Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 114 of 206
Found at i:34053562 original size:21 final size:21
Alignment explanation
Indices: 34053538--34053593 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
34053528 AACAACAGTG
* *
34053538 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTATA
*
34053559 GCGGTGAGATTGGATACTATA
1 GCGGTGAGATTAGATACTATA
*
34053580 GGGGTGAGATTAGA
1 GCGGTGAGATTAGA
34053594 AATAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:34053930 original size:17 final size:18
Alignment explanation
Indices: 34053897--34053930 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34053887 TTTATAAATA
*
34053897 AAAATTATAATTCTATTG
1 AAAATTATAATTATATTG
34053915 AAAATTA-AATTATATT
1 AAAATTATAATTATATT
34053931 AAATAATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AAAATTATAATTATATTG
Found at i:34057532 original size:31 final size:31
Alignment explanation
Indices: 34057497--34057597 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
34057487 AATTTAGGTT
* *
34057497 TTGAATTTGACAATTGTTTCCACATTGGTAC
1 TTGAACTTGACAATTGTTTCCACATTGGTGC
*
34057528 TTGAACTTGACAACT-TTTCTCACATTAGG-GC
1 TTGAACTTGACAATTGTTTC-CACATT-GGTGC
* *
34057559 CTAAACTTGACAATTGTTTCCACATTGGTGC
1 TTGAACTTGACAATTGTTTCCACATTGGTGC
34057590 TTGAACTT
1 TTGAACTT
34057598 TTGGGTTTTC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
30 6 0.10
31 46 0.79
32 6 0.10
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (31 bp):
TTGAACTTGACAATTGTTTCCACATTGGTGC
Found at i:34058160 original size:37 final size:37
Alignment explanation
Indices: 34058113--34058183 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
34058103 AGTATTACTT
*
34058113 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAATTTATTAAATTAAAATAGAGTTATTAAATGAG
34058150 AATAATTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAATTTATTAAATTAAAATAGAGTTATTAAAT
34058184 AAAAAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (37 bp):
AATAATTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:34058188 original size:19 final size:19
Alignment explanation
Indices: 34058119--34058187 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
34058109 ACTTAATAGT
34058119 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
34058138 TTATTAAATGAGAATA-AT
1 TTATTAAATTAAAATAGAG
34058156 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
34058175 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
34058188 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:34058340 original size:27 final size:26
Alignment explanation
Indices: 34058263--34058348 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 26
34058253 TTTTTTTTCC
*
34058263 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
34058288 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
*
34058316 TTTGGCACCTTTGGTGCCGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
34058343 ATTGGC
1 TTTGGC
34058349 TGGTGTCAGG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.17
27 41 0.79
28 2 0.04
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:34058461 original size:29 final size:27
Alignment explanation
Indices: 34058386--34058482 Score: 151
Period size: 27 Copynumber: 3.5 Consensus size: 27
34058376 TTTTTTTTAT
34058386 ATATTTTGGTAAATAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAGTTGTA
34058412 TATATTTTGGTAAATAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAAAAAAAGTTGTA
34058440 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAAT--AAAAAAAGTTGTA
*
34058469 ATATTTTAGTAAAT
1 ATATTTTGGTAAAT
34058483 TTTTATTTTT
Statistics
Matches: 66, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
27 38 0.58
28 2 0.03
29 26 0.39
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTGTA
Found at i:34062896 original size:40 final size:40
Alignment explanation
Indices: 34062816--34062944 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
34062806 AAACAAGCTT
* * * *
34062816 TTAGCGGCGTTTTGACAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGCTTT-ACATAAAACGCCGCTAAAAATTGAGCA
* * *
34062857 TTAGCGGCGCTTTACGTAAAATGCCGCTAAAGATTGAGCA
1 TTAGCGGCGCTTTACATAAAACGCCGCTAAAAATTGAGCA
* *
34062897 TTAGCGGCGCTTT-CCTGGAAACGCCGCTAAAAATT-AGCA
1 TTAGCGGCGCTTTACAT-AAAACGCCGCTAAAAATTGAGCA
34062936 TTAGCGGCG
1 TTAGCGGCG
34062945 TTTTTTGGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 15 0.20
40 49 0.64
41 12 0.16
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (40 bp):
TTAGCGGCGCTTTACATAAAACGCCGCTAAAAATTGAGCA
Found at i:34062968 original size:39 final size:41
Alignment explanation
Indices: 34062816--34062968 Score: 138
Period size: 40 Copynumber: 3.8 Consensus size: 41
34062806 AAACAAGCTT
** * * *
34062816 TTAGCGGCGTTTTGA-CAAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGTTTT-ATGGAAAATCGCCGCTAAAAATTGAGCA
* * * *
34062857 TTAGCGGCGCTTTACGTAAAAT-GCCGCTAAAGATTGAGCA
1 TTAGCGGCGTTTTATGGAAAATCGCCGCTAAAAATTGAGCA
**
34062897 TTAGCGGCGCTTTCCTGG-AAA-CGCCGCTAAAAATT-AGCA
1 TTAGCGGCG-TTTTATGGAAAATCGCCGCTAAAAATTGAGCA
*
34062936 TTAGCGGCGTTTTTTGGAAAATCGCCGC-AAAAA
1 TTAGCGGCGTTTTATGGAAAATCGCCGCTAAAAA
34062969 GTCTAAGCAA
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
38 6 0.07
39 21 0.23
40 46 0.50
41 19 0.21
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (41 bp):
TTAGCGGCGTTTTATGGAAAATCGCCGCTAAAAATTGAGCA
Found at i:34062986 original size:25 final size:25
Alignment explanation
Indices: 34062953--34063026 Score: 139
Period size: 25 Copynumber: 3.0 Consensus size: 25
34062943 CGTTTTTTGG
*
34062953 AAAATCGCCGCAAAAAGTCTAAGCA
1 AAAAACGCCGCAAAAAGTCTAAGCA
34062978 AAAAACGCCGCAAAAAGTCTAAGCA
1 AAAAACGCCGCAAAAAGTCTAAGCA
34063003 AAAAACGCCGCAAAAAGTCTAAGC
1 AAAAACGCCGCAAAAAGTCTAAGC
34063027 CCAACGACAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.09
Consensus pattern (25 bp):
AAAAACGCCGCAAAAAGTCTAAGCA
Found at i:34063277 original size:41 final size:41
Alignment explanation
Indices: 34063040--34063276 Score: 370
Period size: 41 Copynumber: 5.8 Consensus size: 41
34063030 ACGACATCGT
* *
34063040 TCAGATCTTTAGCGGCGTTTTTAAAAAAAGCGACGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTT-GAGAAAGCGACGCTAATGC
34063082 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGC
*
34063123 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGACGTTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGC
*
34063164 TCAGATCTTTAGCAGCGTTTTTGAGAAAGCG-CTGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGAC-GCTAATGC
*
34063205 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCG-CAGTTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGAC-GCTAATGC
* *
34063246 ACAGATCTTTAGCGGCGTTTTTGAAAAAGCG
1 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCG
34063277 CCGCAAAAAC
Statistics
Matches: 184, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 1 0.01
41 161 0.88
42 22 0.12
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGACGCTAATGC
Found at i:34063711 original size:14 final size:14
Alignment explanation
Indices: 34063681--34063745 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
34063671 GGGTTGTGAT
* *
34063681 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
*
34063695 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
34063709 TTAAGGGTTAGAGA
1 TTAAGGGTTAGGGG
* *
34063723 TTAAGAGTTAGGGA
1 TTAAGGGTTAGGGG
*
34063737 TTTAGGGTT
1 TTAAGGGTT
34063746 TATAGATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:34063762 original size:29 final size:28
Alignment explanation
Indices: 34063701--34063763 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
34063691 TGGGTTAGGG
*
34063701 GTTAGGGGTTAAGGGTTAGAGATTAAGA
1 GTTAGGGATTAAGGGTTAGAGATTAAGA
* * * *
34063729 GTTAGGGATTTAGGGTTTATAGATTCAGT
1 GTTAGGGATTAAGGG-TTAGAGATTAAGA
34063758 GTTAGG
1 GTTAGG
34063764 TTAGGGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.45
29 16 0.55
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.35
Consensus pattern (28 bp):
GTTAGGGATTAAGGGTTAGAGATTAAGA
Found at i:34063888 original size:95 final size:95
Alignment explanation
Indices: 34063762--34063938 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 95
34063752 TTCAGTGTTA
** * *
34063762 GGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAATGTTTAGGGG
1 GGTTAGGGTTTAGAATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
34063827 TTA-TGGGTTAGGGGTTAGGGATTTGGGGTG
66 TTAGT-GGTTAGGGGTTAGGGATTTGGGGTG
* * *
34063857 GGTTAGGGTTTATAATTTAGATTAATTAGTGTTTTTTAATTTCTATATTAAATAAGGTTTAGAGG
1 GGTTAGGGTTTAGAATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
*
34063922 TTAGTGGTTTGGGGTTA
66 TTAGTGGTTAGGGGTTA
34063939 AGAGTTAGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 72 0.99
96 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.45
Consensus pattern (95 bp):
GGTTAGGGTTTAGAATTTAGATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAGAGG
TTAGTGGTTAGGGGTTAGGGATTTGGGGTG
Found at i:34063937 original size:22 final size:22
Alignment explanation
Indices: 34063912--34063963 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
34063902 TATTAAATAA
* *
34063912 GGTTTAGAGGTTAGTGGTTTGG
1 GGTTTAGAGGTTAGTGATTTAG
*
34063934 GGTTAAGA-GTTAGTGATTTAG
1 GGTTTAGAGGTTAGTGATTTAG
34063955 GGTTTAGAG
1 GGTTTAGAG
34063964 ATTTGGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGAGGTTAGTGATTTAG
Found at i:34064999 original size:50 final size:50
Alignment explanation
Indices: 34064930--34065043 Score: 174
Period size: 50 Copynumber: 2.3 Consensus size: 50
34064920 GAGGGGTTAA
* * *
34064930 GGGTTAGGGGTTTAGGGTTTATGTTTTATGATTTAGGGTTTAAAAGATAG
1 GGGTTAAGGGTTTAAGGTTTATGTTTTATAATTTAGGGTTTAAAAGATAG
**
34064980 GGGTTAAGGGTTTAAGGTTTATGTTTTATAATTTAGGGTTTAGGAGATAG
1 GGGTTAAGGGTTTAAGGTTTATGTTTTATAATTTAGGGTTTAAAAGATAG
*
34065030 GGGTTAAAGGTTTA
1 GGGTTAAGGGTTTA
34065044 GATTAATCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.41
Consensus pattern (50 bp):
GGGTTAAGGGTTTAAGGTTTATGTTTTATAATTTAGGGTTTAAAAGATAG
Found at i:34065911 original size:23 final size:21
Alignment explanation
Indices: 34065869--34065912 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34065859 CCCTTCCCTC
*
34065869 CAAAACCCAAATTCCTTCAAA
1 CAAAACCCAAACTCCTTCAAA
34065890 CAAAACCCAAACCCTCCTTCAAA
1 CAAAACCCAAA--CTCCTTCAAA
34065913 TTATGCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (21 bp):
CAAAACCCAAACTCCTTCAAA
Found at i:34066831 original size:43 final size:43
Alignment explanation
Indices: 34066783--34067178 Score: 491
Period size: 43 Copynumber: 9.3 Consensus size: 43
34066773 TATATGTTTT
*
34066783 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGAGCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTA
* * *
34066826 TAGCGGCGTTTGTGGAAAAAGCGCCGCTAAA-AGTCATGACCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCTTGATCTA
*
34066869 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-AGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGA-TCTTGATCTA
* *
34066912 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGT-TCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCT-TGATCTA
* *
34066955 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGT-TCTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCT-TGATCTA
* **
34066998 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAATATCTTGAGATA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTA
* * *
34067041 TAGCGGCGTTTGT-GTAAAAGAGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTA
* * **
34067083 TAGCGGCGTTTGT-GTAAAAGCGCCGCTAAAGGTCCAGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTA
* * *
34067125 TAGCGGAGTTTGTGGGAAAAGCGCGGCTAAATG-TCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-GATCTTGATCTA
*
34067168 TAGCAGCGTTT
1 TAGCGGCGTTT
34067179 ATTTCTAAAA
Statistics
Matches: 318, Mismatches: 29, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
42 75 0.24
43 241 0.76
44 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGATCTA
Found at i:34067013 original size:129 final size:129
Alignment explanation
Indices: 34066783--34067178 Score: 559
Period size: 129 Copynumber: 3.1 Consensus size: 129
34066773 TATATGTTTT
* *
34066783 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGAGCTATAGCGGCGTTTGTGGAAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGC
* *
34066848 GCCGCTAAAAG-TCATGACCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
66 GCCGCTAAAGGTTC-TGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
