Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 81 of 89
Found at i:19360362 original size:47 final size:47
Alignment explanation
Indices: 19360307--19360436 Score: 228
Period size: 47 Copynumber: 2.8 Consensus size: 47
19360297 GTATATAGGA
19360307 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGT
*
19360354 AAAATAAGCTTACGAGCTTATGGAATTTGAATGGTAAGTATTTTGGT
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGT
*
19360401 AAAATAAGCTTACGAGCTTATGGGA--TAAATGGTAAG
1 AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAG
19360437 AGATTTTATA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 10 0.12
47 70 0.88
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (47 bp):
AAAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGT
Found at i:19360407 original size:94 final size:89
Alignment explanation
Indices: 19360264--19360436 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 89
19360254 GAAACCATGC
*
19360264 AAATAAGCTTATGAGCTTACGAAATGATGGCAAGTATATAGGAAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTACGAAATGATGGCAAGTATATAGGAAAAATAAGCTTACGAGCTTATG
19360329 GAATTTAAATGGTAAGTATTTTGGTA
66 GAA--TAAATGGTAAGTATTTTGGTA
* * * * * *
19360355 AAATAAGCTTACGAGCTTATGGAATTTGAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTT
1 AAATAAGCTTACGAGCTTA-CGAA-ATG-ATGGCAAGTATATAGGAAAAATAAGCTTACGAGCTT
*
19360420 ATGGGATAAATGGTAAG
63 ATGGAATAAATGGTAAG
19360437 AGATTTTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
91 18 0.25
92 14 0.20
93 2 0.03
94 37 0.52
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (89 bp):
AAATAAGCTTACGAGCTTACGAAATGATGGCAAGTATATAGGAAAAATAAGCTTACGAGCTTATG
GAATAAATGGTAAGTATTTTGGTA
Found at i:19360830 original size:12 final size:12
Alignment explanation
Indices: 19360813--19360837 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19360803 TATTTTCGGA
19360813 AGTTACTGTAGC
1 AGTTACTGTAGC
19360825 AGTTACTGTAGC
1 AGTTACTGTAGC
19360837 A
1 A
19360838 TATCGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (12 bp):
AGTTACTGTAGC
Found at i:19364342 original size:63 final size:62
Alignment explanation
Indices: 19364243--19364360 Score: 191
Period size: 63 Copynumber: 1.9 Consensus size: 62
19364233 AAATCTGTCG
* *
19364243 GAATGTTATATATAAATAAAATACTATATTTTATGTTTACGACGAACACATCTTTTTTTATCA
1 GAATGCTATATATAAATAAAATAATATATTTTATG-TTACGACGAACACATCTTTTTTTATCA
* *
19364306 GAATGCTATATATAAATAAAATAATATATTTTATGTTCCGACGAACATATCTTTT
1 GAATGCTATATATAAATAAAATAATATATTTTATGTTACGACGAACACATCTTTT
19364361 CTGTTGGGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 18 0.35
63 33 0.65
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (62 bp):
GAATGCTATATATAAATAAAATAATATATTTTATGTTACGACGAACACATCTTTTTTTATCA
Found at i:19365351 original size:29 final size:29
Alignment explanation
Indices: 19365307--19365524 Score: 277
Period size: 29 Copynumber: 7.6 Consensus size: 29
19365297 CCGTTGACCG
*
19365307 GGTGATATTTTGGGAA-TTAATTCGAAATA
1 GGTGCTATTTTGGGAATTTAATTCGAAA-A
*
19365336 GGTGCTATTTTAGGAA-TTAATTCGAAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAA
*
19365364 TGGTGCAATTTTGGGAATTT-ATTCAGAAAA
1 -GGTGCTATTTTGGGAATTTAATTC-GAAAA
19365394 -GTGCTATTTTGGGAATTTAATTC-AAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAA
*
19365421 AGTGCTATTTTGGGAATTTAATTC-AAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAA
* *
19365449 AGTGCTATTTTGGGAATTTAATTCAAAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAA
* * *
19365478 AGTTCTATTTTGGGAATTTAATTTGAAAA
1 GGTGCTATTTTGGGAATTTAATTCGAAAA
*
19365507 GGTGCTATTTTGGTAATT
1 GGTGCTATTTTGGGAATT
19365525 ATTTTAAGAA
Statistics
Matches: 172, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
27 4 0.02
28 69 0.40
29 92 0.53
30 7 0.04
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTTAATTCGAAAA
Found at i:19365409 original size:57 final size:58
Alignment explanation
Indices: 19365312--19365524 Score: 280
Period size: 57 Copynumber: 3.7 Consensus size: 58
19365302 GACCGGGTGA
* *
19365312 TATTTTGGGAA-TTAATTC-GAAATAGGTGCTATTTTAGGAA-TTAATTCGAAAATGGTGC
1 TATTTTGGGAATTTAATTCAGAAA-AGGTGCTATTTTGGGAATTTAATTC-AAAA-AGTGC
*
19365370 AATTTTGGGAATTT-ATTCAGAAAA-GTGCTATTTTGGGAATTTAATTCAAAAAGTGC
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTTAATTCAAAAAGTGC
*
19365426 TATTTTGGGAATTTAATTCA-AAAA-GTGCTATTTTGGGAATTTAATTCAAAAAAGTTC
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTTAATTC-AAAAAGTGC
* *
19365483 TATTTTGGGAATTTAATT-TGAAAAGGTGCTATTTTGGTAATT
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATT
19365525 ATTTTAAGAA
Statistics
Matches: 141, Mismatches: 7, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
56 44 0.31
57 53 0.38
58 38 0.27
59 6 0.04
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (58 bp):
TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTTAATTCAAAAAGTGC
Found at i:19372578 original size:13 final size:13
Alignment explanation
Indices: 19372560--19372591 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
19372550 TTGACCAATT
19372560 TTGACCCGACCCG
1 TTGACCCGACCCG
19372573 TTGACCCGACCCG
1 TTGACCCGACCCG
19372586 TTGACC
1 TTGACC
19372592 GGGTGACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.19
Consensus pattern (13 bp):
TTGACCCGACCCG
Found at i:19372812 original size:29 final size:29
Alignment explanation
Indices: 19372599--19372812 Score: 276
Period size: 29 Copynumber: 7.4 Consensus size: 29
19372589 ACCGGGTGAC
* ** *
19372599 ATTTTGGGAA-TTAATTTGAAATGGTTCT
1 ATTTTGGGAATTTAATTCGAAAAAGTGCT
19372627 ATTTTGGGAA-TTAATTC-AAAAAGGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAA--GTGCT
**
19372656 ATTTTGGGAATTT-ATTC-AGAAAAGTAAT
1 ATTTTGGGAATTTAATTCGA-AAAAGTGCT
19372684 ATTTTGGGAATTTAATTCGAAAAAGTGCT
1 ATTTTGGGAATTTAATTCGAAAAAGTGCT
*
19372713 ATTTTGGGAATTTAATTTGAAAAAGTGCT
1 ATTTTGGGAATTTAATTCGAAAAAGTGCT
19372742 ATTTTGGGAATTTAATTCGAAAAAGTGCT
1 ATTTTGGGAATTTAATTCGAAAAAGTGCT
* *
19372771 ATTTTGGGTATTTAATTCGAAAAGGTGCT
1 ATTTTGGGAATTTAATTCGAAAAAGTGCT
*
19372800 ATTTTGGTAATTT
1 ATTTTGGGAATTT
19372813 TTTTAAAAGG
Statistics
Matches: 166, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
27 3 0.02
28 32 0.19
29 124 0.75
30 7 0.04
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (29 bp):
ATTTTGGGAATTTAATTCGAAAAAGTGCT
Found at i:19374312 original size:33 final size:33
Alignment explanation
Indices: 19374264--19374341 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
19374254 TATACCCGAA
* *
19374264 AAAAATTTCATTCCCTACAAAGTATTATAAATC
1 AAAAATTTTATTCCCTACAAACTATTATAAATC
* * *
19374297 AAAATTTTTATTCCCTCCAAACTATTATGAATC
1 AAAAATTTTATTCCCTACAAACTATTATAAATC
* *
19374330 CAAAGTTTTATT
1 AAAAATTTTATT
19374342 TAATTAACTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (33 bp):
AAAAATTTTATTCCCTACAAACTATTATAAATC
Found at i:19374725 original size:16 final size:14
Alignment explanation
Indices: 19374688--19374729 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
19374678 TGTTAGCGAT
19374688 TAATTAAAAATAAGA
1 TAATTAAAAA-AAGA
19374703 TAA-TAAAAAAAGTA
1 TAATTAAAAAAAG-A
19374717 TATATTAAAAAAA
1 TA-ATTAAAAAAA
19374730 TTACATTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 3 0.12
14 9 0.38
15 4 0.17
16 8 0.33
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (14 bp):
TAATTAAAAAAAGA
Found at i:19375313 original size:123 final size:125
Alignment explanation
Indices: 19375063--19375363 Score: 396
Period size: 123 Copynumber: 2.4 Consensus size: 125
19375053 TAGGGACAGA
*
19375063 TCCACAAATTTCGTCACAAATTTAAAATACTTTTTCTAAAAAATGATTTTTTGTGTGTAATGAAA
1 TCCACAAATTTCGTCACAAATTTAAAATACTTTTTCTAAAAAATGATTTTTTGTATGTAAT-AAA
* * * * *
19375128 CATGTAGACCCATCACAAATTTGTGGCGGTATAGGTGTATATGTCATAAATTTGTGACGGG
65 CATGTAGACCCATCACAAATTTGAGACGGAATAGGTGGATATGTCAGAAATTTGTGACGGG
*
19375189 TCCACAAATTTCGTCACAAATTTAAAATACTTTTTTCT-AAAAAT-ATATTTTT-TATGTCAT-A
1 TCCACAAATTTCGTCACAAATTTAAAATAC-TTTTTCTAAAAAATGAT-TTTTTGTATGTAATAA
* * * * *
19375250 ACATGTGGACCCGTCACAAATTTGAGACTGAATAGGTGGATTTGTTAGAAATTTGTGACGGG
64 ACATGTAGACCCATCACAAATTTGAGACGGAATAGGTGGATATGTCAGAAATTTGTGACGGG
* * *
19375312 TCCACGAATTCCGTCACAAATTTAAAATAAC-TTTTCTAAAAAATGAATTTTT
1 TCCACAAATTTCGTCACAAATTTAAAAT-ACTTTTTCTAAAAAATGATTTTTT
19375364 AAAAAAAATA
Statistics
Matches: 155, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
122 6 0.04
123 90 0.58
124 3 0.02
125 8 0.05
126 41 0.26
127 7 0.05
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (125 bp):
TCCACAAATTTCGTCACAAATTTAAAATACTTTTTCTAAAAAATGATTTTTTGTATGTAATAAAC
ATGTAGACCCATCACAAATTTGAGACGGAATAGGTGGATATGTCAGAAATTTGTGACGGG
Found at i:19375992 original size:93 final size:91
Alignment explanation
Indices: 19375833--19376050 Score: 312
Period size: 93 Copynumber: 2.4 Consensus size: 91
19375823 CCGTCACACA
* **
19375833 TTTGTGACAGAACATG-GAGACTTGTCACAAATTTTATGTTTCAATGGAGGGAAAATGAAGGAAA
1 TTTGTGACGGAACATGTG-GACCCGTCACAAATTTTATGTTTCAATGGAGGGAAAATGAAGGAAA
*
19375897 TGAGCGGGTAATTAAAAAAAACTCTAAAT
65 TGAACGGGTAATT-AAAAAAA-TCTAAAT
** * *
19375926 TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGGAACTTGGAGGTAAT
1 TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGGAAAATGAAGGAAAT
19375991 GAACGGGTAATTAAAAAAATCTAAAT
66 GAACGGGTAATTAAAAAAATCTAAAT
* *
19376017 TTTATGACGGAACATGTGGAACCGTCACAAATTT
1 TTTGTGACGGAACATGTGGACCCGTCACAAATTT
19376051 ATGATGAGTT
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
91 39 0.34
92 7 0.06
93 67 0.59
94 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (91 bp):
TTTGTGACGGAACATGTGGACCCGTCACAAATTTTATGTTTCAATGGAGGGAAAATGAAGGAAAT
GAACGGGTAATTAAAAAAATCTAAAT
Found at i:19378097 original size:54 final size:54
Alignment explanation
Indices: 19378025--19378186 Score: 252
Period size: 54 Copynumber: 3.0 Consensus size: 54
19378015 TATGCATTGT
* * **
19378025 ATTTTCCGTATTGGCACTGTGTGTGCAGCTTAAGAAATCCATAATAAGTTTATTA
1 ATTTT-CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTACGA
* *
19378080 ATTTTGGTATTGGCACTGTGTGTGCAATTTAAGAAATTCATAATAAGTTTACGA
1 ATTTTCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTACGA
*
19378134 ATTTTCGTATTGGCATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTACG
1 ATTTTCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTACG
19378187 CCTTCCCCGG
Statistics
Matches: 98, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 93 0.95
55 5 0.05
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTTCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTACGA
Found at i:19378935 original size:54 final size:54
Alignment explanation
Indices: 19378853--19379392 Score: 766
Period size: 54 Copynumber: 10.0 Consensus size: 54
19378843 GAATACAAAC
* * *
19378853 CGTATTGGCACTGTATGTGCAACTTAAGAAATCCATAATAAGTTTATTAATTTT
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
*
19378907 CGTATTGGCACTGTGTGTGCAACTTAAGAAATT-AGTAATAAGTTTATGAATTTC
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCA-TAATAAGTTTATGAATTTT
*
19378961 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTGTGAA-TTT
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
19379014 CTGTATTTGTACTGTGTGCG-AACCTTAAGAAATTCATAATAAGTTTATGAATTTT
1 C-GTATTGGCACTGTGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATTTT
*
19379069 CGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* * * *
19379123 CCGTATTGACATTGTGTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTC
1 -CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
19379178 CATATTGGCACTGTGTGTGCAACTTAAGAAATTCATAACAAGTTTATGAATTTC
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* *
19379232 CGTAATT-ACACTGTGTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTT
1 CGT-ATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* * *
19379286 CGTATTGTCACTGTGTGTGCAACTTAATAAAATCATAATAAGTTTATGAA-TTT
