Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 141 of 325
Found at i:45542022 original size:208 final size:209
Alignment explanation
Indices: 45541664--45542230 Score: 987
Period size: 208 Copynumber: 2.7 Consensus size: 209
45541654 ATGCAGAAGG
45541664 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
45541729 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
45541794 AACAATAAAACAAAAGTAAACAAAATATTTTTCGTGATTAAATTAAAA-AA-ATAAAATATTTAA
131 AACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTAAATTAAAATAACAT-AAATATTTAA
45541857 AATAAAACTTTAAAT
195 AATAAAACTTTAAAT
45541872 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
*
45541937 AATTAAAATAAAATAAAATATTTAAAATAAAATTTTAAATACAATTTAATTTAATTAGGTAATTT
66 AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
*
45542002 AACAATAAAATAAAAGTAAACAAAATATTTTTCGTTATTAAATTAAAATAACATAAATATTTAAA
131 AACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTAAATTAAAATAACATAAATATTTAAA
45542067 ATAAAACTTTAAAT
196 ATAAAACTTTAAAT
* * *
45542081 ATAATTTAATTTAATTAGGTGATTTAAAAATAAAATAAAAGTAGAA-AAAATATTTTTCGTGATT
1 ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTA-AACAAAATATTTTTCGTGATT
45542145 AAATTAAAATAAAATAAAATAACATATTCAAAATAAAACTTTAAATACAATTTAATTTAATTAGG
65 AAATTAAAATAAAATAAAAT---AT-TT-AAAATAAAACTTTAAATACAATTTAATTTAATTAGG
*
45542210 TAATTTAAAAATAAAATAAAA
125 TAATTTAACAATAAAATAAAA
45542231 TATTTAAAAT
Statistics
Matches: 343, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
208 175 0.51
209 105 0.31
210 4 0.01
212 2 0.01
213 2 0.01
214 55 0.16
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (209 bp):
ACAATTTAATTTAATTAGGTAATTTAACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTA
AATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGGTAATTT
AACAATAAAATAAAAGTAAACAAAATATTTTTCGTGATTAAATTAAAATAACATAAATATTTAAA
ATAAAACTTTAAAT
Found at i:45545328 original size:7 final size:7
Alignment explanation
Indices: 45545318--45545474 Score: 75
Period size: 7 Copynumber: 21.9 Consensus size: 7
45545308 ATCATAAGCA
45545318 CTAAACC
1 CTAAACC
45545325 CTAAACC
1 CTAAACC
* **
45545332 TTATCCC
1 CTAAACC
*
45545339 CAAAACCC
1 CTAAA-CC
45545347 CTAAACC
1 CTAAACC
*
45545354 ATAAACC
1 CTAAACC
45545361 TCTAAACC
1 -CTAAACC
* **
45545369 ATATCCC
1 CTAAACC
*
45545376 CAAAACCC
1 CTAAA-CC
45545384 CTAAACC
1 CTAAACC
*
45545391 ATAAACC
1 CTAAACC
45545398 CTTAAACC
1 C-TAAACC
*
45545406 CTTAACC
1 CTAAACC
* *
45545413 CT-TATC
1 CTAAACC
* *
45545419 CTTAACT
1 CTAAACC
*
45545426 CTTAACC
1 CTAAACC
45545433 CTTAAACC
1 C-TAAACC
*
45545441 ATAAACC
1 CTAAACC
45545448 CTAAA-C
1 CTAAACC
*
45545454 CTCAACC
1 CTAAACC
45545461 CTTAAACC
1 C-TAAACC
*
45545469 ATAAAC
1 CTAAAC
45545475 AATAATCCCT
Statistics
Matches: 109, Mismatches: 33, Indels: 16
0.69 0.21 0.10
Matches are distributed among these distances:
6 9 0.08
7 65 0.60
8 35 0.32
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:45545350 original size:22 final size:21
Alignment explanation
Indices: 45545323--45545390 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
45545313 AAGCACTAAA
45545323 CCCTAAACCTTATCCCCAAAAC
1 CCCTAAACC-TATCCCCAAAAC
45545345 CCCTAAACC-AT-----AAAC
1 CCCTAAACCTATCCCCAAAAC
*
45545360 CTCTAAACCATATCCCCAAAAC
1 CCCTAAACC-TATCCCCAAAAC
45545382 CCCTAAACC
1 CCCTAAACC
45545391 ATAAACCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
15 12 0.32
17 2 0.05
20 2 0.05
22 21 0.57
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (21 bp):
CCCTAAACCTATCCCCAAAAC
Found at i:45545365 original size:15 final size:15
Alignment explanation
Indices: 45545341--45545371 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45545331 CTTATCCCCA
45545341 AAACCCCTAAACCAT
1 AAACCCCTAAACCAT
*
45545356 AAACCTCTAAACCAT
1 AAACCCCTAAACCAT
45545371 A
1 A
45545372 TCCCCAAAAC
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:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCCTAAACCAT
Found at i:45545368 original size:37 final size:36
Alignment explanation
Indices: 45545319--45545405 Score: 147
Period size: 37 Copynumber: 2.4 Consensus size: 36
45545309 TCATAAGCAC
*
45545319 TAAACCCTAAACCTTATCCCCAAAACCCCTAAACCA
1 TAAACCCTAAACCATATCCCCAAAACCCCTAAACCA
45545355 TAAACCTCTAAACCATATCCCCAAAACCCCTAAACCA
1 TAAACC-CTAAACCATATCCCCAAAACCCCTAAACCA
45545392 TAAACCCTTAAACC
1 TAAACCC-TAAACC
45545406 CTTAACCCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 7 0.15
37 41 0.85
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (36 bp):
TAAACCCTAAACCATATCCCCAAAACCCCTAAACCA
Found at i:45545407 original size:22 final size:21
Alignment explanation
Indices: 45545355--45545412 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
45545345 CCCTAAACCA
*
45545355 TAAACCTCTAAACCATATCCCC
1 TAAACC-CTAAACCATAACCCC
* *
45545377 AAAACCCCTAAACCATAAACCCT
1 TAAA-CCCTAAACCAT-AACCCC
*
45545400 TAAACCCTTAACC
1 TAAACCCTAAACC
45545413 CTTATCCTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 20 0.69
23 9 0.31
ACGTcount: A:0.41, C:0.40, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCCTAAACCATAACCCC
Found at i:45545465 original size:35 final size:35
Alignment explanation
Indices: 45545394--45545485 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
45545384 CTAAACCATA
* * * * * *
45545394 AACCCTTAAACCCTTAACCCTTATCCTTAACTCTT
1 AACCCTTAAACCATAAACCCTAAACCTCAACCCTT
45545429 AACCCTTAAACCATAAACCCTAAACCTCAACCCTT
1 AACCCTTAAACCATAAACCCTAAACCTCAACCCTT
* * * *
45545464 AAACCATAAACAATAATCCCTA
1 AACCCTTAAACCATAAACCCTA
45545486 GATTCATAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (35 bp):
AACCCTTAAACCATAAACCCTAAACCTCAACCCTT
Found at i:45545550 original size:7 final size:7
Alignment explanation
Indices: 45545540--45545576 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
45545530 AACCAGAAAC
45545540 CCTTAAA
1 CCTTAAA
45545547 CCTTAAA
1 CCTTAAA
45545554 CCTTAAA
1 CCTTAAA
*
45545561 CCCTAAA
1 CCTTAAA
45545568 CCTTAAA
1 CCTTAAA
45545575 CC
1 CC
45545577 CATAATCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTTAAA
Found at i:45545569 original size:21 final size:22
Alignment explanation
Indices: 45545536--45545576 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
45545526 CATAAACCAG
45545536 AAACCCTTAAACCTTAAACCTT
1 AAACCCTTAAACCTTAAACCTT
45545558 AAACCC-TAAACCTTAAACC
1 AAACCCTTAAACCTTAAACC
45545577 CATAATCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (22 bp):
AAACCCTTAAACCTTAAACCTT
Found at i:45545646 original size:14 final size:14
Alignment explanation
Indices: 45545529--45545595 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
45545519 ATTAACTCAT
*
45545529 AAACCAGAAACCCTT
1 AAACCATAAACCC-T
* *
45545544 AAACCTTAAACCTT
1 AAACCATAAACCCT
* *
45545558 AAACCCTAAACCTT
1 AAACCATAAACCCT
*
45545572 AAACCCATAATCCCT
1 AAA-CCATAAACCCT
45545587 AAATCCATA
1 AAA-CCATA
45545596 GTCCATAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 17 0.40
15 26 0.60
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.21
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:45547651 original size:21 final size:21
Alignment explanation
Indices: 45547627--45547673 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
45547617 ATTAACGTGA
45547627 GTGTTGGGTCTTTGGTAGGGC
1 GTGTTGGGTCTTTGGTAGGGC
45547648 GTGTTGGGTCTTTGGTAGGGC
1 GTGTTGGGTCTTTGGTAGGGC
*
45547669 ATGTT
1 GTGTT
45547674 AGTTGCTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.06, C:0.09, G:0.45, T:0.40
Consensus pattern (21 bp):
GTGTTGGGTCTTTGGTAGGGC
Found at i:45549967 original size:26 final size:26
Alignment explanation
Indices: 45549938--45550045 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
45549928 TGGTACAAAT
45549938 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
45549964 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45549990 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
45550016 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
45550042 TGAT
1 TGAT
45550046 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:45553686 original size:45 final size:45
Alignment explanation
Indices: 45553637--45553727 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
45553627 AGAGGTGTCT
45553637 AATTGTTATGAAATTTTAAATTGCAGGCCCTTAAATGGTAATTAG
1 AATTGTTATGAAATTTTAAATTGCAGGCCCTTAAATGGTAATTAG
*
45553682 AATTGTTATGAAATTTTAAATTGGAGGCCCTTAAATGGTAATTAG
1 AATTGTTATGAAATTTTAAATTGCAGGCCCTTAAATGGTAATTAG
45553727 A
1 A
45553728 CCATTGGATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (45 bp):
AATTGTTATGAAATTTTAAATTGCAGGCCCTTAAATGGTAATTAG
Found at i:45554312 original size:18 final size:18
Alignment explanation
Indices: 45554289--45554324 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45554279 TTGGGGAAAA
45554289 GTGCAAATATGTGAAATT
1 GTGCAAATATGTGAAATT
45554307 GTGCAAATATGTGAAATT
1 GTGCAAATATGTGAAATT
45554325 TAGGGGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (18 bp):
GTGCAAATATGTGAAATT
Found at i:45554935 original size:42 final size:44
Alignment explanation
Indices: 45554877--45554981 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 44
45554867 TTTGAACTTA
* * * **
45554877 TTGAGTGGTCCAAGTTCGT-G-ATCTATGTGGCATCCGAGCTCG
1 TTGAGAGGTCCAAGTTCATCGCATCCATGTAACATCCGAGCTCG
* *
45554919 TTGAGAGGTCCAAGTTCATCGCATCCATTTAACATTCGAGCTCG
1 TTGAGAGGTCCAAGTTCATCGCATCCATGTAACATCCGAGCTCG
*
45554963 TTGAGAGGTCCGAGTTCAT
1 TTGAGAGGTCCAAGTTCAT
45554982 TATAGATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 17 0.32
43 1 0.02
44 35 0.66
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (44 bp):
TTGAGAGGTCCAAGTTCATCGCATCCATGTAACATCCGAGCTCG
Found at i:45557053 original size:24 final size:24
Alignment explanation
Indices: 45557026--45557079 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
45557016 TTTATTTTCA
*
45557026 TTTTTTGAA-TTATATATATTAAT
1 TTTTTTTAAGTTATATATATTAAT
* * **
45557049 TTTTTATAAGTTTTATATATTTCT
1 TTTTTTTAAGTTATATATATTAAT
45557073 TTTTTTT
1 TTTTTTT
45557080 CCTAAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.69
Consensus pattern (24 bp):
