Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 2 of 13
Found at i:161455 original size:33 final size:33
Alignment explanation
Indices: 161408--161473 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
161398 AGTGCACCAG
* *
161408 AGTGCTCATCCATGTGCTGTGAGAGTGGAGTGA
1 AGTGCTCATCCATGTGCTGTGAAAGTGAAGTGA
*
161441 AGTGCTCA-CTCATGTGTTGTGAAAGTGAAGTGA
1 AGTGCTCATC-CATGTGCTGTGAAAGTGAAGTGA
161474 CTAACTCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (33 bp):
AGTGCTCATCCATGTGCTGTGAAAGTGAAGTGA
Found at i:168632 original size:20 final size:20
Alignment explanation
Indices: 168601--168675 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
168591 TTTTACCCAG
*
168601 ATGTACCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
168621 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
168641 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
168661 ATGTATCGATACATT
1 ATGTATCGATACATT
168676 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:168661 original size:40 final size:39
Alignment explanation
Indices: 168601--168678 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
168591 TTTTACCCAG
*
168601 ATGTACCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTACCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
168641 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTACCGATACATTCTTCAATATATCGATACATTATG
168679 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTACCGATACATTCTTCAATATATCGATACATTATGA
Found at i:171885 original size:13 final size:13
Alignment explanation
Indices: 171867--171891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171857 ACACAAAGTA
171867 TGTATCGATACAT
1 TGTATCGATACAT
171880 TGTATCGATACA
1 TGTATCGATACA
171892 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171888 original size:32 final size:33
Alignment explanation
Indices: 171847--171914 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
171837 GTAGCCAAAC
*
171847 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
171879 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
171912 TTG
1 TTG
171915 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:177871 original size:8 final size:8
Alignment explanation
Indices: 177856--177887 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
177846 ATTTGATTAA
177856 ATTTTGTG
1 ATTTTGTG
*
177864 ACTTTGTG
1 ATTTTGTG
177872 ATTTTGTG
1 ATTTTGTG
177880 ATTTTGTG
1 ATTTTGTG
177888 TTGAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.12, C:0.03, G:0.25, T:0.59
Consensus pattern (8 bp):
ATTTTGTG
Found at i:180683 original size:13 final size:13
Alignment explanation
Indices: 180665--180690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
180655 CAATTTTTTG
180665 TGTATCGATACAT
1 TGTATCGATACAT
180678 TGTATCGATACAT
1 TGTATCGATACAT
180691 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:180705 original size:32 final size:33
Alignment explanation
Indices: 180645--180708 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
180635 TACAAGCCAA
** *
180645 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
180678 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
180709 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:185347 original size:15 final size:15
Alignment explanation
Indices: 185327--185357 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
185317 ATTTCGTTTG
*
185327 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
185342 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
185357 G
1 G
185358 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:187189 original size:21 final size:21
Alignment explanation
Indices: 187160--187204 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
187150 AAGTTTTCAT
*
187160 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
187180 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
187202 TTT
1 TTT
187205 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:189436 original size:13 final size:13
Alignment explanation
Indices: 189418--189443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
189408 CAATTTTTTG
189418 TGTATCGATACAT
1 TGTATCGATACAT
189431 TGTATCGATACAT
1 TGTATCGATACAT
189444 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:189458 original size:32 final size:33
Alignment explanation
Indices: 189398--189461 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
189388 TACAAGCCAA
** *
189398 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
189431 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
189462 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:190585 original size:13 final size:13
Alignment explanation
Indices: 190567--190591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190557 ACACAAAGTA
190567 TGTATCGATACAT
1 TGTATCGATACAT
190580 TGTATCGATACA
1 TGTATCGATACA
190592 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:190588 original size:32 final size:33
Alignment explanation
Indices: 190547--190614 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
190537 GTAGCCAAAC
*
190547 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
190579 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
190612 TTG
1 TTG
190615 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:202518 original size:11 final size:11
Alignment explanation
Indices: 202502--202555 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
202492 GGCGTCTTTT
202502 ACAAAAAAAAA
1 ACAAAAAAAAA
202513 ACAAAAAAAAA
1 ACAAAAAAAAA
202524 ACCAAGAAAAAATA
1 A-CAA-AAAAAA-A
*
202538 GCCAAAAAAAAA
1 -ACAAAAAAAAA
*
202550 AGAAAA
1 ACAAAA
202556 GGGTCTAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 16 0.44
12 4 0.11
13 12 0.33
14 4 0.11
ACGTcount: A:0.81, C:0.11, G:0.06, T:0.02
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:203841 original size:28 final size:28
Alignment explanation
Indices: 203767--204944 Score: 1457
Period size: 28 Copynumber: 41.5 Consensus size: 28
203757 TGTTCATCCT
* *
203767 TTTCAAAGCCCACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
203796 TTTAAAAGCCCACGAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
203824 TTTCAAAGCCCACAAGTCAGTGGAACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
203852 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
203880 TTTTCAAAGCCCACAAGTTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
203909 TTTTAAAGCCCAAAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
203937 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
203965 TTTCAAAGCCCATAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
203993 TTTCAAAACCCACAAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
204021 TTTC-AAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204048 TTTCAAAGCCTACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204076 TTTCAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
** * *
204104 TTTTGAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * *
204133 TTTCAAAGCCCACAATTAAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* *
204162 TTTCAAAGCCCATAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204190 TTTCAAAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204218 TTTC-AAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204245 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204273 TTTCAAAGCCCACACAAGTTAGTGGCACTCT
1 TTTCAAAG-CC-CACAAGTCAGTGGCAC-CC
* *
204304 TTTCAAAGCCCACACAAGTTAGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CC
* * *
204336 TTTCAAAGCCCACAGGTCGGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
204365 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204393 TTTCAAAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204421 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204449 TTTCAAAGCCCACACAAGTCAGTGGTACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCC
** *
204479 TTTCAAAGCCCATGAGTCAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
204507 TTTC-AA-CCCACAAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
**
204533 TTTC-AAGCCCACAAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* **
204560 TTTCAAAGCCCACAAGTTAGTGGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
**
204589 TTTCAAAGCCCACAAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
204617 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204645 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
**
204674 TTTCAAATTCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204702 TTTCAAAGCCTACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
* * * *
204731 TTTCAAAGCCCATAAGTTAGTAGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
204759 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204787 TTTCAAAGCCCACGTAAGTTAGTGGCACCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCC
* * * *
204817 TTTCAAAGCCTACAAGTTAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
*
204846 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
204874 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
204902 TTTCAAAGCCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
204931 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
204945 CGAGTTGATG
Statistics
Matches: 1015, Mismatches: 115, Indels: 38
0.87 0.10 0.03
Matches are distributed among these distances:
26 23 0.02
27 74 0.07
28 555 0.55
29 247 0.24
30 75 0.07
31 29 0.03
32 12 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:203885 original size:57 final size:57
Alignment explanation
Indices: 203764--204990 Score: 1490
Period size: 57 Copynumber: 21.5 Consensus size: 57
203754 GAATGTTCAT
* * * *
203764 CCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAAGCCCACGAGTCAGTGACAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC
*
203822 CC-TTTCAAAGCCCACAAGTCAGTGGAACTCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
203878 CCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCAAAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
203935 TC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
203991 TC-TTTCAAAACCCACAAGTCAGTGGCAC-CTTTTC-AAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
204046 CC-TTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAGAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
204102 CCTTTT-GAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAATTAAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC
* * *
204159 TCTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
204215 CCTTTTC-AAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
204271 CC-TTTCAAAGCCCACACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAAGTTAGTGGCAAC
1 CCTTTTCAAAG-CC-CACAAGTCAGTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTGGC-AC
* * * *
204333 TCATTTCAAAGCCCACAGGTCGGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCAC
* *
204391 CC-TTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * **
204447 CC-TTTCAAAGCCCACACAAGTCAGTGGTACCCTTTCAAAGCCCATGAGTCAGTGGCA-
1 CCTTTTCAAAG-CC-CACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
*
204504 CCTTTTC-AA-CCCACAAGTCAGTGGCACTTTTTC-AAGCCCACAAGTCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
204557 CTTTTTCAAAGCCCACAAGTTAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
204614 CTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* ** * *
204671 TCTTTTCAAATTCCACAAGTCAGTGGCACCCTTTCAAAGCCTACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
204728 TCTTTTCAAAGCCCATAAGTTAGTAGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
204785 CC-TTTCAAAGCCCACGTAAGTTAGTGGCACCCTTTCAAAGCCTACAAGTTAGTGGTAC
1 CCTTTTCAAAGCCCAC--AAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
204843 TCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
204900 CC-TTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAAGCCCACACGAGT-TGATGGCAAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACA--AGTCAG-TGGC-AC
* *
204960 TCTTTTCAAAGCCCAAACAAGTTAGTGGCAC
1 CCTTTTCAAAGCCC--ACAAGTCAGTGGCAC
204991 CATTTTTTTA
Statistics
Matches: 1030, Mismatches: 102, Indels: 69
0.86 0.08 0.06
Matches are distributed among these distances:
53 24 0.02
54 21 0.02
55 117 0.11
56 263 0.26
57 363 0.35
58 121 0.12
59 41 0.04
60 7 0.01
61 48 0.05
62 4 0.00
63 21 0.02
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (57 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:203910 original size:85 final size:85
Alignment explanation
Indices: 203767--204996 Score: 1461
Period size: 85 Copynumber: 14.4 Consensus size: 85
203757 TGTTCATCCT
* * * * *
203767 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTAAAAGCCCACGAGTCAGTGACACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
203832 CCCACAAGTCAGTGGAACTC
66 CCCACAAGTCAGTGGCACTC
* *
203852 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
203917 CCCAAAAGTCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
* * * *
203937 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCATAAGTCAGTGGCACTCTTTCAAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
204001 CCCACAAGTCAGTGGCAC-C
66 CCCACAAGTCAGTGGCACTC
* * *
204020 TTTTC-AAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCTACAAGTTAGTGGCACCCTTTCAGA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
*
204083 GCCCACAAGTCAGTGGCACCC
65 GCCCACAAGTCAGTGGCACTC
** * * * * *
204104 TTTTGAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAATTAAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
204169 GCCCATAAGTCAGTGGCACTC
65 GCCCACAAGTCAGTGGCACTC
* * *
204190 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTC-AAGCCCACGAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
204253 CCCACAAGTCAGTGGCA-TCC
66 CCCACAAGTCAGTGGCACT-C
* * * *
204273 TTTCAAAGCCCACACAAGTTAGTGGCACTCTTTTCAAAGCCCACACAAGTTAGTGGCAACTCATT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTT
* *
204338 TCAAAGCCCACAGGTCGGTGGCACTC
60 TCAAAGCCCACAAGTCAGTGGCACTC
* *
204364 TTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAA
204428 GCCCACAAGTCAGTGGCA-TCC
65 GCCCACAAGTCAGTGGCACT-C
* ** *
204449 TTTCAAAGCCCACACAAGTCAGTGGTACCC-TTTCAAAGCCCATGAGTCAGTGGCACCTTTTC-A
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
*
204512 A-CCCACAAGTCAGTGGCACTT
64 AGCCCACAAGTCAGTGGCACTC
* * **
204533 TTTC-AAGCCCACAAGTCAGTGGCA-CTTTTTCAAAGCCCACAAGTTAGTGGCACTTTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
204596 GCCCACAAGTCAGTGGCACTT
65 GCCCACAAGTCAGTGGCACTC
* *
204617 TTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
** *
204681 TTCCACAAGTCAGTGGCACCC
65 GCCCACAAGTCAGTGGCACTC
* * * * * *
204702 TTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTAGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
204767 CCCACAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCACTC
* * * * *
204787 TTTCAAAGCCCACGTAAGTTAGTGGCACCC-TTTCAAAGCCTACAAGTTAGTGGTACTCTTTTCA
1 TTTCAAAGCCCAC--AAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCA
* *
204851 AAGCCCACAAGTTAGTGGCACCC
63 AAGCCCACAAGTCAGTGGCACTC
* * *
204874 TTTCAAAGCCCATAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAATGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAA
*
204938 GCCCACACGAGT-TGATGGCAACTC
65 GCCCACA--AGTCAG-TGGC-ACTC
* *
204962 TTTTCAAAGCCCAAACAAGTTAGTGGCACCATTTT
1 -TTTCAAAGCCC--ACAAGTCAGTGGCACCCTTTT
204997 TTTAAAAAAA
Statistics
Matches: 1000, Mismatches: 107, Indels: 69
0.85 0.09 0.06
Matches are distributed among these distances:
80 1 0.00
81 37 0.04
82 8 0.01
83 112 0.11
84 148 0.15
85 364 0.36
86 147 0.15
87 75 0.08
88 7 0.01
89 31 0.03
90 18 0.02
91 40 0.04
92 12 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTC
Found at i:205532 original size:20 final size:20
Alignment explanation
Indices: 205501--205575 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
205491 TTTTACCCAT
*
205501 ATGTACCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
205521 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
205541 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
205561 ATGTATCGATACATT
1 ATGTATCGATACATT
205576 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:205561 original size:40 final size:39
Alignment explanation
Indices: 205501--205578 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
205491 TTTTACCCAT
*
205501 ATGTACCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTACCGATACATTCTTCAATATATCGATACAT-TATGA
* * *
