Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 32 of 284
Found at i:11175098 original size:13 final size:13
Alignment explanation
Indices: 11175080--11175107 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11175070 ATTCTTTCTC
11175080 TATTTATGAAGTT
1 TATTTATGAAGTT
11175093 TATTTATGAAGTT
1 TATTTATGAAGTT
11175106 TA
1 TA
11175108 CTTGTACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:11176504 original size:12 final size:12
Alignment explanation
Indices: 11176487--11176512 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11176477 TTTTCCAGAA
11176487 AACATTATATCG
1 AACATTATATCG
11176499 AACATTATATCG
1 AACATTATATCG
11176511 AA
1 AA
11176513 TACACAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (12 bp):
AACATTATATCG
Found at i:11177240 original size:18 final size:18
Alignment explanation
Indices: 11177217--11177274 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
11177207 ATTTGAAGGA
11177217 ATGAAGGGAGAAGAATGG
1 ATGAAGGGAGAAGAATGG
* *** *
11177235 ATGAAGGAAGCTTACTGG
1 ATGAAGGGAGAAGAATGG
*
11177253 ATGAAGGGAGAAGAATGC
1 ATGAAGGGAGAAGAATGG
11177271 ATGA
1 ATGA
11177275 GAGCTTTAGG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.38, T:0.16
Consensus pattern (18 bp):
ATGAAGGGAGAAGAATGG
Found at i:11179124 original size:20 final size:20
Alignment explanation
Indices: 11179062--11179135 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
11179052 TTATAGTTTT
*
11179062 AAAAATTAT-TAAATTT-TA
1 AAAAATTATAAAAATTTGTA
* * *
11179080 ATAAAAATATTAAAAATTAGAA
1 A-AAAATTA-TAAAAATTTGTA
11179102 AAAAATTATAAAAATTTGTA
1 AAAAATTATAAAAATTTGTA
**
11179122 AAATTTTATAAAAA
1 AAAAATTATAAAAA
11179136 ATCATAATAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 1 0.02
19 6 0.14
20 23 0.53
21 11 0.26
22 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAAATTTGTA
Found at i:11187171 original size:35 final size:35
Alignment explanation
Indices: 11187120--11187196 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
11187110 CAATATTATG
**
11187120 ATGAATTGACGAATATTAAGTCTTGGTTAAACCTT
1 ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT
* *
11187155 ATGAATTGACGGATATTAAGTCCCGGTTGAACCTT
1 ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT
*
11187190 AGGAATT
1 ATGAATT
11187197 CTTATGATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (35 bp):
ATGAATTGACGAATATTAAGTCCCGGTTAAACCTT
Found at i:11188245 original size:12 final size:12
Alignment explanation
Indices: 11188228--11188254 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11188218 GTTTGAACCC
11188228 CTTGAATGTGTG
1 CTTGAATGTGTG
11188240 CTTGAATGTGTG
1 CTTGAATGTGTG
11188252 CTT
1 CTT
11188255 AAGTGGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.11, G:0.30, T:0.44
Consensus pattern (12 bp):
CTTGAATGTGTG
Found at i:11190803 original size:21 final size:21
Alignment explanation
Indices: 11190777--11190820 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
11190767 TTTACCTCTC
11190777 TTCGTCTTTAAACTTATACTT
1 TTCGTCTTTAAACTTATACTT
* *
11190798 TTCGTCTTTAAATTTGTACTT
1 TTCGTCTTTAAACTTATACTT
11190819 TT
1 TT
11190821 AGTTAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.16, G:0.07, T:0.57
Consensus pattern (21 bp):
TTCGTCTTTAAACTTATACTT
Found at i:11192854 original size:136 final size:129
Alignment explanation
Indices: 11192623--11192931 Score: 392
Period size: 136 Copynumber: 2.3 Consensus size: 129
11192613 AGTCTAGATC
* *
11192623 GTGAGAGAGAG-T--TACTCGGGTATTTATACCTAGCCTTGGGGGCATCAATGCTCCAGAGTGCT
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTT-GGGGCATCAATGCTCCAGAATGCT
* **
11192685 ATCTGATGCTTAAGTTAGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAG
65 ATCTGATGCTTAAGTTAGAAAAGGAGACAGTGTAATGGAT-----AA-AGC--AAGCTAGCAGAG
11192750 AAGAAGT-
122 AAGAAGTA
* * *
11192757 GTGAGAGAGAGTTGGTACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAATGCTC
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGCATCAATGCTCCAGAATGCTA
* *
11192822 TTTGATGCTTAAGTTAGAAAAGGAGACAGTGTAATGGGTAAAGCAAGCTAGCAGAGAAGAAGTAA
66 TCTGATGCTTAAGTTAGAAAAGGAGACAGTGTAATGGATAAAGCAAGCTAGCAGAGAAGAAGT-A
* *
11192887 GAGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGACTTGGGGC
1 GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGC
11192932 TGCCTGTTGC
Statistics
Matches: 157, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
128 19 0.12
130 45 0.29
131 2 0.01
134 11 0.07
135 1 0.01
136 56 0.36
137 23 0.15
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (129 bp):
GTGAGAGAGAGTTGGTACTTGGGTATTTATACCTAGCCTTGGGGCATCAATGCTCCAGAATGCTA
TCTGATGCTTAAGTTAGAAAAGGAGACAGTGTAATGGATAAAGCAAGCTAGCAGAGAAGAAGTA
Found at i:11195420 original size:22 final size:22
Alignment explanation
Indices: 11195395--11195439 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11195385 ACAGATACTG
11195395 TAGGAATATTTTGTAAATATTT
1 TAGGAATATTTTGTAAATATTT
*
11195417 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTTTGTAAATATTT
11195439 T
1 T
11195440 TTTATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TAGGAATATTTTGTAAATATTT
Found at i:11199199 original size:22 final size:22
Alignment explanation
Indices: 11199171--11199215 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
11199161 AGGGGGAGTG
11199171 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
11199193 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
11199215 T
1 T
11199216 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:11199989 original size:20 final size:22
Alignment explanation
Indices: 11199950--11199991 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
11199940 ACGAAGTAGG
11199950 AAAGTGATTATGAATATTAAAT
1 AAAGTGATTATGAATATTAAAT
*
11199972 AAAGT-ATT-TGATTATTAAAT
1 AAAGTGATTATGAATATTAAAT
11199992 TTTCTATCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 3 0.16
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (22 bp):
AAAGTGATTATGAATATTAAAT
Found at i:11205534 original size:40 final size:40
Alignment explanation
Indices: 11205490--11205753 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
11205480 GCTCCTCGTT
* *
11205490 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11205530 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11205570 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11205610 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
11205650 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
11205689 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
11205730 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11205754 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11207936 original size:42 final size:41
Alignment explanation
Indices: 11207829--11207990 Score: 121
Period size: 43 Copynumber: 3.8 Consensus size: 41
11207819 TCGTATAATA
* * * * * *
11207829 CCAACGTACCAGACGTGGTCTTACATGTAATCAAATATTGATG
1 CCAACGTCCCAGACATGGTCTTATACGAAATC-AA-ATCGATG
*
11207872 CC-ACTATCCCAGACA-GAGTCTTATACGAAATCAAATACGATG
1 CCAAC-GTCCCAGACATG-GTCTTATACGAAATCAAAT-CGATG
*** * *
11207914 TTGATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATG
1 CCAACGTCCCAGACATGGTCTTATACG-AAA--TCAAATCGATG
*
11207958 CCAACGTCCTAGACATGGTCTTATACGAAATCA
1 CCAACGTCCCAGACATGGTCTTATACGAAATCA
11207991 CATATAGGAA
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
41 5 0.05
42 27 0.29
43 29 0.31
44 26 0.28
45 6 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
CCAACGTCCCAGACATGGTCTTATACGAAATCAAATCGATG
Found at i:11211530 original size:21 final size:21
Alignment explanation
Indices: 11211504--11211543 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11211494 CATGTAAAAA
*
11211504 GAAATTTCTCTAAATCCTGAT
1 GAAATTTCTCGAAATCCTGAT
11211525 GAAATTTCTCGAAATCCTG
1 GAAATTTCTCGAAATCCTG
11211544 TGGTTCCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (21 bp):
GAAATTTCTCGAAATCCTGAT
Found at i:11217082 original size:43 final size:43
Alignment explanation
Indices: 11216972--11217083 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 43
11216962 TCGATTTGAT
* **
11216972 AATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATCTG
1 AATTACGTGTAAGACCACGTCTGGGACAGAGGCATCGTATCTG
** *
11217015 -ATTTTGTGTAAGACC-CTATCTGGGACAGAGGCATCG-ATACTG
1 AATTACGTGTAAGACCAC-GTCTGGGACAGAGGCATCGTAT-CTG
*
11217057 AATTACATGTAAGACCACGTCTGGGAC
1 AATTACGTGTAAGACCACGTCTGGGAC
11217084 GTCGGCATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.04
42 32 0.58
43 20 0.36
44 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
AATTACGTGTAAGACCACGTCTGGGACAGAGGCATCGTATCTG
Found at i:11229013 original size:3 final size:3
Alignment explanation
Indices: 11229000--11229032 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
11228990 AATGAGAATT
