Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 26 of 173
Found at i:6937082 original size:69 final size:70
Alignment explanation
Indices: 6936980--6937110 Score: 162
Period size: 69 Copynumber: 1.9 Consensus size: 70
6936970 TAAAAACAAC
* * *
6936980 AAAAATTATAAAAATTATTAAACTTTAATAAAAA-TAT-AAATTTTTTAAAAATTAATAAAAATT
1 AAAAAATATAAAAATTATTAAAATTTAATAAAAATTATAAAATTTTATAAAAA-TAATAAAAATT
6937043 AGAAAG
65 AGAAAG
* *
6937049 AAAAAATATAAAAA-TATTTAAAATTT-ATAAAAAATTGTAAAATTTTATAAAAATCATAAAAA
1 AAAAAATATAAAAATTA-TTAAAATTTAAT-AAAAATTATAAAATTTTATAAAAATAATAAAAA
6937111 AGCATAAAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
68 4 0.08
69 26 0.49
70 10 0.19
71 13 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (70 bp):
AAAAAATATAAAAATTATTAAAATTTAATAAAAATTATAAAATTTTATAAAAATAATAAAAATTA
GAAAG
Found at i:6937108 original size:19 final size:19
Alignment explanation
Indices: 6937067--6937109 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6937057 TAAAAATATT
**
6937067 TAAAATTTATAAAAAATTG
1 TAAAATTTATAAAAAATCA
6937086 TAAAATTT-TATAAAAATCA
1 TAAAATTTATA-AAAAATCA
6937105 TAAAA
1 TAAAA
6937110 AAGCATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAATTTATAAAAAATCA
Found at i:6937379 original size:29 final size:30
Alignment explanation
Indices: 6937347--6937426 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
6937337 ATATTTTATG
** *
6937347 ATTTTTTATGATTTTTATAAAATTTTAAA-
1 ATTTTTTAAAATTTTTATAAAAATTTAAAT
*
6937376 ATTTTTTAAAATTTTTAAAAAAAATTTAAAT
1 ATTTTTTAAAATTTTT-ATAAAAATTTAAAT
* *
6937407 TTTTTTTACAATTTTTATAA
1 ATTTTTTAAAATTTTTATAA
6937427 TCTTTTTCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 14 0.33
30 14 0.33
31 14 0.33
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
ATTTTTTAAAATTTTTATAAAAATTTAAAT
Found at i:6937381 original size:9 final size:9
Alignment explanation
Indices: 6937357--6937395 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
6937347 ATTTTTTATG
6937357 ATTTTTATAA
1 ATTTTTA-AA
*
6937367 AATTTTAAA
1 ATTTTTAAA
6937376 ATTTTTTAAA
1 A-TTTTTAAA
6937386 ATTTTTAAA
1 ATTTTTAAA
6937395 A
1 A
6937396 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 12 0.46
10 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:6949878 original size:72 final size:72
Alignment explanation
Indices: 6949761--6949904 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
6949751 ATTTTGTGAT
*
6949761 TTAAAAGAAATTATTAGGTAAATTGGGTAAAAAATTAGGTATCGAGACCTCATTATTATAAACTG
1 TTAAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTG
*
6949826 AGTCGTA
66 AGCCGTA
6949833 TTAAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTG
1 TTAAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTG
6949898 AGCCGTA
66 AGCCGTA
6949905 AATATTTTTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (72 bp):
TTAAAAGAAATTATTAGGTAAATTGGGTAAAAAACTAGGTATCGAGACCTCATTATTATAAACTG
AGCCGTA
Found at i:6950621 original size:20 final size:21
Alignment explanation
Indices: 6950596--6950636 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6950586 ATGTTGAATT
6950596 AATTGA-TGAATTACAAGTTA
1 AATTGATTGAATTACAAGTTA
*
6950616 AATTGATTGAATTTCAAGTTA
1 AATTGATTGAATTACAAGTTA
6950637 GAAGTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (21 bp):
AATTGATTGAATTACAAGTTA
Found at i:6953863 original size:19 final size:18
Alignment explanation
Indices: 6953828--6953878 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
6953818 AAATGTAATC
* *
6953828 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
6953845 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
6953864 AAATAATAATAGTAA
1 AAATAATAATAGTAA
6953879 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:6953869 original size:25 final size:24
Alignment explanation
Indices: 6953823--6953884 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
6953813 AATAGAAATG
**
6953823 TAATCAAATATAATAATGATAACAA
1 TAAT-AAATATAATAAAAATAACAA
*
6953848 TAATAAATAGTAATAAAAATAATAA
1 TAATAAATA-TAATAAAAATAACAA
*
6953873 TAGTAAAT-TAAT
1 TAATAAATATAAT
6953885 TAATAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (24 bp):
TAATAAATATAATAAAAATAACAA
Found at i:6956273 original size:44 final size:44
Alignment explanation
Indices: 6956220--6956762 Score: 204
Period size: 44 Copynumber: 11.8 Consensus size: 44
6956210 TAGAGAAAGA
* *
6956220 TGAACCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGTAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
* ** * * * * *
6956264 TGAAGCTACAATTTATATAACCCTAAAGTTGTAGTGGGTCGGAA
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * *
6956308 TGAAACTACAATGACAAATCCTATATCCTTAAAGTTACAGTGGATCGAAT
1 TG-AA--GC--T-ACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
* * *
6956358 TAAAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGG-TCGGAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGT-GGATCGGAT
* * * * * * * *
6956402 TGAATCTACCATAGCAAGTCTTATCTCCCTAAACTTGCAGTCGAACAAGA-
1 TGAAGCTA-C--A--AA-TCCTATATCCCTGAAGTTGCAGTGGATC-GGAT
* * * *
6956452 TGAAGCTACAAATCTTATA-CCCTTGAATTTGCAGAGGGTCGGAT
1 TGAAGCTACAAATCCTATATCCC-TGAAGTTGCAGTGGATCGGAT
* * * * * *
6956496 TGAAGTTACCATAACGAACCT-TATCTCTCTAAAGTTTCAGCGGAGCAAGG--
1 TGAAGCTA-C--AA--ATCCTATATC-C-CTGAAGTTGCAGTGGATC--GGAT
* * * * *
6956546 TGAACCTACAAATCTTATACCCCTGAAGTTGTAGTGGATCTGAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
* *
6956590 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * * * *
6956634 TGAAGTTACCATAGCGAGTCTTATCTCCCTAAAGTTGTAGTAGG-GCAAGA-
1 TGAAGCTA-CA-A---A-TCCTATATCCCTGAAGTTGCAGT-GGATC-GGAT
* * * * *
6956684 TGAAGCTGCAAATCCTATATCTCTGTAGTTACAGTGGATCAGAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
** *
6956728 TGAAGAGACAATTCCTATA-CCTCTGAAGTTGCAGT
1 TGAAGCTACAAATCCTATATCC-CTGAAGTTGCAGT
6956763 AGGTCGAAAT
Statistics
Matches: 361, Mismatches: 97, Indels: 82
0.67 0.18 0.15
Matches are distributed among these distances:
42 1 0.00
43 11 0.03
44 196 0.54
45 16 0.04
46 4 0.01
47 8 0.02
48 3 0.01
49 15 0.04
50 98 0.27
51 7 0.02
52 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCGGAT
Found at i:6956325 original size:94 final size:94
Alignment explanation
Indices: 6956227--6956410 Score: 244
Period size: 94 Copynumber: 2.0 Consensus size: 94
6956217 AGATGAACCT
* * * * *
6956227 ACAAATCCTATATCCCTGAAGTTGCAGTGGATCGTATTGAAGCTAC-AATTTATATAACCCTAAA
1 ACAAATCCTATATCCCTAAAGTTACAGTGGATCGAATTAAAGCTACAAATCT-TATAACCCTAAA
* *
6956291 GTTGTAGTGGGTCGGAATGAAACTACAATG
65 GTTGCAGTAGGTCGGAATGAAACTACAATG
* * *
6956321 ACAAATCCTATATCCTTAAAGTTACAGTGGATCGAATTAAAGCTACAAATCTTATACCCCTGAAG
1 ACAAATCCTATATCCCTAAAGTTACAGTGGATCGAATTAAAGCTACAAATCTTATAACCCTAAAG
* *
6956386 TTGCAGTAGGTCGGATTGAATCTAC
66 TTGCAGTAGGTCGGAATGAAACTAC
6956411 CATAGCAAGT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 73 0.95
95 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
ACAAATCCTATATCCCTAAAGTTACAGTGGATCGAATTAAAGCTACAAATCTTATAACCCTAAAG
TTGCAGTAGGTCGGAATGAAACTACAATG
Found at i:6956458 original size:94 final size:94
Alignment explanation
Indices: 6956360--6956598 Score: 281
Period size: 94 Copynumber: 2.5 Consensus size: 94
6956350 GATCGAATTA
* *
6956360 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAGC-AAGTCTT
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAACGAA-CCTT
6956424 ATCTCCCTAAACTTGCAGTC-GAACAAGATG
65 ATCTCCCTAAACTTGCAG-CGGAACAAGATG
* *
6956454 AAGCTACAAATCTTATACCCTTGAATTTGCAG-AGGGTCGGATTGAAGT-TACCATAACGAACCT
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTA-GGTCGGATTGAA-TCTACCATAACGAACCT
* * * * *
6956517 TATCTCTCTAAAGTTTCAGCGGAGCAAGGTG
64 TATCTCCCTAAACTTGCAGCGGAACAAGATG
* * * *
6956548 AACCTACAAATCTTATACCCCTGAAGTTGTAGT-GGATCTGATTGAAGCTAC
1 AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGG-TCGGATTGAATCTAC
6956599 AAATCCTATA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
93 4 0.03
94 116 0.94
95 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (94 bp):
AAGCTACAAATCTTATACCCCTGAAGTTGCAGTAGGTCGGATTGAATCTACCATAACGAACCTTA
TCTCCCTAAACTTGCAGCGGAACAAGATG
Found at i:6956668 original size:138 final size:138
Alignment explanation
Indices: 6956452--6956768 Score: 386