205541 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTACCGATACATTCTTCAATATATCGATACATTATG
205579 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTACCGATACATTCTTCAATATATCGATACATTATGA
Found at i:209556 original size:33 final size:33
Alignment explanation
Indices: 209514--209578 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
209504 TTTGAAGCAA
209514 TGTATCGATACAAT-T-CATCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
*
209547 TGTATCGATATAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
209579 AATAGTGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:209652 original size:19 final size:19
Alignment explanation
Indices: 209608--209663 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
209598 CTGCCAGTTT
**
209608 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
209628 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
209647 CATGTATCGATACAATG
1 CATGTATCGATACAATG
209664 TATGGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:210714 original size:41 final size:41
Alignment explanation
Indices: 210661--210880 Score: 146
Period size: 41 Copynumber: 5.4 Consensus size: 41
210651 GGTTAGTCAA
210661 GGCAAAACTGATAAAGCCAATACGTTAGAAGGGTTGACAAG
1 GGCAAAACTGATAAAGCCAATACGTTAGAAGGGTTGACAAG
** * * * * *
210702 GGCAAAACTGATAAAGTTAA-CCAATTAAAAGGGTTGGCCAG
1 GGCAAAACTGATAAAGCCAATAC-GTTAGAAGGGTTGACAAG
* ** *
210743 GGCGAAACTGATAAAGCCAATGGGTTAGAAAGGTTGACCAA-
1 GGCAAAACTGATAAAGCCAATACGTTAGAAGGGTTGA-CAAG
* ** ** * *
210784 GGCAAAACTAATAAAATC-A-ACGAATTA-AAAAGTTGGCTAG
1 GGCAAAACTGATAAAGCCAATACG--TTAGAAGGGTTGACAAG
** * * *
210824 GGTGAAACCGATAAAGCCAATA-GATTAGAAGGGATGACTAG
1 GGCAAAACTGATAAAGCCAATACG-TTAGAAGGGTTGACAAG
210865 GGCAAAACTGATAAAG
1 GGCAAAACTGATAAAG
210881 TCAACTAATG
Statistics
Matches: 131, Mismatches: 39, Indels: 18
0.70 0.21 0.10
Matches are distributed among these distances:
39 3 0.02
40 25 0.19
41 100 0.76
42 3 0.02
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (41 bp):
GGCAAAACTGATAAAGCCAATACGTTAGAAGGGTTGACAAG
Found at i:210727 original size:81 final size:79
Alignment explanation
Indices: 210633--210885 Score: 292
Period size: 81 Copynumber: 3.1 Consensus size: 79
210623 GGCAAAGCCA
* * *
210633 AAAGTCAACCAATTAAAAGGTTAGTCAAGGCAAAACTGATAAAGCCAATACGTTAGAAGGGTTGA
1 AAAGTCAACCAATTAAAAGGTT-GCCAGGGCGAAACTGATAAAGCCAATA-GTTAGAAGGGTTGA
210698 CAAGGGCAAAACTGAT
64 CAAGGGCAAAACTGAT
* * *
210714 AAAGTTAACCAATTAAAAGGGTTGGCCAGGGCGAAACTGATAAAGCCAATGGGTTAGAAAGGTTG
1 AAAGTCAACCAATTAAAA-GGTT-GCCAGGGCGAAACTGATAAAGCCAAT-AGTTAGAAGGGTTG
*
210779 ACCAA-GGCAAAACTAAT
63 A-CAAGGGCAAAACTGAT
* * * * * * *
210796 AAAATCAACGAATTAAAAAGTTGGCTAGGGTGAAACCGATAAAGCCAATAGATTAGAAGGGATGA
1 AAAGTCAACCAATTAAAAGGTT-GCCAGGGCGAAACTGATAAAGCCAATAG-TTAGAAGGGTTGA
*
210861 CTAGGGCAAAACTGAT
64 CAAGGGCAAAACTGAT
210877 AAAGTCAAC
1 AAAGTCAAC
210886 TAATGATGAA
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.02
81 74 0.51
82 66 0.45
83 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (79 bp):
AAAGTCAACCAATTAAAAGGTTGCCAGGGCGAAACTGATAAAGCCAATAGTTAGAAGGGTTGACA
AGGGCAAAACTGAT
Found at i:211528 original size:35 final size:35
Alignment explanation
Indices: 210939--211519 Score: 578
Period size: 35 Copynumber: 16.7 Consensus size: 35
210929 TAAATAACTG
**
210939 TGGAAAGAGTTTGACCAGATACATTCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * *
210974 TGGAAAGAGTTTTACCAAATACAGCCAAATGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * * * *
211009 TGGGAATAGTTT-ATCTAGATACAACCAAATGATGA
1 TGGAAAGAGTTTGA-CCAGATACAGCCAAACGATGA
* * * *
211044 TGGCAAGAGTTTAACTAGATACAGTCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
*
211079 TGGAAA-AGTTTGACCAGATATAGCCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
** * * * ** * *
211113 TAAAAAGATTTTGATCAGATATAGTTAAATGATAA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
*
211148 TGGAAAGAGTTTGACCAGATACAGTCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
*** ** *
211183 T-G-AAGAGTTTGGTTAGATGTAGTCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* *
211216 T-GAAAGAGTTTGACTACATACAGCCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* *
211250 TGGAAAGAGTTTTGACCAGATATAACCAAACGATGA
1 TGGAAAGAG-TTTGACCAGATACAGCCAAACGATGA
* * * *
211286 TGCAAAAGTGTTTGACCAGATACAACCAAACAATGA
1 TG-GAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * ** *
211322 TTGAAAAAGTTTGACCAGATACAATCAAAGGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * *
211357 TGGAAAGAGTTTAACTAGATATAGCCAAACGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * *
211392 TGAAAAGAGTTTGACCAAATACAGCCAAACAATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * * * *
211427 TAGAAAGAGTTTAACTAGATACATCCAAACGATGG
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
* * *
211462 TGGAAAGAGTTTAACCAGATATAGCCAAATGATGA
1 TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
211497 TGGAAAGAGTTTGACCAGATACA
1 TGGAAAGAGTTTGACCAGATACA
211520 ATCAAATGAG
Statistics
Matches: 447, Mismatches: 92, Indels: 14
0.81 0.17 0.03
Matches are distributed among these distances:
33 28 0.06
34 56 0.13
35 308 0.69
36 50 0.11
37 5 0.01
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (35 bp):
TGGAAAGAGTTTGACCAGATACAGCCAAACGATGA
Found at i:212923 original size:111 final size:111
Alignment explanation
Indices: 212728--213054 Score: 383
Period size: 111 Copynumber: 2.9 Consensus size: 111
212718 TGGTTAGCCT
** * * *
212728 AAAAATTTCAAAACTGATTGGGTACATGCCCTATTTTCCTAGGCACGAAT-GAATCGAAATGTAT
1 AAAAATTTCAAAACTGATAAGATACATGCCCCATTTTCCTAGGCACGAATAG-GTC-AAATGTAT
*
212792 AAAATTTGAGTTTCTTAAAAATCAGACAAATTTGATGTTGTT-GGATC
64 AAAATATGAGTTTCTTAAAAATCAGACAAATTTGATGTTGTTGGGATC
* * * *
212839 AAAAATTTCAAAAGTGATAAGATACATGCCCCATTTTCCTAAGCACAAATAGGTCAAGTTGTATA
1 AAAAATTTCAAAACTGATAAGATACATGCCCCATTTTCCTAGGCACGAATAGGTCAA-ATGTATA
*
212904 AAATATGAGTTT-TTCAAAAA-CTAGACAAATTTGATGTTGTTGGGCTC
65 AAATATGAGTTTCTT-AAAAATC-AGACAAATTTGATGTTGTTGGGATC
* ** * *
212951 AAAAATTTCAAAACTCATAAGATATGTGCCCCATTTTTCTAGGCACGAATAGGTCAAAATGTATG
1 AAAAATTTCAAAACTGATAAGATACATGCCCCATTTTCCTAGGCACGAATAGGTC-AAATGTATA
* ** *
213016 AAGTATGAGTTTCTTTGTAAATTAGACAAATTTGATGTT
65 AAATATGAGTTTC-TTAAAAATCAGACAAATTTGATGTT
213055 CTTCCAAGTT
Statistics
Matches: 183, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
110 5 0.03
111 86 0.47
112 69 0.38
113 21 0.11
114 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (111 bp):
AAAAATTTCAAAACTGATAAGATACATGCCCCATTTTCCTAGGCACGAATAGGTCAAATGTATAA
AATATGAGTTTCTTAAAAATCAGACAAATTTGATGTTGTTGGGATC
Found at i:213692 original size:13 final size:13
Alignment explanation
Indices: 213674--213698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
213664 TTTTTTCTTT
213674 TTTTTTGTTTTTG
1 TTTTTTGTTTTTG
213687 TTTTTTGTTTTT
1 TTTTTTGTTTTT
213699 CTTATTTAGA
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTGTTTTTG
Found at i:217493 original size:153 final size:153
Alignment explanation
Indices: 217208--217508 Score: 373
Period size: 153 Copynumber: 2.0 Consensus size: 153
217198 ATCCCTGTAA
* * * *
217208 CCCTAAAAGACTTAAAAAGGTTATAGCTAAGGTGAACCTATCCTAAATACCCACCTTCAGTATAA
1 CCCTAAAAGACTTAAAAAGGATATAGATAAGGTGAAACTATCCTAAATACCCACCTTCAGCATAA
* * * *
217273 AAGTGGACCTGGTGATAACCTAAGACTTAGTTTTGAAAAATTACGAAATCCCTCTAGAGGGTACC
66 AAGTGGACCTAGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAATCCCTCTAGAGGGTACC
217338 TTCAACTTAA-AAGTGCCTGATAC
131 TTCAAC-TAAGAAGTGCCTGATAC
*
217361 CCCTAAAAGACTTAAAAAGGAATATAGAT-GGGATGAAACTATCCTAAATA-CCACCTTC-GCCA
1 CCCTAAAAGACTTAAAAAGG-ATATAGATAAGG-TGAAACTATCCTAAATACCCACCTTCAG-CA
* *
217423 TAAAAGTGGATCTAGTGACAACCTAAGACTTAGTTCTAAAAAATTATGAAAATACCC-C-A-AGG
63 TAAAAGTGGACCTAGTGACAACCTAAGACTTAGTTCTAAAAAATTACG-AAAT-CCCTCTAGAGG
* *
217485 GATGCCTTCGACTAAGAAGTGCCT
126 G-TACCTTCAACTAAGAAGTGCCT
217509 AGTAACCCTA
Statistics
Matches: 128, Mismatches: 13, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
152 8 0.06
153 90 0.70
154 27 0.21
155 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (153 bp):
CCCTAAAAGACTTAAAAAGGATATAGATAAGGTGAAACTATCCTAAATACCCACCTTCAGCATAA
AAGTGGACCTAGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAATCCCTCTAGAGGGTACC
TTCAACTAAGAAGTGCCTGATAC
Found at i:217518 original size:153 final size:152
Alignment explanation
Indices: 217152--217473 Score: 382
Period size: 153 Copynumber: 2.1 Consensus size: 152
217142 CTTAATCCTA
* * * * * *
217152 AAAAAATTACGAAAATGCCCT-AAGAGGGTACTTTTAACATGAAAGTATCCCTGTAACCCTAAAA
1 AAAAAATTACG-AAAT-CCCTCTAGAGGGTACCTTCAACTTAAAAG--TGCCTGTAACCCTAAAA
* * * *
217216 GACTTAAAAAGGTTATAGCTAAGGTGAACCTATCCTAAATACCCACCTTCAGTATAAAAGTGGAC
62 GACTTAAAAAGGATATAGATAAGGTGAAACTATCCTAAATACCCACCTTCAGCATAAAAGTGGAC
* * *
217281 CTGGTGATAACCTAAGACTTAGTTTT
127 CTAGTGACAACCTAAGACTTAGTTCT
* *
217307 GAAAAATTACGAAATCCCTCTAGAGGGTACCTTCAACTTAAAAGTGCCTGATACCCCTAAAAGAC
1 AAAAAATTACGAAATCCCTCTAGAGGGTACCTTCAACTTAAAAGTGCCTG-TAACCCTAAAAGAC
* *
217372 TTAAAAAGGAATATAGAT-GGGATGAAACTATCCTAAATA-CCACCTTC-GCCATAAAAGTGGAT
65 TTAAAAAGG-ATATAGATAAGG-TGAAACTATCCTAAATACCCACCTTCAG-CATAAAAGTGGAC
217434 CTAGTGACAACCTAAGACTTAGTTCT
127 CTAGTGACAACCTAAGACTTAGTTCT
*
217460 AAAAAATTATGAAA
1 AAAAAATTACGAAA
217474 ATACCCCAAG
Statistics
Matches: 143, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
152 6 0.04
153 82 0.57
154 45 0.31
155 10 0.07
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (152 bp):
AAAAAATTACGAAATCCCTCTAGAGGGTACCTTCAACTTAAAAGTGCCTGTAACCCTAAAAGACT
TAAAAAGGATATAGATAAGGTGAAACTATCCTAAATACCCACCTTCAGCATAAAAGTGGACCTAG
TGACAACCTAAGACTTAGTTCT
Found at i:218915 original size:12 final size:12
Alignment explanation
Indices: 218898--218923 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
218888 CATTTTATGG
218898 ATGACATCATCC
1 ATGACATCATCC
218910 ATGACATCATCC
1 ATGACATCATCC
218922 AT
1 AT
218924 TCTAGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (12 bp):
ATGACATCATCC
Found at i:219761 original size:10 final size:10
Alignment explanation
Indices: 219746--219771 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
219736 TTTAATGAAA
219746 AATGAAAAAG
1 AATGAAAAAG
219756 AATGAAAAAG
1 AATGAAAAAG
219766 AATGAA
1 AATGAA
219772 TTTTTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (10 bp):
AATGAAAAAG
Found at i:220888 original size:52 final size:53
Alignment explanation
Indices: 220820--220929 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 53
220810 TGTATGTATT
*
220820 GATAC-ATAAAAGAATGTATCAATATATTTGAGTCAAAAATCC-AAAATATATC
1 GATACAATAAAAGAATGTATCAATACATTTGAGTCAAAAA-CCTAAAATATATC
* * * * *
220872 GATACAATAAAA-AATGTTTCAATACATTTGGGTCTAAAACCTAGAATGTATC
1 GATACAATAAAAGAATGTATCAATACATTTGAGTCAAAAACCTAAAATATATC
220924 GATACA
1 GATACA
220930 TTTTCTTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
51 2 0.04
52 42 0.84
53 6 0.12
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (53 bp):
GATACAATAAAAGAATGTATCAATACATTTGAGTCAAAAACCTAAAATATATC
Found at i:221642 original size:37 final size:36
Alignment explanation
Indices: 221387--222159 Score: 225
Period size: 36 Copynumber: 21.8 Consensus size: 36
221377 AAACGTGGAC
*
221387 CAAAAA-TCTTCAAAGCTTCTCTTAAGGATATTT--T
1 CAAAAACT-TTCAAAGCCTCTCTTAAGGATATTTCAT
*** * * *
221421 CATAAAACCACCAAAACCTCTCTT-GGAGATATTTAAT
1 CA-AAAACTTTCAAAGCCTCTCTTAAG-GATATTTCAT
* * *
221458 AAAAAATTTTTAAAGCCAT-TCTTGAA-GATATTTCAT
1 CAAAAACTTTCAAAGCC-TCTCTT-AAGGATATTTCAT
* * * * *
221494 CGAAAAC-TTCTAAAACCTCTCTTGAGGATATTTTAG
1 CAAAAACTTTC-AAAGCCTCTCTTAAGGATATTTCAT
* ** * * ** *
221530 CAAAACCACT-AAAACCTTTCTCGAGGATACTTCAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * ** * * * *
221565 TAAAAACTTCCAAAGTTTCTCTTGAGCACATTTTAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* *
221601 CAAAAAACTTTCAAAGCCGCTCTTAAGGATATTTCAG
1 C-AAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
** * *
221638 C-AAAACCATCAAAACCTCTCTCAAGGATACTTT-AT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATA-TTTCAT
* * * * *
221673 CAAAGACTTTCAAAGCCTTTTTTATGGACATTTCAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * *
221709 CAAAAAACTTCCAAAGCCTCTTTTAGGGATATTTTAGT
1 C-AAAAACTTTCAAAGCCTCTCTTAAGGATATTTCA-T
* * * * * * *
221747 -AAAATC-TCCAAAACCTTTTTTGAGGATACTTCAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * * *
221781 AAAAAACTTTTAAACCCTC-CTTTGAGGACATTTCAT
1 CAAAAACTTTCAAAGCCTCTC-TTAAGGATATTTCAT
* * * * * *
221817 CATAAAC-TTCTAACGCCTTTTTTAAGGTTGTTTCAT
1 CAAAAACTTTC-AAAGCCTCTCTTAAGGATATTTCAT
* * *
221853 TAAAAACTTTCAAAGCTTCTTTTAAGGATATTTCA-
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * *
221888 -AAAACCTCT-AAAGCCTCTCTTACGGATGTTTCAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * ** * * *
221922 TATAAACTTTTAAAAACTTTTTTAAAGATA-TT--T
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * * * *
221955 CAAAAACCTCCAAAGCCTTTCTCAAAGATACTT-AT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * * * *
221990 TAGATA--TTCTAAAACCT-TACTTAAGGAAATTT-AT
1 CAAAAACTTTC-AAAGCCTCT-CTTAAGGATATTTCAT
* * * * * * *
222024 TAAAGACTTCCAAAGCTTC-CTATAAGAATAGTCCAT
1 CAAAAACTTTCAAAGCCTCTCT-TAAGGATATTTCAT
* * * * * *
222060 CAAAAACCTCCAAAGCCTTTCTCAAGGATACTTAAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * *
222096 -AGAGACTTCCAAAGCCTCTCTTAAGGATA-TTCAT
1 CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
* * *
222130 CCAAAAACTTTTAAAGTCTCTTTTAAGGAT
1 -CAAAAACTTTCAAAGCCTCTCTTAAGGAT
222160 GTTTTAACAA
Statistics
Matches: 525, Mismatches: 174, Indels: 78
0.68 0.22 0.10
Matches are distributed among these distances:
33 45 0.09
34 40 0.08
35 155 0.30
36 220 0.42
37 64 0.12
38 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (36 bp):
CAAAAACTTTCAAAGCCTCTCTTAAGGATATTTCAT
Found at i:221790 original size:108 final size:107
Alignment explanation
Indices: 221387--221826 Score: 388
Period size: 108 Copynumber: 4.1 Consensus size: 107
221377 AAACGTGGAC
* * * *
221387 CAAAAATCTT-CAAAGCTTCTCTTAAGGATATTTTCA-TAAAACCACCAAAACCTCTCTTG-GAG
1 CAAAAAACTTCCAAAGCCTCTCTTAAGGATATTTT-AGCAAAACCACCAAAACCTCTCTCGAG-G
* * * * * * *
221449 ATATTTAATAAAAAATTTTTAAAGCCATTCTTGAAGATATTTCAT
64 ATACTTCATAAAAAACTTTCAAAGCC-TTTTTGAGGACATTTCAT
* * * * * *
221494 C-GAAAACTTCTAAAACCTCTCTTGAGGATATTTTAGCAAAACCACTAAAACCTTTCTCGAGGAT
1 CAAAAAACTTCCAAAGCCTCTCTTAAGGATATTTTAGCAAAACCACCAAAACCTCTCTCGAGGAT
* * * * *
221558 ACTTCATTAAAAACTTCCAAAG-TTTCTCTTGAGCACATTTTAT
66 ACTTCATAAAAAACTTTCAAAGCCTT-T-TTGAGGACATTTCAT
* * * * *
221601 CAAAAAACTTTCAAAGCCGCTCTTAAGGATATTTCAGCAAAACCATCAAAACCTCTCTCAAGGAT
1 CAAAAAACTTCCAAAGCCTCTCTTAAGGATATTTTAGCAAAACCACCAAAACCTCTCTCGAGGAT
* * * *
221666 ACTTTATCAAAGACTTTCAAAGCCTTTTTTATGGACATTTCAT
66 ACTTCATAAAAAACTTTCAAAGCCTTTTTGA-GGACATTTCAT
* * * * * * * *
221709 CAAAAAACTTCCAAAGCCTCTTTTAGGGATATTTTAGTAAAATCTCCAAAACCTTTTTTGAGGAT
1 CAAAAAACTTCCAAAGCCTCTCTTAAGGATATTTTAGCAAAACCACCAAAACCTCTCTCGAGGAT
* * *
221774 ACTTCATAAAAAACTTTTAAACCCTCCTTTGAGGACATTTCAT
66 ACTTCATAAAAAACTTTCAAAGCCT-TTTTGAGGACATTTCAT
*
221817 C-ATAAACTTC
1 CAAAAAACTTC
221827 TAACGCCTTT
Statistics
Matches: 262, Mismatches: 62, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
105 2 0.01
106 7 0.03
107 82 0.31
108 165 0.63
109 6 0.02
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (107 bp):
CAAAAAACTTCCAAAGCCTCTCTTAAGGATATTTTAGCAAAACCACCAAAACCTCTCTCGAGGAT
ACTTCATAAAAAACTTTCAAAGCCTTTTTGAGGACATTTCAT
Found at i:221901 original size:33 final size:33
Alignment explanation
Indices: 221864--221970 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
221854 AAAAACTTTC
221864 AAAGCTTCTTTTAAGGATATTTCAAAAACCTCT
1 AAAGCTTCTTTTAAGGATATTTCAAAAACCTCT
* * * * * *
221897 AAAGCCTCTCTTACGGATGTTTCATTATAAACTTTT
1 AAAGCTTCTTTTAAGGATATTTCA--A-AAACCTCT
* * *
221933 AAAAACTT-TTTTAAAGATATTTCAAAAACCTCC
1 -AAAGCTTCTTTTAAGGATATTTCAAAAACCTCT
221966 AAAGC
1 AAAGC
221971 CTTTCTCAAA
Statistics
Matches: 54, Mismatches: 16, Indels: 9
0.68 0.20 0.11
Matches are distributed among these distances:
32 4 0.07
33 25 0.46
34 1 0.02
35 1 0.02
36 18 0.33
37 5 0.09
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (33 bp):
AAAGCTTCTTTTAAGGATATTTCAAAAACCTCT
Found at i:222522 original size:50 final size:50
Alignment explanation
Indices: 222447--222576 Score: 199
Period size: 50 Copynumber: 2.6 Consensus size: 50
222437 CAAAGTCCAT
* *
222447 ATTAGTTGACACTTAAT-AGAAAGGTCAAGTTGTATCAAGTTAGAGTCTAC
1 ATTAGCTGGCACTTAATAAG-AAGGTCAAGTTGTATCAAGTTAGAGTCTAC
*
222497 ATTAGCTGGCACTTAATAAGAAGGTCAAGTTGTATCAAGTTGGAGTCTAC