*
11229000 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11229033 AGAGCTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11229188 original size:24 final size:22
Alignment explanation
Indices: 11229161--11229206 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
11229151 GAAGATCAAA
*
11229161 AAATGAATAATAATAAATAATAGT
1 AAATAAATAA-AATAAA-AATAGT
*
11229185 AAATAAATAAAATTAAAATAGT
1 AAATAAATAAAATAAAAATAGT
11229207 GTAAGCACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (22 bp):
AAATAAATAAAATAAAAATAGT
Found at i:11231063 original size:7 final size:7
Alignment explanation
Indices: 11231053--11231092 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
11231043 TATTATGTTT
11231053 TATTATA
1 TATTATA
11231060 TATTATA
1 TATTATA
11231067 TATTATA
1 TATTATA
*
11231074 TTCTTATTA
1 -TATTA-TA
11231083 TATTATA
1 TATTATA
11231090 TAT
1 TAT
11231093 AAAGTAAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 19 0.66
8 8 0.28
9 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTATA
Found at i:11231082 original size:25 final size:24
Alignment explanation
Indices: 11231038--11231093 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
11231028 AAATAATAAA
* *
11231038 ATATTTATTATGTTTTATTATA-T
1 ATATATATTATATTTTATTATATT
11231061 ATTATATATTATATTCTTATTATATT
1 A-TATATATTATATT-TTATTATATT
11231087 ATATATA
1 ATATATA
11231094 AAGTAAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 11 0.39
25 14 0.50
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATATATTATATTTTATTATATT
Found at i:11234663 original size:5 final size:5
Alignment explanation
Indices: 11234653--11234687 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
11234643 TTGTATGTTC
11234653 TTTAT TTTAT TTTATTT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA--T TTTAT TTTAT TTTAT TTT
11234688 TCACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:11234674 original size:12 final size:12
Alignment explanation
Indices: 11234657--11234682 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11234647 ATGTTCTTTA
11234657 TTTTATTTTATT
1 TTTTATTTTATT
11234669 TTTTATTTTATT
1 TTTTATTTTATT
11234681 TT
1 TT
11234683 ATTTTTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:11234675 original size:17 final size:17
Alignment explanation
Indices: 11234653--11234688 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11234643 TTGTATGTTC
11234653 TTTATTTTATTTTATTT
1 TTTATTTTATTTTATTT
11234670 TTTATTTTATTTTATTT
1 TTTATTTTATTTTATTT
11234687 TT
1 TT
11234689 CACAAATTGG
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTATTTTATTT
Found at i:11241700 original size:44 final size:43
Alignment explanation
Indices: 11241637--11241788 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 43
11241627 TATGTATTAT
*
11241637 CGTGTAAGACCACGTCTGGGACGTTAGCATCGATTTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTT-TGATTTA
* * * *
11241681 CGTGTAAGACCATGTCTGGGACATTGGCGTCG-TATATGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTTGATTTA
*
11241723 CGTGTAAGACC-CTGTCTGGGTCAG-TGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TTTGATTTA
* *
11241766 CATGTAAGACCACGTTTGGGACG
1 CGTGTAAGACCACGTCTGGGACG
11241789 CTTGCATTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
42 29 0.33
43 30 0.34
44 30 0.34
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTTGATTTA
Found at i:11241733 original size:86 final size:87
Alignment explanation
Indices: 11241626--11241787 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 87
11241616 TAGGATTCCG
*
11241626 ATATGTATTATCGTGTAAGACCAC-GTCTGGGAC-GTTAGCATCGAT-TTGTGATTTACGTGTAA
1 ATATGTATTATCGTGTAAGACC-CTGTCTGGGACAG-TAGCATCGATATT-TGA-TTACATGTAA
*
11241688 GACCATGTCTGGGACATTGGCGTCGT
62 GACCACGTCTGGGACATTGGCGTCGT
* *
11241714 ATATG-ATT-TCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGATATTTGATTACATGTAAGACC
1 ATATGTATTATCGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTGATTACATGTAAGACC
*
11241777 ACGTTTGGGAC
66 ACGTCTGGGAC
11241788 GCTTGCATTG
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
85 23 0.35
86 32 0.48
87 6 0.09
88 5 0.08
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (87 bp):
ATATGTATTATCGTGTAAGACCCTGTCTGGGACAGTAGCATCGATATTTGATTACATGTAAGACC
ACGTCTGGGACATTGGCGTCGT
Found at i:11241739 original size:42 final size:43
Alignment explanation
Indices: 11241626--11241776 Score: 153
Period size: 44 Copynumber: 3.5 Consensus size: 43
11241616 TAGGATTCCG
* *
11241626 ATATGTATTATCGTGTAAGACCAC-GTCTGGGACGTTAGCATCGAT
1 ATATG-ATT-TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGAT
* * * *
11241671 TTGTGATTTACGTGTAAGACCATGTCTGGGACATTGGCGTCG-T
1 ATATGATTT-CGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
* *
11241714 ATATGATTTCGTGTAAGACCCTGTCTGGGTCAGTGGCATCGAT
1 ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
* * *
11241757 ATTTGATTACATGTAAGACC
1 ATATGATTTCGTGTAAGACC
11241777 ACGTTTGGGA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.32
43 27 0.31
44 30 0.34
45 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
ATATGATTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
Found at i:11243470 original size:21 final size:22
Alignment explanation
Indices: 11243445--11243485 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11243435 TGTTGATATC
11243445 TGAC-TTTGA-TGTGATAATGTA
1 TGACTTTTGATTGTGA-AATGTA
11243466 TGACTTTTGATTGTGAAATG
1 TGACTTTTGATTGTGAAATG
11243486 ATTGCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (22 bp):
TGACTTTTGATTGTGAAATGTA
Found at i:11258301 original size:38 final size:41
Alignment explanation
Indices: 11258247--11258330 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 41
11258237 GTGTCCTCAA
11258247 CCGTGTAACTCACTGAGATGCC-C-CA-CCCATGTGCCAAG
1 CCGTGTAACTCACTGAGATGCCACACAGCCCATGTGCCAAG
* * *
11258285 CCGTGTAACTCTCTGAGTTGCCACACATGCCCATGTGCCAGG
1 CCGTGTAACTCACTGAGATGCCACACA-GCCCATGTGCCAAG
11258327 CCGT
1 CCGT
11258331 TTGCTAGCCC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
38 20 0.51
39 1 0.03
40 2 0.05
42 16 0.41
ACGTcount: A:0.20, C:0.36, G:0.23, T:0.21
Consensus pattern (41 bp):
CCGTGTAACTCACTGAGATGCCACACAGCCCATGTGCCAAG
Found at i:11265862 original size:33 final size:32
Alignment explanation
Indices: 11265764--11265874 Score: 134
Period size: 32 Copynumber: 3.4 Consensus size: 32
11265754 TAAATGAATA
*
11265764 TTGTTATCATTT-AACAAAATTAAAGTTGATAT
1 TTGTTATCATTTCAA-AAAATTAAAGTTGAAAT
* * *
11265796 TTGTTATCATTTTACAAAATTAAAGTTGTAAT
1 TTGTTATCATTTCAAAAAATTAAAGTTGAAAT
* *
11265828 TTATTATCATTTCAAAAAATGAAAAGTTGAAAT
1 TTGTTATCATTTCAAAAAAT-TAAAGTTGAAAT
*
11265861 TTGTTACCATTTCA
1 TTGTTATCATTTCA
11265875 CGGAACCACA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
32 44 0.66
33 23 0.34
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (32 bp):
TTGTTATCATTTCAAAAAATTAAAGTTGAAAT
Found at i:11266828 original size:17 final size:17
Alignment explanation
Indices: 11266779--11266832 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
11266769 GATAGTGTCG
*
11266779 ATTACATATCAAAGAAT
1 ATTACAAATCAAAGAAT
* *
11266796 A-TAAAAATGAACAGAAT
1 ATTACAAATCAA-AGAAT
11266813 ATTACAAATCAAAGAAT
1 ATTACAAATCAAAGAAT
11266830 ATT
1 ATT
11266833 GGTCAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.23
17 15 0.50
18 8 0.27
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.26
Consensus pattern (17 bp):
ATTACAAATCAAAGAAT
Found at i:11270080 original size:29 final size:27
Alignment explanation
Indices: 11270030--11270083 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
11270020 GATTTTTAGT
*
11270030 GAAAATGTCAATTAGGGATTAAATTAA
1 GAAAATGTAAATTAGGGATTAAATTAA
*
11270057 GAAAAGTGTAAATTGAGGGGTTAAATT
1 GAAAA-TGTAAATT-AGGGATTAAATT
11270084 GTGAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 7 0.30
29 11 0.48
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (27 bp):
GAAAATGTAAATTAGGGATTAAATTAA
Found at i:11270089 original size:29 final size:27
Alignment explanation
Indices: 11270028--11270089 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
11270018 GTGATTTTTA
*
11270028 GTGAAAATGTCAATTAGGGATTAAATT
1 GTGAAAATGTAAATTAGGGATTAAATT
** *
11270055 AAGAAAAGTGTAAATTGAGGGGTTAAATT
1 GTGAAAA-TGTAAATT-AGGGATTAAATT
11270084 GTGAAA
1 GTGAAA
11270090 TAAATGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
27 5 0.19
28 7 0.26
29 15 0.56
ACGTcount: A:0.44, C:0.02, G:0.26, T:0.29
Consensus pattern (27 bp):
GTGAAAATGTAAATTAGGGATTAAATT
Found at i:11270697 original size:47 final size:47
Alignment explanation
Indices: 11270634--11270752 Score: 211
Period size: 47 Copynumber: 2.5 Consensus size: 47
11270624 GTGTGAATAA
*
11270634 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
* *
