Consensus size: 130
30665897 TAAAATACAT
* * * *
30665907 GTGAAATTCCGAGGAGATATTCGATTATTTCGGACAAATGAAAAAGTGCAGCCCAGCACGATAGG
1 GTGAAATTCCGAGGAGATATCCAATTATTTCAGACAAATGAAAAAGTGCAACCCAGCACGATAGG
*
30665972 GCTCGATTCTCAAATCGCCAAACATCGAACATCGCCTTCATTTTGAAGGATTTTAGAAAATGTGA
66 GCACGATTCTCAAATCGCCAAACATCGAACATCGCCTTCATTTTGAAGGATTTTAGAAAATGTGA
* * * *
30666037 GTGAAATTCCGAAGG-GATCTCCAATTGTTTCAGACCAATGAAAAAGTGCAACCCAGCACGGTAG
1 GTGAAATTCCG-AGGAGATATCCAATTATTTCAGACAAATGAAAAAGTGCAACCCAGCACGATAG
* * * *
30666101 GGCACGATTCTCAAATTGCCAAACATTGAACATCGTCTTCGTTTT
65 GGCACGATTCTCAAATCGCCAAACATCGAACATCGCCTTCATTTT
30666146 TAAGTGTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 92 0.97
131 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (130 bp):
GTGAAATTCCGAGGAGATATCCAATTATTTCAGACAAATGAAAAAGTGCAACCCAGCACGATAGG
GCACGATTCTCAAATCGCCAAACATCGAACATCGCCTTCATTTTGAAGGATTTTAGAAAATGTGA
Found at i:30669727 original size:19 final size:19
Alignment explanation
Indices: 30669692--30669729 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30669682 CTCACCTACC
30669692 TAAAAAACCAAATTACCCA
1 TAAAAAACCAAATTACCCA
*
30669711 TAAATAAACCCAA-TACCCA
1 TAAA-AAACCAAATTACCCA
30669730 ATAGGCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (19 bp):
TAAAAAACCAAATTACCCA
Found at i:30671519 original size:14 final size:13
Alignment explanation
Indices: 30671490--30671534 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
30671480 AGTGGGTGGA
30671490 AATAATATT-A-T
1 AATAATATTAAGT
30671501 AATAATATTAAAGT
1 AATAATATT-AAGT
*
30671515 TATAATA-TAAGT
1 AATAATATTAAGT
30671527 AATAATAT
1 AATAATAT
30671535 GTATATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 9 0.32
12 10 0.36
13 2 0.07
14 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAATATTAAGT
Found at i:30671925 original size:9 final size:9
Alignment explanation
Indices: 30671911--30671939 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
30671901 GACTAAAATG
30671911 TGAAATAAA
1 TGAAATAAA
30671920 TGAAATAAA
1 TGAAATAAA
30671929 TGAAATAAA
1 TGAAATAAA
30671938 TG
1 TG
30671940 GACTAGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:30672877 original size:50 final size:51
Alignment explanation
Indices: 30672684--30672876 Score: 162
Period size: 50 Copynumber: 3.8 Consensus size: 51
30672674 ATCTTGTATT
* * *
30672684 TATTCGGCCACATAGGTATGTACATATGTGATGTTATA-TTGAATCTTGAA
1 TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
* * * * *
30672734 TATTTGACCATGA-AGGTATGCACAAAAGTGATATTATATTTGAAT-TTGTA
1 TATTCGGCCAT-ATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
* * * * * * * *
30672784 TATTCAGCCATAT-GAGTAAGTACTTAGGTGATGTTAAATTTG-ATCTTGCA
1 TATTCGGCCATATAG-GTATGCACATATGTGATATTATATTTGAATCTTGAA
* * *
30672834 TATTTGGCCATATAGGTATGCACATTTGTGATATTATCTTTGA
1 TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGA
30672877 TTCTCTATAA
Statistics
Matches: 107, Mismatches: 29, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
49 4 0.04
50 95 0.89
51 8 0.07
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (51 bp):
TATTCGGCCATATAGGTATGCACATATGTGATATTATATTTGAATCTTGAA
Found at i:30674963 original size:19 final size:19
Alignment explanation
Indices: 30674939--30674978 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
30674929 GAAAAAAATG
30674939 TTTGCTTGTACATAAATAA
1 TTTGCTTGTACATAAATAA
30674958 TTTGCTTGTACATAAATAA
1 TTTGCTTGTACATAAATAA
30674977 TT
1 TT
30674979 AAATAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (19 bp):
TTTGCTTGTACATAAATAA
Found at i:30675759 original size:12 final size:11
Alignment explanation
Indices: 30675736--30675780 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 11
30675726 TAGAAAAATC
30675736 TTATTTTATTT
1 TTATTTTATTT
30675747 TTATTTCTATTTT
1 TTATTT-TA-TTT
30675760 TTGATTTTATTT
1 TT-ATTTTATTT
*
30675772 TGATTTTAT
1 TTATTTTAT
30675781 ATTAAATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 13 0.43
12 6 0.20
13 7 0.23
14 4 0.13
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:30677801 original size:37 final size:38
Alignment explanation
Indices: 30677736--30677840 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 38
30677726 ATATTGATGT
*
30677736 CAATGCCAT-GTCCCAGAC-ATGATCTTACATGGT-ATCA
1 CAATGCCATAG-CCCA-ACTATGGTCTTACATGGTCATCA
* * * * *
30677773 TAATGCCATAGCTCAGCTATGGTTTTACAT-GTCATTA
1 CAATGCCATAGCCCAACTATGGTCTTACATGGTCATCA
*
30677810 CGATGCCATAGCCCAACTATGGTCTTACATG
1 CAATGCCATAGCCCAACTATGGTCTTACATG
30677841 TACTTGCATA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
36 3 0.06
37 49 0.92
38 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (38 bp):
CAATGCCATAGCCCAACTATGGTCTTACATGGTCATCA
Found at i:30680126 original size:28 final size:28
Alignment explanation
Indices: 30680095--30680151 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
30680085 CATTAAATCT
*
30680095 CATGATTACCGGTTATTCATTCATAGTG
1 CATGATTACCAGTTATTCATTCATAGTG
30680123 CATGATTACCAGTTATTCATTCATAGTG