1 ATTAGCTGGCACTTAATAAGAAGGTCAAGTTGTATCAAGTTAGAGTCTAC
* *
222547 GTTAGCTGGCACTTAATAAGAAGGTTAAGT
1 ATTAGCTGGCACTTAATAAGAAGGTCAAGT
222577 CCTATAGAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (50 bp):
ATTAGCTGGCACTTAATAAGAAGGTCAAGTTGTATCAAGTTAGAGTCTAC
Found at i:222602 original size:50 final size:50
Alignment explanation
Indices: 222436--222635 Score: 147
Period size: 50 Copynumber: 4.0 Consensus size: 50
222426 ATGTTAAGAG
* * * * ** *
222436 TCAAAGTCCATATTAGTTGACACTTAAT-AGAAAGGTCAAGTTGTATCAAG
1 TCAAAGTCTACATTAGCTGGCACTTAATAAG-AAGGTCAAGTCCTATCAAA
* * ** *
222486 TTAGAGTCTACATTAGCTGGCACTTAATAAGAAGGTCAAGTTGTATCAAG
1 TCAAAGTCTACATTAGCTGGCACTTAATAAGAAGGTCAAGTCCTATCAAA
*** * *
222536 TTGGAGTCTACGTTAGCTGGCACTTAATAAGAAGGTTAAGTCCTAT-AGAA
1 TCAAAGTCTACATTAGCTGGCACTTAATAAGAAGGTCAAGTCCTATCA-AA
* * *
222586 TCAAAGTCCACATTAGCTAGCAAC-TATATAA-AGAGATCAAGTCCTATCAA
1 TCAAAGTCTACATTAGCTGGC-ACTTA-ATAAGA-AGGTCAAGTCCTATCAA
222636 GTTGGGGTCC
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
49 1 0.01
50 101 0.81
51 21 0.17
52 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (50 bp):
TCAAAGTCTACATTAGCTGGCACTTAATAAGAAGGTCAAGTCCTATCAAA
Found at i:222895 original size:50 final size:49
Alignment explanation
Indices: 222804--222943 Score: 154
Period size: 50 Copynumber: 2.8 Consensus size: 49
222794 GCTAGCTCTA
* * * *
222804 GTATAAAGAGGTCAAGCCCTATAGAGTTAAATCCCACATTAACTGGCACTT
1 GTATAAAGAGGTCAAG-CCTATAGAGTCAAGT-CTATATTAACTGGCACTT
* * * *
222855 TTTTAGAGAGGTCAAGCCTATAGAGTCACAGTCTATATTAAGTGGCACTT
1 GTATAAAGAGGTCAAGCCTATAGAGTCA-AGTCTATATTAACTGGCACTT
*
222905 GTATAAAGAGGTCAAACCTTATAGAGTCAAAGTCTATAT
1 GTATAAAGAGGTCAAGCC-TATAGAGTC-AAGTCTATAT
222944 AAATTGTCAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
50 40 0.54
51 33 0.45
52 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (49 bp):
GTATAAAGAGGTCAAGCCTATAGAGTCAAGTCTATATTAACTGGCACTT
Found at i:222961 original size:51 final size:51
Alignment explanation
Indices: 222861--222986 Score: 155
Period size: 51 Copynumber: 2.5 Consensus size: 51
222851 ACTTTTTTAG
* * * * *
222861 AGAGGTCAAGCC-TATAGAGTCACAGTCTATATTAAGTGGCACTTGTATAA
1 AGAGGTCAAACCTTATAGAGTCAAAGTCTATATAAAGTGGCACCTATATAA
* *
222911 AGAGGTCAAACCTTATAGAGTCAAAGTCTATATAAATTGTCACCTATATAA
1 AGAGGTCAAACCTTATAGAGTCAAAGTCTATATAAAGTGGCACCTATATAA
* * *
222962 AAATGTCAAACCTTATAAAGTCAAA
1 AGAGGTCAAACCTTATAGAGTCAAA
222987 ATCCTTATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 11 0.17
51 54 0.83
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (51 bp):
AGAGGTCAAACCTTATAGAGTCAAAGTCTATATAAAGTGGCACCTATATAA
Found at i:223064 original size:51 final size:51
Alignment explanation
Indices: 222995--223147 Score: 131
Period size: 51 Copynumber: 3.1 Consensus size: 51
222985 AAATCCTTAT
* *
222995 TAAGGAGGT-GAAGCCCTATAAAGTTAAAGTTCATATTAGCTAGCACCTATG
1 TAAGGAGGTCAAAG-CCTATAAAGTTAAAGTCCATATTAGCTAGCACCTATG
* *
223046 TAAGGAGGTCAAAGCCTATAGAA-TCAAAGTCCATATT-GCT-GCA--TTTG
1 TAAGGAGGTCAAAGCCTATA-AAGTTAAAGTCCATATTAGCTAGCACCTATG
* * * * **
223093 TATAGGGAGATCAAACCCTATAAAGTTTAAGTCCACACGAGCTAGCACCTA-G
1 TA-A-GGAGGTCAAAGCCTATAAAGTTAAAGTCCATATTAGCTAGCACCTATG
223145 TAA
1 TAA
223148 AGAAGTAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
47 5 0.06
48 3 0.04
49 27 0.33
50 6 0.07
51 31 0.38
52 8 0.10
53 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (51 bp):
TAAGGAGGTCAAAGCCTATAAAGTTAAAGTCCATATTAGCTAGCACCTATG
Found at i:227951 original size:97 final size:98
Alignment explanation
Indices: 227782--228055 Score: 241
Period size: 97 Copynumber: 2.8 Consensus size: 98
227772 ACAGAGCTAG
* * * * * * * * ** * *
227782 AGTATCCCCTCGAAAGCAGGGGGTCGAAGTATCCTTGATGATGATGATTTAAGCAAAAACAAGGT
1 AGTATCCCCTTGAAAACATGGGATTGGAGTATCCTCGATGATGATGAATT-AGGTAAAATAAGAT
* *
227847 TTAAATATTGACA-ACTCT-AAAAATGGGGTTGA
65 TTAAATATTGACATACTCTAAAAAATAGAGTTGA
227879 AGTATCCCCTTGAAAACATGGGATTGGAGTATCCTCGATGAATGATGAATTAGGTAAAATAAGAT
1 AGTATCCCCTTGAAAACATGGGATTGGAGTATCCTCGATG-ATGATGAATTAGGTAAAATAAGAT
* * ** * *
227944 TTGAATATTGATATTTTTTTTAAAAAATAGAGTTGG
65 TTAAATATTGACA--TACTCTAAAAAATAGAGTTGA
* * *
227980 AGTAT-CCCTTCGGAAGA-ATGGAGATTGGAGTATCCCCGATGTATGATAAATTAGGTAAAATAA
1 AGTATCCCCTT--GAAAACATGG-GATTGGAGTATCCTCGATG-ATGATGAATTAGGTAAAATAA
228043 GATTTAAATATTG
62 GATTTAAATATTG
228056 GTTTTTTTTT
Statistics
Matches: 144, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
97 54 0.38
98 9 0.06
100 7 0.05
101 20 0.14
102 54 0.38
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.30
Consensus pattern (98 bp):
AGTATCCCCTTGAAAACATGGGATTGGAGTATCCTCGATGATGATGAATTAGGTAAAATAAGATT
TAAATATTGACATACTCTAAAAAATAGAGTTGA
Found at i:227987 original size:101 final size:101
Alignment explanation
Indices: 227865--228087 Score: 292
Period size: 102 Copynumber: 2.2 Consensus size: 101
227855 TGACAACTCT
* * * * *
227865 AAAAATGGGGTTGAAGTATCCCCTT-GAAAACATGG-GATTGGAGTATCCTCGATGAATGATGAA
1 AAAAATAGAGTTGGAGTATCCCCTTCGAAAA-ATGGAGATTGGAGTATCCCCGATGAATGATAAA
*
227928 TTAGGTAAAATAAGATTTGAATATTGATATTTTTTTTA
65 TTAGGTAAAATAAGATTTAAATATTGAT-TTTTTTTTA
* *
227966 AAAAATAGAGTTGGAGTAT-CCCTTCGGAAGAATGGAGATTGGAGTATCCCCGATGTATGATAAA
1 AAAAATAGAGTTGGAGTATCCCCTTC-GAAAAATGGAGATTGGAGTATCCCCGATGAATGATAAA
*
228030 TTAGGTAAAATAAGATTTAAATATTGGTTTTTTTTTA
65 TTAGGTAAAATAAGATTTAAATATTGATTTTTTTTTA
228067 AAAAA-AGAGGGTTGGAGTATC
1 AAAAATAGA--GTTGGAGTATC
228088 TCTTCAAAAC
Statistics
Matches: 107, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
100 8 0.07
101 34 0.32
102 65 0.61
ACGTcount: A:0.36, C:0.08, G:0.23, T:0.33
Consensus pattern (101 bp):
AAAAATAGAGTTGGAGTATCCCCTTCGAAAAATGGAGATTGGAGTATCCCCGATGAATGATAAAT
TAGGTAAAATAAGATTTAAATATTGATTTTTTTTTA
Found at i:228026 original size:102 final size:100
Alignment explanation
Indices: 227896--228092 Score: 297
Period size: 102 Copynumber: 1.9 Consensus size: 100
227886 CCTTGAAAAC
* * *
227896 ATGGGATTGGAGTATCCTCGATGAATGATGAATTAGGTAAAATAAGATTTGAATATTGATATTTT
1 ATGGGATTGGAGTATCCCCGATGAATGATAAATTAGGTAAAATAAGATTTAAATATTGAT-TTTT
227961 TTTTAAAAAATAGA-GTTGGAGTATCCCTTCGGAAGA
65 TTTTAAAAAA-AGAGGTTGGAGTATCCCTTCGGAAGA
* *
227997 ATGGAGATTGGAGTATCCCCGATGTATGATAAATTAGGTAAAATAAGATTTAAATATTGGTTTTT
1 ATGG-GATTGGAGTATCCCCGATGAATGATAAATTAGGTAAAATAAGATTTAAATATTGATTTTT
*
228062 TTTTAAAAAAAGAGGGTTGGAGTATCTCTTC
65 TTTTAAAAAAAGA-GGTTGGAGTATCCCTTC
228093 AAAACAACGG
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
100 3 0.03
101 18 0.21
102 66 0.76
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.36
Consensus pattern (100 bp):
ATGGGATTGGAGTATCCCCGATGAATGATAAATTAGGTAAAATAAGATTTAAATATTGATTTTTT
TTTAAAAAAAGAGGTTGGAGTATCCCTTCGGAAGA
Found at i:229705 original size:20 final size:20
Alignment explanation
Indices: 229682--229719 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
229672 ATAATGAGAA
*
229682 ATGTATTGATACAATTTCTT
1 ATGTATCGATACAATTTCTT
229702 ATGTATCGATACAATTTC
1 ATGTATCGATACAATTTC
229720 CTTCCAGAAT
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:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACAATTTCTT
Found at i:232303 original size:5 final size:5
Alignment explanation
Indices: 232276--232334 Score: 68
Period size: 5 Copynumber: 11.8 Consensus size: 5
232266 AGATTTTTAG
* *
232276 AAAA- AAAAT AAAAGT GAAA- AAAAT AAAAA ATAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT
232326 AAAAT AAAA
1 AAAAT AAAA
232335 ATGATGTAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
4 7 0.15
5 32 0.68
6 8 0.17
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:232310 original size:26 final size:25
Alignment explanation
Indices: 232276--232336 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
232266 AGATTTTTAG
*
232276 AAAAAAAATAAAAGTGAAA-AAAATA
1 AAAAAAAATAAAA-TAAAATAAAATA
232301 AAAAATAAATAAAATAAAATAAAATA
1 AAAAA-AAATAAAATAAAATAAAATA
232327 AAATAAAAAT
1 AAA-AAAAAT
232337 GATGTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 9 0.28
26 21 0.66
27 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.16
Consensus pattern (25 bp):
AAAAAAAATAAAATAAAATAAAATA
Found at i:233598 original size:16 final size:15
Alignment explanation
Indices: 233554--233602 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 15
233544 TGATCAAAAT
*
233554 CAAAATAATTTAAATA
1 CAAAATAATTTAGA-A
233570 CAAAATAATTTAGAA
1 CAAAATAATTTAGAA
233585 CTAAAATAATTTAGAA
1 C-AAAATAATTTAGAA
233601 CA
1 CA
233603 GAACAACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
15 3 0.10
16 28 0.90
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (15 bp):
CAAAATAATTTAGAA
Found at i:233840 original size:56 final size:57
Alignment explanation
Indices: 233773--233882 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
233763 AAGGTGCGAG
* *
233773 GGAACTACATGTTTCTATGTAGTTAT-AAAAAGACACGGCATGAAAATAGTTCAATT
1 GGAACTACATGTTTCTAAGTAGCTATAAAAAAGACACGGCATGAAAATAGTTCAATT
*
233829 GGAACTACATGTTTCTAAGTAGCTATAAAAAAGAGACGGCATGAAAATAGTTCA
1 GGAACTACATGTTTCTAAGTAGCTATAAAAAAGACACGGCATGAAAATAGTTCA
233883 GTTCTTTTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
56 24 0.48
57 26 0.52
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (57 bp):
GGAACTACATGTTTCTAAGTAGCTATAAAAAAGACACGGCATGAAAATAGTTCAATT
Found at i:236758 original size:129 final size:128
Alignment explanation
Indices: 236612--236845 Score: 339
Period size: 129 Copynumber: 1.8 Consensus size: 128
236602 TTTCCAAAGT
* *
236612 TTTTATATAGTATAATGCATTCACAATTATAAATAAAACAAAGAGACATATACATAATTACCGAT
1 TTTTATATAGTAAAATGCATTCACAATTATAAATAAAAC--A-A-ACATATACATAATTACAGAT
236677 TAC-T-A-AAAAATCATATCAAAGATCAAATTAAATTGAAATTAAAATTTCTCATTTTCTTTTAG
62 TACTTAACAAAAATCATATCAAAGATCAAATTAAATTGAAATTAAAATTTCTCATTTTCTTTTAG
236739 AG
127 AG
* * *
236741 TTTTATATAGTAAAATGCATTCACAATTATAGATAAAACAAACATTTACATAATTACATATTACT
1 TTTTATATAGTAAAATGCATTCACAATTATAAATAAAACAAACATATACATAATTACAGATTACT
***
236806 TAACAAAAATCATATTGCAGATCAAATTAAATTGAAATTA
66 TAACAAAAATCATATCAAAGATCAAATTAAATTGAAATTA
236846 CATCTCAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
125 20 0.21
126 2 0.02
127 2 0.02
128 33 0.35
129 37 0.39
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (128 bp):
TTTTATATAGTAAAATGCATTCACAATTATAAATAAAACAAACATATACATAATTACAGATTACT
TAACAAAAATCATATCAAAGATCAAATTAAATTGAAATTAAAATTTCTCATTTTCTTTTAGAG
Found at i:237870 original size:20 final size:20
Alignment explanation
Indices: 237814--237870 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
237804 ACATGCCATG
*
237814 TTGTATCAATACAATGTACA
1 TTGTATCGATACAATGTACA
** * *
237834 TTGTATCGATATTATGTGCT
1 TTGTATCGATACAATGTACA
*
237854 TTGTATTGATACAATGT
1 TTGTATCGATACAATGT
237871 CAAGTTTTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACAATGTACA
Found at i:245106 original size:27 final size:27
Alignment explanation
Indices: 245021--245496 Score: 460
Period size: 27 Copynumber: 17.3 Consensus size: 27
245011 CTTATCAAAT
** *
245021 TCCACAACTTTGTGCCACCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
*
245049 TCCACAACTCTGTGGCACCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
* * *
245077 TCCATAACTCCATGGCATCTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTAAAG
* * *
245104 TCCACAGCTCCGTGGCACCCTTTAAAA
1 TCCACAACTCCGTGGCACCTTTTAAAG
* * *
245131 TCCATAACTCTGTGCCACCTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTTAAAG
* *
245158 TCTACAACTCTGTGGCATCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
* *
245186 TCAACAACTCCATGGCACCCTTTT-AAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
* * *
245213 TCCACAACTCTGTGGTAGCCCTTTTTAAG
1 TCCACAACTCCGTGGCA--CCTTTTAAAG
* *
245242 TCCATAACTCCGTGGCACCTTTCAAAG
1 TCCACAACTCCGTGGCACCTTTTAAAG
* *
245269 TCCATAACTCCATGGCACCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
* *
245297 TCAACAACTCCGTGGTACCCTTTT-AAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
*
245324 TCCACAACTTCGTGGCACCCTTTT-AAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
*
245351 TCCACAACTCCATGGCAACCTTTT-AAG
1 TCCACAACTCCGTGGC-ACCTTTTAAAG
*
245378 TCCACAACTTCGTGGCATCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
*
245406 TCCACAACTTCGTGGCATCCTTTT-AAG
1 TCCACAACTCCGTGGCA-CCTTTTAAAG
*
245433 TCCACAACTCCGTGGCATCCTTTTCACAG
1 TCCACAACTCCGTGGCA-CCTTTT-AAAG
* *
245462 -CTCACAAATCAGTGGCACCTTTTCAAAG
1 TC-CACAACTCCGTGGCACCTTTT-AAAG
*
245490 CCCACAA
1 TCCACAA
245497 GTCAATGGCA
Statistics
Matches: 385, Mismatches: 52, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.00
27 201 0.52
28 150 0.39
29 33 0.09
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (27 bp):
TCCACAACTCCGTGGCACCTTTTAAAG
Found at i:245109 original size:55 final size:54
Alignment explanation
Indices: 245021--245540 Score: 474
Period size: 55 Copynumber: 9.4 Consensus size: 54
245011 CTTATCAAAT
** *
245021 TCCACAACTTTGTGCCACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAG
1 TCCACAACTCCGTGGCA-CCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAG
* * * * * *
245077 TCCATAACTCCATGGCATCTTTTAAAGTCCACAGCTCCGTGGCACCC-TTTAAAA
1 TCCACAACTCCGTGGCACCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAG
* * * * *
245131 TCCATAACTCTGTGCCACCTTTTAAAGTCTACAACTCTGTGGCATCCTTTTAAAG
1 TCCACAACTCCGTGGCACCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAG
* * * *
245186 TCAACAACTCCATGGCACCCTTTTAAGTCCACAACTCTGTGGTAGCCCTTTTTAAG
1 TCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAAG
* * * **
245242 TCCATAACTCCGTGGCACCTTTCAAAGTCCATAACTCCATGGCACCCTTTTAAAG
1 TCCACAACTCCGTGGCACCTTT-TAAGTCCACAACTCTGTGGCACCCTTTTAAAG
* *
245297 TCAACAACTCCGTGGTACCCTTTTAAGTCCACAACT-TCGTGGCACCCTTTT-AAG
1 TCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAAG
* *
245351 TCCACAACTCCATGGCAACCTTTTAAGTCCACAACT-TCGTGGCATCCTTTTAAAG
1 TCCACAACTCCGTGGC-ACCTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAAG
* * * *
245406 TCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTCACAG
1 TCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAAG
* * * * ** *
245462 -CTCACAAATCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAG
1 TC-CACAACTCCGTGGCACCTTTT--AAGTCCACAACTCTGTGGCACCCTTTTAAAG
* * * *
245518 CCCATAAGTCAGTGGCATCCTTT
1 TCCACAACTCCGTGGCA-CCTTT
245541 CAAAAGCCAA
Statistics
Matches: 385, Mismatches: 63, Indels: 31
0.80 0.13 0.06
Matches are distributed among these distances:
54 94 0.24
55 171 0.44
56 93 0.24
57 27 0.07
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (54 bp):
TCCACAACTCCGTGGCACCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAG
Found at i:245456 original size:82 final size:82
Alignment explanation
Indices: 245036--245496 Score: 506
Period size: 82 Copynumber: 5.6 Consensus size: 82
245026 AACTTTGTGC
* * *
245036 CACCCTTTTAAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCATAACTCCATGGCAT-CTTTT
1 CACCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTT
* *
245100 AAAGTCCACAGCTCCGTGG
65 -AAGTCCACAACTCCATGG
* * * * *
245119 CACCCTTTAAAATCCATAACTCTGTGCCA-CCTTTTAAAGTCTACAAC-TCTGTGGCATCCTTTT
1 CACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTC-GTGGCATCCTTTT
*
245182 AAAGTCAACAACTCCATGG
65 -AAGTCCACAACTCCATGG
* * * *
245201 CACCCTTTTAAGTCCACAACTCTGTGGTAGCCCTTTTTAAGTCCATAACTCCGTGGCA-CCTTTC
1 CACCCTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAAAGTCCACAACTTCGTGGCATCCTTT-
* *
245265 AAAGTCCATAACTCCATGG
64 TAAGTCCACAACTCCATGG
* * * *
245284 CACCCTTTTAAAGTCAACAACTCCGTGGTACCCTTTT-AAGTCCACAACTTCGTGGCACCCTTTT
1 CACCCTTTT-AAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTT
245348 AAGTCCACAACTCCATGG
65 AAGTCCACAACTCCATGG
* *
245366 CAACCTTTTAAGTCCACAACT-TCGTGGCATCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTT
1 CACCCTTTTAAGTCCACAACTCT-GTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTT
*
245430 AAGTCCACAACTCCGTGG
65 AAGTCCACAACTCCATGG
* * * *
245448 CATCCTTTTCACAG-CTCACAAATCAGTGGCA-CCTTTTCAAAGCCCACAA
1 CACCCTTTT-A-AGTC-CACAACTCTGTGGCACCCTTTT-AAAGTCCACAA
245497 GTCAATGGCA
Statistics
Matches: 323, Mismatches: 40, Indels: 29
0.82 0.10 0.07
Matches are distributed among these distances:
80 1 0.00
81 44 0.14
82 156 0.48
83 58 0.18
84 63 0.20
85 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.29
Consensus pattern (82 bp):
CACCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTA
AGTCCACAACTCCATGG
Found at i:245495 original size:28 final size:28
Alignment explanation
Indices: 245389--246032 Score: 572