11270681 TACCTTGATATAGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
11270728 TACCTTGATTTGGCTACGGGCCATG
1 TACCTTGATTTGGCTACGGGCCATG
11270753 GTATGGATAC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGATATAAGTATTTTGAGAGGAGT
Found at i:11287617 original size:29 final size:27
Alignment explanation
Indices: 11287564--11287623 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
11287554 GATTTCTAGT
* *
11287564 GAAAATGTCAATTAGGGATTCAATTGA
1 GAAAATGTAAATTAGGGATTAAATTGA
* *
11287591 GAAAAGTGTAAATTGAGGGGTTAAATTGT
1 GAAAA-TGTAAATT-AGGGATTAAATTGA
11287620 GAAA
1 GAAA
11287624 TAAATGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 7 0.26
29 15 0.56
ACGTcount: A:0.42, C:0.03, G:0.27, T:0.28
Consensus pattern (27 bp):
GAAAATGTAAATTAGGGATTAAATTGA
Found at i:11294717 original size:17 final size:17
Alignment explanation
Indices: 11294697--11294752 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
11294687 TATATGCATT
11294697 TAAAAAATCAAATAACA
1 TAAAAAATCAAATAACA
* **
11294714 TAAACAAA-GAAATAGATT
1 TAAA-AAATCAAATA-ACA
11294732 TAAAAAATCAAATAACA
1 TAAAAAATCAAATAACA
11294749 TAAA
1 TAAA
11294753 CAAAGGAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.20
Consensus pattern (17 bp):
TAAAAAATCAAATAACA
Found at i:11294781 original size:35 final size:35
Alignment explanation
Indices: 11294694--11294766 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
11294684 AAATATATGC
11294694 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG
1 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG
*
11294729 ATTTAAAAAATCAAATAACATAAACAAAGGAATAG
1 ATTTAAAAAATCAAATAACATAAACAAAGAAATAG
11294764 ATT
1 ATT
11294767 GTAAGTTAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.63, C:0.08, G:0.07, T:0.22
Consensus pattern (35 bp):
ATTTAAAAAATCAAATAACATAAACAAAGAAATAG
Found at i:11305055 original size:29 final size:29
Alignment explanation
Indices: 11305021--11305094 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
11305011 TAATCAACCG
*
11305021 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
11305050 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
11305079 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
11305095 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:11311287 original size:222 final size:222
Alignment explanation
Indices: 11310901--11311344 Score: 798
Period size: 222 Copynumber: 2.0 Consensus size: 222
11310891 ATTCCTTACG
11310901 CTTTTGATCGATGAACCGTTGACTAATATATTTCTTTCGAAATTCCGTCTGAAAGAAATCCCAAG
1 CTTTTGATCGATGAACCGTTGACTAATATATTTCTTTCGAAATTCCGTCTGAAAGAAATCCCAAG
11310966 TAACTCGTTCGTTTGGGACTATGGAAATCAAAGTCCTCCACCAAAAGTAAGCTGAGTCTCACAAC
66 TAACTCGTTCGTTTGGGACTATGGAAATCAAAGTCCTCCACCAAAAGTAAGCTGAGTCTCACAAC
* *
11311031 AAGGATATAGCACACTTTAGACATTCATCGGGTGTGCGTGACAGTTCAACAAACATCCGAATGGT
131 AAGGATATAGCACACTTTAGACATTCATCGGGTGTGCATGACAGTTCAACAAACACCCGAATGGT
11311096 GTTATCAAGCCAGAACTCGGCCCTTTC
196 GTTATCAAGCCAGAACTCGGCCCTTTC
* *
11311123 CTTTTGATCGATGAACTGTTGACTAATATATTTCTTTCGAAATTCCGTCTGAAAGAAGTCCCAAG
1 CTTTTGATCGATGAACCGTTGACTAATATATTTCTTTCGAAATTCCGTCTGAAAGAAATCCCAAG
* ** * *
11311188 TTACTCGTTCGTTTGGGACTATGGAAATCAGGGTCCTCCACCAATAGTAAGCTGAGTCTCGCAAC
66 TAACTCGTTCGTTTGGGACTATGGAAATCAAAGTCCTCCACCAAAAGTAAGCTGAGTCTCACAAC
*
11311253 AAGGATATAGCACACTTTAGACATTCATCGGGTGTGCATGACAGTTCATCAAACACCCGAATGGT
131 AAGGATATAGCACACTTTAGACATTCATCGGGTGTGCATGACAGTTCAACAAACACCCGAATGGT
11311318 GTTATCAAGCCAGAACTCGGCCCTTTC
196 GTTATCAAGCCAGAACTCGGCCCTTTC
11311345 GGCATCATCA
Statistics
Matches: 212, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
222 212 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (222 bp):
CTTTTGATCGATGAACCGTTGACTAATATATTTCTTTCGAAATTCCGTCTGAAAGAAATCCCAAG
TAACTCGTTCGTTTGGGACTATGGAAATCAAAGTCCTCCACCAAAAGTAAGCTGAGTCTCACAAC
AAGGATATAGCACACTTTAGACATTCATCGGGTGTGCATGACAGTTCAACAAACACCCGAATGGT
GTTATCAAGCCAGAACTCGGCCCTTTC
Found at i:11313423 original size:29 final size:29
Alignment explanation
Indices: 11313389--11313462 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
11313379 TAATCAACCG
*
11313389 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
11313418 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
11313447 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
11313463 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:11316702 original size:28 final size:30
Alignment explanation
Indices: 11316648--11316708 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 30
11316638 ATTTATTTTG
* *
11316648 CAATTTAACTCCTTAATTTACACTTTT-CT
1 CAATTTAACTCCCTAATATACACTTTTACT
* *
11316677 CAATTTAA-TCCCTAATATGCATTTTTACT
1 CAATTTAACTCCCTAATATACACTTTTACT
11316706 CAA
1 CAA
11316709 AATCACTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.31, C:0.23, G:0.02, T:0.44
Consensus pattern (30 bp):
CAATTTAACTCCCTAATATACACTTTTACT
Found at i:11318735 original size:33 final size:33
Alignment explanation
Indices: 11318671--11318736 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
11318661 CAATCCTGTG
**
11318671 ACAATTCAGTATCAGTTAGGGCCTTAACCCATT
1 ACAATTCAGTATCAGTTAGGGCCAGAACCCATT
* *
11318704 ACAATATCAGTATCAGTT-GGGTCAGAGCCCATT
1 ACAAT-TCAGTATCAGTTAGGGCCAGAACCCATT
11318737 TCAGAGACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (33 bp):
ACAATTCAGTATCAGTTAGGGCCAGAACCCATT
Found at i:11332253 original size:303 final size:303
Alignment explanation
Indices: 11331706--11332312 Score: 1214
Period size: 303 Copynumber: 2.0 Consensus size: 303
11331696 CGTGATCTCG
11331706 AGGTATGTTGGCTCGATGATCCCAAAGAACAGCTCCCAAGGGTCGGTGGTTAGGAAGGCCCGAAT
1 AGGTATGTTGGCTCGATGATCCCAAAGAACAGCTCCCAAGGGTCGGTGGTTAGGAAGGCCCGAAT
11331771 CGCTTCAGCCAACTAAACTTGTTCTACTGCATCCCAGTCGATGCAGCGGCCCGCAATTAAAGGTC
66 CGCTTCAGCCAACTAAACTTGTTCTACTGCATCCCAGTCGATGCAGCGGCCCGCAATTAAAGGTC
11331836 AGGCCCAGAGTATTTGGAATAGTTCTTCTTGGGGCCCGATGGGGAACCTCAGGAAAAGGTGACAA
131 AGGCCCAGAGTATTTGGAATAGTTCTTCTTGGGGCCCGATGGGGAACCTCAGGAAAAGGTGACAA
11331901 ACTTTCGCGGTAGGACTCGAGGAAGATGATGCTCCCTTCCTTTTCTTTGAAGCAGGGACAACGGC
196 ACTTTCGCGGTAGGACTCGAGGAAGATGATGCTCCCTTCCTTTTCTTTGAAGCAGGGACAACGGC
11331966 CTTTTTACCACGTGAAGATGACATGGTACCTGTGATTAGAATT
261 CTTTTTACCACGTGAAGATGACATGGTACCTGTGATTAGAATT
11332009 AGGTATGTTGGCTCGATGATCCCAAAGAACAGCTCCCAAGGGTCGGTGGTTAGGAAGGCCCGAAT
1 AGGTATGTTGGCTCGATGATCCCAAAGAACAGCTCCCAAGGGTCGGTGGTTAGGAAGGCCCGAAT
11332074 CGCTTCAGCCAACTAAACTTGTTCTACTGCATCCCAGTCGATGCAGCGGCCCGCAATTAAAGGTC
66 CGCTTCAGCCAACTAAACTTGTTCTACTGCATCCCAGTCGATGCAGCGGCCCGCAATTAAAGGTC
11332139 AGGCCCAGAGTATTTGGAATAGTTCTTCTTGGGGCCCGATGGGGAACCTCAGGAAAAGGTGACAA
131 AGGCCCAGAGTATTTGGAATAGTTCTTCTTGGGGCCCGATGGGGAACCTCAGGAAAAGGTGACAA
11332204 ACTTTCGCGGTAGGACTCGAGGAAGATGATGCTCCCTTCCTTTTCTTTGAAGCAGGGACAACGGC
196 ACTTTCGCGGTAGGACTCGAGGAAGATGATGCTCCCTTCCTTTTCTTTGAAGCAGGGACAACGGC
11332269 CTTTTTACCACGTGAAGATGACATGGTACCTGTGATTAGAATT
261 CTTTTTACCACGTGAAGATGACATGGTACCTGTGATTAGAATT
11332312 A
1 A
11332313 TCAAGTCATC
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
303 304 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (303 bp):
AGGTATGTTGGCTCGATGATCCCAAAGAACAGCTCCCAAGGGTCGGTGGTTAGGAAGGCCCGAAT
CGCTTCAGCCAACTAAACTTGTTCTACTGCATCCCAGTCGATGCAGCGGCCCGCAATTAAAGGTC
AGGCCCAGAGTATTTGGAATAGTTCTTCTTGGGGCCCGATGGGGAACCTCAGGAAAAGGTGACAA
ACTTTCGCGGTAGGACTCGAGGAAGATGATGCTCCCTTCCTTTTCTTTGAAGCAGGGACAACGGC
CTTTTTACCACGTGAAGATGACATGGTACCTGTGATTAGAATT
Found at i:11335377 original size:16 final size:16
Alignment explanation
Indices: 11335356--11335390 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11335346 CAGCAGCTGC
11335356 GTCAACCATTTGCCGA
1 GTCAACCATTTGCCGA
11335372 GTCAACCATTTGCCGA
1 GTCAACCATTTGCCGA
11335388 GTC
1 GTC
11335391 GAATTCAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (16 bp):
GTCAACCATTTGCCGA
Found at i:11339025 original size:30 final size:30
Alignment explanation
Indices: 11338991--11339051 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11338981 TCCTTAACTC
11338991 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
11339021 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
11339051 A
1 A
11339052 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:11353629 original size:26 final size:26
Alignment explanation
Indices: 11353599--11353649 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11353589 GTTGTTTTAG
*
11353599 ACCAAGAAAGATGTGGAATCGACCTA
1 ACCAAGAAAGACGTGGAATCGACCTA
11353625 ACCAAGAAAGACGTGGAATCGACCT
1 ACCAAGAAAGACGTGGAATCGACCT
11353650 TGATCGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (26 bp):
ACCAAGAAAGACGTGGAATCGACCTA
Found at i:11361613 original size:20 final size:20
Alignment explanation
Indices: 11361588--11361630 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11361578 TTGTGGTCAC