Period size: 138 Copynumber: 2.3 Consensus size: 138
6956442 TCGAACAAGA
* * * *
6956452 TGAAGCTACAAATCTTATACCCTTGAATTTGCAGAGGGTCGGATTGAAGTTACCATAACGAACCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
* * * * **
6956517 TATCTCTCTAAAGTT-TCAG-CGGAGCAAGGTGAACCTACAAATCTTATACCCCTGAAGTTGTAG
66 TATCTCCCTAAAGTTGT-AGTAGG-GCAAGATGAACCTACAAATCCTATACCCCTGAAGTTACAG
*
6956580 TGGATCTGAT
129 TGGATCAGAT
* **
6956590 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAGCGAGTCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
* * * * *
6956655 TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAAGCTGCAAATCCTATATCTCTGTAGTTACAGTG
66 TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAACCTACAAATCCTATACCCCTGAAGTTACAGTG
6956720 GATCAGAT
131 GATCAGAT
** * * *
6956728 TGAAGAGACAATTCCTATACCTCTGAAGTTGCAGTAGGTCG
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCG
6956769 AAATGAAATT
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
138 150 0.98
139 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (138 bp):
TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGTTACCATAACGAACCT
TATCTCCCTAAAGTTGTAGTAGGGCAAGATGAACCTACAAATCCTATACCCCTGAAGTTACAGTG
GATCAGAT
Found at i:6956835 original size:50 final size:50
Alignment explanation
Indices: 6956753--6956864 Score: 163
Period size: 50 Copynumber: 2.2 Consensus size: 50
6956743 TATACCTCTG
* * *
6956753 AAGTTGCAGTAGGTCGAAATGAAATTATAATGGCGAATCTTTTTTCCCTT
1 AAGTTGCAGTAGGTCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
* *
6956803 AATTTGCAGT-GGATCGGAATGAAATTACAATGGCGAATCTTATTTCCCTA
1 AAGTTGCAGTAGG-TCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
6956853 AAGTTGCAGTAG
1 AAGTTGCAGTAG
6956865 AGCAAGATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
49 2 0.04
50 51 0.94
51 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.33
Consensus pattern (50 bp):
AAGTTGCAGTAGGTCGAAATGAAATTACAATGGCGAATCTTATTTCCCTA
Found at i:6956882 original size:50 final size:50
Alignment explanation
Indices: 6956753--6956882 Score: 122
Period size: 50 Copynumber: 2.6 Consensus size: 50
6956743 TATACCTCTG
* * * *
6956753 AAGTTGCAGTAG-GTC-GAAATGAAATTATAATGGCGAATCTTTTTTCCCTT
1 AAGTTGCAGTAGAG-CAG-AATGAAACTACAATGGCGAATCTTATTTCCCTA
* * * * *
6956803 AATTTGCAGTGGATCGGAATGAAATTACAATGGCGAATCTTATTTCCCTA
1 AAGTTGCAGTAGAGCAGAATGAAACTACAATGGCGAATCTTATTTCCCTA
*
6956853 AAGTTGCAGTAGAGCA-AGATGAAGCTACAA
1 AAGTTGCAGTAGAGCAGA-ATGAAACTACAA
6956883 ATATTATATC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
49 1 0.02
50 63 0.97
51 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (50 bp):
AAGTTGCAGTAGAGCAGAATGAAACTACAATGGCGAATCTTATTTCCCTA
Found at i:6958147 original size:21 final size:21
Alignment explanation
Indices: 6958118--6958157 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6958108 TTTTATTGTA
*
6958118 GTTTCAATTTAGTCTCCTATTC
1 GTTTCAATTGAGTC-CCTATTC
6958140 GTTT-AATTGAGTCCCTAT
1 GTTTCAATTGAGTCCCTAT
6958158 ACTTGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (21 bp):
GTTTCAATTGAGTCCCTATTC
Found at i:6958338 original size:16 final size:17
Alignment explanation
Indices: 6958317--6958357 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
6958307 TATGTAATTA
6958317 TATTATTATCAT-ACAT
1 TATTATTATCATGACAT
* *
6958333 TTTTA-TATCATGTCAT
1 TATTATTATCATGACAT
6958349 TATTATTAT
1 TATTATTAT
6958358 TATCATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.30
16 11 0.55
17 3 0.15
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATTATCATGACAT
Found at i:6968758 original size:18 final size:18
Alignment explanation
Indices: 6968735--6968769 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6968725 AGAAATAGCT
*
6968735 GCAAAATAATACATAAAA
1 GCAAAACAATACATAAAA
6968753 GCAAAACAATACATAAA
1 GCAAAACAATACATAAA
6968770 TGCTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (18 bp):
GCAAAACAATACATAAAA
Found at i:6971833 original size:4 final size:4
Alignment explanation
Indices: 6971811--6971846 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
6971801 AACGGCATAG
*
6971811 AAAT AATAT AAAC AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6971847 AATCAATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:6972034 original size:30 final size:30
Alignment explanation
Indices: 6971998--6972054 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6971988 CATGTACATA
*
6971998 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAATATAAT-TACATATATATAGAT
6972028 TATAAAAAATATAATTACATATATATA
1 TATAAAAAATATAATTACATATATATA
6972055 AACAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (30 bp):
TATAAAAAATATAATTACATATATATAGAT
Found at i:6972077 original size:24 final size:23
Alignment explanation
Indices: 6972028--6972078 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
6972018 ATATATAGAT
* *
6972028 TATAAAAAATATAATTACATATA
1 TATAAAAAATATAATAACATACA
6972051 TATAAACAAATAATAATAAC-TACA
1 TATAAA-AAAT-ATAATAACATACA
6972075 TATA
1 TATA
6972079 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 11 0.46
25 7 0.29
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (23 bp):
TATAAAAAATATAATAACATACA
Found at i:6972376 original size:3 final size:3
Alignment explanation
Indices: 6972368--6972398 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
6972358 GTATATATAG
6972368 TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
6972399 AAAGACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:6972390 original size:13 final size:13
Alignment explanation
Indices: 6972368--6972399 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6972358 GTATATATAG
6972368 TAAT-AATAATAA
1 TAATAAATAATAA
6972380 TAATAAATAATAA
1 TAATAAATAATAA
6972393 TAATAAA
1 TAATAAA
6972400 AAGACTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAAATAATAA
Found at i:6972721 original size:21 final size:21
Alignment explanation
Indices: 6972672--6972769 Score: 112
Period size: 21 Copynumber: 4.7 Consensus size: 21
6972662 AAATTAAATC
*
6972672 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
6972692 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
6972716 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
6972737 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
* *
6972756 TATAAGATTACATA
1 TCTAAGATTGCATA
6972770 TCCTTGAAGA
Statistics
Matches: 69, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.25
21 33 0.48
23 11 0.16
24 8 0.12
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:6975346 original size:22 final size:22
Alignment explanation
Indices: 6975320--6975365 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
6975310 AATTTACCCA
6975320 AAGGTAAATTATTTATTCTATG
1 AAGGTAAATTATTTATTCTATG
6975342 AAGGTAAATTATTTATTCTATG
1 AAGGTAAATTATTTATTCTATG
6975364 AA
1 AA
6975366 TAGTGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (22 bp):
AAGGTAAATTATTTATTCTATG
Found at i:6980143 original size:29 final size:29
Alignment explanation
Indices: 6980103--6980161 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
6980093 TCATGTAAGA
** *
6980103 GGTGGAGAACTTGTTTGTTGAGAGTTCGT
1 GGTGGAGAACTTGTTCATTGAGAATTCGT
6980132 GGTGGAGAACTTGTTCATTGAGAATTCGT
1 GGTGGAGAACTTGTTCATTGAGAATTCGT
6980161 G
1 G
6980162 TAAATGTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (29 bp):
GGTGGAGAACTTGTTCATTGAGAATTCGT
Found at i:6984861 original size:9 final size:9
Alignment explanation
Indices: 6984845--6984890 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
6984835 TCATTCTCCT
6984845 AATTCTCTC
1 AATTCTCTC
6984854 AATTCTCTC
1 AATTCTCTC
*
6984863 GATTCAT-T-
1 AATTC-TCTC
*
6984871 TATTCTCTC
1 AATTCTCTC
6984880 AATTCTCTC
1 AATTCTCTC
6984889 AA
1 AA
6984891 CTTTTTAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 1 0.03
8 5 0.16
9 24 0.77
10 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (9 bp):
AATTCTCTC
Found at i:6991589 original size:49 final size:49
Alignment explanation
Indices: 6991489--6991595 Score: 126
Period size: 49 Copynumber: 2.2 Consensus size: 49
6991479 TCCAGCTTAC
* * **
6991489 GGTGGTTATACGGTCACAGGTTGAAGTATAACTAGGGCTCCTGGTTAAT
1 GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGGCTCCCAGTTAAT
* * * *
6991538 GGTGATTATACAGTCACGGGTTAAAGTATAACTGGGGAC-CCCAGTTGAT
1 GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGG-CTCCCAGTTAAT
6991587 GGTGGTTAT
1 GGTGGTTAT
6991596 GTGGTCATGG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
49 47 0.98
50 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (49 bp):
GGTGGTTATACAGTCACAGGTTAAAGTATAACTAGGGCTCCCAGTTAAT
Found at i:6992228 original size:49 final size:48
Alignment explanation
Indices: 6992137--6992243 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
6992127 ATGAAACTTG
* *
6992137 AACCCGTGATCGCATAACCACCGTCAACTAGGCTCTCGAGTTATACTCC
1 AACCCGTGATAGCATAACCACCGTCAACTAGGCACTC-AGTTATACTCC
* * *
6992186 AACCTGTGATAGCATAACCACTGTCAACTAAGAGCACT-AGTTATACTTC
1 AACCCGTGATAGCATAACCACCGTCAACT-AG-GCACTCAGTTATACTCC
6992235 AACCCGTGA
1 AACCCGTGA
6992244 CCATATAACC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 44 0.88
50 2 0.04
51 4 0.08
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (48 bp):
AACCCGTGATAGCATAACCACCGTCAACTAGGCACTCAGTTATACTCC
Found at i:7002105 original size:13 final size:13
Alignment explanation
Indices: 7002087--7002111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7002077 ATTTTTAATA
7002087 TTATTTTGTGTGT
1 TTATTTTGTGTGT
7002100 TTATTTTGTGTG
1 TTATTTTGTGTG
7002112 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:7003888 original size:41 final size:40
Alignment explanation
Indices: 7003858--7004003 Score: 120
Period size: 41 Copynumber: 3.6 Consensus size: 40
7003848 GGTTATGTAC
7003858 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
1 CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
* *
7003898 TCTAGCAGGCTTAATGCCGGTG-A-TACATTTCAGACTATATG
1 -CTAGCAGGCTTAATGCCGGTGAAGTA-A-TTCAGACTTTACG
* * * * *
7003939 TCTAGCAGGC-TAAGTGCCGTTGTACTGAA-TCAGGCTTTAAG
1 -CTAGCAGGCTTAA-TGCCGGTGAAGT-AATTCAGACTTTACG
* *
7003980 CCTAGCAGGCTAAATGCCAGTGAA
1 -CTAGCAGGCTTAATGCCGGTGAA
7004004 TCTATTTAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 5 0.06
41 74 0.85
42 3 0.03
43 2 0.02
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAGTAATTCAGACTTTACG
Found at i:7004709 original size:17 final size:17
Alignment explanation
Indices: 7004676--7004710 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7004666 GATTAAAAGG
7004676 TTATAATATTTATATAT
1 TTATAATATTTATATAT
7004693 TTATATATATTTA-ATAT
1 TTATA-ATATTTATATAT
7004710 T
1 T
7004711 GCTGTAGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATATTTATATAT
Found at i:7010845 original size:16 final size:14
Alignment explanation
Indices: 7010809--7010837 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7010799 TGAAATTGTC
7010809 AAAAATTTTACTGG
1 AAAAATTTTACTGG
7010823 AAAAATTTTACTGG
1 AAAAATTTTACTGG
7010837 A
1 A
7010838 GTAAAATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (14 bp):
AAAAATTTTACTGG
Found at i:7024793 original size:26 final size:26
Alignment explanation
Indices: 7024757--7024808 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
7024747 CACCACTGAA
* *
7024757 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
7024783 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
7024809 CTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:7025106 original size:104 final size:103
Alignment explanation
Indices: 7024902--7025106 Score: 331
Period size: 104 Copynumber: 2.0 Consensus size: 103
7024892 AAAGACTATC
*
7024902 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGTGGATATCGCACTTAGCACC
1 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGTGGATATCGCACATAGCACC
* **
7024967 ACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCG
66 ACCAATAAACCGGGGAATCAGCACACAGCAACCCCTCG
7025005 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCA-CGCACATAGCA
1 GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT-GTGGAT-ATCGCACATAGCA
* *
7025069 CCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
64 CCACCAATAAACCGGGGAATCAGCACACAGCAACCCCT
7025107 TTTATATACA
Statistics
Matches: 94, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
103 44 0.47
104 49 0.52
105 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGTGGATATCGCACATAGCACC
ACCAATAAACCGGGGAATCAGCACACAGCAACCCCTCG
Found at i:7025468 original size:29 final size:29
Alignment explanation
Indices: 7025435--7025498 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7025425 TAATCCACCA
7025435 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
7025464 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
7025494 CCCAA
1 CCCAA
7025499 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:7025472 original size:30 final size:30
Alignment explanation
Indices: 7025442--7025498 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7025432 CCACCCAACT
7025442 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
7025471 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
7025499 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:7032482 original size:70 final size:72
Alignment explanation
Indices: 7032368--7032518 Score: 234
Period size: 71 Copynumber: 2.1 Consensus size: 72
7032358 GGGGAATCAT
* *
7032368 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTGCAAATATACAATG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTGCAAAGATACAATG
7032432 GATATCG
66 GATATCG
* ***
7032439 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTGCAAAGATACAATG
7032503 GATATCG
66 GATATCG
7032510 CACTTAGCA
1 CACTTAGCA
7032519 CCACCAATGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
70 28 0.38
71 45 0.62
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (72 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTGCAAAGATACAATG
GATATCG
Found at i:7032622 original size:104 final size:103
Alignment explanation
Indices: 7032438--7032660 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
7032428 AATGGATATC
7032438 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
7032503 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
7032541 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
7032606 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
7032645 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
7032661 TTATATACAA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:7033021 original size:29 final size:29
Alignment explanation
Indices: 7032988--7033051 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7032978 TAATCCACCA
7032988 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
7033017 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
7033047 CCCAA
1 CCCAA
7033052 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:7033025 original size:30 final size:30
Alignment explanation
Indices: 7032995--7033051 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7032985 CCACCCAACT
7032995 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
7033024 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
7033052 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:7047732 original size:60 final size:60
Alignment explanation
Indices: 7047660--7047779 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 60
7047650 TAAGTGATTA
7047660 TTTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATT
1 TTTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATT
* * *
7047720 TTTCTGGTACATGCATTTCTTCAAATAAATGTGACCAGTTGTTACAGATTTTCTGTTATT
1 TTTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATT
7047780 CTGCTAAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (60 bp):
TTTCTGGCACATGCATTTCTTCAAATAAATGCGACCAATTGTTACAGATTTTCTGTTATT
Found at i:7057482 original size:13 final size:13
Alignment explanation
Indices: 7057466--7057506 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
7057456 TACTTTTTAA
7057466 GTTTTATTTATTT
1 GTTTTATTTATTT
7057479 GTTTTATTTATTT
1 GTTTTATTTATTT
*
7057492 GCTTATTATTAATTT
1 G-TT-TTATTTATTT
7057507 TATAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 14 0.56
14 2 0.08
15 9 0.36
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (13 bp):
GTTTTATTTATTT
Found at i:7058704 original size:15 final size:15
Alignment explanation
Indices: 7058681--7058717 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7058671 TTTCTATACA