34066912 TAGCGGCGTTTGTGGGATAAGCGCCGCTAAAGGT-TCTGATCTATAGCGGCGTTTGTGGGATAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGATCTATAGCGGCGTTTGTGGAAAAAG
* **
34066976 CGCCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAATA-TCTTGAGAT
65 CGCCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAA-AGTCATGATCT
34067040 A
129 A
* * *
34067041 TAGCGGCGTTTGT-GTAAAAGAGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GTAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGC
* * * * *
34067104 GCCGCTAAAGGTCCAGATCTATAGCGGAGTTTGTGGGAAAAGCGCGGCTAAATGTCATGATCTA
66 GCCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
*
34067168 TAGCAGCGTTT
1 TAGCGGCGTTT
34067179 ATTTCTAAAA
Statistics
Matches: 238, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
127 71 0.30
128 38 0.16
129 126 0.53
130 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (129 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAAGC
GCCGCTAAAGGTTCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:34067508 original size:19 final size:19
Alignment explanation
Indices: 34067486--34067525 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
34067476 TTTAATTGTC
*
34067486 AAAA-TACATTTGAATAACA
1 AAAACTACATTT-AAGAACA
34067505 AAAACTACATTTAAGAACA
1 AAAACTACATTTAAGAACA
34067524 AA
1 AA
34067526 GTTAGACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.60, C:0.12, G:0.05, T:0.23
Consensus pattern (19 bp):
AAAACTACATTTAAGAACA
Found at i:34071506 original size:30 final size:31
Alignment explanation
Indices: 34071470--34071532 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34071460 TTTCATATAA
34071470 TTAACATCCATC-AAAAAAAAAATTAAGGTT
1 TTAACATCCATCAAAAAAAAAAATTAAGGTT
34071500 TTAACATCCATCAAAAAAAAAAATTAAGGTT
1 TTAACATCCATCAAAAAAAAAAATTAAGGTT
34071531 TT
1 TT
34071533 CTTTTTCGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (31 bp):
TTAACATCCATCAAAAAAAAAAATTAAGGTT
Found at i:34074305 original size:2 final size:2
Alignment explanation
Indices: 34074298--34074326 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34074288 TATGGTTGTA
34074298 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34074327 TAATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:34074386 original size:2 final size:2
Alignment explanation
Indices: 34074379--34074410 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
34074369 AGCTTAGTGA
34074379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34074411 ATAGTGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34083929 original size:17 final size:17
Alignment explanation
Indices: 34083907--34083943 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
34083897 ATTCATAAAG
34083907 TATGTAAAATTGAATGA
1 TATGTAAAATTGAATGA
34083924 TATGTAAAATTGAATGA
1 TATGTAAAATTGAATGA
34083941 TAT
1 TAT
34083944 TGATAGATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (17 bp):
TATGTAAAATTGAATGA
Found at i:34085458 original size:87 final size:87
Alignment explanation
Indices: 34085312--34085498 Score: 259
Period size: 87 Copynumber: 2.1 Consensus size: 87
34085302 GACCCAGAGT
*
34085312 GAAACACGTGTCCAATGGGCCTAAAGCCCGCTTAGAATGTCAGTCCCAAGTATAGAGAGGACCAC
1 GAAACACGTGTCCAATGGGCCTAAAGCCCGCTTAGAATGTCAGCCCCAAGTATAGAGAGGACCAC
34085377 GTACACTACAGGCGACCAAGGC
66 GTACACTACAGGCGACCAAGGC
* * * *
34085399 GAAACATGTGTCCAGTGGGCCTAAAGCCCG-TTCAGAATGTCAGCCCCAGGTATAGAGAGGACTA
1 GAAACACGTGTCCAATGGGCCTAAAGCCCGCTT-AGAATGTCAGCCCCAAGTATAGAGAGGACCA
* * * *
34085463 TGTACACTATAGGCAACCCAGGAC
65 CGTACACTACAGGCGACCAAGG-C
*
34085487 AAAACACGTGTC
1 GAAACACGTGTC
34085499 TAGCAGGCCT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
86 2 0.02
87 74 0.85
88 11 0.13
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (87 bp):
GAAACACGTGTCCAATGGGCCTAAAGCCCGCTTAGAATGTCAGCCCCAAGTATAGAGAGGACCAC
GTACACTACAGGCGACCAAGGC
Found at i:34087440 original size:21 final size:21
Alignment explanation
Indices: 34087414--34087465 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
34087404 TTATTATTAA
34087414 GTCTCGAGACAACATGAACAT
1 GTCTCGAGACAACATGAACAT
*
34087435 GTCTCGAGACAACATTAACAT
1 GTCTCGAGACAACATGAACAT
*
34087456 GTCTCAAGAC
1 GTCTCGAGAC
34087466 CACAAGAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
GTCTCGAGACAACATGAACAT
Found at i:34088130 original size:6 final size:6
Alignment explanation
Indices: 34088119--34088143 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34088109 TTAATAAAAA
34088119 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
34088144 ATATGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:34090220 original size:27 final size:29
Alignment explanation
Indices: 34090184--34090251 Score: 97
Period size: 27 Copynumber: 2.4 Consensus size: 29
34090174 AAAAAATAAC
34090184 TAAAATATTATAACT-TTTT-TTATTTAT
1 TAAAATATTATAACTATTTTATTATTTAT
*
34090211 TAAAATATTATAATTATTTTATTATTTAT
1 TAAAATATTATAACTATTTTATTATTTAT
*
34090240 CAAAATA-TATAA
1 TAAAATATTATAA
34090252 AAACAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 14 0.38
28 9 0.24
29 14 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAAATATTATAACTATTTTATTATTTAT
Found at i:34090244 original size:29 final size:27
Alignment explanation
Indices: 34090185--34090251 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
34090175 AAAAATAACT
*
34090185 AAAATATTATAACTTTTTTTATTTATT
1 AAAATATTATAACTTTTTTTATTTATC
*
34090212 AAAATATTATAATTATTTTATTATTTATC
1 AAAATATTATAACT-TTTT-TTATTTATC
34090241 AAAATA-TATAA
1 AAAATATTATAA
34090252 AAACAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 13 0.36
28 9 0.25
29 14 0.39
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
AAAATATTATAACTTTTTTTATTTATC
Found at i:34090436 original size:19 final size:18
Alignment explanation
Indices: 34090412--34090448 Score: 65
Period size: 18 Copynumber: 2.0 Consensus size: 18
34090402 GGGGGGGGGA
34090412 GAAGGAGAGGGAAAGAAAG
1 GAAGGAGA-GGAAAGAAAG
34090431 GAAGGAGAGGAAAGAAAG
1 GAAGGAGAGGAAAGAAAG
34090449 AAAAAGAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (18 bp):
GAAGGAGAGGAAAGAAAG
Found at i:34090456 original size:10 final size:10
Alignment explanation
Indices: 34090441--34090542 Score: 57
Period size: 10 Copynumber: 10.1 Consensus size: 10
34090431 GAAGGAGAGG
34090441 AAAGAAAGAA
1 AAAGAAAGAA
*
34090451 AAAGAATGAA
1 AAAGAAAGAA
* *
34090461 AGA-AAAGGA
1 AAAGAAAGAA
* *
34090470 AAGGAGAAGAG
1 AAAGA-AAGAA
34090481 AAA-AAA-AA
1 AAAGAAAGAA
*
34090489 AAGGAAAGAA
1 AAAGAAAGAA
* *
34090499 GAAGAAGAGGA
1 AAAGAA-AGAA
*
34090510 AAGGAGAAGAAA
1 AAAGA-AAG-AA
34090522 AAAGAAAGAA
1 AAAGAAAGAA
*
34090532 AAAGAAGGAA
1 AAAGAAAGAA
34090542 A
1 A
34090543 GAAAAGGAAA
Statistics
Matches: 66, Mismatches: 19, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
8 3 0.05
9 10 0.15
10 31 0.47
11 16 0.24
12 6 0.09
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:34090471 original size:24 final size:23
Alignment explanation
Indices: 34090444--34090547 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 23
34090434 GGAGAGGAAA
34090444 GAAAGAAAAAGAATGAAAGAAAAG
1 GAAAGAAAAAGAA-GAAAGAAAAG
* *
34090468 GAAAGGAGAAGAGAA-AAAAAAAAG
1 GAAA-GA-AAAAGAAGAAAGAAAAG
* *
34090492 GAAAGAAGAAGAAG--AGGAAAG
1 GAAAGAAAAAGAAGAAAGAAAAG
34090513 GAGAAGAAAAAAGAAAGAAA-AAGAAG
1 GA-AAG-AAAAAG-AAGAAAGAA-AAG
34090539 GAAAGAAAA
1 GAAAGAAAA
34090548 GGAAAGGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
21 7 0.11
22 8 0.13
23 7 0.11
24 23 0.37
25 6 0.10
26 12 0.19
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (23 bp):
GAAAGAAAAAGAAGAAAGAAAAG
Found at i:34090486 original size:33 final size:30
Alignment explanation
Indices: 34090423--34090544 Score: 88
Period size: 34 Copynumber: 3.8 Consensus size: 30
34090413 AAGGAGAGGG
* *
34090423 AAAGAAAG-GAAGGAGAGGAAAGAAAGAAAAA
1 AAAGAAAGAAAAGGAAAGGAAAG--AGAAAAA
*
34090454 GAATGAAAGAAAAGGAAAGGAGAAGAGAAAAAAA
1 -AAAGAAAGAAAAGGAAAGGA-AAGAG--AAAAA
34090488 AAAGGAAAGAAGAA-GAAGAGGAAAGGAGAAGAAA
1 AAA-GAAAGAA-AAGGAA-AGGAAA-GAGAA-AAA
*
34090522 AAAGAAAGAAAAAG-AAGGAAAGA
1 AAAGAAAGAAAAGGAAAGGAAAGA
34090545 AAAGGAAAGG
Statistics
Matches: 76, Mismatches: 4, Indels: 22
0.75 0.04 0.22
Matches are distributed among these distances:
30 2 0.03
31 6 0.08
32 12 0.16
33 21 0.28
34 26 0.34
35 9 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (30 bp):
AAAGAAAGAAAAGGAAAGGAAAGAGAAAAA
Found at i:34090552 original size:24 final size:23
Alignment explanation
Indices: 34090421--34090553 Score: 73
Period size: 24 Copynumber: 5.7 Consensus size: 23
34090411 AGAAGGAGAG
* * * *
34090421 GGAAAGAAAGGAAGGAGAGGAAA
1 GGAAAGAAAAGAAAGAAAGAAAA
*
34090444 -GAAAGAAAAAGAATGAAAGAAAA
1 GGAAAG-AAAAGAAAGAAAGAAAA
34090467 GGAAAGGAGAAGAGAAA-AAA-AAAA
1 GGAAA-GA-AA-AGAAAGAAAGAAAA
*
34090491 GGAAAG--AAG-AAGAAGAGGAAA
1 GGAAAGAAAAGAAAGAA-AGAAAA
34090512 GGAGAAGAAAAAAGAAAGAAA-AAGAA
1 GGA-AAG--AAAAGAAAGAAAGAA-AA
34090538 GGAAAGAAAAGGAAAG
1 GGAAAGAAAA-GAAAG
34090554 GAGAAGAGAA
Statistics
Matches: 87, Mismatches: 7, Indels: 31
0.70 0.06 0.25
Matches are distributed among these distances:
18 2 0.02
19 4 0.05
20 2 0.02
21 6 0.07
22 8 0.09
23 18 0.21
24 19 0.22
25 10 0.11
26 13 0.15
27 5 0.06
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (23 bp):
GGAAAGAAAAGAAAGAAAGAAAA
Found at i:34090592 original size:21 final size:20
Alignment explanation
Indices: 34090413--34090592 Score: 105
Period size: 19 Copynumber: 9.1 Consensus size: 20
34090403 GGGGGGGGAG
* * *
34090413 AAGGAGAGGGAAAGAAAG-G
1 AAGGAGAAGGAAAAAAAGAA
*
34090432 AAGGAG-AGGAAAGAAAGAA
1 AAGGAGAAGGAAAAAAAGAA
* *
34090451 AA--AGAATGAAAGAAAAGGA
1 AAGGAGAAGGAAA-AAAAGAA
34090470 AAGGAGAA-GAGAAAAAA-AA
1 AAGGAGAAGGA-AAAAAAGAA
*
34090489 AAGGA-AA-GAAGAAGAAGAGGA
1 AAGGAGAAGGAA-AA-AA-AGAA
*
34090510 AAGGAGAAGAAAAAAGAAAGAA
1 AAGGAGAAG-GAAAA-AAAGAA
*
34090532 AA--AGAAGGAAAGAAAAGGA
1 AAGGAGAAGGAAA-AAAAGAA
34090551 AAGGAGAAGAGAAAAAAA-AA
1 AAGGAGAAG-GAAAAAAAGAA
34090571 AGAGG-GAAGGAAAAAAAGAA
1 A-AGGAGAAGGAAAAAAAGAA
34090591 AA
1 AA
34090593 AAAAGGTAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 38
0.72 0.07 0.21
Matches are distributed among these distances:
17 3 0.02
18 21 0.16
19 42 0.32
20 22 0.17
21 24 0.18
22 11 0.08
23 5 0.04
24 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (20 bp):
AAGGAGAAGGAAAAAAAGAA
Found at i:34091136 original size:16 final size:15
Alignment explanation
Indices: 34091110--34091139 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34091100 GTACTGAAAT
34091110 AATATAAAATAATAA
1 AATATAAAATAATAA
34091125 AATATGAAAATAATA
1 AATAT-AAAATAATA
34091140 TATTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:34091351 original size:27 final size:27
Alignment explanation
Indices: 34091321--34091376 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
34091311 AAAGAGGGTG
* *
34091321 ATGGAGGGGAATAAAAAAGCGGCACCA
1 ATGGAGAGGAATAAAAAAGCGACACCA
*
34091348 ATGGAGAGGAATAAAAAGGCGACACCA
1 ATGGAGAGGAATAAAAAAGCGACACCA
34091375 AT
1 AT
34091377 ATGTGGCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.30, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAAGCGACACCA
Found at i:34092110 original size:22 final size:22
Alignment explanation
Indices: 34092045--34092110 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
34092035 TTTATTGTTC
*
34092045 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
34092067 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
34092089 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
34092111 GTTTTAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:34097126 original size:3 final size:3
Alignment explanation
Indices: 34097118--34097153 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
34097108 CATCTTAAAC
*
34097118 CAA CAA CAA CAA CAG CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
34097154 TAATAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.33, G:0.03, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:34097546 original size:27 final size:29
Alignment explanation
Indices: 34097513--34097583 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
34097503 TTTGTTTTTT
34097513 TTATATATTTTGGTAAATAATAAAAA-TAA
1 TTATATATTTTGGTAAATAA-AAAAAGTAA
*
34097542 TTATAATATTTTGGTAAATAAAAAAAGTTA
1 TTAT-ATATTTTGGTAAATAAAAAAAGTAA
34097572 -TA-ATATTTTGGT
1 TTATATATTTTGGT
34097584 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
27 10 0.26
29 11 0.28
30 18 0.46
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (29 bp):
TTATATATTTTGGTAAATAAAAAAAGTAA
Found at i:34097551 original size:30 final size:27
Alignment explanation