1 CATGATTACCAGTTATTCATTCATAGTG
30680151 C
1 C
30680152 TTACTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (28 bp):
CATGATTACCAGTTATTCATTCATAGTG
Found at i:30690791 original size:30 final size:31
Alignment explanation
Indices: 30690733--30690792 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
30690723 TTGAAATAAA
**
30690733 GAACGAGCTGAAAGAAAGCTCAGTTGAGCTC
1 GAACGAGCTGAAAGAAAGCTCAAATGAGCTC
*
30690764 GAACGAGCTGAAA-CAAGCTCAAATGAGCT
1 GAACGAGCTGAAAGAAAGCTCAAATGAGCT
30690793 GAGTTGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (31 bp):
GAACGAGCTGAAAGAAAGCTCAAATGAGCTC
Found at i:30695250 original size:3 final size:3
Alignment explanation
Indices: 30695235--30695270 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
30695225 AAGAGGACAT
* *
30695235 TGA TGA CGA TGA TGA TGA TGG TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
30695271 ATACGATGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:30695858 original size:12 final size:12
Alignment explanation
Indices: 30695843--30695867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30695833 AATGATTTTT
30695843 AAAATTTATCAA
1 AAAATTTATCAA
30695855 AAAATTTATCAA
1 AAAATTTATCAA
30695867 A
1 A
30695868 TGGAGTGCAA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTTATCAA
Found at i:30706051 original size:20 final size:22
Alignment explanation
Indices: 30706013--30706055 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
30706003 TATCATTTCA
30706013 TATAATAAATAACTTAAAATAT
1 TATAATAAATAACTTAAAATAT
30706035 TATAA-AAATAA-TTAAAATAT
1 TATAATAAATAACTTAAAATAT
30706055 T
1 T
30706056 TACAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 6 0.29
22 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATAATAAATAACTTAAAATAT
Found at i:30706062 original size:20 final size:21
Alignment explanation
Indices: 30706013--30706063 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
30706003 TATCATTTCA
30706013 TATAATAAATAACTTAAAATAT
1 TATAA-AAATAACTTAAAATAT
30706035 TATAAAAATAA-TTAAAATAT
1 TATAAAAATAACTTAAAATAT
30706055 T-TACAAAAT
1 TATA-AAAAT
30706064 TACAATCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 6 0.21
22 5 0.18
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAAAAATAACTTAAAATAT
Found at i:30706062 original size:21 final size:21
Alignment explanation
Indices: 30706019--30706062 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
30706009 TTCATATAAT
*
30706019 AAATAACTTAAAATATTATAA
1 AAATAACTTAAAATATTACAA
30706040 AAATAA-TTAAAATATTTACAA
1 AAATAACTTAAAATA-TTACAA
30706061 AA
1 AA
30706063 TTACAATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAACTTAAAATATTACAA
Found at i:30709935 original size:14 final size:15
Alignment explanation
Indices: 30709899--30709940 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
30709889 ACAGAGAAGT
*
30709899 ATTTCTTTATCAATT
1 ATTTCTTTATCAATA
*
30709914 CTTT-TTTAT-AATA
1 ATTTCTTTATCAATA
30709927 ATTTCTTTATCAAT
1 ATTTCTTTATCAAT
30709941 TTGTTGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTCTTTATCAATA
Found at i:30710370 original size:30 final size:30
Alignment explanation
Indices: 30710334--30710419 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
30710324 CTTGTTTTCA
30710334 TATATTGTTGTGTATATAGTTAATTATTTT
1 TATATTGTTGTGTATATAGTTAATTATTTT
30710364 TATATTGTTGTGTATATAGTTAATTATTTT
1 TATATTGTTGTGTATATAGTTAATTATTTT
*
30710394 TATATTGTTGTATATATAGTTAATTA
1 TATATTGTTGTGTATATAGTTAATTA
30710420 GATTATTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (30 bp):
TATATTGTTGTGTATATAGTTAATTATTTT
Found at i:30713068 original size:20 final size:20
Alignment explanation
Indices: 30713043--30713080 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30713033 ATTTTTTTTT
* *
30713043 AAAAATTCATTAAGAATCCA
1 AAAAATTAATTAAAAATCCA
30713063 AAAAATTAATTAAAAATC
1 AAAAATTAATTAAAAATC
30713081 TAGAAAGGCC
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:0.11, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAAATTAATTAAAAATCCA
Found at i:30714988 original size:30 final size:30
Alignment explanation
Indices: 30714945--30715013 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
30714935 CTAGCCTTTG
30714945 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
30714975 CCATCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
30715005 CCACCACCA
1 CCACCACCA
30715014 CTTGTACCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:30715008 original size:18 final size:18
Alignment explanation
Indices: 30714955--30715008 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
30714945 CCACCACCAA
30714955 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
30714973 CTCCA-T---CAC-C-TA
1 CTCCACTAGCCACACTTG
30714985 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
30715003 CTCCAC
1 CTCCAC
30715009 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 3 0.11
16 3 0.11
17 2 0.07
18 12 0.43
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:30715544 original size:24 final size:23