*
7058681 TTTACATCTGCATAT
1 TTTATATCTGCATAT
7058696 TTTATATCTGCATAT
1 TTTATATCTGCATAT
*
7058711 TTAATAT
1 TTTATAT
7058718 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (15 bp):
TTTATATCTGCATAT
Found at i:7059040 original size:2 final size:2
Alignment explanation
Indices: 7059028--7059061 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7059018 ATTTTCTGTA
* *
7059028 AT AT AT GT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7059062 GCTCTTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7059963 original size:37 final size:37
Alignment explanation
Indices: 7059921--7059995 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
7059911 GTTTCGACAA
7059921 TATTATT-TTTAAAAATTTTAAATA-TATTTTTAAAAAT
1 TATTATTATTT-AAAA-TTTAAATATTATTTTTAAAAAT
* *
7059958 TATTATTATTTTAAATTTAAATATTATTTTTTAAAAT
1 TATTATTATTTAAAATTTAAATATTATTTTTAAAAAT
7059995 T
1 T
7059996 TAAATATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.24
37 23 0.68
38 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (37 bp):
TATTATTATTTAAAATTTAAATATTATTTTTAAAAAT
Found at i:7059982 original size:18 final size:19
Alignment explanation
Indices: 7059919--7060005 Score: 81
Period size: 21 Copynumber: 4.4 Consensus size: 19
7059909 CGGTTTCGAC
7059919 AATATTATTTTTAAAAATTTTA
1 AATATTA-TTTT-AAAA-TTTA
*
7059941 AATA-TATTTTTAAAAATT-
1 AATATTA-TTTTAAAATTTA
*
7059959 ATTATTATTTT-AAATTTA
1 AATATTATTTTAAAATTTA
7059977 AATATTATTTTTTAAAATTTA
1 AATATTA--TTTTAAAATTTA
7059998 AATATTAT
1 AATATTAT
7060006 AAAATATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.09
18 13 0.23
19 5 0.09
20 8 0.14
21 21 0.38
22 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTATTTTAAAATTTA
Found at i:7060097 original size:13 final size:13
Alignment explanation
Indices: 7060057--7060165 Score: 53
Period size: 13 Copynumber: 9.2 Consensus size: 13
7060047 TTATTTTATA
*
7060057 ATATTTTAAATGT
1 ATATTTTAAATAT
*
7060070 ATATTCT-AA-A-
1 ATATTTTAAATAT
7060080 A-ATTTTAAATAT
1 ATATTTTAAATAT
7060092 ATATTTT---T-T
1 ATATTTTAAATAT
7060101 A-ATTTTAAATAT
1 ATATTTTAAATAT
* *
7060113 ATTTTTTAATTAT
1 ATATTTTAAATAT
*
7060126 -TTTTTTAAATTAT
1 ATATTTTAAA-TAT
*
7060139 GATTTTTTAAAT-T
1 -ATATTTTAAATAT
*
7060152 AT-TTTTAAAGAT
1 ATATTTTAAATAT
7060164 AT
1 AT
7060166 TCAAACATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 27
0.69 0.06 0.25
Matches are distributed among these distances:
8 5 0.07
9 6 0.08
10 4 0.05
11 9 0.12
12 18 0.24
13 24 0.32
14 1 0.01
15 9 0.12
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.58
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:7060114 original size:19 final size:21
Alignment explanation
Indices: 7060080--7060123 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 21
7060070 ATATTCTAAA
7060080 AATTTTAAATATATATTTTTT
1 AATTTTAAATATATATTTTTT
7060101 AATTTT-AA-ATATATTTTTT
1 AATTTTAAATATATATTTTTT
7060120 AATT
1 AATT
7060124 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.65
20 2 0.09
21 6 0.26
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTTAAATATATATTTTTT
Found at i:7060128 original size:28 final size:29
Alignment explanation
Indices: 7060103--7060157 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 29
7060093 TATTTTTTAA
7060103 TTTTAAA-TAT-ATTTTTT-AATTA-TTT
1 TTTTAAATTATGATTTTTTAAATTATTTT
7060128 TTTTAAATTATGATTTTTTAAATTATTTT
1 TTTTAAATTATGATTTTTTAAATTATTTT
7060157 T
1 T
7060158 AAAGATATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 7 0.27
26 3 0.12
27 7 0.27
28 5 0.19
29 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTAAATTATGATTTTTTAAATTATTTT
Found at i:7060135 original size:25 final size:28
Alignment explanation
Indices: 7060103--7060157 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
7060093 TATTTTTTAA
7060103 TTTTAAA-TAT-ATTTTTT-AATTATTT
1 TTTTAAATTATGATTTTTTAAATTATTT
7060128 TTTTAAATTATGATTTTTTAAATTATTT
1 TTTTAAATTATGATTTTTTAAATTATTT
7060156 TT
1 TT
7060158 AAAGATATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 7 0.26
26 3 0.11
27 7 0.26
28 10 0.37
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (28 bp):
TTTTAAATTATGATTTTTTAAATTATTT
Found at i:7060151 original size:15 final size:14
Alignment explanation
Indices: 7060103--7060157 Score: 73
Period size: 13 Copynumber: 4.1 Consensus size: 14
7060093 TATTTTTTAA
7060103 TTTTAAA-TATATT
1 TTTTAAATTATATT
7060116 TTTT-AATTAT-TT
1 TTTTAAATTATATT
7060128 TTTTAAATTATGATT
1 TTTTAAATTAT-ATT
7060143 TTTTAAATTAT-TT
1 TTTTAAATTATATT
7060156 TT
1 TT
7060158 AAAGATATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.21
13 17 0.45
15 13 0.34
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTTAAATTATATT
Found at i:7060156 original size:26 final size:24
Alignment explanation
Indices: 7060082--7060166 Score: 79
Period size: 21 Copynumber: 3.5 Consensus size: 24
7060072 ATTCTAAAAA
* *
7060082 TTTTAAATATATATTTT--TTA-A
1 TTTTAAATATATTTTTTAATTATT
7060103 TTTTAAATATATTTTTTAATTATTT
1 TTTTAAATATATTTTTTAATTA-TT
7060128 TTTTAAATTATGATTTTTTAAATTA-T
1 TTTTAAA-TAT-ATTTTTT-AATTATT
*
7060154 TTTTAAAGATATT
1 TTTTAAATATATT
7060167 CAAACATTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
21 16 0.30
23 3 0.06
24 3 0.06
25 9 0.17
26 11 0.20
27 7 0.13
28 5 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTAAATATATTTTTTAATTATT
Found at i:7068371 original size:10 final size:10
Alignment explanation
Indices: 7068348--7068401 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
7068338 AAATTTTAAT
7068348 TAAAAAA-TA
1 TAAAAAATTA
7068357 T-AAAAATTA
1 TAAAAAATTA
*
7068366 TAAAAAATTG
1 TAAAAAATTA
**
7068376 TAAAATTTTA
1 TAAAAAATTA
*
7068386 T-AAAAATTG
1 TAAAAAATTA
7068395 TAAAAAA
1 TAAAAAA
7068402 AATATAAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
8 5 0.14
9 10 0.29
10 20 0.57
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:7068379 original size:19 final size:19
Alignment explanation
Indices: 7068348--7068400 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
7068338 AAATTTTAAT
*
7068348 TAAAAAA-TATAAAAATTA
1 TAAAAAATTGTAAAAATTA
*
7068366 TAAAAAATTGT-AAAATTT
1 TAAAAAATTGTAAAAATTA
7068384 TATAAAAATTGTAAAAA
1 TA-AAAAATTGTAAAAA
7068401 AAATATAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 15 0.50
19 11 0.37
20 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAAAAATTGTAAAAATTA
Found at i:7068380 original size:9 final size:9
Alignment explanation
Indices: 7068345--7068400 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
7068335 ATTAAATTTT
7068345 AATTA-AAA
1 AATTATAAA
7068353 AA-TATAAA
1 AATTATAAA
7068361 AATTATAAAA
1 AATTAT-AAA
*
7068371 AATTGTAAA
1 AATTATAAA
*
7068380 ATTTTATAAA
1 A-ATTATAAA
*
7068390 AATTGTAAA
1 AATTATAAA
7068399 AA
1 AA
7068401 AAATATAAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
7 2 0.05
8 7 0.18
9 15 0.38
10 15 0.38
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
AATTATAAA
Found at i:7068386 original size:20 final size:19
Alignment explanation
Indices: 7068359--7068399 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7068349 AAAAAATATA
*
7068359 AAAATTATA-AAAAATTGT
1 AAAATTTTATAAAAATTGT
7068377 AAAATTTTATAAAAATTGT
1 AAAATTTTATAAAAATTGT
7068396 AAAA
1 AAAA
7068400 AAAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
AAAATTTTATAAAAATTGT
Found at i:7068761 original size:38 final size:38
Alignment explanation
Indices: 7068682--7068773 Score: 107
Period size: 37 Copynumber: 2.4 Consensus size: 38
7068672 AAGAAATTTT
* *
7068682 TTTTTATTATTTTTATAAAAGTTTACAATTTTTTATGA
1 TTTTTATTATTTTTATAAAAGTTAACAATTTTTTATAA
*
7068720 TTTTTA-TATTTTTATTAAAAGTTAAC-AGTTTTTATAA
1 TTTTTATTATTTTTA-TAAAAGTTAACAATTTTTTATAA
* *
7068757 ATTTTATTGATATTTAT
1 TTTTTATT-ATTTTTAT
7068774 TTTTTATAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
37 22 0.48
38 18 0.39
39 6 0.13
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (38 bp):
TTTTTATTATTTTTATAAAAGTTAACAATTTTTTATAA
Found at i:7071939 original size:9 final size:9
Alignment explanation
Indices: 7071917--7072003 Score: 50
Period size: 9 Copynumber: 9.3 Consensus size: 9
7071907 TTTTGGTTAA
*
7071917 AAATTGCCC