TTTTTTTAAGTTATATATATTAAT
Found at i:45557775 original size:18 final size:18
Alignment explanation
Indices: 45557739--45557773 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
45557729 TATTTTAAAA
45557739 ATATTTATAATAATTTTT
1 ATATTTATAATAATTTTT
*
45557757 ATATTTTTAA-AATTTTT
1 ATATTTATAATAATTTTT
45557774 TAGAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
ATATTTATAATAATTTTT
Found at i:45560815 original size:22 final size:21
Alignment explanation
Indices: 45560803--45560860 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 21
45560793 GGGTTTAATT
* *
45560803 GATTTAGGGTTAGTGTTTTTA
1 GATTTAAGGTTAGGGTTTTTA
45560824 GGATTTAAGGTTAGGG--TTT-
1 -GATTTAAGGTTAGGGTTTTTA
45560843 G--TTAAGGTTAGGGTTTTT
1 GATTTAAGGTTAGGGTTTTT
45560861 TAGGGTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 12 0.38
18 4 0.12
20 3 0.09
22 13 0.41
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (21 bp):
GATTTAAGGTTAGGGTTTTTA
Found at i:45560825 original size:15 final size:15
Alignment explanation
Indices: 45560768--45560825 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
45560758 CGTTTTGCCT
45560768 GTGTTTTTAGGGTTA
1 GTGTTTTTAGGGTTA
*
45560783 GGGTTTTTTAGGGTTTA
1 GTG-TTTTTAGGG-TTA
* *
45560800 AT-TGATTTAGGGTTA
1 GTGT-TTTTAGGGTTA
45560815 GTGTTTTTAGG
1 GTGTTTTTAGG
45560826 ATTTAAGGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 13 0.39
16 17 0.52
17 3 0.09
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.52
Consensus pattern (15 bp):
GTGTTTTTAGGGTTA
Found at i:45560867 original size:16 final size:16
Alignment explanation
Indices: 45560827--45560867 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
45560817 GTTTTTAGGA
45560827 TTTAAGGTTAGGGTTT
1 TTTAAGGTTAGGGTTT
*
45560843 GTTAAGGTTAGGGTTT
1 TTTAAGGTTAGGGTTT
*
45560859 TTTAGGGTT
1 TTTAAGGTT
45560868 TAAAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (16 bp):
TTTAAGGTTAGGGTTT
Found at i:45562539 original size:48 final size:46
Alignment explanation
Indices: 45562485--45562619 Score: 164
Period size: 48 Copynumber: 2.8 Consensus size: 46
45562475 ATGCAAACAT
* *
45562485 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAA-TTTAATTA-AATTTG
*
45562533 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTAAATTTG
*
45562581 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
45562620 AATTATCACT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
47 2 0.03
48 70 0.91
49 5 0.06
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTAAATTTG
Found at i:45562772 original size:11 final size:11
Alignment explanation
Indices: 45562753--45562849 Score: 72
Period size: 11 Copynumber: 8.9 Consensus size: 11
45562743 TTTTAAACAA
*
45562753 AGAAATTTGAT
1 AGAATTTTGAT
45562764 AGAATTTTGA-
1 AGAATTTTGAT
45562774 AGAATTTTGAT
1 AGAATTTTGAT
*
45562785 AGAATTTTGAG
1 AGAATTTTGAT
* **
45562796 AAAATTTCAAT
1 AGAATTTTGAT
*
45562807 -GAAATTTGAT
1 AGAATTTTGAT
* *
45562817 AGATTTTTGAAA
1 AGAATTTTG-AT
* *
45562829 AGAATATTGAA
1 AGAATTTTGAT
*
45562840 AGAATGTTGA
1 AGAATTTTGA
45562850 GAATTATGAG
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.24
11 43 0.64
12 8 0.12
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:45562782 original size:21 final size:21
Alignment explanation
Indices: 45562752--45562798 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
45562742 ATTTTAAACA
45562752 AAGAAATTTGATAGAATTTTG
1 AAGAAATTTGATAGAATTTTG
*
45562773 AAGAATTTTGATAGAATTTTG
1 AAGAAATTTGATAGAATTTTG
45562794 -AGAAA
1 AAGAAA
45562799 ATTTCAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (21 bp):
AAGAAATTTGATAGAATTTTG
Found at i:45562802 original size:32 final size:32
Alignment explanation
Indices: 45562766--45562865 Score: 80
Period size: 32 Copynumber: 3.1 Consensus size: 32
45562756 AATTTGATAG
45562766 AATTTTGAAGAATTTTGATAGAATTTTGAGAA
1 AATTTTGAAGAATTTTGATAGAATTTTGAGAA
* * * *
45562798 AA-TTTCAATGAAATTTGATAGATTTTTGAAAA
1 AATTTTGAA-GAATTTTGATAGAATTTTGAGAA
* * * *
45562830 GAATATTGAAAGAATGTTG--AGAATTATGAGAG
1 -AATTTTG-AAGAATTTTGATAGAATTTTGAGAA
45562862 AATT
1 AATT
45562866 GTATGAAAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
31 8 0.16
32 31 0.61
33 2 0.04
34 8 0.16
35 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (32 bp):
AATTTTGAAGAATTTTGATAGAATTTTGAGAA
Found at i:45570401 original size:25 final size:25
Alignment explanation
Indices: 45570376--45570429 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 25
45570366 GGGCATGTGA
45570376 TTTCTGAAGATGGTATCCGAGTTGAT
1 TTTC-GAAGATGGTATCCGAGTTGAT
*
45570402 TTTCGAAGATGGTATCCGAGTAGAT
1 TTTCGAAGATGGTATCCGAGTTGAT
45570427 TTT
1 TTT
45570430 GGTAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (25 bp):
TTTCGAAGATGGTATCCGAGTTGAT
Found at i:45572110 original size:21 final size:21
Alignment explanation
Indices: 45572080--45572128 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
45572070 AATGTACCTT
*
45572080 AGTCATACAGGCGTGTGTCTC
1 AGTCACACAGGCGTGTGTCTC
45572101 AGTCACACAGGCGTGTGTCTC
1 AGTCACACAGGCGTGTGTCTC
45572122 AGTCACA
1 AGTCACA
45572129 TGATATTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (21 bp):
AGTCACACAGGCGTGTGTCTC
Found at i:45576012 original size:42 final size:42
Alignment explanation
Indices: 45575952--45576112 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 42
45575942 CATTTTCTTG
** * *
45575952 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
* * * *
45575994 ATGTCATAGCCCAGCTATGGTCTTACACATATTCATATATTG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
* *
45576036 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCAC--AT-A-ATA
*
45576082 TCGATGCCATAGGCCAGCTATGGTCTTACAC
1 ---ATGCCATAGCCCAGCTATGGTCTTACAC
45576113 GGATCACAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
42 66 0.68
44 2 0.02
45 1 0.01
46 1 0.01
49 27 0.28
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAATA
Found at i:45576147 original size:48 final size:48
Alignment explanation
Indices: 45576030--45576168 Score: 206
Period size: 48 Copynumber: 2.9 Consensus size: 48
45576020 ACATATTCAT
*
45576030 ATATTGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCAC
1 ATATTGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACAGATCAC
* * *
45576079 ATATCGATGCCATAGGCCAGCTATGGTCTTACACGGATCACAGATCAC
1 ATATTGATGCCATAGCCCAGCTATGGTCTTACACGAATCACAGATCAC
** *
45576127 ATATTGATGTTATAGCCCAGCTATGTTCTTACACGAATCACA
1 ATATTGATGCCATAGCCCAGCTATGGTCTTACACGAATCACA
45576169 TATCTCACTA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 47 0.59
49 33 0.41
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (48 bp):
ATATTGATGCCATAGCCCAGCTATGGTCTTACACGAATCACAGATCAC
Found at i:45576234 original size:47 final size:53
Alignment explanation
Indices: 45576183--45576305 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 53
45576173 TCACTAATGT
* *
45576183 CATATCCCAGATATGGTCTTATACAGTAGCATAT-A-T-C-AC-AT-CGATGC
1 CATATCCCAGATATGGTCTTATACAGAAGCACATAATTACAACTATCCGATGC
* *
45576230 CATATCCTAGATATGGTCTTATACAGAAGCACATAATTACAACTCTCCGATGC
1 CATATCCCAGATATGGTCTTATACAGAAGCACATAATTACAACTATCCGATGC
* *
45576283 CATAGCCCAGCTATGGTCTTATA
1 CATATCCCAGATATGGTCTTATA
45576306 TGAAAATCAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 31 0.49
48 1 0.02
49 1 0.02
50 1 0.02
51 2 0.03
52 1 0.02
53 26 0.41
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (53 bp):
CATATCCCAGATATGGTCTTATACAGAAGCACATAATTACAACTATCCGATGC
Found at i:45586011 original size:20 final size:20
Alignment explanation
Indices: 45585986--45586025 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45585976 ACCGTCAGAG
45585986 TTAGAAAATATTCACAATGT
1 TTAGAAAATATTCACAATGT
45586006 TTAGAAAATATTCACAATGT
1 TTAGAAAATATTCACAATGT
45586026 ATTCCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
TTAGAAAATATTCACAATGT
Found at i:45588752 original size:12 final size:12
Alignment explanation
Indices: 45588735--45588759 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45588725 TAATTAGATT
45588735 ATGTATGAAATG
1 ATGTATGAAATG
45588747 ATGTATGAAATG
1 ATGTATGAAATG
45588759 A
1 A
45588760 ATGTTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGTATGAAATG
Found at i:45594172 original size:21 final size:22
Alignment explanation
Indices: 45594146--45594204 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
45594136 GTTTTAAGAA
*
45594146 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
45594167 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
45594189 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
45594205 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:45594219 original size:26 final size:24
Alignment explanation
Indices: 45594175--45594224 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
45594165 ATTTGTTTTA
*
45594175 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
45594199 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
45594225 TTTTTATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:45595155 original size:17 final size:18
Alignment explanation
Indices: 45595103--45595159 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
45595093 TAATTAGGTT
*
45595103 AAATAATTAAATTAAATAGG
1 AAAT-ATTAAAATAAATA-G
*
45595123 AAATA-TCAAATAAA-ATG
1 AAATATTAAAATAAATA-G
45595140 AAATATTAAAATAAATAG
1 AAATATTAAAATAAATAG
45595158 AA
1 AA
45595160 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 7 0.23
18 18 0.58
19 2 0.06
20 4 0.13
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (18 bp):
AAATATTAAAATAAATAG
Found at i:45595183 original size:21 final size:22
Alignment explanation
Indices: 45595158--45595203 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
45595148 AAATAAATAG
45595158 AATTAAAAATTAAG-ATTT-AGA
1 AATT-AAAATTAAGAATTTGAGA
*
45595179 AATTAAAATTAGGAATTTGAGA
1 AATTAAAATTAAGAATTTGAGA
45595201 AAT
1 AAT
45595204 AATTCGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 8 0.36
22 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (22 bp):
AATTAAAATTAAGAATTTGAGA
Found at i:45598450 original size:22 final size:23