Indices: 34097513--34097583 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
34097503 TTTGTTTTTT
34097513 TTAT-ATATTTTGGTAAATAATAAAAATAA
1 TTATAATATTTTGGTAAAT-A-AAAAA-AA
*
34097542 TTATAATATTTTGGTAAATAAAAAAAG
1 TTATAATATTTTGGTAAATAAAAAAAA
34097569 TTATAATATTTTGGT
1 TTATAATATTTTGGT
34097584 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 16 0.40
28 5 0.12
29 5 0.12
30 14 0.35
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
TTATAATATTTTGGTAAATAAAAAAAA
Found at i:34101853 original size:9 final size:9
Alignment explanation
Indices: 34101836--34101873 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
34101826 CAATTAAAAA
34101836 AATT-GAAT
1 AATTCGAAT
*
34101844 AATTCAAAT
1 AATTCGAAT
34101853 AATTCGAAT
1 AATTCGAAT
34101862 AATTCGAAT
1 AATTCGAAT
34101871 AAT
1 AAT
34101874 AAATTTGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34101973 original size:19 final size:19
Alignment explanation
Indices: 34101951--34102022 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
34101941 AAAAATACAA
*
34101951 AAAAATTTAAAATAATTTT
1 AAAAATTCAAAATAATTTT
*
34101970 AAAAAATTCAAAATACTTTT
1 -AAAAATTCAAAATAATTTT
*
34101990 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
*
34102009 ATAAATTCTAAAAT
1 AAAAATTC-AAAAT
34102023 TTTATATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.07
19 19 0.43
20 22 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:34102013 original size:20 final size:19
Alignment explanation
Indices: 34101952--34102028 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
34101942 AAAATACAAA
* *
34101952 AAAATTTAAAATAATTTTAA
1 AAAATTCAAAAT-ATTTTAT
34101972 AAAATTCAAAATACTTTT-T
1 AAAATTCAAAATA-TTTTAT
34101991 AAAATTCAAAATA-TTTAT
1 AAAATTCAAAATATTTTAT
*
34102009 ATAAATTCTAAA-ATTTTAT
1 A-AAATTCAAAATATTTTAT
34102028 A
1 A
34102029 TTTTTAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
17 3 0.06
18 3 0.06
19 29 0.58
20 15 0.30
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATATTTTAT
Found at i:34102380 original size:15 final size:15
Alignment explanation
Indices: 34102362--34102391 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34102352 ATGTTTTCAC
*
34102362 TCGATTCAATTCGAT
1 TCGACTCAATTCGAT
34102377 TCGACTCAATTCGAT
1 TCGACTCAATTCGAT
34102392 CGAACAATCA
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:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (15 bp):
TCGACTCAATTCGAT
Found at i:34103507 original size:9 final size:9
Alignment explanation
Indices: 34103485--34103520 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
34103475 GGATAAAACA
34103485 AATAATTAGTT
1 AATAA-TAG-T
34103496 AATAATAGT
1 AATAATAGT
34103505 AATAATAGT
1 AATAATAGT
34103514 AATAATA
1 AATAATA
34103521 ATTAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 17 0.68
10 3 0.12
11 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (9 bp):
AATAATAGT
Found at i:34106348 original size:25 final size:24
Alignment explanation
Indices: 34106311--34106499 Score: 100
Period size: 25 Copynumber: 7.6 Consensus size: 24
34106301 TCCTGTACAT
34106311 GTATGCTCATACGAGCTCTGAATCG
1 GTATGCTCATACGAGCTCT-AATCG
* *
34106336 GTATGCTCTTACGAGCTGTAATCG
1 GTATGCTCATACGAGCTCTAATCG
* * *
34106360 GTAAGCTCATACAAGCTGAGTAAT-G
1 GTATGCTCATACGAGCT--CTAATCG
* * *
34106385 GTAAGCTCATGCGAGCT-GAATAACG
1 GTATGCTCATACGAGCTCTAAT--CG
* *
34106410 GTAAGCTCATACGAGCT-GAATGACG
1 GTATGCTCATACGAGCTCTAAT--CG
* * *
34106435 GTAAGCTCATACAAGCT-GAATGACG
1 GTATGCTCATACGAGCTCTAAT--CG
* *
34106460 GTAAGCTCATACGAGCT-AAATGACG
1 GTATGCTCATACGAGCTCTAAT--CG
*
34106485 GTAAGCTCATACGAG
1 GTATGCTCATACGAG
34106500 GTGAAATTGG
Statistics
Matches: 146, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
22 3 0.02
24 19 0.13
25 119 0.82
26 5 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAATCG
Found at i:34106421 original size:50 final size:50
Alignment explanation
Indices: 34106315--34106504 Score: 226
Period size: 50 Copynumber: 3.8 Consensus size: 50
34106305 GTACATGTAT
* *
34106315 GCTCATACGAGCTCTGAAT--CGGTATGCTCTTACGAGCTG--TAATCGGTAA
1 GCTCATACGAG--CTGAATGACGGTAAGCTCATACGAGCTGAATAA-CGGTAA
* * * * *
34106364 GCTCATACAAGCTGAGTAATGGTAAGCTCATGCGAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATGACGGTAAGCTCATACGAGCTGAATAACGGTAA
* *
34106414 GCTCATACGAGCTGAATGACGGTAAGCTCATACAAGCTGAATGACGGTAA
1 GCTCATACGAGCTGAATGACGGTAAGCTCATACGAGCTGAATAACGGTAA
* *
34106464 GCTCATACGAGCTAAATGACGGTAAGCTCATACGAGGTGAA
1 GCTCATACGAGCTGAATGACGGTAAGCTCATACGAGCTGAA
34106505 ATTGGTCACC
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
47 5 0.04
49 26 0.21
50 87 0.72
51 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (50 bp):
GCTCATACGAGCTGAATGACGGTAAGCTCATACGAGCTGAATAACGGTAA
Found at i:34106463 original size:75 final size:73
Alignment explanation
Indices: 34106334--34106504 Score: 234
Period size: 75 Copynumber: 2.3 Consensus size: 73
34106324 AGCTCTGAAT
* * * * *
34106334 CGGTATGCTCTTACGAGCTGTAATCGGTAAGCTCATACAAGCTGAGTAATGGTAAGCTCATGCGA
1 CGGTAAGCTCATACGAGCTG-AATCGGTAAGCTCATACAAGCTGAATAACGGTAAGCTCATACGA
*
34106399 GCTGAATAA
65 GCTAAATAA
*
34106408 CGGTAAGCTCATACGAGCTGAATGACGGTAAGCTCATACAAGCTGAATGACGGTAAGCTCATACG
1 CGGTAAGCTCATACGAGCTGAAT--CGGTAAGCTCATACAAGCTGAATAACGGTAAGCTCATACG
*
34106473 AGCTAAATGA
64 AGCTAAATAA
*
34106483 CGGTAAGCTCATACGAGGTGAA
1 CGGTAAGCTCATACGAGCTGAA
34106505 ATTGGTCACC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 3 0.03
74 18 0.21
75 65 0.76
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.22
Consensus pattern (73 bp):
CGGTAAGCTCATACGAGCTGAATCGGTAAGCTCATACAAGCTGAATAACGGTAAGCTCATACGAG
CTAAATAA
Found at i:34114265 original size:50 final size:51
Alignment explanation
Indices: 34114172--34114281 Score: 136
Period size: 50 Copynumber: 2.2 Consensus size: 51
34114162 GGTATACTTT
* * *
34114172 TACGAGCT--ATAATCGGTAAGCTTATACGAGATGAGTAACGGTAAGCTCA
1 TACGAGCTGAATAATCGGTAAGCTCATACGAGATAAATAACGGTAAGCTCA
* * *
34114221 TACGAGCTGAATAAT-GGTAAGCTCATATGAGCTAAATAATGGTAAGCTCA
1 TACGAGCTGAATAATCGGTAAGCTCATACGAGATAAATAACGGTAAGCTCA
*
34114271 TACAAGCTGAA
1 TACGAGCTGAA
34114282 ATCGATAACC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 8 0.15
50 39 0.75
51 5 0.10
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (51 bp):
TACGAGCTGAATAATCGGTAAGCTCATACGAGATAAATAACGGTAAGCTCA
Found at i:34114278 original size:25 final size:25
Alignment explanation
Indices: 34114172--34114283 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
34114162 GGTATACTTT
*
34114172 TACGAGCT--ATAATCGGTAAGCTTA
1 TACGAGCTAAATAAT-GGTAAGCTCA
* * * *
34114196 TACGAGATGAGTAACGGTAAGCTCA
1 TACGAGCTAAATAATGGTAAGCTCA
*
34114221 TACGAGCTGAATAATGGTAAGCTCA
1 TACGAGCTAAATAATGGTAAGCTCA
*
34114246 TATGAGCTAAATAATGGTAAGCTCA
1 TACGAGCTAAATAATGGTAAGCTCA
*
34114271 TACAAGCTGAAAT
1 TACGAGCT-AAAT
34114284 CGATAACCCT
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.09
25 60 0.81
26 7 0.09
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (25 bp):
TACGAGCTAAATAATGGTAAGCTCA
Found at i:34122408 original size:28 final size:28
Alignment explanation
Indices: 34122371--34122440 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
34122361 TGGTTATACA
* *
34122371 TATATTATATATATGAATGGCTTTATTT
1 TATATAATATATATGAATGACTTTATTT
*
34122399 TATATAATATATATGCATGACTTTATTT
1 TATATAATATATATGAATGACTTTATTT
*
34122427 CATATAATATATAT
1 TATATAATATATAT
34122441 TAATAGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (28 bp):
TATATAATATATATGAATGACTTTATTT
Found at i:34130797 original size:27 final size:27
Alignment explanation
Indices: 34130755--34131049 Score: 401
Period size: 27 Copynumber: 10.9 Consensus size: 27
34130745 TTAACTTTAT
* *
34130755 CGAAATACCCTTGATGGATAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
*
34130782 CGAAATACCCCCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
*
34130809 CGAAATACCCTCGATAGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
*
34130836 TGAAATACCCTCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
** *
34130863 TAAAATACCCTTGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
**
34130890 TAAAATACCCTCGATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
* * * *
34130917 CAAAATACCTTCGATAGGTAAAATTAT
1 CGAAATACCCTCGATGGGTAAAATTAC
* *
34130944 CGAAATACCCTCGATAGGTAAAATTAT
1 CGAAATACCCTCGATGGGTAAAATTAC
*
34130971 CGAAATACCCTCAATGGGTAAAATTAC
1 CGAAATACCCTCGATGGGTAAAATTAC
* * *
34130998 TGAAATACCCTCGATCGGTAAAATTAT
1 CGAAATACCCTCGATGGGTAAAATTAC
*
34131025 CGAAATACCTTCGATGGGTAAAATT
1 CGAAATACCCTCGATGGGTAAAATT
34131050 GACTATTATG
Statistics
Matches: 242, Mismatches: 26, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 242 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (27 bp):
CGAAATACCCTCGATGGGTAAAATTAC
Found at i:34137824 original size:26 final size:24
Alignment explanation
Indices: 34137795--34137887 Score: 82
Period size: 26 Copynumber: 3.8 Consensus size: 24
34137785 AAACTCACTA
*
34137795 CAGCTGGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCGAT-T-T
* *
34137821 CAGCACATATGAGCTTACC-ATTT
1 CAGCTCGTATGAGCTTACCGATTT
*
34137844 CAGCTCG-ATAGAGCTTACCGTTCTT
1 CAGCTCGTAT-GAGCTTACCGAT-TT
*
34137869 CAGCTCGGAATGAGCTTAC
1 CAGCTC-GTATGAGCTTAC
34137888 TGATCATGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
22 2 0.04
23 15 0.27
24 2 0.04
25 10 0.18
26 25 0.45
27 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGATTT
Found at i:34137857 original size:23 final size:26
Alignment explanation
Indices: 34137802--34137863 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 26
34137792 CTACAGCTGG
34137802 TATGAGCTTACCGATATATCAGCACA
1 TATGAGCTTACCGATATATCAGCACA
*
34137828 TATGAGCTTACC-AT-T-TCAGCTCGA
1 TATGAGCTTACCGATATATCAGCAC-A
34137852 TA-GAGCTTACCG
1 TATGAGCTTACCG
34137864 TTCTTCAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 15 0.45
24 4 0.12
25 2 0.06
26 12 0.36
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (26 bp):
TATGAGCTTACCGATATATCAGCACA
Found at i:34147225 original size:56 final size:51
Alignment explanation
Indices: 34147140--34147337 Score: 224
Period size: 50 Copynumber: 3.9 Consensus size: 51
34147130 GACATTAGGG
* **
34147140 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA--ACCGA
34147191 GGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGC-ACCGA
1 -G--ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
* *
34147244 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGC-ACCGA
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
* ** * * *
34147294 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGG
34147338 TAGTACAGGA
Statistics
Matches: 129, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
50 83 0.64
52 2 0.02
53 3 0.02
54 6 0.05
56 35 0.27
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (51 bp):
GATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATTGGCAACCGA
Found at i:34147373 original size:49 final size:49
Alignment explanation
Indices: 34147203--34147388 Score: 187
Period size: 50 Copynumber: 3.8 Consensus size: 49
34147193 TTATGAGAGG
* * * **
34147203 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAAC
** * * *
34147253 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAGAAC
* * *
34147303 TCCCATGTAAGACCATATCTGGGATATGGCATTGGTA-GTACAGGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAGAAC
* *
34147351 ATCCTATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34147389 TGTTATTATC
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 4 0.03
49 36 0.31
50 76 0.66
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAGAAC
Found at i:34147615 original size:20 final size:20
Alignment explanation
Indices: 34147590--34147638 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
34147580 TGAGTTATTT
34147590 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
34147610 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
34147630 AAG-AAGCAA
1 AAGTAAGCAA
34147639 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:34152101 original size:20 final size:20
Alignment explanation
Indices: 34152076--34152116 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34152066 GATAGCTTAA
34152076 TTTTTGCTATGGAAAGAAAT
1 TTTTTGCTATGGAAAGAAAT
34152096 TTTTTGCTATGGAAAGAAAT
1 TTTTTGCTATGGAAAGAAAT
34152116 T
1 T
34152117 AGGCAATAAG
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:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTTTGCTATGGAAAGAAAT
Found at i:34169404 original size:36 final size:36
Alignment explanation