1 AAATTACCC
*
7071926 GAATTACCC
1 AAATTACCC
7071935 AAATTACCC
1 AAATTACCC
* *
7071944 -GATTAACC
1 AAATTACCC
* *
7071952 GAATTAACC
1 AAATTACCC
* *
7071961 GAATTACCAGA
1 AAATTACC--C
7071972 AAATTACCC
1 AAATTACCC
*
7071981 GAATTACCC
1 AAATTACCC
7071990 GAAAATTACCC
1 --AAATTACCC
7072001 AAA
1 AAA
7072004 AAATTCGGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
8 6 0.10
9 40 0.66
11 15 0.25
ACGTcount: A:0.43, C:0.28, G:0.09, T:0.21
Consensus pattern (9 bp):
AAATTACCC
Found at i:7071978 original size:11 final size:11
Alignment explanation
Indices: 7071962--7072004 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
7071952 GAATTAACCG
*
7071962 AATTACCAGAA
1 AATTACCCGAA
7071973 AATTACCCG--
1 AATTACCCGAA
7071982 AATTACCCGAA
1 AATTACCCGAA
7071993 AATTACCC-AA
1 AATTACCCGAA
7072003 AA
1 AA
7072005 AATTCGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.31
10 4 0.14
11 16 0.55
ACGTcount: A:0.49, C:0.26, G:0.07, T:0.19
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:7071982 original size:20 final size:19
Alignment explanation
Indices: 7071916--7072000 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 19
7071906 TTTTTGGTTA
*
7071916 AAAATTGCCCGAATTACC-
1 AAAATTACCCGAATTACCG
*
7071934 CAAATTACCCG-ATTAACCG
1 AAAATTACCCGAATT-ACCG
*
7071953 --AATTAACCGAATTACCAG
1 AAAATTACCCGAATTACC-G
7071971 AAAATTACCCGAATTACCCG
1 AAAATTACCCGAATTA-CCG
7071991 AAAATTACCC
1 AAAATTACCC
7072001 AAAAAATTCG
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
17 14 0.25
18 16 0.29
20 24 0.43
21 2 0.04
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.21
Consensus pattern (19 bp):
AAAATTACCCGAATTACCG
Found at i:7072917 original size:26 final size:27
Alignment explanation
Indices: 7072880--7072941 Score: 108
Period size: 26 Copynumber: 2.3 Consensus size: 27
7072870 CACACACCAT
7072880 TCGCGCCTACCTGTCAGGCTCGATTAG
1 TCGCGCCTACCTGTCAGGCTCGATTAG
7072907 TCGCG-CTACCTGTCAGGCTCGATTAG
1 TCGCGCCTACCTGTCAGGCTCGATTAG
*
7072933 TCGTGCCTA
1 TCGCGCCTA
7072942 TTTGACAGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 25 0.76
27 8 0.24
ACGTcount: A:0.15, C:0.32, G:0.26, T:0.27
Consensus pattern (27 bp):
TCGCGCCTACCTGTCAGGCTCGATTAG
Found at i:7073053 original size:26 final size:27
Alignment explanation
Indices: 7073012--7073083 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
7073002 ATATATATTT
*
7073012 AAATATTTTTAATA-AAAATAAAAAAT-
1 AAATA-TTTTAATATAAAAAAAAAAATA
* * *
7073038 TAATATTTT-ATTTAAACAAAAAAATA
1 AAATATTTTAATATAAAAAAAAAAATA
7073064 AAATATTTTAATATAAAAAA
1 AAATATTTTAATATAAAAAA
7073084 TTGATTCGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.06
25 14 0.39
26 12 0.33
27 8 0.22
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
AAATATTTTAATATAAAAAAAAAAATA
Found at i:7074301 original size:26 final size:26
Alignment explanation
Indices: 7074272--7074331 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
7074262 TTCACTCCCC
*
7074272 TTTCTTGATATATGCTTAAACGTGGA
1 TTTCTTGATATATGCTTAAACATGGA
7074298 TTTCTTGATATATGCTTAAACATGGA
1 TTTCTTGATATATGCTTAAACATGGA
7074324 TTTCTTGA
1 TTTCTTGA
7074332 AATTTTGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (26 bp):
TTTCTTGATATATGCTTAAACATGGA
Found at i:7079801 original size:23 final size:23
Alignment explanation
Indices: 7079775--7079864 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
7079765 GACTCACCAT
*
7079775 AGCTCGTATGAGCTTACCATTTT
1 AGCTCGTATGAGCTTACCATTTC
* **
7079798 AGCTCTTATGAGCTTACTGTTTC
1 AGCTCGTATGAGCTTACCATTTC
* *
7079821 AGCTC-TACGGAGCTTACC-GTTC
1 AGCTCGTA-TGAGCTTACCATTTC
7079843 AGCTCG-ATAGAGCTTACCATTT
1 AGCTCGTAT-GAGCTTACCATTT
7079865 ACCGGCTCAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
22 20 0.37
23 34 0.63
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCATTTC
Found at i:7079855 original size:22 final size:23
Alignment explanation
Indices: 7079807--7079860 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
7079797 TAGCTCTTAT
* * *
7079807 GAGCTTACTGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCGACA
*
7079830 GAGCTTACCG-TTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGACA
7079852 GAGCTTACC
1 GAGCTTACC
7079861 ATTTACCGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGACA
Found at i:7080801 original size:13 final size:13
Alignment explanation
Indices: 7080783--7080807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7080773 ACATGTTTGG
7080783 ATATGAAATTGAT
1 ATATGAAATTGAT
7080796 ATATGAAATTGA
1 ATATGAAATTGA
7080808 CATTGAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (13 bp):
ATATGAAATTGAT
Found at i:7084052 original size:11 final size:11
Alignment explanation
Indices: 7084038--7084063 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7084028 TTTTTTTTAA
7084038 TTTTAAAATAC
1 TTTTAAAATAC
7084049 TTTTAAAATAC
1 TTTTAAAATAC
7084060 TTTT
1 TTTT
7084064 TTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:7084085 original size:17 final size:17
Alignment explanation
Indices: 7084065--7084098 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7084055 AATACTTTTT
7084065 TTTAAAAAAATTTTTAA
1 TTTAAAAAAATTTTTAA
*
7084082 TTTAAAAATATTTTTAA
1 TTTAAAAAAATTTTTAA
7084099 AATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAAAATTTTTAA
Found at i:7084118 original size:12 final size:11
Alignment explanation
Indices: 7084086--7084175 Score: 77
Period size: 11 Copynumber: 8.5 Consensus size: 11
7084076 TTTTAATTTA
7084086 AAAATATTTTT
1 AAAATATTTTT
7084097 AAAATATTTTT
1 AAAATATTTTT
7084108 AAAATACTTTTT
1 AAAATA-TTTTT
*
7084120 -TAAT-TTTTT
1 AAAATATTTTT
* *
7084129 ---TTAATTTT
1 AAAATATTTTT
7084137 AAAATATTTTT
1 AAAATATTTTT
7084148 AAAATAAATTTTT
1 AAAAT--ATTTTT
7084161 -AAA-ATTTTT
1 AAAATATTTTT
7084170 AAAATA
1 AAAATA
7084176 AATTTTTGGT
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
7 1 0.02
8 4 0.06
9 11 0.17
10 3 0.05
11 32 0.49
12 8 0.12
13 6 0.09
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:7084160 original size:13 final size:13
Alignment explanation
Indices: 7084133--7084182 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
7084123 TTTTTTTTAA
7084133 TTTTAAAAT--AT
1 TTTTAAAATAAAT
7084144 TTTTAAAATAAAT
1 TTTTAAAATAAAT
7084157 TTTT---A-AAAT
1 TTTTAAAATAAAT
7084166 TTTTAAAATAAAT
1 TTTTAAAATAAAT
7084179 TTTT
1 TTTT
7084183 GGTATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 9 0.27
12 1 0.03
13 14 0.42
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAAAATAAAT
Found at i:7084169 original size:40 final size:40
Alignment explanation
Indices: 7084093--7084169 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
7084083 TTAAAAATAT
** **
7084093 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAAATTTTTAAAATTTTTTAA
7084133 TTTTAAAATATTTTTAAAATAAATTTTTAAAATTTTT
1 TTTTAAAATATTTTTAAAATAAATTTTTAAAATTTTT
7084170 AAAATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTAAAATATTTTTAAAATAAATTTTTAAAATTTTTTAA
Found at i:7084176 original size:22 final size:23
Alignment explanation
Indices: 7084082--7084182 Score: 92
Period size: 22 Copynumber: 4.7 Consensus size: 23
7084072 AAATTTTTAA
*
7084082 TTTAAAA-ATATTTTTAAAATATT
1 TTTAAAATAAATTTTT-AAATATT
* *
7084105 TTTAAAAT-ACTTTTTTAAT-TT
1 TTTAAAATAAATTTTTAAATATT
* *
7084126 TTT----TTAATTTTAAAATATT
1 TTTAAAATAAATTTTTAAATATT
7084145 TTTAAAATAAATTTTTAAA-ATT
1 TTTAAAATAAATTTTTAAATATT
7084167 TTTAAAATAAATTTTT
1 TTTAAAATAAATTTTT
7084183 GGTATTTATT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
17 1 0.02
18 8 0.13
19 5 0.08
21 5 0.08
22 22 0.35
23 22 0.35
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAAATAAATTTTTAAATATT
Found at i:7084189 original size:22 final size:22
Alignment explanation
Indices: 7084063--7084182 Score: 82
Period size: 22 Copynumber: 5.8 Consensus size: 22
7084053 AAAATACTTT
7084063 TTTTTAAAA-AAATTTTT-A-A
1 TTTTTAAAATAAATTTTTAATA
*
7084082 --TTTAAAA-ATATTTTTAAAATA
1 TTTTTAAAATAAATTTTT--AATA
**
7084103 TTTTTAAAATACTTTTTTAAT-
1 TTTTTAAAATAAATTTTTAATA
* *
7084124 TTTTT----TTAATTTTAAAATA
1 TTTTTAAAATAAATTTT-TAATA
*
7084143 TTTTTAAAATAAATTTTTAAAA
1 TTTTTAAAATAAATTTTTAATA
7084165 TTTTTAAAATAAATTTTT
1 TTTTTAAAATAAATTTTT
7084183 GGTATTTATT