Alignment explanation
Indices: 45598422--45598471 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
45598412 TGATTATGAA
*
45598422 ACATAT-AGAGGACTCTATCACT
1 ACATATAAGAGGACTCTATCACC
*
45598444 ACATATAAGTGGACTCTATCACC
1 ACATATAAGAGGACTCTATCACC
45598467 ACATA
1 ACATA
45598472 GTGGATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (23 bp):
ACATATAAGAGGACTCTATCACC
Found at i:45599090 original size:17 final size:18
Alignment explanation
Indices: 45599070--45599107 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
45599060 TTTGACAAGT
* *
45599070 TAACATTGTTCAC-AATA
1 TAACATAGTACACAAATA
45599087 TAACATAGTACACAAATA
1 TAACATAGTACACAAATA
45599105 TAA
1 TAA
45599108 TTGGCTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (18 bp):
TAACATAGTACACAAATA
Found at i:45599419 original size:9 final size:9
Alignment explanation
Indices: 45599405--45599431 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
45599395 CCATATACAT
45599405 TTATATATA
1 TTATATATA
45599414 TTATATATA
1 TTATATATA
45599423 TTATATATA
1 TTATATATA
45599432 ATAAAATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTATATATA
Found at i:45599478 original size:26 final size:28
Alignment explanation
Indices: 45599416--45599478 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
45599406 TATATATATT
*
45599416 ATATATATTATATATAATAAAATCCACAC
1 ATATATATTATATATAACAAAA-CCACAC
* *
45599445 ATATATATTATATATAGCAAAACCACAT
1 ATATATATTATATATAACAAAACCACAC
45599473 ATATAT
1 ATATAT
45599479 GTACTATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (28 bp):
ATATATATTATATATAACAAAACCACAC
Found at i:45599572 original size:28 final size:24
Alignment explanation
Indices: 45599541--45599610 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 24
45599531 ACACCGAAAT
45599541 ATATATTATATATAACACCCTTGCATGC
1 ATATATTATATATAA-ACCC-TG-AT-C
45599569 ATATA-TATATTATAAACCCTGATC
1 ATATATTATA-TATAAACCCTGATC
45599593 ATTTATATTATATATAAA
1 A--TATATTATATATAAA
45599611 TAACAAAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
24 2 0.05
25 2 0.05
26 12 0.32
27 12 0.32
28 10 0.26
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATATTATATATAAACCCTGATC
Found at i:45599689 original size:18 final size:19
Alignment explanation
Indices: 45599653--45599690 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
45599643 ACACACATAC
*
45599653 CTTTTAGTACTTTAACTCA
1 CTTTTAATACTTTAACTCA
*
45599672 CTTTTAATA-TTTAGCTCA
1 CTTTTAATACTTTAACTCA
45599690 C
1 C
45599691 ACACAAACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.47
Consensus pattern (19 bp):
CTTTTAATACTTTAACTCA
Found at i:45606468 original size:48 final size:47
Alignment explanation
Indices: 45606414--45606523 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 47
45606404 GTGCGATTGA
* * *
45606414 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCTGGAGAGGAGT
1 TACCTTGATTTGGCTACGGGACATGGTATAGGTATTC-CGAGAGAAGT
* *
45606462 TACCTTGATTTGGTTACGGGACATGGTATAGGTATTCCGAGATAAGT
1 TACCTTGATTTGGCTACGGGACATGGTATAGGTATTCCGAGAGAAGT
45606509 TACCTTGATTTGGCT
1 TACCTTGATTTGGCT
45606524 TTAGACCATG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
47 21 0.38
48 35 0.62
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGACATGGTATAGGTATTCCGAGAGAAGT
Found at i:45606534 original size:47 final size:48
Alignment explanation
Indices: 45606414--45606538 Score: 132
Period size: 47 Copynumber: 2.6 Consensus size: 48
45606404 GTGCGATTGA
*** * * *
45606414 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTCTGGAGAGGAGT
1 TACCTTGATTTGGCTTTAGACCATGGTATAGGTATTCTCGAGAGAAGT
*
45606462 TACCTTGATTTGG--TTACGGGA-CATGGTATAGGTATTC-CGAGATAAGT
1 TACCTTGATTTGGCTTTA---GACCATGGTATAGGTATTCTCGAGAGAAGT
45606509 TACCTTGATTTGGCTTTAGACCATGGTATA
1 TACCTTGATTTGGCTTTAGACCATGGTATA
45606539 TGTACCTATC
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
46 2 0.03
47 29 0.45
48 29 0.45
49 4 0.06
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.34
Consensus pattern (48 bp):
TACCTTGATTTGGCTTTAGACCATGGTATAGGTATTCTCGAGAGAAGT
Found at i:45613612 original size:32 final size:30
Alignment explanation
Indices: 45613524--45613602 Score: 117
Period size: 28 Copynumber: 2.7 Consensus size: 30
45613514 TACGTGGGTG
* * *
45613524 ATTATACATATATTATATATGCATGGCTTT
1 ATTATATATATAATATATATGCATGGTTTT
45613554 ATT-T-TATATAATATATATGCATGGTTTT
1 ATTATATATATAATATATATGCATGGTTTT
45613582 ATTATATATATAATATATATG
1 ATTATATATATAATATATATG
45613603 GGTATGGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 24 0.55
29 2 0.05
30 18 0.41
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (30 bp):
ATTATATATATAATATATATGCATGGTTTT
Found at i:45613623 original size:32 final size:30
Alignment explanation
Indices: 45613495--45613626 Score: 112
Period size: 30 Copynumber: 4.4 Consensus size: 30
45613485 TATATATGTG
* * * *
45613495 TTATATATATACGTATATATACGTGG-GTGA
1 TTATATATATA-ATATATATGCATGGTTTGA
* *
45613525 TTATACATATATTATATATGCATGGCTTT-A
1 TTATATATATAATATATATGCATGG-TTTGA
*
45613555 TT-T-TATATAATATATATGCATGGTTTTA
1 TTATATATATAATATATATGCATGGTTTGA
*
45613583 TTATATATATAATATATATGGGTATGGTTTGA
1 TTATATATATAATATATAT--GCATGGTTTGA
45613615 -TATAATATATAA
1 TTAT-ATATATAA
45613627 ATTCATGAGG
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.04
28 21 0.25
29 13 0.15
30 27 0.32
31 4 0.05
32 17 0.20
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.46
Consensus pattern (30 bp):
TTATATATATAATATATATGCATGGTTTGA
Found at i:45616433 original size:40 final size:40
Alignment explanation
Indices: 45616371--45616588 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
45616361 AAGCCAAGTA
* * * * *
45616371 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
45616410 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45616450 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
45616490 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
45616530 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
45616570 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
45616589 TTATCATCCG
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.08
40 150 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:45623985 original size:47 final size:47
Alignment explanation
Indices: 45623934--45624442 Score: 840
Period size: 47 Copynumber: 10.7 Consensus size: 47
45623924 TTAGGATTCT
* * *
45623934 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
45623981 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45624028 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45624075 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45624122 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
45624171 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGCCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
45624220 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45624267 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
45624314 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * * *
45624361 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGTCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
45624408 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45624443 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 345 0.78
49 95 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:45624277 original size:239 final size:237
Alignment explanation
Indices: 45623955--45624442 Score: 845
Period size: 239 Copynumber: 2.1 Consensus size: 237
45623945 GTGAACATGC
* *
45623955 ATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
45624020 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
45624085 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * * *
45624150 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
194 TGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
45624194 ATATATGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
45624259 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
45624324 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
131 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* * * *
45624389 TGACAGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
196 TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
45624431 A-A-ATGTGATAAG
1 ATATATGTGATAAG
45624443 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 43 0.18
239 184 0.77
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (237 bp):
ATATATGTGATAAGCCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
TGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
Found at i:45624617 original size:37 final size:37
Alignment explanation
Indices: 45624561--45624639 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
45624551 CCGAGCTCTA
* * *
45624561 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
45624598 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45624635 AAGAC
1 AAGAC
45624640 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45632102 original size:17 final size:19
Alignment explanation
Indices: 45632069--45632103 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
45632059 ATAGTATCAC
45632069 TTATACATTTATACCAAGA
1 TTATACATTTATACCAAGA
45632088 TTAT-CATTT-TACCAAG
1 TTATACATTTATACCAAG
45632104 TATCTTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (19 bp):
TTATACATTTATACCAAGA
Found at i:45637789 original size:47 final size:47
Alignment explanation
Indices: 45637720--45637821 Score: 177
Period size: 47 Copynumber: 2.2 Consensus size: 47
45637710 AGCTTAGCTT
* * *
45637720 ATCATTGGTGGCTATGGCATAAGGTTCGGTCTCAGCTGGTCATAACC
1 ATCATCGGTGGCTATGGCATAAGGTTCGGTATCAGCCGGTCATAACC
45637767 ATCATCGGTGGCTATGGCATAAGGTTCGGTATCAGCCGGTCATAACC
1 ATCATCGGTGGCTATGGCATAAGGTTCGGTATCAGCCGGTCATAACC
45637814 ATCATCGG
1 ATCATCGG
45637822 AACCAATGCC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (47 bp):
ATCATCGGTGGCTATGGCATAAGGTTCGGTATCAGCCGGTCATAACC
Found at i:45641030 original size:19 final size:19
Alignment explanation
