Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 7 of 30
Found at i:2300972 original size:13 final size:13
Alignment explanation
Indices: 2300954--2300978 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2300944 TTTCAGAAAA
2300954 TTTATAAAATCAT
1 TTTATAAAATCAT
2300967 TTTATAAAATCA
1 TTTATAAAATCA
2300979 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:2303509 original size:31 final size:31
Alignment explanation
Indices: 2303473--2303538 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
2303463 ACCCCCATCA
2303473 ACCTTGGGCTGGCAATGTACATCCCCATTGC
1 ACCTTGGGCTGGCAATGTACATCCCCATTGC
* *
2303504 ACCTTGGGCTGGCAATGTATATCCCTATTGC
1 ACCTTGGGCTGGCAATGTACATCCCCATTGC
2303535 -CCTT
1 ACCTT
2303539 AGGCATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.30
Consensus pattern (31 bp):
ACCTTGGGCTGGCAATGTACATCCCCATTGC
Found at i:2303809 original size:31 final size:31
Alignment explanation
Indices: 2303774--2303878 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 31
2303764 TTATACATAT
2303774 TCTCATGGCATTAATCATGCATACTTAATCA
1 TCTCATGGCATTAATCATGCATACTTAATCA
* * **
2303805 TCTCATGTAGTATATTAAAT-ATACAT-CATATACATGT
1 TCTCATG--G--CATT-AATCATGCATAC-T-TA-ATCA
2303842 TCTCATGGCATTAATCATGCATACTTAATCA
1 TCTCATGGCATTAATCATGCATACTTAATCA
*
2303873 CCTCAT
1 TCTCAT
2303879 ATGGTATATG
Statistics
Matches: 55, Mismatches: 9, Indels: 20
0.65 0.11 0.24
Matches are distributed among these distances:
31 14 0.25
32 5 0.09
33 10 0.18
34 2 0.04
35 10 0.18
36 5 0.09
37 9 0.16
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (31 bp):
TCTCATGGCATTAATCATGCATACTTAATCA
Found at i:2303826 original size:68 final size:69
Alignment explanation
Indices: 2303693--2303995 Score: 300
Period size: 68 Copynumber: 4.5 Consensus size: 69
2303683 ATATGGAACT
* * * *
2303693 TACATCATATACATAATCTCATGGCATT--T-ATGCTTGCTCAATCATCTCATGTAGTATA-TAG
1 TACATCATATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTATATTAG
2303754 AATA
66 AATA
**
2303758 TACATTTTATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTATATTA-
1 TACATCATATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTATATTAG
2303822 AATA
66 AATA
* * * * *
2303826 TACATCATATACATGTTCTCATGGCATTAATCATGCATACTTAATCACCTCATATGGTATA-TGG
1 TACATCATATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTATATTAG
*
2303890 AATT
66 AATA
* * * * * * * *
2303894 TACATCATATACACCATCCT-ATAGTA-TACATCATGCCTACTTGATCATCTCATATGGTATA-T
1 TACATCATATACA-TATTCTCATGGCATTA-ATCATGCATACTTAATCATCTCATGTAGTATATT
* *
2303956 GGAATT
64 AGAATA
* * *
2303962 TACATCATATACATAATCTTATGGCATTCATCAT
1 TACATCATATACATATTCTCATGGCATTAATCAT
2303996 AGTACACATG
Statistics
Matches: 201, Mismatches: 28, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
65 25 0.12
67 7 0.03
68 163 0.81
69 6 0.03
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.38
Consensus pattern (69 bp):
TACATCATATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTATATTAG
AATA
Found at i:2307644 original size:43 final size:43
Alignment explanation
Indices: 2307529--2307858 Score: 306
Period size: 43 Copynumber: 7.9 Consensus size: 43
2307519 CATGATAATT
* * *
2307529 ATGACCCAGCCATGTGCGGTGTA-AGAGTGCACATGAGCT-ATG
1 ATGACCCAGCTATGTGC-GAGTAGGGAGTGCACATGAGCTGATG
* ** * * *
2307571 CTGACTTAGCCATGTGTGA--A-GGAGTACACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
*
2307611 ATGACCCAGTTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
* * * *
2307654 ATGACCTAGCCATGTGTG-G-A-GGAGTACACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
* * **
2307694 ATGACCTAGCTATGTACGAGTAAAGAGTGCACATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
* * * *
2307737 ATGACCCAGCCATGTGTG-G-A-GGAGTACACATAAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
* * *
2307777 ATGACCCAACTATGTGTGAGTAGGGAGTGCATATGAGCTGATG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
* * *
2307820 ATGACCCAGCTATATGC-AGTGTGGGAGTGCACATAAGCT
1 ATGACCCAGCTATGTGCGAGT-AGGGAGTGCACATGAGCT
2307859 AAGACAGAGT
Statistics
Matches: 235, Mismatches: 42, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
39 15 0.06
40 83 0.35
41 5 0.02
42 21 0.09
43 111 0.47
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (43 bp):
ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
Found at i:2307691 original size:83 final size:83
Alignment explanation
Indices: 2307529--2307825 Score: 427
Period size: 83 Copynumber: 3.6 Consensus size: 83
2307519 CATGATAATT
* * * * * *
2307529 ATGACCCAGCCATGTGCGGTGTA-AGAGTGCACATGAGCT-ATGCTGACTTAGCCATGTGTGAAG
1 ATGACCCAGCTATGTGC-GAGTAGGGAGTGCACATGAGCTGATGATGACCTAGCCATGTGTGGAG
2307592 GAGTACACATGAGCTGATG
65 GAGTACACATGAGCTGATG
*
2307611 ATGACCCAGTTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCTAGCCATGTGTGGAGG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCTAGCCATGTGTGGAGG
2307676 AGTACACATGAGCTGATG
66 AGTACACATGAGCTGATG
* * ** *
2307694 ATGACCTAGCTATGTACGAGTAAAGAGTGCACATGAGCTGATGATGACCCAGCCATGTGTGGAGG
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCTAGCCATGTGTGGAGG
*
2307759 AGTACACATAAGCTGATG
66 AGTACACATGAGCTGATG
* * *
2307777 ATGACCCAACTATGTGTGAGTAGGGAGTGCATATGAGCTGATGATGACC
1 ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACC
2307826 CAGCTATATG
Statistics
Matches: 192, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 4 0.02
82 30 0.16
83 158 0.82
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (83 bp):
ATGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATGATGACCTAGCCATGTGTGGAGG
AGTACACATGAGCTGATG
Found at i:2307853 original size:126 final size:126
Alignment explanation
Indices: 2307589--2307834 Score: 318
Period size: 126 Copynumber: 2.0 Consensus size: 126
2307579 GCCATGTGTG
* ** * *
2307589 AAGGAGTACACATGAGCTGATGATGACCCAGTTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
1 AAGGAGTGCACATGAGCTGATGATGACCCAGCCATGTGCGAGTAGGGAGTACACATAAGCTGATG
* * * *
2307654 ATGACCTAGCCATGTGTGGAGGAGTACACATGAGCTGATGATGACCTAGCTATGTACGAGT
66 ATGACCCAACCATGTGTGGAGGAGTACACATGAGCTGATGATGACCCAGCTATATACGAGT
* *
2307715 AAAGAGTGCACATGAGCTGATGATGACCCAGCCATGTGTG-G-A-GGAGTACACATAAGCTGATG
1 AAGGAGTGCACATGAGCTGATGATGACCCAGCCATGTGCGAGTAGGGAGTACACATAAGCTGATG
* * *
2307777 ATGACCCAACTATGTGTGAGTAGGGAGTGCATATGAGCTGATGATGACCCAGCTATAT
66 ATGACCCAACCATGTGTG-G-A-GGAGTACACATGAGCTGATGATGACCCAGCTATAT
2307835 GCAGTGTGGG
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 33 0.32
124 2 0.02
125 2 0.02
126 66 0.64
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (126 bp):
AAGGAGTGCACATGAGCTGATGATGACCCAGCCATGTGCGAGTAGGGAGTACACATAAGCTGATG
ATGACCCAACCATGTGTGGAGGAGTACACATGAGCTGATGATGACCCAGCTATATACGAGT
Found at i:2309052 original size:171 final size:170
Alignment explanation
Indices: 2308569--2314017 Score: 4697
Period size: 171 Copynumber: 32.0 Consensus size: 170
2308559 CAATTTCCCA
* * * * *
2308569 TTACTTGCCTTAAATGATTTTATAATCTTATAATTGATTTTAAGTTGAATTTGTTTTTCTTTTTT
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TT-TTTTTCATTTTT
* * * * * * * *
2308634 CA-TTAAAATAGATTATAATTGGATGTTTGCCTCAAGAAACATGAAGCGAAAGCCATCTACTGAT
64 -AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
2308698 AAGAAAAGTCCATTTATAGTCACTCATG-CTTTCGAAAGCCTTG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTT-GAAAGCCTTG
* * * * ** *
2308741 TTACTCACTTTTACTAGTTTTATAA-CTTTATAAATGATTTTAAAATG-A-TTTTTTCA-TGTTA
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTA
* *
2308802 GGTTAAAACATATCATAATTTTATGTTTACAC-CGAGAAACATGAAGC-AGAAGCCATCCATTGA
65 -GTTAAAACATATCATAATTTGATGTTTGC-CTCGAGAAACATGAAGCGA-AAGCCATCCATTGA
*
2308865 CAATG-AAAGTCCATTTATAGTTACTCATGCCTTTGAAAGCCTTG
127 CAA-GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * *
2308909 TCACTCGCTTTAATTGGTTTTATAATCTTATAAATGATTTTCAGTTGAATTTTATTTCATTTTTA
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTT-TTTCATTTTTA
* * *
2308974 GTTAAAACATATCATAATTGGATGTTTGCCTCGAAAAACATGAAGGGAAAGCCATCCATTGACAA
65 GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
** *
2309039 GAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTTA
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * ** * *
2309080 TTACTCACTTTAAGTAGTTTTCTAAAT-TTATAAATGATTCCAAATTGAATTTTTGTTTA-TTTT
1 TTACTCGCTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAGTTGAATTTTT-TTCATTTTT
* * * * * *
2309143 AGGTTGAAACAGATCATAATTTGATGTTTGCATCGAGAAACATGAAGTGAAACCCATCCATTGAA
64 A-GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
* * **
2309208 AAGAAAAGTCCATTTATAGTCATTTATGCCTTCAAAAGCCTT-
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * *
2309250 TGTGCTCTCTTTAAGTGGTTTTATAATCCTATGAATGATTTTAAGTTGAAGTTTTTTTCATTTTT
1 T-TACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TTTTTTTCATTTTT
* * * * * * *
2309315 GGTTAAAATAGATCACAGGTTT-ATGTTTGCCTCAAGAAACATGAAGC-AGAAGCTATCCATTGA
64 AGTTAAAACATATCATA-ATTTGATGTTTGCCTCGAGAAACATGAAGCGA-AAGCCATCCATTGA
* * * * * ** *
2309378 GAAGAAAAGTCCATTTATAGTCCCTCGTGCATTCGAAAGGGTAG
127 CAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
2309422 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTCTTTTCATTTTTT
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTCA-TTTTT
* * * **
2309487 A-TTAAAAC-TGATCATAATTGGATGTTTGCCTTG-GTAAAAAGTGAAGCGAAAGTAATCCATTG
64 AGTTAAAACAT-ATCATAATTTGATGTTTGCCTCGAG-AAACA-TGAAGCGAAAGCCATCCATTG
* * * * * *
2309549 ACAAGAAAAGTCTATTTATAGCCACTCATACCTTCGACATCCTTG
126 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * ** *
2309594 TTGCTCACTTTTAGTGGTTTTATAA-CTTTATGAATGATTTTAAACTG-ATTTCTTTTTA-TTTT
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTT-TTTTCATTTTT
* * * * * *
2309656 AGGCTAAAACATATCATAATATGATGTTTGCATCGAGAAACGTAAAGCAAAAGCCATCCATTGAC
64 A-GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
* * *
2309721 AAGAAAAGTCCATTTACAGTCGCTCTTGCCTTT-AATAGCCTTG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA-AGCCTTG
* * * * ** *
2309764 TTACTTGCTTTTAGTGGTTTGATAA-CTTTATAAATGATTTTAAACTGATAGTTTTTTCA-TTTT
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGA-ATTTTTTTCATTTTT
* * * *
2309827 AGGTTAAAACAGATTATAATTTGATGTTTGCATCGAGAAACATGAAGCAAAAGCCATCCATTGAC
64 A-GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
* * * * * *
2309892 AAGGAAAGCCCATTTATAGGCACTTATGCCTTCGAAAGCTTTG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * * * *
2309935 ATCCTCGCTTGAAATGGTTTTATACTCTTATAAATGAGTTCAAGTTGAATTTTGTTTCATTCTTC
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTT-TTTCATTTTTA
* ** * * * **
2310000 GTTAAAACAAATCATAATCGGATGTTTGTCTCAAAAAACATGAAGCGAAAGCCATCCATAAACAA
65 GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * *
2310065 GAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCTTG
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * *
2310106 TTACTC-ATATTAAATGGTTTTATAATCATATAAATCATTTTAAGTTGAATTGTTTTTCATTTTT
1 TTACTCGCT-TTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATT-TTTTTCATTTTT
* * * ** * * *
2310170 AGTTCAAACATATCACAATTGGACCTTTGCCTCGAGAAATAGGAATCGACAA-CCATCCATTGAC
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGA-AAGCCATCCATTGAC
* * **
2310234 AAGAAAAGTCCATTTATAGTCACTCATG-CATTGAAAAGTCTAA
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTG-AAAGCCTTG
* * * * *
2310277 TTACTTGCTTTAAATTGTTTTATAATCTTAGAAATGATTTTAAGCTGAATTTTTTTCAAATTTTA
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTC-ATTTTTA
* * * ** * ** **
2310342 GGTTAAAA-TTGCTTATAATGGGATGTTTGCCTCGATAAATGTGAAGCGAAAGTAATCCATTGAC
65 -GTTAAAACAT-ATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
* * * * *
2310406 AA-AAAAGTCCCTTTATAGTCACCCACGTC-TTCAATAGCCTTG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAA-AGCCTTG
* *
2310448 TTACTCACTTTAAATGGTTTTATAATCTTATAAATCG-TTTTAAGTTGAATTGCTTTTCATTTTT
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAAT-GATTTTAAGTTGAATT-TTTTTCATTTTT
* * * * *
2310512 GGTTAAAACATATCATAATTTGATGTTTGCC-CTAAGAAACGTGAAGTGAAAGCCATCCATTGAG
64 AGTTAAAACATATCATAATTTGATGTTTGCCTC-GAGAAACATGAAGCGAAAGCCATCCATTGAC
* ** *
2310576 AAGAAAAGTCCATTTATAGTCACTCGTGTATTCGAAAG-CTTAG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTT-G
* *
2310619 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTGTTCATTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * ** *
2310684 TTAAAA-TTGATCATAATTGGATGTTTGCCTCGATAAACATGAAAC-AAAGTAATCCATTGAAAA
66 TTAAAACAT-ATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * * *
2310747 GAAAAGTTCATTTATAGTCACACATGCC-TTCAACAACCTTG
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAA-AGCCTTG
* * * * **
2310788 TTACTTGCTTTTAGTGGTTTTATAA-CTTTATAAATGATTTTGAA-CTG-ATTTTTTTTTTATTT
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTT-AAGTTGAATTTTTTTCAT-TTT
* * * * * * *
2310850 TAGGTTCAAACAGATCATAATTTGATGTTTGCATCGAGAAACGTGAAGCAAAAGCCATTCATTAA
63 TA-GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGA
* * * * * * * **
2310915 TAAAAAAAGTCTATTTATAGTCATTCATACCTTCGAGAGTTTTG
127 CAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * * * *
2310959 TTCCTTGCTGTAATTGGCTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTTC
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTCATTTTT-