Alignment explanation
Indices: 30715496--30715547 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
30715486 CTTTTTTTGT
*
30715496 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
30715519 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
30715543 TATTA
1 TATTA
30715548 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:30715601 original size:25 final size:26
Alignment explanation
Indices: 30715573--30715632 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
30715563 CTATATTACG
*
30715573 TATATATATT-ATACTATTTTATGTA
1 TATATATATTAATACTATATTATGTA
* *
30715598 TATATCT-TTAATACTATATTATTTA
1 TATATATATTAATACTATATTATGTA
30715623 TATATATATT
1 TATATATATT
30715633 TTTCTACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.86
26 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TATATATATTAATACTATATTATGTA
Found at i:30715656 original size:28 final size:28
Alignment explanation
Indices: 30715590--30715698 Score: 104
Period size: 28 Copynumber: 4.0 Consensus size: 28
30715580 ATTATACTAT
30715590 TTTATGTATATATCTTTAATACTATATTA
1 TTTATGTATATAT-TTTAATACTATATTA
* ** *
30715619 TTTATATATATATTTTTCTAC-ATGTTA
1 TTTATGTATATATTTTAATACTATATTA
30715646 TCTTATGTATATATTTTAAT--TATATTA
1 T-TTATGTATATATTTTAATACTATATTA
* *
30715673 TGTATGTAT-T-TTTT-ACACTATATTA
1 TTTATGTATATATTTTAATACTATATTA
30715698 T
1 T
30715699 GTACATATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
23 1 0.02
24 4 0.06
25 9 0.14
26 7 0.11
27 12 0.18
28 21 0.32
29 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTATGTATATATTTTAATACTATATTA
Found at i:30715699 original size:25 final size:24
Alignment explanation
Indices: 30715649--30715711 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
30715639 CATGTTATCT
*
30715649 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
30715675 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
30715700 TACATATTTTTT
1 TATGTATTTTTT
30715712 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:30715720 original size:27 final size:25
Alignment explanation
Indices: 30715654--30715725 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
30715644 TATCTTATGT
* *
30715654 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
30715678 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
30715703 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
30715726 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:30715800 original size:25 final size:24
Alignment explanation
Indices: 30715772--30715827 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
30715762 GTTATATTTT
*
30715772 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
30715797 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
30715820 CACTATTA
1 CACTATTA
30715828 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:30722782 original size:30 final size:30
Alignment explanation
Indices: 30722711--30722821 Score: 81
Period size: 30 Copynumber: 3.7 Consensus size: 30
30722701 CTTTTAATCT
* *
30722711 TTTTGAAAATT-TTAATTAAATTCTCTTAAA-A
1 TTTTAAAAATTCTT-ATTAAA--CTCCTAAATA
30722742 TTTCTAAAAATTCTTATT-AACTTCAC-AAATA
1 TTT-TAAAAATTCTTATTAAAC-TC-CTAAATA
*
30722773 TTTTAAAAATT-TTAATTAAACTCCTAAATT
1 TTTTAAAAATTCTT-ATTAAACTCCTAAATA
*
30722803 TTTTAAAAA-TCTTACTAAA
1 TTTTAAAAATTCTTATTAAA
30722822 TCCCCAAAAC
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
29 10 0.15
30 33 0.49
31 12 0.18
32 10 0.15
33 2 0.03
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (30 bp):
TTTTAAAAATTCTTATTAAACTCCTAAATA
Found at i:30723697 original size:6 final size:6
Alignment explanation
Indices: 30723688--30723717 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
30723678 CATGCAACTG
30723688 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
30723718 ATTATTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:30723825 original size:4 final size:4
Alignment explanation
Indices: 30723818--30723854 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
30723808 TACTTGCTTG
30723818 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
30723855 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:30728731 original size:22 final size:21
Alignment explanation
Indices: 30728699--30728745 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
30728689 ATACAGCTTT
30728699 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
30728719 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
30728741 TTTGA
1 TTTGA
30728746 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:30728773 original size:11 final size:11
Alignment explanation
Indices: 30728729--30728774 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
30728719 CTTTGACAAA
*
30728729 AATTGAGAGA-
1 AATTTAGAGAG
30728739 AATTT-GAGAG
1 AATTTAGAGAG
* *
30728749 AATTTGGAAAG
1 AATTTAGAGAG
30728760 AATTTAGAGAG
1 AATTTAGAGAG
30728771 AATT
1 AATT
30728775 GTTGTGAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (11 bp):
AATTTAGAGAG