Indices: 45641006--45641043 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45640996 AGTTCAAAAT
45641006 GAGTTAGGAGTTATCACAC
1 GAGTTAGGAGTTATCACAC
45641025 GAGTTAGGAGTTATCACAC
1 GAGTTAGGAGTTATCACAC
45641044 TATCATAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (19 bp):
GAGTTAGGAGTTATCACAC
Found at i:45647536 original size:12 final size:12
Alignment explanation
Indices: 45647519--45647543 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45647509 GTCAAAACCA
45647519 TTGCTTTTCCTT
1 TTGCTTTTCCTT
45647531 TTGCTTTTCCTT
1 TTGCTTTTCCTT
45647543 T
1 T
45647544 ACATTAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.08, T:0.68
Consensus pattern (12 bp):
TTGCTTTTCCTT
Found at i:45649372 original size:42 final size:41
Alignment explanation
Indices: 45649270--45649420 Score: 144
Period size: 43 Copynumber: 3.6 Consensus size: 41
45649260 GTCTGAGACA
* *
45649270 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAAATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATTG-AATT
* * *
45649312 TACGTATAAGACCTTGTCTGGGACATCGGCATCGTATCTG-ATT
1 T-CGTGTAAGACCCTGTCTGGGACATAGGCATCG-AT-TGAATT
* *
45649355 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCAATATTGAATT
1 TCGTGTAAGACCCTGTCTGGGACATAGGCATC--GATTGAATT
* *
45649398 ACATGTAAGACCAC-GTCTGGGAC
1 TCGTGTAAGACC-CTGTCTGGGAC
45649421 GTCAGCATTG
Statistics
Matches: 91, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
42 30 0.33
43 56 0.62
44 3 0.03
45 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACATAGGCATCGATTGAATT
Found at i:45656944 original size:43 final size:44
Alignment explanation
Indices: 45656892--45657017 Score: 125
Period size: 43 Copynumber: 2.9 Consensus size: 44
45656882 ACAGGTCTCG
* *
45656892 ATTGAAATTTACGTATAAGACCATGTCTGAGACATCGGCATC-GT
1 ATTG-AATTTACGTGTAAGACCATGTCTGAGACATCGGCATCAAT
* * **
45656936 ATCT-AATTT-CGTGTAAGACCTTGTCTGGGACAGAGGCATCAAT
1 AT-TGAATTTACGTGTAAGACCATGTCTGAGACATCGGCATCAAT
* * *
45656979 ATTGAA-TTACATGTAAGACCACGTCTGAGACGTCGGCAT
1 ATTGAATTTACGTGTAAGACCATGTCTGAGACATCGGCAT
45657018 TGTACTTATT
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
42 29 0.45
43 33 0.51
44 2 0.03
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
ATTGAATTTACGTGTAAGACCATGTCTGAGACATCGGCATCAAT
Found at i:45665172 original size:48 final size:48
Alignment explanation
Indices: 45665114--45665533 Score: 554
Period size: 48 Copynumber: 8.8 Consensus size: 48
45665104 AGCATCCGAG
* * *
45665114 ATATGTGCCTGTGTAAAACCATGTCTGGGACATGGCGTCGGCAATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* *
45665162 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGACATCAGCGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
*
45665210 ATATGTGCCTGTTTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * * * *
45665258 ATATGTGCCTATGTAAGACTATGTCTGGGACATAGCATCCGCAATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
45665306 ATATGTGCCTGTATAAGACCATGTTTGGGACATGGCATCGGTGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * *
45665354 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGTGATGAC
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * * *
45665402 ATATGTGCCTATGTAAGACCATGTCTAGGACATGGCATCAGTGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* * * *
45665450 ATATGTGCCAGTGTAAGACCATGTTTGAGACATGGCATTGGCGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
* ** * *
45665498 ATGTG-GATTCATGTAAGACCATGTCTGGGAAATGGC
1 ATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGC
45665534 GTTAGTACTT
Statistics
Matches: 324, Mismatches: 47, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
47 1 0.00
48 323 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGAT
Found at i:45673085 original size:48 final size:48
Alignment explanation
Indices: 45673018--45673488 Score: 543
Period size: 48 Copynumber: 9.8 Consensus size: 48
45673008 GGCATCTGAG
*
45673018 ATATGTGCCTGTGTAAGACCATGTCTGGGACAAGGCATCGACGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * * * * *
45673066 ATATATGCTTGTGAAAGACCATGTTTGGGATATGGCATCGGCAATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * * * *
45673114 ATATGTTCCCGTGTAAGACCATATCTGAGACATGGCATCGATGACGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
*
45673162 ATATGTGCCTGTGTAAAGACCATGTCTGGGACATGGCATTGACGATGAT
1 ATATGTGCCTGTGT-AAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * **
45673211 ATATGTGGCTGTGTAATACCATGTCTGGGACATGACATCGGTGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * *
45673259 ATATGTTCCTGTGTAAGACCATGTCTAGGACATGGCATC-AGGGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGAT
45673307 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* ** * * *
45673355 ATTTGTGCCACTGTAAGACCATGTTTGGGACATGGCATCGGCAATGAT
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * * *
45673403 ATATGTGTCAT-TGTATGACCATGTCTGGGACATGGCATTGGCAATGAT
1 ATATGTG-CCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* ** *
45673451 ATGTG-GATTCATGTAAGACCATGTCTGGGACATGGCAT
1 ATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
45673489 TGGTACTTGA
Statistics
Matches: 357, Mismatches: 60, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
46 1 0.00
47 1 0.00
48 311 0.87
49 44 0.12
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
Found at i:45673395 original size:144 final size:142
Alignment explanation
Indices: 45673018--45673488 Score: 604
Period size: 144 Copynumber: 3.3 Consensus size: 142
45673008 GGCATCTGAG
* * * *
45673018 ATATGTGCCTGTGTAAGACCATGTCTGGGACAAGGCATCGACGATGATATATATGCTTGTGAAAG
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAG
* * *
45673083 ACCATGTTTGGGATATGGCATCGGCAATGATATATGTTCCCGTGTAAGACCATATCTGAGACATG
66 ACCATGTTTGGGACATGGCATCGGCAATGATATATGTTCCTGTGTAAGACCATGTCTG-GACATG
* *
45673148 GCATCGATGACGAT
130 GCATCG-GGATGAT
* *
45673162 ATATGTGCCTGTGTAAAGACCATGTCTGGGACATGGCATTGACGATGATATATGTGGCTGTGTAA
1 ATATGTGCCTGTGT-AAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAA
* * * **
45673227 TACCATGTCTGGGACATGACATCGGTGATGATATATGTTCCTGTGTAAGACCATGTCTAGGACAT
65 GACCATGTTTGGGACATGGCATCGGCAATGATATATGTTCCTGTGTAAGACCATGTCT-GGACAT
45673292 GGCATCAGGGATGAT
129 GGCATC-GGGATGAT
* **
45673307 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATTTGTGCCACTGTAAG
1 ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAG
* *
45673372 ACCATGTTTGGGACATGGCATCGGCAATGATATATGTGTCAT-TGTATGACCATGTCTGGGACAT
66 ACCATGTTTGGGACATGGCATCGGCAATGATATATGT-TCCTGTGTAAGACCATGTCT-GGACAT
* *
45673436 GGCATTGGCAATGAT
129 GGCATCGG-GATGAT
* ** *
45673451 ATGTG-GATTCATGTAAGACCATGTCTGGGACATGGCAT
1 ATATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCAT
45673489 TGGTACTTGA
Statistics
Matches: 286, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
143 4 0.01
144 153 0.53
145 127 0.44
146 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (142 bp):
ATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATATGTGCCTGTGTAAG
ACCATGTTTGGGACATGGCATCGGCAATGATATATGTTCCTGTGTAAGACCATGTCTGGACATGG
CATCGGGATGAT
Found at i:45679835 original size:31 final size:31
Alignment explanation
Indices: 45679797--45679875 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
45679787 TTTAACGGTT
45679797 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
45679828 ACTGGGCCGAAGTCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
45679859 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
45679876 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:45680138 original size:26 final size:26
Alignment explanation
Indices: 45680093--45680164 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
45680083 CCTCTTTAAT
**
45680093 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
45680118 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
45680144 AACTGGGGCATAAGCCATTTT
1 AACTGGGGCATAAGCCCTTTT
45680165 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 10 0.23
26 33 0.77
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:45680239 original size:20 final size:20
Alignment explanation
Indices: 45680214--45680320 Score: 164
Period size: 20 Copynumber: 5.3 Consensus size: 20
45680204 TTATGAATAC
45680214 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
45680234 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
45680254 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
45680274 ATCATGTGCATATT-ATACAT
1 ATCATGTGCAT-TTCATACAT
*
45680294 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
45680314 ATCATGT
1 ATCATGT
45680321 ATATCATATC
Statistics
Matches: 82, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
19 1 0.01
20 77 0.94
21 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:45680326 original size:9 final size:10
Alignment explanation
Indices: 45680231--45680327 Score: 51
Period size: 9 Copynumber: 9.8 Consensus size: 10
45680221 GCATTTCATA
45680231 CATATCATGT
1 CATATCATGT
* *
45680241 GCATTTCAT-A
1 -CATATCATGT
45680251 CATATCATGT
1 CATATCATGT
* * *
45680261 GCATTTTAT-A
1 -CATATCATGT
45680271 CATATCATGT
1 CATATCATGT
* *
45680281 GCATATTAT-A
1 -CATATCATGT
45680291 CATATCATGT
1 CATATCATGT
*
45680301 GCATATCATAT
1 -CATATCATGT
45680312 CA-ATCATGT
1 CATATCATGT
45680321 -ATATCAT
1 CATATCAT
45680328 ATCCCACATA
Statistics
Matches: 63, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
8 1 0.02
9 31 0.49
10 2 0.03
11 29 0.46
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (10 bp):
CATATCATGT
Found at i:45681046 original size:27 final size:28
Alignment explanation
Indices: 45681015--45681080 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
45681005 TACGGAACAT
*
45681015 AAGGGCATATT-CG-TCATTTTACCATAC
1 AAGGGC-TATTACGATCACTTTACCATAC
*
45681042 AAGGG-TATTACGATCACTTTACCCTAC
1 AAGGGCTATTACGATCACTTTACCATAC
45681069 AAGGGCT-TTACG
1 AAGGGCTATTACG
45681081 GTCTTTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 4 0.12
26 2 0.06
27 27 0.79
28 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (28 bp):
AAGGGCTATTACGATCACTTTACCATAC
Found at i:45681089 original size:27 final size:27
Alignment explanation