* * * * * *
2311024 A-TTAAAACATATCGTAATTTGATGTTTGCATTGGGAAACGTGAAGTGAAAGCCATCCATTGACA
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * * * *
2311088 AGGAAAG-CTCATTTTTTA-TCACTCGTG-CATTGAAAAGTCTAG
129 AGAAAAGTC-CA-TTTATAGTCACTCATGCCTTTG-AAAGCCTTG
** * * * *
2311130 TTACTCATTTTAAATAGTTTTATAATCTTATAAATGATTTTAAGTTGACTTTTTTTCTTTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * * *
2311195 TTAAAAC-TAATCATAATTGGATGTTGGCTTCTAGAAACATGTAGCGAAAGCCATCGATTGACAA
66 TTAAAACAT-ATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * * ** * *
2311259 GAAAAGACCATTTATAATCACTCGTGTATTCGAAAGCCTAG
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * *
2311300 TTACTAGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTGTTCATTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * *
2311365 TTAAAAC-TGATCATAATTGGATGTTTGCCTCGATAAACATGAAACG-AAGCAATCCATTGAAAA
66 TTAAAACAT-ATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * *
2311428 GAAAAGTCCATTTATAGTCATTCATGCCTTCGACAA-CCATG
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGA-AAGCCTTG
* * * * * *
2311469 TTACTTGCTTTTAGTGGTTTTATAA-CTTTATAAATGATTTTAAGCTG-ATTTTTTTTATTTTAA
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTA
* * * * * *
2311532 GTTCAAATAGATCATAATTTGATGTTTGCATCGAGAAACATGAAGCAAAAGCTATCCATTGACAA
65 GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * * * * * *
2311597 GAAAAGTCTATTTATAGTCATTCATACCTTCGAGAGCTTTA
130 GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * * * *
2311638 TTCCTTGCTGTAATTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTCCATTTTTC
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTCATTTTT-
* * * * * *
2311703 A-TTAAAACATATCGTAATTTGATGTTTGCATTGGGAAACGTGAAGTGAAAGCCATCCATTGACA
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * *
2311767 AGAAAAGCCCATTTTTTA-TCACT-AGTG-CATTGAAAAGCCTAG
129 AGAAAAGTCCA-TTTATAGTCACTCA-TGCCTTTG-AAAGCCTTG
** * * *
2311809 TTACTCATTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTCCTTTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * * *
2311874 TTAAAAC-TAATCATAATTGGATGTTGGCTTTTG-GAAACATGCAGCGAAAGCCATCGATTGACA
66 TTAAAACAT-ATCATAATTTGATGTTTGC-CTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* ** * *
2311937 AGAAAAGACCATTTATAGTCACT-AGTGTATTCGAAAGCCTAG
129 AGAAAAGTCCATTTATAGTCACTCA-TGCCTTTGAAAGCCTTG
* * * * *
2311979 GTACTCGTTTTAAATGGTTTTATAATCTTATAAATAATTTTAAGTTGAATTTTGTTCATTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * * * * *
2312044 TTAAAA-TTGATCATAATTGGATGTTTGCCTCAATAAACGTGAAACG-AAGCAATCCATTGAAAA
66 TTAAAACAT-ATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAA
* *
2312107 GAAAAATCCATTTATAGTCACTCATG-CTTTCGACAA-CCGTG
130 GAAAAGTCCATTTATAGTCACTCATGCCTTT-GA-AAGCCTTG
* * ** * *
2312148 TTACTTGCTTTTAATGGTTTTATAA-CTTTATAAATGATTTTAAACTGATTTTTTTTTA-TTTTA
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTA
* * * * * *
2312211 GGTTCAAACAGATCATAATTTGATGTTTGCATCGAGAAACGTGAAGCAAAAGCTATCCATTGACA
65 -GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * * * ** *
2312276 AGAAAAGTCTATTTATAGTCATTCATACCTTCGAGAGATTTA
129 AGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * * *
2312318 TTCCTTGCTGTAATTGGTTTTATAACCTTATAAATAATTTTAAATTGAATTTGTTTTCATTTTTC
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT-TTTTCATTTTT-
* * * * * *
2312383 A-TTAAAACATATCGTAATTTGATGTTTGCATTGGGAAACGTGAAGTGAAAGCCATCCATTGACA
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * * *
2312447 AGAAAAGCCCATTTTTTTA-TCACTCGTG-CATTGAAAAGCCTAG
129 AGAAAAGTCCA--TTTATAGTCACTCATGCCTTTG-AAAGCCTTG
** * * *
2312490 TTACTCATTTTAAATGGTTTTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTCTTTTTTGG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
* * * * * *
2312555 TTAAAAC-TAATCATAATTGGATGTTGGCTTCTG-GAAACATGTAGCGAAAGCCATCGATTAACA
66 TTAAAACAT-ATCATAATTTGATGTTTGCCTC-GAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * *
2312618 AGAAATGACCATTTATAGTCACTCATGCTTTTGAAAGCCTTA
129 AGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* *
2312660 TTACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAGTT-AATTTTTTTTTCATTTTA
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA--TTTTTTTCATTTTT
* * * * * * * *
2312724 AGTTAAAACAGATCATAATTTAATATTTACATTGAGAAATC-TGAAGCGGAAGCCATGCATTGAC
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAA-CATGAAGCGAAAGCCATCCATTGAC
* * *
2312788 AAGAAAGGTCCATTTATAGTCACTCAT-ACTTTGAGAGCCTTG
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * *
2312830 TTAATCGCTTTAAATGGTTTTATAA-CTTTATAAATAATTTTGAA-TCGAATTTGTTTTCATTTT
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTT-AAGTTGAATTT-TTTTCATTTT
* * * * * * *
2312893 TTGTTCAAGCATATCATAATTTGATGTTTGCATTGCGAAACATGAAGCGAAAGCTATCCATTGAC
63 TAGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGAC
* * * * ** **
2312958 AA-AACAAATCTATTTATAGTCACTCGTGCATTCAAAAGCCTAA
128 AAGAA-AAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
*
2313001 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTGGTTTTCATTTTG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTT--TTTTCATTTTT
* ** * * *
2313066 A-TTACAACGGATCATAATTTGATGTTTGCCTC-ATGAATCATGTAGCAAAAGCCATCCATTGAC
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGA-GAAACATGAAGCGAAAGCCATCCATTGAC
* * * *
2313129 AAAAAAAAGTCCATTTACAATCACTCATGCCTTTGAAAGCCTTC
128 -AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * *
2313173 TTACTAGCCTTAAGTGGTTTTATAAAT-TTATAAAT-AGTTTTAAATTAAAATTTTTTTCA-TTG
1 TTACTCGCTTTAAATGGTTTTAT-AATCTTATAAATGA-TTTTAAGTT-GAATTTTTTTCATTTT
* * * * * *
2313235 TAGGTTGAAACAGATCATAATTTGATGTTTGTACT-GTGAAACATGAAGTGAAACCCATCCATTG
63 TA-GTTAAAACATATCATAATTTGATGTTTG-CCTCGAGAAACATGAAGCGAAAGCCATCCATTG
* *
2313299 ATAAGAAAAGTCCATTTATAGTCACTCAT-ACTTTCGAAAGCCTTG
126 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTT-GAAAGCCTTG
** * * * *
2313344 TTACTCGCTTTACGTTGTTTTATAATCATATAAATGATTTTAAGCT-ATTTTTTTTTCA-TTTTA
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGA-ATTTTTTTCATTTTTA
* * * * * *
2313407 GGTTAAAACAAATCATAATTTGATGTTTGCATTGGGAAACATGAAGTGAAAGTCATCCATTGACA
65 -GTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
* * * * *
2313472 AGACAAA-TACACTTATAGTCACTCATACCTTCGAGAGCCTTG
129 AGA-AAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * * *
2313514 TTATTTGCTTTAAGTGGTTTTATAA-CTTTATAAATAATTTTAAATTGAATATGTGTTCATTTTT
1 TTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAAT-TTTTTTCATTTTT
* * * * * * * *
2313578 TGTTCAAAGATATCATAATTTGATGTTTGCATTG-GGAACATGAAGTGAAAGCCATCCATTTACA
64 AGTTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACA
** * * *
2313642 AGAAAAGTCCATTTATAGTCACTTGTGCCTTTAAAAGACTAG
129 AGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * *
2313684 TTACTCACTTTAAATGTTTTTTTAATCTTGTAAATCATTTTAAGTTGAGTTTTTTTGCA-TTTT-
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTT-CATTTTTA
* * * * * ** * *
2313747 CTTATAACAGATAATAATTGGATGACTGCCTC-ATGAAATATGAAGCGAAAGCCATTCATT-ACA
65 GTTAAAACATATCATAATTTGATGTTTGCCTCGA-GAAACATGAAGCGAAAGCCATCCATTGACA
* * * * **
2313810 AGAAAAAGTCTATTTATTGTCACTCATGCCTGTCAAAGCCTAA
129 AG-AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
* * * * * ** *
2313853 TTACTCGTTTTAAATGGTTTTATAATCTCATAATTGACTTAAAGTTGAATTATTTTTCCCTTTTG
1 TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATT-TTTTTCATTTTTA
* * ** * *
2313918 GTTAAGACAAATCATAATAGGATTTTTGCCTTTG-GAAACATGAAG-GAAAAGCCATCCATTGAC
65 GTTAAAACATATCATAATTTGATGTTTGCC-TCGAGAAACATGAAGCG-AAAGCCATCCATTGAC
2313981 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAA
128 AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAA
2314018 TCGTTAAGTG
Statistics
Matches: 4262, Mismatches: 839, Indels: 353
0.78 0.15 0.06
Matches are distributed among these distances:
166 1 0.00
167 4 0.00
168 223 0.05
169 531 0.12
170 1176 0.28
171 1863 0.44
172 439 0.10
173 25 0.01
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (170 bp):
TTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTTTAG
TTAAAACATATCATAATTTGATGTTTGCCTCGAGAAACATGAAGCGAAAGCCATCCATTGACAAG
AAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCCTTG
Found at i:2316404 original size:63 final size:63
Alignment explanation
Indices: 2316333--2316457 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
2316323 AAAAACGGGG
2316333 CTAATGGGAAAGTGACAAATGGCACTTTTTAATGATTTAATATTATTTTAATGAAAAGTCAGC
1 CTAATGGGAAAGTGACAAATGGCACTTTTTAATGATTTAATATTATTTTAATGAAAAGTCAGC
*
2316396 CTAATGGGAAAGTGACAAATGGCACTTTTTAATGATTTAATATTATTTTAATGAAAATTCAG
1 CTAATGGGAAAGTGACAAATGGCACTTTTTAATGATTTAATATTATTTTAATGAAAAGTCAG
2316458 ACCATTTAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (63 bp):
CTAATGGGAAAGTGACAAATGGCACTTTTTAATGATTTAATATTATTTTAATGAAAAGTCAGC
Found at i:2319230 original size:171 final size:170
Alignment explanation
Indices: 2318577--2320224 Score: 1554
Period size: 171 Copynumber: 9.7 Consensus size: 170
2318567 GGTCGTGACA
* * * * *
2318577 TACTCGCTTTAAGTGGTTTTATAAAT-TTGTAAATGATTTTAAATTGAATTCTCTTTCTTTTTTT
1 TACTCGCTTTAAGTGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* ** * *
2318641 GTTAAAATAGGTCATAATTTGATGTTTGCATTAGGAAACATAAAGCGAAAGCCATCCATTGACAA
65 GTTAAAACATATCATAATTGGATGTTTGCATTA-GAAACATGAAGCGAAAGCCATCCATTGACAA
* * *
2318706 GAAAAGTCTATTTATAGTTACTCATGCCTACGAAAGCCTTGT
129 GAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * *
2318748 TACTCGCTTTAAGTGATTTTATAATCTCATAAATTATTTTAAATTGAATTTTTTTT-ATATTTGG
1 TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGG
* * *
2318812 CTAAAACAGATCATAATT-GATGTTTGCATTAGGAAACATGAAG-AAAATGCCATCCATTGACAA
66 TTAAAACATATCATAATTGGATGTTTGCATTA-GAAACATGAAGCGAAA-GCCATCCATTGACAA
* * * *
2318875 GAAAAGTCCATTTATAGTCACTCATACCTTCAAAAGCCTTGT
129 GAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * * * * *
2318917 TACTTGCTTTAAGTAGTTTTATAAAT-TTAAAAATAATTTTAAATTGAATATATTTGTCTTTTTT
1 TACTCGCTTTAAGTGGTTTTAT-AATCTTATAAATGATTTTAAATTGAAT-TTTTTTTCATTTTT
* * * * * * * *
2318981 TGTTAAAACAGATCACT-ATTTGATGTTTACATTGGGAAATATGAAGTGAAAGCCATCTATTGAC
64 GGTTAAAACATATCA-TAATTGGATGTTTGCATT-AGAAACATGAAGCGAAAGCCATCCATTGAC
*
2319045 AAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGTCC-AAT
127 AAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAG-CCTAGT
* *
2319089 TATTCGCTTT-AGATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTG
1 TACTCGCTTTAAG-TGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * *
2319153 GTTGAAACATATCATAATTGGATGTTTGCATCTAGAAACGTGAAGCGAAAGCCATTCC-TTGGCA
65 GTTAAAACATATCATAATTGGATGTTTGCAT-TAGAAACATGAAGCGAAAGCCA-TCCATTGACA
* * * *
2319217 AGAAAAGTCTATTTATAGGCACTCGTGCCTTTGAAACCCTAGT
128 AGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * * * **
2319260 TACTTGCTTTAAATGGTTTTTTAATCTGATAAACGATTTTATGTTGAATTTGTTTTTCATTTTTT
1 TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-TTTTTCA-TTTTT
* * * * * * *
2319325 AGTTAAAACATATAATAATTGGATGTTTGCCTCATGAAACATAAAGCAAAAAGCCATCTATTGAC
64 GGTTAAAACATATCATAATTGGATGTTTGCATTA-GAAACATGAAGC-GAAAGCCATCCATTGAC
* *
2319390 AAGAAAACTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAAT
127 AAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * * *
2319434 TACTCTCTTTAAATGGTTTTATAATCTTGTAAATGATTTTAAATTGAATATGTTTTTCATTTTTT
1 TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAAT-TTTTTTTCATTTTTG
* * * * * * *
2319499 GTTAAAATAGATCATAATTGCATGTTTGCCTCAAGAAACAAGAAGTGAAAGCCATCCATTGACAA
65 GTTAAAACATATCATAATTGGATGTTTGCAT-TAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * * * * **
2319564 GAAAAGTCCACTTATAGTCATTTATCCCTTTTAAAGCCTAAG-
129 GAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCT-AGT
* * * * * * *
2319606 TACTCACTTTAATTGATTGTATAATCATATAAATAATTTTAAGTT-AATTTTTTTT-A-TTTTGT
1 TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG-
* * * * * * *
2319668 GTTAAAACAAATCATAATTGGATGTTTTTCCTTGAGAAACATGAA-CTAAAAGCCAACCATTAAA
65 GTTAAAACATATCATAATTGGATG-TTTGCATT-AGAAACATGAAGC-GAAAGCCATCCATTGAC
* * * ** *
2319732 AAGAAAA-TTTAATTTATAGTCACTCATGCCCTCCAAAATCTTGT
127 AAGAAAAGTCT-ATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* *
2319776 TACTTGCTTTAAGTGGTTTTATAA-CTTTATAAATGATTTTAAATTG-ATTTTTTTTCATTTTTT
1 TACTCGCTTTAAGTGGTTTTATAATC-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * * *
2319839 GTTAAAACATAT-ATAGTTTGG-TATTTG----GGATACATGAAGCGAAAGCCATCCATTGACAA
65 GTTAAAACATATCATA-ATTGGATGTTTGCATTAGAAACATGAAGCGAAAGCCATCCATTGACAA
* * * *
2319898 GAAAAGTATATTTATAGTCACTAATGCTTTTGAAAGCCTAGT
129 GAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * * *
2319940 TACTCTCTTTAAATGGTTTTACT-ATCTTACT-AATGATTTTAAGTTTATTTTTTTTTCATTTTT
1 TACTCGCTTTAAGTGGTTTTA-TAATCTTA-TAAATGATTTTAAATTGAATTTTTTTTCATTTTT
* * * *
2320003 GGTTAAAACATATCATAATT-GAGTGTTTGCCTTAGAAAACGTGAAGCAAAATCCATCCATTGAC
64 GGTTAAAACATATCATAATTGGA-TGTTTGCATTAG-AAACATGAAGCGAAAGCCATCCATTGAC
* * * *
2320067 AAGAAAAGT-TCATTTATAGTCACTCATGCCTTCGCAGGACTTGT
127 AAGAAAAGTCT-ATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* ** *
2320111 TACTCGCTTTAAGTGCTTTTAT-GGCTTTATAAATGATTTTAAATTGAA-TTTTTTTCATTTTTC
1 TACTCGCTTTAAGTGGTTTTATAATC-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * * * * *
2320174 ATTAAAAACAAATCATAGTTTGATGTTTGCATTAGGAAACGTAAAGCGAAA
65 GTT-AAAACATATCATAATTGGATGTTTGCATTA-GAAACATGAAGCGAAA
2320225 ACCAGGTTAC
Statistics
Matches: 1206, Mismatches: 215, Indels: 112
0.79 0.14 0.07
Matches are distributed among these distances:
164 90 0.07
165 35 0.03
166 8 0.01
168 7 0.01
169 143 0.12
170 166 0.14
171 356 0.30
172 210 0.17
173 92 0.08
174 98 0.08
175 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (170 bp):
TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGG
TTAAAACATATCATAATTGGATGTTTGCATTAGAAACATGAAGCGAAAGCCATCCATTGACAAGA
AAAGTCTATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
Found at i:2319581 original size:517 final size:509
Alignment explanation
Indices: 2318577--2320224 Score: 1685
Period size: 517 Copynumber: 3.2 Consensus size: 509
2318567 GGTCGTGACA
* * * * *
2318577 TACTCGCTTTAAGTGGTTTTATAAAT-TTGTAAATGATTTTAAATTGAATTCTCTTTCTTTTTTT
1 TACTCGCTTTAAGTGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* ** *
2318641 GTTAAAATAGGTCATAATTTGATGTTTGCATTAGGAAACATAAAGCGAAAGCCATCCATTGACAA
65 GTTAAAACAAATCATAATTGGATGTTTGCATTAGGAAACATAAAGCGAAAGCCATCCATTGACAA
* * * * *
2318706 GAAAAGTCTATTTATAGTTACTCATGCCTACGAAAGCCTTGTTACTCGCTTTAAGTGATTTTATA
130 GAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAACCTTGTTACTTGCTTTAAGTGGTTTTATA
* * * * *
2318771 ATCTCATAAATTATTTTAAATTGAATTTTTTTT-ATATTTGGCTAAAACAGATCATAATT-GATG
195 ATCTCATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTTAAAACATAT-ATAATTGGATG
* *
2318834 TTTGCATTAGGAAACATGAAG-AAAATGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTC
259 TTTGC--TAGGAAACATGAAGCAAAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCACTC
* * * * * * *
2318898 ATACCTTCAAAAGCCTTGTTACT-TGCTTTAAGTAGTTTTATAAAT-TTAAAAATAATTTTAAAT
322 ATGCCTTCGAAAGCCTAGTTACTCT-CTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAAT
* * * * * ** *
2318961 TGAATATATTTGTCTTTTTTTGTTAAAACAGATCACTATTTGATGTTTACATTGGGAAATATGAA
385 TGAATATATTTTTCATTTTTTGTTAAAACAGATCA-TAATTGATGTTTGC-CTAAGAAACATGAA
* *
2319026 GTGAAAGCCATCTATTGACAAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAGTCCAAT
448 GTGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAG-CCAAT
* *
2319089 TATTCGCTTT-AGATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTG
1 TACTCGCTTTAAG-TGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * * * *
2319153 GTTGAAACATATCATAATTGGATGTTTGCATCTA-GAAACGTGAAGCGAAAGCCATTCC-TTGGC
65 GTTAAAACAAATCATAATTGGATGTTTGCAT-TAGGAAACATAAAGCGAAAGCCA-TCCATTGAC
* * * * * * *
2319216 AAGAAAAGTCTATTTATAGGCACTCGTGCCTTTGAAACCCTAGTTACTTGCTTTAAATGGTTTTT
128 AAGAAAAGTCTATTTATAGTCACTCATGCCTTCGAAAACCTTGTTACTTGCTTTAAGTGGTTTTA
* * **
2319281 TAATCTGATAAACGATTTTATGTTGAATTTGTTTTTCATTTTTTAGTTAAAACATATAATAATTG
193 TAATCTCATAAATGATTTTAAATTGAATTT-TTTTTCATTTTTT-GTTAAAACATAT-ATAATTG
* * * *
2319346 GATGTTTGCCTCATGAAACATAAAGCAAAAAGCCATCTATTGACAAGAAAACTCTATTTATAGTC
255 GATGTTTG-CT-AGGAAACATGAAGCAAAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTC
* *
2319411 ACTCATGCCTTCGAAAGCCTAATTACTCTCTTTAAATGGTTTTATAATCTTGTAAATGATTTTAA
318 ACTCATGCCTTCGAAAGCCTAGTTACTCTCTTTAAATGGTTTTATAATCTTATAAATGATTTTAA
* * *
2319476 ATTGAATATGTTTTTCATTTTTTGTTAAAATAGATCATAATTGCATGTTTGCCTCAAGAAACAAG
383 ATTGAATATATTTTTCATTTTTTGTTAAAACAGATCATAATTG-ATGTTTGCCT-AAGAAACATG
* * * * ** *
2319541 AAGTGAAAGCCATCCATTGACAAGAAAAGTCCACTTATAGTCATTTATCCCTTTTAAAGCCTAAG
446 AAGTGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCC-AAT
* * * * * * *
2319606 TACTCACTTTAATTGATTGTATAATCATATAAATAATTTTAAGTT-AATTTTTTTT-A-TTTTGT
1 TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG-
* * * * * *
2319668 GTTAAAACAAATCATAATTGGATGTTTTTCCTT-GAGAAACATGAA-CTAAAAGCCAACCATTAA
65 GTTAAAACAAATCATAATTGGATG-TTTGCATTAG-GAAACATAAAGC-GAAAGCCATCCATTGA
* * * * *
2319731 AAAGAAAA-TTTAATTTATAGTCACTCATGCCCTCCAAAATCTTGTTACTTGCTTTAAGTGGTTT
127 CAAGAAAAGTCT-ATTTATAGTCACTCATGCCTTCGAAAACCTTGTTACTTGCTTTAAGTGGTTT
* *
2319795 TATAA-CTTTATAAATGATTTTAAATTG-ATTTTTTTTCATTTTTTGTTAAAACATATATAGTTT
191 TATAATC-TCATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTTAAAACATATATA-ATT
* * * *
2319858 GG-TATTTG---GGATACATGAAGC-GAAAGCCATCCATTGACAAGAAAAGTATATTTATAGTCA
254 GGATGTTTGCTAGGAAACATGAAGCAAAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCA
* * *
2319918 CTAATGCTTTTGAAAGCCTAGTTACTCTCTTTAAATGGTTTTACT-ATCTTACT-AATGATTTTA
319 CTCATGCCTTCGAAAGCCTAGTTACTCTCTTTAAATGGTTTTA-TAATCTTA-TAAATGATTTTA
* * * * * * * *
2319981 AGTT-TATTTTTTTTTCATTTTTGGTTAAAACATATCATAATTGAGTGTTTGCCTTAGAAAACGT
382 AATTGAATATATTTTTCATTTTTTGTTAAAACAGATCATAATTGA-TGTTTGCCTAAG-AAACAT
** * * * * ***
2320045 GAAGCAAAATCCATCCATTGACAAGAAAAGTTCATTTATAGTCACTCATGCCTTCGCAGGACTTG
445 GAAGTGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAG-CCAA
2320110 T
509 T
* ** *
2320111 TACTCGCTTTAAGTGCTTTTAT-GGCTTTATAAATGATTTTAAATTGAA-TTTTTTTCATTTTTC
1 TACTCGCTTTAAGTGGTTTTATAATC-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * * *
2320174 ATTAAAAACAAATCATAGTTTGATGTTTGCATTAGGAAACGTAAAGCGAAA
65 GTT-AAAACAAATCATAATTGGATGTTTGCATTAGGAAACATAAAGCGAAA
2320225 ACCAGGTTAC
Statistics
Matches: 937, Mismatches: 161, Indels: 82
0.79 0.14 0.07
Matches are distributed among these distances:
504 4 0.00
505 135 0.14
506 115 0.12
507 37 0.04
511 5 0.01
512 185 0.20
513 26 0.03
514 23 0.02
515 51 0.05
516 133 0.14
517 221 0.24
518 2 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (509 bp):
TACTCGCTTTAAGTGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGG
TTAAAACAAATCATAATTGGATGTTTGCATTAGGAAACATAAAGCGAAAGCCATCCATTGACAAG
AAAAGTCTATTTATAGTCACTCATGCCTTCGAAAACCTTGTTACTTGCTTTAAGTGGTTTTATAA
TCTCATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTTAAAACATATATAATTGGATGTT
TGCTAGGAAACATGAAGCAAAAAGCCATCCATTGACAAGAAAAGTCTATTTATAGTCACTCATGC
CTTCGAAAGCCTAGTTACTCTCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATA
TATTTTTCATTTTTTGTTAAAACAGATCATAATTGATGTTTGCCTAAGAAACATGAAGTGAAAGC
CATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCAAT
Found at i:2323662 original size:171 final size:169
Alignment explanation
Indices: 2323285--2324716 Score: 1225
Period size: 171 Copynumber: 8.4 Consensus size: 169
2323275 AAAAATGTGC
* * * ** *
2323285 AGCGAAAGTCATCCATTGACAAGAAAAGTCCATTTAT-GATCACCCATGCCTTTTAAAGCCTTGT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAG-TCACTCATGCCTTCGAAAGCCTAGT
* * * * * *
2323349 TACTCATTTTATGA-GGTTTTATAGCTTTATATATGTTTTTGAATTGAATTTTTTTTCATTTTTC
65 TACTCACTTTA-AATGGTTTTATA--TTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTG
* * *
2323413 GTTATAAACATATCATAATTTGATGTTTGCATTGGGAAACGTGA
127 GTTA-AAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* * * * * * *
2323457 AACGAAAGCCATCAATTGACAAGAATAGTCCATTTATAGTCACTCATACCTTCAAAAGACTAGTT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
* * * ** *
2323522 ACTTACTTTAAATGGTTTCATATTCCTATAAAGGATTTTACGTTGAATTCTTTTTCATTTTTGGT
66 ACTCACTTTAAATGGTTTTATATT--TATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGT
* * * *
2323587 TAAAATAGAACATAATTGGATGTTGGCATCAGGAAACGTGA
129 TAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* * * * * * * *
2323628 AGTGAAAGCCATCTATTGATAAGAGAACTCCATTTTTAGTCATTCATGCCTTCGATAGCTTAGTT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
* * * * *
2323693 ACTCGCTTGAAATGGTTTTATAATCTTATAAAGGATTTTAAGTTGAATTTTTTTCTCATTTTTTC
66 ACTCACTTTAAATGGTTTTAT-AT-TTATAAATGATTTTAAATTGAATTTTTTT-TCA-TTTTTG
* * * * *
2323758 G-TAAAACAAATTAGAAATTGGACGTTTGCATTAGGAAACATGA
127 GTTAAAACAGATCA-TAATTGGATGTTTGCATTAGGAAACGTGA
* * * * * * * *
2323801 AACGTAAGCCATCCAAAT-ATAAGAAAAGTCCATTTATAGTCATTAATACCTTCAAAAGCCTTGT
1 AGCGAAAGCCATCC-ATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
* * * * *
2323865 TACTCACTTTCAGTGGTTTTAGAAATTTAGAAATGATTTTAAATTG-ATTTTTTTTCATTTTAGG
65 TACTCACTTTAAATGGTTTT--ATATTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGG
* * * *
2323929 TTAAAATAGATCATAATTTGATGTTTTCATTTGGAAACGTGA
128 TTAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* * * * * * *
2323971 AGCGAAAACCATTCATTGATAAAAAAAAAGTCCTTTTCTACTCA-TGCATGCCTTCGAAACCCTA
1 AGCGAAAGCCATCCATTGAT--AAGAAAAGTCCATTTATAGTCACT-CATGCCTTCGAAAGCCTA
* * * * *
2324035 GTTACTCTCTTAAAATGATTTCATAATCTCATAAATGATTTTAAATTGAATTTTTTTTCATTTTT
63 GTTACTCACTTTAAATGGTTTTAT-AT-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTT
* *
2324100 TGTTAAAATC-GATCATAATTGGATGTTTGCCTTAGGAAACGTGA
126 GGTTAAAA-CAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* * * * * * * *
2324144 AGTGTAAGACACCCATTGACAAGAAAAGTCCATTTATAGTTATTGATGCCTTCGAAAGCCTAGTT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
* * * * * * * ***
2324209 ACACACCTTAAGTAGTTTTATAACTTTATAAATAATTTTAAATT-TATTTTGTTT-ATTTTACAT
66 ACTCACTTTAAATGGTTTTAT-A-TTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGT
* * * * * *
2324272 CAAAACAGATCACAATTTGATGTTTTCATTTGGAAAGGTGA
129 TAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* * * *
2324313 AGCAAAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCACTTATGCCTTCGATAGCCTAGTT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
* * ** * **
2324378 ACTCGCTTTAAATGGTTTTATAATCTTAGAAATGATTTTAGGTTGAA-TTTTTCTCATTTTTGCA
66 ACTCACTTTAAATGGTTTTAT-AT-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGT
* * * * * *
2324442 TAAAGCAAATAAGAAATTGGATGTTTGCA-TCGAGAAGCGTGA
129 TAAAACAGATCA-TAATTGGATGTTTGCATTAG-GAAACGTGA
* * * * ** *
2324484 AACGTAAGCCATCTATTGATAAGAAAAGTCCATTTATAGTCACTAATATCTTCGAAAGCCTTGTT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
* * * * * *
2324549 AGTCACTTTCAATTGTTTTATAAATTTAGAAATGATTTTAAATT-TA-TTTTTTTCATTTTAGGT
66 ACTCACTTTAAATGGTTTTAT--ATTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGT
* * * * * *
2324612 TAAAACATATCATAATTTGATCTTTGTATCAGAAAACGTGA
129 TAAAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
* *
2324653 AGTGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
1 AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
2324717 GTCATAGCCC
Statistics
Matches: 993, Mismatches: 236, Indels: 65
0.77 0.18 0.05
Matches are distributed among these distances:
168 2 0.00
169 206 0.21
170 91 0.09
171 319 0.32
172 193 0.19
173 177 0.18
174 4 0.00
175 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (169 bp):
AGCGAAAGCCATCCATTGATAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGTT
ACTCACTTTAAATGGTTTTATATTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGTTA
AAACAGATCATAATTGGATGTTTGCATTAGGAAACGTGA
Found at i:2324426 original size:340 final size:339
Alignment explanation
Indices: 2323289--2324716 Score: 1344
Period size: 340 Copynumber: 4.2 Consensus size: 339
2323279 ATGTGCAGCG
* * * * ** *
2323289 AAAGTCATCCATTGACAAGAAAAGTCCATTTAT-GATCACCCATGCCTTTTAAAGCCTTGTTACT
1 AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAG-TCA-TCATGCCTTCGAAAGCCTAGTTACT
** ** * * * *
2323353 CATTTTATGA-GGTTTTAT-AGCTTTATATATGTTTTTGAA-TTGAATTTTTTTTCATTTTTCGT
64 C-GCTTAAAATGGTTTTATAATC-TTATAAATGATTTT-AAGTTGAATTTTTTTTCATTTTTTG-
* * * * * * * * *
2323415 TATAAACATATCA-TAATTTGATGTTTGCATTGGGAAACGTGAAACGAAAGCCATCAATTGACAA
125 TA-AAACAAATAAGAAATTGGATGTTTGCCTTAGGAAACGTGAAACGTAAGCCACCAATTGATAA
* * * * * * * * * *
2323479 GAATAGTCCATTTATAGTCACTCATACCTTCAAAAGACTAGTTACTTACTTTAAATGGTTTCAT-
189 GAAAAGTCCATTTATAGTCATTAATACCTTCGAAAGCCTTGTTACTCACTTTAAGTAGTTTTATA
* * ** * * * * *
2323543 -ATTCCTATAAAGGATTTTACGTTGAATTCTTTTTCATTTTTGGTTAAAATAGAACATAATTGGA
254 AATT--TAGAAATGATTTTAAATT-TATT-TTTTTCATTTTAGGTTAAAACAGATCATAATTTGA
** ** **
2323607 TGTTGGCATCAGGAAACGTGAAGTG
315 TGTTTTCATTTGGAAACGTGAAGCA
* * * * *
2323632 AAAGCCATCTATTGATAAGAGAACTCCATTTTTAGTCATTCATGCCTTCGATAGCTTAGTTACTC
1 AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCA-TCATGCCTTCGAAAGCCTAGTTACTC
* *
2323697 GCTTGAAATGGTTTTATAATCTTATAAAGGATTTTAAGTTGAATTTTTTTCTCATTTTTTCGTAA
65 GCTTAAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTT-TCATTTTTT-GTAA
* * * * *
2323762 AACAAATTAGAAATTGGACGTTTGCATTAGGAAACATGAAACGTAAGCCATCCAAAT-ATAAGAA
128 AACAAATAAGAAATTGGATGTTTGCCTTAGGAAACGTGAAACGTAAGCCA-CCAATTGATAAGAA
* * * *
2323826 AAGTCCATTTATAGTCATTAATACCTTCAAAAGCCTTGTTACTCACTTTCAGTGGTTTTAGAAAT
192 AAGTCCATTTATAGTCATTAATACCTTCGAAAGCCTTGTTACTCACTTTAAGTAGTTTTATAAAT
* *
2323891 TTAGAAATGATTTTAAATTGATTTTTTTTCATTTTAGGTTAAAATAGATCATAATTTGATGTTTT
257 TTAGAAATGATTTTAAATTTA-TTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTT
2323956 CATTTGGAAACGTGAAGCGA
321 CATTTGGAAACGTGAAGC-A
* * * *
2323976 AAA-CCATTCATTGATAAAAAAAAAGTCC-TTTTCTACTCATGCATGCCTTCGAAACCCTAGTTA
1 AAAGCCATCCATTGAT--AAGAAAAGTCCATTTT-TAGTCAT-CATGCCTTCGAAAGCCTAGTTA
* * * * *
2324039 CTCTCTTAAAATGATTTCATAATCTCATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTT
62 CTCGCTTAAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTTG-T
* * * ** * * *
2324104 AAAATC-GATCA-TAATTGGATGTTTGCCTTAGGAAACGTGAAGTGTAAGACACCCATTGACAAG
126 AAAA-CAAATAAGAAATTGGATGTTTGCCTTAGGAAACGTGAAACGTAAGCCACCAATTGATAAG
* * * * * *
2324167 AAAAGTCCATTTATAGTTATTGATGCCTTCGAAAGCCTAGTTACACACCTTAAGTAGTTTTATAA