1 CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
* * * *
19379339 CTGTATTGGCACTGTGTCTGCAACTTAAGAAATTCATAATTATTTTATGGATTT
1 C-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT
19379393 CTGTATTCAG
Statistics
Matches: 436, Mismatches: 39, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
53 13 0.03
54 362 0.83
55 61 0.14
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (54 bp):
CGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTT
Found at i:19379335 original size:271 final size:271
Alignment explanation
Indices: 19378852--19379392 Score: 806
Period size: 271 Copynumber: 2.0 Consensus size: 271
19378842 CGAATACAAA
* * * * *
19378852 CCGTATTGGCACTGTATGTGCAACTTAAGAAATCCATAATAAGTTTATTAATTTTCGTATTGGCA
1 CCGTATTGACACTGTATGTGCAACTTAAAAAATCCATAATAAGTTTATGAATTTCCATATTGGCA
* *
19378917 CTGTGTGTGCAACTTAAGAAATTAGTAATAAGTTTATGAATTTCCGTATTGGCACTGTGTGTGCA
66 CTGTGTGTGCAACTTAAGAAATTAGTAACAAGTTTATGAATTTCCGTATTGACACTGTGTGTGCA
* * *
19378982 ACTTAAGAAATTCATAATAAGTTTGTGAATTTCTGTATTTGTACTGTGTGCGAACCTTAAGAAAT
131 ACTTAAAAAATTCATAATAAGTTTATGAATTTCTGTATTTGTACTGTGTGCGAACCTTAAGAAAA
*
19379047 TCATAATAAGTTTATGAATTT-TCGTATTGGCACTATGTGTGCAACTTAAGAAATTCATAATAAG
196 TCATAATAAGTTTATGAATTTCT-GTATTGGCACTATGTCTGCAACTTAAGAAATTCATAATAAG
19379111 TTTATGAATTTT
260 TTTATGAATTTT
* * *
19379123 CCGTATTGACATTGTGTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTCCATATTGGCA
1 CCGTATTGACACTGTATGTGCAACTTAAAAAATCCATAATAAGTTTATGAATTTCCATATTGGCA
19379188 CTGTGTGTGCAACTTAAGAAATTCA-TAACAAGTTTATGAATTTCCGTAATT-ACACTGTGTGTG
66 CTGTGTGTGCAACTTAAGAAATT-AGTAACAAGTTTATGAATTTCCGT-ATTGACACTGTGTGTG
*
19379251 CAACTTAAAAAATTCATAATAAGTTTATGAATTT-TCGTA-TTGTCACTGTGTGTGCAA-CTTAA
129 CAACTTAAAAAATTCATAATAAGTTTATGAATTTCT-GTATTTGT-ACTGTGTGCG-AACCTTAA
* *
19379313 TAAAATCATAATAAGTTTATGAATTTCTGTATTGGCACTGTGTCTGCAACTTAAGAAATTCATAA
191 GAAAATCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTCTGCAACTTAAGAAATTCATAA
* * *
19379378 TTATTTTATGGATTT
256 TAAGTTTATGAATTT
19379393 CTGTATTCAG
Statistics
Matches: 244, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
270 5 0.02
271 232 0.95
272 7 0.03
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (271 bp):
CCGTATTGACACTGTATGTGCAACTTAAAAAATCCATAATAAGTTTATGAATTTCCATATTGGCA
CTGTGTGTGCAACTTAAGAAATTAGTAACAAGTTTATGAATTTCCGTATTGACACTGTGTGTGCA
ACTTAAAAAATTCATAATAAGTTTATGAATTTCTGTATTTGTACTGTGTGCGAACCTTAAGAAAA
TCATAATAAGTTTATGAATTTCTGTATTGGCACTATGTCTGCAACTTAAGAAATTCATAATAAGT
TTATGAATTTT
Found at i:19384894 original size:54 final size:54
Alignment explanation
Indices: 19384807--19385428 Score: 781
Period size: 54 Copynumber: 11.3 Consensus size: 54
19384797 TGCATTGTAT
* *
19384807 TTTCCGTATTGGCATTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
*
19384861 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAATTTTATGAA
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
* *
19384915 TTTCCGTATTGGCACTGTATGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
19384969 TTT-TCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCT-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
*
19385023 TTT-TCGTATTGGCACTGTGTATGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCT-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
* * * *
19385077 TTTCTATATTGGCACTGTGTGTACAACTTAAGAAATTTATAAAGATAAATTCATAATAAATTTAT
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCAT--A-AT-AAGT--T--T--A--T--
*
19385142 TAA
52 GAA
* * * *
19385145 TTTATGTATTGGCATTATTTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
** * *
19385199 TTT-TCGTATAAGCAC--TGTGTGCAACTTAAGAAATCCATTATAAGTTTATGAA
1 TTTCT-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
*
19385251 TTTCTATATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
1 TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
* * *
19385305 TTT-TCGTATTGGCACTATGTGTGGAACTTAATAAATTCATAATAAGTTTATGAA
1 TTTCT-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
* *
19385359 TTT-TCGTATTGGTACTGTGTGTGCAACTTAAGAAATTCATAATTAGTTTATGAA
1 TTTCT-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
* *
19385413 TTTCCGTATTGACACT
1 TTTCTGTATTGGCACT
19385429 AAGTGTATAA
Statistics
Matches: 499, Mismatches: 47, Indels: 44
0.85 0.08 0.07
Matches are distributed among these distances:
52 44 0.09
53 3 0.01
54 396 0.79
55 1 0.00
56 2 0.00
57 2 0.00
58 4 0.01
60 2 0.00
62 2 0.00
64 4 0.01
65 2 0.00
66 2 0.00
68 35 0.07
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (54 bp):
TTTCTGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAA
Found at i:19385172 original size:68 final size:68
Alignment explanation
Indices: 19385055--19385186 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
19385045 GCAACTTAAG
* * * *
19385055 AAATTCATAATAAGTTTATGAATTTCTATATTGGCACTGTGTGTACAACTTAAGAAATTTATAAA
1 AAATTCATAATAAATTTATGAATTTATATATTGGCACTATGTGTACAACTTAAGAAATTCATAAA
19385120 GAT
66 GAT
* * * * *
19385123 AAATTCATAATAAATTTATTAATTTATGTATTGGCATTATTTGTGCAACTTAAGAAATTCATAA
1 AAATTCATAATAAATTTATGAATTTATATATTGGCACTATGTGTACAACTTAAGAAATTCATAA
19385187 TAAGTTTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 55 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (68 bp):
AAATTCATAATAAATTTATGAATTTATATATTGGCACTATGTGTACAACTTAAGAAATTCATAAA
GAT
Found at i:19385218 original size:122 final size:119
Alignment explanation
Indices: 19385001--19385232 Score: 333
Period size: 122 Copynumber: 1.9 Consensus size: 119
19384991 GCAACTTAAG
* *
19385001 AAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTGTGTATGCAACTTAAGAAATTCATAAT
1 AAATTCATAATAAATTTATGAATTTTCGTATTGGCACTATGTATGCAACTTAAGAAATTCATAAT
*
19385066 AAGTTTATGAATTTCTATATTGGCACTGTGTGTACAACTTAAGAAATTTATAAAGAT
66 AAGTTTATGAATTTCTATA-TAGCACTGTGTG--CAACTTAAGAAATTTATAAAGAT
* * * *
19385123 AAATTCATAATAAATTTATTAATTTAT-GTATTGGCATTATTTGTGCAACTTAAGAAATTCATAA
1 AAATTCATAATAAATTTATGAATTT-TCGTATTGGCACTATGTATGCAACTTAAGAAATTCATAA
19385187 TAAGTTTATGAATTTTCGTATA-AGCACTGTGTGCAACTTAAGAAAT
65 TAAGTTTATGAA-TTTC-TATATAGCACTGTGTGCAACTTAAGAAAT
19385233 CCATTATAAG
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
120 13 0.13
122 78 0.78
123 5 0.05
124 4 0.04
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (119 bp):
AAATTCATAATAAATTTATGAATTTTCGTATTGGCACTATGTATGCAACTTAAGAAATTCATAAT
AAGTTTATGAATTTCTATATAGCACTGTGTGCAACTTAAGAAATTTATAAAGAT
Found at i:19385429 original size:108 final size:108
Alignment explanation
Indices: 19385121--19385520 Score: 427
Period size: 108 Copynumber: 3.7 Consensus size: 108
19385111 ATTTATAAAG
* * * * *
19385121 ATAAATTCATAATAAATTTATTAATTTAT-GTATTGGCATTATTTGTGCAACTTAAGAAATTCAT
1 ATAAATTCATAATAAGTTTATGAATTT-TCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCAT
*
19385185 AATAAGTTTATGAATTTTCGTA-TAAGCAC--TGTGTGCAACTTA
65 AATAAGTTTATGAATTTTCGTATTGA-CACTATGTGTGCAACTTA
* * * *
19385227 AGAAATCCATTATAAGTTTATGAA-TTTCTATATTGGCACTGTGTGTGCAACTTAAGAAATTCAT
1 ATAAATTCATAATAAGTTTATGAATTTTC-GTATTGGCACTGTGTGTGCAACTTAAGAAATTCAT
* *
19385291 AATAAGTTTATGAATTTTCGTATTGGCACTATGTGTGGAACTTA
65 AATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACTTA
*
19385335 ATAAATTCATAATAAGTTTATGAATTTTCGTATTGGTACTGTGTGTGCAACTTAAGAAATTCATA
1 ATAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATA
* * * ** **
19385400 ATTAGTTTATGAATTTCCGTATTGACACTAAGTGTATAACCCA
66 ATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACTTA
* **** * ** * *
19385443 CAT-AATTCATAATATGTTTATGAACGACCGTATTGACACTAAGTGTGCAACTCACA-TAATTCA
1 -ATAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTGTGTGTGCAACTTA-AGAAATTCA
*
19385506 TAATATGTTTATGAA
64 TAATAAGTTTATGAA
19385521 CGACCGTATC
Statistics
Matches: 248, Mismatches: 38, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
104 1 0.00
105 2 0.01
106 75 0.30
107 1 0.00
108 162 0.65
109 7 0.03
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (108 bp):
ATAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTGTGTGTGCAACTTAAGAAATTCATA
ATAAGTTTATGAATTTTCGTATTGACACTATGTGTGCAACTTA
Found at i:19385477 original size:162 final size:160
Alignment explanation
Indices: 19385150--19385520 Score: 431
Period size: 162 Copynumber: 2.3 Consensus size: 160
19385140 ATTAATTTAT
* * *
19385150 GTATTGGCATTATTTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATAAGCACT
1 GTATTGGCACTATGTGTGCAACTTAATAAATTCATAATAAGTTTATGAATTTTCGTATAAGCACT
* * * ** * **
19385215 GTGTGCAACTTAAGAAATCCATTATAAGTTTATGAATTTCTATATTGGCACTGTGTGTGCAACTT
66 GTGTGCAACTTAAGAAATCCATAATAAGTTTATGAATTTCCATATTGACACTAAGTGTACAACCC
****
19385280 AAGAAATTCATAATAAGTTTATGAATTTTC
131 AAGAAATTCATAATAAGTTTATGAACGACC
* ** *
19385310 GTATTGGCACTATGTGTGGAACTTAATAAATTCATAATAAGTTTATGAATTTTCGTATTGGTACT
1 GTATTGGCACTATGTGTGCAACTTAATAAATTCATAATAAGTTTATGAATTTTCGTATAAGCAC-
* * * *
19385375 GTGTGTGCAACTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATTGACACTAAGTGTATAAC
65 -TGTGTGCAACTTAAGAAATCCATAATAAGTTTATGAATTTCCATATTGACACTAAGTGTACAAC
* *
19385440 CCACA-TAATTCATAATATGTTTATGAACGACC
129 CCA-AGAAATTCATAATAAGTTTATGAACGACC
* * * *
19385472 GTATTGACACTAAGTGTGCAACTCACAT-AATTCATAATATGTTTATGAA
1 GTATTGGCACTATGTGTGCAACTTA-ATAAATTCATAATAAGTTTATGAA
19385521 CGACCGTATC
Statistics
Matches: 177, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
160 57 0.32
162 117 0.66
163 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (160 bp):
GTATTGGCACTATGTGTGCAACTTAATAAATTCATAATAAGTTTATGAATTTTCGTATAAGCACT
GTGTGCAACTTAAGAAATCCATAATAAGTTTATGAATTTCCATATTGACACTAAGTGTACAACCC
AAGAAATTCATAATAAGTTTATGAACGACC
Found at i:19385529 original size:54 final size:53
Alignment explanation
Indices: 19385164--19385520 Score: 272
Period size: 54 Copynumber: 6.6 Consensus size: 53
19385154 TGGCATTATT
* * * * *
19385164 TGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTA-TAAGCACT--G
1 TGTGCAACTCAA-TAATTCATAATATGTTTATGAATTTCCGTATTGA-CACTAAG
* * * * * ** * **
19385216 TGTGCAACTTAAGAAATCCATTATAAGTTTATGAATTTCTATATTGGCACTGTG
1 TGTGCAACTCAA-TAATTCATAATATGTTTATGAATTTCCGTATTGACACTAAG
* * * * * *
19385270 TGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTATG
1 TGTGCAACTCAA-TAATTCATAATATGTTTATGAATTTCCGTATTGACACTAAG
* * * * ** **
19385324 TGTGGAACTTAATAAATTCATAATAAGTTTATGAATTTTCGTATTGGTACTGTG
1 TGTGCAACTCAAT-AATTCATAATATGTTTATGAATTTCCGTATTGACACTAAG
* *
19385378 TGTGCAACTTAAGAAATTCATAAT-TAGTTTATGAATTTCCGTATTGACACTAAG
1 TGTGCAACTCAA-TAATTCATAATAT-GTTTATGAATTTCCGTATTGACACTAAG
** * ***
19385432 TGTATAACCCACATAATTCATAATATGTTTATGAACGACCGTATTGACACTAAG
1 TGTGCAACTCA-ATAATTCATAATATGTTTATGAATTTCCGTATTGACACTAAG
19385486 TGTGCAACTCACATAATTCATAATATGTTTATGAA
1 TGTGCAACTCA-ATAATTCATAATATGTTTATGAA
19385521 CGACCGTATC
Statistics
Matches: 261, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
52 42 0.16
53 1 0.00
54 216 0.83
55 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (53 bp):
TGTGCAACTCAATAATTCATAATATGTTTATGAATTTCCGTATTGACACTAAG
Found at i:19386539 original size:18 final size:18
Alignment explanation
Indices: 19386511--19386564 Score: 99
Period size: 18 Copynumber: 2.9 Consensus size: 18
19386501 AATAACACAA
19386511 AGTACTCGAACTATATTTT
1 AGTA-TCGAACTATATTTT
19386530 AGTATCGAACTATATTTT
1 AGTATCGAACTATATTTT
19386548 AGTATCGAACTATATTT
1 AGTATCGAACTATATTT
19386565 ATTTTCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 31 0.89
19 4 0.11
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (18 bp):
AGTATCGAACTATATTTT
Found at i:19387195 original size:190 final size:192
Alignment explanation
Indices: 19386857--19387224 Score: 697
Period size: 190 Copynumber: 1.9 Consensus size: 192
19386847 ACTAAAAATC
19386857 AACATACTAATAAAAATTTCCAGCATTATACCTTTTTTTATTCAAAACAATACCAAACCATTTTT