Indices: 45681028--45681091 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
45681018 GGCATATTCG
45681028 TCATTTTACCATACAAGGGTATTACGA
1 TCATTTTACCATACAAGGGTATTACGA
* * *
45681055 TCACTTTACCCTACAAGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGA
*
45681082 TCTTTTTACC
1 TCATTTTACC
45681092 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGA
Found at i:45681163 original size:27 final size:26
Alignment explanation
Indices: 45681123--45681230 Score: 92
Period size: 27 Copynumber: 3.9 Consensus size: 26
45681113 TTCATCCTAC
*
45681123 AAACCAAGGATATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTA-TAATTTTGT
*
45681150 AAACCAATGGTATTTTTATAATTTT-T
1 AAACCAAGGGTA-TTTTATAATTTTGT
*
45681176 AGAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTT-TATAATTTTGT
* * *
45681206 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTT-ATAATTTT
45681231 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.03
27 35 0.51
28 14 0.21
29 16 0.24
30 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (26 bp):
AAACCAAGGGTATTTTATAATTTTGT
Found at i:45681236 original size:27 final size:27
Alignment explanation
Indices: 45681197--45681309 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
45681187 GGTATTTCTA
**
45681197 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* *
45681224 TAATTTTACAAAT-TGAGGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * *
45681251 TAATTTCACAAACCAGTGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
45681278 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
45681305 TAATT
1 TAATT
45681310 CTATCCTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 2 0.03
27 69 0.96
28 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:45681349 original size:27 final size:26
Alignment explanation
Indices: 45681207--45681349 Score: 103
Period size: 27 Copynumber: 5.3 Consensus size: 26
45681197 TAATTTTGTA
*
45681207 AATCAGGGGTATTTTGGTAATTTTAC
1 AATCAGGGGTATTTTGGTAATTTCAC
* *
45681233 AAAT-TGAGGGTATTTCGGTAATTTCAC
1 -AATCAG-GGGTATTTTGGTAATTTCAC
* * *
45681260 AAACCAGTGGTATTTTGGTAATTTTAC
1 -AATCAGGGGTATTTTGGTAATTTCAC
*
45681287 AAACTAGGGGTATTTTGGTAA-TTCTATC
1 AATC-AGGGGTATTTTGGTAATTTC-A-C
* **
45681315 -CTACAGGGGTATTTCAGTAATTTCAC
1 AAT-CAGGGGTATTTTGGTAATTTCAC
45681341 AATCGAGGG
1 AATC-AGGG
45681350 TAAAACAATA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
26 8 0.09
27 77 0.85
28 6 0.07
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (26 bp):
AATCAGGGGTATTTTGGTAATTTCAC
Found at i:45681403 original size:27 final size:27
Alignment explanation
Indices: 45681341--45681483 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
45681331 GTAATTTCAC
** *
45681341 AATCGAGGGTAAAACAATAATT-TGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45681367 AATCAAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45681394 AATTGAGGGTAAAACGGTAGTTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
45681421 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
45681448 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
45681475 AATCGAGGG
1 AATCGAGGG
45681484 CATTCCAGTA
Statistics
Matches: 101, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 18 0.18
27 83 0.82
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:45685297 original size:36 final size:36
Alignment explanation
Indices: 45685257--45685333 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
45685247 ATGATGATTG
* * * * *
45685257 ATGTGAAAGTGAATATGAGGGTGTGTTGTTCATGCT
1 ATGTGAAAGTAAATATGAGCGTATGTTATTCATGCC
* *
45685293 ATGTGACAGTAAATATGCGCGTATGTTATTCATGCC
1 ATGTGAAAGTAAATATGAGCGTATGTTATTCATGCC
45685329 ATGTG
1 ATGTG
45685334 GCAGTGATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.10, G:0.29, T:0.35
Consensus pattern (36 bp):
ATGTGAAAGTAAATATGAGCGTATGTTATTCATGCC
Found at i:45687572 original size:21 final size:21
Alignment explanation
Indices: 45687548--45687598 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
45687538 TATAATGAGT
*
45687548 ATATCATGTGCAGCTCATAAC
1 ATATCATGTGCAGATCATAAC
* **
45687569 ATATCATGTGCATATCATGTC
1 ATATCATGTGCAGATCATAAC
45687590 ATATCATGT
1 ATATCATGT
45687599 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCAGATCATAAC
Found at i:45687582 original size:11 final size:10
Alignment explanation
Indices: 45687568--45687604 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
45687558 CAGCTCATAA
45687568 CATATCATGT
1 CATATCATGT
45687578 GCATATCATGT
1 -CATATCATGT
45687589 CATATCATGT
1 CATATCATGT
45687599 -ATATCA
1 CATATCA
45687605 AAATCTCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 6 0.23
10 10 0.38
11 10 0.38
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (10 bp):
CATATCATGT
Found at i:45687663 original size:25 final size:25
Alignment explanation
Indices: 45687635--45687683 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
45687625 ATAATTAAAC
* * *
45687635 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAATAATCATTTTTA
45687660 CCTAGGGGCAAAATAATCATTTTT
1 CCTAGGGGCAAAATAATCATTTTT
45687684 CATATTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAATAATCATTTTTA
Found at i:45709926 original size:28 final size:28
Alignment explanation
Indices: 45709886--45709943 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
45709876 TGTACCGAAG
45709886 TAAGTTCATTTGCAAATAGTGCAACATA
1 TAAGTTCATTTGCAAATAGTGCAACATA
45709914 TAAGTTCATTTGCAAATAGTGCAACATA
1 TAAGTTCATTTGCAAATAGTGCAACATA
45709942 TA
1 TA
45709944 CCATGCTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (28 bp):
TAAGTTCATTTGCAAATAGTGCAACATA
Found at i:45716845 original size:47 final size:47
Alignment explanation
Indices: 45716767--45717004 Score: 361
Period size: 47 Copynumber: 5.1 Consensus size: 47
45716757 CCCTTCGGGA
* * * * * * *
45716767 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
45716814 CCCGTCACATATATACACTTTCACATTCATCACATCGGCC-TTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45716860 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45716907 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45716954 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45717001 CTTA
1 CTTA
45717005 CTATCATTTC
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 41 0.24
47 133 0.76
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45716926 original size:93 final size:94
Alignment explanation
Indices: 45716767--45717004 Score: 361
Period size: 93 Copynumber: 2.5 Consensus size: 94
45716757 CCCTTCGGGA
* * * * * * * ***
45716767 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
45716832 TTTCACATTCATCACATCGGCC-TTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
45716860 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
45716925 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
45716954 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
45717005 CTATCATTTC
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 76 0.58
94 56 0.42
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:45720477 original size:40 final size:40
Alignment explanation
Indices: 45720420--45720602 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
45720410 CCAGCATGAT
* *
45720420 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
45720460 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
45720500 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
45720541 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
45720581 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
45720603 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:45720946 original size:29 final size:29
Alignment explanation
Indices: 45720909--45720987 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
45720899 TTAATAATTC
*
45720909 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
45720939 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
45720968 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45720988 ATCTCGCAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:45721030 original size:43 final size:43
Alignment explanation
Indices: 45720969--45721071 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
45720959 TGCATTTCAA
*
45720969 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
45721012 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
45721055 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
45721072 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:45723208 original size:47 final size:47
Alignment explanation
Indices: 45723091--45723697 Score: 652
Period size: 47 Copynumber: 13.1 Consensus size: 47
45723081 CCCTTCGGGA
* * * * * * *
45723091 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
45723138 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45723184 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45723231 CTTATCACATATATACACTTTCACATTCAT-ACCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCA-CATCGGCCATTAGGC
** * * * ** *
45723278 CTTATCATTTCAT-TTCA-TATTCATACTCATCTTACATATCGATTCA-TATGGG
1 CTTATCACAT-ATATACACT-TTCACATTCATC--AC--ATCG-GCCATTA-GGC
*
45723330 TTTAATCA-ATAGCTTATGAGCAAC--T-ACATT-AT---A-C--CC-TT---C
1 CTT-ATCACATA---TAT-A-C-ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45723369 ACTTATCACAT-T-TACACTTTCACA-TCATCACGTTGGCCA-TCGGC
1 -CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45723413 C-CATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45723459 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45723506 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45723553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45723600 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45723647 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45723694 CTTA
1 CTTA
45723698 CTATCATTTC
Statistics
Matches: 477, Mismatches: 41, Indels: 84
0.79 0.07 0.14
Matches are distributed among these distances:
32 2 0.00
33 1 0.00
34 3 0.01
35 6 0.01
36 1 0.00
39 4 0.01
40 4 0.01
41 3 0.01
42 7 0.01
43 4 0.01
44 13 0.03
45 13 0.03
46 45 0.09
47 339 0.71