190 AAAAGTCCATTTATAGTCATTAATACCTTCGAAAGCCTTGTTACTCACTTTAAGTAGTTTTATAA
* * * ** * *
2324232 CTTTATAAATAATTTTAAATTTATTTTGTTT-ATTTTACATCAAAACAGATCACAATTTGATGTT
255 ATTTAGAAATGATTTTAAATTTATTTT-TTTCATTTTAGGTTAAAACAGATCATAATTTGATGTT
*
2324296 TTCATTTGGAAAGGTGAAGCA
319 TTCATTTGGAAACGTGAAGCA
* *
2324317 AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCACTTATGCCTTCGATAGCCTAGTTACTC
1 AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCA-TCATGCCTTCGAAAGCCTAGTTACTC
* * * *
2324382 GCTTTAAATGGTTTTATAATCTTAGAAATGATTTTAGGTTGAA-TTTTTCTCA-TTTTTGCATAA
65 GCTTAAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTTG--TAA
* * * * * *
2324445 AGCAAATAAGAAATTGGATGTTTG-CATCGAGAAGCGTGAAACGTAAGCCATCTATTGATAAGAA
128 AACAAATAAGAAATTGGATGTTTGCCTTAG-GAAACGTGAAACGTAAGCCACCAATTGATAAGAA
* * * *
2324509 AAGTCCATTTATAGTCACTAATATCTTCGAAAGCCTTGTTAGTCACTTTCAA-TTGTTTTATAAA
192 AAGTCCATTTATAGTCATTAATACCTTCGAAAGCCTTGTTACTCACTTT-AAGTAGTTTTATAAA
* *
2324573 TTTAGAAATGATTTTAAATTTATTTTTTTCATTTTAGGTTAAAACATATCATAATTTGATCTTTG
256 TTTAGAAATGATTTTAAATTTATTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTT-
** * **
2324638 T-ATCAGAAAACGTGAAGTG
320 TCATTTGGAAACGTGAAGCA
* *
2324657 AAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAGT
1 AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCA-TCATGCCTTCGAAAGCCTAGT
2324717 GTCATAGCCC
Statistics
Matches: 891, Mismatches: 164, Indels: 63
0.80 0.15 0.06
Matches are distributed among these distances:
338 7 0.01
339 21 0.02
340 282 0.32
341 12 0.01
342 71 0.08
343 266 0.30
344 145 0.16
345 84 0.09
346 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (339 bp):
AAAGCCATCCATTGATAAGAAAAGTCCATTTTTAGTCATCATGCCTTCGAAAGCCTAGTTACTCG
CTTAAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTTCATTTTTTGTAAAAC
AAATAAGAAATTGGATGTTTGCCTTAGGAAACGTGAAACGTAAGCCACCAATTGATAAGAAAAGT
CCATTTATAGTCATTAATACCTTCGAAAGCCTTGTTACTCACTTTAAGTAGTTTTATAAATTTAG
AAATGATTTTAAATTTATTTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTTCATTT
GGAAACGTGAAGCA
Found at i:2325669 original size:63 final size:63
Alignment explanation
Indices: 2325566--2325790 Score: 353
Period size: 63 Copynumber: 3.6 Consensus size: 63
2325556 ACATCATAGT
* *
2325566 CGGCATGTGCACTGCCCACTCCGCACATGCAC-GATTGTAATTCTCACAACATTGTCATTAAAC
1 CGGCATGTGCACTGCCCACTCCGCACATGCACAG-TTGTAATTGTCACAACATTGTCATTCAAC
* * *
2325629 CGGCATGTGCACTGCCCACTCTGCACATTCACAGTCGTAATTGTCACAACATTGTCATTCAAC
1 CGGCATGTGCACTGCCCACTCCGCACATGCACAGTTGTAATTGTCACAACATTGTCATTCAAC
* * *
2325692 CGGCATGTGCACTGCCCACTCCCCACATGCACGGTTGTAATAGTCACAACATTGTCATTCAAC
1 CGGCATGTGCACTGCCCACTCCGCACATGCACAGTTGTAATTGTCACAACATTGTCATTCAAC
*
2325755 CGGCATGTGCACTGCCCACTCCACACATGCACAGTT
1 CGGCATGTGCACTGCCCACTCCGCACATGCACAGTT
2325791 ACATCAATTA
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
63 147 0.99
64 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (63 bp):
CGGCATGTGCACTGCCCACTCCGCACATGCACAGTTGTAATTGTCACAACATTGTCATTCAAC
Found at i:2328015 original size:172 final size:169
Alignment explanation
Indices: 2327732--2328041 Score: 396
Period size: 172 Copynumber: 1.8 Consensus size: 169
2327722 TAGATGGTTT
* **
2327732 TATAATCCCATAATTGATTTTAAGTATTTTTTTTTAATTTTTGGTTAAAACAACTCATAATTTGA
1 TATAATCCCATAAATGATTTTAAGTATTTTTTTTTAATTTTTCATTAAAACAACTCATAATTTGA
* * * * *
2327797 TGTTTGTATTGGGAAACATGACACGAAAGACGTCCATTGAAAAGAAAAGTCCACTTATAGTCACT
66 TGTTTGCATTGGAAAACATGACACCAAAGACATCCATTGAAAAGAAAAGTCAACTTATAGTCACT
*
2327862 CATGCCTTTTAAAGCCTAAGTATTTACTTTAAATGATAG
131 CAAGCCTTTTAAAGCCTAAGTATTTACTTTAAATGATAG
* *
2327901 TATAATCTCATAAATGATTTTAAGT-TGGGTTTGTTTTTCATTTTTCATTAAAACAGA-TCATAA
1 TATAATCCCATAAATGATTTTAAGTAT---TTT-TTTTTAATTTTTCATTAAAACA-ACTCATAA
* *
2327964 -TTGAATGTTTGCCTTGGAAAACATGA-ACCAAA-ACCCATCCATTGAAAAGAAAAGTCAATTTA
61 TTTG-ATGTTTGCATTGGAAAACATGACACCAAAGA--CATCCATTGAAAAGAAAAGTCAACTTA
2328026 TAGTCACTCAAGCCTT
123 TAGTCACTCAAGCCTT
2328042 CGAAAGGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
168 1 0.01
169 23 0.19
170 1 0.01
171 11 0.09
172 83 0.69
173 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (169 bp):
TATAATCCCATAAATGATTTTAAGTATTTTTTTTTAATTTTTCATTAAAACAACTCATAATTTGA
TGTTTGCATTGGAAAACATGACACCAAAGACATCCATTGAAAAGAAAAGTCAACTTATAGTCACT
CAAGCCTTTTAAAGCCTAAGTATTTACTTTAAATGATAG
Found at i:2328703 original size:171 final size:171
Alignment explanation
Indices: 2327759--2328698 Score: 769
Period size: 171 Copynumber: 5.5 Consensus size: 171
2327749 TTTTAAGTAT
* * * *
2327759 TTTTTTTTAATTTTTGGTTAAAACA-ACTCATAATTTGATGTTTGTAT-TGGGAAACATGACA-C
1 TTTTTTTTCATTTTAGGTTAAAACATA-TCATAATTTGATGTTTGCATCT-AGAAACATGA-AGC
* * * * * ** * *
2327821 GAAAGACGTCCATTGAAAAGAAAAGTCCACTTATAGTCACTCATGCCTTTTAAAGCCTAAG-TAT
63 GAAAGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCT-TGTTAC
** * ** * * * **
2327885 TTACTTTAA-ATGATAGTAT-AATCTCATAAATGATTTTAAGTTGGG
127 TCGCTTTAAGA-GGTTTTATAAAT-TTAGAAATGATTTTAAATTGAA
*** * * * *
2327930 TTTGTTTTTCATTTTTCATTAAAACAGATCATAA-TTGAATGTTTGCCT-TGGAAAACATGAACC
1 TTT-TTTTTCATTTTAGGTTAAAACATATCATAATTTG-ATGTTTGCATCTAG-AAACATGAAGC
* * * *
2327993 AAAACCCATCCATTGAAAAGAAAAGTCAATTTATAGTCACTCA-AGCCTTCGAAAGGCTTGTTAC
63 GAAAGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATA-CCTTCGAAAGCCTTGTTAC
* * * * * *
2328057 TTGATTTAAGTA-GTTTTATAACTTTATAAATGATTTCAAATTAAA
127 TCGCTTTAAG-AGGTTTTATAAATTTAGAAATGATTTTAAATTGAA
** * * * * *
2328102 TTTTTTTTCATTTTACATCAAAA-TTGATCATAATTTGATGTTTCCATTTCA-AATCATGAAGCG
1 TTTTTTTTCATTTTAGGTTAAAACAT-ATCATAATTTGATGTTTGCATCT-AGAAACATGAAGCG
* ** * * * * * * * *
2328165 AAAGCTATCTGTTGACAAGAAAAGTCCATTTATAGTCAATCATGCCTTAGATAGCATAGTTACTC
64 AAAGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCTTGTTACTC
* * * * *
2328230 GCTTGAA-ATAGTTTTAT-AATCTTATAAAGGATTTTAAGTTGAA
129 GCTTTAAGA-GGTTTTATAAAT-TTAGAAATGATTTTAAATTGAA
* * ** * * * *
2328273 TTTTTTCTCATTTTTGCATAAAACAAATCATAATTGGATGTTTGTATCAAGAAACATGAAGCGAA
1 TTTTTTTTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATCTAGAAACATGAAGCGAA
* * * * * * *
2328338 ACCCATCCATTGATAAGAAAAATCTATTTATAGTCATTGATACCTTTGAAAGCCTTATTACTCGC
66 AGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCTTGTTACTCGC
* * *
2328403 TTTAAGTGATTTTATAAATTTAGAAATGATTTTGAATTGAA
131 TTTAAGAGGTTTTATAAATTTAGAAATGATTTTAAATTGAA
* * * * *
2328444 GTGTTTTTCATTTTAGGTTAAAACAGATCATAATTTGATGTTTGCATATAGAAACATTAAGCGAA
1 TTTTTTTTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATCTAGAAACATGAAGCGAA
* * * *
2328509 AGCCATCCATTCATAAGAAATGTCTATTTATAGTCACTTATACCTTCGAAAGCCTTGTTACTCGC
66 AGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCTTGTTACTCGC
2328574 TTTAAGAGGTTTTATAAATTTAGAAATGATTTTAAATTG-A
131 TTTAAGAGGTTTTATAAATTTAGAAATGATTTTAAATTGAA
* * ** *
2328614 TTTTTTTTCATTTTAGGTTAAAATATATCATAATTTGATTTTTGCATCGGGAGACATGAAGCGAA
1 TTTTTTTTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATCTAGAAACATGAAGCGAA
*
2328679 AGCTAT-CATTGAAAAGAAAA
66 AGCCATCCATTGAAAAGAAAA
2328699 ATGTCATGAC
Statistics
Matches: 613, Mismatches: 134, Indels: 46
0.77 0.17 0.06
Matches are distributed among these distances:
169 12 0.02
170 64 0.10
171 404 0.66
172 129 0.21
173 3 0.00
174 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (171 bp):
TTTTTTTTCATTTTAGGTTAAAACATATCATAATTTGATGTTTGCATCTAGAAACATGAAGCGAA
AGCCATCCATTGAAAAGAAAAGTCTATTTATAGTCACTCATACCTTCGAAAGCCTTGTTACTCGC
TTTAAGAGGTTTTATAAATTTAGAAATGATTTTAAATTGAA
Found at i:2332881 original size:40 final size:38
Alignment explanation
Indices: 2332837--2332939 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
2332827 CCACAGCTCA
* *
2332837 TGTGCATCCCCCCACATCGTGCACATAGCTGGA-GTCATCG
1 TGTGCATCCCCCCACATCGTGCACAT--CT-AATGCCATCG
** *
2332877 TGTGCATCCCTTCACATCGTGCACATCTAATGCCGTCG
1 TGTGCATCCCCCCACATCGTGCACATCTAATGCCATCG
*
2332915 TGTACATCCCCCCACATCGTGCACA
1 TGTGCATCCCCCCACATCGTGCACA
2332940 CGAGCAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.02
38 29 0.54
40 24 0.44
ACGTcount: A:0.20, C:0.37, G:0.18, T:0.24
Consensus pattern (38 bp):
TGTGCATCCCCCCACATCGTGCACATCTAATGCCATCG
Found at i:2335421 original size:30 final size:30
Alignment explanation
Indices: 2335385--2335450 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
2335375 CTCTATCAGA
*
2335385 TACTATAGAAATGGGGATACCATGCAGCCG
1 TACTATAGAAATAGGGATACCATGCAGCCG
2335415 TACTATAGAAATAGGGATACCATGCAGCCG
1 TACTATAGAAATAGGGATACCATGCAGCCG
*
2335445 CACTAT
1 TACTAT
2335451 CTCATCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (30 bp):
TACTATAGAAATAGGGATACCATGCAGCCG
Found at i:2345250 original size:21 final size:21
Alignment explanation
Indices: 2345206--2345262 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
2345196 CTTTCTAGTT
*
2345206 TTTCTTCTTTTTTTCTCTCCCC
1 TTTCTT-TTTCTTTCTCTCCCC
* *
2345228 TTTCTTTTTCTTTCTTTCTCC
1 TTTCTTTTTCTTTCTCTCCCC
2345249 TTTCTTTATTCTTT
1 TTTCTTT-TTCTTT
2345263 TTGCTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTCTTTTTCTTTCTCTCCCC
Found at i:2351252 original size:13 final size:13
Alignment explanation
Indices: 2351234--2351258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2351224 ATTTTCAAAA
2351234 ATTTTATAAAATT
1 ATTTTATAAAATT
2351247 ATTTTATAAAAT
1 ATTTTATAAAAT
2351259 CCCATTTTCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:2367565 original size:194 final size:195
Alignment explanation
Indices: 2367320--2367700 Score: 561
Period size: 194 Copynumber: 2.0 Consensus size: 195
2367310 GAGTAAAAGG
* *
2367320 CAAAGTGTTGTTATGAAGCTGGCGATGTTAATGCAGCTCAACCTATTTAATAATTTATGTTAACT
1 CAAAGTGTTGTTAAGAAGCTGGCGATGTTAATGCAGCTCAACCTATTTAATAATTTATGTAAACT
* *
2367385 GTTATGTTACTCAAAGGCATGTTTGAGTTAGCAGG-GGGGCAATGT-GGGGGTGAGAAGGATTGA
66 ATTATGTTACTCAAAGGCATGCTTGAGTTAG-AGGAGGGG-AATGTGGGGGGTGAGAAGGATTGA
* *
2367448 ATACCAAGTTAAATGCCAGAACTT-TAAAATTACATTTGTTAAATATGTAGTTTTACTCTAGAGT
129 ATACCAAGTTAAATGCCAGAACTTATAAAATTACATTTGTTAAATATATAGTTTGACTCTAGAGT
2367512 AA
194 AA
* * * *
2367514 CAAAGTGTTGTTAAGAAGCTGGTGGTGTTAATGCAGCTCTACCTGTTTAATAATTTATGTAAACT
1 CAAAGTGTTGTTAAGAAGCTGGCGATGTTAATGCAGCTCAACCTATTTAATAATTTATGTAAACT
* * * * * *
2367579 ATTGTGTTATTCAAAGGCATGCTTGAGTTAGTGGAGGGGACTGTGGGGGGTGAGAGGGATTGAGT
66 ATTATGTTACTCAAAGGCATGCTTGAGTTAGAGGAGGGGAATGTGGGGGGTGAGAAGGATTGAAT
* *
2367644 ACTAAGTTAAATGCCAGAAGTTATAAAATTACATTTGTTAAATATATAGTTTGACTC
131 ACCAAGTTAAATGCCAGAACTTATAAAATTACATTTGTTAAATATATAGTTTGACTC
2367701 CAGATATGGA
Statistics
Matches: 166, Mismatches: 18, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
193 6 0.04
194 128 0.77
195 32 0.19
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (195 bp):
CAAAGTGTTGTTAAGAAGCTGGCGATGTTAATGCAGCTCAACCTATTTAATAATTTATGTAAACT
ATTATGTTACTCAAAGGCATGCTTGAGTTAGAGGAGGGGAATGTGGGGGGTGAGAAGGATTGAAT
ACCAAGTTAAATGCCAGAACTTATAAAATTACATTTGTTAAATATATAGTTTGACTCTAGAGTAA
Found at i:2368823 original size:102 final size:101
Alignment explanation
Indices: 2368642--2368845 Score: 257
Period size: 102 Copynumber: 2.0 Consensus size: 101
2368632 TAATCATAGA
* * ** * *
2368642 TAATTTGTGATCTACTGATCTCTGTTACGTGTACTTGTGTTTTCTAGGATAACAGAACTTTAGCA
1 TAATTTGTGATCTACTGATATCTGTTACATGTACTTGCATTTTCCAAGATAACAGAACTTTAGCA
* *
2368707 ACTGATTCTCTTTTGTCCATGACTCTAATCCATCTT
66 ACTCATTCTCTTTTGTCCATGACTCTAAGCCATCTT
* * *
2368743 TAATTTGTGATCTACTGATATGTGTTACATGTTACTTGCATTTTCCAAGATAATAGAACTTTCGC
1 TAATTTGTGATCTACTGATATCTGTTACATG-TACTTGCATTTTCCAAGATAACAGAACTTTAGC
* * *
2368808 AACTCATTC-CATTTTGTCCTTGTCTCTGAGCCATCTT
65 AACTCATTCTC-TTTTGTCCATGACTCTAAGCCATCTT
2368845 T
1 T
2368846 TGTGTAAACT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
101 29 0.33
102 58 0.67
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (101 bp):
TAATTTGTGATCTACTGATATCTGTTACATGTACTTGCATTTTCCAAGATAACAGAACTTTAGCA
ACTCATTCTCTTTTGTCCATGACTCTAAGCCATCTT
Found at i:2374056 original size:21 final size:19
Alignment explanation
Indices: 2373999--2374056 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
2373989 AAGTCTTCTT
*
2373999 TTTATTTTTCAAAATTTAA
1 TTTATTTTTCATAATTTAA
*
2374018 TATTATTTTT-TTATATTTCAAA
1 T-TTATTTTTCATA-ATTT--AA
2374040 TTTATTTTTCATAATTT
1 TTTATTTTTCATAATTT
2374057 TTTACCTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 12 0.39
22 5 0.16
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTATTTTTCATAATTTAA
Found at i:2374729 original size:28 final size:30
Alignment explanation
Indices: 2374689--2374763 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 30
2374679 ATACAGTGTC
* * *
2374689 TTTTTAAGGTTCAAGCATTAC-CAT-TGCA
1 TTTTCAAGATTCAAGCATAACTCATATGCA
* *
2374717 TTTTCAAGATTCAAGCATAACTCCTATGCC
1 TTTTCAAGATTCAAGCATAACTCATATGCA
*
2374747 TTGTCAAGATTCAAGCA
1 TTTTCAAGATTCAAGCA
2374764 CAAGCTTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 18 0.46
29 2 0.05
30 19 0.49
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35
Consensus pattern (30 bp):
TTTTCAAGATTCAAGCATAACTCATATGCA
Found at i:2377291 original size:70 final size:70
Alignment explanation
Indices: 2377196--2377360 Score: 271
Period size: 70 Copynumber: 2.4 Consensus size: 70
2377186 CGGTTGGTAC
* * *
2377196 CGCGACTCCGCCTCT--CTCCTTCTCTATTCCTCTACTCAGCTCTTCTTCCTCTTGCGCCGGCAG