Period size: 28 Copynumber: 22.8 Consensus size: 28
245379 CCACAACTTC
* *
245389 GTGGCATCCTTTT-AAAGTCCACAACTTC-
1 GTGGCA-CCTTTTCAAAGCCCACAA-GTCA
* * *
245417 GTGGCATCCTTTT--AAGTCCACAACTCC
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245444 GTGGCATCCTTTTCACAGCTCACAAATCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
245473 GTGGCACCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
245501 ATGGCACCCTTTCAAAGCCCATAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245529 GTGGCATCC-TTTCAAAAGCCAACAAGTTA
1 GTGGCA-CCTTTTC-AAAGCCCACAAGTCA
* * * *
245558 GTGGCATCTTTTTAAAGCCCTCAAGTCG
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245586 GTGGCATCTTTTCAAAGCCCATAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245614 ATGGCATCCTTTTCAAAGCCGAC-AGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* *
245642 GTGGCACCTTTTCAAAGCCCACGAGTTA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * * *
245670 GTGGCATCTCTTCAAAGCCTACAAATCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
*
245698 GTGGCATCC-TTCCAAAGCCCACAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245726 ATGGCATCTTTTCAAAGCCTACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* * *
245754 ATGGCATCCTTTTTAAAGCCCATAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* *
245783 GTGGCATCCTTTT-AAAGACCACAAGTTA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
*
245811 GTGGCACCTATTCAAAGCCCACAAGAT-A
1 GTGGCACCTTTTCAAAGCCCACAAG-TCA
* * *
245839 GTGGTACCTTTTAAAAGCCCACAAGTCG
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245867 GTGGCACCTTTTCGAAGCCCACACAAGTCG
1 GTGGCACCTTTTCAAAG-CC-CACAAGTCA
** * * *
245897 GTGGCATTATTTTTAAAGCCTATAAGTCA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245926 GTGGCATCC-TTTCAAAGACCATAAGACA
1 GTGGCA-CCTTTTCAAAGCCCACAAGTCA
* * *
245954 GTGACACCTTTTCAAAGCCTACGAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
* *
245982 GAGGCACCTTCTCAAAGCCCACAAGTCA
1 GTGGCACCTTTTCAAAGCCCACAAGTCA
246010 GTGGCATCCTTTT-AAAGCCCACA
1 GTGGCA-CCTTTTCAAAGCCCACA
246033 CAAGTCGGTG
Statistics
Matches: 506, Mismatches: 91, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.00
27 47 0.09
28 330 0.65
29 103 0.20
30 17 0.03
31 7 0.01
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
GTGGCACCTTTTCAAAGCCCACAAGTCA
Found at i:245612 original size:113 final size:110
Alignment explanation
Indices: 245390--246028 Score: 577
Period size: 113 Copynumber: 5.7 Consensus size: 110
245380 CACAACTTCG
* * * * * *
245390 TGGCATCCTTTT-AAAGTCCACAACTTC-GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCATC
1 TGGCA-CCTTTTCAAAGCCCACAA-GTCAGTGGCA-CCTTTCAAAGCCCACAAGTCAGTGGCAT-
* * * * *
245452 CTTTTCACAGCTCACAAATCAGTGGCACCTTTTCAAAGCCCACAAGTCAA
62 CTTTTTAAAGC-CTCAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAA
* * * *
245502 TGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAAGCCAACAAGTTAGTGGCATCT
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
245567 TTTTAAAGCCCTCAAGTCGGTGGCATCTTTTCAAAGCCCATAAGTCAA
64 TTTTAAAG-CCTCAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAA
* * *
245615 TGGCATCCTTTTCAAAGCCGAC-AGTCAGTGGCACCTTTTCAAAGCCCACGAGTTAGTGGCATCT
1 TGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
245679 CTTCAAAGCCTACAAATCAGTGGCATCCTTCCAAAGCCCACAAGTCAA
64 TTTTAAAGCCT-CAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAA
* * * * * *
245727 TGGCATCTTTTCAAAGCCTACAAGTCAATGGCATCCTTTTTAAAGCCCATAAGTCAGTGGCATCC
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA-CC-TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
245792 TTTTAAAGACCACAAGTTAGTGGCACCTATTCAAAGCCCACAAGAT-AG
64 TTTTAAAG-CCTCAAGTCAGTGGCATCTTTTCAAAGCCCACAAG-TCAA
* * * * *
245840 TGGTACCTTTTAAAAGCCCACAAGTCGGTGGCACCTTTTCGAAGCCCACACAAGTCGGTGGCATT
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAG-CC-CACAAGTCAGTGGCA-T
* * * * * * *
245905 ATTTTTAAAGCCTATAAGTCAGTGGCATCCTTTCAAAGACCATAAGACAG
62 CTTTTTAAAGCCT-CAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAA
* * * * *
245955 TGACACCTTTTCAAAGCCTACGAGTCAGAGGCACCTTCTCAAAGCCCACAAGTCAGTGGCATCCT
1 TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTT-TCAAAGCCCACAAGTCAGTGGCATCTT
246020 TTTAAAGCC
65 TTTAAAGCC
246029 CACACAAGTC
Statistics
Matches: 430, Mismatches: 79, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
111 24 0.06
112 122 0.28
113 163 0.38
114 52 0.12
115 69 0.16
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (110 bp):
TGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACAAGTCAGTGGCATCTTT
TTAAAGCCTCAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAA
Found at i:246074 original size:143 final size:140
Alignment explanation
Indices: 245434--246063 Score: 471
Period size: 141 Copynumber: 4.4 Consensus size: 140
245424 CCTTTTAAGT
* * * * * * * *
245434 CCACAACTCCGTGGCATCCTTTTCACAGCTCACA-AA-TCAGTGGCACCTTTTCAAAGCCCACAA
1 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTTTAAAGCCCATAA
* * * * * * *
245497 GTCAATGGCACCCTTTCAAAGCCCATAAGTCAGTGGCATCCT-TTCAAAAGCCAACAAGTTAGTG
65 GT--ATGGCATCCTTTCAAAGACCACAAGACAGTGACA-CCTATTC-AAAGCCTACAAGTCAGTG
* * *
245561 GCATCTTTTTAAAGC
126 GCACCTTCTCAAAGC
* * * ** * * *
245576 CCTCAAGTCGGTGGCAT-CTTTTCAAAG-CC-CATAAGTCAATGGCATCCTTTTCAAAGCCGA-C
1 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCAT--TTTTTAAAGCCCATA
* * ** * * * *
245637 AGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTTAGTGGCATCTCTTCAAAGCCTACAAATCAGTG
64 AGT-A-TGGCATCC-TTTCAAAGACCACAAGACAGTGACACCTATTCAAAGCCTACAAGTCAGTG
245701 GCATCCTTC-CAAAGC
126 GCA-CCTTCTCAAAGC
* * **
245716 CCACAAGTCAATGGCAT-CTTTTCAAAG-CC-TACAAGTCAATGGCATCCTTTTTAAAGCCCATA
1 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCAT--TTTTTAAAGCCCATA
* ** * *
245778 AGTCAGTGGCATCCTTTTAAAGACCACAAGTTAGTGGCACCTATTCAAAGCCCACAAGAT-AGTG
64 AGT-A-TGGCATCCTTTCAAAGACCACAAGACAGTGACACCTATTCAAAGCCTACAAG-TCAGTG
* * *
245842 GTACCTTTTAAAAGC
126 GCACCTTCTCAAAGC
* * *
245857 CCACAAGTCGGTGGCA-CCTTTTCGAAGCCCACACAAGTCGGTGGCATTATTTTTAAAGCCTATA
1 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCA-T-TTTTTAAAGCCCATA
* * * *
245921 AGTCAGTGGCATCCTTTCAAAGACCATAAGACAGTGACACCTTTTCAAAGCCTACGAGTCAGAGG
64 AGT-A-TGGCATCCTTTCAAAGACCACAAGACAGTGACACCTATTCAAAGCCTACAAGTCAGTGG
245986 CACCTTCTCAAAGC
127 CACCTTCTCAAAGC
246000 CCACAAGTCAGTGGCATCCTTTT-AAAGCCCACACAAGTCGGTGGCAATTTTCTCTAAAGCCCAT
1 CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGC-ATTTT-T-TAAAGCCCAT
246064 TCAAGTTGGC
Statistics
Matches: 406, Mismatches: 61, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
139 2 0.00
140 88 0.22
141 135 0.33
142 35 0.09
143 129 0.32
144 17 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (140 bp):
CCACAAGTCAGTGGCATCCTTTTCAAAGCCCACACAAGTCGGTGGCATTTTTTAAAGCCCATAAG
TATGGCATCCTTTCAAAGACCACAAGACAGTGACACCTATTCAAAGCCTACAAGTCAGTGGCACC
TTCTCAAAGC
Found at i:246859 original size:20 final size:20
Alignment explanation
Indices: 246834--247015 Score: 110
Period size: 20 Copynumber: 8.8 Consensus size: 20
246824 TTTTTACCCA
246834 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
246854 AATGTATCGATATATTCTATCTTTTTACC
1 AATGTATCG--ATA--C-A--TTTTT--C
*
246883 TAGATGTATCGATACATTTTTT
1 -A-ATGTATCGATACATTTTTC
** *
246905 AATGTATCGATACA-TGATG
1 AATGTATCGATACATTTTTC
246924 AATGTATCGATACATTCTTT-
1 AATGTATCGATACATT-TTTC
246944 AATGTATCGATACA----T-
1 AATGTATCGATACATTTTTC
*
246959 -ATGTATCGATACATTTTACC
1 AATGTATCGATACATTTT-TC
* *
246979 TAGATGTATCGGTACATTGTTC
1 -A-ATGTATCGATACATTTTTC
247001 AATGTATCGATACAT
1 AATGTATCGATACAT
247016 CTAGTTAAAA
Statistics
Matches: 129, Mismatches: 11, Indels: 44
0.70 0.06 0.24
Matches are distributed among these distances:
14 13 0.10
15 1 0.01
19 16 0.12
20 50 0.39
21 3 0.02
22 4 0.03
23 15 0.12
24 6 0.05
25 1 0.01
26 1 0.01
27 6 0.05
29 4 0.03
30 1 0.01
31 8 0.06
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:246903 original size:24 final size:20
Alignment explanation
Indices: 246886--247015 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
246876 TTTTACCTAG
246886 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
** *
246906 ATGTATCGATACA-TGATGA
1 ATGTATCGATACATTTTTTA
*
246925 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTTTTTA
246945 ATGTATCGATACA-----T-
1 ATGTATCGATACATTTTTTA
*
246959 ATGTATCGATACATTTTACCTA
1 ATGTATCGATACATTTT--TTA
* * *
246981 GATGTATCGGTACATTGTTCA
1 -ATGTATCGATACATTTTTTA
247002 ATGTATCGATACAT
1 ATGTATCGATACAT
247016 CTAGTTAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
14 13 0.15
15 1 0.01
19 16 0.18
20 42 0.47
21 2 0.02
23 15 0.17
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:246945 original size:39 final size:37
Alignment explanation
Indices: 246886--247015 Score: 133
Period size: 39 Copynumber: 3.4 Consensus size: 37
246876 TTTTACCTAG
246886 ATGTATCGATACATTTTTTAATGTATCGATACATGATGA
1 ATGTATCGATACA-TTTTTAATGTATCGATACATGAT-A
246925 ATGTATCGATACATTCTTTAATGTATCGATAC---AT-
1 ATGTATCGATACATT-TTTAATGTATCGATACATGATA
* *
246959 ATGTATCGATACATTTTACCTAGATGTATCGGTACATTGTTCA
1 ATGTATCGATACATTTT---TA-ATGTATCGATACA-TGAT-A
247002 ATGTATCGATACAT
1 ATGTATCGATACAT
247016 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 2, Indels: 18
0.80 0.02 0.18
Matches are distributed among these distances:
33 2 0.03
34 15 0.19
36 4 0.05
37 11 0.14
38 2 0.03
39 29 0.37
41 1 0.01
43 14 0.18
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (37 bp):
ATGTATCGATACATTTTTAATGTATCGATACATGATA
Found at i:246964 original size:14 final size:14
Alignment explanation
Indices: 246945--246972 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
246935 ACATTCTTTA
246945 ATGTATCGATACAT
1 ATGTATCGATACAT
246959 ATGTATCGATACAT
1 ATGTATCGATACAT
246973 TTTACCTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:246989 original size:23 final size:20
Alignment explanation
Indices: 246959--247015 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
246949 ATCGATACAT
246959 ATGTATCGATACATT-TTACCTA
1 ATGTATCGATACATTGTT--C-A
*
246981 GATGTATCGGTACATTGTTCA
1 -ATGTATCGATACATTGTTCA
247002 ATGTATCGATACAT
1 ATGTATCGATACAT
247016 CTAGTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 13 0.42
21 1 0.03
22 1 0.03
23 14 0.45
24 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTGTTCA
Found at i:247005 original size:96 final size:90
Alignment explanation
Indices: 246834--247015 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 90
246824 TTTTTACCCA
* *
246834 AATGTATCGATACATTTTTCAATGTATCGATATATTCTATCTTTTTACCTAGATGTATCGATACA
1 AATGTATCGATACATTTTTCAATGTATCGATATATTCGATCATTTTACCTAGATGTATCGATACA
* *
246899 TTTTTTAATGTATCGATACATGATG
66 TTGTTCAATGTATCGATACATGATG
246924 AATGTATCGATACATTCTTT-AATGTATCGATACATATGTATCGATACATTTTACCTAGATGTAT
1 AATGTATCGATACATT-TTTCAATGTATCGAT--ATA--T-TCGAT-CATTTTACCTAGATGTAT
*
246988 CGGTACATTGTTCAATGTATCGATACAT
59 CGATACATTGTTCAATGTATCGATACAT
247016 CTAGTTAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
90 27 0.34
91 3 0.04
92 3 0.04
94 1 0.01
95 4 0.05
96 42 0.52
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (90 bp):
AATGTATCGATACATTTTTCAATGTATCGATATATTCGATCATTTTACCTAGATGTATCGATACA
TTGTTCAATGTATCGATACATGATG
Found at i:255806 original size:100 final size:98
Alignment explanation
Indices: 255669--256008 Score: 291
Period size: 100 Copynumber: 3.5 Consensus size: 98
255659 TAGACTTGAA
** * *
255669 GAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGCCAAT
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATAAAGATGCCAAT
* * *
255734 ATGCTGATTCAAGGCCAACGATATCGGACTTAAGAT-
62 ATGCTGATTCAAGGCCAACAATATCGGACTCAAAATG
* * *
255770 GAAGATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATGC
1 GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGATGCCAATATGC
* *
255835 TGATTCAAGGCCAGCAATATTGGACTCAAAATG
66 TGATTCAAGGCCAACAATATCGGACTCAAAATG
* * * * * *
255868 GTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAAG-TGCTAATGT
1 G--AAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGATGCCAATAT
* * * * * * * *
255927 GCTGATTCAAGGCTAGCGACATTGGTCTTCAAGATA
64 GCTGATTCAAGGCCAACAATATCGGAC-TCAAAATG
* * * *
255963 AAAG-TGCCAATATGCTGATTCAAAGCCAACGATATTGGACTTAAAG
1 GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
256009 GTGCCACGGA
Statistics
Matches: 203, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
92 36 0.18
93 3 0.01
94 30 0.15
95 10 0.05
96 1 0.00
97 44 0.22
98 3 0.01
100 72 0.35
101 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (98 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGATGCCAATATGC
TGATTCAAGGCCAACAATATCGGACTCAAAATG
Found at i:255841 original size:49 final size:49
Alignment explanation
Indices: 255631--256008 Score: 326
Period size: 49 Copynumber: 7.8 Consensus size: 49
255621 CGAAGAATGA
* * * * *
255631 CAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGAA--TGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATA-AAGGTGC
* ** * * *
255678 CAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATAAAGGTGC
* * * *
255730 CAATATGCTGATTCAAGGCCAACGATATCGGACTT-AAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * *
255778 CAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * *
255827 CAATATGCTGATTCAAGGCCAGCAATATTGGACTCAAAATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACT-TAAA-GATAAAGGTGC
* *
255878 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A-AAA-GTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * * * *
255921 TAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTCAAGATAAAAGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* *
255970 CAATATGCTGATTCAAAGCCAACGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAG
256009 GTGCCACGGA
Statistics
Matches: 269, Mismatches: 47, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
43 34 0.13
44 3 0.01
47 30 0.11
48 42 0.16
49 78 0.29
50 6 0.02
51 44 0.16
52 32 0.12
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
Found at i:255945 original size:43 final size:43
Alignment explanation
Indices: 255869--256014 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 43
255859 CTCAAAATGG
*
255869 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
* * * * *
255912 TAAAAGTGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTT
1 TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T
* *
255956 CAAGATAAAAGTGCCAATATGCTGATTCAAAGCCAACGATATTGGACT
1 -----TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
*
256004 TAAAGGTGCCA
1 TAAAAGTGCCA
256015 CGGAGTTGTG
Statistics
Matches: 83, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
43 46 0.55
44 1 0.01
48 1 0.01
49 35 0.42
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (43 bp):
TAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:255970 original size:143 final size:148
Alignment explanation
Indices: 255622--256003 Score: 463
Period size: 143 Copynumber: 2.6 Consensus size: 148
255612 TTGAAGACGC
* * * * * * *
255622 GAAGAATGACAATGTGCTGATTCATGGCCAGCGACATTAGACTTGAAGA-AGAA-TGCCAATGTG
1 GAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATG
** * * * * *
255685 CTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCC
65 CTGATTCAAGGCCAACGATATTGGACTCAGAAATGGTAAAGATGCCAATATGCTGATTCAAGGCC
255750 AACGATATCGGACTTAAGA
130 AACGATATCGGACTTAAGA
* * *
255769 TGAAGATGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGCCAATATG
1 -GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATG
* * *
255834 CTGATTCAAGGCCAGCAATATTGGACTCA-AAATGGTAAAGGTGCCAATATGCTGATTCAAGGCC
65 CTGATTCAAGGCCAACGATATTGGACTCAGAAATGGTAAAGATGCCAATATGCTGATTCAAGGCC
* *
255898 AGCGATATTGGACTT-A-A
130 AACGATATCGGACTTAAGA
* * *
255915 -AAG-TGCTAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTCAAGATAAAAGTGCCAATATGC
1 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGC
*
255978 TGATTCAAAGCCAACGATATTGGACT
66 TGATTCAAGGCCAACGATATTGGACT
256004 TAAAGGTGCC
Statistics
Matches: 201, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
143 77 0.38
144 3 0.01
146 1 0.00
147 38 0.19
148 51 0.25
149 31 0.15
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (148 bp):
GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAAGTGCCAATATGC
TGATTCAAGGCCAACGATATTGGACTCAGAAATGGTAAAGATGCCAATATGCTGATTCAAGGCCA
ACGATATCGGACTTAAGA
Found at i:256048 original size:34 final size:34
Alignment explanation
Indices: 256008--256350 Score: 237
Period size: 34 Copynumber: 10.6 Consensus size: 34
255998 TGGACTTAAA