Found at i:30728966 original size:40 final size:38
Alignment explanation
Indices: 30728922--30729002 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
30728912 CCATGTCAGA
* * *
30728922 ACAAAGCGCGCCCTCAAGGAAACGCTTTTTGCTGACGTGG
1 ACAAAACGCGCCC-CAAGG-AACGCGTTTTGCTGACATGG
* * *
30728962 ACAAAACGCTCCCCCAGGGACGCGTTTTGCTGACATGG
1 ACAAAACGCGCCCCAAGGAACGCGTTTTGCTGACATGG
30729000 ACA
1 ACA
30729003 TTGACTTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 20 0.57
39 4 0.11
40 11 0.31
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (38 bp):
ACAAAACGCGCCCCAAGGAACGCGTTTTGCTGACATGG
Found at i:30730955 original size:39 final size:39
Alignment explanation
Indices: 30730902--30730978 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
30730892 AAACACTTAA
* *
30730902 ATTTTTCTAAAGCACTTCTCAAAAGTACTTTTCAAAAAT
1 ATTTTTCCAAAGCACTTCTCAAAAGCACTTTTCAAAAAT
* *
30730941 ATTTTTCCACAGCACTTTTCAAAAGCACTTTTCAAAAA
1 ATTTTTCCAAAGCACTTCTCAAAAGCACTTTTCAAAAA
30730979 CAACGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (39 bp):
ATTTTTCCAAAGCACTTCTCAAAAGCACTTTTCAAAAAT
Found at i:30730972 original size:26 final size:26
Alignment explanation
Indices: 30730904--30730977 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
30730894 ACACTTAAAT
* * *
30730904 TTTTCTAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTTTCAAAAGCAC
** * * *
30730930 TTTTCAAAAATATTTTTCCACAGCAC
1 TTTTCAAAAGCACTTTTCAAAAGCAC
30730956 TTTTCAAAAGCACTTTTCAAAA
1 TTTTCAAAAGCACTTTTCAAAA
30730978 ACAACGAAGA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (26 bp):
TTTTCAAAAGCACTTTTCAAAAGCAC
Found at i:30748616 original size:22 final size:22
Alignment explanation
Indices: 30748591--30748634 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30748581 TAATCATTAC
* * *
30748591 TATTTAGTATCAGTCAATTATT
1 TATTCAGTAACAGTCAAGTATT
30748613 TATTCAGTAACAGTCAAGTATT
1 TATTCAGTAACAGTCAAGTATT
30748635 CGGTAACAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TATTCAGTAACAGTCAAGTATT
Found at i:30748640 original size:18 final size:18
Alignment explanation
Indices: 30748613--30748657 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
30748603 GTCAATTATT
30748613 TATTCAGTAACAGTCAAG
1 TATTCAGTAACAGTCAAG
* *
30748631 TATTCGGTAACAGTCAAT
1 TATTCAGTAACAGTCAAG
*
30748649 TCTTCAGTA
1 TATTCAGTA
30748658 CCTTTATTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (18 bp):
TATTCAGTAACAGTCAAG
Found at i:30749487 original size:22 final size:21
Alignment explanation
Indices: 30749462--30749526 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
30749452 TCCCATGTTC
*
30749462 TTCTCTGTTTCGTTTGTTTTTT
1 TTCTCTATTTC-TTTGTTTTTT
* * *
30749484 TTCTCTTTTTCATTTCTTTTAT
1 TTCTCTATTTC-TTTGTTTTTT
*
30749506 TTCATTTATTTCTTTGTTTTT
1 TTC-TCTATTTCTTTGTTTTT
30749527 ATTATTAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (21 bp):
TTCTCTATTTCTTTGTTTTTT
Found at i:30775105 original size:15 final size:15
Alignment explanation
Indices: 30775087--30775142 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
30775077 AACCCTTATC
*
30775087 CTATTAGACACATCA
1 CTATCAGACACATCA
*
30775102 CTATCA-ATTACATCA
1 CTATCAGA-CACATCA
* *
30775117 TTAACAGACACATCA
1 CTATCAGACACATCA
30775132 CTATCAGACAC
1 CTATCAGACAC
30775143 CTCAAAATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.25
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:30775313 original size:15 final size:17
Alignment explanation
Indices: 30775287--30775325 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
30775277 ATACAACATG
30775287 ACAAACAATAA-TCAAT
1 ACAAACAATAATTCAAT
*
30775303 ACAAA-AATAATTTAAT
1 ACAAACAATAATTCAAT
30775319 ACAAACA
1 ACAAACA
30775326 CAGTCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (17 bp):
ACAAACAATAATTCAAT
Found at i:30776600 original size:11 final size:12
Alignment explanation
Indices: 30776583--30776612 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
30776573 ATTACATGGT
30776583 GAAAAGAAGAAA
1 GAAAAGAAGAAA
30776595 -AAAAGAAGAAA
1 GAAAAGAAGAAA
30776606 GAAAAGA
1 GAAAAGA
30776613 TTGGATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
GAAAAGAAGAAA
Found at i:30786097 original size:48 final size:48
Alignment explanation
Indices: 30786035--30786367 Score: 603
Period size: 48 Copynumber: 6.9 Consensus size: 48
30786025 TATATATGTG
* *
30786035 TGTGGTAAAGCCGAATGGCTAGTCTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
30786083 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
30786131 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
30786179 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
30786227 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
*
30786275 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
* *
30786323 TGTGGTAAAGCCGAATGGCTGGTGTGAAATATGTAGGAGATATGT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
30786368 GTATATTGTG
Statistics
Matches: 277, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 277 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