1 CGCGGCTCCGCCTCTCCCTCCTTCTCTATTCCTCTACCCAGCTCTCCTTCCTCTTGCGCCGGCAG
2377259 CAGAT
66 CAGAT
*
2377264 CGCGGCTCCGCCTCTCCCTCCTTCTCTATTCCTCTGCCCAGCTCTCCTTCCTCTTGCGCCGGCAG
1 CGCGGCTCCGCCTCTCCCTCCTTCTCTATTCCTCTACCCAGCTCTCCTTCCTCTTGCGCCGGCAG
2377329 CAGAT
66 CAGAT
*
2377334 CACGGCTCCGCCTCTCCCTCCTTCTCT
1 CGCGGCTCCGCCTCTCCCTCCTTCTCT
2377361 CCTAAAAAAT
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 14 0.16
70 76 0.84
ACGTcount: A:0.08, C:0.47, G:0.15, T:0.30
Consensus pattern (70 bp):
CGCGGCTCCGCCTCTCCCTCCTTCTCTATTCCTCTACCCAGCTCTCCTTCCTCTTGCGCCGGCAG
CAGAT
Found at i:2378161 original size:2 final size:2
Alignment explanation
Indices: 2378154--2378182 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2378144 AATGACTCCT
2378154 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2378183 TATGCTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2385165 original size:21 final size:21
Alignment explanation
Indices: 2385141--2385182 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2385131 CTTGGATTAC
*
2385141 TCTAATGAAATGAGAATATTT
1 TCTAATGAAATGAAAATATTT
* *
2385162 TCTAGTGAAATTAAAATATTT
1 TCTAATGAAATGAAAATATTT
2385183 ATTACTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
TCTAATGAAATGAAAATATTT
Found at i:2389838 original size:19 final size:20
Alignment explanation
Indices: 2389811--2389856 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2389801 AGGAGACAAG
*
2389811 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
2389830 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
2389849 ATAATATT
1 ATAATATT
2389857 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:2391688 original size:13 final size:13
Alignment explanation
Indices: 2391670--2391694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2391660 AGAGAAATTG
2391670 TGATTTTATAAAA
1 TGATTTTATAAAA
2391683 TGATTTTATAAA
1 TGATTTTATAAA
2391695 TTTTCTGGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:2394826 original size:19 final size:19
Alignment explanation
Indices: 2394802--2394839 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2394792 ACATCTCAAC
2394802 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2394821 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2394840 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:2398035 original size:19 final size:19
Alignment explanation
Indices: 2398011--2398048 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2398001 CCATTTAACT
*
2398011 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
2398030 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
2398049 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:2399426 original size:13 final size:13
Alignment explanation
Indices: 2399408--2399432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2399398 AGAGAAATTG
2399408 TGATTTTATAAAA
1 TGATTTTATAAAA
2399421 TGATTTTATAAA
1 TGATTTTATAAA
2399433 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:2405830 original size:19 final size:19
Alignment explanation
Indices: 2405806--2405843 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2405796 ACTTCTCAAC
2405806 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2405825 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2405844 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:2417420 original size:21 final size:19
Alignment explanation
Indices: 2417394--2417441 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
2417384 TTAATATTTT
*
2417394 AATATTATATTTTATTAATAA
1 AATATTAT-TTTT-TTAAAAA
2417415 AATATTATTTTTTTAAAAA
1 AATATTATTTTTTTAAAAA
*
2417434 AATTTTAT
1 AATATTAT
2417442 CTTGTCTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 13 0.52
20 4 0.16
21 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATTTTTTTAAAAA
Found at i:2418090 original size:35 final size:35
Alignment explanation
Indices: 2418044--2418114 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
2418034 AATTTGGGTT
2418044 ACCTATGCCTAACTAAAAAAATATCATTCATGACC
1 ACCTATGCCTAACTAAAAAAATATCATTCATGACC
*
2418079 ACCTATGCCTAACTAAAGAAATATCATTCATGACC
1 ACCTATGCCTAACTAAAAAAATATCATTCATGACC
2418114 A
1 A
2418115 AGATAGGCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (35 bp):
ACCTATGCCTAACTAAAAAAATATCATTCATGACC
Found at i:2425812 original size:71 final size:72
Alignment explanation
Indices: 2425677--2425818 Score: 214
Period size: 71 Copynumber: 2.0 Consensus size: 72
2425667 TGAATGTAAC
* * * *
2425677 TTATCTCTGGCATGAAGATTAACTTCACTAAGATCTGTTTACTAGGGACTGGAATTGATAAGCAA
1 TTATCTCTGGCATGAACATTAACTTCACTAAGAGCTGTTTACTAGAGACTGGAATTGAGAAGCAA
2425742 GTGGTAG
66 GTGGTAG
* * *
2425749 TTATCTCTGGCATGATCATTAACTTCAC-GAGAGCTGTTTACTAGAGACTGGAATTGAGGAGCAA
1 TTATCTCTGGCATGAACATTAACTTCACTAAGAGCTGTTTACTAGAGACTGGAATTGAGAAGCAA
2425813 GTGGTA
66 GTGGTA
2425819 ATGTCATGGC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 37 0.59
72 26 0.41
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (72 bp):
TTATCTCTGGCATGAACATTAACTTCACTAAGAGCTGTTTACTAGAGACTGGAATTGAGAAGCAA
GTGGTAG
Found at i:2430355 original size:24 final size:24
Alignment explanation
Indices: 2430323--2430377 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
2430313 AGAACATTAG
2430323 GTAGCAGGAATAAAATGCATGACA
1 GTAGCAGGAATAAAATGCATGACA
***
2430347 GTAGCAGGAATGTCATGCATGACA
1 GTAGCAGGAATAAAATGCATGACA
*
2430371 GTTGCAG
1 GTAGCAG
2430378 AAAAGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (24 bp):
GTAGCAGGAATAAAATGCATGACA
Found at i:2440576 original size:5 final size:5
Alignment explanation
Indices: 2440558--2440597 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
2440548 AAGTACAAGC
*
2440558 CAAAA CATAAA -AAAA AAAAA CAAAA CAAAA CAAAA CAAAA
1 CAAAA CA-AAA CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA
2440598 TTTCTATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 3 0.09
5 26 0.81
6 3 0.09
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (5 bp):
CAAAA
Found at i:2440763 original size:2 final size:2
Alignment explanation
Indices: 2440758--2440790 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2440748 TATATATATA
2440758 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2440791 NGAATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2441011 original size:2 final size:2
Alignment explanation
Indices: 2441006--2441040 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2440996 TATATATATA
2441006 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
2441041 ATGCATACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:2445725 original size:17 final size:17
Alignment explanation
Indices: 2445694--2445726 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2445684 TAAAAAACAA
2445694 AACAAGAAGAACAAAAG
1 AACAAGAAGAACAAAAG
2445711 AACAA-AAGAATCAAAA
1 AACAAGAAGAA-CAAAA
2445727 AAGAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.73, C:0.12, G:0.12, T:0.03
Consensus pattern (17 bp):
AACAAGAAGAACAAAAG
Found at i:2452214 original size:11 final size:11
Alignment explanation
Indices: 2452198--2452230 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2452188 TCACTGAAAA
2452198 GAATAGAATAG
1 GAATAGAATAG
*
2452209 GAATAGAATGG
1 GAATAGAATAG
2452220 GAATAGAATAG
1 GAATAGAATAG
2452231 CTGTCACGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.30, T:0.18
Consensus pattern (11 bp):
GAATAGAATAG
Found at i:2454760 original size:28 final size:27
Alignment explanation
Indices: 2454724--2454776 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
2454714 ATGTCCTGAT
*
2454724 GGTGGAAAATTACAATTTTGCCCCTGG
1 GGTGGAAAATTACAATTTTACCCCTGG
*
2454751 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
2454777 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGG
Found at i:2454845 original size:19 final size:19
Alignment explanation
Indices: 2454821--2454857 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2454811 CTTCTAAACT
2454821 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
2454840 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
2454858 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:2462855 original size:19 final size:19
Alignment explanation
Indices: 2462831--2462868 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2462821 ACTTCTAAAC
2462831 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2462850 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2462869 AGTCAAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:2463580 original size:23 final size:22
Alignment explanation
Indices: 2463537--2463580 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
2463527 AAATACAAAC
* **
2463537 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
2463559 ATATTTTGTATTAGAAGATAAT
1 ATATTTT-TATTAGAAGATAAT
2463581 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:2464879 original size:32 final size:31
Alignment explanation
Indices: 2464841--2464906 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
2464831 ATACAAAAAG
* *
2464841 CTTTTTCACGAGCTCAAGCACAACCCACACTA
1 CTTTTTCACGAGATCAAACACAACCCACAC-A
* * *
2464873 CTTTTTCATGGGATCAAACACAACTCACACA
1 CTTTTTCACGAGATCAAACACAACCCACACA
2464904 CTT
1 CTT
2464907 GCTTTTTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 4 0.14
32 25 0.86
ACGTcount: A:0.32, C:0.33, G:0.09, T:0.26
Consensus pattern (31 bp):
CTTTTTCACGAGATCAAACACAACCCACACA
Found at i:2469072 original size:12 final size:12
Alignment explanation
Indices: 2469055--2469079 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2469045 GGTGCAACGT
2469055 GGGGAAATTCGA
1 GGGGAAATTCGA
2469067 GGGGAAATTCGA
1 GGGGAAATTCGA
2469079 G
1 G
2469080 AATATGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.44, T:0.16
Consensus pattern (12 bp):
GGGGAAATTCGA
Found at i:2474924 original size:549 final size:549
Alignment explanation
Indices: 2473879--2474978 Score: 2029
Period size: 549 Copynumber: 2.0 Consensus size: 549
2473869 GAGAGATTGC
*
2473879 TTAATGGATAAGTATTACACATGAACCAATGGAAACATGCCATGTGCCAAGCTTAGATTATCCTA
1 TTAATGAATAAGTATTACACATGAACCAATGGAAACATGCCATGTGCCAAGCTTAGATTATCCTA
*
2473944 GAATTTCCTTGTAAAATCTATTTAAAACTCTCTTAGTCTCACCCATATAGCTGGCCAAAGCATGA
66 GAATTTCCTTGTAAAATCTATTTAAAACTCTCTTAGTCTCACCCATATAGCTGACCAAAGCATGA
* *
2474009 AGTGAAGAGGAAAGGAAAGAACACAAATCCTAGGTGGGAAAATTGAAGAAAAAGTGTGAGATTTT
131 AGTGAAGAGGAAAGGAAAGAACACAAACCCTAGGTGGGAAAATTGAAGAAAAAGTGTGAGATTTC
* *
2474074 AAGGGATTAAGCTAATGAAGGTAAAATTTTGTGATTTTATCTTGTGATTTACACTACTCATGCTT
196 AAGGGATTAAGCTAATAAAGGTAAAATTTTGTGATTTTATCTTGTGATTTACACTACCCATGCTT
*
2474139 TCTTTTTCATTTTCCATGCTTAGAACTCAAGTTTGCATGATGAACCCATGCTGGCTGAATTTGAG
261 TCTTTTTCATTTTCCATGCTTAGAACTCAAGTTTGCATGATGAACCCATGCTGGCCGAATTTGAG
2474204 AGGAGAGGTTTTGAACATTGATTTTGCTAGATTTCAAGCTAATTAAGTGTTTTTGGTTGTTTGGT
326 AGGAGAGGTTTTGAACATTGATTTTGCTAGATTTCAAGCTAATTAAGTGTTTTTGGTTGTTTGGT
**
2474269 AATGGAAAGTATGAAAATCTAGCAAGGAATCACTTTGTTCTTCACAAACCCACAAGAGGTTGAAT
391 AATGGAAAGTATGAAAATCTAGCAAGGAATCACTTTGTTCTTCACAAACCCACAAGAGGCCGAAT
*
2474334 TTTCTAAGGAGTATATTGAGGCTGAAATTGATGATATTTCATGATATTTTGGTGGTATTTAATGA
456 TTTCTAAGGAGGATATTGAGGCTGAAATTGATGATATTTCATGATATTTTGGTGGTATTTAATGA
2474399 TTGGTGAGGCTAGAAATTTAATGGAAAAT
521 TTGGTGAGGCTAGAAATTTAATGGAAAAT
* * *
2474428 TTAATGAATAAGTATTACACATGGACCAATGGAAACATGCCATGTGTCAAGCTTAGATTATTCTA
1 TTAATGAATAAGTATTACACATGAACCAATGGAAACATGCCATGTGCCAAGCTTAGATTATCCTA
*
2474493 GAATTTCCTTGTAAAATCTATTTAAAACTCTCTTAGTCTCACCCATATGGCTGACCAAAGCATGA
66 GAATTTCCTTGTAAAATCTATTTAAAACTCTCTTAGTCTCACCCATATAGCTGACCAAAGCATGA
*
2474558 AGTGAAGAGGAAAGGAAAGAACACAAACCCTAGGTGGGAAAATTGAAGAAAAAGTGTGGGATTTC
131 AGTGAAGAGGAAAGGAAAGAACACAAACCCTAGGTGGGAAAATTGAAGAAAAAGTGTGAGATTTC
2474623 AAGGGATTAAGCTAATAAAGGTAAAATTTTGTGATTTTATCTTGTGATTTACACTACCCATGCTT
196 AAGGGATTAAGCTAATAAAGGTAAAATTTTGTGATTTTATCTTGTGATTTACACTACCCATGCTT
2474688 TCTTTTTCATTTTCCATGCTTAGAACTCAAGTTTGCATGATGAACCCATGCTGGCCGAATTTGAG
261 TCTTTTTCATTTTCCATGCTTAGAACTCAAGTTTGCATGATGAACCCATGCTGGCCGAATTTGAG
*
2474753 AGGAGAGGTTTTGAGCATTGATTTTGCTAGATTTCAAGCTAATTAAGTGTTTTTGGTTGTTTGGT
326 AGGAGAGGTTTTGAACATTGATTTTGCTAGATTTCAAGCTAATTAAGTGTTTTTGGTTGTTTGGT
*
2474818 AATGGAAAGTATGAAAATCTAGCAAGGAATCACTTTGTTCTTCACAAACCCACAAGTGGCCGAAT
391 AATGGAAAGTATGAAAATCTAGCAAGGAATCACTTTGTTCTTCACAAACCCACAAGAGGCCGAAT
*
2474883 TTTCTAGGGAGGATATTGAGGCTGAAATTGATGATATTTCATGATATTTTGGTGGTATTTAATGA
456 TTTCTAAGGAGGATATTGAGGCTGAAATTGATGATATTTCATGATATTTTGGTGGTATTTAATGA
*
2474948 TTGGTGAGGCTAGAAATTTAATGGGAAAT
521 TTGGTGAGGCTAGAAATTTAATGGAAAAT
2474977 TT
1 TT
2474979 TGGCATGAAA
Statistics
Matches: 532, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
549 532 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (549 bp):
TTAATGAATAAGTATTACACATGAACCAATGGAAACATGCCATGTGCCAAGCTTAGATTATCCTA
GAATTTCCTTGTAAAATCTATTTAAAACTCTCTTAGTCTCACCCATATAGCTGACCAAAGCATGA
AGTGAAGAGGAAAGGAAAGAACACAAACCCTAGGTGGGAAAATTGAAGAAAAAGTGTGAGATTTC
AAGGGATTAAGCTAATAAAGGTAAAATTTTGTGATTTTATCTTGTGATTTACACTACCCATGCTT
TCTTTTTCATTTTCCATGCTTAGAACTCAAGTTTGCATGATGAACCCATGCTGGCCGAATTTGAG
AGGAGAGGTTTTGAACATTGATTTTGCTAGATTTCAAGCTAATTAAGTGTTTTTGGTTGTTTGGT