* *
11361588 ACACACCCGTATGGCTTGGG
1 ACACACCCATATGGCTTAGG
*
11361608 ACACACCCATGTGGCTTAGG
1 ACACACCCATATGGCTTAGG
11361628 ACA
1 ACA
11361631 TGCCCGTGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (20 bp):
ACACACCCATATGGCTTAGG
Found at i:11363432 original size:50 final size:50
Alignment explanation
Indices: 11363378--11363564 Score: 214
Period size: 50 Copynumber: 3.7 Consensus size: 50
11363368 CTGGTACGGA
* *
11363378 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
* * * * * * *
11363428 TAGTAGCCTGCACTTAGTACTAGACACGTGA-TTGAAGCTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCT-AA-CAATCTGGTACACG
* *
11363479 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
* * * *
11363529 TACTAGCCTACAATTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
11363565 AACTGTCTTA
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
49 1 0.01
50 70 0.63
51 39 0.35
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGGTACACG
Found at i:11363505 original size:101 final size:101
Alignment explanation
Indices: 11363360--11363559 Score: 319
Period size: 101 Copynumber: 2.0 Consensus size: 101
11363350 TCTTGTAACC
* * * * *
11363360 GAAGCTCTCTGGTACGGATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATTTGGTAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC
* * * *
11363425 ACGTAGTAGCCTGCACTTAGTACTAGACACGTGATT
66 ACGTACTAGCCTACAATTAGTACTACACACGTGATT
11363461 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC
11363526 ACGTACTAGCCTACAATTAGTACTACACACGTGA
66 ACGTACTAGCCTACAATTAGTACTACACACGTGA
11363560 CCTAAAACTG
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (101 bp):
GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGATAC
ACGTACTAGCCTACAATTAGTACTACACACGTGATT
Found at i:11386409 original size:147 final size:147
Alignment explanation
Indices: 11386142--11386440 Score: 589
Period size: 147 Copynumber: 2.0 Consensus size: 147
11386132 TGGGTTAAAT
11386142 CCTAAGTGCCTTTATCATCTCAGTATATCAAATCATACGTGTGATCTCGATATGTATGATCGAAG
1 CCTAAGTGCCTTTATCATCTCAGTATATCAAATCATACGTGTGATCTCGATATGTATGATCGAAG
11386207 CAAGTTCTAGAATAACAGTTCAATGTTGACACACTCAAACCACAAAAGAAGTGAGCAAGAAAGAA
66 CAAGTTCTAGAATAACAGTTCAATGTTGACACACTCAAACCACAAAAGAAGTGAGCAAGAAAGAA
11386272 AGCTATGTGCTCAAAAG
131 AGCTATGTGCTCAAAAG
*
11386289 CCTAAGTGCCTTTATCATCTCAGTATATCAAATCATACGTGTGATCTCGATATGTATGATCGATG
1 CCTAAGTGCCTTTATCATCTCAGTATATCAAATCATACGTGTGATCTCGATATGTATGATCGAAG
11386354 CAAGTTCTAGAATAACAGTTCAATGTTGACACACTCAAACCACAAAAGAAGTGAGCAAGAAAGAA
66 CAAGTTCTAGAATAACAGTTCAATGTTGACACACTCAAACCACAAAAGAAGTGAGCAAGAAAGAA
11386419 AGCTATGTGCTCAAAAG
131 AGCTATGTGCTCAAAAG
11386436 CCTAA
1 CCTAA
11386441 AAAATCTTAC
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 151 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (147 bp):
CCTAAGTGCCTTTATCATCTCAGTATATCAAATCATACGTGTGATCTCGATATGTATGATCGAAG
CAAGTTCTAGAATAACAGTTCAATGTTGACACACTCAAACCACAAAAGAAGTGAGCAAGAAAGAA
AGCTATGTGCTCAAAAG
Found at i:11387178 original size:6 final size:6
Alignment explanation
Indices: 11387164--11387222 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
11387154 ATTGAAACGT
* * *
11387164 AAATAA AAATCA AAAGAA AAATAA AAATAA AATAAAGA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATA-A AAATAA AAATAA
*
11387214 GAATAA AAA
1 AAATAA AAA
11387223 ATAGGAGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 36 0.84
7 4 0.09
8 3 0.07
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:11387202 original size:21 final size:21
Alignment explanation
Indices: 11387176--11387220 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 21
11387166 ATAAAAATCA
11387176 AAAGAAAAATAAAAATAA-AAT
1 AAAG-AAAATAAAAATAAGAAT
11387197 AAAGAAAATAAAAATAAGAAT
1 AAAGAAAATAAAAATAAGAAT
11387218 AAA
1 AAA
11387221 AAATAGGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAGAAAATAAAAATAAGAAT
Found at i:11407639 original size:47 final size:47
Alignment explanation
Indices: 11407561--11407846 Score: 500
Period size: 47 Copynumber: 6.1 Consensus size: 47
11407551 CCCTTCGGGA
* * * * * *
11407561 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
11407608 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11407655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11407702 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11407749 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11407796 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
11407843 CTTA
1 CTTA
11407847 CTATCATTTC
Statistics
Matches: 229, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:11417293 original size:37 final size:37
Alignment explanation
Indices: 11417243--11417322 Score: 151
Period size: 37 Copynumber: 2.2 Consensus size: 37
11417233 GTGACACGGA
11417243 TTTAGCCTGAACTAGTAATTTGTTGTCATTTTAAAGG
1 TTTAGCCTGAACTAGTAATTTGTTGTCATTTTAAAGG
*
11417280 TTTAGCCTGAACTAGTAATTTGTTGTCGTTTTAAAGG
1 TTTAGCCTGAACTAGTAATTTGTTGTCATTTTAAAGG
11417317 TTTAGC
1 TTTAGC
11417323 TTGGACTGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.44
Consensus pattern (37 bp):
TTTAGCCTGAACTAGTAATTTGTTGTCATTTTAAAGG
Found at i:11419748 original size:20 final size:20
Alignment explanation
Indices: 11419725--11419769 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
11419715 CAAAATAGTT
*
11419725 ACCTAGGTTTTATTTCAGTC
1 ACCTAGGTTTCATTTCAGTC
11419745 ACCTAGGTTTCATTTCAGTC
1 ACCTAGGTTTCATTTCAGTC
11419765 ACCTA
1 ACCTA
11419770 ACTTTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.40
Consensus pattern (20 bp):
ACCTAGGTTTCATTTCAGTC
Found at i:11419815 original size:19 final size:19
Alignment explanation
Indices: 11419784--11419829 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
11419774 TTGAAAAATA
*
11419784 ATAAAACAGTCACTAACGTT
1 ATAAAA-AGTCACTAACCTT
11419804 ATAAAAAGTCACTAACCTT
1 ATAAAAAGTCACTAACCTT
11419823 ATAAAAA
1 ATAAAAA
11419830 AGTGACAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (19 bp):
ATAAAAAGTCACTAACCTT
Found at i:11419985 original size:3 final size:3
Alignment explanation
Indices: 11419977--11420035 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
11419967 CATTTAACAG
11419977 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11420025 AGA AGA AGA AG
1 AGA AGA AGA AG
11420036 TAGCAGCAGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11421082 original size:21 final size:21
Alignment explanation
Indices: 11421043--11421083 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11421033 CAACGTGGCA
* *
11421043 AGTTAACTGGTCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
11421064 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
11421084 GGTTCTGTTA
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:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:11421202 original size:20 final size:20
Alignment explanation
Indices: 11421177--11421226 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
11421167 TTTCAAAAGT
11421177 TAGGTGACTAAAATGAAACC
1 TAGGTGACTAAAATGAAACC
* *
11421197 TAGGTGACTGAAATGAAACT
1 TAGGTGACTAAAATGAAACC
11421217 TAGGTGACTA
1 TAGGTGACTA
11421227 TTTTGTTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (20 bp):
TAGGTGACTAAAATGAAACC
Found at i:11425577 original size:25 final size:25
Alignment explanation
Indices: 11425549--11425608 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
11425539 CTATATAATA
*
11425549 GGAAGCTCAT-GTGAGCCATGTAACG
1 GGAAGCTCATAGAGAGCCAT-TAACG
* *
11425574 GGAAACTC-TAGAGAGCCATTAATG
1 GGAAGCTCATAGAGAGCCATTAACG
11425598 GGAAGCTCATA
1 GGAAGCTCATA
11425609 CGAGCCAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.41
25 17 0.59
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.20
Consensus pattern (25 bp):
GGAAGCTCATAGAGAGCCATTAACG
Found at i:11429512 original size:20 final size:20
Alignment explanation
Indices: 11429487--11429527 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11429477 TGTGATATGT
11429487 TGACACTACTAAGTCATAAA
1 TGACACTACTAAGTCATAAA
11429507 TGACACTACTAAGTCATAAA
1 TGACACTACTAAGTCATAAA
11429527 T
1 T
11429528 TAACGATGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (20 bp):
TGACACTACTAAGTCATAAA
Found at i:11442400 original size:44 final size:44
Alignment explanation
Indices: 11442351--11442441 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
11442341 CATTCATGAG
11442351 AGTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATA
1 AGTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATA
11442395 AGTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATA
1 AGTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATA
11442439 AGT
1 AGT
11442442 GTTAAAAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (44 bp):
AGTATGATCATGTTTTACTTTGTTTTTAATAATCGTTAAGTATA