Statistics
Matches: 78, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
17 19 0.24
18 3 0.04
19 5 0.06
20 1 0.01
21 6 0.08
22 24 0.31
23 14 0.18
24 6 0.08
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTAAAATAAATTTTTAATA
Found at i:7086801 original size:23 final size:22
Alignment explanation
Indices: 7086746--7086801 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
7086736 TCGAATTGAG
* *
7086746 TAATTCAAATTTTAATTTCGAA
1 TAATTCAAATTTTAAATTCAAA
7086768 TCAAATT-AAATTTTACAATTCAAA
1 T--AATTCAAATTTTA-AATTCAAA
7086792 TAATTCAAAT
1 TAATTCAAAT
7086802 ATATGATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 5 0.18
23 12 0.43
24 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATTCAAATTTTAAATTCAAA
Found at i:7086830 original size:15 final size:15
Alignment explanation
Indices: 7086806--7086835 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7086796 TCAAATATAT
7086806 GATTGGTGTAAATAC
1 GATTGGTGTAAATAC
*
7086821 GATTGTTGTAAATAC
1 GATTGGTGTAAATAC
7086836 AATTTTGCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (15 bp):
GATTGGTGTAAATAC
Found at i:7101879 original size:15 final size:15
Alignment explanation
Indices: 7101859--7101890 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7101849 TATAGTAAAG
7101859 TTTATATTAAAATCC
1 TTTATATTAAAATCC
7101874 TTTATATTAAAATCC
1 TTTATATTAAAATCC
7101889 TT
1 TT
7101891 AAAGGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATATTAAAATCC
Found at i:7102015 original size:30 final size:30
Alignment explanation
Indices: 7101979--7102040 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
7101969 TGTGGTAAAT
*
7101979 TTGACATAGTGAATAAAAGTTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
7102009 TTGACATAGTGAATAAAAATTGAAGGAGGA
1 TTGACATAGTGAATAAAAATTGAAGGAGGA
7102039 TT
1 TT
7102041 ATGAAATGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.27, T:0.26
Consensus pattern (30 bp):
TTGACATAGTGAATAAAAATTGAAGGAGGA
Found at i:7109669 original size:20 final size:20
Alignment explanation
Indices: 7109644--7109707 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
7109634 TAAAAAAAAT
7109644 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
7109664 TACATAA-T-TAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
7109681 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
7109701 TACATAA
1 TACATAA
7109708 TTAAAAACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 5 0.15
20 15 0.45
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:7109686 original size:17 final size:17
Alignment explanation
Indices: 7109664--7109724 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7109654 TTTGAATCAC
7109664 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
7109681 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
7109701 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
7109718 TACATAA
1 TACATAA
7109725 AAATGAAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.51, C:0.13, G:0.03, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:7109686 original size:37 final size:37
Alignment explanation
Indices: 7109617--7109724 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
7109607 TTTAACCAAA
7109617 TTGAATCACTACATAATTAAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATT-AAAAAAATTACATAAGTCT
*
7109655 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
*
7109692 TTGAATCACTACATAATTAAAAACATTACATAA
1 TTGAATCACTACATAATTAAAAAAATTACATAA
7109725 AAATGAAAAT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 50 0.74
38 18 0.26
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
Found at i:7110893 original size:20 final size:20
Alignment explanation
Indices: 7110857--7110900 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7110847 ACAAGTTCTA
*
7110857 TTTTCCTTTTTTATTTTTAC
1 TTTTCCTTTATTATTTTTAC
*
7110877 TTTTCTCTTTATT-TTTTTTC
1 TTTTC-CTTTATTATTTTTAC
7110897 TTTT
1 TTTT
7110901 TTCGTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTCCTTTATTATTTTTAC
Found at i:7119771 original size:3 final size:3
Alignment explanation
Indices: 7119765--7119791 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7119755 TCAAATTAAA
7119765 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
7119792 CAAAATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7126983 original size:2 final size:2
Alignment explanation
Indices: 7126976--7127010 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7126966 TGGATTTGAA
7126976 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7127011 TATGCCTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7133654 original size:17 final size:17
Alignment explanation
Indices: 7133623--7133657 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
7133613 TATATTTTTT
7133623 ATTAAATAAATTTATAA
1 ATTAAATAAATTTATAA
7133640 ATTATAATAAA-TTATAA
1 ATTA-AATAAATTTATAA
7133657 A
1 A
7133658 AATAATTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTAAATAAATTTATAA
Found at i:7145025 original size:8 final size:8
Alignment explanation
Indices: 7145012--7145037 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7145002 AACCGCATGG
7145012 ATTGTGAT
1 ATTGTGAT
7145020 ATTGTGAT
1 ATTGTGAT
7145028 ATTGTGAT
1 ATTGTGAT
7145036 AT
1 AT
7145038 GGCCCAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATTGTGAT
Found at i:7145527 original size:31 final size:30
Alignment explanation
Indices: 7145486--7145545 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
7145476 AACAAGAAAA
7145486 TGCCTCTAAAACAATAAAAAAAATTAACAAG
1 TGCCTCTAAAACAAT-AAAAAAATTAACAAG
* * * *
7145517 TGCCTTTAAAATAATTACAAAATTAACAA
1 TGCCTCTAAAACAATAAAAAAATTAACAA
7145546 TAAAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (30 bp):
TGCCTCTAAAACAATAAAAAAATTAACAAG
Found at i:7145598 original size:20 final size:21
Alignment explanation
Indices: 7145575--7145616 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7145565 ATATCCAAAC
7145575 CATAACA-AAAATAGTAGCAA
1 CATAACAGAAAATAGTAGCAA
*
7145595 CATAACAGTAAAATGGTAGCAA
1 CATAACAG-AAAATAGTAGCAA
7145617 AATAGAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (21 bp):
CATAACAGAAAATAGTAGCAA
Found at i:7150367 original size:41 final size:41
Alignment explanation
Indices: 7150322--7150496 Score: 207
Period size: 41 Copynumber: 4.3 Consensus size: 41
7150312 TAGCAGATGT
*
7150322 AGTGCCGGTGAAT-T-AATTCAGACTT-TAAGTCTAGCAGGCTA
1 AGTGCCGGTG-ATCTGAA-TCAG-CTTATAAGCCTAGCAGGCTA
* *
7150363 AGTGCCGGTGATCTGAACCAGGTTATGAA-CCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTAT-AAGCCTAGCAGGCTA
* *
7150404 AGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
* *
7150445 TGTGCCAGTGATCTGAATCAGGC-TATAAGCCTAGCAGGCTA
1 AGTGCCGGTGATCTGAATCA-GCTTATAAGCCTAGCAGGCTA
7150486 AGTGCCGGTGA
1 AGTGCCGGTGA
7150497 ATATGTTAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
40 6 0.05
41 107 0.91
42 5 0.04
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (41 bp):
AGTGCCGGTGATCTGAATCAGCTTATAAGCCTAGCAGGCTA
Found at i:7160147 original size:24 final size:24
Alignment explanation
Indices: 7160120--7160201 Score: 56
Period size: 24 Copynumber: 3.2 Consensus size: 24
7160110 GACTTATATA
7160120 ACAATTAAACCAATGTCTAAAATG
1 ACAATTAAACCAATGTCTAAAATG
* ** * * *
7160144 ACAAATCTACCATTTTGGTACTATAGTGG
1 ACAATTAAACCA--AT-GT-CTAAAAT-G
7160173 AACAATTAAACCAATGTCTAAAATG
1 A-CAATTAAACCAATGTCTAAAATG
7160198 ACAA
1 ACAA
7160202 ATCTACCATT
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
24 12 0.30
25 2 0.05
26 6 0.15
27 4 0.10
28 6 0.15
29 2 0.05
30 8 0.20
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.27
Consensus pattern (24 bp):
ACAATTAAACCAATGTCTAAAATG
Found at i:7160201 original size:54 final size:54
Alignment explanation
Indices: 7160119--7160227 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
7160109 GGACTTATAT
7160119 AACAATTAAACCAATGTCTAAAATGACAAATCTACCATTTTGGTACTATAGTGG
1 AACAATTAAACCAATGTCTAAAATGACAAATCTACCATTTTGGTACTATAGTGG
*
7160173 AACAATTAAACCAATGTCTAAAATGACAAATCTACCATTTTGGTTCTATAGTGG
1 AACAATTAAACCAATGTCTAAAATGACAAATCTACCATTTTGGTACTATAGTGG
7160227 A
1 A
7160228 CGGTTATGTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (54 bp):