48 2 0.00
49 1 0.00
50 1 0.00
51 7 0.01
52 7 0.01
53 4 0.01
54 3 0.01
55 4 0.01
56 1 0.00
57 1 0.00
58 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45727302 original size:17 final size:18
Alignment explanation
Indices: 45727270--45727303 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45727260 TGAATGAAAA
45727270 AAATGCTAGGGGCAATTG
1 AAATGCTAGGGGCAATTG
*
45727288 AAATGCT-GTGGCAATT
1 AAATGCTAGGGGCAATT
45727304 CTCAAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (18 bp):
AAATGCTAGGGGCAATTG
Found at i:45730605 original size:44 final size:45
Alignment explanation
Indices: 45730511--45730613 Score: 156
Period size: 44 Copynumber: 2.3 Consensus size: 45
45730501 TGCCAGTCGG
*
45730511 GGACATGCATCGGCCTCGAGATGTAAGCCAGTGTAAGACATGTCTG
1 GGACATGCATCGGCCTCGAGATGT-AGCCAGTGTAAGACATGTCTA
*
45730557 GGACATGCATCGG-CTGCGAGATGT-GCTAGTGTAAGACATGTCTA
1 GGACATGCATCGGCCT-CGAGATGTAGCCAGTGTAAGACATGTCTA
45730601 GGACATGCATCGG
1 GGACATGCATCGG
45730614 TACTGATATG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
44 31 0.57
45 2 0.04
46 21 0.39
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.22
Consensus pattern (45 bp):
GGACATGCATCGGCCTCGAGATGTAGCCAGTGTAAGACATGTCTA
Found at i:45730671 original size:50 final size:49
Alignment explanation
Indices: 45730581--45730680 Score: 112
Period size: 49 Copynumber: 2.0 Consensus size: 49
45730571 TGCGAGATGT
* * * *
45730581 GCTAGTGTAAGACATGTCTAGGACATGCATCGGTACTGAT-ATGTAAGA
1 GCTAGTGAAAGACATATCTAGGACATGCATCGGCAATGATAATGTAAGA
* *
45730629 GCTAGTGAAAGAACATATCTGGGATATGGCATCGGCAATGATACATGTAAGA
1 GCTAGTGAAAG-ACATATCTAGGACAT-GCATCGGCAATGATA-ATGTAAGA
45730681 TTTCCCGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
48 10 0.24
49 12 0.29
50 12 0.29
52 8 0.19
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (49 bp):
GCTAGTGAAAGACATATCTAGGACATGCATCGGCAATGATAATGTAAGA
Found at i:45756238 original size:46 final size:46
Alignment explanation
Indices: 45756188--45756362 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
45756178 TGATTGAGCA
45756188 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45756234 TCCGAACTCGTT-AGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
45756278 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45756326 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45756363 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 18 0.17
46 56 0.51
47 16 0.15
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45760502 original size:32 final size:32
Alignment explanation
Indices: 45760465--45760529 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
45760455 TGATAGGGCC
45760465 AAGTGGCCAATGTGATGAATGTGAAAGTATAT
1 AAGTGGCCAATGTGATGAATGTGAAAGTATAT
45760497 AAGTGGCCAATGTGATGAATGTGAAAGTATAT
1 AAGTGGCCAATGTGATGAATGTGAAAGTATAT
45760529 A
1 A
45760530 TATATGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (32 bp):
AAGTGGCCAATGTGATGAATGTGAAAGTATAT
Found at i:45760608 original size:47 final size:47
Alignment explanation
Indices: 45760500--45760730 Score: 345
Period size: 47 Copynumber: 4.9 Consensus size: 47
45760490 AGTATATAAG
* * *
45760500 TGGCCAATGTGATGAATGTGAAAGTATATATATATGTGATAGGGCCGAG
1 TGGCCAATGTGATGAATGTGAAAG--TGTATATATGTGATAAGGCCGAA
* * *
45760549 TGACCAACGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAA
1 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
* *
45760596 TGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAGACCGAA
1 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
*
45760643 TGACCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
1 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
* *
45760690 TGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
45760731 TCCCGAAGGG
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 144 0.87
49 21 0.13
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
Found at i:45769557 original size:47 final size:47
Alignment explanation
Indices: 45769479--45769929 Score: 740
Period size: 47 Copynumber: 9.6 Consensus size: 47
45769469 CCCTTCGGGA
* * * * * *
45769479 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45769526 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45769573 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45769620 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45769667 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45769716 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45769763 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45769810 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
45769857 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45769904 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
45769930 CACAATTATC
Statistics
Matches: 379, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 332 0.88
49 47 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45769894 original size:237 final size:235
Alignment explanation
Indices: 45769479--45769929 Score: 794
Period size: 237 Copynumber: 1.9 Consensus size: 235
45769469 CCCTTCGGGA
* * *
45769479 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATACAC
*
45769544 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAATTTCACATTCATCACATC
*
45769609 GGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
45769674 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CATATATATACA--TTCACATTCATCACATCGGCCATTAGGC
* * *
45769716 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATACAC
*
45769781 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAATTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAATTTCACATTCATCACATC
*
45769846 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
45769911 CATATATATACATTCACAT
196 CATATATATACATTCACAT
45769930 CACAATTATC
Statistics
Matches: 204, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 7 0.03
237 197 0.97
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (235 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCACTCGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACAATTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATATACATTCACATTCATCACATCGGCCATTAGGC
Found at i:45769965 original size:190 final size:189
Alignment explanation
Indices: 45769479--45769929 Score: 692
Period size: 190 Copynumber: 2.4 Consensus size: 189
45769469 CCCTTCGGGA
* * * * * * * *
45769479 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
* ** *
45769543 CTTTCACATTCATCACATCGGCCATTAGGCC-TCATCACATATATACACTTTCACATTCATCACA
66 CATTCACATTCATCACATTAGCCATTCGGCCAT-ATCACATATATACACTTTCACATTCATCACA
* *
45769607 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
45769667 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
45769732 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACATTCACATTCATCACATTAGCCATTCGGCCATATCACATATATACACTTTCACATTCATCACA
45769797 TCGGCCATTAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
130 TCGGCCATTAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
* *
45769857 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
45769921 CATTCACAT
66 CATTCACAT
45769930 CACAATTATC
Statistics
Matches: 245, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
188 70 0.29
190 174 0.71
191 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (189 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CATTCACATTCATCACATTAGCCATTCGGCCATATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
Found at i:45772684 original size:46 final size:46
Alignment explanation
Indices: 45772634--45772809 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
45772624 TGATTGAGCA
45772634 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
45772680 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
45772725 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* **
45772773 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45772810 GCTGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45772790 original size:93 final size:93
Alignment explanation
Indices: 45772631--45772800 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
45772621 GGATGATTGA
* *
45772631 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTGAGT
45772696 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
45772724 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCC-GAACTCGTTGAG
45772788 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
45772801 TGCTTATGGG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:45777880 original size:12 final size:12
Alignment explanation
Indices: 45777863--45777895 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
45777853 CTAGACACAA
45777863 GCCCGTGTGTCT
1 GCCCGTGTGTCT
45777875 GCCCGTGTGTCT
1 GCCCGTGTGTCT
45777887 GCCCGTGTG
1 GCCCGTGTG
45777896 GACAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.36, T:0.30
Consensus pattern (12 bp):
GCCCGTGTGTCT
Found at i:45779971 original size:47 final size:47
Alignment explanation
Indices: 45779912--45780207 Score: 484
Period size: 47 Copynumber: 6.3 Consensus size: 47
45779902 TCGGGACTTC
* *
45779912 TCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* * * * *
45779959 TCACATATATACACCTTCACATCCATCACATCGGCCATTAGGTCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
**
45780006 TCTTATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
45780053 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
45780100 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
* *
45780147 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
*
45780194 TCACATATACACAC
1 TCACATATATACAC
45780208 CTTGTACATC
Statistics
Matches: 232, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 232 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
Found at i:45780058 original size:22 final size:22
Alignment explanation
Indices: 45780030--45780152 Score: 70
Period size: 22 Copynumber: 5.3 Consensus size: 22
45780020 TTTCACATTC
45780030 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
45780052 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