Found at i:11452499 original size:25 final size:24
Alignment explanation
Indices: 11452471--11452547 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 24
11452461 TGATGAATGT
11452471 GAATGTGTATATATGAGATAAGGCC
1 GAATGTG-ATATATGAGATAAGGCC
* * * *
11452496 GAATG-G-CATATGTGATGAATG-T
1 GAATGTGATATATGAGAT-AAGGCC
*
11452518 GAATATGCATATATGAGATAAGGCC
1 GAATGTG-ATATATGAGATAAGGCC
11452543 GAATG
1 GAATG
11452548 GCCAATGTGA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
22 12 0.32
23 4 0.11
24 4 0.11
25 17 0.46
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.27
Consensus pattern (24 bp):
GAATGTGATATATGAGATAAGGCC
Found at i:11452511 original size:47 final size:47
Alignment explanation
Indices: 11452458--11452883 Score: 586
Period size: 47 Copynumber: 9.1 Consensus size: 47
11452448 TTAGGATTTT
** * *
11452458 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
11452504 TATGTGATGAATGTGAATATGCATATATGAGATAAGGCCGAATGGCCA
1 -ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
11452552 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
11452599 ATGTGATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *** *
11452646 ATGCGATGAATGTGAACATATGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
11452693 ATGTGATGAATGTGAACATGCGTATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
11452740 ATGTGATGAATGCGAACATGCATATATGTGATAAGGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
11452787 ATGTCATGAATGTGAACATGCATATATATGACAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
11452834 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCTGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
11452881 ATG
1 ATG
11452884 CGAAATGTGT
Statistics
Matches: 343, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
47 338 0.99
48 5 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:11452580 original size:25 final size:24
Alignment explanation
Indices: 11452503--11452630 Score: 65
Period size: 25 Copynumber: 5.4 Consensus size: 24
11452493 GCCGAATGGC
11452503 ATATGTGATGAATGTGAATATGCAT
1 ATATGTGATGAATGTGAA-ATGCAT
* * * *
11452528 ATATGAGAT-AAGGCCG-AATGGC-C
1 ATATGTGATGAATG-TGAAAT-GCAT
11452551 A-ATGTGATGAATGTGAACATGCAT
1 ATATGTGATGAATGTGAA-ATGCAT
* * *
11452575 ATATGTGAT-AAGGCCG-AATGGC-C
1 ATATGTGATGAATG-TGAAAT-GCAT
11452598 A-ATGTGATGAATGTGAACATGCAT
1 ATATGTGATGAATGTGAA-ATGCAT
*
11452622 ATACGTGAT
1 ATATGTGAT
11452631 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 15, Indels: 28
0.63 0.13 0.24
Matches are distributed among these distances:
22 15 0.20
23 18 0.24
24 18 0.24
25 23 0.31
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (24 bp):
ATATGTGATGAATGTGAAATGCAT
Found at i:11452605 original size:22 final size:22
Alignment explanation
Indices: 11452534--11452605 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
11452524 GCATATATGA
11452534 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
11452556 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
11452581 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
11452603 GAT
1 GAT
11452606 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:11452699 original size:22 final size:22
Alignment explanation
Indices: 11452672--11452790 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
11452662 CATATGTATG
11452672 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
11452694 TGTGATGAATG-TGAACAT-GCGTATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
11452719 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
11452741 TGTGATGAATG-CGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
11452766 TGTGATAAGGCCGAATGGTCAA
1 TGTGATAAGGCCGAATGGCCAA
11452788 TGT
1 TGT
11452791 CATGAATGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 28
0.65 0.10 0.25
Matches are distributed among these distances:
22 20 0.28
23 18 0.25
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:11452780 original size:25 final size:24
Alignment explanation
Indices: 11452706--11452780 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 24
11452696 TGATGAATGT
11452706 GAACATGCGTATATGTGATAAGGCC
1 GAACATGC-TATATGTGATAAGGCC
* *
11452731 G-A-ATGGCCA-ATGTGATGAATG-C
1 GAACAT-GCTATATGTGAT-AAGGCC
11452753 GAACATGCATATATGTGATAAGGCC
1 GAACATGC-TATATGTGATAAGGCC
11452778 GAA
1 GAA
11452781 TGGTCAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
22 9 0.23
23 9 0.23
24 9 0.23
25 12 0.31
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.23
Consensus pattern (24 bp):
GAACATGCTATATGTGATAAGGCC
Found at i:11452913 original size:46 final size:46
Alignment explanation
Indices: 11452857--11452993 Score: 195
Period size: 46 Copynumber: 3.0 Consensus size: 46
11452847 GGAAGTGTAT
* *
11452857 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
11452903 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
11452949 ATAT-ATGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGA-GGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
11452994 TGTATATATA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 81 0.99
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:11471365 original size:39 final size:40
Alignment explanation
Indices: 11471288--11471393 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 40
11471278 NNNNNNNNNN
*
11471288 TCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCT
* ** *
11471328 TCGGGACTTAGCCCGGA-TTAGTCACTAGTGCAGATGCCT
1 TCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCT
*
11471367 TCGGGACTTAGCCCGGGTTTAGTAACT
1 TCGGGACTTAGCCCGGATTTAGTAACT
11471394 TTATTCATAC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.26
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATTTAGTAACTAGCACAAATGCCT
Found at i:11491147 original size:23 final size:24
Alignment explanation
Indices: 11491115--11491159 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11491105 TGAAAACCCA
* *
11491115 TTTTTGTTTAAATAGCCAAATGCC
1 TTTTTGTTTAAAAAGCAAAATGCC
11491139 TTTTT-TTTAAAAAGCAAAATG
1 TTTTTGTTTAAAAAGCAAAATG
11491160 TCATTCTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (24 bp):
TTTTTGTTTAAAAAGCAAAATGCC
Found at i:11498459 original size:46 final size:48
Alignment explanation
Indices: 11498341--11498466 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 48
11498331 TGATATGTGT
* **
11498341 GCTAGTGTAAGACATGTTTGGGACATGCATCAACCTATTGATATTTAA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAACCTATTGAGATCAAA
* * * *
11498389 GCCAGTGTAAGACATGTTTAGGACATCCATCAA-C-GTTGAGA-CAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAACCTATTGAGATCAA-A
*
11498435 GCTAGTGTAAGACATGCTTGGGACATGCATCA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCA
11498467 GCCTCGCGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 1 0.02
46 34 0.52
47 1 0.02
48 30 0.45
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAACCTATTGAGATCAAA
Found at i:11502545 original size:41 final size:41
Alignment explanation
Indices: 11502487--11502617 Score: 201
Period size: 41 Copynumber: 3.2 Consensus size: 41
11502477 ACAACATTTC
*
11502487 CATTTGTTATCCTTTACGGATAAC-TCCTTTTTTGACCTTTT
1 CATTTGTTATCCTTTACGGATAACTTCC-TTTTTAACCTTTT
* *
11502528 CATTTGTTATCCATTACGAATAACTTCCTTTTTAACCTTTT
1 CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT
* *
11502569 CATTTGTTATCCTTTACGGATAACTTCCTTTTCAACCTTTC
1 CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT
11502610 CATTTGTT
1 CATTTGTT
11502618 CAAAAATACC
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 79 0.96
42 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.08, T:0.50
Consensus pattern (41 bp):
CATTTGTTATCCTTTACGGATAACTTCCTTTTTAACCTTTT
Found at i:11513738 original size:16 final size:17
Alignment explanation
Indices: 11513717--11513749 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
11513707 ATAACAATAA
11513717 TTTAATCAT-CAAAAAT
1 TTTAATCATCCAAAAAT
11513733 TTTAATCATCCAAAAAT
1 TTTAATCATCCAAAAAT
11513750 CATACATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAATCATCCAAAAAT
Found at i:11517567 original size:40 final size:41
Alignment explanation
Indices: 11517497--11517592 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
11517487 GACTATGTTC
11517497 GGCACTAAGTGTGC-AGTTCGAAATAACTTCGGCTACAA-A
1 GGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA
* * * *
11517536 TGGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGTTATAAGA
1 -GGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA
11517577 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
11517593 TACCGAGATA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (41 bp):
GGCACTAAGTGTGCGAGTTCGAAATAACTTCGGCTACAAGA
Found at i:11520675 original size:24 final size:23