1 AACATACTAATAAAAATTTCCAGCATTATACCTTTTTTTATTCAAAACAATACCAAACCATTTTT
19386922 AAACTCAGAAACAAGTCCCTAAAATTTGTTTACGACTTTTCAAATTCCACCACTAAAATTTACTA
66 AAACTCAGAAACAAGTCCCTAAAATTTGTTTACGACTTTTCAAATTCCACCACTAAAATTTACTA
19386987 AACTTATAACTTGTTCCAAA-C-CTTTCTAACTTAAAAATTCCAGCATATTAATTTCCACAA
131 AACTTATAACTTGTTCCAAACCACTTTCTAACTTAAAAATTCCAGCATATTAATTTCCACAA
*
19387047 AACATACTAATAAAAATTTCCAGCATTATACTTTTTTTTATTCAAAACAATACCAAACCATTTTT
1 AACATACTAATAAAAATTTCCAGCATTATACCTTTTTTTATTCAAAACAATACCAAACCATTTTT
19387112 AAACTCAGAAACAAGTCCCTAAAATTTG-TTACGACTTTTCAAATTCCACCACTAAAATTTACTA
66 AAACTCAGAAACAAGTCCCTAAAATTTGTTTACGACTTTTCAAATTCCACCACTAAAATTTACTA
19387176 AACTTATAACTTGGTTCCAAACCACTTTCTAACTTAAAAATTCCAGCAT
131 AACTTATAACTT-GTTCCAAACCACTTTCTAACTTAAAAATTCCAGCAT
19387225 TTCAATATTA
Statistics
Matches: 174, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
189 48 0.28
190 100 0.57
191 1 0.01
192 25 0.14
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (192 bp):
AACATACTAATAAAAATTTCCAGCATTATACCTTTTTTTATTCAAAACAATACCAAACCATTTTT
AAACTCAGAAACAAGTCCCTAAAATTTGTTTACGACTTTTCAAATTCCACCACTAAAATTTACTA
AACTTATAACTTGTTCCAAACCACTTTCTAACTTAAAAATTCCAGCATATTAATTTCCACAA
Found at i:19392032 original size:16 final size:16
Alignment explanation
Indices: 19392011--19392054 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
19392001 AAAAAAGTGT
19392011 TATACTTGG-ATGTAAG
1 TATACTTGGTA-GTAAG
19392027 TATACTTGGTAGTAAG
1 TATACTTGGTAGTAAG
19392043 TATACTTGGTAG
1 TATACTTGGTAG
19392055 ATGTGTATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (16 bp):
TATACTTGGTAGTAAG
Found at i:19396055 original size:54 final size:54
Alignment explanation
Indices: 19395830--19396058 Score: 305
Period size: 54 Copynumber: 4.2 Consensus size: 54
19395820 TTTTCAACAA
* * * *
19395830 CACACTTAGTGTCAAAATGGTTATTCATCAATATATGATGAATTCCGTGAGTCA
1 CACACTTAGTGCCAAAATGGTTATTCATCAACATATGATGAATTCCGTGAATCG
* ** * *
19395884 CACACTTAGTGCCGAAACAGTTATTCATCAACATATGATGAATTTCGTGAATTG
1 CACACTTAGTGCCAAAATGGTTATTCATCAACATATGATGAATTCCGTGAATCG
* * * *
19395938 CACACTTAGCGCCAAAACGGTTATTCATCAACATATGATGAATTCCTTGAATTG
1 CACACTTAGTGCCAAAATGGTTATTCATCAACATATGATGAATTCCGTGAATCG
* *
19395992 CACAGTTAGTGCCAAAATGATTATTCATCAACATATGATGAATTCCGTGAATCG
1 CACACTTAGTGCCAAAATGGTTATTCATCAACATATGATGAATTCCGTGAATCG
* *
19396046 CAAATTTAGTGCC
1 CACACTTAGTGCC
19396059 TATTTGGTAA
Statistics
Matches: 153, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 153 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (54 bp):
CACACTTAGTGCCAAAATGGTTATTCATCAACATATGATGAATTCCGTGAATCG
Found at i:19398752 original size:20 final size:21
Alignment explanation
Indices: 19398723--19398761 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
19398713 GGCAAGAGAA
19398723 AATTTCTTTT-GATTTTGAAC
1 AATTTCTTTTGGATTTTGAAC
*
19398743 AATTTGTTTTGGATTTTGA
1 AATTTCTTTTGGATTTTGA
19398762 GTTATAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (21 bp):
AATTTCTTTTGGATTTTGAAC
Found at i:19400166 original size:53 final size:53
Alignment explanation
Indices: 19400088--19400192 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
19400078 GTGTACTTTC
*
19400088 GGCACTATGTGTGCATCCATAGTATTCATAATGAGTTTGTAAATTACCATTTT
1 GGCACTATGTGTGCATCCATAGTATTCATAATGAGGTTGTAAATTACCATTTT
* * *
19400141 GGCATTATGTGTGCA-CCAATGGTATTCATAATGAGGTTGTGAATTACCATTT
1 GGCACTATGTGTGCATCC-ATAGTATTCATAATGAGGTTGTAAATTACCATTT
19400193 AGTTACATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 2 0.04
53 45 0.96
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (53 bp):
GGCACTATGTGTGCATCCATAGTATTCATAATGAGGTTGTAAATTACCATTTT
Found at i:19412963 original size:44 final size:44
Alignment explanation
Indices: 19412915--19413003 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
19412905 TATATTTCAC
* ** * *
19412915 ACTATGTTGGAGCTTTTACCATCATTACCCAACTTATTTCCTAA
1 ACTATGTTGGAGCTATTAAAAGCATTACCCAACCTATTTCCTAA
* *
19412959 ACTATTTTGGAGCTATTAAAAGCATTACTCAACCTATTTCCTAA
1 ACTATGTTGGAGCTATTAAAAGCATTACCCAACCTATTTCCTAA
19413003 A
1 A
19413004 GCTCTCTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (44 bp):
ACTATGTTGGAGCTATTAAAAGCATTACCCAACCTATTTCCTAA
Found at i:19413264 original size:23 final size:25
Alignment explanation
Indices: 19413250--19413392 Score: 97
Period size: 27 Copynumber: 5.9 Consensus size: 25
19413240 TAATATGTGA
19413250 TTTTGAAAAAATATATAATATATAG
1 TTTTGAAAAAATATATAATATATAG
19413275 TTTTG---AAA-ATAT-ATA-ATAG
1 TTTTGAAAAAATATATAATATATAG
* * * *
19413294 TTTT-TAAAAGTATATTATATA-AT
1 TTTTGAAAAAATATATAATATATAG
*
19413317 TTTTGAAAATATATATAATATATATAG
1 TTTTGAAAAAATATAT-A-ATATATAG
* *
19413344 TTTTTGAAAACATATTATATTATATAG
1 -TTTTGAAAAAATA-TATAATATATAG
* *
19413371 TTTTTGAATATATATAT-ATATA
1 -TTTTGAAAAAATATATAATATA
19413393 ATACATTATT
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
19 8 0.09
20 3 0.03
21 6 0.06
22 7 0.07
23 8 0.09
24 9 0.10
25 9 0.10
26 8 0.09
27 20 0.21
28 13 0.14
29 3 0.03
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.47
Consensus pattern (25 bp):
TTTTGAAAAAATATATAATATATAG
Found at i:19413270 original size:25 final size:23
Alignment explanation
Indices: 19413257--19413392 Score: 95
Period size: 23 Copynumber: 5.7 Consensus size: 23
19413247 TGATTTTGAA
19413257 AAAATATATAATATATAGTTTTG
1 AAAATATATAATATATAGTTTTG
*
19413280 -AAA-ATAT-ATA-ATAGTTTTT
1 AAAATATATAATATATAGTTTTG
* *
19413299 AAAAGTATATTATATA-ATTTTTG
1 AAAA-TATATAATATATAGTTTTG
19413322 AAAATATATATAATATATATAGTTTTTG
1 -AAA-ATATAT-A-ATATATAG-TTTTG
*
19413350 AAAACATATTATATTATATAGTTTTTG
1 -AAA-ATA-TATAATATATAG-TTTTG
*
19413377 AATATATAT-ATATATA
1 AAAATATATAATATATA
19413393 ATACATTATT
Statistics
Matches: 92, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
19 8 0.09
20 6 0.07
21 4 0.04
22 7 0.08
23 14 0.15
24 12 0.13
25 4 0.04
26 7 0.08
27 14 0.15
28 13 0.14
29 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (23 bp):
AAAATATATAATATATAGTTTTG
Found at i:19413307 original size:20 final size:19
Alignment explanation
Indices: 19413267--19413331 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
19413257 AAAATATATA
*
19413267 ATAT-ATAGTTTTGAAAAT
1 ATATAATAGTTTTTAAAAT
19413285 ATATAATAGTTTTTAAAAGT
1 ATATAATAGTTTTTAAAA-T
*
19413305 ATATTATATAATTTTTGAAAAT
1 ATA-TA-ATAGTTTTT-AAAAT
19413327 ATATA
1 ATATA
19413332 TAATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.10
19 12 0.30
20 4 0.10
21 4 0.10
22 12 0.30
23 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (19 bp):
ATATAATAGTTTTTAAAAT
Found at i:19413344 original size:50 final size:54
Alignment explanation
Indices: 19413282--19413395 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 54
19413272 TAGTTTTGAA
19413282 AATATATAATAGTTTTT-AA-A-AGTATATTATATAATTTTTGAAAATATATAT
1 AATATATAATAGTTTTTAAACATAGTATATTATATAATTTTTGAAAATATATAT
* *
19413333 AATATAT-ATAGTTTTTGAAAACATATTATATTATATAGTTTTTG--AATATATAT
1 AATATATAATAGTTTTT--AAACATAGTATATTATATAATTTTTGAAAATATATAT
19413386 -ATATATAATA
1 AATATATAATA
19413396 CATTATTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
50 9 0.16
51 7 0.13
52 6 0.11
53 14 0.25
54 1 0.02
55 18 0.33
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (54 bp):
AATATATAATAGTTTTTAAACATAGTATATTATATAATTTTTGAAAATATATAT
Found at i:19415466 original size:96 final size:98
Alignment explanation
Indices: 19415301--19415495 Score: 367
Period size: 96 Copynumber: 2.0 Consensus size: 98
19415291 GAGTTTAACT
*
19415301 CGGTCCACATAAGTCTATGATGAGTTTAGGATCGAGGGTCTGGAAAGTACAAAGGGGCATCGATT
1 CGGTCCACATAAGTCTATGATGAGTTTAGGATCGAGGGTCTGGAAAGTACAAAGGGGCATCGATA
19415366 AGGAAAA-T-TGGTCTCATTTTAGAACCTAAAC
66 AGGAAAATTCTGGTCTCATTTTAGAACCTAAAC
19415397 CGGTCCACATAAGTCTATGATGAGTTTAGGATCGAGGGTCTGGAAAGTACAAAGGGGCATCGATA
1 CGGTCCACATAAGTCTATGATGAGTTTAGGATCGAGGGTCTGGAAAGTACAAAGGGGCATCGATA
19415462 AGGAAAATTCTGGTCTCATTTTAGAACCTAAAC
66 AGGAAAATTCTGGTCTCATTTTAGAACCTAAAC
19415495 C
1 C
19415496 ATGTCTCTAT
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 71 0.74
97 1 0.01
98 24 0.25
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (98 bp):
CGGTCCACATAAGTCTATGATGAGTTTAGGATCGAGGGTCTGGAAAGTACAAAGGGGCATCGATA
AGGAAAATTCTGGTCTCATTTTAGAACCTAAAC
Found at i:19415535 original size:36 final size:36
Alignment explanation
Indices: 19415488--19415567 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
19415478 CATTTTAGAA
19415488 CCTAAACCATGTCTCTATGGGAGATTACAACCTAAC
1 CCTAAACCATGTCTCTATGGGAGATTACAACCTAAC
19415524 CCTAAACCATGTCTCTATGGGAGATTACAACCTAAC
1 CCTAAACCATGTCTCTATGGGAGATTACAACCTAAC
19415560 CCTAAACC
1 CCTAAACC
19415568 TCATATAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (36 bp):
CCTAAACCATGTCTCTATGGGAGATTACAACCTAAC
Found at i:19432025 original size:70 final size:69
Alignment explanation
Indices: 19431941--19432083 Score: 277
Period size: 70 Copynumber: 2.1 Consensus size: 69
19431931 TCTATTATTA
19431941 AAAATTCAAAATATATTTAATTTATAATCCTATTATTTCAAAATTATAAAAAAATATTTAAAAAT
1 AAAATTCAAAATATATTTAATTTATAATCCTATTATTTCAAAATTAT-AAAAAATATTTAAAAAT
19432006 ATCGG
65 ATCGG
19432011 AAAATTCAAAATATATTTAATTTATAATCCTATTATTTCAAAATTATAAAAAATATTTAAAAATA
1 AAAATTCAAAATATATTTAATTTATAATCCTATTATTTCAAAATTATAAAAAATATTTAAAAATA
19432076 TCGG
66 TCGG
19432080 AAAA
1 AAAA
19432084 GAACTTCTAG
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 26 0.36
70 47 0.64
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (69 bp):
AAAATTCAAAATATATTTAATTTATAATCCTATTATTTCAAAATTATAAAAAATATTTAAAAATA
TCGG
Found at i:19432256 original size:13 final size:13
Alignment explanation
Indices: 19432232--19432269 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19432222 TCGATATTGA
19432232 AAAATAAA-TATT
1 AAAATAAATTATT
*
19432244 AAAATAATTTATT
1 AAAATAAATTATT
19432257 AAAATAAATTATT
1 AAAATAAATTATT
19432270 TATTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAATAAATTATT
Found at i:19433165 original size:15 final size:14
Alignment explanation
Indices: 19433141--19433182 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
19433131 TGACAGTAAG
*
19433141 TTTCTCTTCTTTCTT
1 TTTCTTTTCTTTC-T
19433156 TTTCTTTTCTTTCT
1 TTTCTTTTCTTTCT
19433170 TTTCTGTTTCTTT
1 TTTCT-TTTCTTT
19433183 GCTGTGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTCTTTCT
Found at i:19433173 original size:20 final size:20
Alignment explanation
Indices: 19433141--19433182 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19433131 TGACAGTAAG
*
19433141 TTTCTCTTCTTTCTTTTTCT
1 TTTCTCTTCTTTCTGTTTCT
19433161 TTTCT-TTCTTTTCTGTTTCT
1 TTTCTCTTC-TTTCTGTTTCT
19433181 TT
1 TT
19433183 GCTGTGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTCTCTTCTTTCTGTTTCT
Found at i:19433720 original size:3 final size:3
Alignment explanation
Indices: 19433712--19433774 Score: 101
Period size: 3 Copynumber: 21.0 Consensus size: 3
19433702 TTAATATATT
*
19433712 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
19433761 -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
19433775 ATCAATATGG
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.93
4 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:19434168 original size:17 final size:17
Alignment explanation
Indices: 19434146--19434207 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
19434136 GTTGAACAAA
19434146 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
19434163 TTCTTCTTCCTTAGATGACGAG
1 TTCTTC-TCATT--ATGA--AC
19434185 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
19434202 TTCTTC
1 TTCTTC
19434208 ATCCTTCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 13 0.36
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
22 7 0.19
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:19434237 original size:40 final size:39
Alignment explanation