*
256008 GGTGCCACGGAGTTGTGGACTT-ATAGGAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * * *
256041 GGATGCCACAGAGGTGTGGGCTTAAAAGGGAAAAG
1 GG-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* ** *
256076 GGTGCCACAGAGTCATGGACTTAAAAAG-AAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
256108 GGTGCCACGCAGTTGTGGACTTAAAAGGAATAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * *
256141 GATACCACTGAGTTGTGGACTTAAAAGGAAAAA-
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
256174 GATGCCA-TGAGTTGTGGACTT-------AAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
*
256200 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAA
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* * * * **
256234 AGTGTCACAGAGTTGTGGGCTTTAAAAATAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAG
* *
256268 TGTGCCACAGAGTTGTGGACTT-------AAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
*
256295 GGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAA-
1 GGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAG
**
256329 GGTGCCACAAAGTTGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
256351 TGGGAAGAGA
Statistics
Matches: 252, Mismatches: 36, Indels: 44
0.76 0.11 0.13
Matches are distributed among these distances:
25 4 0.02
26 10 0.04
27 32 0.13
28 2 0.01
32 37 0.15
33 47 0.19
34 94 0.37
35 26 0.10
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
Found at i:256160 original size:33 final size:32
Alignment explanation
Indices: 256005--256753 Score: 346
Period size: 32 Copynumber: 23.8 Consensus size: 32
255995 TATTGGACTT
* * *
256005 AAAGGTGCCACGGAGTTGTGGACTT-ATAGGAA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGG-A
* *
256037 AAAGGGATGCCACAGAGGTGTGGGCTTAAAAGGGA
1 AAA--GATGCCACAGAGTTGTGGACTTAAAA-GGA
* ** *
256072 AAAGGGTGCCACAGAGTCATGGACTTAAAAAGA
1 AAA-GATGCCACAGAGTTGTGGACTTAAAAGGA
*
256105 AAAGGTGCCAC-GCAGTTGTGGACTTAAAAGGA
1 AAAGATGCCACAG-AGTTGTGGACTTAAAAGGA
* *
256137 ATAAGATACCACTGAGTTGTGGACTTAAAAGGAA
1 A-AAGATGCCACAGAGTTGTGGACTTAAAAGG-A
*
256171 AAAGATGCCA-TGAGTTGTGGACTTAAAAGG-
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
*
256201 ---G-TGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGG-A
* * * **
256230 AAAAAGTGTCACAGAGTTGTGGGCTTTAAAAATA
1 AAAGA-TGCCACAGAGTTGTGGAC-TTAAAAGGA
256264 AAA-ATGTGCCACAGAGTTGTGGACTTAAAAGG-
1 AAAGA--TGCCACAGAGTTGTGGACTTAAAAGGA
*
256296 ---G-TGCCACAGAGTTGTGGACTTTGAAAAGAA
1 AAAGATGCCACAGAGTTGTGGAC-TT-AAAAGGA
* * **
256326 AAAGGTGCCACAAAGTTGTGGACTT--TGGGA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * ** **
256356 AGAGATGCCACTGAGTCATGGACTT-TGA-GA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* **
256386 AAAGATTGCCACTA-AGTCGTGGACTT--TGGGA
1 AAAGA-TGCCAC-AGAGTTGTGGACTTAAAAGGA
* * * * *
256417 AGAGATGCGACTGAGTCGTGGACTTAGAA--A
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * *
256447 AGAGAAGCCACTGAGTTGTGGACTATGAAGAA--A
1 AAAGATGCCACAGAGTTGTGGACT-T-AA-AAGGA
* * ** *
256480 AAAGATGCCACTGAGTCGTGGACTTGGAAGAA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* ** *
256512 AAAGATGCCACTGAGTCATGGACTTAGAA--A
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * **
256542 AGAGATGCCACTGAGTTGTGGACTTTGAA-GA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * * **
256573 AAAGATGCCACTGAGTCGTAGACTT-TGA-GA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * * **
256603 AGAGATTGCCACTGAGTCGTGGACTTGGAA-GA
1 AAAGA-TGCCACAGAGTTGTGGACTTAAAAGGA
*
256635 AAAGGATGCCA-ATGAGTTGTGGACTTAGAA-GA
1 AAA-GATGCCACA-GAGTTGTGGACTTAAAAGGA
* * *
256667 AAAGGATGCCACTGAGTCGTGGACTTAGAA--A
1 AAA-GATGCCACAGAGTTGTGGACTTAAAAGGA
* * * **
256698 AGAGATGCCACTGAGTTATGGACTTTGAA-GA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
* * *
256729 AAAGATGCTACTGAGTCGTGGACTT
1 AAAGATGCCACAGAGTTGTGGACTT
256754 TGGGACAAAA
Statistics
Matches: 583, Mismatches: 89, Indels: 91
0.76 0.12 0.12
Matches are distributed among these distances:
26 5 0.01
27 38 0.07
28 2 0.00
29 5 0.01
30 124 0.21
31 92 0.16
32 132 0.23
33 75 0.13
34 96 0.16
35 12 0.02
36 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (32 bp):
AAAGATGCCACAGAGTTGTGGACTTAAAAGGA
Found at i:256300 original size:95 final size:93
Alignment explanation
Indices: 255998--256350 Score: 351
Period size: 95 Copynumber: 3.7 Consensus size: 93
255988 CCAACGATAT
* ** *
255998 TGGACTT-AAA-GGTGCCACGGAGTTGTGGACTT-ATAGGAAAAAGGGATGCCACAGAGGTGTGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAG-TGCCACAGAGTTGTGG
* * **
256060 GCTTAAAAGGGAAAAGGGTGCCACAGAGTCA
65 ACTTAAAA-GGAAAA-AGTGCCACAGAGTTG
* * * * *
256091 TGGACTTAAAAAGAAAAGGTGCCACGCAGTTGTGGACTTAAAAGGAATAAGA-TACCACTGAGTT
1 TGGACTT-AAAAG----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGAGTT
*
256155 GTGGACTTAAAAGGAAAAAGATGCCA-TGAGTTG
61 GTGGACTTAAAAGGAAAAAG-TGCCACAGAGTTG
* *
256188 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGTCACAGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGAGTTGTGGA
**
256253 CTTTAAAAATAAAAATGTGCCACAGAGTTG
66 C-TTAAAAGGAAAAA-GTGCCACAGAGTTG
* * *
256283 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-G-AAAAAGGTGCCACAAAGTTGTG
1 TGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAAAGTGCCACAGAGTTGTG
256346 GACTT
64 GACTT
256351 TGGGAAGAGA
Statistics
Matches: 218, Mismatches: 27, Indels: 29
0.80 0.10 0.11
Matches are distributed among these distances:
92 32 0.15
93 21 0.10
94 18 0.08
95 62 0.28
96 8 0.04
97 16 0.07
98 11 0.05
99 20 0.09
100 21 0.10
101 9 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.22
Consensus pattern (93 bp):
TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGAGTTGTGGA
CTTAAAAGGAAAAAGTGCCACAGAGTTG
Found at i:256387 original size:61 final size:61
Alignment explanation
Indices: 256297--257131 Score: 853
Period size: 61 Copynumber: 13.4 Consensus size: 61
256287 CTTAAAAGGG
* * * ** * *
256297 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTG---AGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
256361 TGCCACTGAGTCATGGACTTTGAG-AAAAGATTGCCACTAAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA-TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * *
256422 TGCGACTGAGTCGTGGAC-TT-AGAAAAGAGAAGCCACTGAGTTGTGGACTATGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* * * *
256485 TGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTGAGTCATGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
256547 TGCCACTGAGTTGTGGACTTTGA-AGAAAAGATGCCACTGAGTCGTAGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * * *
256608 TTGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCAATGAGTTGTGGACTTAGAAGAAAAGGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAAGATGCCACTGAGTCGTGGACTTTG-AGAAGA-GA
** *
256673 TGCCACTGAGTCGTGGAC-TT-AGAAAAGAGATGCCACTGAGTTATGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * * * *
256734 TGCTACTGAGTCGTGGACTTTGGGACAAA-ATGCCACTAAGTCATGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * * * *
256794 TTACCAATGAGTCGTGGACTTGGAAGAAAAGGATACCACTGAGTCGTGGACTTAGAAAAGAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * * * * *
256857 TGCCACTGAGTTGTAGACTTT-TGAAAAA-ATACCACTGAGTCGTGGACTTCGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
256919 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTGAG--AAGAGA
* * * * *
256983 TGCCACTGAGTTGTGGGCTTTGAGAAAAGAGATGCCACTGAGTTGAGGACTTTGAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
257045 TGCCACTGAGTC-TGGGCTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
257106 TGCCATTGAGTCGTGGACTTTGAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
257132 GAGAGATTTG
Statistics
Matches: 658, Mismatches: 85, Indels: 58
0.82 0.11 0.07
Matches are distributed among these distances:
59 24 0.04
60 42 0.06
61 206 0.31
62 148 0.22
63 82 0.12
64 107 0.16
65 43 0.07
66 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (61 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:256515 original size:32 final size:31
Alignment explanation
Indices: 256297--257131 Score: 839
Period size: 32 Copynumber: 26.8 Consensus size: 31
256287 CTTAAAAGGG
* * *
256297 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGG
1 TGCCACTGAGTCGTGGACTTTG---AGAAAAAGA
** * * *
256331 TGCCACAAAGTTGTGGACTTTG-GGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
256361 TGCCACTGAGTCATGGACTTTGAG-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
* * *
256391 TTGCCACTAAGTCGTGGACTTTG-GGAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
256422 TGCGACTGAGTCGTGGAC-TT-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
* * *
256452 AGCCACTGAGTTGTGGACTATGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAAGA
*
256485 TGCCACTGAGTCGTGGACTTGGAAGAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAAGA
*
256517 TGCCACTGAGTCATGGAC-TT-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
*
256547 TGCCACTGAGTTGTGGACTTTGA-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAAGA
* *
256578 TGCCACTGAGTCGTAGACTTTGAG-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
* *
256608 TTGCCACTGAGTCGTGGACTTGGAAGAAAAGGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAAGA
* * * *
256641 TGCCAATGAGTTGTGGACTTAGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAAAAGA
256673 TGCCACTGAGTCGTGGAC-TT-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
**
256703 TGCCACTGAGTTATGGACTTTGA-AGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGA-AAAAGA
* * *
256734 TGCTACTGAGTCGTGGACTTTGGGACAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
* * *
256764 TGCCACTAAGTCATGGACTTTGAG-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
* * * *
256794 TTACCAATGAGTCGTGGACTTGGAAGAAAAGGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAAAAGA
*
256827 TACCACTGAGTCGTGGAC-TT-AGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
* * *
256857 TGCCACTGAGTTGTAGACTTT-TGAAAAA-A
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
* *
256886 TACCACTGAGTCGTGGACTTCGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG-AAAAAGA
256919 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
256951 TGCCACTGAGTCGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
* *
256983 TGCCACTGAGTTGTGGGCTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
* *
257015 TGCCACTGAGTTGAGGACTTTGAG-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
257045 TGCCACTGAGTC-TGGGCTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAA-AGA
*
257076 TGCCACTGAGTTGTGGACTTTGAG-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
*
257106 TGCCATTGAGTCGTGGACTTTGAGAA
1 TGCCACTGAGTCGTGGACTTTGAGAA
257132 GAGAGATTTG
Statistics
Matches: 677, Mismatches: 87, Indels: 77
0.80 0.10 0.09
Matches are distributed among these distances:
29 52 0.08
30 187 0.28
31 155 0.23
32 203 0.30
33 55 0.08
34 25 0.04
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAAAAGA
Found at i:256748 original size:342 final size:336
Alignment explanation
Indices: 256290--257135 Score: 1021
Period size: 342 Copynumber: 2.5 Consensus size: 336
256280 TTGTGGACTT
* * **
256290 AAAAGGGTGCCACA-GAGTTGTGGACTTTGAAAAGAAAAAGG-TGCCACAAAGTTGTGGACTTTG
1 AAAAGGATGCCA-ATGAGTTGTGGAC-TT-AGAAG-AAAAGGATGCCACTGAGTTGTGGACTTTG
** * *
256353 GGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAAGATTGCCACTAAGTCGTGGACTTTGGGAA
62 AAAAGAGATGCCACTGAGTTATGGACTTTGAGAAAAGA-TGCCACTGAGTCGTGGACTTTGGGAA
* * * * *
256418 GAGATGCGACTGAGTCGTGGACTTAGAAAAGAGA-AGCCACTGAGTTGTGGACTAT-GAAGAAAA
126 -AGATGCCACTGAGTCGTGGACTTTGAGAAGAGATA-CCAATGAGTCGTGGACT-TGGAAG-AAA
* *
256481 AAGATGCCACTGAGTCGTGGACTTGGAAGAAAA-AGATGCCACTGAGTCATGGAC-TTAGAAAAG
187 AAGATACCACTGAGTCGTGGACTT---AGAAAAGAGATGCCACTGAGTCATAGACTTTAGAAAA-
* * *
256544 AGATGCCACTGAGTTGTGGACTTTGAAG-AAAAGATGCCACTGAGTCGTAGACTTTGAG-AAGAG
248 A-ATACCACTGAGTCGTGGACTTCGAAGAAAAAGATGCCACTGAGTCGTAGACTTTGAGAAAGAG
256607 ATTGCCACTGAGTCGTGGACTTGGAAG
312 A-TGCCACTGAGTCGTGGACTTGG-AG
* *
256634 AAAAGGATGCCAATGAGTTGTGGACTTAGAAGAAAAGGATGCCACTGAGTCGTGGACTTAGAAAA
1 AAAAGGATGCCAATGAGTTGTGGACTTAGAAGAAAAGGATGCCACTGAGTTGTGGACTTTGAAAA
* *
256699 GAGATGCCACTGAGTTATGGACTTTGAAGAAAAGATGCTACTGAGTCGTGGACTTTGGGACAAAA
66 GAGATGCCACTGAGTTATGGACTTTG-AGAAAAGATGCCACTGAGTCGTGGACTTTGGGA-AAGA
* * *
256764 TGCCACTAAGTCATGGACTTTGAGAAGAGATTACCAATGAGTCGTGGACTTGGAAGAAAAGGATA
129 TGCCACTGAGTCGTGGACTTTGAGAAGAGA-TACCAATGAGTCGTGGACTTGGAAGAAAAAGATA
** *
256829 CCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTAGACTTTTGAAAAAATACCACTG
193 CCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCATAGACTTTAGAAAAAATACCACTG
*
256894 AGTCGTGGACTTCGAAGAAAAAAGATGCCACTGAGTCGTGGACTTTGAGAAAAGAGATGCCACTG
258 AGTCGTGGACTTCGAAG-AAAAAGATGCCACTGAGTCGTAGACTTTGAG-AAAGAGATGCCACTG
*
256959 AGTCGTGGACTTTGAG
321 AGTCGTGGACTTGGAG
* * * *
256975 AAAAGAGATGCCACTGAGTTGTGGGCTTTG-AGAAAAGAGATGCCACTGAGTTGAGGACTTTGAG
1 AAAAG-GATGCCAATGAGTTGTGGACTTAGAAGAAAAG-GATGCCACTGAGTTGTGGACTTTGA-
* * * *
257039 AAA-AGATGCCACTGAG-TCTGGGCTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAA
63 AAAGAGATGCCACTGAGTTATGGACTTTGAG-AAA-AGATGCCACTGAGTCGTGGACTTTG-GGA
*
257102 AAGATGCCATTGAGTCGTGGACTTTGAGAAGAGA
125 AAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
257136 GATTTGAAGA
Statistics
Matches: 438, Mismatches: 45, Indels: 40
0.84 0.09 0.08
Matches are distributed among these distances:
339 29 0.07
340 21 0.05
341 68 0.16
342 255 0.58
343 42 0.10
344 23 0.05
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (336 bp):
AAAAGGATGCCAATGAGTTGTGGACTTAGAAGAAAAGGATGCCACTGAGTTGTGGACTTTGAAAA
GAGATGCCACTGAGTTATGGACTTTGAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAAGATG
CCACTGAGTCGTGGACTTTGAGAAGAGATACCAATGAGTCGTGGACTTGGAAGAAAAAGATACCA
CTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCATAGACTTTAGAAAAAATACCACTGAGT
CGTGGACTTCGAAGAAAAAGATGCCACTGAGTCGTAGACTTTGAGAAAGAGATGCCACTGAGTCG
TGGACTTGGAG
Found at i:263401 original size:19 final size:18
Alignment explanation
Indices: 263355--263408 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 18
263345 TTTCAACAAT
*
263355 TTGTATCGATACAAATTG
1 TTGTATCGATACAAAGTG
263373 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACA-AAGTG
*
263395 TTGTATCGACACAA
1 TTGTATCGATACAA
263409 TGTATCGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
21 12 0.40
22 5 0.17
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:266616 original size:41 final size:41
Alignment explanation
Indices: 266571--266651 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
266561 ATCAATTTCG
*
266571 GTCATTATTGGATATGACCCCTTTCATCTTGATTATTAATC
1 GTCATTATTGGATATGACCCCATTCATCTTGATTATTAATC
266612 GTCATTATTGGATATGACCCCATTCATCTTGATTATTAAT
1 GTCATTATTGGATATGACCCCATTCATCTTGATTATTAAT
266652 TTATCTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (41 bp):
GTCATTATTGGATATGACCCCATTCATCTTGATTATTAATC
Found at i:271749 original size:27 final size:27
Alignment explanation
Indices: 271700--271781 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
271690 TCTTTTTTTT
* * *
271700 CTTTTAAGTCCACAATTCCGTGGCACC
1 CTTTTAAGTCCACGACTCAGTGGCACC
*
271727 CTTTTAAGTCCACGACTCAGTGGCATC
1 CTTTTAAGTCCACGACTCAGTGGCACC
*
271754 TTTTCTCAAAGTCCACGACTCAGTGGCA
1 CTTT-T--AAGTCCACGACTCAGTGGCA
271782 ACTTTCTCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 26 0.55
28 1 0.02
30 20 0.43
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACGACTCAGTGGCACC
Found at i:271767 original size:30 final size:30
Alignment explanation
Indices: 271732--272031 Score: 214
Period size: 30 Copynumber: 9.7 Consensus size: 30
271722 GCACCCTTTT
271732 AAGTCCACGACTCAGTGGCATCTTTTCTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* **
271762 AAGTCCACGACTCAGTGGCAACTTTCTCCTTTT
1 AAGTCCACGACTCAGTGGCATCTTT-T-C-TCA
* * **
271795 AAGCCCACAACTCCA-TGGCACTCTTTTTTTTCCTTTT
1 AAGTCCACGACT-CAGTGGCA-TC----TTTT-C-TCA
* * * *
271832 AAGTCCACAATTTC-GTGGCACCCTTT-T--
1 AAGTCCACGA-CTCAGTGGCATCTTTTCTCA
271859 AAGTCCACGACTCAGTGGCATCTTTTCTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
** *
271889 AAGTCCATAACTCAGTAGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCA
* * *
271920 AAGTCCATGACTTAGTGGCAATCTCTTCTCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTCA
* * *
271951 AAGTCCATGACTCAGTGGCATCTTGTCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* *
271981 AAGTCCCCGACTCAGTGGCATATTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCA
* *
272012 AAGTCCACAACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCA
272032 CCCTTTTAAG
Statistics
Matches: 219, Mismatches: 33, Indels: 35
0.76 0.11 0.12
Matches are distributed among these distances:
26 2 0.01
27 19 0.09
28 1 0.00
29 1 0.00
30 79 0.36
31 60 0.27
32 11 0.05
33 16 0.07
34 3 0.01
36 1 0.00
37 22 0.10
38 4 0.02
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (30 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTCA
Found at i:271851 original size:37 final size:37
Alignment explanation
Indices: 271788--271858 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
271778 GGCAACTTTC
*
271788 TCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTTT
1 TCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTT
* * * *
271825 TCCTTTTAAGTCCACAATTTCGTGGCACCCTTTT
1 TCCTTTTAAGCCCACAACTCCATGGCACCCTTTT
271859 AAGTCCACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.18, C:0.31, G:0.10, T:0.41
Consensus pattern (37 bp):
TCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTT
Found at i:271876 original size:27 final size:27
Alignment explanation
Indices: 271826--271878 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
271816 TCTTTTTTTT
*
271826 CCTTTTAAGTCCACAATTTC-GTGGCAC
1 CCTTTTAAGTCCACAA-CTCAGTGGCAC
*
271853 CCTTTTAAGTCCACGACTCAGTGGCA
1 CCTTTTAAGTCCACAACTCAGTGGCA
271879 TCTTTTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCAGTGGCAC
Found at i:271886 original size:127 final size:126
Alignment explanation
Indices: 271630--271913 Score: 471
Period size: 127 Copynumber: 2.2 Consensus size: 126
271620 CAAATCTCTC
* * **
271630 TTCTCAAAGTCCAAGACTCAGTGGCACCTTTCTCCTTTTAAGCCCATAACTCTGTGGCACTCTTT
1 TTCTCAAAGTCCAAGACTCAGTGGCAACTTTCTCCTTTTAAGCCCACAACTCCATGGCACTCTTT
271695 TTTTTCTTTTAAGTCCACAATTCCGTGGCACCCTTTTAAGTCCACGACTCAGTGGCATCTT
66 TTTTTCTTTTAAGTCCACAATTCCGTGGCACCCTTTTAAGTCCACGACTCAGTGGCATCTT
*
271756 TTCTCAAAGTCCACGACTCAGTGGCAACTTTCTCCTTTTAAGCCCACAACTCCATGGCACTCTTT
1 TTCTCAAAGTCCAAGACTCAGTGGCAACTTTCTCCTTTTAAGCCCACAACTCCATGGCACTCTTT
*
271821 TTTTTCCTTTTAAGTCCACAATTTCGTGGCACCCTTTTAAGTCCACGACTCAGTGGCATCTT
66 TTTTT-CTTTTAAGTCCACAATTCCGTGGCACCCTTTTAAGTCCACGACTCAGTGGCATCTT
* *
271883 TTCTCAAAGTCCATA-ACTCAGTAGCATCTTT
1 TTCTCAAAGTCCA-AGACTCAGTGGCAACTTT
271914 TCTTCAAAGT
Statistics
Matches: 147, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
126 65 0.44
127 82 0.56
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (126 bp):
TTCTCAAAGTCCAAGACTCAGTGGCAACTTTCTCCTTTTAAGCCCACAACTCCATGGCACTCTTT
TTTTTCTTTTAAGTCCACAATTCCGTGGCACCCTTTTAAGTCCACGACTCAGTGGCATCTT
Found at i:271924 original size:31 final size:30
Alignment explanation
Indices: 271859--272031 Score: 202
Period size: 31 Copynumber: 5.7 Consensus size: 30
271849 GCACCCTTTT
271859 AAGTCCACGACTCAGTGGCATCTTTTCTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
** *
271889 AAGTCCATAACTCAGTAGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCA
* * *
271920 AAGTCCATGACTTAGTGGCAATCTCTTCTCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTCA
* * *
271951 AAGTCCATGACTCAGTGGCATCTTGTCCCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTCA
* *
271981 AAGTCCCCGACTCAGTGGCATATTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTC-TCA
* *
272012 AAGTCCACAACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCA
272032 CCCTTTTAAG
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
30 55 0.45
31 59 0.49
32 7 0.06
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (30 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTCA
Found at i:272030 original size:61 final size:61
Alignment explanation
Indices: 271859--272031 Score: 215
Period size: 61 Copynumber: 2.8 Consensus size: 61
271849 GCACCCTTTT
* * * *
271859 AAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCATAACTCAGTAGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATATTTTCTCAAAGTCCATAACTCAGTGGCATCTTGTCTCCA
* * *
271920 AAGTCCATGACTTAGTGGCA-ATCTCTTCTCAAAGTCCATGACTCAGTGGCATCTTGTC-CCA
1 AAGTCCACGACTCAGTGGCATAT-T-TTCTCAAAGTCCATAACTCAGTGGCATCTTGTCTCCA
* * *
271981 AAGTCCCCGACTCAGTGGCATATTTTCTTCAAAGTCCACAACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCATATTTTC-TCAAAGTCCATAACTCAGTGGCA
272032 CCCTTTTAAG
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
60 4 0.04
61 59 0.62
62 32 0.34
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (61 bp):
AAGTCCACGACTCAGTGGCATATTTTCTCAAAGTCCATAACTCAGTGGCATCTTGTCTCCA
Found at i:272030 original size:92 final size:92
Alignment explanation
Indices: 271859--272031 Score: 238
Period size: 92 Copynumber: 1.9 Consensus size: 92
271849 GCACCCTTTT
* * * *
271859 AAGTCCACGACTCAGTGGCATCTTTTCTCAAAGTCCATAACTCAGTAGCATCTTTTCTTCAAAGT
1 AAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACAACTCAGTAGCATATTTTCTTCAAAGT
** *
271924 CCATGACTTAGTGGCAATCTCTTCTCA
66 CCACAACTCAGTGGCAATCTCTTCTCA
* * * *
271951 AAGTCCATGACTCAGTGGCATCTTGTCCCAAAGTCCCCGACTCAGTGGCATATTTTCTTCAAAGT
1 AAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACAACTCAGTAGCATATTTTCTTCAAAGT
*
272016 CCACAACTCCGTGGCA
66 CCACAACTCAGTGGCA
272032 CCCTTTTAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (92 bp):
AAGTCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACAACTCAGTAGCATATTTTCTTCAAAGT
CCACAACTCAGTGGCAATCTCTTCTCA
Found at i:272050 original size:27 final size:27
Alignment explanation
Indices: 272012--272200 Score: 225
Period size: 27 Copynumber: 6.7 Consensus size: 27
272002 ATTTTCTTCA
272012 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* *
272039 AAGTCCACAACTTCATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
272066 AAGTCCACAACTCCGCGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
* ** *
272093 AAGCCCACAACTTAGTGGCGCTCTTTTTCCTTTT
1 AAGTCCACAACTCCGT-G-GCAC-----CCTTTT
272127 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
** *
272154 AAGTCCACAACTTTGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
272181 AAGTCCACAACTCCGTGGCA
1 AAGTCCACAACTCCGTGGCA
272201 TCTTTCTCTT
Statistics
Matches: 136, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
27 109 0.80
28 1 0.01
29 3 0.02
32 3 0.02
33 1 0.01
34 19 0.14
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:272153 original size:34 final size:34
Alignment explanation
Indices: 272087--272153 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
272077 TCCGCGGCAC
* * *
272087 CCTTTTAAGCCCACAACTTAGTGGCGCTCTTTTT
1 CCTTTTAAGCCCACAACTCAGTGGCACCCTTTTT
* *
272121 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
1 CCTTTTAAGCCCACAACTCAGTGGCACCCTTTT
272154 AAGTCCACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCAGTGGCACCCTTTTT
Found at i:272155 original size:61 final size:60
Alignment explanation
Indices: 272012--272180 Score: 217
Period size: 61 Copynumber: 2.9 Consensus size: 60
272002 ATTTTCTTCA
* *
272012 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCA-TGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTT-AGTGGCACCTTTTTCCTTTT
*
272066 AAGTCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTTAGTGGCGCTCTTTTTCCTTTT
1 AAGTCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTTAGTGGCAC-CTTTTTCCTTTT
* * *
272127 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCACCTTTTT
1 AAGTCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTTAGTGGCACCTTTTT
272181 AAGTCCACAA
Statistics
Matches: 100, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
53 1 0.01
54 42 0.42
56 1 0.01
60 6 0.06
61 50 0.50
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.30
Consensus pattern (60 bp):
AAGTCCACAACTCCGCGGCACCCTTTTAAGCCCACAACTTAGTGGCACCTTTTTCCTTTT
Found at i:272182 original size:88 final size:87
Alignment explanation
Indices: 272033--272240 Score: 263
Period size: 88 Copynumber: 2.4 Consensus size: 87
272023 TCCGTGGCAC
* *
272033 CCTTTTAAGTCCACAACTTCATGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGCC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGCC
* * *
272098 CACAACTTAGTGGCGCTCTTTTT
66 CACAACTCAGTGGC-ATCTTTCT
** * * *
272121 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCACCTTTTTAAGTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGCC
*
272186 CACAACTCCGTGGCATCTTTCT
66 CACAACTCAGTGGCATCTTTCT
* * * * *
272208 CTTTTTAAGCCCACAAGTCTGTGGCACCATTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
272241 TAAAAGCCCA
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 34 0.33
88 70 0.67
ACGTcount: A:0.21, C:0.32, G:0.14, T:0.33
Consensus pattern (87 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGCC
CACAACTCAGTGGCATCTTTCT
Found at i:272309 original size:29 final size:27
Alignment explanation
Indices: 272242--272319 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
272232 CACCATTTTT
**
272242 AAAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAAGCCCACAAGTTGGT-GCAACCTTC
*
272270 AAAAGCACACAAGTTGGTGCAACCCTTTC
1 AAAAGCCCACAAGTTGGTGCAA-CC-TTC
272299 AAAAGCCCACACAAGTTGGTG
1 AAAAG-CC-CACAAGTTGGTG
272320 GCATCTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.10
28 17 0.40
29 8 0.19
30 1 0.02
31 12 0.29
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (27 bp):
AAAAGCCCACAAGTTGGTGCAACCTTC
Found at i:272678 original size:87 final size:87
Alignment explanation
Indices: 272531--272785 Score: 370
Period size: 87 Copynumber: 2.9 Consensus size: 87
272521 ATCTTTAAGA
* * *
272531 CCAATATCGCTGGCCTTGAA-CAAGCATATTGTCACCTTGTCTCTCAGACCAATTTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATC-AGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCT
*
272595 TGAATCAGCACATTGGCATAAAC
65 TGAATCAGCACATTGGCACAAAC
* *
272618 CCAATATCGCTAGCCTCGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATG-CTGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTC-GCTGGCCT
*
272682 TGAATCAGCACATTGGCACAAGC
65 TGAATCAGCACATTGGCACAAAC
* * * *
272705 ACAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
*
272770 GAATCAGCATATTGGC
66 GAATCAGCACATTGGC
272786 GCCTTTATCA
Statistics
Matches: 151, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 148 0.98
88 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAAC
Found at i:272822 original size:52 final size:51
Alignment explanation
Indices: 272706--272889 Score: 239
Period size: 52 Copynumber: 3.6 Consensus size: 51
272696 GGCACAAGCA
* *
272706 CAATATCACTGGCCTTGAATCAGCATATTGGCACC--TT-GTCTTTAAGAC
1 CAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTTCATCTTTAAGAC
* ** *
272754 CAATGTCGTTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTC
1 CAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTT-TCATCTTTAAGAC
* *
272806 CAATATCACTGGCCTTGAATCAGCATATTAGCGTCTTTGTCATCTTTAAGAC
1 CAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTT-TCATCTTTAAGAC
* *
272858 CAATGTCACTGGCCTTGAATCAGCACATTGGC
1 CAATATCACTGGCCTTGAATCAGCATATTGGC
272890 ACAAGCCCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
48 31 0.27
50 1 0.01
51 1 0.01
52 83 0.72
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (51 bp):
CAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTTCATCTTTAAGAC
Found at i:272882 original size:104 final size:100
Alignment explanation
Indices: 272706--272889 Score: 278
Period size: 104 Copynumber: 1.8 Consensus size: 100
272696 GGCACAAGCA
* **
272706 CAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTGGCCTTG
1 CAATATCACTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTG
*
272771 AATCAGCATATTGGCGCCTTTATCATCTTTAAGTC
66 AATCAGCACATTGGCGCCTTTATCATCTTTAAGTC
* *
272806 CAATATCACTGGCCTTGAATCAGCATATTAGCGTCTTTGTCATCTTTAAGACCAATGTCACTGGC
1 CAATATCACTGGCCTTGAATCAGCATATTAGC-ACCTTG---TCTTTAAGACCAATGTCACTGGC
272871 CTTGAATCAGCACATTGGC
62 CTTGAATCAGCACATTGGC
272890 ACAAGCCCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 31 0.42
101 4 0.05
104 39 0.53
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (100 bp):
CAATATCACTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCACTGGCCTTG
AATCAGCACATTGGCGCCTTTATCATCTTTAAGTC
Found at i:273079 original size:101 final size:101
Alignment explanation
Indices: 272907--273732 Score: 1404
Period size: 101 Copynumber: 8.2 Consensus size: 101
272897 CAAATCACTA
272907 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
* *
272972 ACATTGGCACCTTCATCTTTAAGTCCAATATCACTA
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
*
273008 GCCTTGAATCAGTATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
*
273073 ATATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
* * * *
273109 GCCTTGAATCAGTATACTAGTCCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
273174 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
273210 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
273275 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
* * * * *
273311 GCCTTGAGTCAGTATACTAGTCCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
273376 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
273412 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
273477 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
** * **
273513 GCCTTGAATCAGCATATTGACGCCTTCGTCATCTTTAAAACCAATGTCGTTGGCCTTGTCTCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
*
273578 ACATTGGCA--TTCATCTTTAAGTCCAATATCGTTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
*
273612 GCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
1 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
* * *
273677 ACATTGGCACCTTTATCCTTAAGTCCAATATCGTTG
66 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
* * *
273713 GCATTGAATCAACGTATTGG
1 GCCTTGAATCAGCATATTGG
273733 CATCTTTAAC
Statistics
Matches: 686, Mismatches: 37, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
99 94 0.14
101 592 0.86
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (101 bp):
GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTG
Found at i:273160 original size:202 final size:202
Alignment explanation
Indices: 272326--273723 Score: 1769
Period size: 202 Copynumber: 7.2 Consensus size: 202
272316 GGTGGCATCT
* * * *
272326 TCTTCTAAGTCCAATATCACTGGCCTTAAATCAGCATATTGGCACCTT--T-ATCTTTAAGACCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCGTCATCTTTAAAACCA
* * * * *
272388 ATGTTGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCACTGGCCTTGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
* *
272453 ATCAGCATATTGGC-AC--C-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG
130 ATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
*
272514 CATCTTCA
195 CACCTTCA
* * *
272522 TCTTTAAGACCAATATCGCTGGCCTTGAA-CAAGCATATTGTCACCTT-GTC-TC--TCAGACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATC-AGCATATTGTCACCTTCGTCATCTTTAAAACCA
* * * *
272582 ATTTCGCTGGCCTTGAATCAGCACATTGGCA---T-A-----AA-CCCAATATCGCTAGCCTCGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
* *
272637 ATCAGCATATTGGCACCTT-GTC-TC--TAAGACCAATG-CTGCTGGCCTTGAATCAGCACATTG
130 ATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTC-GCTGGCCTTGAATCAGCACATTG
272697 G------CA
194 GCACCTTCA
* * *
272700 -C---AAG-CACAATATCACTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCA
1 TCTTTAAGTC-CAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCGTCATCTTTAAAACCA
* * * *
272756 ATGTCGTTGGCCTTGAATCAGCATATTGGCGCCTTTATCATCTTTAAGTCCAATATCACTGGCCT
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCT
* * * * *
272821 TGAATCAGCATATTAGCGTCTTTGTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
127 TGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
272886 TGG------CA
192 TGGCACCTTCA
* * * *
272891 -C---AAGCCCAA-ATCACTAGCCTTGAATCAGCATATTGGT-GCCTTCGTCATCTTTAAAACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT-GTCACCTTCGTCATCTTTAAAACCA
* *
272950 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTAGCCTTGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
* * *
273015 ATCAGTATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCATATTGG
130 ATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
273080 CACCTTCA
195 CACCTTCA
* *
273088 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATACTAGTC-CCTTCGTCATCTTTAAAACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA-TTGTCACCTTCGTCATCTTTAAAACCA
273152 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
*
273217 ATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
130 ATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
273282 CACCTTCA
195 CACCTTCA
* * *