Alignment explanation
Indices: 11520640--11520684 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
11520630 CTGTTACATA
11520640 GCTCTTTGTGAGCAATCCTGATAG
1 GCTCTTTGTGAGC-ATCCTGATAG
*
11520664 GCTCTTCT-TGAGCTTCCTGAT
1 GCTCTT-TGTGAGCATCCTGAT
11520685 TAAAAGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 11 0.58
25 1 0.05
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (23 bp):
GCTCTTTGTGAGCATCCTGATAG
Found at i:11534775 original size:45 final size:46
Alignment explanation
Indices: 11534738--11534836 Score: 116
Period size: 45 Copynumber: 2.2 Consensus size: 46
11534728 TTTTTATAAA
11534738 AAAATTT-A-ATTTTTAAT-AAATTTTAATTTTTATA-TTTTTACT
1 AAAATTTAATATTTTTAATAAAATTTTAATTTTTATATTTTTTACT
** * *
11534780 AAAATTTAATATTTTTTCTAAAATTTTTATTTTTATATTTTTTTCT
1 AAAATTTAATATTTTTAATAAAATTTTAATTTTTATATTTTTTACT
**
11534826 AATTTTTAATA
1 AAAATTTAATA
11534837 AAAGCAGGGG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.15
43 1 0.02
44 7 0.15
45 16 0.34
46 16 0.34
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (46 bp):
AAAATTTAATATTTTTAATAAAATTTTAATTTTTATATTTTTTACT
Found at i:11534782 original size:25 final size:25
Alignment explanation
Indices: 11534742--11534835 Score: 76
Period size: 25 Copynumber: 4.0 Consensus size: 25
11534732 TATAAAAAAA
*
11534742 TTTA-ATTTTTAATAAATTTTAATT
1 TTTATATTTTTACTAAATTTTAATT
*
11534766 TTTATATTTTTACTAAAATTTAA--
1 TTTATATTTTTACTAAATTTTAATT
*
11534789 --TAT-TTTTT-CTAAAATTTTTATT
1 TTTATATTTTTACT-AAATTTTAATT
* *
11534811 TTTATATTTTTTTCTAATTTTTAAT
1 TTTATA-TTTTTACTAAATTTTAAT
11534836 AAAAGCAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
19 2 0.04
20 12 0.22
21 3 0.05
24 7 0.13
25 16 0.29
26 13 0.24
27 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTATATTTTTACTAAATTTTAATT
Found at i:11534793 original size:19 final size:18
Alignment explanation
Indices: 11534766--11534814 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
11534756 AATTTTAATT
11534766 TTTATATTTTTACTAAAA
1 TTTATATTTTTACTAAAA
*
11534784 TTTAATATTTTTTCTAAAA
1 TTT-ATATTTTTACTAAAA
*
11534803 TTTTTATTTTTA
1 TTTATATTTTTA
11534815 TATTTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTATATTTTTACTAAAA
Found at i:11535993 original size:41 final size:41
Alignment explanation
Indices: 11535919--11535999 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
11535909 GACTTAGTTT
* * *
11535919 ATTTAGTGGGTAAAAATTATGTTTTTGCCGTGAAGAATATA
1 ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATATA
* *
11535960 ATTTGGTGGGTAAAAATTATGTTTCTATAGTGAAGAATAT
1 ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATAT
11536000 GAGAAGAGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (41 bp):
ATTTAGTGGGTAAAAATTATGTTTCTACAGTGAAGAATATA
Found at i:11540263 original size:7 final size:7
Alignment explanation
Indices: 11540251--11540277 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11540241 AAATGTAAGG
11540251 TTTTTTC
1 TTTTTTC
11540258 TTTTTTC
1 TTTTTTC
11540265 TTTTTTC
1 TTTTTTC
11540272 TTTTTT
1 TTTTTT
11540278 AAATGGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:11540701 original size:14 final size:15
Alignment explanation
Indices: 11540682--11540838 Score: 76
Period size: 14 Copynumber: 10.5 Consensus size: 15
11540672 CGTATATGTG
11540682 GATTCATAGTA-GAA
1 GATTCATAGTATGAA
*
11540696 GATTCATAGATATTACA
1 GATTCATAG-TATGA-A
* * **
11540713 GACTCATA-CATGTG
1 GATTCATAGTATGAA
*
11540727 GATTCATAG-AAGAA
1 GATTCATAGTATGAA
*
11540741 GATTAATAGATATGACA
1 GATTCATAG-TATGA-A
* **
11540758 GATTCATA-CATGCG
1 GATTCATAGTATGAA
*
11540772 GATTCATAG-AAGAA
1 GATTCATAGTATGAA
*
11540786 GATTAATAGATATGGAA
1 GATTCATAG-TAT-GAA
* *
11540803 GATTCATA-CATGCA
1 GATTCATAGTATGAA
*
11540817 GATTCATAG-AAGAA
1 GATTCATAGTATGAA
11540831 GATTCATA
1 GATTCATA
11540839 AATATGGTGG
Statistics
Matches: 105, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
14 65 0.62
15 9 0.09
16 5 0.05
17 26 0.25
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (15 bp):
GATTCATAGTATGAA
Found at i:11540857 original size:45 final size:45
Alignment explanation
Indices: 11540599--11540857 Score: 263
Period size: 45 Copynumber: 5.8 Consensus size: 45
11540589 GCAAACTTGA
* *
11540599 AGAAGAAGATTCATAGATATGGT-GAACTTATACATGCGGTTTCAT
1 AGAAGAAGATTCATAGATATGGTAG-ACTCATACATGCGGATTCAT
* * * * *
11540644 GGTAGAAGATTCAT-GAATATGGT-GAACTCGTATATGTGGATTCAT
1 AGAAGAAGATTCATAG-ATATGGTAG-ACTCATACATGCGGATTCAT
* *** *
11540689 AGTAGAAGATTCATAGATATTACAGACTCATACATGTGGATTCAT
1 AGAAGAAGATTCATAGATATGGTAGACTCATACATGCGGATTCAT
* ** *
11540734 AGAAGAAGATTAATAGATATGACAGATTCATACATGCGGATTCAT
1 AGAAGAAGATTCATAGATATGGTAGACTCATACATGCGGATTCAT
* * * *
11540779 AGAAGAAGATTAATAGATATGGAAGATTCATACATGCAGATTCAT
1 AGAAGAAGATTCATAGATATGGTAGACTCATACATGCGGATTCAT
* * *
11540824 AGAAGAAGATTCATAAATATGGTGGACTAATACA
1 AGAAGAAGATTCATAGATATGGTAGACTCATACA
11540858 AGCGAACTGT
Statistics
Matches: 184, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.01
45 181 0.98
46 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
AGAAGAAGATTCATAGATATGGTAGACTCATACATGCGGATTCAT
Found at i:11548693 original size:20 final size:20
Alignment explanation
Indices: 11548670--11548708 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11548660 TTTACTCTGA
11548670 TTTAA-TATAATATATATTTT
1 TTTAATTATAATAT-TATTTT
11548690 TTTAATTTATAATATTATT
1 TTTAA-TTATAATATTATT
11548709 AGTAACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTAATTATAATATTATTTT
Found at i:11554301 original size:19 final size:20
Alignment explanation
Indices: 11554273--11554312 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
11554263 CAATAAATGA
*
11554273 ATACATATGTAT-AAATAAT
1 ATACACATGTATAAAATAAT
11554292 ATACACATGTATAAAATAAT
1 ATACACATGTATAAAATAAT
11554312 A
1 A
11554313 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATACACATGTATAAAATAAT
Found at i:11554360 original size:14 final size:13
Alignment explanation
Indices: 11554337--11554370 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11554327 AAAATTTAAG
11554337 TAAT-ATATATTA
1 TAATAATATATTA
11554349 TATATAATATATTA
1 TA-ATAATATATTA
11554363 TAATAATA
1 TAATAATA
11554371 AAGTAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 8 0.40
14 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATAATATATTA
Found at i:11554424 original size:25 final size:25
Alignment explanation
Indices: 11554374--11554425 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11554364 AATAATAAAG
*
11554374 TAAATAAAAGAATAAACAAAGTAAA
1 TAAATAAAAGAATAAACAAAGAAAA
*
11554399 TAAATAAAAGAA-AAAGAATAGAAAA
1 TAAATAAAAGAATAAACAA-AGAAAA
11554424 TA
1 TA
11554426 GAAAGAAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (25 bp):
TAAATAAAAGAATAAACAAAGAAAA
Found at i:11559980 original size:41 final size:40
Alignment explanation
Indices: 11559932--11560018 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
11559922 TCAAATACAT
*
11559932 TTAAAACAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * * *
11559973 TTAAAACAATTCTTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
11560013 ATAAAA
1 TTAAAA
11560019 AGTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.66, C:0.08, G:0.01, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:11560069 original size:28 final size:27
Alignment explanation
Indices: 11560001--11560074 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
11559991 CAATACACAA
* * * *
11560001 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAATGTAAATAT
* *
11560028 ACTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAATGTAAATAT
11560056 GATTAAAAATAAAA-AAAAT
1 -ATTAAAAATAAAATAAAAT
11560075 ATATTTAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 12 0.32
28 18 0.49
29 7 0.19
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.28
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAATGTAAATAT
Found at i:11560078 original size:23 final size:23
Alignment explanation
Indices: 11560034--11560078 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11560024 TTATACTAAA
**
11560034 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATAAAAATATG
11560057 ATTAAAAATAAAA-AAAATATAT
1 ATTAAAAATAAAATAAAA-ATAT
11560079 TTAGTACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Found at i:11567641 original size:21 final size:21
Alignment explanation
Indices: 11567612--11567653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11567602 TGTGAAACAA
11567612 TGTGATCTGAACTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
* **
11567633 TGTGGTCTGAGTTCATGAGAT
1 TGTGATCTGAACTCATGAGAT
11567654 AAGTGATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTGATCTGAACTCATGAGAT
Found at i:11574219 original size:43 final size:43
Alignment explanation