45780076 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
** * * *
45780099 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
45780123 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45780146 ATCACAT
1 ATCACAT
45780153 ATATACACTT
Statistics
Matches: 71, Mismatches: 20, Indels: 20
0.64 0.18 0.18
Matches are distributed among these distances:
22 29 0.41
23 10 0.14
24 10 0.14
25 22 0.31
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45783673 original size:28 final size:27
Alignment explanation
Indices: 45783641--45783745 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
45783631 CTGACTGATT
*
45783641 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
45783669 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
45783698 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
* *
45783726 TTGCACACACAGTGCCTCAT
1 TCGCACACATAGTG-CTCAT
45783746 AACTCCAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.03
28 33 0.52
29 27 0.43
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:45783823 original size:40 final size:40
Alignment explanation
Indices: 45783779--45784100 Score: 531
Period size: 40 Copynumber: 8.1 Consensus size: 40
45783769 GGTTTAGCTT
* * *
45783779 GGATATATCACTAGCACGAATACTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
45783819 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
45783859 GGATACATTACTAGCACGAATGCTCTTCAGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
45783899 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
45783939 AGATACATTACTAGCACGAATGCTCTTCGAAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
45783979 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
*
45784019 GGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCC
1 GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
* *
45784059 GGAT--ATAACATCAGCACGAATGCTCTTCGGGACTTAGCCC
1 GGATACATTAC-T-AGCACGAATGCTCTTCGGAACTTAGCCC
45784099 GG
1 GG
45784101 CTATATAACT
Statistics
Matches: 268, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
38 4 0.01
39 1 0.00
40 263 0.98
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
GGATACATTACTAGCACGAATGCTCTTCGGAACTTAGCCC
Found at i:45785827 original size:47 final size:47
Alignment explanation
Indices: 45785764--45786016 Score: 407
Period size: 47 Copynumber: 5.4 Consensus size: 47
45785754 CCCTTCGGGA
* *
45785764 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
45785811 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45785858 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
45785905 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
45785952 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
45785999 CTTATCACATATACACAC
1 CTTATCACATATATACAC
45786017 CTTGTACATC
Statistics
Matches: 191, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 191 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45785914 original size:22 final size:22
Alignment explanation
Indices: 45785886--45785961 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
45785876 TTTCACATTC
45785886 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
45785908 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
45785932 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
45785955 ATCACAT
1 ATCACAT
45785962 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:45797974 original size:47 final size:47
Alignment explanation
Indices: 45797915--45798033 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
45797905 ATCCATAAGT
* *
45797915 GAACTCAGACTCAACTCAATAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
*
45797962 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* *
45798009 GAACACGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACAAGTT
45798034 TGGACATTCG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:45798541 original size:30 final size:30
Alignment explanation
Indices: 45798507--45798565 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
45798497 TTTAATATGA
45798507 ACTTTGGAAAAATTACACTTTTGCCCCTAC
1 ACTTTGGAAAAATTACACTTTTGCCCCTAC
* * * *
45798537 ACTTTTGCATAATTACACTTTTTCCCCTA
1 ACTTTGGAAAAATTACACTTTTGCCCCTA
45798566 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTTTGGAAAAATTACACTTTTGCCCCTAC
Found at i:45800147 original size:28 final size:27
Alignment explanation
Indices: 45800100--45800161 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
45800090 TCTGATACTA
* * *
45800100 ATTCTA-TATTGGGCTTAGGCCCACCTT
1 ATTCTATTAATGGGCTAAGG-CCACCTG
45800127 ATTCTATTAATGGGCTAAGGCCACCTG
1 ATTCTATTAATGGGCTAAGGCCACCTG
*
45800154 ATACTATT
1 ATTCTATT
45800162 CTTGTGATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTCTATTAATGGGCTAAGGCCACCTG
Found at i:45819003 original size:47 final size:47
Alignment explanation
Indices: 45818949--45819300 Score: 595
Period size: 47 Copynumber: 7.6 Consensus size: 47
45818939 TATTTGAATA
45818949 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
45818996 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
45819042 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
45819089 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-G--GATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
45819133 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
45819180 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
45819227 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
45819274 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
45819301 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
44 43 0.15
45 1 0.00
46 46 0.16
47 201 0.69
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:45819057 original size:93 final size:93
Alignment explanation
Indices: 45818949--45819300 Score: 609
Period size: 91 Copynumber: 3.8 Consensus size: 93
45818939 TATTTGAATA
45818949 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
45819014 TGTGATAAGGCCGAATGGCCATGTGATG
66 TGTGATAAGGCCGAATGGCCATGTGATG
45819042 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
45819107 TGTGATAAGGCCTAATGG--ATGTGATG
66 TGTGATAAGGCCGAATGGCCATGTGATG
45819133 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
45819198 TGTGATAAGGCCGAATGGCCGATGTGATG
66 TGTGATAAGGCCGAATGGCC-ATGTGATG
* * * * * * *
45819227 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
45819292 TGTGATAAG
66 TGTGATAAG
45819301 TCCCGAAGGG
Statistics
Matches: 247, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
91 90 0.36
93 82 0.33
94 75 0.30
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (93 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCATGTGATG
Found at i:45820757 original size:40 final size:40
Alignment explanation
Indices: 45820713--45820832 Score: 224
Period size: 39 Copynumber: 3.0 Consensus size: 40
45820703 GAGAATTGAG
45820713 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
45820753 AGTGATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
45820792 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
45820832 A
1 A
45820833 AGTCTCGAAG
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
39 39 0.50
40 39 0.50
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:45820836 original size:23 final size:23
Alignment explanation
Indices: 45820806--45820855 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
45820796 ATGTATCCGG
45820806 GCTAAGTCTCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
45820829 GCTAAGTCTCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
45820852 GCTA
1 GCTA
45820856 GTGATGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (23 bp):
GCTAAGTCTCGAAGAGCATTCGT
Found at i:45820865 original size:63 final size:62
Alignment explanation
Indices: 45820767--45820895 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 62
45820757 ATGTATCCGG
*
45820767 GCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAG-TCTCGAAGAGCATTCGT
1 GCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGT
45820829 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
1 GCTAAGTC-CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
45820892 GCTA
1 GCTA
45820896 GTGATATATC
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
62 8 0.12
63 54 0.84
64 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (62 bp):
GCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT
Found at i:45820926 original size:103 final size:102
Alignment explanation
Indices: 45820727--45820934 Score: 344
Period size: 103 Copynumber: 2.0 Consensus size: 102
45820717 ATGTATCCGG
*
45820727 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCT
* ** *
45820792 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGT
66 AGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
*
45820829 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGC
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAG-TCCGAAGAGCATTCGTGC
*
45820894 TAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGT
65 TAGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
45820932 GCT
1 GCT
45820935 GGTGTTATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 44 0.45
103 54 0.55
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (102 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCT
AGTGATATATCCGGGCTAAACCCCGAAGAGCATTCGT
Found at i:45820978 original size:40 final size:40
Alignment explanation
Indices: 45820829--45820966 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
45820819 GAGCATTCGT
* *
45820829 GCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
* * *
45820869 ACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
** * *
45820909 GCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATCCGG
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
*
45820949 GCTAGGTCCCGAAGAGCA
1 GCTAAGTCCCGAAGAGCA
45820967 ATCATGCTGG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGG
Found at i:45825037 original size:47 final size:47
Alignment explanation
Indices: 45824983--45825159 Score: 302
Period size: 47 Copynumber: 3.7 Consensus size: 47