Indices: 34169352--34169457 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 36
34169342 AGTAAACTCT
* *
34169352 ATTCAGTTCAGTAGCCTTCCAGATCTATTCTGACTA
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
* * * * *
34169388 ATTCAGTCCAGCAGCCTTTCAGATCTATTTTAATTG
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
*
34169424 ATTCAGTTCAGCAGCCTTTCGGATCTATTCTGAC
1 ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGAC
34169458 CGATGCACTC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (36 bp):
ATTCAGTTCAGCAGCCTTTCAGATCTATTCTGACTA
Found at i:34182029 original size:16 final size:16
Alignment explanation
Indices: 34182008--34182043 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34181998 TAGAGTGGAA
* *
34182008 AAAATTGGAAGGGTGG
1 AAAATTGAAAGGGTAG
34182024 AAAATTGAAAGGGTAG
1 AAAATTGAAAGGGTAG
34182040 AAAA
1 AAAA
34182044 CTAGAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAGGGTAG
Found at i:34182237 original size:22 final size:22
Alignment explanation
Indices: 34182212--34182254 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34182202 CATATACCTC
34182212 TCTCTCATT-TTTTCTCTTCTCA
1 TCTCTC-TTATTTTCTCTTCTCA
*
34182234 TCTCTCTTATTTTCTTTTCTC
1 TCTCTCTTATTTTCTCTTCTC
34182255 TCACTTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (22 bp):
TCTCTCTTATTTTCTCTTCTCA
Found at i:34184450 original size:3 final size:3
Alignment explanation
Indices: 34184442--34184492 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
34184432 TTTTTTACCC
34184442 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34184490 TTA
1 TTA
34184493 GTACTATGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34184632 original size:24 final size:24
Alignment explanation
Indices: 34184593--34184641 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
34184583 CTAGCATGAC
* *
34184593 ATTTTTTATTTCATCTTTTATTTT
1 ATTTTTTATTTCATCTATCATTTT
34184617 ATTTATTTATTT-ATCTATCATTTT
1 ATTT-TTTATTTCATCTATCATTTT
34184641 A
1 A
34184642 ATATCATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (24 bp):
ATTTTTTATTTCATCTATCATTTT
Found at i:34185915 original size:31 final size:32
Alignment explanation
Indices: 34185855--34185915 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
34185845 TTGGTGCAAT
* *
34185855 TATACATACGAAACTTTGATTGTGGTTCAAATG
1 TATACATA-GAAACTTTAATTGTGATTCAAATG
*
34185888 TATACAT-GAAACTTTAATTTTGATTCAA
1 TATACATAGAAACTTTAATTGTGATTCAA
34185916 TCATACACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.72
33 7 0.28
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (32 bp):
TATACATAGAAACTTTAATTGTGATTCAAATG
Found at i:34186352 original size:18 final size:18
Alignment explanation
Indices: 34186329--34186366 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34186319 AAACAAATTT
*
34186329 TTATAAAGGTTATATATA
1 TTATAAAAGTTATATATA
*
34186347 TTATAAAATTTATATATA
1 TTATAAAAGTTATATATA
34186365 TT
1 TT
34186367 GACTTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TTATAAAAGTTATATATA
Found at i:34189582 original size:4 final size:4
Alignment explanation
Indices: 34189569--34189599 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
34189559 ATAAGATATT
34189569 TTAA -TAA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
34189600 ATGATATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:34191849 original size:41 final size:40
Alignment explanation
Indices: 34191793--34192151 Score: 265
Period size: 40 Copynumber: 8.9 Consensus size: 40
34191783 AGATGCATAA
* *
34191793 CAGGGGCACCAAAGTGCAATCAAGAGCATGA-ATGTGCGA-T
1 CAGGGGCACCAAAGTGCAAACAAGAGCA-CATATGTGC-ATT
* *
34191833 CAGGGGGCGCCAAAGTGCAAACAAGGGCACATATGTGCATT
1 CA-GGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * *
34191874 CAGGGGCACCAAAGTGCAAATAGGGGCACATATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * * *
34191914 TAGGGGTACCGAAGTACAAACAAGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * * *
34191954 CAGGGGTATCGAAGTGCAAACAGGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * * *
34191994 CAGGGGTACCGAAGTACAAACAGGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * * *
34192034 CAGGGGTATCGAAGTGCAAACAGGGGCACAAATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * * * * *
34192074 CAGGGGTACCGAAGTACAAATAGGGGAACAGATGTGCATT
1 CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
* * * * *
34192114 TAGGGGTACCGAAGTACAAACAAGGGCAC-TGATGTGCA
1 CAGGGGCACCAAAGTGCAAACAAGAGCACAT-ATGTGCA
34192152 AATAAGGGCA
Statistics
Matches: 283, Mismatches: 32, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
40 251 0.89
41 32 0.11
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.16
Consensus pattern (40 bp):
CAGGGGCACCAAAGTGCAAACAAGAGCACATATGTGCATT
Found at i:34191870 original size:20 final size:20
Alignment explanation
Indices: 34191847--34192071 Score: 91
Period size: 20 Copynumber: 11.2 Consensus size: 20
34191837 GGGCGCCAAA
*
34191847 GTGCAAACAAGGGCACATAT
1 GTGCAAACAGGGGCACATAT
** *
34191867 GTGCATTCAGGGGCACCA-AA
1 GTGCAAACAGGGGCA-CATAT
*
34191887 GTGCAAATAGGGGCACATAT
1 GTGCAAACAGGGGCACATAT
*** * ** *
34191907 GTGCATTTAGGGGTACCGAA
1 GTGCAAACAGGGGCACATAT
* * *
34191927 GTACAAACAAGGGCACAAAT
1 GTGCAAACAGGGGCACATAT
** *
34191947 GTGCATTCAGGGGTATCGA-A-
1 GTGCAAACAGGGGCA-C-ATAT
*
34191967 GTGCAAACAGGGGCACAAAT
1 GTGCAAACAGGGGCACATAT
** * ** *
34191987 GTGCATTCAGGGGTACCGAA
1 GTGCAAACAGGGGCACATAT
* *
34192007 GTACAAACAGGGGCACAAAT
1 GTGCAAACAGGGGCACATAT
** *
34192027 GTGCATTCAGGGGTATCGA-A-
1 GTGCAAACAGGGGCA-C-ATAT
*
34192047 GTGCAAACAGGGGCACAAAT
1 GTGCAAACAGGGGCACATAT
34192067 GTGCA
1 GTGCA
34192072 TTCAGGGGTA
Statistics
Matches: 144, Mismatches: 51, Indels: 20
0.67 0.24 0.09
Matches are distributed among these distances:
18 2 0.01
19 6 0.04
20 128 0.89
21 6 0.04
22 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (20 bp):
GTGCAAACAGGGGCACATAT
Found at i:34191893 original size:40 final size:40
Alignment explanation
Indices: 34191845--34192151 Score: 425
Period size: 40 Copynumber: 7.7 Consensus size: 40
34191835 GGGGGCGCCA
* * * *
34191845 AAGTGCAAACAAGGGCACATATGTGCATTCAGGGGCACCA
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
* * *
34191885 AAGTGCAAATAGGGGCACATATGTGCATTTAGGGGTACCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
* * *
34191925 AAGTACAAACAAGGGCACAAATGTGCATTCAGGGGTATCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
34191965 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
* *
34192005 AAGTACAAACAGGGGCACAAATGTGCATTCAGGGGTATCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
34192045 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
* * * * *
34192085 AAGTACAAATAGGGGAACAGATGTGCATTTAGGGGTACCG
1 AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
* * **
34192125 AAGTACAAACAAGGGCACTGATGTGCA
1 AAGTGCAAACAGGGGCACAAATGTGCA
34192152 AATAAGGGCA
Statistics
Matches: 240, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 240 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (40 bp):
AAGTGCAAACAGGGGCACAAATGTGCATTCAGGGGTACCG
Found at i:34192098 original size:20 final size:20
Alignment explanation
Indices: 34192075--34192133 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
34192065 ATGTGCATTC
34192075 AGGGGTACCGAAGTACAAAT
1 AGGGGTACCGAAGTACAAAT
* * * * **
34192095 AGGGGAACAGATGTGCATTT
1 AGGGGTACCGAAGTACAAAT
34192115 AGGGGTACCGAAGTACAAA
1 AGGGGTACCGAAGTACAAA
34192134 CAAGGGCACT
Statistics
Matches: 27, Mismatches: 12, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.14, G:0.32, T:0.17
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAT
Found at i:34196908 original size:38 final size:37
Alignment explanation
Indices: 34196833--34196913 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 37
34196823 AAGTATAAAA
* *
34196833 ATAAAATTAAACTTAAAATATTAAAATTAAAAGAAATT
1 ATAAAATTAAACTTAAAATA-TAAAACTAAAAAAAATT
34196871 ATAAAATTAGAA-TTAAAATA-AAAACTAAAACTAAAATT
1 ATAAAATTA-AACTTAAAATATAAAACTAAAA--AAAATT
34196909 A-AAAA
1 ATAAAA
34196914 GTGGCTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
36 9 0.24
37 4 0.11
38 23 0.61
39 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (37 bp):
ATAAAATTAAACTTAAAATATAAAACTAAAAAAAATT
Found at i:34197185 original size:24 final size:25
Alignment explanation
Indices: 34197157--34197204 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34197147 TGGGCCATTC
34197157 TCCAAAA-TATTATTGTATGTAATT
1 TCCAAAACTATTATTGTATGTAATT
*
34197181 TCCAAAACTTTTATTGTATGTAAT
1 TCCAAAACTATTATTGTATGTAAT
34197205 AGGCAATTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
TCCAAAACTATTATTGTATGTAATT
Found at i:34197727 original size:24 final size:24
Alignment explanation
Indices: 34197700--34197745 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
34197690 TCAAAGAAAT
*
34197700 TTGAGTCGTATTTTGAGTTGTGTA
1 TTGAGTCGTATTTAGAGTTGTGTA
* *
34197724 TTGAGTTGTCTTTAGAGTTGTG
1 TTGAGTCGTATTTAGAGTTGTG
34197746 CTTGTCACGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.04, G:0.30, T:0.50
Consensus pattern (24 bp):
TTGAGTCGTATTTAGAGTTGTGTA
Found at i:34201824 original size:34 final size:34
Alignment explanation
Indices: 34201776--34201936 Score: 159
Period size: 34 Copynumber: 4.7 Consensus size: 34
34201766 AGCATGAGAT
* * *
34201776 TTGCTACTGAATTGAAT-TGATATAACCATATTAA
1 TTGCTACCGTATTG-ATCTGATATAAGCATATTAA
*
34201810 GTGCTACCGTATTGATCTG-TCATAAGCATATTAA
1 TTGCTACCGTATTGATCTGAT-ATAAGCATATTAA
*
34201844 TTAG-TACCGTATTGATCT-ATTATGAGCATATTAA
1 TT-GCTACCGTATTGATCTGA-TATAAGCATATTAA
* * *
34201878 TTGCTATCGTATTGATCTGTTATAAGAATATTAA
1 TTGCTACCGTATTGATCTGATATAAGCATATTAA
* * *
34201912 TTGCTACCTTAATGATCTGTTATAA
1 TTGCTACCGTATTGATCTGATATAA
34201937 ACATGTCATA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
33 4 0.04
34 101 0.94
35 2 0.02
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (34 bp):
TTGCTACCGTATTGATCTGATATAAGCATATTAA
Found at i:34201858 original size:68 final size:68
Alignment explanation
Indices: 34201796--34201936 Score: 185
Period size: 68 Copynumber: 2.1 Consensus size: 68
34201786 ATTGAATTGA
*
34201796 TATAACCATATTAAGTGCTACCGTATTGATCTGTCATAAGCATATTAATTAGTACCGTATTGATC
1 TATAACCATATTAAGTGCTACCGTATTGATCTGTCATAAGAATATTAATTAGTACCGTATTGATC
34201861 TAT
66 TAT
* * * * * * *
34201864 TATGAGCATATTAATTGCTATCGTATTGATCTGTTATAAGAATATTAATT-GCTACCTTAATGAT
1 TATAACCATATTAAGTGCTACCGTATTGATCTGTCATAAGAATATTAATTAG-TACCGTATTGAT
*
34201928 CTGT
65 CTAT
34201932 TATAA
1 TATAA
34201937 ACATGTCATA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
67 1 0.02
68 61 0.98
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (68 bp):
TATAACCATATTAAGTGCTACCGTATTGATCTGTCATAAGAATATTAATTAGTACCGTATTGATC
TAT
Found at i:34202121 original size:44 final size:44
Alignment explanation
Indices: 34202056--34202173 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
34202046 ATTTGTTTTT
* * * *
34202056 TATCCACAGCCGGAGGTAGATTTTATCTGCGAGATTTTTCTGTC
1 TATCCACAGCCAGAGGTAGATTTTATCTACGAGATTTTGCTATC
* * * *
34202100 TATCCATAGCCAGAGGCAGATTCTATCTACGAGATTTTGCTATG
1 TATCCACAGCCAGAGGTAGATTTTATCTACGAGATTTTGCTATC
**
34202144 TATCCACAGTTAGAGGTAGATTTTATCTAC
1 TATCCACAGCCAGAGGTAGATTTTATCTAC
34202174 AAGGTTATGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (44 bp):
TATCCACAGCCAGAGGTAGATTTTATCTACGAGATTTTGCTATC
Found at i:34206105 original size:103 final size:102
Alignment explanation
Indices: 34205861--34206228 Score: 583
Period size: 102 Copynumber: 3.6 Consensus size: 102
34205851 TAACCGTTAT
* * *
34205861 CGGTGGATTCCGCACTTAGCAACCACCAATGAATCGGGGAACCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
34205926 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* * * ** *
34205963 CGGCGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATTAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
* * *
34206028 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
*
34206066 CGGTGGAATCAGCACTTAGCGACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
34206131 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
* * *
34206168 CGGTGGAATCAGCAATTAGCAACCACCAATGAATCAGGGAATCAGCACACAACAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTT
34206229 TATATGCAAT
Statistics
Matches: 239, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
102 147 0.62
103 92 0.38
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTCAGATG
Found at i:34207203 original size:59 final size:59
Alignment explanation
Indices: 34207130--34207247 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
34207120 ATTTCACTAA