Indices: 11574169--11574318 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 43
11574159 ATTACCGAGA
*
11574169 TGTGATTACATGTAAGACCATGTTTGGGACATTAGCATTGTAT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
** *
11574212 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCAT--TGTAT
* * * * * *
11574255 TATGATTTCTTGTAAGACCCTGTTTGGGATAGTGGCATTG-AT
1 TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
* *
11574297 ATGTGATAACATGTAAGTCCAT
1 -TGTGATTACATGTAAGACCAT
11574319 ATCCAGGATA
Statistics
Matches: 84, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
41 2 0.02
43 79 0.94
44 2 0.02
45 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
Found at i:11592705 original size:94 final size:94
Alignment explanation
Indices: 11592544--11592754 Score: 397
Period size: 94 Copynumber: 2.2 Consensus size: 94
11592534 GCATTGTTGG
*
11592544 GATTA-CCAGTCCAGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTG
1 GATTACCCA-TCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTG
11592608 CCAGTCCAGGCTAAATTCAGTCCTCAATCA
65 CCAGTCCAGGCTAAATTCAGTCCTCAATCA
11592638 GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
1 GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
11592703 CAGTCCAGGCTAAATTCAGTCCTCAATCA
66 CAGTCCAGGCTAAATTCAGTCCTCAATCA
11592732 GATTACCCATCCGGGCTAAATCC
1 GATTACCCATCCGGGCTAAATCC
11592755 TAATTGCACC
Statistics
Matches: 115, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 112 0.97
95 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (94 bp):
GATTACCCATCCGGGCTAAATCCCTTTTAACGACAATTGCTCTCATGAGCTTGGATCTGAATTGC
CAGTCCAGGCTAAATTCAGTCCTCAATCA
Found at i:11598284 original size:37 final size:37
Alignment explanation
Indices: 11598234--11598306 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
11598224 CATGAAAATA
11598234 CTTTCAAAAACTAAGTCGTTGATAAGCCATTTTGTTG
1 CTTTCAAAAACTAAGTCGTTGATAAGCCATTTTGTTG
*
11598271 CTTTCGAAAACTAAGTCGTTGATAAGCCATTTTGTT
1 CTTTCAAAAACTAAGTCGTTGATAAGCCATTTTGTT
11598307 ATCTTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (37 bp):
CTTTCAAAAACTAAGTCGTTGATAAGCCATTTTGTTG
Found at i:11608865 original size:112 final size:112
Alignment explanation
Indices: 11608668--11608888 Score: 415
Period size: 112 Copynumber: 2.0 Consensus size: 112
11608658 CTCAAGTATC
11608668 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAACCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAACCT
*
11608733 CACTCGTTGATTTAAAATCGTAATTTTGACATATTTTGTAAAATGTA
66 CACTCGTTGATTTAAAATCGTAATTTTGACATATCTTGTAAAATGTA
* *
11608780 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAATATAGCTAAATCT
1 AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAACCT
11608845 CACTCGTTGATTTAAAATCGTAATTTTGACATATCTTGTAAAAT
66 CACTCGTTGATTTAAAATCGTAATTTTGACATATCTTGTAAAAT
11608889 ATCAATTAAA
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (112 bp):
AAATGTTTATAGAAAACATCATGTTTCAAGAAAATGTCACAGCAAAAAATAACATAGCTAAACCT
CACTCGTTGATTTAAAATCGTAATTTTGACATATCTTGTAAAATGTA
Found at i:11611031 original size:35 final size:35
Alignment explanation
Indices: 11610982--11611076 Score: 127
Period size: 35 Copynumber: 2.7 Consensus size: 35
11610972 AATTTCAGCA
* * * *
11610982 GGCATGCTTTACATGCGAATCAAAACCAGTATAGT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
* *
11611017 GGCATGCTTAACATGTGAATCAGAATCAATATAAT
1 GGCATGCTTAACATGTGAATCAAAACCAATATAAT
*
11611052 GGCGTGCTTAACATGTGAATCAAAA
1 GGCATGCTTAACATGTGAATCAAAA
11611077 TATCAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (35 bp):
GGCATGCTTAACATGTGAATCAAAACCAATATAAT
Found at i:11614027 original size:22 final size:22
Alignment explanation
Indices: 11614002--11614048 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11613992 CATTATCCAT
*
11614002 AATAATAATAATAAACAAATAA
1 AATAATAATAATAAACAAACAA
* *
11614024 AATAATAATGATAACCAAACAA
1 AATAATAATAATAAACAAACAA
11614046 AAT
1 AAT
11614049 TCTAATCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.09, G:0.02, T:0.21
Consensus pattern (22 bp):
AATAATAATAATAAACAAACAA
Found at i:11617416 original size:21 final size:21
Alignment explanation
Indices: 11617392--11617468 Score: 82
Period size: 21 Copynumber: 3.4 Consensus size: 21
11617382 TTTTTTCTTT
11617392 TTTTCCATATTTGATTCTCTA
1 TTTTCCATATTTGATTCTCTA
* * *
11617413 TTTTTCATATATGTTATTCTCTT
1 TTTTCCATAT-T-TGATTCTCTA
11617436 TCATTTCCTATATTTGATTCTCTA
1 T--TTTCC-ATATTTGATTCTCTA
11617460 TTTTCCATA
1 TTTTCCATA
11617469 AAATATTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
21 12 0.27
22 6 0.13
23 9 0.20
24 9 0.20
25 5 0.11
26 4 0.09
ACGTcount: A:0.19, C:0.18, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTTCCATATTTGATTCTCTA
Found at i:11617417 original size:23 final size:23
Alignment explanation
Indices: 11617390--11617463 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 23
11617380 TTTTTTTTCT
11617390 TTTTTTCCATATTTGATTCTCTA
1 TTTTTTCCATATTTGATTCTCTA
*
11617413 -TTTTT-CATATATGTTATTCTCT-
1 TTTTTTCCATAT-T-TGATTCTCTA
*
11617435 TTCATTTCCTATATTTGATTCTCTA
1 TT-TTTTCC-ATATTTGATTCTCTA
11617460 TTTT
1 TTTT
11617464 CCATAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
21 5 0.12
22 6 0.15
23 9 0.22
24 12 0.30
25 4 0.10
26 4 0.10
ACGTcount: A:0.18, C:0.16, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTTCCATATTTGATTCTCTA
Found at i:11620345 original size:30 final size:30
Alignment explanation
Indices: 11620311--11620370 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
11620301 ATAGGTGGGT
11620311 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
*
11620341 AAGTTTAAAGAATTGATTTTTTATTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
11620371 CCTTGTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (30 bp):
AAGTTTAAAGAATTGATTTTTTAGTCAAAC
Found at i:11627085 original size:29 final size:29
Alignment explanation
Indices: 11627052--11627109 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11627042 TTTTAATACT
11627052 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
11627081 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
11627110 GTAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
AGAACTCATTCATTACTTTATCATCAAAC
Found at i:11632184 original size:67 final size:67
Alignment explanation
Indices: 11632111--11632240 Score: 183
Period size: 67 Copynumber: 1.9 Consensus size: 67
11632101 TCCTTTTCAA
* * *
11632111 AGAGCACACT-CTCGCAAACCTCATTTCTTACAGC-AGGATTACTAGTCAAGGCTAAATCCCCTG
1 AGAGCACACTCCT-GCAAACATCATTTCTTACAACGA-GATTACCAGTCAAGGCTAAATCCCCTG
11632174 TAAG
64 TAAG
* *
11632178 AGAGCACACTCCTGCAAACATTATTTCTTACAACGAGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGCACACTCCTGCAAACATCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTG
11632241 CAATGACAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 53 0.95
68 3 0.05
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (67 bp):
AGAGCACACTCCTGCAAACATCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTGTA
AG
Found at i:11632455 original size:58 final size:58
Alignment explanation
Indices: 11632312--11632448 Score: 204
Period size: 58 Copynumber: 2.4 Consensus size: 58
11632302 CATTTACTTT
* *
11632312 AGATCACCCGTCCGGGCTAAATCCATTTCACACATATTCTTCAGGAGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGGAGGGCTTATATCA
* * *
11632370 GGATCACCCGTTCGGGTTAGATCCTTTTCACACATATTCTTC-GGAAGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGG-AGGGCTTATATCA
*
11632428 AGATCACCCGTCCGAGCTAGA
1 AGATCACCCGTCCGGGCTAGA
11632449 CTCTTTTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.03
58 67 0.97
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (58 bp):
AGATCACCCGTCCGGGCTAGATCCTTTTCACACATATTCTTCAGGAGGGCTTATATCA
Found at i:11635567 original size:30 final size:30
Alignment explanation
Indices: 11635531--11635595 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
11635521 GGTTGGTGAA
*
11635531 TTTTTTGA-AGCAAAGAGAGTTGCTGAAATT
1 TTTTTTGATAG-AAAGAGAGTTGCTGAAATG
*
11635561 TTTTTTGATTGAAAGAGAGTTGCTGAAATG
1 TTTTTTGATAGAAAGAGAGTTGCTGAAATG
11635591 TTTTT
1 TTTTT
11635596 GAATGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (30 bp):
TTTTTTGATAGAAAGAGAGTTGCTGAAATG
Found at i:11635646 original size:28 final size:28
Alignment explanation
Indices: 11635529--11635650 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 28
11635519 AGGGTTGGTG
*
11635529 AATTTTTTGAA-GCAAAGAGAGTTGCTGA
1 AATTTTTTGAATG-AAAGAGAGTTGATGA
* *
11635557 AATTTTTTTTGATTGAAAGAGAGTTGCTGA
1 AA--TTTTTTGAATGAAAGAGAGTTGATGA
* * *
11635587 AATGTTTTTGAATGAAATAG-GATTCATCA
1 AAT-TTTTTGAATGAAAGAGAG-TTGATGA
* * *
11635616 AATTTTTTGAACGAAATAGAGTTAATGA
1 AATTTTTTGAATGAAAGAGAGTTGATGA
11635644 AATTTTT
1 AATTTTT
11635651 AAAGGATATT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