Found at i:30786538 original size:37 final size:37
Alignment explanation
Indices: 30786488--30786590 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
30786478 GGAAATATAT
30786488 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30786525 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
30786562 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
30786591 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:30787790 original size:125 final size:127
Alignment explanation
Indices: 30787653--30787939 Score: 310
Period size: 127 Copynumber: 2.3 Consensus size: 127
30787643 ATTCGGCCCA
* * ** * *** * *
30787653 AACGATAAATCGAAACCCAATACGATTAGGCACGATTTATCAAA-TTTCCAAATACGAAACATTG
1 AACGAAAAATCGAAACCCAACACGATTAGGCACGACCTACCAAACCCCCCAAACACAAAACATTG
* * * *
30787717 CATCATTTTAA-TTTGAGAAAACATGGATGAAATTTCAAAAGGATATTTTGTATTTTAGTCG
66 CATCATTTTAATTTTAAAAAAACATGGATGAAATTTCAAAAGGATATTTCGCATTTTAGTCG
* * * * * * *
30787778 AATGGAAAATCGAAGCCCAGCACGATTGGGCACGACCTCCCAAACCCCCCAAACACAAAATATTG
1 AACGAAAAATCGAAACCCAACACGATTAGGCACGACCTACCAAACCCCCCAAACACAAAACATTG
* * *
30787843 CCTCGTTTTAATTTTAAAAAAACATGGATGAAATTTCAAAAGGATATTTCGCATTTTAGTTG
66 CATCATTTTAATTTTAAAAAAACATGGATGAAATTTCAAAAGGATATTTCGCATTTTAGTCG
* *
30787905 AACGAAAAATCGAAACCTAGCACGA-TAGGGCACGA
1 AACGAAAAATCGAAACCCAACACGATTA-GGCACGA
30787940 TTCCTCGAAC
Statistics
Matches: 130, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
125 33 0.25
126 24 0.18
127 73 0.56
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (127 bp):
AACGAAAAATCGAAACCCAACACGATTAGGCACGACCTACCAAACCCCCCAAACACAAAACATTG
CATCATTTTAATTTTAAAAAAACATGGATGAAATTTCAAAAGGATATTTCGCATTTTAGTCG
Found at i:30788114 original size:21 final size:23
Alignment explanation
Indices: 30788067--30788120 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
30788057 CATTCAAGAT
**
30788067 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
30788090 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
30788111 AAAAT-ATATA
1 AAAATAATATA
30788121 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:30788354 original size:23 final size:23
Alignment explanation
Indices: 30788288--30788354 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
30788278 TATAAGAAAA
*
30788288 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
30788308 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
30788331 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
30788354 A
1 A
30788355 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:30788361 original size:17 final size:15
Alignment explanation
Indices: 30788321--30788366 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
30788311 ATATAAATAG
*
30788321 AAATAAAAATATAAT
1 AAATAGAAATATAAT
30788336 AAATAGAAATATAAT
1 AAATAGAAATATAAT
30788351 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
30788367 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:30788376 original size:14 final size:13
Alignment explanation
Indices: 30788336--30788437 Score: 59
Period size: 14 Copynumber: 7.2 Consensus size: 13
30788326 AAAATATAAT
30788336 AAATAGA-AATATA
1 AAATAGATAA-ATA
*
30788349 ATAATAGTAGAAATA
1 A-AATAG-ATAAATA
30788364 TAAATAGATAAATA
1 -AAATAGATAAATA
30788378 AAATTAGATAAATA
1 AAA-TAGATAAATA
30788392 ATAATAGTATTAGAATA
1 A-AATAG-A-TA-AATA
30788409 ACAA-A-ATAAATA
1 A-AATAGATAAATA
30788421 TAAATAGA-AACATA
1 -AAATAGATAA-ATA
30788435 AAA
1 AAA
30788438 ATAATAGTAA
Statistics
Matches: 74, Mismatches: 2, Indels: 26
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.08
13 13 0.18
14 30 0.41
15 12 0.16
16 6 0.08
17 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (13 bp):
AAATAGATAAATA
Found at i:30788395 original size:29 final size:30
Alignment explanation
Indices: 30788331--30788452 Score: 76
Period size: 29 Copynumber: 4.2 Consensus size: 30
30788321 AAATAAAAAT
30788331 ATAATAAATAGAAATATAATAATAGTAGAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
*
30788361 AT-ATAAATAGATAA-ATAA-AATTAG-ATAA
1 ATAATAAATAGA-AATATAATAA-TAGTAGAA
* * * * ** *
30788389 ATAAT-AATAGTATTAGAATAACAAAATAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
* * * *
30788418 AT-ATAAATAGAAACATAAAAATAATAGTA
1 ATAATAAATAGAAATATAATAATAGTAGAA
30788447 ATAATA
1 ATAATA
30788453 TATTAAATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 43 0.62
30 7 0.10
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAATAAATAGAAATATAATAATAGTAGAA
Found at i:30788449 original size:23 final size:23
Alignment explanation
Indices: 30788385--30788449 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 23
30788375 ATAAAATTAG
*
30788385 ATAAATAATAATAGTATTAGAATA
1 ATAAA-AATAATAGTAATAGAATA
*
30788409 A-CAAAATAAATA-TAAATAGAA-A
1 ATAAAAAT-AATAGT-AATAGAATA
30788431 CATAAAAATAATAGTAATA
1 -ATAAAAATAATAGTAATA
30788450 ATATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
22 5 0.15
23 21 0.64
24 7 0.21
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (23 bp):