34207130 TCCTATGCCAATTTTTGTCCATCAACTAACTAATGGTCTAATTACCACATAAAGACCTC
1 TCCTATGCCAATTTTTGTCCATCAACTAACTAATGGTCTAATTACCACATAAAGACCTC
*
34207189 TCCTATGCCCATTTTTGTCCATCAACTAACTAATGGTCTAATTACCACATAAAGACCTC
1 TCCTATGCCAATTTTTGTCCATCAACTAACTAATGGTCTAATTACCACATAAAGACCTC
34207248 CAATTTAAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.32
Consensus pattern (59 bp):
TCCTATGCCAATTTTTGTCCATCAACTAACTAATGGTCTAATTACCACATAAAGACCTC
Found at i:34212341 original size:116 final size:117
Alignment explanation
Indices: 34212188--34212423 Score: 393
Period size: 116 Copynumber: 2.0 Consensus size: 117
34212178 CACCTAATTC
* * * *
34212188 CATGCATAAAAATCAATCCCATTATGTGCGTATCCACAACATAAAGACCTAATTCAAACACCTAC
1 CATGCATAAAAACCAATCCCATTATGTGCCTATCCACAACATAAACACCTAATTCAAACACCTAA
*
34212253 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGTATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
* *
34212305 CATGCATAAAAACCAAT-CCATTGTGTGCCTATCCACAACATAAACACTTAATTCAAACACCTAA
1 CATGCATAAAAACCAATCCCATTATGTGCCTATCCACAACATAAACACCTAATTCAAACACCTAA
*
34212369 CTAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
66 CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
34212421 CAT
1 CAT
34212424 ACATTTCAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
116 95 0.86
117 16 0.14
ACGTcount: A:0.41, C:0.28, G:0.06, T:0.25
Consensus pattern (117 bp):
CATGCATAAAAACCAATCCCATTATGTGCCTATCCACAACATAAACACCTAATTCAAACACCTAA
CAAATCATACCGCATTTATCACTTTCAAGCCATTACAAGCATACCATAACAA
Found at i:34215490 original size:29 final size:29
Alignment explanation
Indices: 34215438--34215543 Score: 72
Period size: 29 Copynumber: 3.6 Consensus size: 29
34215428 CAATTTTCAT
** ** *
34215438 AAAAGGAAACCTTTGTGGCTATCTTTGTA
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* *
34215467 AAAAGGATGTCTTTGTGGAAATCTATGTT
1 AAAAGGAAGTCTTTGTGGAAATCTATGTA
* * **
34215496 TAAAGGAAGTCTTTATGGCAGTCTCTAT-TA
1 AAAAGGAAGTCTTTGTGG-A-AATCTATGTA
34215526 AAAAGGAAG-CATTTGTGG
1 AAAAGGAAGTC-TTTGTGG
34215544 CGATTTCTGT
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
29 38 0.64
30 16 0.27
31 5 0.08
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAAGGAAGTCTTTGTGGAAATCTATGTA
Found at i:34225857 original size:998 final size:998
Alignment explanation
Indices: 34223923--34225903 Score: 3782
Period size: 998 Copynumber: 2.0 Consensus size: 998
34223913 TGGAAGTGAT
* *
34223923 ACCATTTCCTTACTTGTATTGATGTTATTAAATATTGTAATCAAATCCTAATGTTAATGGATAGG
1 ACCATTTCCTTACTTGTATTGATGCTATTAAATATTGTAACCAAATCCTAATGTTAATGGATAGG
* *
34223988 TAAAATGAATATATTAATCATGAAATTGCTTGCAAAAATGTCAATGTCATGTGTGCATAGGTATT
66 TAAAATGAATAGATTAATCATGAAATTGCTTGCAAAAATGTCAATGTCATGTGTGCACAGGTATT
34224053 GAAATTCTATTTAACTATAAGCATATAATGTTCACTTGGAAAGTTTGTAACAAATGTTGGATTTG
131 GAAATTCTATTTAACTATAAGCATATAATGTTCACTTGGAAAGTTTGTAACAAATGTTGGATTTG
34224118 GTATGATTGATGAGTGTCTATTTAGGTTGATTTGTTAATTGGTATATGCATCATGTTGTATCAAT
196 GTATGATTGATGAGTGTCTATTTAGGTTGATTTGTTAATTGGTATATGCATCATGTTGTATCAAT
* *
34224183 GTAGCTATGCTTTTATATCTTGAATCATGAAAGTACTAGTGCTTAACAACCCATTTTTCAGTTGT
261 GTAGCTATGCTTTTATATCTTGAATCATGAAAGTACTAGTGCCTAACAACCCATTTTTCAGTGGT
* * *
34224248 GTCGAAAATAGTGGTTTCTAGACCAAAATACCAACAAGACAGTCCATAGATATATTTAATTAATA
326 GTCAAAAATAGTGGTTTCGAGACCAAAATACCAACAAGACAGTCCATAGATATATTTAACTAATA
34224313 TTTATGAGTTAAATATAGTGTAATATTGAATCATGATTTAATAGAATTTATTAATTGGCCAGTTG
391 TTTATGAGTTAAATATAGTGTAATATTGAATCATGATTTAATAGAATTTATTAATTGGCCAGTTG
34224378 GTCAAGGTAGAAGTGGTGCGTATTAAAAGTCAAGTGGTTTCGAAAAATGAGGTTTTGAGACATCG
456 GTCAAGGTAGAAGTGGTGCGTATTAAAAGTCAAGTGGTTTCGAAAAATGAGGTTTTGAGACATCG
34224443 TTTCTGTAAATCGAGCCCGTAAATATTTTTATTAAATATTCATGAAGCTGTTATATAGGTGAATT
521 TTTCTGTAAATCGAGCCCGTAAATATTTTTATTAAATATTCATGAAGCTGTTATATAGGTGAATT
*
34224508 GAAGTTTGGTCCAAAAATTTTGATGATTTGATAGTTAATTATGAAAAAAGGACTAAATCGTAAAA
586 GAAGTTTGGTCCAAAAATTTTGATGATTTGATAGTTAATTATGAAAAAAGGACTAAACCGTAAAA
34224573 TTAGTAAAAGTTAATTGATATTGGTTTTCATTTGTTAAAAGGCTAGATTAATTAATGTTAAGTGT
651 TTAGTAAAAGTTAATTGATATTGGTTTTCATTTGTTAAAAGGCTAGATTAATTAATGTTAAGTGT
34224638 TTTAAGTTGCAAATTACCCTATTTATAGCTAGTGGCCAATTAGTATATATTTATTTGAAATTTTA
716 TTTAAGTTGCAAATTACCCTATTTATAGCTAGTGGCCAATTAGTATATATTTATTTGAAATTTTA
34224703 TAATTTAAAATTTAATTAAATTAAGTGAAAATAATATAATAAAGTTTAAAATATAAAACAAAAGA
781 TAATTTAAAATTTAATTAAATTAAGTGAAAATAATATAATAAAGTTTAAAATATAAAACAAAAGA
*
34224768 AATCATCATCATTGTAATGTCCGTCCTATATCCGATCCGAGCTATAAGATATTAAAAGTATAAAA
846 AATCATCATCATTGTAATGTCCGTCCTATATCCGATCCGAGCTATAAGATATGAAAAGTATAAAA
* * *
34224833 ATTTAAAATCATTCACAATTTAATAAAAAAATTATCAAAAAATTCAATTGCAATAGTTTCTATGC
911 ATTTAAAATCATTCACAATTTAATAAAAAAATAACCAAAAAATTCAATTGCAATAATTTCTATGC
34224898 TATGCAATAATTTAAAATCATTC
976 TATGCAATAATTTAAAATCATTC
34224921 ACCATTTCCTTACTTGTATTGATGCTATTAAATATTGTAACCAAATCCTAATGTTAATGGATAGG
1 ACCATTTCCTTACTTGTATTGATGCTATTAAATATTGTAACCAAATCCTAATGTTAATGGATAGG
34224986 TAAAATGAATAGATTAATCATGAAATTGCTTGCAAAAATGTCAATGTCATGTGTGCACAGGTATT
66 TAAAATGAATAGATTAATCATGAAATTGCTTGCAAAAATGTCAATGTCATGTGTGCACAGGTATT
* *
34225051 GAAATTCTATTTGATTATAAGCATATAATGTTCACTTGGAAAGTTTGTAACAAATGTTGGATTTG
131 GAAATTCTATTTAACTATAAGCATATAATGTTCACTTGGAAAGTTTGTAACAAATGTTGGATTTG
34225116 GTATGATTGATGAGTGTCTATTTAGGTTGATTTGTTAATTGGTATATGCATCATGTTGTATCAAT
196 GTATGATTGATGAGTGTCTATTTAGGTTGATTTGTTAATTGGTATATGCATCATGTTGTATCAAT
34225181 GTAGCTATGCTTTTATATCTTGAATCATGAAAGTACTAGTGCCTAACAACCCATTTTTCAGTGGT
261 GTAGCTATGCTTTTATATCTTGAATCATGAAAGTACTAGTGCCTAACAACCCATTTTTCAGTGGT
*
34225246 GTCAAAAATAGTGGTTTCGAGACCAAAATACCAACAAGAGAGTCCATAGATATATTTAACTAATA
326 GTCAAAAATAGTGGTTTCGAGACCAAAATACCAACAAGACAGTCCATAGATATATTTAACTAATA
34225311 TTTATGAGTTAAATATAGTGTAATATTGAATCATGATTTAATAGAATTTATTAATTGGCCAGTTG
391 TTTATGAGTTAAATATAGTGTAATATTGAATCATGATTTAATAGAATTTATTAATTGGCCAGTTG
34225376 GTCAAGGTAGAAGTGGTGCGTATTAAAAGTCAAGTGGTTTCGAAAAATGAGGTTTTGAGACATCG
456 GTCAAGGTAGAAGTGGTGCGTATTAAAAGTCAAGTGGTTTCGAAAAATGAGGTTTTGAGACATCG
34225441 TTTCTGTAAATCGAGCCCGTAAATATTTTTATTAAATATTCATGAAGCTGTTATATAGGTGAATT
521 TTTCTGTAAATCGAGCCCGTAAATATTTTTATTAAATATTCATGAAGCTGTTATATAGGTGAATT
*
34225506 GAAGTTTGGTCCAAAAATTTTGATGATTTGATAGTTAATTATGAAAAAAGGACTAAACCGTAAAC
586 GAAGTTTGGTCCAAAAATTTTGATGATTTGATAGTTAATTATGAAAAAAGGACTAAACCGTAAAA
34225571 TTAGTAAAAGTTAATTGATATTGGTTTTCATTTGTTAAAAGGCTAGATTAATTAATGTTAAGTGT
651 TTAGTAAAAGTTAATTGATATTGGTTTTCATTTGTTAAAAGGCTAGATTAATTAATGTTAAGTGT
34225636 TTTAAGTTGCAAATTACCCTATTTATAGCTAGTGGCCAATTAGTATATATTTATTTGAAATTTTA
716 TTTAAGTTGCAAATTACCCTATTTATAGCTAGTGGCCAATTAGTATATATTTATTTGAAATTTTA
34225701 TAATTTAAAATTTAATTAAATTAAGTGAAAATAATATAATAAAGTTTAAAATATAAAACAAAAGA
781 TAATTTAAAATTTAATTAAATTAAGTGAAAATAATATAATAAAGTTTAAAATATAAAACAAAAGA
34225766 AATCATCATCATTGTAATGTCCGTCCTATATCCGATCCGAGCTATAAGATATGAAAAGTATAAAA
846 AATCATCATCATTGTAATGTCCGTCCTATATCCGATCCGAGCTATAAGATATGAAAAGTATAAAA
*
34225831 ATTTAAAATCATTCACAATTTAATAAAAAAATAACCAAAAAATTCAGTTGCAATAATTTCTATGC
911 ATTTAAAATCATTCACAATTTAATAAAAAAATAACCAAAAAATTCAATTGCAATAATTTCTATGC
*
34225896 TATTCAAT
976 TATGCAAT
34225904 CAAAACGGGA
Statistics
Matches: 963, Mismatches: 20, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
998 963 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (998 bp):
ACCATTTCCTTACTTGTATTGATGCTATTAAATATTGTAACCAAATCCTAATGTTAATGGATAGG
TAAAATGAATAGATTAATCATGAAATTGCTTGCAAAAATGTCAATGTCATGTGTGCACAGGTATT
GAAATTCTATTTAACTATAAGCATATAATGTTCACTTGGAAAGTTTGTAACAAATGTTGGATTTG
GTATGATTGATGAGTGTCTATTTAGGTTGATTTGTTAATTGGTATATGCATCATGTTGTATCAAT
GTAGCTATGCTTTTATATCTTGAATCATGAAAGTACTAGTGCCTAACAACCCATTTTTCAGTGGT
GTCAAAAATAGTGGTTTCGAGACCAAAATACCAACAAGACAGTCCATAGATATATTTAACTAATA
TTTATGAGTTAAATATAGTGTAATATTGAATCATGATTTAATAGAATTTATTAATTGGCCAGTTG
GTCAAGGTAGAAGTGGTGCGTATTAAAAGTCAAGTGGTTTCGAAAAATGAGGTTTTGAGACATCG
TTTCTGTAAATCGAGCCCGTAAATATTTTTATTAAATATTCATGAAGCTGTTATATAGGTGAATT
GAAGTTTGGTCCAAAAATTTTGATGATTTGATAGTTAATTATGAAAAAAGGACTAAACCGTAAAA
TTAGTAAAAGTTAATTGATATTGGTTTTCATTTGTTAAAAGGCTAGATTAATTAATGTTAAGTGT
TTTAAGTTGCAAATTACCCTATTTATAGCTAGTGGCCAATTAGTATATATTTATTTGAAATTTTA
TAATTTAAAATTTAATTAAATTAAGTGAAAATAATATAATAAAGTTTAAAATATAAAACAAAAGA
AATCATCATCATTGTAATGTCCGTCCTATATCCGATCCGAGCTATAAGATATGAAAAGTATAAAA
ATTTAAAATCATTCACAATTTAATAAAAAAATAACCAAAAAATTCAATTGCAATAATTTCTATGC
TATGCAATAATTTAAAATCATTC
Found at i:34237744 original size:44 final size:45
Alignment explanation
Indices: 34237687--34237780 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 45
34237677 TTCAAGAGTA
*
34237687 AGAACAACTGACTCTAGGTTGATTAATGGAAATCTCTTTCTAATT
1 AGAACAACTGACTCTAGGTTCATTAATGGAAATCTCTTTCTAATT
*
34237732 AGAA-AACTGACTCTAGGTTCATTAATTGAAATCTCTTTCTAATT
1 AGAACAACTGACTCTAGGTTCATTAATGGAAATCTCTTTCTAATT
34237776 AGAAC
1 AGAAC
34237781 CCCTATCGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 42 0.91
45 4 0.09
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (45 bp):
AGAACAACTGACTCTAGGTTCATTAATGGAAATCTCTTTCTAATT
Found at i:34260423 original size:22 final size:22
Alignment explanation
Indices: 34260394--34260443 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
34260384 TCTATGATTC
34260394 AGGGTTTAAGGGA-TATGGGTTA
1 AGGGTTTAA-GGATTATGGGTTA
* *
34260416 GGGGTTTAAGGATTATGGTTTA
1 AGGGTTTAAGGATTATGGGTTA
34260438 AGGGTT
1 AGGGTT
34260444 GGGGTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (22 bp):
AGGGTTTAAGGATTATGGGTTA
Found at i:34260490 original size:8 final size:7
Alignment explanation
Indices: 34260417--34260723 Score: 80
Period size: 7 Copynumber: 43.9 Consensus size: 7
34260407 TATGGGTTAG
34260417 GGGTTTA
1 GGGTTTA
* *
34260424 AGGATTA
1 GGGTTTA
*
34260431 TGGTTTAA
1 GGGTTT-A
*
34260439 GGG-TTG
1 GGGTTTA
34260445 GGGTTTA
1 GGGTTTA
*
34260452 AGGTTTA
1 GGGTTTA
*
34260459 GGTGTTGA
1 GG-GTTTA
* *
34260467 AGGTTAA
1 GGGTTTA
34260474 GGG-TTA
1 GGGTTTA
34260480 GGGGTTTA
1 -GGGTTTA
34260488 GGGTTTA
1 GGGTTTA
**
34260495 TAGTTTA
1 GGGTTTA
**
34260502 TAGTTTA
1 GGGTTTA
* *
34260509 TGTTTTA
1 GGGTTTA
* * *
34260516 TGATTCA
1 GGGTTTA
*
34260523 AGGTTTA
1 GGGTTTA
*
34260530 GGG--GA
1 GGGTTTA
*
34260535 GGGATTA
1 GGGTTTA
*
34260542 TGGTTT-
1 GGGTTTA
34260548 GTGGTTTA
1 G-GGTTTA
*
34260556 CGGTTTAA
1 GGGTTT-A
*
34260564 GGG-TTG
1 GGGTTTA
34260570 GGGTTTA
1 GGGTTTA
*
34260577 AGGTTTA
1 GGGTTTA
34260584 -GGTGTTA
1 GGGT-TTA
*
34260591 GGGGTTAA
1 -GGGTTTA
*
34260599 AGGTTTA
1 GGGTTTA
**
34260606 TAGTTTA
1 GGGTTTA
34260613 GGGTTTA
1 GGGTTTA
*
34260620 GGGGTTA
1 GGGTTTA
34260627 GGGTTTA
1 GGGTTTA
*
34260634 AGGTTTA
1 GGGTTTA
*
34260641 -GGTGGTA
1 GGGT-TTA
*
34260648 GGGGTTAA
1 -GGGTTTA
* *
34260656 GGG-ATG
1 GGGTTTA
34260662 GGGTTTA
1 GGGTTTA
*
34260669 GGGGTTA
1 GGGTTTA
**
34260676 TTGTTTA
1 GGGTTTA
34260683 GGGTTTAA
1 GGGTTT-A
34260691 GGG-TT-
1 GGGTTTA
34260696 GGTGTTTA
1 GG-GTTTA
*
34260704 AGGTTTA
1 GGGTTTA
34260711 GGGTCTT-
1 GGGT-TTA
34260718 GGGTTT
1 GGGTTT
34260724 TTAAGATAGG
Statistics
Matches: 217, Mismatches: 60, Indels: 47
0.67 0.19 0.15
Matches are distributed among these distances:
5 6 0.03
6 20 0.09
7 161 0.74
8 24 0.11
9 6 0.03
ACGTcount: A:0.19, C:0.01, G:0.39, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:34260492 original size:21 final size:21
Alignment explanation
Indices: 34260395--34260492 Score: 63
Period size: 21 Copynumber: 4.6 Consensus size: 21
34260385 CTATGATTCA
* *
34260395 GGGTTTAAGGGATATGGGTTAG
1 GGGTTT-AGGGTTAAGGGTTAG
* * * *
34260417 GGGTTTAAGGATTATGGTTTAA
1 GGGTTT-AGGGTTAAGGGTTAG
* *
34260439 GGG-TTGGGGTTTAAGGTTTAG
1 GGGTTTAGGG-TTAAGGGTTAG
* * *
34260460 GTGTTGAAGGTTAAGGGTTAG
1 GGGTTTAGGGTTAAGGGTTAG
34260481 GGGTTTAGGGTT
1 GGGTTTAGGGTT
34260493 TATAGTTTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 5
0.73 0.20 0.06
Matches are distributed among these distances:
20 2 0.03
21 32 0.55
22 24 0.41
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (21 bp):
GGGTTTAGGGTTAAGGGTTAG
Found at i:34260612 original size:36 final size:35
Alignment explanation
Indices: 34260572--34260640 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
34260562 AAGGGTTGGG
*
34260572 GTTTAAGGTTTAGGTGTTAGGGGTTAAAGGTTTATA
1 GTTTAAGGTTTAGGGGTTA-GGGTTAAAGGTTTATA
* *
34260608 GTTTAGGGTTTAGGGGTTAGGGTTTAAGGTTTA
1 GTTTAAGGTTTAGGGGTTAGGGTTAAAGGTTTA
34260641 GGTGGTAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (35 bp):
GTTTAAGGTTTAGGGGTTAGGGTTAAAGGTTTATA
Found at i:34260613 original size:22 final size:22
Alignment explanation
Indices: 34260557--34260615 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
34260547 TGTGGTTTAC
* *
34260557 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGTGTTAGGGGTTAAA
*