Indices: 19434146--19434244 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
19434136 GTTGAACAAA
* *
19434146 TTCTTCTCATTATGAACTTCTTCTTCCTTAGATGACGAG
1 TTCTTCTCATTATGAACTTCTTCATCCTTACATGACGAG
* *
19434185 TTCTTCTCATTATGAACTTCTTCATCCTT-CTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCATCCTTACAT--GACGAG
19434225 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
19434245 CTCTGGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
38 1 0.02
39 28 0.52
40 25 0.46
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.45
Consensus pattern (39 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTACATGACGAG
Found at i:19434306 original size:152 final size:152
Alignment explanation
Indices: 19434030--19434360 Score: 558
Period size: 152 Copynumber: 2.2 Consensus size: 152
19434020 AGCTCTTGAT
*
19434030 GAGTTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTTTCT
1 GAGTTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTTCCT
* *
19434095 CTAGAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
66 CTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
*
19434160 AACTTCTTCTTCCTT-AGATGAC
131 AACTTCTTCTTCCTTCATA-GAC
19434182 GAGTTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTTCC
1 GAGTTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTTCC
*
19434246 TCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTAT
65 TCTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTAT
*
19434311 GAACTTCTTCTTCCTTCTTCAGAC
130 GAACTTCTTCTTCCTTCAT-AGAC
*
19434335 GAGTTCTTCTCATTTTGAACTTCTTC
1 GAGTTCTTCTCATTATGAACTTCTTC
19434361 TTGAAAGGTT
Statistics
Matches: 169, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
151 3 0.02
152 137 0.81
153 28 0.17
154 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (152 bp):
GAGTTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTTCCT
CTAGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
AACTTCTTCTTCCTTCATAGAC
Found at i:19434361 original size:20 final size:20
Alignment explanation
Indices: 19434298--19434362 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
19434288 GTTGAACAAA
*
19434298 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTTTGAACTTC
* ***
19434318 TTCTTC-C-TTCTTCAGACGAG
1 TTCTTCTCATT-TTGA-ACTTC
19434338 TTCTTCTCATTTTGAACTTC
1 TTCTTCTCATTTTGAACTTC
19434358 TTCTT
1 TTCTT
19434363 GAAAGGTTGA
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 21 0.66
21 4 0.12
22 2 0.06
ACGTcount: A:0.15, C:0.26, G:0.08, T:0.51
Consensus pattern (20 bp):
TTCTTCTCATTTTGAACTTC
Found at i:19434386 original size:113 final size:113
Alignment explanation
Indices: 19434185--19434472 Score: 420
Period size: 113 Copynumber: 2.6 Consensus size: 113
19434175 AGATGACGAG
* * *
19434185 TTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTCTTCTG
* *
19434250 GAAAAGCTGATCCATCAAATGATGGATT-TGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGAATTCAG-GCAAAAGGTTGAACAAA
* *
19434298 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTTTGAACTTCTTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTCTTCTG
* * * *
19434363 GAAAGGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAA
**
19434411 TTCTTCTCATTATGAACTTCTTCTTCC-T-TAGATGACGAGTTCTTCTCATTATGAACTTCTTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA-GACGAGTTCTTCTCATTATGAACTTCTTC
19434473 ATCCCTCTTC
Statistics
Matches: 159, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
111 2 0.01
112 29 0.18
113 127 0.80
114 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTCTTCTG
GAAAAGCTGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAA
Found at i:19434433 original size:17 final size:17
Alignment explanation
Indices: 19434411--19434472 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
19434401 GTTGAACAAA
19434411 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* *
19434428 TTCTTCTTCCTTAGATGACGAG
1 TTCTTC-TCATT--ATGA--AC
19434450 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
19434467 TTCTTC
1 TTCTTC
19434473 ATCCCTCTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
17 13 0.36
18 4 0.11
19 4 0.11
20 4 0.11
21 4 0.11
22 7 0.19
ACGTcount: A:0.19, C:0.24, G:0.10, T:0.47
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:19434454 original size:39 final size:40
Alignment explanation
Indices: 19434411--19434509 Score: 139
Period size: 40 Copynumber: 2.5 Consensus size: 40
19434401 GTTGAACAAA
* *
19434411 TTCTTCTCATTATGAACTTCTTC-TTCCT-TAGATGACGAG
1 TTCTTCTCATTATGAACTTCTTCATCCCTCTACA-GACGAG
* *
19434450 TTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTCTTCATCCCTCTACAGACGAG
19434490 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
19434510 CTCTGGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
39 23 0.43
40 29 0.54
41 2 0.04
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.44
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTCTTCATCCCTCTACAGACGAG
Found at i:19434454 original size:152 final size:152
Alignment explanation
Indices: 19434298--19434626 Score: 482
Period size: 152 Copynumber: 2.2 Consensus size: 152
19434288 GTTGAACAAA
* * * *
19434298 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTTTGAACTTCTTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGACGAGTTCTTCTCATTATGAACTTCCTCTG
* * * *
19434363 GAAAGGTTGATCCATCAATTGATGAATTCAG-GTAAAAGGTTGAACAAATTCTTCTCATTATGAA
66 GAAAAGCTGATCCATCAAATGATGAATT-AGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
19434427 CTTCTTCTTCCTT-AGATGACGAG
130 CTTCTTCTTCCTTCATA-GACGAG
* *
19434450 TTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGACGAGTTCTTCTCATTATGAACTTCCTCTG
* *
19434515 GAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGCTGATCCATCAAATGATGAATTAGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
19434580 TTCTTCTTCCTTCTTCAGATGAG
131 TTCTTCTTCCTTCAT-AGACGAG
19434603 TTCTTCTCATTATGAACTTCTTCT
1 TTCTTCTCATTATGAACTTCTTCT
19434627 GGAAAGGCTG
Statistics
Matches: 158, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
151 1 0.01
152 128 0.81
153 28 0.18
154 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (152 bp):
TTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGACGAGTTCTTCTCATTATGAACTTCCTCTG
GAAAAGCTGATCCATCAAATGATGAATTAGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCATAGACGAG
Found at i:19434506 original size:265 final size:265
Alignment explanation
Indices: 19434033--19434734 Score: 1196
Period size: 265 Copynumber: 2.6 Consensus size: 265
19434023 TCTTGATGAG
*
19434033 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTT-TCTC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTTCT-TC
* * * * *
19434096 TAGAAAAGTTGATCCATCAAGTGATGGATT-TGAGCAAAAGGTTGAACAAATTCTTCTCATTATG
64 TAGAAAGGTTGATCCATCAATTGATGAATTCAG-GTAAAAGGTTGAACAAATTCTTCTCATTATG
*
19434160 AACTTCTTCTTCCTTAGATGACGAGTTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAG
128 AACTTCTTCTTCCTTAGATGACGAGTTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAG
19434225 TTCTTCTCATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGT
193 TTCTTCTCATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGT
19434290 TGAACAAA
258 TGAACAAA
* * *
19434298 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGACGAGTTCTTCTCATTTTGAACTTCTTCTT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTA
19434363 GAAAGGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAGGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
19434428 TTCTTCTTCCTTAGATGACGAGTTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAGTTC
131 TTCTTCTTCCTTAGATGACGAGTTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAGTTC
19434493 TTCTCATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGA
196 TTCTCATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGA
19434558 ACAAA
261 ACAAA
*
19434563 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTA
*
19434628 GAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAGGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
** *
19434693 TTCTTCTTCCTT-CTTCAGATGAGTTCTTCTCATTATGAACTT
131 TTCTTCTTCCTTAGAT--GACGAGTTCTTCTCATTATGAACTT
19434735 TCTCTGGAAA
Statistics
Matches: 415, Mismatches: 17, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
264 4 0.01
265 385 0.93
266 26 0.06
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (265 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTA
GAAAGGTTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTAGATGACGAGTTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAGTTC
TTCTCATTATGAACTTCCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGA
ACAAA
Found at i:19434651 original size:113 final size:113
Alignment explanation
Indices: 19434450--19434876 Score: 707
Period size: 113 Copynumber: 3.8 Consensus size: 113
19434440 AGATGACGAG
* * *
19434450 TTCTTCTCATTATGAACTTCTTCATCCCTCTTCAGATGAGTTCTTCTCATTATGAACTTCCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
19434515 GAAAAGCTGATCCATCAAATGATGGATT-TGAGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGAATTCAG-GCAAAAGGTTGAACAAA
19434563 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCT
* * *
19434627 GGAAAGGCTGATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAA
65 GGAAAAGCTGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAA
19434676 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
19434741 GAAAAGCTGATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAA
19434789 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
19434854 GAAATG-TCAATCCATCAAATGAT
66 GAAAAGCT-GATCCATCAAATGAT
19434877 AGATTTGAAT
Statistics
Matches: 296, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
112 3 0.01
113 289 0.98
114 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAATGATGAATTCAGGCAAAAGGTTGAACAAA
Found at i:19435791 original size:83 final size:83
Alignment explanation
Indices: 19435612--19436580 Score: 1473
Period size: 83 Copynumber: 11.7 Consensus size: 83
19435602 GTAGTTCCTA
* * *
19435612 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGTCTCCTTCATCCTCC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAG-CACATTCATCTTCC
19435677 AAATTCAATGATTGGTTCTGT
64 AAATTCAATGATTGGTTCT-T
* *
19435698 CC-AACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCCTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
19435762 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCT-T
*
19435781 CC-AACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
19435845 ATTCAATGATTGGTTCTAT
66 ATTCAATGATTGGTTCT-T
*
19435864 CC-AACCAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
19435928 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCT-T
* * * * * *
19435947 AC-AACTAGATCAGATAACTCATAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
* *
19436011 ATTCAATAATTGGTTCTG
66 ATTCAATGATTGGTTCTT
*
19436029 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCA
*
19436093 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTT
19436112 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-ATTCTTCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCCA
*
19436176 AATTTAATGATTGGTT-TT
65 AATTCAATGATTGGTTCTT
* *
19436194 ACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGACGATGCTATGAGCACATT-ATTCTTCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCC
19436258 AAATTCAATGATTGGTT-TT
64 AAATTCAATGATTGGTTCTT
* *
19436277 ACCAAACCAGATCATATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-ATTCTTCT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCC
19436341 AAATTCAATGATTGGTT-TT
64 AAATTCAATGATTGGTTCTT
19436360 ACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-ATTCTTCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCC
19436424 AAATTCAATGATTGGTT-TT
64 AAATTCAATGATTGGTTCTT