AATGGAAAGTATGAAAATCTAGCAAGGAATCACTTTGTTCTTCACAAACCCACAAGAGGCCGAAT
TTTCTAAGGAGGATATTGAGGCTGAAATTGATGATATTTCATGATATTTTGGTGGTATTTAATGA
TTGGTGAGGCTAGAAATTTAATGGAAAAT
Found at i:2482091 original size:19 final size:20
Alignment explanation
Indices: 2482064--2482109 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2482054 AGGAGACAAG
*
2482064 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
2482083 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
2482102 ATAATATT
1 ATAATATT
2482110 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:2482911 original size:34 final size:34
Alignment explanation
Indices: 2482873--2482948 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
2482863 ATTTAAGGGC
2482873 TGGTTTTGAAGGCTGAAAAGAGCCATTTTTTTGA
1 TGGTTTTGAAGGCTGAAAAGAGCCATTTTTTTGA
* * * * * *
2482907 TGGTTTTGGAGGTTGGAAAGTGTCATTTTTTTGC
1 TGGTTTTGAAGGCTGAAAAGAGCCATTTTTTTGA
*
2482941 TGATTTTG
1 TGGTTTTG
2482949 GAGCAAAATG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.45
Consensus pattern (34 bp):
TGGTTTTGAAGGCTGAAAAGAGCCATTTTTTTGA
Found at i:2483138 original size:5 final size:4
Alignment explanation
Indices: 2483104--2483137 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
2483094 TGGACGGTGG
2483104 GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA GAAA
2483138 ATAACAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 20 0.69
5 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:2483180 original size:27 final size:25
Alignment explanation
Indices: 2483149--2483216 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
2483139 TAACAAGGAC
* *
2483149 AATGGGCATGGCCCAACAAGCAAGAAA
1 AATGGACATGGTCCAACAA--AAGAAA
* *
2483176 AATGGACATGGTCCAATAAAGGAAA
1 AATGGACATGGTCCAACAAAAGAAA
2483201 AATGGACATGGTCCAA
1 AATGGACATGGTCCAA
2483217 TTAGAAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
25 21 0.57
27 16 0.43
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (25 bp):
AATGGACATGGTCCAACAAAAGAAA
Found at i:2487117 original size:20 final size:21
Alignment explanation
Indices: 2487094--2487132 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2487084 AAGTGAGTTA
*
2487094 TTTTAATTTTA-TGTTATTCT
1 TTTTAATTTGATTGTTATTCT
2487114 TTTTAATTTGATTGTTATT
1 TTTTAATTTGATTGTTATT
2487133 AATTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTAATTTGATTGTTATTCT
Found at i:2488947 original size:13 final size:13
Alignment explanation
Indices: 2488929--2488953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2488919 GGAAAATGGG
2488929 ATTTTATAAAATA
1 ATTTTATAAAATA
2488942 ATTTTATAAAAT
1 ATTTTATAAAAT
2488954 TTTTGAAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:2499052 original size:28 final size:28
Alignment explanation
Indices: 2499028--2499082 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
2499018 TACTTTTCGG
2499028 AGTATAGGGGTAAAATGGTAATTTTACC
1 AGTATAGGGGTAAAATGGTAATTTTACC
* * *
2499056 ATTCTAGGGGTAAAATTGTAATTTTAC
1 AGTATAGGGGTAAAATGGTAATTTTAC
2499083 ACACCCGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (28 bp):
AGTATAGGGGTAAAATGGTAATTTTACC
Found at i:2499911 original size:13 final size:13
Alignment explanation
Indices: 2499893--2499917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2499883 GGAAAATGGG
2499893 ATTTTATAAAATA
1 ATTTTATAAAATA
2499906 ATTTTATAAAAT
1 ATTTTATAAAAT
2499918 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:2501287 original size:15 final size:15
Alignment explanation
Indices: 2501267--2501319 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
2501257 TTTAAAGATC
2501267 AAAGATTTTGATTTT
1 AAAGATTTTGATTTT
*
2501282 AAAGA-TATGAATTTT
1 AAAGATTTTG-ATTTT
* *
2501297 AAAGTTTTTGGTTTT
1 AAAGATTTTGATTTT
2501312 AAAG-TTTT
1 AAAGATTTT
2501320 TTTAAGAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 7 0.22
15 22 0.69
16 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (15 bp):
AAAGATTTTGATTTT
Found at i:2508966 original size:39 final size:39
Alignment explanation
Indices: 2508890--2508985 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 39
2508880 CCCCTAGTAG
*
2508890 AAGAAAAAGAATTACGAGTAGAATTCGAAACACCCCCAA
1 AAGAAAAAGAATTACAAGTAGAATTCGAAACACCCCCAA
* * * * * *
2508929 GAGAAGAAGTATTACAAGTAGAATTCGGAATATCCCCAA
1 AAGAAAAAGAATTACAAGTAGAATTCGAAACACCCCCAA
* *
2508968 AAGAAAAAGCATTGCAAG
1 AAGAAAAAGAATTACAAG
2508986 CAATAATCAG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.16
Consensus pattern (39 bp):
AAGAAAAAGAATTACAAGTAGAATTCGAAACACCCCCAA
Found at i:2509840 original size:20 final size:20
Alignment explanation
Indices: 2509795--2509832 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2509785 TTTTGACTCC
2509795 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
2509815 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
2509833 AGATTTGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:2509917 original size:27 final size:27
Alignment explanation
Indices: 2509887--2509944 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
2509877 TTGGAGTAAA
*
2509887 AGGGTAAAATGGTAATTTTACCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
2509914 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
2509942 AGG
1 AGG
2509945 ACATTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:2517122 original size:20 final size:20
Alignment explanation
Indices: 2517077--2517114 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2517067 TTTTGGCTCC
2517077 ATTTGACTTATTAGAGTATA
1 ATTTGACTTATTAGAGTATA
*
2517097 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTAGAGTA
2517115 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTAGAGTATA
Found at i:2522329 original size:28 final size:28
Alignment explanation
Indices: 2522287--2522342 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
2522277 GGACAAGTGT
*
2522287 CCTGGTGGTGGAAAATTACTATTTTGCC
1 CCTGGTGGTGGAAAATTACCATTTTGCC
2522315 CCTGG-GGTGGTAAAATTACCATTTTGCC
1 CCTGGTGGTGG-AAAATTACCATTTTGCC
2522343 TTTATGCTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACCATTTTGCC
Found at i:2522413 original size:19 final size:19
Alignment explanation
Indices: 2522389--2522426 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2522379 ACTTATCAAC
*
2522389 CTCAAATCGTACTCCAATA
1 CTCAAATCATACTCCAATA
2522408 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
2522427 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.32, G:0.03, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:2534516 original size:24 final size:23
Alignment explanation
Indices: 2534463--2534516 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
2534453 TTTTTTTTAT
* * *
2534463 TTTTTATTTTTAAATATTAATAT
1 TTTTTAATTTTAAATATTAAAAA
*
2534486 TTATTTAATTTTAAATCTCTAAAAA
1 TT-TTTAATTTTAAATAT-TAAAAA
2534511 TTTTTA
1 TTTTTA
2534517 GTTCTACCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 17 0.68
25 6 0.24
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTAATTTTAAATATTAAAAA
Found at i:2535769 original size:13 final size:13
Alignment explanation
Indices: 2535751--2535779 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2535741 GGTAGGAGTG
2535751 AGGCTGAGCTATA
1 AGGCTGAGCTATA
2535764 AGGCTGAGCTATA
1 AGGCTGAGCTATA
2535777 AGG
1 AGG
2535780 AAAACTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (13 bp):
AGGCTGAGCTATA
Found at i:2540363 original size:26 final size:25
Alignment explanation
Indices: 2540332--2540424 Score: 91
Period size: 26 Copynumber: 3.6 Consensus size: 25
2540322 ATGATGTTAT
2540332 ATGCCATGTTGAAAAAACATTATTAC
1 ATGCCATGTT-AAAAAACATTATTAC
*
2540358 ACGCCATG-TATAAAAACA-TATTAC
1 ATGCCATGTTA-AAAAACATTATTAC
* * *
2540382 ATACCATGGTTAAAAAAGATTGTTAC
1 ATGCCAT-GTTAAAAAACATTATTAC
*
2540408 ATGTCATGTTGAAAAAA
1 ATGCCATGTT-AAAAAA
2540425 AATATTATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 12 0.22
25 18 0.33
26 25 0.45
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (25 bp):
ATGCCATGTTAAAAAACATTATTAC
Found at i:2540388 original size:24 final size:25
Alignment explanation
Indices: 2540344--2540397 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
2540334 GCCATGTTGA
*
2540344 AAAAACATTATTACACGCCAT-GTAT
1 AAAAACATTATTACACACCATGGT-T
*
2540369 AAAAACA-TATTACATACCATGGTT
1 AAAAACATTATTACACACCATGGTT
2540393 AAAAA
1 AAAAA
2540398 AGATTGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAACATTATTACACACCATGGTT
Found at i:2540397 original size:25 final size:25
Alignment explanation
Indices: 2540335--2540408 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
2540325 ATGTTATATG
*
2540335 CCATGTTGAAAAAACATTATTACACG
1 CCATGTT-AAAAAACATTATTACACA
*
2540361 CCATG-TATAAAAACA-TATTACATA
1 CCATGTTA-AAAAACATTATTACACA
* *
2540385 CCATGGTTAAAAAAGATTGTTACA
1 CCAT-GTTAAAAAACATTATTACA
2540409 TGTCATGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 12 0.30
25 15 0.38
26 13 0.32
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (25 bp):
CCATGTTAAAAAACATTATTACACA
Found at i:2540522 original size:29 final size:28
Alignment explanation
Indices: 2540476--2540561 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
2540466 TTACGTTGAA
*
2540476 AAAAAATATTACTATTACACGTTATGTTG
1 AAAAAATATTATTATTACAC-TTATGTTG
* * *
2540505 AAAAAATATTATTGTTACATATTATATTG
1 AAAAAATATTATTATTACA-CTTATGTTG
*
2540534 AAAAAATATTGTTATTACACTTCATGTT
1 AAAAAATATTATTATTACACTT-ATGTT
2540562 CGAGAAACTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
28 2 0.04
29 45 0.96
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (28 bp):
AAAAAATATTATTATTACACTTATGTTG
Found at i:2561554 original size:19 final size:19
Alignment explanation
Indices: 2561530--2561567 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2561520 CCATTTGACT
*
2561530 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
2561549 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
2561568 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:2571076 original size:13 final size:13
Alignment explanation
Indices: 2571058--2571082 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2571048 TTTCAGAAAA
2571058 TTTATAAAATCAT
1 TTTATAAAATCAT
2571071 TTTATAAAATCA
1 TTTATAAAATCA
2571083 CAATTTTTCC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:2572198 original size:28 final size:27
Alignment explanation
Indices: 2572159--2572211 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
2572149 ATGTCCTGGT
*
2572159 GGTGGAAAATTACAATTTTGCCCTTAG
1 GGTGGAAAATTACAATTTTACCCTTAG
*
2572186 GGTGGTAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
2572212 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTAG
Found at i:2580223 original size:20 final size:20
Alignment explanation
Indices: 2580198--2580235 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2580188 TTTTGGCCTC
2580198 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
2580218 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
2580236 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:2580241 original size:20 final size:20
Alignment explanation
Indices: 2580198--2580243 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
2580188 TTTTGGCCTC
*
2580198 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
2580218 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
2580238 ATTTGA
1 ATTTGA
2580244 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:2580345 original size:28 final size:28
Alignment explanation
Indices: 2580291--2580346 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
2580281 AGAGTAAAAA
* *
2580291 GGTAAAATGGTAATTTTGCCATCCCAGG
1 GGTAAAATGGCAATTTTGCCACCCCAGG
*
2580319 GGTAAAATTGCAATTTT-CCACCACCAGG
1 GGTAAAATGGCAATTTTGCCACC-CCAGG
2580347 ACATTTTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (28 bp):
GGTAAAATGGCAATTTTGCCACCCCAGG
Found at i:2582902 original size:22 final size:22
Alignment explanation
Indices: 2582874--2582926 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
2582864 TATCAGAGCA
*
2582874 TTTGGTTTCAAAAATTAAAACT
1 TTTGGTTTCAAAAATCAAAACT
* * *
2582896 TTTGGTTTTAAAGATCAGAACT
1 TTTGGTTTCAAAAATCAAAACT
2582918 TTTGTGTTT
1 TTTG-GTTT
2582927 AAAGTTTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (22 bp):
TTTGGTTTCAAAAATCAAAACT
Found at i:2591065 original size:8 final size:8
Alignment explanation
Indices: 2591048--2591076 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2591038 AGAGAGAGGG
2591048 AAGA-AGA
1 AAGAGAGA
2591055 AAGAGAGA
1 AAGAGAGA
2591063 AAGAGAGA
1 AAGAGAGA
2591071 AAGAGA
1 AAGAGA
2591077 AAGAAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (8 bp):
AAGAGAGA
Found at i:2591075 original size:14 final size:14
Alignment explanation
Indices: 2591001--2591080 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 14
2590991 AAGAAGTGGG
2591001 GAGAAAGAGAG-AA
1 GAGAAAGAGAGAAA
2591014 G-GAAAGAGAGCGAAA
1 GAGAAAGAGA--GAAA
* *
2591029 GAAGCAAACAGAGAGA
1 G-AG-AAAGAGAGAAA
*
2591045 G-GGAAGA-AGAAAGA
1 GAGAAAGAGAG-AA-A
2591059 GAGAAAGAGAGAAA
1 GAGAAAGAGAGAAA
2591073 GAGAAAGA
1 GAGAAAGA
2591081 AACATTGTCG
Statistics
Matches: 51, Mismatches: 6, Indels: 19