ATAAAAATAATAGTAATAGAATA
Found at i:30796030 original size:18 final size:20
Alignment explanation
Indices: 30795995--30796034 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
30795985 TAGTTTCCAT
30795995 ATTTTTATTTTTAAGAATTTA
1 ATTTTTATTTTT-AGAATTTA
30796016 ATTTTT-TTTTT-GAATTTA
1 ATTTTTATTTTTAGAATTTA
30796034 A
1 A
30796035 AAATTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTTTTATTTTTAGAATTTA
Found at i:30796788 original size:60 final size:61
Alignment explanation
Indices: 30796695--30796815 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 61
30796685 AATTTTTGCC
30796695 TATTTTATCTCTTTAATTAGTGCTTTTTGTCAAAACACCCCG-AAATGGACGGAAAAGTTA
1 TATTTTATCTCTTTAATTAGTGCTTTTTGTCAAAACACCCCGAAAATGGACGGAAAAGTTA
30796755 TATTTTATCTCTTTAATTAGTGCTTTTTGTCAAAACACCCCGAAAATGGACGGAAAAGTTA
1 TATTTTATCTCTTTAATTAGTGCTTTTTGTCAAAACACCCCGAAAATGGACGGAAAAGTTA
30796816 ACATTTGTTA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 42 0.70
61 18 0.30
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (61 bp):
TATTTTATCTCTTTAATTAGTGCTTTTTGTCAAAACACCCCGAAAATGGACGGAAAAGTTA
Found at i:30797759 original size:19 final size:19
Alignment explanation
Indices: 30797732--30797802 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
30797722 GATTATGTTA
30797732 GTATATTAATCAAAGTAAT
1 GTATATTAATCAAAGTAAT
* *
30797751 GTATTTTAATATTCAAAGTACAA
1 GTATATT-A-A-TCAAAGTA-AT
*
30797774 ATATATTAATCAAAGTAAT
1 GTATATTAATCAAAGTAAT
*
30797793 GTATTTTAAT
1 GTATATTAAT
30797803 ATTCAAAGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 15 0.37
20 9 0.22
21 2 0.05
22 9 0.22
23 6 0.15
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (19 bp):
GTATATTAATCAAAGTAAT
Found at i:30797762 original size:25 final size:25
Alignment explanation
Indices: 30797734--30797805 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 25
30797724 TTATGTTAGT
30797734 ATATTAATCAAAGTAATGTATTTTA
1 ATATTAATCAAAGTAATGTATTTTA
*
30797759 ATA-T--TCAAAGTACA---A--AT-
1 ATATTAATCAAAGTA-ATGTATTTTA
30797776 ATATTAATCAAAGTAATGTATTTTA
1 ATATTAATCAAAGTAATGTATTTTA
30797801 ATATT
1 ATATT
30797806 CAAAGTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 20
0.61 0.04 0.35
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 1 0.03
20 9 0.26
22 9 0.26
23 1 0.03
24 2 0.06
25 8 0.23
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (25 bp):
ATATTAATCAAAGTAATGTATTTTA
Found at i:30797769 original size:22 final size:22
Alignment explanation
Indices: 30797741--30797812 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
30797731 AGTATATTAA
30797741 TCAAAGTAATGTATTTTAATAT
1 TCAAAGTAATGTATTTTAATAT
** *
30797763 TCAAAGTACAAATATATT-A-A-
1 TCAAAGTA-ATGTATTTTAATAT
30797783 TCAAAGTAATGTATTTTAATAT
1 TCAAAGTAATGTATTTTAATAT
30797805 TCAAAGTA
1 TCAAAGTA
30797813 CAAAATAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.15
20 9 0.22
21 2 0.05
22 17 0.43
23 6 0.15
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (22 bp):
TCAAAGTAATGTATTTTAATAT
Found at i:30797780 original size:42 final size:42
Alignment explanation
Indices: 30797733--30797816 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
30797723 ATTATGTTAG
30797733 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACAAA
1 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACAAA
30797775 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACAAA
1 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACAAA
30797817 ATAAGCGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (42 bp):
TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACAAA
Found at i:30803030 original size:26 final size:26
Alignment explanation
Indices: 30803001--30803052 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
30802991 TAGTGCTACG
*
30803001 TGGTGTGCAACCATTAGAGGTGCAAA
1 TGGTGTGCAACCATTAGAAGTGCAAA
* * *
30803027 TGGTTTGTAACCATTGGAAGTGCAAA
1 TGGTGTGCAACCATTAGAAGTGCAAA
30803053 AGGTTGCTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (26 bp):
TGGTGTGCAACCATTAGAAGTGCAAA
Found at i:30807481 original size:11 final size:12
Alignment explanation
Indices: 30807441--30807505 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 12
30807431 CTTGAACTAA
*
30807441 AATTA-AAATTT
1 AATTATAAATAT
30807452 AA-TAT-AATAT
1 AATTATAAATAT
*
30807462 AA-TAAAAATAT
1 AATTATAAATAT
*
30807473 AATT-TAAATTT
1 AATTATAAATAT
30807484 AATTATAAA-AT
1 AATTATAAATAT
*
30807495 ATTTATAAATA
1 AATTATAAATA
30807506 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 10 0.23
11 27 0.63
12 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTATAAATAT
Found at i:30811763 original size:14 final size:15
Alignment explanation
Indices: 30811739--30811771 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30811729 TTTAGAGCAT
*
30811739 ATTTTTAATTTTTTA
1 ATTTTTAATTTTATA
30811754 ATTTTT-ATTTTATA
1 ATTTTTAATTTTATA
30811768 ATTT
1 ATTT
30811772 AACACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTAATTTTATA
Found at i:30819960 original size:17 final size:17
Alignment explanation
Indices: 30819938--30819973 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
30819928 AATTTTGATG
*
30819938 GTGTTTGATATTGGTAT
1 GTGTTTGATATAGGTAT
30819955 GTGTTTGATATAGGTAT
1 GTGTTTGATATAGGTAT
30819972 GT
1 GT
30819974 TCAAATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.50
Consensus pattern (17 bp):
GTGTTTGATATAGGTAT
Found at i:30824112 original size:6 final size:6
Alignment explanation
Indices: 30824103--30824261 Score: 79
Period size: 6 Copynumber: 25.7 Consensus size: 6
30824093 TTCAATTTCA
* * * *
30824103 ATTTTG ATTTCG ATTTTG ATTCTG ATTCTG ATTTTG ATTTCT- ATTTCG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT-TG ATTTTG
* ** ** *
30824151 CTTTTG ATTTCA ATTTTG AAACACTCACTG ATTCTG ATTTTG ATTTTG
1 ATTTTG ATTTTG ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG
* * * * * * *
30824199 ATTTTG A-TTTC AATTCG ATCTCG ATTTTG ATTTAG ATTTTG GTTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
*
30824246 ATTTTG ATTTGG ATTT
1 ATTTTG ATTTTG ATTT
30824262 CAATTTAGGG
Statistics
Matches: 116, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
5 4 0.03
6 105 0.91
7 2 0.02
8 1 0.01
10 1 0.01
11 1 0.01
12 2 0.02
ACGTcount: A:0.19, C:0.10, G:0.15, T:0.55
Consensus pattern (6 bp):
ATTTTG
Found at i:30824112 original size:12 final size:12
Alignment explanation
Indices: 30824097--30824261 Score: 90
Period size: 12 Copynumber: 13.8 Consensus size: 12
30824087 TGTTATTTCA
*
30824097 ATTTCAATTTTG
1 ATTTCGATTTTG
30824109 ATTTCGATTTTG
1 ATTTCGATTTTG
*
30824121 A-TTCTGATTCTG
1 ATTTC-GATTTTG
*
30824133 ATTTTGATTTCT-
1 ATTTCGATTT-TG
*
30824145 ATTTCGCTTTTG
1 ATTTCGATTTTG
*
30824157 ATTTCAATTTTG
1 ATTTCGATTTTG
** **
30824169 A-AAC-ACTCACTG
1 ATTTCGA-T-TTTG
30824181 A-TTCTGATTTTG
1 ATTTC-GATTTTG
*
30824193 ATTTTGATTTTG
1 ATTTCGATTTTG
* *
30824205 ATTTC-AATTCG
1 ATTTCGATTTTG
*
30824216 ATCTCGATTTTG
1 ATTTCGATTTTG
*
30824228 ATTTAGATTTTG
1 ATTTCGATTTTG
* *
30824240 GTTTTGATTTTG
1 ATTTCGATTTTG
*
30824252 ATTTGGATTT
1 ATTTCGATTT
30824262 CAATTTAGGG
Statistics
Matches: 114, Mismatches: 29, Indels: 20
0.70 0.18 0.12
Matches are distributed among these distances:
10 1 0.01
11 14 0.12
12 92 0.81
13 6 0.05
14 1 0.01
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.55
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:30824279 original size:16 final size:16
Alignment explanation
Indices: 30824258--30824294 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
30824248 TTTGATTTGG
30824258 ATTTCAATTTAGGGTT
1 ATTTCAATTTAGGGTT
30824274 ATTTCAATTTAGGGTT
1 ATTTCAATTTAGGGTT
30824290 ATTTC
1 ATTTC
30824295 GATCATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.51
Consensus pattern (16 bp):
ATTTCAATTTAGGGTT
Found at i:30824738 original size:45 final size:45
Alignment explanation
Indices: 30824687--30824782 Score: 115
Period size: 45 Copynumber: 2.1 Consensus size: 45
30824677 AGATAGTAAG
30824687 GAAGCAGA-CTGAAAATTACAGA-TCTTATCTCCATGTATCGGCTAT
1 GAAGCAGATC-GAAAA-TACAGAGTCTTATCTCCATGTATCGGCTAT
* * ** *
30824732 GGAGCAGATCGGAAATAGTGAGTCTTATCTCTATGTATCGGCTAT
1 GAAGCAGATCGAAAATACAGAGTCTTATCTCCATGTATCGGCTAT
30824777 GAAGCA
1 GAAGCA
30824783 AATTTTAGCC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
44 4 0.09
45 38 0.88
46 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
GAAGCAGATCGAAAATACAGAGTCTTATCTCCATGTATCGGCTAT
Found at i:30824758 original size:178 final size:179
Alignment explanation
Indices: 30824516--30824881 Score: 536
Period size: 178 Copynumber: 2.1 Consensus size: 179
30824506 GGGTAACAGG
* * *
30824516 CTGAAAATTACAAATCTTTATCTCCATGTCTCGGCTATGGAGCAGATTAAAAATGGCAAGTCTTA
1 CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCAAGTCTTA
* * * * *
30824581 TCTCTATGTATTGGCTATGGAGTAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAAAGA
66 TCTCTATGTATCGGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAAAGA
* *
30824646 GCAAGTTGAAGATACAAGTCTTATCTTCATGAGATAGTAAGGAAGCAGA
131 GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
* ** **
30824695 CTGAAAATTACAGATC-TTATCTCCATGTATCGGCTATGGAGCAGATCGGAAATAGTGAGTCTTA
1 CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCAAGTCTTA
* *
30824759 TCTCTATGTATCGGCTATGAAGCAAATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGCAAGAGA
66 TCTCTATGTATCGGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAAAGA
* * * *
30824824 GCAGGTCGAAGATACAAGTCTTATCTTCTTGAGGTAGAAAGGAAGTAGA
131 GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
30824873 CTGAAAATT
1 CTGAAAATT
30824882 CCAAGCCTTA
Statistics
Matches: 166, Mismatches: 21, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
178 151 0.91
179 15 0.09
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (179 bp):
CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATAGCAAGTCTTA
TCTCTATGTATCGGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAAAGA
GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