273290 TCTTTAAGTCCAATATCGCTGGCCTTGAGTCAGTATACTAGTC-CCTTCGTCATCTTTAAAACCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA-TTGTCACCTTCGTCATCTTTAAAACCA
273354 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
65 ATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGA
*
273419 ATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
130 ATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGG
273484 CACCTTCA
195 CACCTTCA
* *
273492 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTCGTCATCTTTAAAACCAA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCGTCATCTTTAAAACCAA
* ** *
273557 TGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCATCTTTAAGTCCAATATCGTTGGCCTTGAA
66 TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
273620 TCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
131 TCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
*
273685 ACCTTTA
196 ACCTTCA
* * *
273692 TCCTTAAGTCCAATATCGTTGGCATTGAATCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCA
273724 ACGTATTGGC
Statistics
Matches: 1085, Mismatches: 67, Indels: 96
0.87 0.05 0.08
Matches are distributed among these distances:
172 2 0.00
173 1 0.00
174 71 0.07
175 1 0.00
177 1 0.00
178 2 0.00
180 1 0.00
181 1 0.00
183 1 0.00
184 65 0.06
185 3 0.00
186 4 0.00
187 34 0.03
188 3 0.00
189 2 0.00
190 29 0.03
191 133 0.12
192 3 0.00
194 77 0.07
195 37 0.03
196 7 0.01
197 2 0.00
198 1 0.00
200 131 0.12
201 10 0.01
202 462 0.43
203 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (202 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTCGTCATCTTTAAAACCAA
TGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGC
ACCTTCA
Found at i:273290 original size:303 final size:300
Alignment explanation
Indices: 272318--273723 Score: 1764
Period size: 303 Copynumber: 4.8 Consensus size: 300
272308 CACAAGTTGG
* * * *
272318 TGGCATCTTCTTCTAAGTCCAATATCACTGGCCTTAAATCAGCATATTGGCACCTT--T-ATCTT
1 TGGCATCATCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTT
* * * *
272380 TAAGACCAATGTTGCTGGCCTTAAATCAGCACATTGGCATCTTCATCTTTAAGACCAATATCACT
65 TAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCACT
* *
272445 GGCCTTGAATCAGCATATTGGC-AC--C-TCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAG
129 GGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
* *
272506 CACATTGGCATCTTCATCTTTAAGACCAATATCGCTGGCCTTGAA-CAAGCATATT-GTCACCTT
194 CACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC-AGCATATTAGTCACCTT
* * *
272569 -GTC-TC--TCAGACCAATTTCGCTGGCCTTGAATCAGCACAT
258 CGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
272608 TGGCAT-A-----AA-CCCAATATCGCTAGCCTCGAATCAGCATATTGGCACCTT-GTC-TC--T
1 TGGCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
*
272662 AAGACCAATG-CTGCTGGCCTTGAATCAGCACATTGG-----CA-C---AAG-CACAATATCACT
66 AAAACCAATGTC-GCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTC-CAATATCACT
* * *
272716 GGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCAATGTCGTTGGCCTTGAATCAG
129 GGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAG
* * * **
272777 CATATTGGCGCCTTTATCATCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTAG-CGTC
194 CACATTGGCACC--T-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTCACC
* * *
272841 TTTGTCATCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACAT
256 TTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
* * * *
272886 TGG---CA-C---AAGCCCAA-ATCACTAGCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTT
1 TGGCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
*
272943 AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACTA
66 AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCACTG
* *
273008 GCCTTGAATCAGTATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
130 GCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGC
* * *
273073 ATATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATACTAGTC-CCTTCG
195 ACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTCACCTTCG
273137 TCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
260 TCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
*
273178 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTCGTCATC
1 TGGCA---TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATC
*
273243 TTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
63 TTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTTTAAGTCCAATATCA
* * * *
273308 CTGGCCTTGAGTCAGTATACTAGTC-CCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAAT
127 CTGGCCTTGAATCAGCATA-TTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAAT
* *
273372 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGT-GCC
191 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTCACC
273436 TTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
256 TTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
*
273481 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGACGCCTTCGTCATC
1 TGGCA---TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATC
* ** **
273546 TTTAAAACCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA-TTCATCTTTAAGTCCAATATCGT
63 TTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCAC
273610 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCA
128 TGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCA
* * * *
273675 GCACATTGGCACCTTTATCCTTAAGTCCAATATCGTTGGCATTGAATCA
193 GCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCA
273724 ACGTATTGGC
Statistics
Matches: 995, Mismatches: 66, Indels: 99
0.86 0.06 0.09
Matches are distributed among these distances:
270 1 0.00
271 76 0.08
272 1 0.00
273 1 0.00
274 43 0.04
275 7 0.01
276 3 0.00
277 31 0.03
278 42 0.04
279 2 0.00
281 68 0.07
282 35 0.04
283 5 0.01
287 2 0.00
288 1 0.00
290 6 0.01
291 36 0.04
292 89 0.09
293 2 0.00
295 42 0.04
298 2 0.00
299 1 0.00
300 3 0.00
301 124 0.12
302 7 0.01
303 363 0.36
304 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (300 bp):
TGGCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
AAAACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCACTGG
CCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCA
CATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGTCACCTTCGT
CATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACAT
Found at i:273784 original size:52 final size:51
Alignment explanation
Indices: 272907--273830 Score: 593
Period size: 52 Copynumber: 18.4 Consensus size: 51
272897 CAAATCACTA
* ** * * ** *
272907 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * ** *
272959 GCCTTGAATCAGCACATTGGCACCTTCATC-T-TTAAGTCCAATATCACTA
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * ** * * ** *
273008 GCCTTGAATCAGTATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * * *
273060 GCCTTGAATCAGCATATTGGCACCTTCATC-T-TTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * * * * * ** *
273109 GCCTTGAATCAGTATACTAGTC-CCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACA-TTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * *
273161 GCCTTGAATCAGCACATTGGCACCTTCATC-T-TTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* ** * * ** *
273210 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * *
273262 GCCTTGAATCAGCACATTGGCACCTTCATC-T-TTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * * * * * * ** *
273311 GCCTTGAGTCAGTATACTAGTC-CCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACA-TTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * *
273363 GCCTTGAATCAGCACATTGGCACCTTCATC-T-TTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* ** * * ** *
273412 GCCTTGAATCAGCATATTGGTGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
* * *
273464 GCCTTGAATCAGCACATTGGCACCTTCATC-T-TTAAGTCCAATATCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * * * * **
273513 GCCTTGAATCAGCATATTGACGCCTTCGTCATCTTTAAAACCAATGTCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
** * *
273565 GCCTTGTCTCAGCACATTGGCA--TTCATC-T-TTAAGTCCAATATCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * * * ** *
273612 GCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAATGTCGCTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATC-CTAAGTCCAATGTCGTTG
*
273664 GCCTTGAATCAGCACATTGGCACCTT--T-ATCCTTAAGTCCAATATCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCC-TAAGTCCAATGTCGTTG
* * ** * * * *
273713 GCATTGAATCAACGTATTGGCATCTTTAACATTCCTAAGCCCAATGTCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCA-TCCTAAGTCCAATGTCGTTG
** * * *
273765 GCCTTGTCTCAGCACATTGGCA--TTCTTC-TTC-AAGTCTAATGTCGTTG
1 GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
* * *
273812 GCCATGAATTATCACATTG
1 GCCTTGAATCAGCACATTG
273831 TCATTCTTCA
Statistics
Matches: 695, Mismatches: 145, Indels: 69
0.76 0.16 0.08
Matches are distributed among these distances:
47 61 0.09
48 2 0.00
49 276 0.40
50 22 0.03
51 12 0.02
52 319 0.46
53 3 0.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (51 bp):
GCCTTGAATCAGCACATTGGCACCTTCATCATCCTAAGTCCAATGTCGTTG
Found at i:274691 original size:33 final size:33
Alignment explanation
Indices: 274649--274712 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
274639 CCAGGAAATG
274649 TATCGATACATT-ATTCAATGTATCGATACATCA
1 TATCGATACATTGA-TCAATGTATCGATACATCA
**
274682 TATCGATACATTGATCTTTGTATCGATACAT
1 TATCGATACATTGATCAATGTATCGATACAT
274713 TTGGAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATCA
Found at i:279155 original size:18 final size:19
Alignment explanation
Indices: 279129--279165 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
279119 TATTGATATA
279129 AAAGAAATTTTTTTGTAAT
1 AAAGAAATTTTTTTGTAAT
279148 AAAG-AATTTTTTTGTAAT
1 AAAGAAATTTTTTTGTAAT
279166 TCAAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.49
Consensus pattern (19 bp):
AAAGAAATTTTTTTGTAAT
Found at i:280623 original size:21 final size:21
Alignment explanation
Indices: 280597--280649 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
280587 TTCTACAATT
280597 TGTATCGATACAATAAATG-AA
1 TGTATCGATAC-ATAAATGAAA
* **
280618 TGTATCAATACATATTTGAAA
1 TGTATCGATACATAAATGAAA
280639 TGTATCGATAC
1 TGTATCGATAC
280650 TGGACCATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATAAATGAAA
Found at i:283142 original size:96 final size:96
Alignment explanation
Indices: 282964--283160 Score: 220
Period size: 96 Copynumber: 2.1 Consensus size: 96
282954 TTTTAAAAAA
* * * * * *
282964 AAACTTGTTAAGATTTAAATTTTATTTTTACTTAAATCATCATCATCGGGGATACTCCAACCTTA
1 AAACTTATTAAGATTTAAATCTTATTTTCACTTAAATCATCAACATCGGGGATACTCAAACCTCA
* *
283029 TTCTTCCGAAGGAATACTTCAACCCTATTTTT
66 TTCCTCCGAAGGAATACTCCAACCC-ATTTTT
* * **
283061 AAACTTATTAAGATTT-AATCTTATTTTCGCTTAGATTGTCAACATCGGGGATACTCAAATCC-C
1 AAACTTATTAAGATTTAAATCTTATTTTCACTTAAATCATCAACATCGGGGATACTCAAA-CCTC
*
283124 ATTCCTCC-AAGGGGATACTCCAACCCATTTTT
65 ATTCCTCCGAA-GGAATACTCCAACCCATTTTT
*
283156 CAACT
1 AAACT
283161 AAAAATTAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
95 12 0.14
96 55 0.65
97 17 0.20
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (96 bp):
AAACTTATTAAGATTTAAATCTTATTTTCACTTAAATCATCAACATCGGGGATACTCAAACCTCA
TTCCTCCGAAGGAATACTCCAACCCATTTTT
Found at i:285739 original size:36 final size:36
Alignment explanation
Indices: 285671--285740 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
285661 AGGGATTTCC
* *
285671 TAATATTCTTATTACAATTACAGGATCGTAATCTCT
1 TAATATTCTAATTACAATTACAGGATCATAATCTCT
** * *
285707 TAATATTCTAATTATGATTATAGGATTATAATCT
1 TAATATTCTAATTACAATTACAGGATCATAATCT
285741 TTGTGATTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (36 bp):
TAATATTCTAATTACAATTACAGGATCATAATCTCT
Found at i:287140 original size:30 final size:28
Alignment explanation
Indices: 287106--287164 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
287096 AAATTTTAGG
*
287106 GGCTAAATTATAAATATTTAAAAGTTGAAA
1 GGCTAAAATAT-AATATTTAAAAGTT-AAA
* *
287136 GGCTAAAATGTAATTTTTAAAAGTTAAA
1 GGCTAAAATATAATATTTAAAAGTTAAA
287164 G
1 G
287165 AATTTTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 13 0.50
30 9 0.35
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.34
Consensus pattern (28 bp):
GGCTAAAATATAATATTTAAAAGTTAAA
Found at i:289867 original size:13 final size:13
Alignment explanation
Indices: 289849--289873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
289839 CATAAAATGT
289849 TGTATCGATACAA
1 TGTATCGATACAA
289862 TGTATCGATACA
1 TGTATCGATACA
289874 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:289889 original size:32 final size:33
Alignment explanation
Indices: 289829--289894 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
289819 TTCAACGATT
289829 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
** *
289862 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
289894 T
1 T
289895 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:289955 original size:13 final size:13
Alignment explanation
Indices: 289937--289961 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
289927 ATTACTCACA
289937 TGTATCGATACAT
1 TGTATCGATACAT
289950 TGTATCGATACA
1 TGTATCGATACA
289962 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:290026 original size:52 final size:52
Alignment explanation
Indices: 289970--290094 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
289960 CACTGATCTT
*
289970 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
290022 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
290074 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
290095 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:293832 original size:17 final size:17
Alignment explanation
Indices: 293791--293839 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
293781 ATTCTTGTCT
293791 TAAATAAATAT-T-TAC
1 TAAATAAATATATATAC
293806 TCAAATTAAATATATATAC
1 T-AAA-TAAATATATATAC
293825 TAAATAAATA-ATATA
1 TAAATAAATATATATA
293840 AAAATTATCG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.03
16 8 0.27
17 13 0.43
18 4 0.13
19 4 0.13
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAATAAATATATATAC
Found at i:296017 original size:17 final size:16
Alignment explanation
Indices: 295995--296029 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
295985 AAATGCTTAG
295995 AAAGAAAAGAGAGAAAA
1 AAAGAAAAGAGA-AAAA
*
296012 AAAGAAAATAGAAAAA
1 AAAGAAAAGAGAAAAA
296028 AA
1 AA
296030 TGAGAGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (16 bp):
AAAGAAAAGAGAAAAA
Found at i:297704 original size:134 final size:134
Alignment explanation
Indices: 297332--297695 Score: 391
Period size: 134 Copynumber: 2.7 Consensus size: 134
297322 CTTTTTGTCG
* * * * * * *
297332 AGCCTTATAGGGGTATCGGGTACTTCTACATCAAAGGTACCC-CTTCA-AGGCA-TTTAGTAATT
1 AGCCTTATAGGGGTACCTGGTATTTCTATATCGAAGGTACCCTC-T-AGGGGCATTTTTGTAA-T
* *
297394 TTTTTAGGATCGAGTCCTCGGTTGTCACTCTTATGCCAAAAGGATACACATACGATAGATTCAAT
63 TTTTTAGGATCGAGTCCTAGGTTGTCACTCTTATGCCAAAAGGATACACATACGATAAATTCAAT
*
297459 CTTTTCA
128 ATTTTCA
* * * * *
297466 AGCCTTGTAGGGGTACCTTGTATTTCTATATCGAAGTTACCCTTTAGGGGCATTTTTATAATTTT
1 AGCCTTATAGGGGTACCTGGTATTTCTATATCGAAGGTACCCTCTAGGGGCATTTTTGTAATTTT
* * *
297531 TTAGGATCGAGTCTTAGGTTGTCACTCTTATGCCAAAAGGGTA-A-ATAAGGAATAAATTCAATA
66 TTAGGATCGAGTCCTAGGTTGTCACTCTTATGCCAAAAGGATACACAT-ACG-ATAAATTCAATA
297594 TTTTCA
129 TTTTCA
* * * *
297600 AGCCTTATAGTGGTA-CTAGGTACTTT-TATGTCGGAGGTACCCTCTATGGGCATTTTTGTAATT
1 AGCCTTATAGGGGTACCT-GGTA-TTTCTATATCGAAGGTACCCTCTAGGGGCATTTTTGTAATT
* *
297663 TTACTAGGATTGAGTCCTAGGTTGTCACTCTTA
64 TT-TTAGGATCGAGTCCTAGGTTGTCACTCTTA
297696 CACCAAAGGT
Statistics
Matches: 192, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
132 2 0.01
133 6 0.03
134 148 0.77
135 36 0.19
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (134 bp):
AGCCTTATAGGGGTACCTGGTATTTCTATATCGAAGGTACCCTCTAGGGGCATTTTTGTAATTTT
TTAGGATCGAGTCCTAGGTTGTCACTCTTATGCCAAAAGGATACACATACGATAAATTCAATATT
TTCA
Found at i:302955 original size:165 final size:164
Alignment explanation
Indices: 302764--303147 Score: 404
Period size: 166 Copynumber: 2.3 Consensus size: 164
302754 TTTGAATATC
* * * * *
302764 AAAATTCTTTAAACATCATTATTTAATTACCATTAAATTGGTTTTGAAAAATTTC-TTTTATTTT
1 AAAATTCATCAAATATCATTATTTAATT-CCATTAAATTAGTTTTGAAAAATTTCTTTTTATTTC
* * * ** **
302828 ATGAGTTATTGATTTTCTT-TTGGCATT-CCTCATTTTTTCGAAATATAGAGTTTTCTTCTCTGT
65 ATGAATTATTCATTTT-TTCATGAAATTCCCTCATTTTTT--AAATATAGAGTTTT-TTCTCCAT
*
302891 AAAT-TTTTTCAGG-AGGATTTTTATTGTTTTATAA-ATTT
126 AAATATTTTT--GGAAGGATTTTTATTGGTTTATAATATTT