0.67 0.08 0.25
Matches are distributed among these distances:
12 10 0.20
13 5 0.10
14 13 0.25
15 10 0.20
16 6 0.12
17 1 0.02
18 6 0.12
ACGTcount: A:0.59, C:0.04, G:0.38, T:0.00
Consensus pattern (14 bp):
GAGAAAGAGAGAAA
Found at i:2591180 original size:16 final size:14
Alignment explanation
Indices: 2591159--2591222 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 14
2591149 CTGTGGGCCA
2591159 AGAAAGGAAGAAAGAG
1 AGAAA-GAA-AAAGAG
2591175 AGAAAGAAAAA-AG
1 AGAAAGAAAAAGAG
*
2591188 AGAAGAGGAAGAAGA-
1 AGAA-A-GAAAAAGAG
2591203 AGAAAGAAAAAGAAG
1 AGAAAGAAAAAG-AG
2591218 AGAAA
1 AGAAA
2591223 AGAATCTTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
13 12 0.29
14 6 0.15
15 17 0.41
16 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AGAAAGAAAAAGAG
Found at i:2591219 original size:30 final size:29
Alignment explanation
Indices: 2591159--2591222 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
2591149 CTGTGGGCCA
2591159 AGAAAGGAAGAAAGAGAGAAAGAAAAAAG
1 AGAAAGGAAGAAAGAGAGAAAGAAAAAAG
2591188 AGAAGAGGAAG-AAGA-AGAAAGAAAAAGAAG
1 AGAA-AGGAAGAAAGAGAGAAAG-AAAA-AAG
2591218 AGAAA
1 AGAAA
2591223 AGAATCTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 6 0.19
29 13 0.41
30 13 0.41
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AGAAAGGAAGAAAGAGAGAAAGAAAAAAG
Found at i:2591289 original size:22 final size:21
Alignment explanation
Indices: 2591263--2591303 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
2591253 ACCGTTAGAG
*
2591263 AAAGAAAGTGAGAAAGGAAAGT
1 AAAGAAAGAGA-AAAGGAAAGT
*
2591285 AAAGAGAGAGAAAAGGAAA
1 AAAGAAAGAGAAAAGGAAA
2591304 AAAGCTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (21 bp):
AAAGAAAGAGAAAAGGAAAGT
Found at i:2595191 original size:31 final size:32
Alignment explanation
Indices: 2595156--2595231 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
2595146 TGTTGTAAAC
2595156 ATAATAATTCAAAATTAAA-TAA-AATAAATTT
1 ATAATAATTCAAAATTAAAGTAATAATAAA-TT
* *
2595187 ATAATAATT--AAATAAAAGTAATAATATATT
1 ATAATAATTCAAAATTAAAGTAATAATAAATT
2595217 -TAATAA-TCAAAATTA
1 ATAATAATTCAAAATTA
2595232 TGTTATTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
28 1 0.03
29 13 0.34
30 10 0.26
31 14 0.37
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (32 bp):
ATAATAATTCAAAATTAAAGTAATAATAAATT
Found at i:2612376 original size:20 final size:21
Alignment explanation
Indices: 2612335--2612376 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2612325 ACCAGCTATG
*
2612335 ATTTCACCATGAAAACATGAA
1 ATTTAACCATGAAAACATGAA
*
2612356 ATTTAACCATGGAAA-ATGAA
1 ATTTAACCATGAAAACATGAA
2612376 A
1 A
2612377 AAGAAAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (21 bp):
ATTTAACCATGAAAACATGAA
Found at i:2613004 original size:19 final size:19
Alignment explanation
Indices: 2612980--2613018 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2612970 CCATTTAACT
*
2612980 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
2612999 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
2613018 T
1 T
2613019 GTTTGGTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:2615844 original size:15 final size:16
Alignment explanation
Indices: 2615824--2615864 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
2615814 CAGAGATTTT
2615824 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
2615839 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
2615855 G-TTTTAAAGT
1 GATTTTAAAGT
2615865 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:2615865 original size:15 final size:15
Alignment explanation
Indices: 2615820--2615865 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2615810 AGATCAGAGA
*
2615820 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
2615834 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
2615850 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
2615865 T
1 T
2615866 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:2615925 original size:14 final size:15
Alignment explanation
Indices: 2615900--2615932 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
2615890 TGCATGGCCC
2615900 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
2615915 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
2615929 AAGT
1 AAGT
2615933 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:2615939 original size:19 final size:19
Alignment explanation
Indices: 2615901--2615940 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2615891 GCATGGCCCA
*
2615901 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
2615920 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
2615939 AG
1 AG
2615941 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:2615942 original size:5 final size:5
Alignment explanation
Indices: 2615900--2615932 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
2615890 TGCATGGCCC
2615900 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
2615933 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:2623570 original size:28 final size:27
Alignment explanation
Indices: 2623525--2623577 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
2623515 TGTTCTGGTG
** *
2623525 GTGGAAAATTACTGTTTTGCCCTTAAC
1 GTGGAAAATTACCATTTTACCCTTAAC
2623552 GTGGTAAAATTACCATTTTACCCTTA
1 GTGG-AAAATTACCATTTTACCCTTA
2623578 TACTCCGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (27 bp):
GTGGAAAATTACCATTTTACCCTTAAC
Found at i:2629731 original size:30 final size:30
Alignment explanation
Indices: 2629697--2629764 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
2629687 TTCATGGTCA
*
2629697 TCTTCATTTTCATCTCCTTCCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
* *
2629727 TCTTCATCTTCATCTCTTTGCATGTCATCT
1 TCTTCATCTTCATCTCCTTCCATGTCATCT
2629757 TCTTCATC
1 TCTTCATC
2629765 CTCAATCAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.32, G:0.04, T:0.50
Consensus pattern (30 bp):
TCTTCATCTTCATCTCCTTCCATGTCATCT
Found at i:2638073 original size:254 final size:251
Alignment explanation
Indices: 2637180--2638193 Score: 1055
Period size: 254 Copynumber: 4.0 Consensus size: 251
2637170 TCATAATTTC
* * * * * * *
2637180 AAATTCATAAACTGTTAAATATTTTTAGCTGGATAATATAAACTTAAATTTTCAAATTTCAAAAA
1 AAATTTATAAACTGTTAAATACTTTTAACTCGATAATATAAACTTAAAGTTT-AATTTTCACAAA
* ***
2637245 AATTATGTTTATTTGACTTAATTGGCTTGTTATGTTAAATCTCACACATTTATGTCAATATTTTG
65 AATTATGTTTATTTGACTTAATTGACTTGTTACACTAAATCTCACACATTTATGTCAATATTTTG
* * * ** * *
2637310 ACAATGCTTGTTCGAACTTTATAATTTTTTACGTTAATTCTTGTAAATTTAGGTCAAGATTTTTC
130 ACAATGCTTGTTCCACCTTTATAATTTTTTACATTAATTCTTACAAGTTTACGTCAAGATTTTTC
* * * *
2637375 AATTGATATTTTTTA-C-T-A-TA-ATTTATCCTTATTATTATCCTTTTATAAATTA
195 AATTGCTATTTTTCACCATAATTATTTTTATCCTTATTATTATTCTTTTATAAATTA
* * * * * * * *
2637427 AAA-CTGTAAACTATTAAATACTTTAAACTCGAGAATATAAGCTTAAGTGTTTAA-TTTCCCAAA
1 AAATTTATAAACTGTTAAATACTTTTAACTCGATAATATAAACTTAA-AGTTTAATTTTCAC-AA
* * * *
2637490 AAATTATATTTATTTGACTAAATTGACTTCTTATACTAAATCTCACACATTTATGTCAATATTTT
64 AAATTATGTTTATTTGACTTAATTGACTTGTTACACTAAATCTCACACATTTATGTCAATATTTT
* * * **
2637555 GACAATCCTTGTTCCACCTTTATAA-TTTTTACATTAATTCTGACAAGTCTATATCAAGATTTTT
129 GACAATGCTTGTTCCACCTTTATAATTTTTTACATTAATTCTTACAAGTTTACGTCAAGATTTTT
* * ** * ** *
2637619 TAATTACTAATTTTT-AGTATAATTATTTTTATCCTTATGATTATTAATTTGTAAATTA
194 CAATTGCT-ATTTTTCACCATAATTATTTTTATCCTTATTATTATTCTTTTATAAATTA
* * * ** * * *
2637677 AAATTTATAAACCGTTAAATATTTTTAGCTTAATCATATAAATTTAAACGTTTAATTTTCTCAAA
1 AAATTTATAAACTGTTAAATACTTTTAACTCGATAATATAAACTTAAA-GTTTAATTTTCACAAA
* * **
2637742 AATTAT-ATTATTTTGACTTAATTGACTTGTTACACTAAATCTCACACGTTTACATCAATATTTT
65 AATTATGTTTA-TTTGACTTAATTGACTTGTTACACTAAATCTCACACATTTATGTCAATATTTT
** * *** *
2637806 -AGCAACACTTGTTCCACCTGTATAATTTTTTACATTTGCTCTTACAAGTGTACGTCAATG-TTT
129 GA-CAATGCTTGTTCCACCTTTATAATTTTTTACATTAATTCTTACAAGTTTACGTCAA-GATTT
* * **
2637869 TTCAGTTGCTAGTTTTCACCATAATTATTTTTATCCGCATTATTATTCCTTTTATAAATTA
192 TTCAATTGCTATTTTTCACCATAATTATTTTTATCCTTATTATTATT-CTTTTATAAATTA
* * * *
2637930 AAATTTGTAAATTGTTAAATACTTTTAACTCGATTATATAAATTTACAAGTTTAATTTTCACAAA
1 AAATTTATAAACTGTTAAATACTTTTAACTCGATAATATAAACTTA-AAGTTTAATTTTCACAAA
* ** *
2637995 AATTATGCTTATTTTGACTTAATTGACTTGTTACGTTAAATCTCACATATTTATGTCAATATTTT
65 AATTATGTTTA-TTTGACTTAATTGACTTGTTACACTAAATCTCACACATTTATGTCAATATTTT
* * * *
2638060 GAGAATGCTTGTTCCACCTTTATTATTTTTTACATTAATTCTTAAAAGTTTACGTCAAGGTTTTT
129 GACAATGCTTGTTCCACCTTTATAATTTTTTACATTAATTCTTACAAGTTTACGTCAAGATTTTT
* * * *
2638125 TAATTGCTATTTTTCTCTATAATTATTTTTGTCCTTATTATTATT-TGTTTATAAATTA
194 CAATTGCTATTTTTCACCATAATTATTTTTATCCTTATTATTATTCT-TTTATAAATTA
2638183 AAATTTATAAA
1 AAATTTATAAA
2638194 TTATGCTAGT
Statistics
Matches: 625, Mismatches: 120, Indels: 38
0.80 0.15 0.05
Matches are distributed among these distances:
245 41 0.07
246 124 0.20
247 7 0.01
248 1 0.00
249 2 0.00
250 33 0.05
251 117 0.19
252 66 0.11
253 92 0.15
254 141 0.23
255 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.47
Consensus pattern (251 bp):
AAATTTATAAACTGTTAAATACTTTTAACTCGATAATATAAACTTAAAGTTTAATTTTCACAAAA
ATTATGTTTATTTGACTTAATTGACTTGTTACACTAAATCTCACACATTTATGTCAATATTTTGA
CAATGCTTGTTCCACCTTTATAATTTTTTACATTAATTCTTACAAGTTTACGTCAAGATTTTTCA
ATTGCTATTTTTCACCATAATTATTTTTATCCTTATTATTATTCTTTTATAAATTA
Found at i:2646761 original size:20 final size:20
Alignment explanation
Indices: 2646736--2646781 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2646726 TTTTGGCCCC
2646736 ATTTGACTTAATGGAGTATA
1 ATTTGACTTAATGGAGTATA
*
2646756 ATTTGACTTAATGGAGTATG
1 ATTTGACTTAATGGAGTATA
2646776 ATTTGA
1 ATTTGA
2646782 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTTAATGGAGTATA
Found at i:2650740 original size:20 final size:20
Alignment explanation
Indices: 2650715--2650753 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2650705 GACGGTCATC
2650715 ATCTATCGATAGATTTCTTG
1 ATCTATCGATAGATTTCTTG
*
2650735 ATCTATCGATTGATTTCTT
1 ATCTATCGATAGATTTCTT
2650754 TCAATAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (20 bp):
ATCTATCGATAGATTTCTTG
Found at i:2653978 original size:21 final size:20
Alignment explanation
Indices: 2653935--2653986 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2653925 GTTCTTCATT
***
2653935 TATCAATAGATGAGCTTATC
1 TATCAATAGATGAGAACATC
2653955 TATCAATAGATGAAGAACATC
1 TATCAATAGATG-AGAACATC
*
2653976 TATTAATAGAT
1 TATCAATAGAT
2653987 TGATGGCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (20 bp):
TATCAATAGATGAGAACATC
Found at i:2657662 original size:35 final size:35
Alignment explanation
Indices: 2657617--2657690 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
2657607 GTGAGATGGG
* *
2657617 ATGTCCGGCTATATGCACGATATGGTGGGATGCAC
1 ATGTCCGGCTATATGCACGATATGGTAGGATACAC
* * *
2657652 ATGTTCGGCTATGTGCACGATGTGGTAGGATACAC
1 ATGTCCGGCTATATGCACGATATGGTAGGATACAC
2657687 ATGT
1 ATGT
2657691 GGTGGGTGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (35 bp):
ATGTCCGGCTATATGCACGATATGGTAGGATACAC
Found at i:2658619 original size:20 final size:21
Alignment explanation
Indices: 2658589--2658627 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2658579 TCGCCCCAGG
*
2658589 TGGTCATCTATTGATAGATCA
1 TGGTCATCTATCGATAGATCA
2658610 TGGT-ATCTATCGATAGAT
1 TGGTCATCTATCGATAGAT
2658628 TTTTTTGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (21 bp):
TGGTCATCTATCGATAGATCA
Found at i:2660123 original size:20 final size:20
Alignment explanation
Indices: 2660095--2660132 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2660085 CTCACTGTTT
2660095 CAAACGTATCGATACATTAG
1 CAAACGTATCGATACATTAG
* *
2660115 CAAATGTATTGATACATT
1 CAAACGTATCGATACATT
2660133 TCAAATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (20 bp):
CAAACGTATCGATACATTAG
Found at i:2669423 original size:35 final size:35
Alignment explanation
Indices: 2669378--2669489 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 35
2669368 GTAGATCCCA
*
2669378 TGAAGAACCATTGTTGTAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTT
* **
2669413 TGAAAAACCA-T-TT-TAGGTTTTGGTTGAGCCCG
1 TGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTT
* *
2669445 TGAAAAATCATTG-TGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTGTTG-TAGGTTGTGGTTGAGCCTT
2669480 TGAAAAACCA
1 TGAAAAACCA
2669490 CTTTGGGTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 25 0.40
33 4 0.06
34 1 0.02
35 33 0.52
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (35 bp):
TGAAAAACCATTGTTGTAGGTTGTGGTTGAGCCTT
Found at i:2669436 original size:67 final size:67
Alignment explanation
Indices: 2669361--2669498 Score: 188
Period size: 67 Copynumber: 2.1 Consensus size: 67
2669351 TTAGTTGTTG
* * * *
2669361 GGTTTTGGTAGATCCCATGAAGAACCATTGTTG-TAGGTTGTGGTTGAGCCTTTGAAAAACCATT
1 GGTTTTGGTAGAGCCCATGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
2669425 TTA
65 TTA
* * *
2669428 GGTTTTGGTTGAGCCCGTGAAAAATCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTT
1 GGTTTTGGTAGAGCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTT
*
2669493 TG
66 TA
2669495 GGTT
1 GGTT
2669499 ATAGTTAAGC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 2 0.03
67 60 0.97