19436443 ACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-ATTCTTCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCA-TCTTCC
*
19436507 AAATTCAATGATTAGTT-TT
64 AAATTCAATGATTGGTTCTT
19436526 ACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
19436581 GGCATTTGTT
Statistics
Matches: 844, Mismatches: 34, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
82 5 0.01
83 791 0.94
84 5 0.01
85 41 0.05
86 2 0.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
ATTCAATGATTGGTTCTT
Found at i:19437747 original size:11 final size:11
Alignment explanation
Indices: 19437731--19437756 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19437721 TTGACCCCCC
19437731 TTTTTTCTTTT
1 TTTTTTCTTTT
19437742 TTTTTTCTTTT
1 TTTTTTCTTTT
19437753 TTTT
1 TTTT
19437757 CTTCAAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:19470199 original size:18 final size:18
Alignment explanation
Indices: 19470177--19470305 Score: 119
Period size: 18 Copynumber: 7.2 Consensus size: 18
19470167 AATATTTGTA
19470177 AATATAATAATAATATAT
1 AATATAATAATAATATAT
*
19470195 TATATAATAATAATATAT
1 AATATAATAATAATATAT
* *
19470213 TATAT-GTAATAA-ATACGT
1 AATATAATAATAATATA--T
*
19470231 AAGATAATAATAATA-AT
1 AATATAATAATAATATAT
19470248 -A-ATAATAATAATA-AT
1 AATATAATAATAATATAT
19470263 AATAATAATAATAATA-AT
1 AAT-ATAATAATAATATAT
19470281 AATGATAATAATAACATATAT
1 AAT-ATAATAAT-A-ATATAT
19470302 AATA
1 AATA
19470306 AAAATGGACA
Statistics
Matches: 95, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
15 14 0.15
16 5 0.05
17 7 0.07
18 51 0.54
19 8 0.08
20 5 0.05
21 5 0.05
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (18 bp):
AATATAATAATAATATAT
Found at i:19470306 original size:3 final size:3
Alignment explanation
Indices: 19470180--19470294 Score: 117
Period size: 3 Copynumber: 37.3 Consensus size: 3
19470170 ATTTGTAAAT
* * *
19470180 ATA ATA ATA AT- ATA TTA TATA ATA ATA ATA TATT ATA TGTA ATAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA AT-A ATA
* *
19470228 CGTA A-G ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
19470273 ATA ATA ATA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
19470295 CATATATAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
2 3 0.03
3 79 0.85
4 11 0.12
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:19470306 original size:18 final size:16
Alignment explanation
Indices: 19470175--19470306 Score: 101
Period size: 15 Copynumber: 7.8 Consensus size: 16
19470165 GTAATATTTG
19470175 TAAAT-ATAATAATAA
1 TAAATAATAATAATAA
*
19470190 TATATTATATAATAATAA
1 TA-AATA-ATAATAATAA
* *
19470208 TATATTATATGTAATAAATACG
1 TA-A--ATA-ATAAT-AATA-A
19470230 TAAGATAATAATAATAA
1 TAA-ATAATAATAATAA
19470247 T-AATAATAATAATAA
1 TAAATAATAATAATAA
19470262 T-AATAATAATAATAA
1 TAAATAATAATAATAA
*
19470277 T-AATAATGATAATAA
1 TAAATAATAATAATAA
19470292 TAACATATATAATAA
1 TAA-ATA-ATAATAA
19470307 AAATGGACAA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
15 45 0.46
16 4 0.04
17 4 0.04
18 24 0.24
19 4 0.04
20 10 0.10
21 5 0.05
22 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (16 bp):
TAAATAATAATAATAA
Found at i:19470637 original size:43 final size:42
Alignment explanation
Indices: 19470585--19470667 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
19470575 AAGGACTTAT
*
19470585 CATCTTGCTCGAAAGACTAAAAAATGACCCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTAAAAAATGA-CCCGAAGGATTTAAA
* * * *
19470628 CATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTAAAAAATGACCCGAAGGATTTA
19470668 CAAATTCGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 13 0.37
43 22 0.63
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAAAAAATGACCCGAAGGATTTAAA
Found at i:19470989 original size:248 final size:248
Alignment explanation
Indices: 19470538--19471268 Score: 1187
Period size: 248 Copynumber: 2.9 Consensus size: 248
19470528 CAATAAAGAG
* * * * * *
19470538 TGTAAACATCCTGCCCAAAGGTCTGATGGATGACTCTAAGGACTTATCATCTTGCTCGAAAGACT
1 TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTGCTCGAAAGACT
*
19470603 AAAAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
66 AACAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
*
19470668 CAAATTCGTGGGAAATATTTATTGTGTAAGAAACTTCTTACTTTTCAAAAATATCATTTTCTAGA
131 CAAATTCGTGGGAAATATTTATTGGGTAAGAAACTTCTTACTTTTCAAAAATATCATTTTCTAGA
19470733 ACATTAAATGAGAAACTTTGAAAATATTTTCTCATTTTTATGCGAAAATCATA
196 ACATTAAATGAGAAACTTTGAAAATATTTTCTCATTTTTATGCGAAAATCATA
*
19470786 TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTGCTCGAAAGAAT
1 TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTGCTCGAAAGACT
*
19470851 AACAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACTCGAAGGATTTA
66 AACAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
*
19470916 CAAATTCATGGGAAATATTTATTGGGTAAGAAACTTCTTACTTTTCAAAAATATCATTTTCTAGA
131 CAAATTCGTGGGAAATATTTATTGGGTAAGAAACTTCTTACTTTTCAAAAATATCATTTTCTAGA
19470981 ACATTAAATGAGAAACTTTGAAAATATTTTCTCATTTTTATGCGAAAATCATA
196 ACATTAAATGAGAAACTTTGAAAATATTTTCTCATTTTTATGCGAAAATCATA
*
19471034 TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTACTCGAAAGACT
1 TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTGCTCGAAAGACT
* * * * ** * * *
19471099 AACAGATGA-CCCGAATGATTTAAGCATCAAGCTTAAAAGACTGACATATGACCCAAAGGATTTA
66 AACAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
* *
19471163 CAAATTCGTGGGAAATAATTTACTGGGTAAGAAACTTCTTACTTTTCAAAAAATTTCATTTTCTA
131 CAAATTCGTGGGAAAT-ATTTATTGGGTAAGAAACTTCTTACTTTTC-AAAAATATCATTTTCTA
* *
19471228 TAACATTAAAT-ATGAAACATTGAAAATAGTTTTCTCATTTT
194 GAACATTAAATGA-GAAACTTTGAAAATA-TTTTCTCATTTT
19471269 CAAAATAACT
Statistics
Matches: 451, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
247 61 0.14
248 338 0.75
249 40 0.09
250 12 0.03
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (248 bp):
TGTAAAAATCCTACCCAAAGGTTTGATGGATGGCCCTGAGGACTTATCATCTTGCTCGAAAGACT
AACAAATGACCCCGAAGGATTTAAACATCATGCTCGAAAGACTGACAGATTACCCGAAGGATTTA
CAAATTCGTGGGAAATATTTATTGGGTAAGAAACTTCTTACTTTTCAAAAATATCATTTTCTAGA
ACATTAAATGAGAAACTTTGAAAATATTTTCTCATTTTTATGCGAAAATCATA
Found at i:19477466 original size:45 final size:44
Alignment explanation
Indices: 19477395--19477574 Score: 301
Period size: 45 Copynumber: 4.1 Consensus size: 44
19477385 ATATCCAATG
*
19477395 TTTTACTATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
1 TTTTACAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
*
19477439 TTGTACAAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
1 TTTTAC-AATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
19477484 TTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
1 TTTTA-CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
19477529 TTTTAGCAATATACTTACCA-TTATTCCATAAGCTCGT-AGCTTA
1 TTTTA-CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
19477572 TTT
1 TTT
19477575 GAGTGGTTAC
Statistics
Matches: 130, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
43 9 0.07
44 22 0.17
45 98 0.75
46 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (44 bp):
TTTTACAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTA
Found at i:19493740 original size:21 final size:21
Alignment explanation
Indices: 19493710--19493750 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19493700 TTCATTGTAG
*
19493710 AAATTTATGGCCTCAACAAAA
1 AAATTCATGGCCTCAACAAAA
*
19493731 AAATTCATGGCTTCAACAAA
1 AAATTCATGGCCTCAACAAA
19493751 GACCTTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (21 bp):
AAATTCATGGCCTCAACAAAA
Found at i:19516263 original size:2 final size:2
Alignment explanation
Indices: 19516215--19516245 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19516205 TTAATAGTAC
19516215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19516246 GGTTTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19516267 original size:24 final size:25
Alignment explanation
Indices: 19516230--19516292 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
19516220 ATATATATAT
*
19516230 ATATATATATATATATGGTTT-GAAA
1 ATATATATA-ATATATAGTTTAGAAA
19516255 ATATATATAATATATAGTTTAGAAA
1 ATATATATAATATATAGTTTAGAAA
*
19516280 A-ATATATTATATA
1 ATATATATAATATA
19516293 ATTTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 21 0.60
25 14 0.40
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATATATAATATATAGTTTAGAAA
Found at i:19516299 original size:24 final size:23
Alignment explanation
Indices: 19516230--19516351 Score: 111
Period size: 26 Copynumber: 5.0 Consensus size: 23
19516220 ATATATATAT
*
19516230 ATATATATATATATATGGTTTGAAAA
1 ATATAT-TATATA-AT-TTTTGAAAA
* * *
19516256 TATATATAATATATAGTTTAGAAAA
1 -ATATATTATATA-ATTTTTGAAAA
19516281 ATATATTATATAATTTTT-AAAA
1 ATATATTATATAATTTTTGAAAA
*
19516303 GTATATTATATAATTTTTGAAAA
1 ATATATTATATAATTTTTGAAAA
*
19516326 CATATATAATGTATAATTTTTGAAAA
1 -ATATAT--TATATAATTTTTGAAAA
19516352 CATAGTTTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
22 21 0.26
23 8 0.10
24 16 0.20
25 7 0.09
26 23 0.28
27 6 0.07
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (23 bp):
ATATATTATATAATTTTTGAAAA
Found at i:19516302 original size:22 final size:22
Alignment explanation
Indices: 19516259--19516351 Score: 87
Period size: 22 Copynumber: 4.0 Consensus size: 22
19516249 TTGAAAATAT
* * **
19516259 ATATAATATATAGTTTAGAAAA
1 ATATATTATATAATTTTTAAAA
19516281 ATATATTATATAATTTTTAAAA
1 ATATATTATATAATTTTTAAAA
*
19516303 GTATATTATATAATTTTTGAAAA
1 ATATATTATATAATTTTT-AAAA
* *
19516326 CATATATAATGTATAATTTTTGAAA
1 -ATATAT--TATATAATTTTTAAAA
19516351 A
1 A
19516352 CATAGTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 35 0.59
23 4 0.07
24 6 0.10
25 3 0.05
26 11 0.19
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (22 bp):
ATATATTATATAATTTTTAAAA
Found at i:19519896 original size:44 final size:44
Alignment explanation
Indices: 19519847--19520010 Score: 229
Period size: 44 Copynumber: 3.7 Consensus size: 44
19519837 ATGCTCTAAA
19519847 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATACC
*
19519891 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATACC
* * * * * * *
19519935 ATAAATGAAAATGCATAACAGTGTATTACTAGCAGAAAGGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATACC
* * *
19519979 ATAAATGAAAATACATAGCGGTGCGTTATTGG
1 ATAAATGAAAATGCATAACGGTGCATTATTGG
19520011 TAGATATGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 105 1.00
ACGTcount: A:0.43, C:0.12, G:0.21, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGATACC
Found at i:19520833 original size:226 final size:227
Alignment explanation
Indices: 19520437--19520893 Score: 889
Period size: 226 Copynumber: 2.0 Consensus size: 227
19520427 TCATGTATTC
19520437 TTTTGATAATTAGATGCCATTTATATGAATCTAAGAAAAATGCTCTGTAATGTATTTAAGTTATA
1 TTTTGATAATTAGATGCCATTTATATGAATCTAAGAAAAATGCTCTGTAATGTATTTAAGTTATA
*
19520502 ACTTTGTAATAGTTTACACCAAATGTTTTACCTTATATTAAAAATGTTTTATTTTAAATTTCGAA
66 ACTTTGTAATA-TTTACACCAAATGTTTTACCTTATATTAAAAATGTTTTAATTTAAATTTCGAA
19520567 ACAAAATTCTACATGTTTATAAATAAGAAAATGTTTTTAAAAGTCATGTGACACTTGTGACTTGT
130 ACAAAATTCTACATGTTTATAAATAAGAAAATGTTTTTAAAAGTCATGTGACACTTGTGACTTGT
19520632 GTACGGGAACATATAAGGGAAATGGGTATTACA
195 GTACGGGAACATATAAGGGAAATGGGTATTACA
19520665 TTTTGATAATTAGATGCCATTTATATGAATCTAAGAAAAATGCTCTGTAATGTATTTAAGTTATA
1 TTTTGATAATTAGATGCCATTTATATGAATCTAAGAAAAATGCTCTGTAATGTATTTAAGTTATA
19520730 ACTTTGTAAT-TTTACACCAAATGTTTTACCTTATATTAAAAATGTTTTAATTTAAATTTCGAAA
66 ACTTTGTAATATTTACACCAAATGTTTTACCTTATATTAAAAATGTTTTAATTTAAATTTCGAAA
19520794 CAAAATTCTACATGTTTATAAATAAGAAAATGTTTTTAAAAGTCATGTGACACTTGTGACTTGTG
131 CAAAATTCTACATGTTTATAAATAAGAAAATGTTTTTAAAAGTCATGTGACACTTGTGACTTGTG
19520859 TACGGGAACATATAAGGGAAATGGGTATTACA
196 TACGGGAACATATAAGGGAAATGGGTATTACA
19520891 TTT
1 TTT
19520894 ATTGGTATTA
Statistics