Found at i:30824946 original size:44 final size:43
Alignment explanation
Indices: 30824898--30825655 Score: 238
Period size: 44 Copynumber: 17.2 Consensus size: 43
30824888 CTTAACCCCT
* *
30824898 TAAGCAATAGGGTAACAGGCTGAAAATTACAGATCGTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * * * * * * *
30824942 TAAGCAGTAGTGG-AGCA-GATCAAA-GACGGTGAGCCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTAAAATTAC--AGA-TCTTATCTCCC
*
30824986 TAAGCAGTAGGGTAACAGGCTAGAAATTATAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTA-AAATTACAGATCTTATCTCCC
* * * * *
30825030 TAAGCAGTAGGGGAACA-GATCAAAGATGGT-GAG-CCTTAAAC-CCC
1 TAAGCAGTAGGGTAACAGGCT-AAA-AT--TACAGATCTT-ATCTCCC
*
30825074 TAAGCACTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * * * *
30825118 TAAGCAGTA--GTAGAGCA-GATCAAAGATGGT-GAG-CCTTAACCCCC
1 TAAGCAGTAGGGTA-A-CAGGCT-AAA-AT--TACAGATCTTATCTCCC
* *
30825162 TAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCTC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * ** * * * * *
30825206 TAAGCAGTAGTGG-AGCA-GATCGAA-GACGGTGAGCCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTAAAATTAC--AGA-TCTTATCTCCC
* * *
30825250 TAAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCTC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * * ** * * * * *
30825294 TAAGCAGTAGGGGAGCA-GATCGAA-GACGGTGAGCCTTAACCCCC
1 TAAGCAGTAGGGTAACAGGCTAAAATTAC--AGA-TCTTATCTCCC
30825338 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * ** * * * *
30825382 TAAGCAGTAGTGG-AGCA-GATCGAA-GACGGTGAGCCTTAAC-CTCC
1 TAAGCAGTAG-GGTAACAGGCTAAAATTAC--AGA-TCTTATCTC-CC
* * *
30825426 TAAACAGTAGGGTAACAGGTTAAAAATTACAAATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * ** * * * * *
30825470 TAAGCAGTAGCGG-AGCA-GATCGAA-GACGGTGAGCCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTAAAATTAC--AGA-TCTTATCTCCC
*
30825514 TAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
* * * * * * * *
30825558 TAAGCAGTAGTGG-AGCAGATCGAAAACGGT-GAG-CCTTAACCCCC
1 TAAGCAGTAG-GGTAACAG-GCTAAAA--TTACAGATCTTATCTCCC
* *
30825602 TAAGAAGTAGGGTAATAGGCTGAAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCC
30825646 TAAGCAGTAG
1 TAAGCAGTAG
30825656 CGGAGCAGAT
Statistics
Matches: 500, Mismatches: 147, Indels: 134
0.64 0.19 0.17
Matches are distributed among these distances:
41 10 0.02
42 17 0.03
43 49 0.10
44 350 0.70
45 48 0.10
46 17 0.03
47 9 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (43 bp):
TAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCC
Found at i:30824997 original size:88 final size:88
Alignment explanation
Indices: 30824885--30825683 Score: 1276
Period size: 88 Copynumber: 9.1 Consensus size: 88
30824875 GAAAATTCCA
* * *
30824885 AGCCTTAACCCCTTAAGCAATAGGGTAACAGGCTGAAAATTACAGATCGTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
30824950 AGTGGAGCAGATCAAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
*
30824973 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AGAAATTATAGATCTTATCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAG
* * * *
30825037 TAGGGGAACAGATCAAAGATGGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* *
30825061 AGCCTTAAACCCCTAAGCACTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
30825126 AGTAGAGCAGATCAAAGATGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
30825149 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
30825214 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
30825237 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
30825302 AGGGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
30825325 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
30825390 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * * *
30825413 AGCCTTAACCTCCTAAACAGTAGGGTAACAGGTTAAAAATTACAAATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
30825478 AGCGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
30825501 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
30825566 AGTGGAGCAGATCGAAAACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
30825589 AGCCTTAACCCCCTAAGAAGTAGGGTAATAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* **
30825654 AGCGGAGCAGATCGAAGATAGTG
66 AGTGGAGCAGATCGAAGACGGTG
30825677 AGCCTTA
1 AGCCTTA
30825684 TCTCCCTGAA
Statistics
Matches: 664, Mismatches: 45, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
87 1 0.00
88 662 1.00
89 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.21
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTG
Found at i:30829328 original size:36 final size:36
Alignment explanation
Indices: 30829288--30829360 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
30829278 ACATCAATTC
30829288 ACCCATTCTTAGTGATTATTGAACGTGACAATTTAT
1 ACCCATTCTTAGTGATTATTGAACGTGACAATTTAT
*
30829324 ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
1 ACCCATTCTTAGTGATTATTGAACGTGACAATTTAT
30829360 A
1 A
30829361 GAGAAAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
ACCCATTCTTAGTGATTATTGAACGTGACAATTTAT
Done.