AACAATTAAACCAATGTCTAAAATGACAAATCTACCATTTTGGTACTATAGTGG
Found at i:7161069 original size:30 final size:30
Alignment explanation
Indices: 7161030--7161087 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7161020 ATGTTATGAA
* *
7161030 TTAATTGTAT-TTGATTTACTTTTGGCATAT
1 TTAAATGTATATTGATTGA-TTTTGGCATAT
7161060 TTAAATGTATATTGATTGATTTTGGCAT
1 TTAAATGTATATTGATTGATTTTGGCAT
7161088 CAATTTGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (30 bp):
TTAAATGTATATTGATTGATTTTGGCATAT
Found at i:7176316 original size:15 final size:14
Alignment explanation
Indices: 7176296--7176326 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7176286 TTTCAGATTA
7176296 TAGCCATTTGATGTT
1 TAGCCATTTGA-GTT
7176311 TAGCCATTTGAGTT
1 TAGCCATTTGAGTT
7176325 TA
1 TA
7176327 ATTTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.45
Consensus pattern (14 bp):
TAGCCATTTGAGTT
Found at i:7176689 original size:21 final size:21
Alignment explanation
Indices: 7176663--7176705 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7176653 TTTCTTAATC
* *
7176663 TAAAATTTTGATTTTTTATTG
1 TAAAATTTTAATATTTTATTG
7176684 TAAAATTTTAATATTTTATTG
1 TAAAATTTTAATATTTTATTG
7176705 T
1 T
7176706 TTATAACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TAAAATTTTAATATTTTATTG
Found at i:7182768 original size:14 final size:14
Alignment explanation
Indices: 7182749--7182778 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7182739 AAAAGTAAAG
7182749 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7182763 AGTATTTATAGAGC
1 AGTATTTATAGAGC
7182777 AG
1 AG
7182779 ATTAGAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (14 bp):
AGTATTTATAGAGC
Found at i:7191287 original size:14 final size:14
Alignment explanation
Indices: 7191261--7191300 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
7191251 TAGCTAACTA
7191261 AAGTTTAATTAATT
1 AAGTTTAATTAATT
* *
7191275 AATTTTGATTAATT
1 AAGTTTAATTAATT
7191289 AAGTTTAATTAA
1 AAGTTTAATTAA
7191301 AGGTATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AAGTTTAATTAATT
Found at i:7202640 original size:48 final size:48
Alignment explanation
Indices: 7202582--7202678 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
7202572 ACCAGTAATT
* * *
7202582 ATACGTAACATATAACATATACAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
* *
7202630 ATACATAACATATATCACATACAGAGTTATATTAACTCACTCTTTTCA
1 ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
7202678 A
1 A
7202679 ATCCTTCCTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (48 bp):
ATACATAACATATAACACATACAGAGTCATATTAACTCACTCTTTTCA
Found at i:7205257 original size:5 final size:5
Alignment explanation
Indices: 7205247--7205271 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7205237 AAGTCTCATG
7205247 TATGC TATGC TATGC TATGC TATGC
1 TATGC TATGC TATGC TATGC TATGC
7205272 ACACGCCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TATGC
Found at i:7208723 original size:20 final size:21
Alignment explanation
Indices: 7208686--7208729 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
7208676 AACTTTTTAT
* *
7208686 TTTGTCTTTTTTAGTTATTAAA
1 TTTGTATTTTTTA-TTATCAAA
7208708 TTTGTATTTTTT-TTATCAAA
1 TTTGTATTTTTTATTATCAAA
7208728 TT
1 TT
7208730 ACTCTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (21 bp):
TTTGTATTTTTTATTATCAAA
Found at i:7208881 original size:14 final size:15
Alignment explanation
Indices: 7208857--7208896 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7208847 TAAAATATTG
7208857 TATTATAATTTTTAA
1 TATTATAATTTTTAA
7208872 TATT-TAATTTTTAA
1 TATTATAATTTTTAA
7208886 -A--ATAATTTTTA
1 TATTATAATTTTTA
7208897 TAGTTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 9 0.38
13 1 0.04
14 10 0.42
15 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATAATTTTTAA
Found at i:7208898 original size:35 final size:35
Alignment explanation
Indices: 7208843--7208921 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
7208833 ATTTTAAAAT
7208843 ATTTTAAAATATTGTATTATAATTTTTAATATTTAA
1 ATTTTAAAATATTGTATTATAATTTTTAAT-TTTAA
* * *
7208879 TTTTTAAAATAATT-T-TTATAGTTTTTTATTTTAA
1 ATTTTAAAAT-ATTGTATTATAATTTTTAATTTTAA
*
7208913 AATTTAAAA
1 ATTTTAAAA
7208922 AAGTTAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 12 0.32
35 12 0.32
36 10 0.27
37 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (35 bp):
ATTTTAAAATATTGTATTATAATTTTTAATTTTAA
Found at i:7213191 original size:26 final size:26
Alignment explanation
Indices: 7213153--7213204 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
7213143 ACTTAACAGA
*
7213153 TCTTTTAAGGAGACGACCCCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
**
7213179 TCTTTTAAAGAGACGACTTCTTGATG
1 TCTTTTAAAGAGACGACCCCTTGATG
7213205 CCTTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTTTTAAAGAGACGACCCCTTGATG
Found at i:7226356 original size:26 final size:26
Alignment explanation
Indices: 7226295--7226359 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
7226285 ATTTTACTTC
7226295 AGTAAAATTTTGATAATTTTACCCCT
1 AGTAAAATTTTGATAATTTTACCCCT
* *
7226321 AATAATATTTTGA-AGATTTTACCCCT
1 AGTAAAATTTTGATA-ATTTTACCCCT
*
7226347 GGTAAAATTTTGA
1 AGTAAAATTTTGA
7226360 GAAAATTCGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (26 bp):
AGTAAAATTTTGATAATTTTACCCCT
Found at i:7227036 original size:42 final size:42
Alignment explanation
Indices: 7226988--7227090 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 42
7226978 TGAAAATCCT
*
7226988 TCCAGTTGGAAGCGTTTTCAGGTGAAATT-CAGAAAAAACACG
1 TCCAGTTGGAAGCGTTTTCAGGTG-AATTGCAAAAAAAACACG
* * * * *
7227030 TCCAGTTGTAAGCATTTTCAGGTGATTTGCAAAAAAAACGCT
1 TCCAGTTGGAAGCGTTTTCAGGTGAATTGCAAAAAAAACACG
*
7227072 TCCAGTTGGAAGCGCTTTC
1 TCCAGTTGGAAGCGTTTTC
7227091 TGCCACATCA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 3 0.06
42 48 0.94
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (42 bp):
TCCAGTTGGAAGCGTTTTCAGGTGAATTGCAAAAAAAACACG
Found at i:7228497 original size:124 final size:124
Alignment explanation
Indices: 7228321--7228664 Score: 580
Period size: 124 Copynumber: 2.8 Consensus size: 124
7228311 CGAGTTGATG
** * * *
7228321 TTTCTGATAAAATAGTTTAAAATTGCTTTTAGCAGGATGCTTTTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
* *
7228386 CGGCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTGACT
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTAACT
*
7228445 TTTCTGAGCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
*
7228510 CGGCTTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTAACT
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTAACT
*
7228569 TTTCTGACCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
1 TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
**
7228634 CGGCCTCGTGGGTGCACTTTTGCTACAGTAG
66 CGGCCTCGTGGACGCACTTTTGCTACAGTAG
7228665 CATGTTTGGG
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 207 1.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (124 bp):
TTTCTGACCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG
CGGCCTCGTGGACGCACTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTTTAACT
Found at i:7231746 original size:37 final size:37
Alignment explanation
Indices: 7231704--7231999 Score: 547
Period size: 37 Copynumber: 8.0 Consensus size: 37
7231694 TTGTATTAAC
7231704 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7231741 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7231778 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7231815 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7231852 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
* *
7231889 TCAAAATATATAAAATTAGAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7231926 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
*
7231963 TCAAATTATATAAAATTATTAATGGTTAGTAAAATTA
1 TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
7232000 CTGTATTTTT
Statistics
Matches: 252, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 252 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (37 bp):
TCAAATTATATAAAATTATAAATGGTTAGTAAAATTA
Found at i:7231903 original size:9 final size:8
Alignment explanation
Indices: 7231712--7231972 Score: 81