34260578 GGTTTAGGTGTTAGGGGTTAAA
1 GGTTTAAGTGTTAGGGGTTAAA
34260600 GGTTTATAGT-TTAGGG
1 GGTTTA-AGTGTTAGGG
34260616 TTTAGGGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 20 0.62
23 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
GGTTTAAGTGTTAGGGGTTAAA
Found at i:34263111 original size:29 final size:29
Alignment explanation
Indices: 34263078--34263185 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
34263068 GTTTATTCGG
34263078 TTTAATGTGAATAAATTATCAATTTTTGA-
1 TTTAAT-TGAATAAATTATCAATTTTTGAT
*
34263107 TTTAATTGAATAAA-T-T--ATGTTTGAT
1 TTTAATTGAATAAATTATCAATTTTTGAT
* *
34263132 TTTAAGTGAATAAATTATCAATTTTTTAT
1 TTTAATTGAATAAATTATCAATTTTTGAT
* *
34263161 TTTAATTTAATAAATTATCGATTTT
1 TTTAATTGAATAAATTATCAATTTT
34263186 ATATTTGATT
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
24 7 0.10
25 13 0.19
26 2 0.03
27 2 0.03
28 8 0.12
29 35 0.52
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (29 bp):
TTTAATTGAATAAATTATCAATTTTTGAT
Found at i:34263129 original size:24 final size:25
Alignment explanation
Indices: 34263102--34263149 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34263092 ATTATCAATT
*
34263102 TTTGA-TTTAATTGAATAAATTATG
1 TTTGATTTTAAGTGAATAAATTATG
34263126 TTTGATTTTAAGTGAATAAATTAT
1 TTTGATTTTAAGTGAATAAATTAT
34263150 CAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (25 bp):
TTTGATTTTAAGTGAATAAATTATG
Found at i:34272795 original size:45 final size:45
Alignment explanation
Indices: 34272648--34272843 Score: 187
Period size: 46 Copynumber: 4.3 Consensus size: 45
34272638 ATATATATAT
* * *
34272648 GTTATTGCAAACATGATTAAAACGACTAAGACCATAGCTGAAAGAC
1 GTTATGGC-AACATGATTAAAACAAGTAAGACCATAGCTGAAAGAC
** * * * * *
34272694 GACATGACAATATGAGT-AAACGAGTAAGACCATAGCTGAAAAAC
1 GTTATGGCAACATGATTAAAACAAGTAAGACCATAGCTGAAAGAC
* * * *
34272738 ATTATGGGAACATGATTAAAACAAGTAAGACTATAGTTGAAAGAC
1 GTTATGGCAACATGATTAAAACAAGTAAGACCATAGCTGAAAGAC
* * * *
34272783 GTTGTGGCAACATGAATTAAAATAAGTAAGACCATAGTTGAAAGAT
1 GTTATGGCAACATG-ATTAAAACAAGTAAGACCATAGCTGAAAGAC
* *
34272829 GCTATGGCATCATGA
1 GTTATGGCAACATGA
34272844 CGGAAGTAAG
Statistics
Matches: 120, Mismatches: 28, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
44 35 0.29
45 42 0.35
46 43 0.36
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.22
Consensus pattern (45 bp):
GTTATGGCAACATGATTAAAACAAGTAAGACCATAGCTGAAAGAC
Found at i:34272813 original size:46 final size:45
Alignment explanation
Indices: 34272657--34272827 Score: 175
Period size: 45 Copynumber: 3.8 Consensus size: 45
34272647 TGTTATTGCA
* * * * *
34272657 AACATGATTAAAACGACTAAGACCATAGCTGAAAGACGA-CATGAC
1 AACATGATTAAAACAAGTAAGACCATAGTTGAAAGAC-ATTATGGC
* * * * * *
34272702 AATATGAGT-AAACGAGTAAGACCATAGCTGAAAAACATTATGGG
1 AACATGATTAAAACAAGTAAGACCATAGTTGAAAGACATTATGGC
* * *
34272746 AACATGATTAAAACAAGTAAGACTATAGTTGAAAGACGTTGTGGC
1 AACATGATTAAAACAAGTAAGACCATAGTTGAAAGACATTATGGC
*
34272791 AACATGAATTAAAATAAGTAAGACCATAGTTGAAAGA
1 AACATG-ATTAAAACAAGTAAGACCATAGTTGAAAGA
34272828 TGCTATGGCA
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 35 0.33
45 41 0.39
46 28 0.27
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (45 bp):
AACATGATTAAAACAAGTAAGACCATAGTTGAAAGACATTATGGC
Found at i:34274325 original size:25 final size:25
Alignment explanation
Indices: 34274294--34274381 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
34274284 TTTGTATATG
*
34274294 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
34274319 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTGCTTTATA-G--ATT
* * *
34274347 -TTATTTTAAGTTGTTTTACATATT
1 ATTATTTTAAGTTGCTTTATAGATT
34274371 ACTTATTTTAA
1 A-TTATTTTAA
34274382 AATTAACCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.19
27 17 0.33
28 3 0.06
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:34279099 original size:26 final size:26
Alignment explanation
Indices: 34279057--34279125 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
34279047 TCAATTCAAT
* * *
34279057 TCAAAAAAAAAT-CAAAAATCAAAAA
1 TCAAGAAAAAATAAAAAAAGCAAAAA
*
34279082 TCAAGAAAAAATAAAAAAAGGAAAAA
1 TCAAGAAAAAATAAAAAAAGCAAAAA
*
34279108 TCTAGATAAAAATAAAAA
1 TCAAGA-AAAAATAAAAA
34279126 TCAAAATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 11 0.30
26 15 0.41
27 11 0.30
ACGTcount: A:0.74, C:0.07, G:0.06, T:0.13
Consensus pattern (26 bp):
TCAAGAAAAAATAAAAAAAGCAAAAA
Found at i:34279100 original size:27 final size:27
Alignment explanation
Indices: 34279070--34279125 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
34279060 AAAAAAAATC
*
34279070 AAAAATCAAAAATCAAGA-AAAAATAA
1 AAAAAGCAAAAATCAAGATAAAAATAA
* *
34279096 AAAAAGGAAAAATCTAGATAAAAATAA
1 AAAAAGCAAAAATCAAGATAAAAATAA
34279123 AAA
1 AAA
34279126 TCAAAATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (27 bp):
AAAAAGCAAAAATCAAGATAAAAATAA
Found at i:34279140 original size:14 final size:15
Alignment explanation
Indices: 34279119--34279154 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
34279109 CTAGATAAAA
34279119 ATAAAAATCAAAATG
1 ATAAAAATCAAAATG
*
34279134 A-AAAAATGAAAATG
1 ATAAAAATCAAAATG
34279148 ATAAAAA
1 ATAAAAA
34279155 AAAGAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.17
Consensus pattern (15 bp):
ATAAAAATCAAAATG
Found at i:34279184 original size:23 final size:22
Alignment explanation
Indices: 34279139--34279180 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
34279129 AAATGAAAAA
*
34279139 ATGAAAATGATAAAAAAAAGAG
1 ATGAAAATGAAAAAAAAAAGAG
34279161 ATGAAAA-GAAAAGAAAAAAG
1 ATGAAAATGAAAA-AAAAAAG
34279181 GAGAGGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (22 bp):
ATGAAAATGAAAAAAAAAAGAG
Found at i:34280088 original size:49 final size:49
Alignment explanation
Indices: 34280008--34280152 Score: 186
Period size: 48 Copynumber: 3.0 Consensus size: 49
34279998 AAGGAAAAGG
* *
34280008 GACCAAGTTGAAAACCCGCAAATGGCGCTTTGATTCCTAAAAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAAAAAAAAA
* * * * *
34280057 GACCAAGGGGAAAACCCACAAAGGGCACTTTGATTCCT-AAAAAAGAGA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAAAAAAAAA
* * *
34280105 GACCAAAGTGAAAACCCGCAAAGGGCGCTTTAAATCC-AAAAAAAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAAAAAAAAA
34280153 TAAAAAGAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
48 47 0.59
49 33 0.41
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.14
Consensus pattern (49 bp):
GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAAAAAAAAA
Found at i:34280165 original size:15 final size:15
Alignment explanation
Indices: 34280144--34280178 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
34280134 TTAAATCCAA
*
34280144 AAAAAAAAATAAAAAG
1 AAAAAAAAA-GAAAAG
34280160 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
34280175 AAAA
1 AAAA
34280179 TGGAGAGGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:34281559 original size:88 final size:89
Alignment explanation
Indices: 34281404--34281578 Score: 235
Period size: 88 Copynumber: 2.0 Consensus size: 89
34281394 GAAATTACAA
*
34281404 AGCCTTGCCTCCCTGGGTTACAACGGAACAGGTTAAAAAAAATAGCAGATCTTGCCTTCCTACAC
1 AGCCTTGCCTCCCTGGGTTACAACGGAACAGGTT--AAAAAATAACAGATCTTGCCTTCCTACAC
34281469 TGACAGCGAAGCAGATCGAAGACGCC
64 TGACAGCGAAGCAGATCGAAGACGCC
* * * * * **
34281495 AGCCTTGCCTCCCTTGGTTTCAGCGGAGCAGGTT-GAAAATAACAGATCTTGCCTTCCTGTACTG
1 AGCCTTGCCTCCCTGGGTTACAACGGAACAGGTTAAAAAATAACAGATCTTGCCTTCCTACACTG
* *
34281559 ACGGTGAAGCAGATCGAAGA
66 ACAGCGAAGCAGATCGAAGA
34281579 TACCAGTCCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
88 44 0.59
91 30 0.41
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (89 bp):
AGCCTTGCCTCCCTGGGTTACAACGGAACAGGTTAAAAAATAACAGATCTTGCCTTCCTACACTG
ACAGCGAAGCAGATCGAAGACGCC
Found at i:34281742 original size:132 final size:132
Alignment explanation
Indices: 34281583--34281879 Score: 454
Period size: 132 Copynumber: 2.2 Consensus size: 132
34281573 CGAAGATACC
*
34281583 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTGCAGATCTTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGTAGT
* * * * *
34281648 AGTGGAGCAGATCAAATAC-GACAAATTTTATCTTCCCC-AGTTAGTAGGGAAGCTGATTTAAGC
66 AGTGAAGCAGATCAAAGACAG-CAAATCTTATCTTCCCCAAG-TAGTAGGGAAGCAGATTTAAAC
34281711 CACT
129 CACT
* *
34281715 AGTCCTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGTAGT
* * *
34281780 AGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGTAAGCAGATTTAAACCA
66 AGTGAAGCAGATCAAAGACAGCAAATCTTATCTTCCCCAAGTAGTAGGGAAGCAGATTTAAACCA
34281845 CT
131 CT
*
34281847 AGTCCTATCTCCCTGGGCAGCAGTGGAATAGGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGT
34281880 TGAAGATACC
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
132 146 0.98
133 3 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (132 bp):
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGTAGT
AGTGAAGCAGATCAAAGACAGCAAATCTTATCTTCCCCAAGTAGTAGGGAAGCAGATTTAAACCA
CT
Found at i:34282030 original size:131 final size:132
Alignment explanation
Indices: 34281890--34282487 Score: 765
Period size: 132 Copynumber: 4.5 Consensus size: 132
34281880 TGAAGATACC
* * **
34281890 AGTCTTATCTCCCTGGACAGCTGTGGAATAGGTCGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
34281955 AGAGGAGCAGATCAAAAACGGCGAATCTTATCTT-CCCAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282019 CT
131 CT
* * *
34282021 AGTCCTATCTCCCTGGACAGTAGTGAAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
34282086 AGTGAAGCATATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTAAAGCCA
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282151 CT
131 CT
*
34282153 AGTCCTATCTCCCTGGACAACAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * ** * * * * * **
34282218 AGTGAAGCAGATCGAAGACGGTGAATCTTATC-TCCCTAGACAGCAATGGAA-TAGGTTGAAGAT
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAG-TAGGGAAGCAGATTTAAGCC
*
34282281 ACC
130 ACT
* * *
34282284 ATTCTTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCAAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
34282349 AGTGGAGCAAATCAAAGACGACGAATCTTATTTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282414 CT
131 CT
* * * * * *
34282416 AGTCCTATCTCCTTGGACAGCAGCGTAATAGGTTGAAGATTGTA-AG-CCTTATCTCCCTAAGCA
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAA-AAT-TACAGATCTTATCTCCCTAAGCA
34282479 GTAGTGGAG
64 GTAGTGGAG
34282488 TAGGTTGAAA
Statistics
Matches: 399, Mismatches: 62, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
131 195 0.49
132 198 0.50
133 4 0.01
134 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (132 bp):
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
CT
Found at i:34282073 original size:175 final size:175
Alignment explanation
Indices: 34281715--34282079 Score: 500
Period size: 175 Copynumber: 2.1 Consensus size: 175
34281705 TTAAGCCACT
* *
34281715 AGTCCTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGTAGT
1 AGTCTTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
34281780 AGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGTAAGCAGATTTAAACCA
66 AGAGAAGCAGATCAAAAACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAGCAGATTTAAACCA
* * ** *
34281845 CTAGTCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGATACC
131 CTAGTCCTATCTCCCTGGACAGCAGTGAAATAGGTCAAAAATACC
* * * * **
34281890 AGTCTTATCTCCCTGGACAGCTGTGGAATAGGTCGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
34281955 AGAGGAGCAGATCAAAAACGGCGAATCTTATCTT-CCCAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGAGAAGCAGATCAAAAACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAGCAGATTTAAACCA
*
34282019 CTAGTCCTATCTCCCTGGACAGTAGTGAAATAGGTCAAAAATTA-C
131 CTAGTCCTATCTCCCTGGACAGCAGTGAAATAGGTCAAAAA-TACC
34282064 AGATCTTATCTCCCTA
1 AG-TCTTATCTCCCTA
34282080 AGCAGTAGTG
Statistics
Matches: 165, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
174 65 0.39
175 100 0.61
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (175 bp):
AGTCTTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGCAGT
AGAGAAGCAGATCAAAAACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAGCAGATTTAAACCA
CTAGTCCTATCTCCCTGGACAGCAGTGAAATAGGTCAAAAATACC
Found at i:34282132 original size:306 final size:307
Alignment explanation
Indices: 34281572--34282210 Score: 996
Period size: 306 Copynumber: 2.1 Consensus size: 307
34281562 GTGAAGCAGA
*
34281572 TCGAAGATACCAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTGCAGATCTTATCT
1 TCGAAGATACCAGTCTTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTGCAGATCTTATCT
* * * * * *