* * * *
302929 AAAATTTATCAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAAATTCTTTTTATTTC
1 AAAATTCATCAAATATCATTATTTAATTC-CATTAAATTAGTTTTGAAAAATTTCTTTTTATTTC
* * *
302994 ATGAATTTTTCATTTTTTCCATGAAATTCCCTTATTTTTTAAATATGGAGTTTTTTCTCCATAAA
65 ATGAATTATTCATTTTTT-CATGAAATTCCCTCATTTTTTAAATATAGAGTTTTTTCTCCATAAA
* *
303059 TATTTTTGGAAGGATTTTTCTTGGTTTATAATTTTT
129 TATTTTTGGAAGGATTTTTATTGGTTTATAATATTT
* *
303095 AAAATTCATTAAATATCATAATTTAATT-CATAGTAAATTAGTTTTGAAAAATT
1 AAAATTCATCAAATATCATTATTTAATTCCAT--TAAATTAGTTTTGAAAAATT
303148 CATATATTTT
Statistics
Matches: 181, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
164 6 0.03
165 76 0.42
166 84 0.46
167 5 0.03
168 10 0.06
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (164 bp):
AAAATTCATCAAATATCATTATTTAATTCCATTAAATTAGTTTTGAAAAATTTCTTTTTATTTCA
TGAATTATTCATTTTTTCATGAAATTCCCTCATTTTTTAAATATAGAGTTTTTTCTCCATAAATA
TTTTTGGAAGGATTTTTATTGGTTTATAATATTT
Found at i:303188 original size:165 final size:166
Alignment explanation
Indices: 302859--303190 Score: 379
Period size: 165 Copynumber: 2.0 Consensus size: 166
302849 GGCATTCCTC
** *
302859 ATTTTTTCGAAATATAGAGTTTTCTTCTCTGTAAATTTTTTCAGGAGGATTTTTATTGTTTTATA
1 ATTTTTTC-AAATATAGAGTTTTCTTCTCCATAAATTTTTT-AGGAGGATTTTTATTGGTTTATA
* * * * * *
302924 AATTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATCAGTTTTGAAAAAATTCTTTTT
64 AATTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATCAGTTTTGAAAAAATTCTATAT
* *
302989 ATTTCATGAATTTTTCATTTTTTCCATGAAATTCCCTT
129 ATTTCATGAATCTTTCATTTTTTCCATAAAATTCCCTT
* *
303027 ATTTTTT-AAATATGGAGTTTT-TTCTCCATAAATATTTTT-GGAAGGATTTTTCTTGGTTTATA
1 ATTTTTTCAAATATAGAGTTTTCTTCTCCATAAAT-TTTTTAGG-AGGATTTTTATTGGTTTATA
* * * *
303089 ATTTTTAAAATTCATTAAATATCATAATTTAATTCATAGTAAATTAGTTTTG-AAAAATTC-ATA
64 A-ATTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATCAGTTTTGAAAAAATTCTATA
* **
303152 TATTTTCAT-AAGTCTTTCCTTTTTTCTTTAAAATTCCCT
128 TA-TTTCATGAA-TCTTTCATTTTTTCCATAAAATTCCCT
303191 ATTCTCAAAA
Statistics
Matches: 139, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
164 7 0.05
165 65 0.47
166 60 0.43
168 7 0.05
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (166 bp):
ATTTTTTCAAATATAGAGTTTTCTTCTCCATAAATTTTTTAGGAGGATTTTTATTGGTTTATAAA
TTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATCAGTTTTGAAAAAATTCTATATAT
TTCATGAATCTTTCATTTTTTCCATAAAATTCCCTT
Found at i:303222 original size:165 final size:165
Alignment explanation
Indices: 302904--303229 Score: 356
Period size: 165 Copynumber: 2.0 Consensus size: 165
302894 TTTTTTCAGG
* * * * *
302904 AGGATTTTTATTGTTTTATAAATTTAAAATTTATCAAATATTATTATTTAATTCACATTAAATCA
1 AGGATTTTTATTGGTTTATAAATTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATCA
* * * * * **
302969 GTTTTGAAAAAATTCTTTTTATTTCATGAATTTTTCATTTTTTCCATGAAATTCCCTTATTTTTT
66 GTTTTGAAAAAATTCTATATATTTCATGAATCTTTCATTTTTTCCATAAAATTCCCTTATTCTCA
* * *
303034 AAATATGGAGTTTTTTCTCCATAAATATTTTTGGA
131 AAAAATCGAGTTTTATCTCCATAAATATTTTTGGA
* * * * *
303069 AGGATTTTTCTTGGTTTATAATTTTTAAAATTCATTAAATATCATAATTTAATTCATAGTAAATT
1 AGGATTTTTATTGGTTTATAA-ATTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATC
* **
303134 AGTTTTG-AAAAATTC-ATATATTTTCAT-AAGTCTTTCCTTTTTTCTTTAAAATTCCC-TATTC
65 AGTTTTGAAAAAATTCTATATA-TTTCATGAA-TCTTTCATTTTTTCCATAAAATTCCCTTATTC
*
303195 TCAAAAAATCGAGTCTTCTAT-TCCATAAATGTTTT
128 TCAAAAAATCGAGT-TT-TATCTCCATAAATATTTT
303230 CAATGAGATT
Statistics
Matches: 132, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
164 19 0.14
165 69 0.52
166 44 0.33
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.50
Consensus pattern (165 bp):
AGGATTTTTATTGGTTTATAAATTTAAAATTCATCAAATATCATAATTTAATTCACAGTAAATCA
GTTTTGAAAAAATTCTATATATTTCATGAATCTTTCATTTTTTCCATAAAATTCCCTTATTCTCA
AAAAATCGAGTTTTATCTCCATAAATATTTTTGGA
Found at i:305415 original size:150 final size:153
Alignment explanation
Indices: 305056--305439 Score: 450
Period size: 150 Copynumber: 2.5 Consensus size: 153
305046 GAAGGGGGGT
* * * * *
305056 ATTTAGGATAGGTTCATCCCATTTATAATCCCTTTTTAAATCCTTTAGGGGTATCTGCCATTTCA
1 ATTTAGGATAGGTTCATCCCATTTATAAT-CCTTTTTAAGTCCTTTAGGGGTATTTGACACTTCT
* * ** * * *
305121 AAGTCAAAGGTATTCCCTAAAGGCAATTTTTGTAATTTTTCCAAAATCAAATCTTAGGTTGTCAC
65 AAGTCGAAGGTATCCCCTAAAGGCAATTTTCATAATTTTTCCAAAACCAAATCCTAAGTTGTCAC
*
305186 AGGGTTTGCTTTTATGCCGAAGGTGGG
130 AGGGTCTGCTTTTATGCCGAA---GGG
* * *
305213 TATTTAGGATAAGTTCATCCCATCTATAATCCTTTTTAAGTCCTTTAGGGGTATTTGACACTACT
1 -ATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCTTTAGGGGTATTTGACACTTCT
* * * * *
305278 AAGTCGAAGGTATCCCCTAAGGGC-ATTTTCATAATTTTTCTAAAACCGAGTCCTAAGTTGTCAT
65 AAGTCGAAGGTATCCCCTAAAGGCAATTTTCATAATTTTTCCAAAACCAAATCCTAAGTTGTCAC
* *
305342 TGGGTCTGCTTTTATGCCTAA-GG
130 AGGGTCTGCTTTTATGCCGAAGGG
* * * * *
305365 -TTTAGGATAGGTTCATACCATTTATAATCCTTTTTAAGTCTTTTAAGGGTATTAGGCACTTCTA
1 ATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCTTTAGGGGTATTTGACACTTCTA
305429 AGTCGAAGGTA
66 AGTCGAAGGTA
305440 CTTGTAATTT
Statistics
Matches: 195, Mismatches: 31, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
150 67 0.34
152 2 0.01
156 49 0.25
157 50 0.26
158 27 0.14
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (153 bp):
ATTTAGGATAGGTTCATCCCATTTATAATCCTTTTTAAGTCCTTTAGGGGTATTTGACACTTCTA
AGTCGAAGGTATCCCCTAAAGGCAATTTTCATAATTTTTCCAAAACCAAATCCTAAGTTGTCACA
GGGTCTGCTTTTATGCCGAAGGG
Found at i:307124 original size:29 final size:29
Alignment explanation
Indices: 307077--307134 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
307067 GCCTAAGGTG
307077 TTAGCCTCGTTACAAGCATGGAAGATACT
1 TTAGCCTCGTTACAAGCATGGAAGATACT
* *
307106 TTAGCCTCGTTATAGGCATGGAAGATACT
1 TTAGCCTCGTTACAAGCATGGAAGATACT
307135 CCACTCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (29 bp):
TTAGCCTCGTTACAAGCATGGAAGATACT
Found at i:309663 original size:24 final size:24
Alignment explanation
Indices: 309625--309687 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
309615 ACTTTTTTAA
*
309625 AAAAAGAAGAAAAAAAGGAAAAAAT-
1 AAAAAGAA-AGAAAAA-GAAAAAATG
309650 AAAACA-AAAGAAAAAGAAAAAATG
1 AAAA-AGAAAGAAAAAGAAAAAATG
309674 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
309688 TTGAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
23 9 0.26
24 18 0.53
25 6 0.18
26 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (24 bp):
AAAAAGAAAGAAAAAGAAAAAATG
Found at i:310391 original size:16 final size:16
Alignment explanation
Indices: 310359--310428 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
310349 TATGGCAACC
*
310359 AAAAAAATAATGAAAT
1 AAAAAAATAAAGAAAT
310375 AAAACAAATAAAG-AAT
1 AAAA-AAATAAAGAAAT
* *
310391 AAAGAGAAAAAAAAGAAAA
1 -AA-A-AAAATAAAGAAAT
*
310410 AAAAAAACAAAGAAAT
1 AAAAAAATAAAGAAAT
310426 AAA
1 AAA
310429 TAATTCATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
16 21 0.48
17 10 0.23
18 10 0.23
19 3 0.07
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAGAAAT
Found at i:311438 original size:47 final size:47
Alignment explanation
Indices: 311387--312162 Score: 383
Period size: 47 Copynumber: 16.9 Consensus size: 47
311377 TCACCTTTGA
** * *
311387 TTGACTGTATTGGTGTTAAGACCTAGTCAAATTCTTTTCACCCTCAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * **
311434 TTGACTATATTGGCATTAGGACCT-GATCAAATTC-TTTCTACCCTTGT
1 TTGACTGTATTGGCATTAGGACCTAG-TCAAACTCTTTTC-ACCCTCAT
* * * * * *
311481 TTGACTATATTAGCATTAGGACCTAGTTAAGCTCTTTTTATCCTCAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * *
311528 TTGATTGTATTGGCATTAGGACCTAGTTAAACTCTTTTTACCCTCGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * *
311575 TTGATTGTATTGGCATTAGGACCTAGTTAAACTC--TT--CCTTCAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* ** * * * * * *
311618 TTGGCTACATTAGCCTTA-GTCCTAGTCAAACTGTTTCCACCCTCGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
*** * * * *
311664 TTGA-T-TACTTTGTTGTTAGGACATGGTCAAACTCCTATCACCCTCAT
1 TTGACTGTA--TTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * *
311711 TTGACTGTATTGGCATTAGGACTTGGTCGAACTCTTTTTACCCTCAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * * * *
311758 TTGACTGTATTAGCGTTAAGACTTAGTCAAACTATTTTTACCCTTAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * *
311805 TTAACTGTATTGGCATTAGGATCTGGTCAAACTC-TTT---CTTTAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * ** * * * * * **
311848 TTGGCTGCATTAGTGTTA-GTCTTGGTCAAACTATTTTCAACCTTGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * * *
311894 TTGACTTTATTAGCGTTAGGACCTGGTCAAACTC--TT--CCTTCTT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * *
311937 TTGGCTGTATTGGCGTTA-GTCCTTGTCAAACTCTTTCCACCCTCAT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * * * ** **
311983 TTGACTATATTGGCGTTAGGACCTGGTCAAATTGTCTT--CTTTTGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
** * ** * * * * * *
312028 TTGGGTATATTGGTGTTA-GTCCTGGTAAAACTCTTTTTACCCCCGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * * * *
312074 TTAATTGTAATGGCATTAGGACCTAGTCAAACTCTTTTTACTCTCGT
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
* * * *
312121 CTAACTGTATTGGCATTAAGACCTGGTCAAACT-TTTATCACC
1 TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTT-TCACC
312163 ATTGTTTAAC
Statistics
Matches: 556, Mismatches: 146, Indels: 54
0.74 0.19 0.07
Matches are distributed among these distances:
42 36 0.06
43 55 0.10
44 17 0.03
45 23 0.04
46 77 0.14
47 341 0.61
48 5 0.01
49 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (47 bp):
TTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCCTCAT
Found at i:311816 original size:230 final size:224
Alignment explanation
Indices: 311480--312013 Score: 566
Period size: 230 Copynumber: 2.3 Consensus size: 224
311470 TCTACCCTTG
* * * * * * * *
311480 TTTGACTATATTAGCATTAGGACCTAGTTAAGCTCTTTTTATCCTCATTTGATTGTATTGGCATT
1 TTTGACTGTATTGGCATTAGGA-CTTGTCAAACTCTTTTTACCCTCATTTGACTGTATTGGCGTT
* * * * * * *
311545 AGGACCTAGTTAAACTCTTTTTACCCTCGTTTGATTGTATTGGCATTAGGACCTAGTTAAACTCT
65 AAGACCTAGTCAAACTATTTTTACCCTCATTTAACTGTATTGGCATTAGGACCTAGTCAAACTCT
* *
311610 TCCTTCATTTGGCTACATTAGCCTTAGTCCTAGTCAAACTGTTTCCACCCTCGTTTGA-TTACTT
130 TCCTTCATTTGGCTACATTAGCCTTAGTCCTAGTCAAACTATTTCCAACCTCGTTTGACTTA-TT
* *
311674 TGTTGTTAGGACATGGTCAAACTCCTATCACCCTCA
194 AG-CGTTAGGACATGGTCAAACT-CT-T--CCCTCA
* *
311710 TTTGACTGTATTGGCATTAGGACTTGGTCGAACTCTTTTTACCCTCATTTGACTGTATTAGCGTT
1 TTTGACTGTATTGGCATTAGGACTT-GTCAAACTCTTTTTACCCTCATTTGACTGTATTGGCGTT
* * * *
311775 AAGACTTAGTCAAACTATTTTTACCCTTATTTAACTGTATTGGCATTAGGATCTGGTCAAACTCT
65 AAGACCTAGTCAAACTATTTTTACCCTCATTTAACTGTATTGGCATTAGGACCTAGTCAAACTCT
* * * ** * * * *
311840 TTCTTTATTTGGCTGCATTAGTGTTAGTCTTGGTCAAACTATTTTCAACCTTGTTTGACTTTATT
130 TCCTTCATTTGGCTACATTAGCCTTAGTCCTAGTCAAACTATTTCCAACCTCGTTTGAC-TTATT
* * *
311905 AGCGTTAGGACCTGGTCAAACTCTTCCTTCT
194 AGCGTTAGGACATGGTCAAACTCTTCCCTCA
* * ** ** *
311936 TTTGGCTGTATTGGCGTTAGTCCTTGTCAAACTCTTTCCACCCTCATTTGACTATATTGGCGTTA
1 TTTGACTGTATTGGCATTAGGACTTGTCAAACTCTTTTTACCCTCATTTGACTGTATTGGCGTTA
* *
312001 GGACCTGGTCAAA
66 AGACCTAGTCAAA
312014 TTGTCTTCTT
Statistics
Matches: 252, Mismatches: 49, Indels: 11
0.81 0.16 0.04
Matches are distributed among these distances:
225 45 0.18
226 25 0.10
228 1 0.00
229 4 0.02
230 171 0.68
231 3 0.01
232 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.41
Consensus pattern (224 bp):
TTTGACTGTATTGGCATTAGGACTTGTCAAACTCTTTTTACCCTCATTTGACTGTATTGGCGTTA
AGACCTAGTCAAACTATTTTTACCCTCATTTAACTGTATTGGCATTAGGACCTAGTCAAACTCTT
CCTTCATTTGGCTACATTAGCCTTAGTCCTAGTCAAACTATTTCCAACCTCGTTTGACTTATTAG
CGTTAGGACATGGTCAAACTCTTCCCTCA
Found at i:311920 original size:89 final size:89
Alignment explanation
Indices: 311701--312013 Score: 317
Period size: 89 Copynumber: 3.5 Consensus size: 89
311691 CAAACTCCTA
* * * * * * *
311701 TCACCCTCATTTGACTGTATTGGCATTAGGACTTGGTCGAACTCTT-TTTACCCTCATTTGACTG
1 TCACCCTTATTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTTCCTT---CT-ATTTGGCTG
*
311765 TATTAGCGTTAAGACTTAGTCAAACTATTT
62 TATTAGCGTT-AGTCTT-GTCAAACTATTT
* * * * * * *
311795 TTACCCTTATTTAACTGTATTGGCATTAGGATCTGGTCAAACTCTTTCTT-TATTTGGCTGCATT
1 TCACCCTTATTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTTCCTTCTATTTGGCTGTATT
*
311859 AGTGTTAGTCTTGGTCAAACTATTT
66 AGCGTTAGTCTT-GTCAAACTATTT
* * * *
311884 TCAACCTTGTTTGACTTTATTAGCGTTAGGACCTGGTCAAACTCTTCCTTCT-TTTGGCTGTATT
1 TCACCCTTATTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTTCCTTCTATTTGGCTGTATT
* *
311948 GGCGTTAGTCCTTGTCAAACTCTTT
66 AGCGTTAGT-CTTGTCAAACTATTT
* *
311973 CCACCCTCATTTGACTATATTGGCGTTAGGACCTGGTCAAA
1 TCACCCTTATTTGACTATATTGGCGTTAGGACCTGGTCAAA
312014 TTGTCTTCTT
Statistics
Matches: 185, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
89 122 0.66
90 20 0.11
91 1 0.01
94 40 0.22
95 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (89 bp):
TCACCCTTATTTGACTATATTGGCGTTAGGACCTGGTCAAACTCTTCCTTCTATTTGGCTGTATT
AGCGTTAGTCTTGTCAAACTATTT
Found at i:312093 original size:91 final size:89
Alignment explanation
Indices: 311803--312109 Score: 222
Period size: 89 Copynumber: 3.4 Consensus size: 89
311793 TTTTACCCTT
* * * * ** * *
311803 ATTTAACTGTATTGGCATTAGGATCTGGTCAAACTCTTTCTT-TATTTGGCTGCATTAGTGTTAG
1 ATTTAACTATAATGGCATTAGGACCTGGTCAAACTCTTCCTTCT-TTTGGCTATATTGGCGTTAG
* * * * * **
311867 TCTTGGTCAAACTATTTTCAACCTT
65 TCCTGGTAAAACTCTTTCCACCCCC
* * * * * * *
311892 GTTTGACTTTATTAGCGTTAGGACCTGGTCAAACTCTTCCTTCTTTTGGCTGTATTGGCGTTAGT
1 ATTTAACTATAATGGCATTAGGACCTGGTCAAACTCTTCCTTCTTTTGGCTATATTGGCGTTAGT
* * *
311957 CCTTGTCAAACTCTTTCCACCCTC
66 CCTGGTAAAACTCTTTCCACCCCC
* * * * * * *
311981 ATTTGACTATATTGGCGTTAGGACCTGGTCAAATTGTCTT-CTTTTGTTTGGGTATATTGGTGTT
1 ATTTAACTATAATGGCATTAGGACCTGGTCAAA--CTCTTCCTTCT-TTTGGCTATATTGGCGTT
**
312045 AGTCCTGGTAAAACTCTTTTTACCCCC
63 AGTCCTGGTAAAACTCTTTCCACCCCC
* * * *
312072 GTTTAATTGTAATGGCATTAGGACCTAGTCAAACTCTT
1 ATTTAACTATAATGGCATTAGGACCTGGTCAAACTCTT
312110 TTTACTCTCG
Statistics
Matches: 177, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
89 105 0.59
90 5 0.03
91 67 0.38
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.42
Consensus pattern (89 bp):
ATTTAACTATAATGGCATTAGGACCTGGTCAAACTCTTCCTTCTTTTGGCTATATTGGCGTTAGT
CCTGGTAAAACTCTTTCCACCCCC
Found at i:312330 original size:45 final size:45
Alignment explanation
Indices: 312281--312367 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
312271 TTAGCCCCAA
* * *
312281 TCAAACTCCTTTTC-ATCTTTGTTTGATGTGATGATTTAGCCTTGG
1 TCAAAC-CCTTTTCAATCTTCGTTTGACGTAATGATTTAGCCTTGG
* *
312326 TCAAACGCTTTTCATATCTTCGTTTGACGTAATGGTTTAGCC
1 TCAAACCCTTTTCA-ATCTTCGTTTGACGTAATGATTTAGCC
312368 CTAGACAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
44 6 0.17
45 6 0.17
46 23 0.66
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (45 bp):
TCAAACCCTTTTCAATCTTCGTTTGACGTAATGATTTAGCCTTGG
Found at i:313912 original size:166 final size:164
Alignment explanation
Indices: 313557--313981 Score: 467
Period size: 166 Copynumber: 2.6 Consensus size: 164
313547 TTTTCACTGT
* * * * *
313557 TTTATAAATTTTTAAACTCATCAAATATTATTATTTAATTTACATTAAATTAGTTTTGAAAAATT
1 TTTATAAATTTTTAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTTT-AAAAATT
* * *
313622 CCTTTTATTTCATGAA-TTTTTCA-TTTTTTCCTTGAAATTTTCTTATTTCTAAAATACAGAGTA
65 -CATTTATTTTAT-AAGTTTTTCATTTTTTTCCTTAAAATTTTCTTATTTCTAAAATACAGAGTA
* *
313685 TTTTACTTAGTAAATGTTTTTGGGGGATTTTCCTTAG
128 TTTTACTTAGTAAATGCTTTTGGGGGATTTTCCTCAG
* * *
313722 TTTATAATTTTTTAAATTCATCAAATATTATTATTTAAATCATAGTAAATCAATTTTAAAAAGTT
1 TTTATAAATTTTTAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTTTAAAAA-TT
*
313787 CATTTATTTTAATAAGTTTTTCATTTTTTTCCTTAAAATTCTTC-TA-TTCTTGAAAAT-CCGAG
65 CATTTATTTT-ATAAGTTTTTCATTTTTTTCCTTAAAATT-TTCTTATTTC-T-AAAATACAGAG
*
313849 T-TTTATATTCTA-TAAATGCTTTTGGGAGGA-TTTCTCTCAG
126 TATTT-TACT-TAGTAAATGCTTTTGGG-GGATTTTC-CTCAG
* *
313889 TTTA-AAATTTTTAAATTCATCAAATATTGTTA-TTAAATTCTTATTAAATCAGTTTTACAAAAT
1 TTTATAAATTTTTAAATTCATCAAATATTATTATTTAAA-TCATATTAAATCAGTTTTA-AAAAT
* *
313952 TCAATTTATTTTATGAG-TTTTGATTTTTTT
64 TC-ATTTATTTTATAAGTTTTTCATTTTTTT
313982 TTTGTATTTG
Statistics
Matches: 224, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
164 15 0.07
165 83 0.37
166 92 0.41
167 34 0.15
ACGTcount: A:0.32, C:0.09, G:0.08, T:0.51
Consensus pattern (164 bp):
TTTATAAATTTTTAAATTCATCAAATATTATTATTTAAATCATATTAAATCAGTTTTAAAAATTC
ATTTATTTTATAAGTTTTTCATTTTTTTCCTTAAAATTTTCTTATTTCTAAAATACAGAGTATTT
TACTTAGTAAATGCTTTTGGGGGATTTTCCTCAG
Done.