Matches: 228, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
226 153 0.67
228 75 0.33
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (227 bp):
TTTTGATAATTAGATGCCATTTATATGAATCTAAGAAAAATGCTCTGTAATGTATTTAAGTTATA
ACTTTGTAATATTTACACCAAATGTTTTACCTTATATTAAAAATGTTTTAATTTAAATTTCGAAA
CAAAATTCTACATGTTTATAAATAAGAAAATGTTTTTAAAAGTCATGTGACACTTGTGACTTGTG
TACGGGAACATATAAGGGAAATGGGTATTACA
Found at i:19527065 original size:18 final size:18
Alignment explanation
Indices: 19527042--19527088 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
19527032 AGTGGTCAAC
*
19527042 GGTCAATGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
19527060 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
19527078 AGTCAACGGGT
1 GGTCAACGGGT
19527089 TAGGTCCGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:19527094 original size:18 final size:18
Alignment explanation
Indices: 19527043--19527094 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
19527033 GTGGTCAACG
* * *
19527043 GTCAATGGGTCGGGTCGG
1 GTCAACGGGTCAGGTCGA
*
19527061 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCAGGTCGA
*
19527079 GTCAACGGGTTAGGTC
1 GTCAACGGGTCAGGTC
19527095 CGGTTGGAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.15, C:0.19, G:0.44, T:0.21
Consensus pattern (18 bp):
GTCAACGGGTCAGGTCGA
Found at i:19531073 original size:44 final size:44
Alignment explanation
Indices: 19531023--19531330 Score: 388
Period size: 44 Copynumber: 7.0 Consensus size: 44
19531013 CTGCTCTAAA
* * *
19531023 ATAAATGAAAATGAATAGCGGTGTATTATTGGTAGAAAGGTGCC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * * *
19531067 GTAAATGAAAATGCATAAAGGTGCATTATTGACATAAAGGTGCC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
19531111 ATAAATGAAAATGCATAACGGTGAATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
19531155 ATAAATGAAAAT-ACATAACGGTGCATTATTGACAGAAATGTGCC
1 ATAAATGAAAATGA-ATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
19531199 ATAAATGAAAAT-ACATAAAGGTGCATTATTGGCATAAAGGTGGC
1 ATAAATGAAAATGA-ATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
19531243 ATAAATGAAAATGCA-AACGGTGCATTATTGGTAGAAAGGTGTC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
19531286 ATAAATGAAAATGCATAACGATGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
19531330 A
1 A
19531331 CTCATGGTAT
Statistics
Matches: 230, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
43 39 0.17
44 191 0.83
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGAATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:19531177 original size:132 final size:131
Alignment explanation
Indices: 19531023--19531330 Score: 465
Period size: 132 Copynumber: 2.3 Consensus size: 131
19531013 CTGCTCTAAA
* * * * * *
19531023 ATAAATGAAAATGA-ATAGCGGTGTATTATTGGTAGAAAGGTGCCGTAAATGAAAATGCATAAAG
1 ATAAATGAAAAT-ACATAACGGTGCATTATTGGCAGAAATGTGCCATAAATGAAAATACATAAAG
19531087 GTGCATTATTGACATAAAGGTGCCATAAATGAAAATGCATAACGGTGAATTATTGGCAGAAAGGT
65 GTGCATTATTGACATAAAGGTGCCATAAATGAAAATGCA-AACGGTGAATTATTGGCAGAAAGGT
19531152 GCC
129 GCC
*
19531155 ATAAATGAAAATACATAACGGTGCATTATTGACAGAAATGTGCCATAAATGAAAATACATAAAGG
1 ATAAATGAAAATACATAACGGTGCATTATTGGCAGAAATGTGCCATAAATGAAAATACATAAAGG
* * * * *
19531220 TGCATTATTGGCATAAAGGTGGCATAAATGAAAATGCAAACGGTGCATTATTGGTAGAAAGGTGT
66 TGCATTATTGACATAAAGGTGCCATAAATGAAAATGCAAACGGTGAATTATTGGCAGAAAGGTGC
19531285 C
131 C
* *
19531286 ATAAATGAAAATGCATAACGATGCATTATTGGCAGAAATGTGCCA
1 ATAAATGAAAATACATAACGGTGCATTATTGGCAGAAATGTGCCA
19531331 CTCATGGTAT
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
131 68 0.43
132 92 0.57
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (131 bp):
ATAAATGAAAATACATAACGGTGCATTATTGGCAGAAATGTGCCATAAATGAAAATACATAAAGG
TGCATTATTGACATAAAGGTGCCATAAATGAAAATGCAAACGGTGAATTATTGGCAGAAAGGTGC
C
Found at i:19539856 original size:25 final size:25
Alignment explanation
Indices: 19539828--19539886 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
19539818 AATGATTTCA
19539828 TGAATGCATAGGCACCTGTGAGCTG
1 TGAATGCATAGGCACCTGTGAGCTG
*
19539853 TGAATGCATAGGCACTTGTGAGCTG
1 TGAATGCATAGGCACCTGTGAGCTG
19539878 TGAATGCAT
1 TGAATGCAT
19539887 GCCATGAGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (25 bp):
TGAATGCATAGGCACCTGTGAGCTG
Found at i:19546803 original size:90 final size:90
Alignment explanation
Indices: 19546650--19546828 Score: 358
Period size: 90 Copynumber: 2.0 Consensus size: 90
19546640 TTCTCTTTCT
19546650 TGTGGAGTTGAAGGACACATTTCCTTCGAAAAAGAAATGCCATGTCTCATAGGAAAAAATCCTTT
1 TGTGGAGTTGAAGGACACATTTCCTTCGAAAAAGAAATGCCATGTCTCATAGGAAAAAATCCTTT
19546715 CTTGGATTCTTCCATACTAAACCTC
66 CTTGGATTCTTCCATACTAAACCTC
19546740 TGTGGAGTTGAAGGACACATTTCCTTCGAAAAAGAAATGCCATGTCTCATAGGAAAAAATCCTTT
1 TGTGGAGTTGAAGGACACATTTCCTTCGAAAAAGAAATGCCATGTCTCATAGGAAAAAATCCTTT
19546805 CTTGGATTCTTCCATACTAAACCT
66 CTTGGATTCTTCCATACTAAACCT
19546829 TTTCAGCACT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (90 bp):
TGTGGAGTTGAAGGACACATTTCCTTCGAAAAAGAAATGCCATGTCTCATAGGAAAAAATCCTTT
CTTGGATTCTTCCATACTAAACCTC
Found at i:19555433 original size:238 final size:238
Alignment explanation
Indices: 19555015--19555492 Score: 947
Period size: 238 Copynumber: 2.0 Consensus size: 238
19555005 ATAAGGAGAA
19555015 AACGGAGAGTGACACCACAAACATCTTTTCCATGATATTTCTATGAAGGACATTAAGTCCTCCTT
1 AACGGAGAGTGACACCACAAACATCTTTTCCATGATATTTCTATGAAGGACATTAAGTCCTCCTT
*
19555080 TATAATTCAAGGCTCAAGCTATTTCCAGGCAAGCTCAAGTGAAGTTGGTATGGCCTTTTCATAGT
66 TATAATTCAAGGCTCAAGCTATTCCCAGGCAAGCTCAAGTGAAGTTGGTATGGCCTTTTCATAGT
19555145 GCATCATGTTTACCCTCACAGAGTTATAGACATCAAGAACGTCGATGATAGCATAATTTTTAAGG
131 GCATCATGTTTACCCTCACAGAGTTATAGACATCAAGAACGTCGATGATAGCATAATTTTTAAGG
19555210 TCAACGACCAATGCCTTAAGGCATACATTGGAGCTCCAATAAT
196 TCAACGACCAATGCCTTAAGGCATACATTGGAGCTCCAATAAT
19555253 AACGGAGAGTGACACCACAAACATCTTTTCCATGATATTTCTATGAAGGACATTAAGTCCTCCTT
1 AACGGAGAGTGACACCACAAACATCTTTTCCATGATATTTCTATGAAGGACATTAAGTCCTCCTT
19555318 TATAATTCAAGGCTCAAGCTATTCCCAGGCAAGCTCAAGTGAAGTTGGTATGGCCTTTTCATAGT
66 TATAATTCAAGGCTCAAGCTATTCCCAGGCAAGCTCAAGTGAAGTTGGTATGGCCTTTTCATAGT
19555383 GCATCATGTTTACCCTCACAGAGTTATAGACATCAAGAACGTCGATGATAGCATAATTTTTAAGG
131 GCATCATGTTTACCCTCACAGAGTTATAGACATCAAGAACGTCGATGATAGCATAATTTTTAAGG
19555448 TCAACGACCAATGCCTTAAGGCATACATTGGAGCTCCAATAAT
196 TCAACGACCAATGCCTTAAGGCATACATTGGAGCTCCAATAAT
19555491 AA
1 AA
19555493 GAGACAAATC
Statistics
Matches: 239, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
238 239 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (238 bp):
AACGGAGAGTGACACCACAAACATCTTTTCCATGATATTTCTATGAAGGACATTAAGTCCTCCTT
TATAATTCAAGGCTCAAGCTATTCCCAGGCAAGCTCAAGTGAAGTTGGTATGGCCTTTTCATAGT
GCATCATGTTTACCCTCACAGAGTTATAGACATCAAGAACGTCGATGATAGCATAATTTTTAAGG
TCAACGACCAATGCCTTAAGGCATACATTGGAGCTCCAATAAT
Found at i:19557450 original size:17 final size:19
Alignment explanation
Indices: 19557424--19557465 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
19557414 TCTCCAATGT
*
19557424 TTTTAT-TTAA-TG-TATG
1 TTTTATATTAATTGATATA
19557440 TTTTATATTAATTGATATA
1 TTTTATATTAATTGATATA
19557459 TTTTATA
1 TTTTATA
19557466 ATCTGTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 2 0.09
19 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTTATATTAATTGATATA
Found at i:19557613 original size:49 final size:48
Alignment explanation
Indices: 19557535--19557694 Score: 189
Period size: 48 Copynumber: 3.3 Consensus size: 48
19557525 ATGTAAAAAT
* * * *
19557535 GGTGCATTTTTTGTAGAAAGGTGTCACTAATGCAAGTTAAGTGCCTAAC
1 GGTGCA-TTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAGTGCATAAC
* * * *
19557584 GGTACAATTTTGGCAGAAAGGTGCCACTAATGCAAGTT-AGATGAAAAAT
1 GGTGC-ATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAG-TGCATAAC
*
19557633 GGTGCATTTTGGCAGAAAGGTGCCACTAATG-ATAGTTAAATGCATAAC
1 GGTGCATTTTGGCAGAAAGGTGCCACTAATGCA-AGTTAAGTGCATAAC
19557681 GGTGCATTTTGGCA
1 GGTGCATTTTGGCA
19557695 TAAAAAATGC
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 51 0.54
49 41 0.44
50 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (48 bp):
GGTGCATTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAGTGCATAAC
Found at i:19557706 original size:97 final size:98
Alignment explanation
Indices: 19557529--19557708 Score: 240
Period size: 97 Copynumber: 1.8 Consensus size: 98
19557519 TCTATAATGT
* * * * *
19557529 AAAAATGGTGCATTTTTTGTAGAAAGGTGTCACTAATGCAAGTTAAGTGCCTAACGGTACAATTT
1 AAAAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAATGCATAACGGTACAATTT
* **
19557594 TGGCAGAAAGGTGCCACTAATGCAAGTTAGATG
66 TGGCAAAAAAATGCCACTAATGCAAGTTAGATG
*
19557627 AAAAATGGTGCA-TTTTGGCAGAAAGGTGCCACTAATG-ATAGTTAAATGCATAACGGTGC-ATT
1 AAAAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCA-AGTTAAATGCATAACGGTACAATT
19557689 TTGGCATAAAAAATGCCACT
65 TTGGCA-AAAAAATGCCACT
19557709 CATGGTTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
96 10 0.14
97 49 0.69
98 12 0.17
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
AAAAATGGTGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAAATGCATAACGGTACAATTT
TGGCAAAAAAATGCCACTAATGCAAGTTAGATG
Found at i:19560028 original size:179 final size:180
Alignment explanation
Indices: 19559728--19560077 Score: 519
Period size: 179 Copynumber: 1.9 Consensus size: 180
19559718 ACTATAACAT
* *
19559728 CTTTTCTGTCGATAATCCACCCATACGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGTAC
1 CTTTTCTGTCGATAATCCACCCATACACATTTCAACTCTAGTATACTTTTCTGTTGATAATGCAC
* * *
19559793 CCATATACATTTCAACCATAGTATACTTTTATGTTAATAATGTACCCATATACATTTCAACCATA
66 CCATATACATTTCAACCATAGCATACTTTTATGTTAATAACGTACCCATATACATTTCAACCAAA
*
19559858 GTATACTTTTCTGTTG-TAATGTACCCATATACATTTCAACCATATTATA
131 GTATACTTTTCTATTGATAATGTACCCATATACATTTCAACCATATTATA
* ** *
19559907 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA-TTTCTCTGTTGATAATGC
1 CTTTTCTGTCGATAATCCACCCATACACATTTCAACTC-TAGTATACTTT-TCTGTTGATAATGC
* * *
19559970 ACCCATATGCATTTCAACTC-TAGCATACTTTTATGTTGATAACGTACCCATATACATTTCAACT
64 ACCCATATACATTTCAAC-CATAGCATACTTTTATGTTAATAACGTACCCATATACATTTCAACC
*
19560034 AAAGTATATTTTTCTATTGATAATGTACCCATATACATTTCAAC
128 AAAGTATACTTTTCTATTGATAATGTACCCATATACATTTCAAC
19560078 TATGGCATCT
Statistics
Matches: 153, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
178 4 0.03
179 124 0.81
180 25 0.16
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (180 bp):
CTTTTCTGTCGATAATCCACCCATACACATTTCAACTCTAGTATACTTTTCTGTTGATAATGCAC
CCATATACATTTCAACCATAGCATACTTTTATGTTAATAACGTACCCATATACATTTCAACCAAA
GTATACTTTTCTATTGATAATGTACCCATATACATTTCAACCATATTATA
Found at i:19560079 original size:45 final size:45
Alignment explanation
Indices: 19559728--19560077 Score: 492
Period size: 45 Copynumber: 7.8 Consensus size: 45
19559718 ACTATAACAT
* ** **
19559728 CTTTTCTGTCGATAATCCACCCATACGCATTTCAACTC-TAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
19559773 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* *
19559818 CTTTTATGTTAATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
*
19559863 CTTTTCTGTTG-TAATGTACCCATATACATTTCAACCATATTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
19559907 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * *
19559952 -TTTCTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGCATA
1 CTTT-TCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
* * * *
19559997 CTTTTATGTTGATAACGTACCCATATACATTTCAACTAAAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* *
19560042 TTTTTCTATTGATAATGTACCCATATACATTTCAAC
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC
19560078 TATGGCATCT
Statistics
Matches: 274, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
44 47 0.17
45 223 0.81
46 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