Period size: 9 Copynumber: 28.5 Consensus size: 8
7231702 ACTCAAATTA
7231712 TATAAAAT
1 TATAAAAT
*
7231720 TATAAATGGT
1 TATAAA--AT
7231730 TAGTAAAAT
1 TA-TAAAAT
*
7231739 TATCAAATT
1 TAT-AAAAT
7231748 ATATAAAAT
1 -TATAAAAT
*
7231757 TATAAATGGT
1 TATAAA--AT
7231767 TAGTAAAAT
1 TA-TAAAAT
*
7231776 TATCAAATT
1 TAT-AAAAT
7231785 ATATAAAAT
1 -TATAAAAT
*
7231794 TATAAATGGT
1 TATAAA--AT
7231804 TAGTAAAAT
1 TA-TAAAAT
*
7231813 TATCAAATT
1 TAT-AAAAT
7231822 ATATAAAAT
1 -TATAAAAT
**
7231831 TATTAATGGT
1 TA-TAA-AAT
7231841 TAGTAAAAT
1 TA-TAAAAT
*
7231850 TATCAAATT
1 TAT-AAAAT
7231859 ATATAAAAT
1 -TATAAAAT
**
7231868 TATTAATGGT
1 TA-TAA-AAT
7231878 TAGTAAAAT
1 TA-TAAAAT
7231887 TATCAAAAT
1 TAT-AAAAT
7231896 ATATAAAAT
1 -TATAAAAT
* *
7231905 TAGAAATGGT
1 TATAAA--AT
7231915 TAGTAAAAT
1 TA-TAAAAT
*
7231924 TATCAAATT
1 TAT-AAAAT
7231933 ATATAAAAT
1 -TATAAAAT
*
7231942 TATAAATGGT
1 TATAAA--AT
7231952 TAGTAAAAT
1 TA-TAAAAT
*
7231961 TATCAAAT
1 TATAAAAT
7231969 TATA
1 TATA
7231973 TAAAATTATT
Statistics
Matches: 188, Mismatches: 34, Indels: 62
0.66 0.12 0.22
Matches are distributed among these distances:
8 47 0.25
9 77 0.41
10 45 0.24
11 19 0.10
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:7233421 original size:22 final size:22
Alignment explanation
Indices: 7233393--7233448 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
7233383 AAATATGGAT
*
7233393 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
7233415 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
7233437 TTGAGAGGAATT
1 TTGAGA-GAATT
7233449 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:7233465 original size:12 final size:11
Alignment explanation
Indices: 7233433--7233465 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
7233423 ATTTTGGAAA
7233433 GAAATTGAGAG
1 GAAATTGAGAG
7233444 G-AATTGAGAG
1 GAAATTGAGAG
7233454 GAAATATGAGAG
1 GAAAT-TGAGAG
7233466 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:7235580 original size:33 final size:33
Alignment explanation
Indices: 7235543--7235610 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
7235533 CTGTCAGTGA
*
7235543 ATTAAAAAAATAAAAATGATGTAAGATGATATC
1 ATTAAAAAAATAAAAATGATGTAAGATAATATC
* *
7235576 ATTAAAAAAATACAAGTGATGTAAGATAATATC
1 ATTAAAAAAATAAAAATGATGTAAGATAATATC
7235609 AT
1 AT
7235611 GAAGAAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (33 bp):
ATTAAAAAAATAAAAATGATGTAAGATAATATC
Found at i:7236239 original size:39 final size:38
Alignment explanation
Indices: 7236143--7236244 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 38
7236133 ATACAAAAAA
* *
7236143 TTATTTAATTATATAAATTATTACAAATTTCATAATAT
1 TTATATAATTATATAAAATATTACAAATTTCATAATAT
* * * *
7236181 TTATAATAATTGTATAAAATATTACAATTTTCGTAATTCTT
1 TTAT-ATAATTATATAAAATATTACAAATTTCATAA-T-AT
*
7236222 TTATGTAATTATA-AAAATATTAC
1 TTATATAATTATATAAAATATTAC
7236245 TGAATTATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.08
39 36 0.68
40 8 0.15
41 5 0.09
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (38 bp):
TTATATAATTATATAAAATATTACAAATTTCATAATAT
Found at i:7236269 original size:19 final size:19
Alignment explanation
Indices: 7236228--7236269 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7236218 TCTTTTATGT
*
7236228 AATTATAAAAATATTACTG
1 AATTATAAAAATATTACTA
*
7236247 AATTATATAAATTATTA-TA
1 AATTATA-AAAATATTACTA
7236266 AATT
1 AATT
7236270 TGATTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTATAAAAATATTACTA
Found at i:7236521 original size:18 final size:18
Alignment explanation
Indices: 7236498--7236532 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7236488 CTAATATTGT
7236498 ATTTATCAGTTTTTATTA
1 ATTTATCAGTTTTTATTA
* *
7236516 ATTTATTATTTTTTATT
1 ATTTATCAGTTTTTATT
7236533 CTAAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
ATTTATCAGTTTTTATTA
Found at i:7253646 original size:22 final size:22
Alignment explanation
Indices: 7253594--7253648 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
7253584 TAAAGAAATA
*
7253594 AAAAGAAAAAATTAAATTGTTC
1 AAAAGAAAAAATTAAATTGCTC
* *
7253616 AACATAAAAAATT-AATTGCTC
1 AAAAGAAAAAATTAAATTGCTC
7253637 AAAACGAAAAAA
1 AAAA-GAAAAAA
7253649 ATATAGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAGAAAAAATTAAATTGCTC
Found at i:7258322 original size:20 final size:20
Alignment explanation
Indices: 7258297--7258357 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
7258287 CTACCATAAA
7258297 ATTAAAAGATTTTATAGTTT
1 ATTAAAAGATTTTATAGTTT
* *
7258317 ATTAAATA-A--GTATAGTAAT
1 ATTAAA-AGATTTTATAGT-TT
7258336 ATTAAAAGATTTTATAGTTT
1 ATTAAAAGATTTTATAGTTT
7258356 AT
1 AT
7258358 CTCTTAGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
18 7 0.22
19 8 0.25
20 10 0.31
21 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
ATTAAAAGATTTTATAGTTT
Found at i:7268478 original size:41 final size:41
Alignment explanation
Indices: 7268444--7268537 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
7268434 ACCGACTTTT
7268444 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
7268485 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
7268526 AGCCTGCTAGAC
1 AGCCTGCTAGAC
7268538 ATAAAGTCTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCCGAAATGTTTCACCGGCATCA
Found at i:7279511 original size:15 final size:16
Alignment explanation
Indices: 7279493--7279588 Score: 68
Period size: 14 Copynumber: 6.6 Consensus size: 16
7279483 ATTCACAAGA
7279493 AAAAT-AAAAAAAATC
1 AAAATCAAAAAAAATC
7279508 AAAAT--AAAAAAATC
1 AAAATCAAAAAAAATC
7279522 --AATCAAAAAAAA-C
1 AAAATCAAAAAAAATC
*
7279535 AAAATC--AAAAAATG
1 AAAATCAAAAAAAATC
* * *
7279549 AAAAACGAAAGAAA--
1 AAAATCAAAAAAAATC
*
7279563 AAAATAAAAAAAAATC
1 AAAATCAAAAAAAATC
*
7279579 ATAATCAAAA
1 AAAATCAAAA
7279589 TGAAAATGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
12 3 0.05
13 7 0.11
14 31 0.49
15 9 0.14
16 13 0.21
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.11
Consensus pattern (16 bp):
AAAATCAAAAAAAATC
Found at i:7279516 original size:21 final size:21
Alignment explanation
Indices: 7279477--7279517 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7279467 AGATTCAATC
* *
7279477 AAAAAAATTCACAAGAAAAAT
1 AAAAAAAATCAAAAGAAAAAT
*
7279498 AAAAAAAATCAAAATAAAAA
1 AAAAAAAATCAAAAGAAAAA
7279518 AATCAATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.12
Consensus pattern (21 bp):
AAAAAAAATCAAAAGAAAAAT
Found at i:7279519 original size:18 final size:17
Alignment explanation
Indices: 7279492--7279579 Score: 54
Period size: 18 Copynumber: 5.0 Consensus size: 17
7279482 AATTCACAAG
*
7279492 AAAAATAAAAAAAATCA
1 AAAAAAAAAAAAAATCA
**
7279509 AAATAAAAAAATCAATC-
1 AAA-AAAAAAAAAAATCA
*
7279526 -AAAAAAAACAAAATCA
1 AAAAAAAAAAAAAATCA
* **
7279542 AAAAATGAAAAACGAAAGAA
1 AAAAA--AAAAA-AAAATCA
7279562 AAAAATAAAAAAAAATCA
1 AAAAA-AAAAAAAAATCA
7279580 TAATCAAAAT
Statistics
Matches: 51, Mismatches: 14, Indels: 11
0.67 0.18 0.14
Matches are distributed among these distances:
15 10 0.20
16 2 0.04
17 7 0.14
18 14 0.27
19 9 0.18
20 9 0.18
ACGTcount: A:0.78, C:0.08, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAAAAAAAAAATCA
Found at i:7279538 original size:19 final size:18
Alignment explanation
Indices: 7279492--7279542 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
7279482 AATTCACAAG
*
7279492 AAAAATAAAAAA--AATC
1 AAAAAAAAAAAATCAATC
*
7279508 AAAATAAAAAAATCAATC
1 AAAAAAAAAAAATCAATC
7279526 AAAAAAAACAAAATCAA
1 AAAAAAAA-AAAATCAA
7279543 AAAATGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
18 11 0.38
19 8 0.28
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAAAAAAAAATCAATC
Found at i:7279552 original size:20 final size:19
Alignment explanation
Indices: 7279516--7279579 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
7279506 TCAAAATAAA
*
7279516 AAAATCAATCAAA-AAAAAC
1 AAAATCAA-AAAATAAAAAC
7279535 AAAATCAAAAAATGAAAAAC
1 AAAATCAAAAAAT-AAAAAC
* **
7279555 GAAAGAAAAAAATAAAAA-
1 AAAATCAAAAAATAAAAAC
7279573 AAAATCA
1 AAAATCA
7279580 TAATCAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
18 7 0.19
19 13 0.36
20 16 0.44
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (19 bp):
AAAATCAAAAAATAAAAAC
Done.