34281637 CCCTAAGTAGTAGTGGAGCAGATCAAATACGACAAATTTTATCTTCCCCAGTTAGTAGGGAAGCT
66 CCCTAAGCAGTAGAGGAGCAGATCAAAAACGACAAATCTTATCTTCCCCAGGTAGTAGGGAAGCA
*
34281702 GATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTCAAAAATTACAGATCTTAT
131 GATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGAAATAGGTCAAAAATTACAGATCTTAT
* *
34281767 CTCCCTAAGTAGTAGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGTAAG
196 CTCCCTAAGCAGTAGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAG
* *
34281832 CAGATTTAAA-CCACTAGTCCTATCTCCCTGGGCAGCAGTGGAATAGG
261 CAGA-TTAAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGG
* * * *
34281879 TTGAAGATACCAGTCTTATCTCCCTGGACAGCTGTGGAATAGGTCGAAAATTGTAGATCTTATCT
1 TCGAAGATACCAGTCTTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTGCAGATCTTATCT
* *
34281944 CCCTAAGCAGTAGAGGAGCAGATCAAAAACGGCGAATCTTATCTT-CCCAGGTAGTAGGGAAGCA
66 CCCTAAGCAGTAGAGGAGCAGATCAAAAACGACAAATCTTATCTTCCCCAGGTAGTAGGGAAGCA
* **
34282008 GATTTAAGCCACTAGTCCTATCTCCCTGGACAGTAGTGAAATAGGTCAAAAATTACAGATCTTAT
131 GATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGAAATAGGTCAAAAATTACAGATCTTAT
* ** *
34282073 CTCCCTAAGCAGTAGTGAAGCATATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAG
196 CTCCCTAAGCAGTAGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAG
34282138 CAGATTAAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGG
261 CAGATTAAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGG
*
34282185 TCGAAAATTA-CAGATCTTATCTCCCT
1 TCGAAGA-TACCAG-TCTTATCTCCCT
34282211 AAGCAGTAGT
Statistics
Matches: 302, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
305 5 0.02
306 184 0.61
307 113 0.37
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (307 bp):
TCGAAGATACCAGTCTTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATTGCAGATCTTATCT
CCCTAAGCAGTAGAGGAGCAGATCAAAAACGACAAATCTTATCTTCCCCAGGTAGTAGGGAAGCA
GATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGAAATAGGTCAAAAATTACAGATCTTAT
CTCCCTAAGCAGTAGTGAAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAAGTAGTAGGGAAG
CAGATTAAAGCCACTAGTCCTATCTCCCTGGACAACAGTGGAATAGG
Found at i:34282184 original size:132 final size:132
Alignment explanation
Indices: 34281890--34282484 Score: 759
Period size: 131 Copynumber: 4.5 Consensus size: 132
34281880 TGAAGATACC
* * **
34281890 AGTCTTATCTCCCTGGACAGCTGTGGAATAGGTCGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
34281955 AGAGGAGCAGATCAAAAACGGCGAATCTTATCTT-CCCAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGAAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282019 CT
131 CT
* * *
34282021 AGTCCTATCTCCCTGGACAGTAGTGAAATAGGTCAAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
34282086 AGTGAAGCATATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTAAAGCCA
66 AGTGAAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282151 CT
131 CT
*
34282153 AGTCCTATCTCCCTGGACAACAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * ** * * * * * **
34282218 AGTGAAGCAGATCGAAGACGGTGAATCTTATC-TCCCTAGACAGCAATGGAA-TAGGTTGAAGAT
66 AGTGAAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAG-TAGGGAAGCAGATTTAAGCC
*
34282281 ACC
130 ACT
* * *
34282284 ATTCTTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCAAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * *
34282349 AGTGGAGCAAATCAAAGACGACGAATCTTATTTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGAAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34282414 CT
131 CT
* * * * * *
34282416 AGTCCTATCTCCTTGGACAGCAGCGTAATAGGTTGAAGATTGTA-AG-CCTTATCTCCCTAAGCA
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAA-AAT-TACAGATCTTATCTCCCTAAGCA
34282479 GTAGTG
64 GTAGTG
34282485 GAGTAGGTTG
Statistics
Matches: 396, Mismatches: 62, Indels: 11
0.84 0.13 0.02
Matches are distributed among these distances:
131 195 0.49
132 195 0.49
133 4 0.01
134 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.25
Consensus pattern (132 bp):
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGAAGCAGATCAAAGACGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
CT
Found at i:34282230 original size:263 final size:263
Alignment explanation
Indices: 34281890--34282908 Score: 904
Period size: 263 Copynumber: 3.8 Consensus size: 263
34281880 TGAAGATACC
* * **
34281890 AGTCTTATCTCCCTGGACAGCTGTGGAATAGGTCGAAAATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
34281955 AGAGGAGCAGATCAAAAACGGCGAATCTTATCTTCCCAGGTAGTAGGGAAGCAGATTTAAGCCAC
66 AGTGGAGCAGATCGAAAACGGCGAATCTTATC-TCCCAGGCAGTAGGGAAGCAGATTGAAGACAC
* *
34282020 TAGTCCTATCTCCCTGGACAGTAGTGAAATAGGTCAAAAAT-TACAGATCTTATCTCCCTAAGCA
130 TAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATGTACAGATCTTATCTCCCTAAGCA
* * *
34282084 GTAGTGAAGCATATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTAAAGC
195 GTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGC
34282149 CACT
260 CACT
*
34282153 AGTCCTATCTCCCTGGACAACAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * * * * * *
34282218 AGTGAAGCAGATCGAAGACGGTGAATCTTATCTCCCTAGACAGCAATGGAA-TAGGTTGAAGATA
66 AGTGGAGCAGATCGAAAACGGCGAATCTTATCTCCC-AGGCAG-TAGGGAAGCAGATTGAAGACA
* * * * *
34282282 CCATTCTTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAAT-TACAGATCTTATCTCCCAAAGC
129 CTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATGTACAGATCTTATCTCCCTAAGC
* * * *
34282346 AGTAGTGGAGCAAATCAAAGACGACGAATCTTATTTTCCCCAGGTAGTAGGGAAGCAGATTTAAG
194 AGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAG
34282411 CCACT
259 CCACT
* * * * * *
34282416 AGTCCTATCTCCTTGGACAGCAGCGTAATAGGTTGAAGATTGTA-AG-CCTTATCTCCCTAAGCA
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAA-AAT-TACAGATCTTATCTCCCTAAGCA
* * * *** * * * *
34282479 GTAGTGGAGTAGGTTGAAAATTAC-AATCTTATCTCCTTAAGCAATAGTGG-AGCAGATCGAAGA
64 GTAGTGGAGCAGATCGAAAACGGCGAATCTTATCTCC-CAGGCAGTAG-GGAAGCAGATTGAAGA
** * * * * *** * *
34282542 CGGTGAATCTTATTCTCCCAAGCGAAGTAGATACTAGCCTTGCCTCCCTGGGTTACAGTGGAGTG
127 CACT-AGTCCTA-TCTCCC-TG-G-A-CAG---C-AG---TG---GAATAGG-T-CA----A--A
* *
34282607 GATCGCATCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTT
168 AAT-GTA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTT
* * *
34282672 CCCCAAGTAGTAGGGAAGCAAATTTAAGTCACT
231 CCCCAGGTAGTAGGGAAGCAGATTTAAGCCACT
* * * * * *
34282705 AGTCCTATTTCCCTAGACAGCAGTGGAATAGGTTGAAGATTACAGATCTTATCTTCCTAAGAAGT
1 AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * * * *
34282770 AGTGGAGCAGATCGAAGACGTCTAATCTTATCTTCCCCATGTAGTAGGGAAGCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAAACGGCGAATCTTATC-T-CCCAGGCAGTAGGGAAGCAGATTGAAGACA
* * * * *
34282835 TTAGTCCTATCTCCTTGGACAACAGTGGAATAGGTTAAAGATTGTA-AG-TCTTATCTCCCTAAG
129 CTAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAA-AATGTACAGATCTTATCTCCCTAAG
34282898 CAGTAGTGGAG
193 CAGTAGTGGAG
34282909 TAGGTTGAAT
Statistics
Matches: 593, Mismatches: 122, Indels: 81
0.74 0.15 0.10
Matches are distributed among these distances:
261 2 0.00
262 29 0.05
263 288 0.49
264 41 0.07
265 5 0.01
266 1 0.00
267 3 0.01
268 3 0.01
269 1 0.00
271 1 0.00
272 2 0.00
273 1 0.00
274 1 0.00
275 5 0.01
278 5 0.01
279 1 0.00
280 1 0.00
281 2 0.00
282 1 0.00
284 1 0.00
285 1 0.00
286 3 0.01
287 3 0.01
288 5 0.01
289 150 0.25
290 16 0.03
291 19 0.03
292 2 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (263 bp):
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAAACGGCGAATCTTATCTCCCAGGCAGTAGGGAAGCAGATTGAAGACACT
AGTCCTATCTCCCTGGACAGCAGTGGAATAGGTCAAAAATGTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCC
ACT
Found at i:34282233 original size:44 final size:44
Alignment explanation
Indices: 34282038--34282233 Score: 116
Period size: 44 Copynumber: 4.5 Consensus size: 44
34282028 TCTCCCTGGA
** * *
34282038 CAGTAGTGAAATAGGTCAAAAATTACAGATCTTATCTCCCTAAG
1 CAGTAGTGAAGCAGATCGAAAATTACAGATCTTATCTCCCTAAG
* * ** * *
34282082 CAGTAGTGAAGCATATCGAAGATGGC-GAATCTTATCTTCCCCAGG
1 CAGTAGTGAAGCAGATCGAAAATTACAG-ATCTTATC-TCCCTAAG
* * * *** * *
34282127 TAGTAGGGAAGCAGAT-TAAAGCCACTAG-TCCTATCTCCCTGGACAA
1 CAGTAGTGAAGCAGATCGAAAATTAC-AGATCTTATCTCCCT--A-AG
* *
34282173 CAGT-G-GAA-TAGGTCGAAAATTACAGATCTTATCTCCCTAAG
1 CAGTAGTGAAGCAGATCGAAAATTACAGATCTTATCTCCCTAAG
34282214 CAGTAGTGAAGCAGATCGAA
1 CAGTAGTGAAGCAGATCGAA
34282234 GACGGTGAAT
Statistics
Matches: 106, Mismatches: 34, Indels: 24
0.65 0.21 0.15
Matches are distributed among these distances:
41 5 0.05
42 2 0.02
43 13 0.12
44 61 0.58
45 21 0.20
46 4 0.04
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (44 bp):
CAGTAGTGAAGCAGATCGAAAATTACAGATCTTATCTCCCTAAG
Found at i:34282354 original size:44 final size:43
Alignment explanation
Indices: 34282158--34282342 Score: 135
Period size: 44 Copynumber: 4.2 Consensus size: 43
34282148 CCACTAGTCC
** *
34282158 TATCTCCCTGGACAACAGTGGAATAGGTCGAAAATTACAGATCT
1 TATCTCCCAAGACAGCAGTGGAATAGGTCGAAAATTACA-ATCT
* * * ** *
34282202 TATCTCCCTAAG-CAGTAGT-GAAGCAGATCGAAGACGGT-GAATCT
1 TATCTCCC-AAGACAGCAGTGGAA-TAGGTCGAA-A-ATTACAATCT
* * * * *
34282246 TATCTCCCTAGACAGCAATGGAATAGGTTGAAGA-TACCATTCT
1 TATCTCCCAAGACAGCAGTGGAATAGGTCGAAAATTA-CAATCT
**
34282289 TATCTCCCTGGACAGCAGTGGAATAGGTCGAAAATTACAGATCT
1 TATCTCCCAAGACAGCAGTGGAATAGGTCGAAAATTACA-ATCT
34282333 TATCTCCCAA
1 TATCTCCCAA
34282343 AGCAGTAGTG
Statistics
Matches: 105, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
41 1 0.01
43 41 0.39
44 56 0.53
45 6 0.06
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (43 bp):
TATCTCCCAAGACAGCAGTGGAATAGGTCGAAAATTACAATCT
Found at i:34282427 original size:175 final size:175
Alignment explanation
Indices: 34282246--34282560 Score: 400
Period size: 175 Copynumber: 1.8 Consensus size: 175
34282236 CGGTGAATCT
* * ** *
34282246 TATCTCCCTAGACAGCAATGGAATAGGTTGAAGA-TACCATTCTTATCTCCCT-GGACAGCAGTG
1 TATCTCCCTAGACAGCAACGGAATAGGTTGAAGATTACAAGCCTTATCTCCCTAAG-CAGCAGTG
*
34282309 GAATAGGTCGAAAATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAAATCAAAGACGACGAA
65 GAATAGGTCGAAAATTACA-ATCTTATCTCCCAAAGCAATAGTGGAGCAAATCAAAGACGACGAA
*
34282374 TCTTATTTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCC
129 TCTTATTCTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCC
* * * * ** *
34282421 TATCTCCTTGGACAGCAGCGTAATAGGTTGAAGATTGTAAGCCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAGACAGCAACGGAATAGGTTGAAGATTACAAGCCTTATCTCCCTAAGCAGCAGTGG
* * ** * * **
34282486 AGTAGGTTGAAAATTACAATCTTATCTCCTTAAGCAATAGTGGAGCAGATCGAAGACGGTGAATC
66 AATAGGTCGAAAATTACAATCTTATCTCCCAAAGCAATAGTGGAGCAAATCAAAGACGACGAATC
34282551 TTATTCTCCC
131 TTATTCTCCC
34282561 AAGCGAAGTA
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
175 78 0.67
176 37 0.32
177 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (175 bp):
TATCTCCCTAGACAGCAACGGAATAGGTTGAAGATTACAAGCCTTATCTCCCTAAGCAGCAGTGG
AATAGGTCGAAAATTACAATCTTATCTCCCAAAGCAATAGTGGAGCAAATCAAAGACGACGAATC
TTATTCTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCC
Found at i:34282492 original size:44 final size:43
Alignment explanation
Indices: 34282444--34282530 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
34282434 AGCAGCGTAA
* ** *
34282444 TAGGTTGAAGATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAG
1 TAGGTTGAAAATTACAA-CCTTATCTCCCTAAGCAATAGTGGAG
* *
34282488 TAGGTTGAAAATTACAATCTTATCTCCTTAAGCAATAGTGGAG
1 TAGGTTGAAAATTACAACCTTATCTCCCTAAGCAATAGTGGAG
34282531 CAGATCGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 23 0.62
44 14 0.38
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
TAGGTTGAAAATTACAACCTTATCTCCCTAAGCAATAGTGGAG
Found at i:34282861 original size:132 final size:134
Alignment explanation
Indices: 34282615--34282908 Score: 425
Period size: 132 Copynumber: 2.2 Consensus size: 134
34282605 TGGATCGCAT
*
34282615 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCCCAAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCCCCAAGT
* * * *
34282680 AGTAGGGAAGCAAATTTAAGTCACTAGTCCTATTTCCCTAGACAGCAGTGGAATAGGTTGAAGA-
66 AGTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGAT
34282744 T-TA
131 TGTA
* * * * * *
34282747 CAGATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGACGTCTAATCTTATCTTCCCCATGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCCCCAAGT
* * * *
34282812 AGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCTTGGACAACAGTGGAATAGGTTAAAGAT
66 AGTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGAT
34282877 TGTA
131 TGTA
34282881 -AG-TCTTATCTCCCTAAGCAGTAGTGGAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAG
34282909 TAGGTTGAAT
Statistics
Matches: 143, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