Found at i:19565439 original size:45 final size:45
Alignment explanation
Indices: 19565389--19565763 Score: 222
Period size: 45 Copynumber: 8.4 Consensus size: 45
19565379 CTTACACCAT
*
19565389 TATGCATTTTAAACTATAACA-AATTTTCTGTCGATAATGCACCCA
1 TATGCA-TTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
* ** * * *
19565434 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
* * * *
19565479 TATACATTTCAACTAT-A-GT-ATTCTTCCTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAACATAATT-TT-CTGTCGATAATGCACCCA
* * ** * *
19565523 TATACATTTCAACCATAGTATACTTTT-TGGTTGATAATGCACCCA
1 TATGCATTTCAACTATAACATAATTTTCT-GTCGATAATGCACCCA
* * ** * * * * *
19565568 TATACATTTCAACCATAGTATATTTTTCTATTGATAATGTACTCA
1 TATGCATTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
* * ** * * * *
19565613 TATACATTTCAACCATAGTATACTTTTATGTTGATAATGCACTCA
1 TATGCATTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
* * * * * *
19565658 TATGCATTTCAACTCTAGCATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
** * ** * * *
19565703 TATAAATTTCAACTA-AAGTATGTTTTTGTGTTGATAATGTACCCA
1 TATGCATTTCAACTATAA-CATAATTTTCTGTCGATAATGCACCCA
*
19565748 TATACATTTCAACTAT
1 TATGCATTTCAACTAT
19565764 GGCATCCTTT
Statistics
Matches: 280, Mismatches: 40, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
44 45 0.16
45 224 0.80
46 4 0.01
47 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.41
Consensus pattern (45 bp):
TATGCATTTCAACTATAACATAATTTTCTGTCGATAATGCACCCA
Found at i:19565761 original size:90 final size:90
Alignment explanation
Indices: 19565412--19565761 Score: 447
Period size: 90 Copynumber: 3.9 Consensus size: 90
19565402 CTATAACAAA
* * * * *
19565412 TTTTCTGTCGATAATGCACCCATATGCATTTCAACTC-TAGTATACTTTTCTGTTGATAATGTAC
1 TTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATACTTTTGTGTTGATAATGCAC
* *
19565476 CCATATACATTTCAACTATAGTATTC
65 CCATATACATTTCAACTCTAGTATAC
*
19565502 -TTCCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTT-TGGTTGATAATGCAC
1 TTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTGT-GTTGATAATGCAC
*
19565565 CCATATACATTTCAAC-CATAGTATAT
65 CCATATACATTTCAACTC-TAGTATAC
* * * *
19565591 TTTTCTATTGATAATGTACTCATATACATTTCAACCATAGTATACTTTTATGTTGATAATGCACT
1 TTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTGTGTTGATAATGCACC
* *
19565656 CATATGCATTTCAACTCTAGCATAC
66 CATATACATTTCAACTCTAGTATAC
* * * * ** *
19565681 TTTTATGTTGATAATGTACCCATATAAATTTCAACTAAAGTATGTTTTTGTGTTGATAATGTACC
1 TTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTGTGTTGATAATGCACC
19565746 CATATACATTTCAACT
66 CATATACATTTCAACT
19565762 ATGGCATCCT
Statistics
Matches: 227, Mismatches: 27, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
88 2 0.01
89 76 0.33
90 147 0.65
91 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.41
Consensus pattern (90 bp):
TTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTGTGTTGATAATGCACC
CATATACATTTCAACTCTAGTATAC
Found at i:19565785 original size:135 final size:134
Alignment explanation
Indices: 19565412--19565801 Score: 487
Period size: 135 Copynumber: 2.9 Consensus size: 134
19565402 CTATAACAAA
* * * *
19565412 TTTTCTGTCGATAATGCACCCATATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGTACC
1 TTTT-TGTTGATAATGCACCCATATACATTTCAACTATAGTATATTTTTCTGTTGATAATGTACC
* * * *
19565477 CATATACATTTCAACTATAGTATTC-TTCCTGTTGATAATGTACCCATATACATTTCAACCATAG
65 CATATACATTTCAACTATAGTATACTTTCATGTTGATAATGCACCCATATGCATTTCAACCATAG
*
19565541 TATAC
130 CATAC
* * *
19565546 TTTTTGGTTGATAATGCACCCATATACATTTCAACCATAGTATATTTTTCTATTGATAATGTACT
1 TTTTT-GTTGATAATGCACCCATATACATTTCAACTATAGTATATTTTTCTGTTGATAATGTACC
* * *
19565611 CATATACATTTCAACCATAGTATACTTTTATGTTGATAATGCACTCATATGCATTTCAACTC-TA
65 CATATACATTTCAACTATAGTATACTTTCATGTTGATAATGCACCCATATGCATTTCAAC-CATA
19565675 GCATAC
129 GCATAC
* * * * *
19565681 TTTTATGTTGATAATGTACCCATATAAATTTCAACTAAAGTATGTTTTTGTGTTGATAATGTACC
1 TTTT-TGTTGATAATGCACCCATATACATTTCAACTATAGTATATTTTTCTGTTGATAATGTACC
* * * * ***
19565746 CATATACATTTCAACTATGGCATCCTTTCAGGCCAATAATGCACCCATATGCATTT
65 CATATACATTTCAACTATAGTATACTTTCATGTTGATAATGCACCCATATGCATTT
19565802 TTCTTTTATA
Statistics
Matches: 219, Mismatches: 33, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
133 1 0.00
134 79 0.36
135 137 0.63
136 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (134 bp):
TTTTTGTTGATAATGCACCCATATACATTTCAACTATAGTATATTTTTCTGTTGATAATGTACCC
ATATACATTTCAACTATAGTATACTTTCATGTTGATAATGCACCCATATGCATTTCAACCATAGC
ATAC
Found at i:19565824 original size:34 final size:34
Alignment explanation
Indices: 19565781--19565865 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
19565771 TTTCAGGCCA
*
19565781 ATAATGCACCCATATGCATTTTTCTTTTATACTG
1 ATAATGCACCCATATGCATTTTTCTTTTATAATG
19565815 ATAATGCACCCATATGCATTTTTCTTTTATAATG
1 ATAATGCACCCATATGCATTTTTCTTTTATAATG
19565849 ATAATGCACCCATATGC
1 ATAATGCACCCATATGC
19565866 TAGCTATGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.40
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTTTTCTTTTATAATG
Found at i:19566512 original size:34 final size:34
Alignment explanation
Indices: 19566473--19566623 Score: 162
Period size: 34 Copynumber: 4.3 Consensus size: 34
19566463 CCCCCTCTAG
19566473 GTATCGATACTCAAATTAGAATCGATGTTTACTA
1 GTATCGATACTCAAATTAGAATCGATGTTTACTA
* * * * ***
19566507 GTATCGATACCCTTAGCA-TGGTATCGATACCCCCT-CTA
1 GTATCGATA--CTCA-AATTAGAATCGAT---GTTTACTA
19566545 GGTATCGATACTCAAATTAGAATCGATGTTTACTA
1 -GTATCGATACTCAAATTAGAATCGATGTTTACTA
19566580 GTATCGATACTCAAATTAGAATCGATGTTTACTA
1 GTATCGATACTCAAATTAGAATCGATGTTTACTA
19566614 GTATCGATAC
1 GTATCGATAC
19566624 CCTTAGCATG
Statistics
Matches: 94, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
34 54 0.57
35 3 0.03
36 12 0.13
37 12 0.13
38 3 0.03
39 10 0.11
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (34 bp):
GTATCGATACTCAAATTAGAATCGATGTTTACTA
Found at i:19566553 original size:73 final size:73
Alignment explanation
Indices: 19566451--19566589 Score: 278
Period size: 73 Copynumber: 1.9 Consensus size: 73
19566441 CCCCTATGTT
19566451 ATGGTATCGATACCCCCTCTAGGTATCGATACTCAAATTAGAATCGATGTTTACTAGTATCGATA
1 ATGGTATCGATACCCCCTCTAGGTATCGATACTCAAATTAGAATCGATGTTTACTAGTATCGATA
19566516 CCCTTAGC
66 CCCTTAGC
19566524 ATGGTATCGATACCCCCTCTAGGTATCGATACTCAAATTAGAATCGATGTTTACTAGTATCGATA
1 ATGGTATCGATACCCCCTCTAGGTATCGATACTCAAATTAGAATCGATGTTTACTAGTATCGATA
19566589 C
66 C
19566590 TCAAATTAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (73 bp):
ATGGTATCGATACCCCCTCTAGGTATCGATACTCAAATTAGAATCGATGTTTACTAGTATCGATA
CCCTTAGC
Found at i:19566571 original size:18 final size:18
Alignment explanation
Indices: 19566548--19566605 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
19566538 CCCTCTAGGT
19566548 ATCGATACTCAAATTAGA
1 ATCGATACTCAAATTAGA
* ** * *
19566566 ATCGAT-GT-TTACTAGT
1 ATCGATACTCAAATTAGA
19566582 ATCGATACTCAAATTAGA
1 ATCGATACTCAAATTAGA
19566600 ATCGAT
1 ATCGAT
19566606 GTTTACTAGT
Statistics
Matches: 28, Mismatches: 10, Indels: 4
0.67 0.24 0.10
Matches are distributed among these distances:
16 10 0.36
17 2 0.07
18 16 0.57
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (18 bp):
ATCGATACTCAAATTAGA
Found at i:19568898 original size:2 final size:2
Alignment explanation
Indices: 19568891--19568923 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19568881 CCATAAAAGT
19568891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19568924 TCCTGACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19571214 original size:45 final size:45
Alignment explanation
Indices: 19571185--19571537 Score: 467
Period size: 45 Copynumber: 7.8 Consensus size: 45
19571175 ACTATAACAT
* * *
19571185 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAATATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
*
19571230 CTTTTCTGTTGATAATGTACCCATATACGTTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
19571275 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * *
19571320 ATTTTCTGTTGATAATGTACCCATTTGCATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* *
19571365 CTTTTCTATTAATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * * * * *
19571410 CTTTCCTGTTGATAATGCACCCATATGCATTTTAACTC-TTGCATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
* * * * *
19571455 CTTTTATGTTGATAATGTACCTATATACATTTCAACTAAAGTATG
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
*
19571500 CTTTTTTGTGTTGATAATGTACCCATATACATTTCAAC
1 C--TTTTCTGTTGATAATGTACCCATATACATTTCAAC
19571538 TATGGCATAC
Statistics
Matches: 269, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.00
45 234 0.87
46 1 0.00
47 33 0.12
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
Found at i:19571366 original size:135 final size:135
Alignment explanation
Indices: 19571186--19571578 Score: 475
Period size: 135 Copynumber: 2.9 Consensus size: 135
19571176 CTATAACATC
* *
19571186 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAATATACTTTTCTGTTGATAATGTAC
1 TTTTCTGTTGATAATGTACCCATATGCATTTCAAC-CATAGTATACTTTTCTGTTGATAATGTAC
* * *
19571250 CCATATACGTTTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CAT
65 CCATATACATTTCAACCATAGTATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTC-T
*
19571314 AGTATAA
129 AGCATAA
* * *
19571321 TTTTCTGTTGATAATGTACCCATTTGCATTTCAACCATAGTATACTTTTCTATTAATAATGTACC
1 TTTTCTGTTGATAATGTACCCATATGCATTTCAACCATAGTATACTTTTCTGTTGATAATGTACC
* * *
19571386 CATATACATTTCAACCATAGTATACTTTCCTGTTGATAATGCACCCATATGCATTTTAACTCTTG
66 CATATACATTTCAACCATAGTATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTCTAG
*
19571451 CATAC
131 CATAA
* * * * * * *
19571456 TTTTATGTTGATAATGTACCTATATACATTTCAACTAAAGTATGCTTTTTTGTGTTGATAATGTA
1 TTTTCTGTTGATAATGTACCCATATGCATTTCAACCATAGTATAC--TTTTCTGTTGATAATGTA
* * * * *** * *
19571521 CCCATATACATTTCAACTATGGCATACTTTCATGCCAATAATGCACCTATATGCATTT
64 CCCATATACATTTCAACCATAGTATACTTTCCTGTTGATAATGCACCCATATACATTT
19571579 TCTTTTATAT
Statistics
Matches: 223, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
134 1 0.00
135 156 0.70
136 1 0.00
137 65 0.29
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.41
Consensus pattern (135 bp):
TTTTCTGTTGATAATGTACCCATATGCATTTCAACCATAGTATACTTTTCTGTTGATAATGTACC
CATATACATTTCAACCATAGTATACTTTCCTGTTGATAATGCACCCATATACATTTCAACTCTAG
CATAA
Found at i:19572237 original size:95 final size:93
Alignment explanation
Indices: 19572104--19572308 Score: 198
Period size: 95 Copynumber: 2.2 Consensus size: 93
19572094 ACTCCTGCTT
** * ** *
19572104 ATGGTATCGATACTACCCTATTAGGGTATTGATACCCCCT-TCATGTATCAATACTGAAATTAGC
1 ATGGTATCGATAC--CCCTATTAGGGTACCGATACCCCCTCT-AGGTATCAATACCCAAATTAGA
* * *
19572168 TTCGATATAGCCTCGTAAT-GATACCCTCACC
63 TTCAATATAGACTAGT-ATCGATACCCTCACC
* * *
19572199 ATGGTATCGATACCCCTATGATATGGTACCGATGCCCCCTCTAGGTATCGATACCCAAATTAGAT
1 ATGGTATCGATACCCCTAT--TAGGGTACCGATACCCCCTCTAGGTATCAATACCCAAATTAGAT
* ** *
19572264 TCAATGTTTACTAGTATCGATACCCTTACC
64 TCAATATAGACTAGTATCGATACCCTCACC
19572294 ATGGTATCGATACCC
1 ATGGTATCGATACCC
19572309 TTACCATGGT
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
93 6 0.07
94 2 0.02
95 81 0.90
96 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (93 bp):
ATGGTATCGATACCCCTATTAGGGTACCGATACCCCCTCTAGGTATCAATACCCAAATTAGATTC
AATATAGACTAGTATCGATACCCTCACC
Found at i:19572302 original size:20 final size:20
Alignment explanation
Indices: 19572277--19572327 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
19572267 ATGTTTACTA
19572277 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
19572297 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
19572317 GTATCGATACC
1 GTATCGATACC
19572328 ACATTGCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCTTACCATG
Found at i:19576119 original size:40 final size:40