45824973 TATTTGAATA
45824983 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
45825030 AATGTGAAAGTGTATATATGTGATAAGG-CGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
45825076 AATGTGATAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
45825125 AATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATG
45825160 TGATAAGGCC
Statistics
Matches: 121, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
46 27 0.22
47 51 0.42
48 16 0.13
49 27 0.22
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.31
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:45825162 original size:15 final size:15
Alignment explanation
Indices: 45825142--45825174 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
45825132 AAGTGTATAT
45825142 ATGTGATAAGGCCTA
1 ATGTGATAAGGCCTA
45825157 ATGTGATAAGGCCTA
1 ATGTGATAAGGCCTA
45825172 ATG
1 ATG
45825175 GCCGATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (15 bp):
ATGTGATAAGGCCTA
Found at i:45825169 original size:62 final size:61
Alignment explanation
Indices: 45825095--45825220 Score: 234
Period size: 62 Copynumber: 2.0 Consensus size: 61
45825085 GTGTATATAT
*
45825095 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCGA
45825157 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCGA
1 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCGA
45825218 ATG
1 ATG
45825221 GCCAATGTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 21 0.33
62 42 0.67
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (61 bp):
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCGA
Found at i:45825229 original size:108 final size:108
Alignment explanation
Indices: 45825047--45825262 Score: 344
Period size: 108 Copynumber: 2.0 Consensus size: 108
45825037 AAGTGTATAT
* *
45825047 ATGTGATAAGGCGAATGGCCAATGTGATGAATGTGATAGTGTATATATATGTGATAAGGCCTAAT
1 ATGTGATAAGGCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAAT
*
45825112 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
45825157 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCGAATG
1 ATGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
*
45825221 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
65 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
45825263 GAGTGGCCAA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
108 61 0.62
110 11 0.11
111 27 0.27
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (108 bp):
ATGTGATAAGGCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
Found at i:45825270 original size:47 final size:47
Alignment explanation
Indices: 45825157--45825311 Score: 231
Period size: 47 Copynumber: 3.3 Consensus size: 47
45825147 ATAAGGCCTA
* *
45825157 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
45825203 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * *
45825250 ATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
*
45825297 ATGTGATAAGTCCGA
1 ATGTGATAAGGCCGA
45825312 GCTCTAAAGA
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
46 40 0.40
47 59 0.60
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:45828878 original size:38 final size:38
Alignment explanation
Indices: 45828836--45828965 Score: 154
Period size: 38 Copynumber: 3.4 Consensus size: 38
45828826 CGCAGACTAT
* * *
45828836 ATGCTGGAAATATGTCCGGGTTAAATCCCGTAAGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
* *
45828874 ATGCTGGTAATATATCCGGGTTAAATCTCGCAGGCTTC
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
* * * *
45828912 ATGCTGGTATTATATCCGGGTTAAATCCTGCAGGCCT-
1 ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
*
45828949 AGTGCTGGTATTATATC
1 A-TGCTGGTAATATATC
45828966 TGAGCTTAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 1 0.01
38 81 0.99
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
ATGCTGGTAATATATCCGGGTTAAATCCCGCAAGCTTC
Found at i:45833832 original size:38 final size:41
Alignment explanation
Indices: 45833738--45833847 Score: 111
Period size: 38 Copynumber: 2.7 Consensus size: 41
45833728 CTAGGCCTGC
* * *
45833738 AGGATTT-AACCCGGATATTAATACCAGCATGAATGCCTGCG
1 AGGATTTAAACCCGGATA-TATTACCAGCATGAAAGCCTACG
* *
45833779 AAGATTTTAACCCCGGATATATTA-CAGCATGAAAG-CTACG
1 AGGA-TTTAAACCCGGATATATTACCAGCATGAAAGCCTACG
* *
45833819 -GGATTTAAACCCGGACATATTTCCAGCAT
1 AGGATTTAAACCCGGATATATTACCAGCAT
45833848 ATAGTCTGCG
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
38 16 0.28
39 8 0.14
40 4 0.07
41 13 0.23
42 7 0.12
43 9 0.16
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
AGGATTTAAACCCGGATATATTACCAGCATGAAAGCCTACG
Found at i:45837501 original size:49 final size:48
Alignment explanation
Indices: 45837423--45837581 Score: 207
Period size: 49 Copynumber: 3.3 Consensus size: 48
45837413 CCGCGGGTTA
* * * *
45837423 CCTTAGTCACATGTTATTACACTTTCACATCCATCACGTTGGCCACTCGG
1 CCTTA-TCACATATTA-TACACTTTCACATTCATCACATTGGCCATTCGG
*
45837473 CCCTATCACATATTATACATCTTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACATATTATACA-CTTTCACATTCATCACATTGGCCATTCGG
* *
45837522 CCTTATCAC--A-TATACACTTTCACATTCATCACATCGGCCATTAGG
1 CCTTATCACATATTATACACTTTCACATTCATCACATTGGCCATTCGG
45837567 CCTTATCACATATTA
1 CCTTATCACATATTA
45837582 GGCCTTATCA
Statistics
Matches: 97, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
45 36 0.37
46 6 0.06
47 2 0.02
48 6 0.06
49 43 0.44
50 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.33
Consensus pattern (48 bp):
CCTTATCACATATTATACACTTTCACATTCATCACATTGGCCATTCGG
Found at i:45837561 original size:45 final size:46
Alignment explanation
Indices: 45837440--45837751 Score: 213
Period size: 45 Copynumber: 6.3 Consensus size: 46
45837430 CACATGTTAT
* * * * *
45837440 TACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATTA
1 TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACA-A-TA
*
45837488 TACATCTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATA
1 TACA-CTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAATA
*
45837534 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATA
1 TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAATA
** *
45837579 TTAGGC-CTTATCACATAT-ATACACTTTCAATTCATCACATCGGCCATTAGGCCTTATCACATA
1 -TA--CACTT-TCACAT-TCAT-CA----C-A-TCGGC-CAT---TC----GGCCTTATCAC--A
45837642 TATA
44 -ATA
* *
45837646 TACACTATCACATTCATCACATTGGCCATT--GCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACA-ATA
*
45837691 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACA-ATA
45837738 TACACTTTCACATT
1 TACACTTTCACATT
45837752 ATTCAATATA
Statistics
Matches: 218, Mismatches: 17, Indels: 59
0.74 0.06 0.20
Matches are distributed among these distances:
45 72 0.33
46 8 0.04
47 43 0.20
48 13 0.06
49 37 0.17
53 1 0.00
54 1 0.00
55 3 0.01
56 6 0.03
57 2 0.01
58 1 0.00
59 1 0.00
63 14 0.06
64 9 0.04
65 2 0.01
66 2 0.01
67 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (46 bp):
TACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACAATA
Found at i:45837583 original size:17 final size:17
Alignment explanation
Indices: 45837561--45837596 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
45837551 CACATCGGCC
45837561 ATTAGGCCTTATCACAT
1 ATTAGGCCTTATCACAT
45837578 ATTAGGCCTTATCACAT
1 ATTAGGCCTTATCACAT
45837595 AT
1 AT
45837597 ATACACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (17 bp):
ATTAGGCCTTATCACAT
Found at i:45837618 original size:63 final size:62
Alignment explanation
Indices: 45837520--45837642 Score: 221
Period size: 63 Copynumber: 2.0 Consensus size: 62
45837510 TTGGCCATTC
45837520 GGCCTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTA
1 GGCCTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTA
45837582 GGCCTTATCACATATATACACTTTCA-ATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 GGCCTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
45837643 ATATACACTA
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
62 11 0.19
63 35 0.59
64 13 0.22
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (62 bp):
GGCCTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTA
Found at i:45837624 original size:108 final size:110
Alignment explanation
Indices: 45837471--45837689 Score: 320
Period size: 112 Copynumber: 2.0 Consensus size: 110
45837461 TTGGCCACTC
* *
45837471 GGCCCTATCACATATTATACATCTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATAT
1 GGCCCTATCACATATTATACATCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATAT
*
45837535 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATTA
66 ACACTATCACATTCATCACATCGGCCATT--GCCTTATCACATATTA
*
45837582 GGCCTTATCACATA-TATACA-CTTTCA-ATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 GGCCCTATCACATATTATACATCTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A-A
*
45837644 TATACACTATCACATTCATCACATTGGCCATTGCCTTATCACATAT
63 TATACACTATCACATTCATCACATCGGCCATTGCCTTATCACATAT
45837690 ATACACTTTC
Statistics
Matches: 99, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
108 29 0.29
109 6 0.06
110 20 0.20
111 13 0.13
112 31 0.31
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (110 bp):
GGCCCTATCACATATTATACATCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATAT
ACACTATCACATTCATCACATCGGCCATTGCCTTATCACATATTA
Found at i:45837727 original size:47 final size:47
Alignment explanation
Indices: 45837578--45837751 Score: 291
Period size: 47 Copynumber: 3.7 Consensus size: 47
45837568 CTTATCACAT
45837578 ATTAGGCCTTATCACATATATACACTTTCA-ATTCATCACATCGGCC
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
* *
45837624 ATTAGGCCTTATCACATATATATACACTATCACATTCATCACATTGGCC
1 ATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCC
45837673 ATT--GCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
45837718 ATTAGGCCTTATCACATATATACACTTTCACATT
1 ATTAGGCCTTATCACATATATACACTTTCACATT
45837752 ATTCAATATA
Statistics
Matches: 119, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
45 33 0.28
46 15 0.13
47 39 0.33
48 14 0.12
49 18 0.15
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (47 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCC
Done.