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.35
Consensus pattern (67 bp):
GGTTTTGGTAGAGCCCATGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTT
TA
Found at i:2669437 original size:32 final size:32
Alignment explanation
Indices: 2669394--2669498 Score: 120
Period size: 32 Copynumber: 3.2 Consensus size: 32
2669384 ACCATTGTTG
2669394 TAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
1 TAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
* ** *
2669426 TAGGTTTTGGTTGAGCCCGTGAAAAATCATTGT
1 TAGGTTGTGGTTGAGCCTTTGAAAAACCATT-T
* *
2669459 GAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTT
1 --TAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
*
2669493 TGGGTT
1 TAGGTT
2669499 ATAGTTAAGC
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
32 31 0.53
33 1 0.02
34 1 0.02
35 25 0.43
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (32 bp):
TAGGTTGTGGTTGAGCCTTTGAAAAACCATTT
Found at i:2669510 original size:67 final size:67
Alignment explanation
Indices: 2669395--2669556 Score: 193
Period size: 67 Copynumber: 2.4 Consensus size: 67
2669385 CCATTGTTGT
* * * * * * *
2669395 AGGTTGTGGTTGAGCCTTTGAAAAACCATTTTAGGTTTTGGTTGAGCCCGTGAAAAATC-ATTGT
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTATAGTTAAGCCC-CGAAAAAACTAGTGT
*
2669459 GAA
65 AAA
*
2669462 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTATAGTTAAGCCCCGAAAAAACTAGTGTA
1 AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTATAGTTAAGCCCCGAAAAAACTAGTGTA
2669527 AA
66 AA
* *
2669529 AGGTTTTGGCTGAGCC-TTGTAAAAACCA
1 AGGTTGTGGTTGAGCCTTTG-AAAAACCA
2669557 TTATAAAGCC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
66 10 0.12
67 72 0.88
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (67 bp):
AGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGGTTATAGTTAAGCCCCGAAAAAACTAGTGTA
AA
Found at i:2672057 original size:43 final size:42
Alignment explanation
Indices: 2671939--2672060 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 42
2671929 TGACTCGGCT
* * **
2671939 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCAT-AGCTG-GTGATGACCAGACC
* * *
2671982 ATGTGTGAGTAGGGAGTGCACATAACTCGGTGATGACCTAG-CC
1 ATGTGCGAGTAGGGAGTGCGCATAGCT-GGTGATGACC-AGACC
*
2672025 ATGTGCGAGTAGGGACTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCAT-AGCTGGTGATGA
2672061 TGATGATGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 3 0.05
43 57 0.89
44 4 0.06
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.21
Consensus pattern (42 bp):
ATGTGCGAGTAGGGAGTGCGCATAGCTGGTGATGACCAGACC
Found at i:2672109 original size:26 final size:23
Alignment explanation
Indices: 2672057--2672116 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
2672047 TGAGCTGGTG
*
2672057 ATGATGATGATGGGATGGTGTGT
1 ATGATGATGATGGGATGGTATGT
*
2672080 ATGATGATGATGGGATGGTATGC
1 ATGATGATGATGGGATGGTATGT
*
2672103 ATAATGATGATGGG
1 ATGATGATGATGGG
2672117 TATATACGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.02, G:0.40, T:0.32
Consensus pattern (23 bp):
ATGATGATGATGGGATGGTATGT
Found at i:2672515 original size:39 final size:39
Alignment explanation
Indices: 2672461--2672552 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
2672451 AAATTCATTC
*
2672461 TCGCTGCAACGAGAAACTTTTTGTTTCTGGGTTAAAATT
1 TCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTAAAATT
* *
2672500 TCGCTGCAGCTAGAAACTTTTTGTTTCTGGGTTACAATT
1 TCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTAAAATT
* *
2672539 TTGCTGCAGTGAGA
1 TCGCTGCAGCGAGA
2672553 TTGAATCTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (39 bp):
TCGCTGCAGCGAGAAACTTTTTGTTTCTGGGTTAAAATT
Found at i:2675565 original size:43 final size:43
Alignment explanation
Indices: 2675495--2675613 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
2675485 GTAATTATGT
* *
2675495 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
2675538 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
2675581 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
2675614 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:2675623 original size:43 final size:43
Alignment explanation
Indices: 2675505--2675626 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
2675495 TGACTCGGCT
* **
2675505 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
2675548 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
2675591 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
2675627 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:2675637 original size:20 final size:20
Alignment explanation
Indices: 2675612--2675674 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
2675602 GGGAGTGCGC
2675612 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
*
2675632 ATGAGCCGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
2675652 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
2675671 ATGA
1 ATGA
2675675 TGGGTATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 10 0.26
20 28 0.74
ACGTcount: A:0.25, C:0.05, G:0.41, T:0.29
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:2679668 original size:42 final size:43
Alignment explanation
Indices: 2679621--2679789 Score: 236
Period size: 43 Copynumber: 4.0 Consensus size: 43
2679611 GTTATGATAT
2679621 TGACCC-GACTATGTGCGAGT-GGGAGTGCACATAAGCCGATGC
1 TGACCCAG-CTATGTGCGAGTAGGGAGTGCACATAAGCCGATGC
* **
2679663 TGACCCCGCTATGTGCGAGT-GGGAGTGCGTATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAAGCCGATGC
* * *
2679705 TGACCCAGCTATGTGGGAGTAGGGAGTACGCATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAAGCCGATGC
* *
2679748 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATGAGCTGATG
1 TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAAGCCGATG
2679790 ATGATGAGGT
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 56 0.49
43 58 0.51
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (43 bp):
TGACCCAGCTATGTGCGAGTAGGGAGTGCACATAAGCCGATGC
Found at i:2679741 original size:85 final size:85
Alignment explanation
Indices: 2679621--2679776 Score: 244
Period size: 85 Copynumber: 1.8 Consensus size: 85
2679611 GTTATGATAT
* *
2679621 TGACCCGACTATGTGCGAGTGGGAGTGCACATAAGCCGATGCTGACCCCGCTATGTGCGAGT-GG
1 TGACCCGACTATGTGCGAGTGGGAGTACACATAAGCCGATGCTGACCCAGCTATGTGCGAGTAGG
2679685 GAGTGCGTATAAGCCGATGC
66 GAGTGCGTATAAGCCGATGC
* *
2679705 TGACCC-AGCTATGTGGGAGTAGGGAGTACGCATAAGCCGATGCTGACCCAGCTATGTGCGAGTA
1 TGACCCGA-CTATGTGCGAGT-GGGAGTACACATAAGCCGATGCTGACCCAGCTATGTGCGAGTA
2679769 GGGAGTGC
64 GGGAGTGC
2679777 ACATGAGCTG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
83 1 0.02
84 17 0.26
85 39 0.60
86 8 0.12
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.20
Consensus pattern (85 bp):
TGACCCGACTATGTGCGAGTGGGAGTACACATAAGCCGATGCTGACCCAGCTATGTGCGAGTAGG
GAGTGCGTATAAGCCGATGC
Found at i:2679744 original size:43 final size:42
Alignment explanation
Indices: 2679621--2679776 Score: 233
Period size: 42 Copynumber: 3.7 Consensus size: 42
2679611 GTTATGATAT
*
2679621 TGACCC-GACTATGTGCGAGTGGGAGTGCACATAAGCCGATGC
1 TGACCCAG-CTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* *
2679663 TGACCCCGCTATGTGCGAGTGGGAGTGCGTATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
* *
2679705 TGACCCAGCTATGTGGGAGTAGGGAGTACGCATAAGCCGATGC
1 TGACCCAGCTATGTGCGAGT-GGGAGTGCGCATAAGCCGATGC
2679748 TGACCCAGCTATGTGCGAGTAGGGAGTGC
1 TGACCCAGCTATGTGCGAGT-GGGAGTGC
2679777 ACATGAGCTG
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
42 56 0.54
43 48 0.46
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.20
Consensus pattern (42 bp):
TGACCCAGCTATGTGCGAGTGGGAGTGCGCATAAGCCGATGC
Found at i:2682424 original size:84 final size:84
Alignment explanation
Indices: 2682273--2682455 Score: 215
Period size: 84 Copynumber: 2.2 Consensus size: 84
2682263 GTAATGATAT
* * * *
2682273 TGACCCGACTATGTGTGAGTAGAAGTGTGCATAAGCTGATGCTGACCAGGCTATGTGAGAGGGGG
1 TGACCCGGCTATGTGTGAGGAGAAGTGTGCATAAGCCGATGCTGACCAGGCTATGTGAGAGGAGG
*
2682338 AGTGCGCATAAGCCGATGC
66 AGTGCACATAAGCCGATGC
* * * ** *
2682357 TGACCCGGCTATGTGTGAGGGGGAGTGTGCATAAGCCGATGCTGACCTA-GTTATGTGTTAGTAG
1 TGACCCGGCTATGTGTGAGGAGAAGTGTGCATAAGCCGATGCTGACC-AGGCTATGTGAGAGGAG
**
2682421 GAGTGCACATAAGTTGATGC
65 GAGTGCACATAAGCCGATGC
* *
2682441 TGACCCAGCCATGTG
1 TGACCCGGCTATGTG
2682456 CTAGTGGGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 82 0.99
85 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (84 bp):
TGACCCGGCTATGTGTGAGGAGAAGTGTGCATAAGCCGATGCTGACCAGGCTATGTGAGAGGAGG
AGTGCACATAAGCCGATGC
Found at i:2682455 original size:42 final size:42
Alignment explanation
Indices: 2682273--2682468 Score: 191
Period size: 42 Copynumber: 4.7 Consensus size: 42
2682263 GTAATGATAT
* * * *
2682273 TGACCC-GACTATGTGTGAGTAGAAGTGTGCATAAGCTGATGC
1 TGACCCAG-CTATGTGTGAGTGGGAGTGCGCATAAGCCGATGC
* *
2682315 TGA-CCAGGCTATGTGAGAGGGGGAGTGCGCATAAGCCGATGC
1 TGACCCA-GCTATGTGTGAGTGGGAGTGCGCATAAGCCGATGC
* * *
2682357 TGACCCGGCTATGTGTGAGGGGGAGTGTGCATAAGCCGATGC
1 TGACCCAGCTATGTGTGAGTGGGAGTGCGCATAAGCCGATGC
* * * * * **
2682399 TGACCTAGTTATGTGTTAGTAGGAGTGCACATAAGTTGATGC
1 TGACCCAGCTATGTGTGAGTGGGAGTGCGCATAAGCCGATGC
*
2682441 TGACCCAGCCATGTGCT-AGTGGGAGTGC
1 TGACCCAGCTATGTG-TGAGTGGGAGTGC
2682469 ATATGAGCTG
Statistics
Matches: 127, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.02
42 121 0.95
43 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.35, T:0.24
Consensus pattern (42 bp):
TGACCCAGCTATGTGTGAGTGGGAGTGCGCATAAGCCGATGC
Found at i:2682514 original size:2 final size:2
Alignment explanation
Indices: 2682509--2682533 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2682499 ATGGTGATGG
2682509 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2682534 CATAGATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2688654 original size:20 final size:20
Alignment explanation
Indices: 2688629--2688667 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2688619 TAATGAATGT
*
2688629 TTGATGATGATTGATAATAC
1 TTGATGATAATTGATAATAC
2688649 TTGATGATAATTGATAATA
1 TTGATGATAATTGATAATA
2688668 GTGCTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (20 bp):
TTGATGATAATTGATAATAC
Found at i:2689216 original size:27 final size:27
Alignment explanation
Indices: 2689168--2689220 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
2689158 ATTAGTATCA
2689168 AGCTTTATAATTGTCTATTCTTTCTTG
1 AGCTTTATAATTGTCTATTCTTTCTTG
2689195 AGCTTTA-AATTGATC-ATATCTTTCTT
1 AGCTTTATAATTG-TCTAT-TCTTTCTT
2689221 AAATGTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.23, C:0.15, G:0.09, T:0.53
Consensus pattern (27 bp):
AGCTTTATAATTGTCTATTCTTTCTTG
Found at i:2691197 original size:35 final size:33
Alignment explanation
Indices: 2691152--2691276 Score: 103
Period size: 35 Copynumber: 3.7 Consensus size: 33
2691142 TTAGTTGCTA
* *
2691152 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTGTC
1 GGTTGTGGTTGA-CCTGTGAAAAACCATTGTTG-C
* *
2691187 GGTTGTGGTTGCACCTTTGAAAAACCACT-TTG-
1 GGTTGTGGTTG-ACCTGTGAAAAACCATTGTTGC
* *
2691219 GGTTTTGGTTGAGCTTGTGAAAAACCATTG-TGAAC
1 GGTTGTGGTTGA-CCTGTGAAAAACCATTGTTG--C
*
2691254 GGTTGTGGTTGAGCCTTTGAAAA
1 GGTTGTGGTTGA-CCTGTGAAAA
2691277 GCCACTTTGG
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
31 1 0.01
32 25 0.34
34 3 0.04
35 43 0.59
36 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.28, T:0.35
Consensus pattern (33 bp):
GGTTGTGGTTGACCTGTGAAAAACCATTGTTGC
Found at i:2691240 original size:32 final size:32
Alignment explanation
Indices: 2691169--2691289 Score: 104
Period size: 35 Copynumber: 3.6 Consensus size: 32
2691159 GTTGATCCCG
* * *
2691169 TGAAAAACCATTGTTGTCGGTTGTGGTTGCACCTT
1 TGAAAAACCACT-TTG-AGGTTGTGGTTG-AGCTT
*
2691204 TGAAAAACCACTTTG-GGTTTTGGTTGAGCTT
1 TGAAAAACCACTTTGAGGTTGTGGTTGAGCTT
2691235 GTGAAAAACCA-TTGTGAACGGTTGTGGTTGAGCCTT
1 -TGAAAAACCACTT-TG-A-GGTTGTGGTTGAG-CTT
*
2691271 TGAAAAGCCACTTTG-GGTT
1 TGAAAAACCACTTTGAGGTT
2691290 ATAGTTAAGC
Statistics
Matches: 74, Mismatches: 5, Indels: 17
0.77 0.05 0.18
Matches are distributed among these distances:
31 6 0.08
32 26 0.35
34 3 0.04
35 34 0.46
36 5 0.07
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (32 bp):
TGAAAAACCACTTTGAGGTTGTGGTTGAGCTT
Found at i:2691244 original size:67 final size:67
Alignment explanation
Indices: 2691152--2691310 Score: 205
Period size: 67 Copynumber: 2.4 Consensus size: 67
2691142 TTAGTTGCTA
* *
2691152 GGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TCGGTTGTGGTTGCA-CCTTTGAAAAACCAC
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTG-TGAACGGTTGTGGTTG-AGCCTTTGAAAAACCAC
2691215 TTTG
64 TTTG
** *
2691219 GGTTTTGGTTGAGCTTGTGAAAAACCATTGTGAACGGTTGTGGTTGAGCCTTTGAAAAGCCACTT
1 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAACGGTTGTGGTTGAGCCTTTGAAAAACCACTT
2691284 TG
66 TG
* * * *
2691286 GGTTATAGTTAAGCCCGAGAAAAAC
1 GGTTTTGGTTGAGCCCGTGAAAAAC
2691311 TAGTGTTAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 3 0.04
67 76 0.96
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (67 bp):
GGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAACGGTTGTGGTTGAGCCTTTGAAAAACCACTT
TG
Done.