132 138 0.97
133 3 0.02
134 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (134 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGGCGAATCTTATCTTCCCCAAGT
AGTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGAT
TGTA
Found at i:34282930 original size:132 final size:131
Alignment explanation
Indices: 34282615--34282947 Score: 388
Period size: 132 Copynumber: 2.5 Consensus size: 131
34282605 TGGATCGCAT
* *
34282615 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGC-GAATCTTATCTTCCCCAAG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT-TCAG-ATCTTATCTTCCCCAAG
* * * *
34282679 TAGTAGGGAAGCAAATTTAAGTCACTAGTCCTATTTCCCTAGACAGCAGTGGAATAGGTTGAAGA
64 TAGTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGA
34282744 TTA
129 TTA
* * * *
34282747 CAGATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGACGTCTA-ATCTTATCTTCCCCATG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-TTC-AGATCTTATCTTCCCCAAG
* * * *
34282811 TAGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCTTGGACAACAGTGGAATAGGTTAAAGA
64 TAGTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGA
34282876 TTGTA
129 -T-TA
* * * * * *
34282881 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAATATTACAGATCTTATC-TCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATT-CAGATCTTATCTTCCCCAAGT
34282943 AGTAG
65 AGTAG
34282948 TTGAGCAGAT
Statistics
Matches: 170, Mismatches: 24, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
131 13 0.08
132 152 0.89
133 3 0.02
134 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (131 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATTCAGATCTTATCTTCCCCAAGTA
GTAGGGAAGCAAATTTAAGCCACTAGTCCTATCTCCCTAGACAACAGTGGAATAGGTTAAAGATT
A
Found at i:34282974 original size:44 final size:44
Alignment explanation
Indices: 34282615--34283095 Score: 146
Period size: 44 Copynumber: 10.9 Consensus size: 44
34282605 TGGATCGCAT
* * *
34282615 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGA-TGG
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAGT-A
* * * *
34282659 C-GAATCTTATCTTCCCCAAGTAGTAG-GGAAGCAAATT-TA-AGTCA
1 CAG-ATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAGAGT-A
* * * ** * *
34282703 CTAG-TCCTATTTCCCT-AGACAGCAGTGGAATAGGTTGAAGATTA
1 C-AGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGAGTA
* * *
34282747 CAGATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGACGT-
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-GTA
* * * *
34282791 CTA-ATCTTATCTTCCCCATGTAGTAG-GGAAGCAGATTTAAGCCA-T-
1 C-AGATCTTATC-TCCCTAAGCAGTAGTGG-AGCAGATTGAAG--AGTA
* * ** ** ** * *
34282836 TAG-TCCTATCT-CCTTGGACAACAGTGGAATAGGTTAAAGATTGTA
1 CAGATCTTATCTCCCTAAG-CAGTAGTGGAGCAGATTGAAGA--GTA
* * * *
34282881 -AG-TCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAATATTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAGTA
*
34282923 CAGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATTGAAGACGGT-
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA--GTA
* * * *
34282968 GA-ATCTTATCTTTCCC-AGGTAGTAG-GGAAGCAGATT-TA-AGTCA
1 CAGATCTTATC--TCCCTAAGCAGTAGTGG-AGCAGATTGAAGAGT-A
* * * * *
34283011 CTAG-TCCTATCTCCCTAAGCAGTGGTGGAGTAGGTTGAA-AATAA
1 C-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAGT-A
* * *
34283055 CAGATCTTATCTCCCTAAGCAGTAGCGGATCAGATCGAAGA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
34283096 CGACGAATCT
Statistics
Matches: 314, Mismatches: 81, Indels: 83
0.66 0.17 0.17
Matches are distributed among these distances:
41 3 0.01
42 11 0.04
43 45 0.14
44 181 0.58
45 67 0.21
46 6 0.02
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAGTA
Found at i:34283065 original size:176 final size:176
Alignment explanation
Indices: 34282726--34283079 Score: 466
Period size: 176 Copynumber: 2.0 Consensus size: 176
34282716 CCTAGACAGC
*
34282726 AGTGGAATAGGTTGAAGATTACAGATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGACGT
1 AGTGGAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGT
* * * **
34282791 CTAATCTTATCTTCCCCATGTAGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCTTGGACA
66 CGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTAAGACA
*
34282856 ACAGTGGAATAGGTTAAAGATTGTAAGTCTTATCTCCCTAAGCAGT
131 ACAGTGGAATAGGTTAAAGATTGAAAGTCTTATCTCCCTAAGCAGT
* * * * *
34282902 AGTGGAGTAGGTTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATTGAAGACGG
1 AGTGGAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGAC-G
* *
34282967 T-GAATCTTATCTTTCCCAGGTAGTAGGGAAGCAGATTTAAGTCACTAGTCCTATCTCCCTAAG-
65 TCGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCT-CCTAAGA
*** *
34283030 CAGTGGTGGAGTAGGTTGAAA-A-T-AACAGATCTTATCTCCCTAAGCAGT
129 CAACAGTGGAATAGGTT-AAAGATTGAA-AG-TCTTATCTCCCTAAGCAGT
34283078 AG
1 AG
34283080 CGGATCAGAT
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
174 1 0.01
175 3 0.02
176 142 0.92
177 9 0.06
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (176 bp):
AGTGGAATAGGTTGAAGATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGT
CGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTAAGACA
ACAGTGGAATAGGTTAAAGATTGAAAGTCTTATCTCCCTAAGCAGT
Found at i:34283177 original size:132 final size:131
Alignment explanation
Indices: 34282881--34283216 Score: 394
Period size: 132 Copynumber: 2.5 Consensus size: 131
34282871 AAAGATTGTA
* * *
34282881 AGTCTTATCTCCCTAAGCAGT-AGTGGAGTAGGTTGAATATTACAGATCTTATCTCCCTAAGCAG
1 AGTCCTATCTCCCTAAGCAGTCA-T-GAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG
** * ** * *
34282945 TAGTTGAGCAGATTGAAGACGGTGAATCTTATCTTTCCCAGGTAGTAGGGAAGCAGATTTAAGTC
64 TAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCC
34283010 ACT
129 ACT
** * *
34283013 AGTCCTATCTCCCTAAGCAGTGGTGGAGTAGGTTGAAAATAACAGATCTTATCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTCAT-GAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
34283078 AGCGGATCAGATCGAAGACGACGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
65 AGCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCA
34283143 CT
130 CT
* * *
34283145 AGTCCTATCTCCTTGGACAGCAG-CAT-AATAGGTTGAAGATTGTA-AG-CCTTATCTCCCTAAG
1 AGTCCTATCTCCCT--A-AGCAGTCATGAATAGGTTGAA-AAT-TACAGATCTTATCTCCCTAAG
*
34283206 CAGTAGTGGAG
61 CAGTAGCGGAG
34283217 TAGGTTGAAA
Statistics
Matches: 177, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
132 165 0.93
133 4 0.02
134 3 0.02
135 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTAAGCAGTCATGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
GCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAGGTAGTAGGGAAGCAGATTTAAGCCAC
T
Found at i:34283177 original size:308 final size:308
Alignment explanation
Indices: 34282615--34283283 Score: 1027
Period size: 308 Copynumber: 2.2 Consensus size: 308
34282605 TGGATCGCAT
* * *
34282615 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCCCAAGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGT
* *
34282680 AGTAGGGAAGCAAATTTAAGTCACTAGTCCTATTTCCCTAGACAGCAGTGGAATAGGTTGAAGAT
66 AGTAGGGAAGCAAATTTAAGTCACTAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAAAT
* * * * * *
34282745 TACAGATCTTATCTTCCTAAGAAGTAGTGGAGCAGATCGAAGACGTCTAATCTTATCTTCCCCAT
131 AACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAG
* **
34282810 GTAGTAGGGAAGCAGATTTAAGCCATTAGTCCTATCTCCTTGGACAACAGTGGAATAGGTTAAAG
196 GTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTTGGACAACAGCAGAATAGGTTAAAG
* *
34282875 ATTGTAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAATATTA
261 ATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTA
* * * *
34282923 CAGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATTGAAGACGGTGAATCTTATCTTTCCCAGGT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGT
* ** *
34282988 AGTAGGGAAGCAGATTTAAGTCACTAGTCCTATCTCCCTA-AGCAGTGGTGGAGTAGGTTGAAAA
66 AGTAGGGAAGCAAATTTAAGTCACTAGTCCTATCTCCCTAGA-CAGCAGTGGAATAGGTTGAAAA
* *
34283052 TAACAGATCTTATCTCCCTAAGCAGTAGCGGATCAGATCGAAGACGACGAATCTTATCTTCCCCA
130 TAACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCA
* * *
34283117 GGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTTGGACAGCAGCATAATAGGTTGAA
195 GGTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTTGGACAACAGCAGAATAGGTTAAA
34283182 GATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTA
260 GATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTA
* * *
34283231 CA-ATCTTATCTTCTTAAGCAATAGTGGAGCAGATCGAAGACGGTGAATCTTAT
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTAT
34283284 TCTCCCAAGC
Statistics
Matches: 326, Mismatches: 34, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
307 47 0.14
308 279 0.86
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (308 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCCAAGT
AGTAGGGAAGCAAATTTAAGTCACTAGTCCTATCTCCCTAGACAGCAGTGGAATAGGTTGAAAAT
AACAGATCTTATCTCCCTAAGAAGTAGCGGAGCAGATCGAAGACGACGAATCTTATCTTCCCCAG
GTAGTAGGGAAGCAGATTTAAGCCACTAGTCCTATCTCCTTGGACAACAGCAGAATAGGTTAAAG
ATTGTAAGCCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTA
Found at i:34283428 original size:44 final size:45
Alignment explanation
Indices: 34283348--34283435 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 45
34283338 TCGCATCAGA
* * * *
34283348 TCTTATCTCCCTGAGGTTGCAGCGGAGCTGACTGAGAA-AGCAAG
1 TCTTATCCCCCTGAAGTAGCAGCGGAGCAGACTGAGAATAGCAAG
* * *
34283392 TCTTATCCCCCTGAAGTAGCAGTGGGGCAGATTGAGAATAGCAA
1 TCTTATCCCCCTGAAGTAGCAGCGGAGCAGACTGAGAATAGCAA
34283436 ATCATACTTC
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 31 0.86
45 5 0.14
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (45 bp):
TCTTATCCCCCTGAAGTAGCAGCGGAGCAGACTGAGAATAGCAAG
Found at i:34285171 original size:25 final size:25
Alignment explanation
Indices: 34285140--34285227 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
34285130 TTTGTATATG
*
34285140 ATTATTTTAACTTGCTTTATAGATT
1 ATTATTTTAAGTTGCTTTATAGATT
*
34285165 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTGCTTTATA-G--ATT
* * *
34285193 -TTATTTTAAGTTGTTTTACATATT
1 ATTATTTTAAGTTGCTTTATAGATT
34285217 ACTTATTTTAA
1 A-TTATTTTAA
34285228 AATTAACCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.06
25 19 0.37
26 10 0.19
27 17 0.33
28 3 0.06
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.58
Consensus pattern (25 bp):
ATTATTTTAAGTTGCTTTATAGATT
Found at i:34293192 original size:45 final size:45
Alignment explanation
Indices: 34293125--34293397 Score: 321
Period size: 45 Copynumber: 6.0 Consensus size: 45
34293115 TGTTATCATA
* *
34293125 AACATGATTAAAATGGGTAAGACCATAGCTGAAAGACACTATGGC
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
34293170 AATATGATTAAAATGAGTAAGACCATAGCTGGAAGACGCTATGGC
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * * * *
34293215 AACATGATTAAAAAGAGTAAGACCATAGTTGAAAAATGTTATGGC
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
34293260 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGACGTTATGGC
1 AACATG-ATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * *
34293306 AACATGAATTAAAATGAGTAAGACCATAGCTAAAAGATGCTATAGC
1 AACATG-ATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * ** * * * * *
34293352 ATCATAAAGAAAGTTAGTAAGACCATGGTTGAAAGACGCAATGGC
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
34293397 A
1 A
34293398 TCGTTTGACA
Statistics
Matches: 196, Mismatches: 31, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
45 115 0.59
46 81 0.41
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (45 bp):
AACATGATTAAAATGAGTAAGACCATAGCTGAAAGACGCTATGGC
Found at i:34293307 original size:91 final size:90
Alignment explanation
Indices: 34293125--34293340 Score: 308
Period size: 91 Copynumber: 2.4 Consensus size: 90
34293115 TGTTATCATA
* * *
34293125 AACATGATTAAAATGGGTAAGACCATAGCTGAAAGACACTATGGCAATATGATTAAAATGAGTAA
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAAACACTATGGCAACATGATTAAAATGAGTAA
**
34293190 GACCATAGCTGGAAGACGCTATGGC
66 GACCATAGCTAAAAGACGCTATGGC
* * ***
34293215 AACATGATTAAAAAGAGTAAGACCATAGTTGAAAAATGTTATGGCAACATGAATTAAAATGAGTA
1 AACATGATTAAAATGAGTAAGACCATAGCTGAAAAACACTATGGCAACATG-ATTAAAATGAGTA
*
34293280 AGACCATAGCTAAAAGACGTTATGGC
65 AGACCATAGCTAAAAGACGCTATGGC
34293306 AACATGAATTAAAATGAGTAAGACCATAGCT-AAAA
1 AACATG-ATTAAAATGAGTAAGACCATAGCTGAAAA
34293341 GATGCTATAG
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
90 43 0.39
91 46 0.41
92 22 0.20
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.22
Consensus pattern (90 bp):
AACATGATTAAAATGAGTAAGACCATAGCTGAAAAACACTATGGCAACATGATTAAAATGAGTAA
GACCATAGCTAAAAGACGCTATGGC
Done.