28 31 0.39
29 22 0.28
30 25 0.32
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (28 bp):
AATTTTTTGAATGAAAGAGAGTTGATGA
Found at i:11638008 original size:24 final size:22
Alignment explanation
Indices: 11637981--11638049 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 22
11637971 TAAAACATAT
*
11637981 AAAGAAAGAAAGAAATAGAAATA
1 AAAGAAAGAAAGAAA-AGAAAGA
*
11638004 GAAAGAACA-AACGAAAAAGAAAGA
1 -AAAGAA-AGAAAG-AAAAGAAAGA
11638028 AATAGAAAGGAAAGAAAAGAAA
1 AA-AGAAA-GAAAGAAAAGAAA
11638050 AAGGGAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 3 0.08
24 27 0.73
25 7 0.19
ACGTcount: A:0.72, C:0.03, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAAGAAAGA
Found at i:11638769 original size:24 final size:26
Alignment explanation
Indices: 11638715--11638772 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
11638705 GTGTTTTGCA
11638715 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
11638741 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
11638764 ATTGAATTG
1 ATTGAATTG
11638773 ATATATATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:11638980 original size:41 final size:38
Alignment explanation
Indices: 11638919--11639055 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 38
11638909 CTTCGATTCA
* * *
11638919 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTCG
1 ATGAGACACTAGGTGCCAA-TTA-TACTTCGAATT-ATCCG
* *
11638960 ATGAGACACTAGGTGCCAATT-TACTTCGATTTAGCCG
1 ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
* * *
11638997 ATAAGACACTGGGTGTCAGATTATTACTTCGAATTATCCG
1 ATGAGACACTAGGTGCCA-ATTA-TACTTCGAATTATCCG
*
11639037 ATGAGGCACTAGGTGCCAA
1 ATGAGACACTAGGTGCCAA
11639056 ACTGGTGTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
37 18 0.23
38 13 0.16
39 1 0.01
40 30 0.38
41 17 0.22
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (38 bp):
ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
Found at i:11642757 original size:23 final size:23
Alignment explanation
Indices: 11642731--11642780 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11642721 CCATGTACAG
*
11642731 ATATCATCATCTCAT-ATTTCCAT
1 ATATCAT-ATATCATCATTTCCAT
*
11642754 ATATCATATATCATCATTTTCAT
1 ATATCATATATCATCATTTCCAT
11642777 ATAT
1 ATAT
11642781 TTCAAGCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATCATATATCATCATTTCCAT
Found at i:11650884 original size:10 final size:9
Alignment explanation
Indices: 11650863--11650926 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
11650853 TAAAACAAAT
11650863 AAAG-AAAG
1 AAAGAAAAG
11650871 AAAGAAATAG
1 AAAGAAA-AG
11650881 AAAGAAAA-
1 AAAGAAAAG
*
11650889 AACGAAAAAG
1 AAAG-AAAAG
*
11650899 AAAGGAACAG
1 AAA-GAAAAG
*
11650909 AAAGGAAAG
1 AAAGAAAAG
11650918 AAAAGAAAA
1 -AAAGAAAA
11650927 ATGGAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.16
9 11 0.25
10 25 0.57
11 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:11650884 original size:14 final size:13
Alignment explanation
Indices: 11650863--11650925 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
11650853 TAAAACAAAT
11650863 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
11650876 AATAGAAAGAAA-A
1 AA-AGAAAGAAAGA
*
11650889 AACGAAAAAGAAAGGA
1 AA--AGAAAGAAA-GA
*
11650905 ACAGAAAGGAAAGA
1 AAAGAAA-GAAAGA
11650919 AAAGAAA
1 AAAGAAA
11650926 AATGGAAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.12
14 29 0.73
15 4 0.10
16 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:11650917 original size:33 final size:33
Alignment explanation
Indices: 11650854--11650921 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
11650844 ATATTATAAT
11650854 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
1 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
* *
11650887 AAAACGAA-AAAGAAAGGAACAGAAA-GGAAAGAA
1 AAAACAAATAAAGAAA-GAA-AGAAATAGAAAGAA
11650920 AA
1 AA
11650922 GAAAAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.23
33 19 0.61
34 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (33 bp):
AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
Found at i:11651633 original size:24 final size:26
Alignment explanation
Indices: 11651579--11651636 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
11651569 GTGTTTTGCA
11651579 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
11651605 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
11651628 ATTGAATTG
1 ATTGAATTG
11651637 ATATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:11654856 original size:27 final size:27
Alignment explanation
Indices: 11654833--11654888 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
11654823 AATATATTTA
* * *
11654833 TATTTTCATTATATTTTATGATATGTT
1 TATTTTAAATATATTTTATAATATGTT
* *
11654860 TATTTTAAATGTATTTTATAATATATT
1 TATTTTAAATATATTTTATAATATGTT
11654887 TA
1 TA
11654889 AAATAAGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTAAATATATTTTATAATATGTT
Found at i:11664967 original size:13 final size:13
Alignment explanation
Indices: 11664949--11665014 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
11664939 AGTTTAGCAT
*
11664949 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
11664962 TGCTTTTAAAAAA
1 TGCTTTTGAAAAG
* *
11664975 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* * *
11664988 TGATTTAGAGAAG
1 TGCTTTTGAAAAG
*
11665001 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
11665014 T
1 T
11665015 TTGGTTTAAG
Statistics
Matches: 38, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:11670915 original size:18 final size:16
Alignment explanation
Indices: 11670877--11670909 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11670867 AGGTCCTTTG
11670877 TGAAGTTCCAGAATCA
1 TGAAGTTCCAGAATCA
11670893 TGAAGTTCCAGAATCA
1 TGAAGTTCCAGAATCA
11670909 T
1 T
11670910 ATGAAGCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (16 bp):
TGAAGTTCCAGAATCA
Found at i:11671433 original size:32 final size:32
Alignment explanation
Indices: 11671392--11671456 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
11671382 TATGAGTGGG
11671392 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
1 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
11671424 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
1 TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
11671456 T
1 T
11671457 CTGACTTAGT
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:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (32 bp):
TTGTAACCAAGAAGGCTGGAAGGTCATCAGAA
Found at i:11675318 original size:15 final size:16
Alignment explanation
Indices: 11675286--11675318 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11675276 AAATTTGCAC
11675286 TTGGAAGGGTTAAAGG
1 TTGGAAGGGTTAAAGG
11675302 TTGGAAGGGTT-AAGG
1 TTGGAAGGGTTAAAGG
11675317 TT
1 TT
11675319 CCCTATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (16 bp):
TTGGAAGGGTTAAAGG
Found at i:11677152 original size:6 final size:6
Alignment explanation
Indices: 11677143--11677173 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
11677133 TCTAAATGCT
11677143 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA A
11677174 AACATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:11680146 original size:18 final size:18
Alignment explanation
Indices: 11680125--11680161 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11680115 CCGTCCCCGA
11680125 CCACCTCCACCTCCGCCT
1 CCACCTCCACCTCCGCCT
* *
11680143 CCACGTCCACCTCTGCCT
1 CCACCTCCACCTCCGCCT
11680161 C
1 C
11680162 TAGAATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.62, G:0.08, T:0.19
Consensus pattern (18 bp):
CCACCTCCACCTCCGCCT
Found at i:11681720 original size:22 final size:20
Alignment explanation
Indices: 11681695--11681736 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
11681685 GATGCATGGG
*
11681695 TTAGTTATTTAATATATATTTT
1 TTAGTTAATTAA-A-ATATTTT
11681717 TTAGTTAATTAAAATATTTT
1 TTAGTTAATTAAAATATTTT
11681737 AAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAGTTAATTAAAATATTTT
Found at i:11682646 original size:60 final size:60
Alignment explanation
Indices: 11682565--11682704 Score: 280
Period size: 60 Copynumber: 2.3 Consensus size: 60
11682555 ATTTAGGGGT
11682565 TTAGGGTTAATTCATTAAATTAACTATAATTTTAAATACTAAATACTAAATTAGAGTGTA
1 TTAGGGTTAATTCATTAAATTAACTATAATTTTAAATACTAAATACTAAATTAGAGTGTA
11682625 TTAGGGTTAATTCATTAAATTAACTATAATTTTAAATACTAAATACTAAATTAGAGTGTA
1 TTAGGGTTAATTCATTAAATTAACTATAATTTTAAATACTAAATACTAAATTAGAGTGTA
11682685 TTAGGGTTAATTCATTAAAT
1 TTAGGGTTAATTCATTAAAT
11682705 CAGGGATTAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 80 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (60 bp):
TTAGGGTTAATTCATTAAATTAACTATAATTTTAAATACTAAATACTAAATTAGAGTGTA
Done.