Alignment explanation
Indices: 19576074--19576154 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
19576064 TGGATGTGAA
*
19576074 GACTTATTTCTATGTTTATTTAGGACTGTTGGATTAAAAT
1 GACTTATTTCTAAGTTTATTTAGGACTGTTGGATTAAAAT
19576114 GACTTATTTCTAAGTTTATTTAGGACTGTTGGATTAAAAT
1 GACTTATTTCTAAGTTTATTTAGGACTGTTGGATTAAAAT
19576154 G
1 G
19576155 GCAAGATTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.46
Consensus pattern (40 bp):
GACTTATTTCTAAGTTTATTTAGGACTGTTGGATTAAAAT
Found at i:19576855 original size:30 final size:31
Alignment explanation
Indices: 19576812--19576870 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
19576802 AATTTTAGGT
*
19576812 TATTTTGTAAATTTTCAAAAGTTAAGGGACC
1 TATTTGGTAAATTTTCAAAAGTTAAGGGACC
* *
19576843 TATTTGGT-AATTTTGAAAAGTTATGGGA
1 TATTTGGTAAATTTTCAAAAGTTAAGGGA
19576871 TGATTGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTGGTAAATTTTCAAAAGTTAAGGGACC
Found at i:19582595 original size:18 final size:18
Alignment explanation
Indices: 19582572--19582615 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19582562 ATATAATTAT
*
19582572 CTTTAGGTGTTTTATTCC
1 CTTTAGGTATTTTATTCC
* **
19582590 CTTTAGGAATTTTATTTT
1 CTTTAGGTATTTTATTCC
19582608 CTTTAGGT
1 CTTTAGGT
19582616 TATCTCAAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.57
Consensus pattern (18 bp):
CTTTAGGTATTTTATTCC
Found at i:19591198 original size:3 final size:3
Alignment explanation
Indices: 19591190--19591216 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19591180 TAACTTGAAG
19591190 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
19591217 GGTGTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19591345 original size:20 final size:20
Alignment explanation
Indices: 19591322--19591375 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
19591312 ACCAAACCCC
19591322 TGGTATCGATACCCACATGT
1 TGGTATCGATACCCACATGT
19591342 TGGTATCGATACCCACATGT
1 TGGTATCGATACCCACATGT
19591362 TGGTATCGATACCC
1 TGGTATCGATACCC
19591376 GTACTGAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (20 bp):
TGGTATCGATACCCACATGT
Found at i:19592587 original size:17 final size:17
Alignment explanation
Indices: 19592567--19592609 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
19592557 TGGGTAGATT
*
19592567 AATGAATTAGTTAAATG
1 AATGAACTAGTTAAATG
* *
19592584 AATGAACTAGTTTAATT
1 AATGAACTAGTTAAATG
19592601 AATGAACTA
1 AATGAACTA
19592610 ACTTTATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTAAATG
Found at i:19592615 original size:18 final size:18
Alignment explanation
Indices: 19592582--19592628 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
19592572 ATTAGTTAAA
*
19592582 TGAATGAACT-AGTTTAAT
1 TGAATGAACTAACTTT-AT
19592600 T-AATGAACTAACTTTAT
1 TGAATGAACTAACTTTAT
19592617 TGAATGAACTAA
1 TGAATGAACTAA
19592629 GGTGCATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (18 bp):
TGAATGAACTAACTTTAT
Found at i:19592878 original size:31 final size:31
Alignment explanation
Indices: 19592811--19592870 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
19592801 CAATTTAAGG
* *
19592811 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATAGAATTTA
19592842 CAAAAT-GTATTTGGACTT-AATAGAATTTA
1 CAAAATGGTATTTGGACTTGAATAGAATTTA
19592871 TTCAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATAGAATTTA
Found at i:19592976 original size:21 final size:21
Alignment explanation
Indices: 19592950--19592991 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19592940 ATTTGAATAT
*
19592950 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
19592971 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
19592992 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:19593054 original size:21 final size:21
Alignment explanation
Indices: 19593021--19593060 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19593011 TTTTGCAGAA
*
19593021 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
19593043 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
19593061 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:19593315 original size:34 final size:32
Alignment explanation
Indices: 19593276--19593345 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
19593266 TTTTGTAAAG
*
19593276 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
19593310 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
19593342 GGGA
1 GGGA
19593346 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 11 0.32
33 1 0.03
34 22 0.65
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:19597395 original size:41 final size:41
Alignment explanation
Indices: 19597350--19597437 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
19597340 TTTTTCCGAA
* *
19597350 TTTTCATATTTATTTTACGTAATTTGTTTTTC-GAAAAATAT
1 TTTTCATATTTATTTCACGTAATTTATTTTTCAG-AAAATAT
* * * *
19597391 TTTTCGTGTTTGTTTCACGTAATTTATTTTTCAGAAAATGT
1 TTTTCATATTTATTTCACGTAATTTATTTTTCAGAAAATAT
19597432 TTTTCA
1 TTTTCA
19597438 GTGTTTGATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 38 0.97
42 1 0.03
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (41 bp):
TTTTCATATTTATTTCACGTAATTTATTTTTCAGAAAATAT
Found at i:19597443 original size:42 final size:41
Alignment explanation
Indices: 19597366--19597444 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
19597356 TATTTATTTT
*
19597366 ACGTAATTTGTTTTTCGAAAAATATTTTTCGTGTTTGTTTC
1 ACGTAATTTATTTTTCGAAAAATATTTTTCGTGTTTGTTTC
*
19597407 ACGTAATTTATTTTTC-AGAAAATGTTTTTCAGTGTTTG
1 ACGTAATTTATTTTTCGA-AAAATATTTTTC-GTGTTTG
19597445 ATTGGAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
40 1 0.03
41 26 0.76
42 7 0.21
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.52
Consensus pattern (41 bp):
ACGTAATTTATTTTTCGAAAAATATTTTTCGTGTTTGTTTC
Found at i:19597704 original size:8 final size:8
Alignment explanation
Indices: 19597687--19597759 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
19597677 TTAATATTTC
*
19597687 TAATAATA
1 TAATATTA
19597695 TAATATTA
1 TAATATTA
19597703 T-AT-TTA
1 TAATATTA
19597709 TAATATTA
1 TAATATTA
**
19597717 TAATAAAA
1 TAATATTA
19597725 TAATCAATTA
1 TAAT--ATTA
* *
19597735 TATTATAA
1 TAATATTA
*
19597743 TAATATAA
1 TAATATTA
19597751 T-ATATTA
1 TAATATTA
19597758 TA
1 TA
19597760 TTTTTATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
6 4 0.08
7 10 0.20
8 32 0.63
10 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (8 bp):
TAATATTA
Found at i:19597705 original size:22 final size:23
Alignment explanation
Indices: 19597658--19597721 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
19597648 TAATTATTAA
* *
19597658 AATATTTCAAAT-ATAT-TTATT
1 AATATTTCTAATAATATAATATT
19597679 AATATTTCTAATAATATAATATT
1 AATATTTCTAATAATATAATATT
* *
19597702 -ATATTTATAATATTATAATA
1 AATATTTCTAATAATATAATA
19597722 AAATAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 11 0.30
22 22 0.59
23 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTTCTAATAATATAATATT
Found at i:19597740 original size:23 final size:23
Alignment explanation
Indices: 19597711--19597761 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
19597701 TATATTTATA
19597711 ATATTATAATAAAATAATCA-ATT
1 ATATTATAATAAAATAAT-ATATT
*
19597734 ATATTATAATAATATAATATATT
1 ATATTATAATAAAATAATATATT
19597757 ATATT
1 ATATT
19597762 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTATAATAAAATAATATATT
Found at i:19597741 original size:31 final size:32
Alignment explanation
Indices: 19597655--19597752 Score: 103
Period size: 31 Copynumber: 3.1 Consensus size: 32
19597645 TATTAATTAT
* * *
19597655 TAAAATATTTCAAATATATTTATTAATATTTCTAA
1 TAAAATA-ATCAATTATATTTA-TAATA-TTATAA
*
19597690 TAATATAAT--ATTATATTTATAATATTATAA
1 TAAAATAATCAATTATATTTATAATATTATAA
*
19597720 TAAAATAATCAATTATA-TTATAATAATATAA
1 TAAAATAATCAATTATATTTATAATATTATAA
19597751 TA
1 TA
19597753 TATTATATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
30 13 0.24
31 20 0.36
32 15 0.27
34 1 0.02
35 6 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (32 bp):
TAAAATAATCAATTATATTTATAATATTATAA
Found at i:19597828 original size:54 final size:53
Alignment explanation
Indices: 19597770--19597873 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 53
19597760 TTTTTATTTT
*
19597770 AATAATATATAATAAATTATTAATAA-AATTTATATTATTTAT-TAATTTCAAAGA
1 AATAATAT-TAATAAATTATTAATAAGAA-TAATATTATTTATAT-ATTTCAAAGA
* * *
19597824 AATAATATTATTAATTTTTTAATAATGAATAATATTATTTATATATTTCA
1 AATAATATTAATAAATTATTAATAA-GAATAATATTATTTATATATTTCA
19597874 TATTAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
53 14 0.33
54 26 0.60
55 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (53 bp):
AATAATATTAATAAATTATTAATAAGAATAATATTATTTATATATTTCAAAGA
Found at i:19597831 original size:27 final size:28
Alignment explanation
Indices: 19597801--19597875 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
19597791 AATAAAATTT
19597801 ATATTATTTATTAATTTCA-AA-GAAATA
1 ATATTATTTATTAATTTCATAATG-AATA
* * *
19597828 ATATTATTAATT-TTTTAATAATGAATA
1 ATATTATTTATTAATTTCATAATGAATA
19597855 ATATTATTTA-TATATTTCATA
1 ATATTATTTATTA-ATTTCATA
19597876 TTAATTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
26 5 0.13
27 26 0.68
28 7 0.18
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
ATATTATTTATTAATTTCATAATGAATA
Found at i:19597921 original size:23 final size:23
Alignment explanation
Indices: 19597901--19597945 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19597891 AATAATATTT
19597901 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
19597924 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
19597946 GTATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:19598074 original size:27 final size:28
Alignment explanation
Indices: 19598044--19598096 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
19598034 ATTATAAAAA
*
19598044 TAATA-TTTAATAATAAATAA-ATTATTT
1 TAATATTTTAAAAAT-AATAATATTATTT
19598071 TAATATTTTAAAAATAATAATATTAT
1 TAATATTTTAAAAATAATAATATTAT
19598097 GTTTTATGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAATATTTTAAAAATAATAATATTATTT
Found at i:19598302 original size:34 final size:32
Alignment explanation
Indices: 19598237--19598334 Score: 96
Period size: 29 Copynumber: 3.1 Consensus size: 32
19598227 TTTCAGAAAA
* * *
19598237 AAATGTAATTCATTTTCCGAAAAAT-ATTTTCC
1 AAATGTAATTCATTTTCC-AGAATTCAATTTCC
19598269 ATAAATGTAATTCATTTTCCAGAATTCAATTTCC
1 --AAATGTAATTCATTTTCCAGAATTCAATTTCC
* *
19598303 -AA--TAATTCATTTTTCAGAATTCAATTTTC
1 AAATGTAATTCATTTTCCAGAATTCAATTTCC
19598332 AAA
1 AAA
19598335 AAACCAATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
29 25 0.44
30 2 0.04
31 2 0.04
33 4 0.07
34 24 0.42
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (32 bp):
AAATGTAATTCATTTTCCAGAATTCAATTTCC
Found at i:19598330 original size:15 final size:14
Alignment explanation
Indices: 19598277--19598331 Score: 65
Period size: 14 Copynumber: 3.8 Consensus size: 14
19598267 CCATAAATGT
19598277 AATTCATTTTCCAG
1 AATTCATTTTCCAG
* *
19598291 AATTCAATTTCCAAT
1 AATTCATTTTCC-AG
*
19598306 AATTCATTTTTCAG
1 AATTCATTTTCCAG
19598320 AATTCAATTTTC
1 AATTC-ATTTTC
19598332 AAAAAACCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 17 0.52
15 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (14 bp):
AATTCATTTTCCAG
Found at i:19603880 original size:14 final size:15
Alignment explanation
Indices: 19603854--19603882 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19603844 ATGTTCAATA
19603854 TATTCATGCATATAT
1 TATTCATGCATATAT
19603869 TATTCATG-ATATAT
1 TATTCATGCATATAT
19603883 GTTTAGATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (15 bp):
TATTCATGCATATAT
Found at i:19607357 original size:2 final size:2
Alignment explanation
Indices: 19607352--19607388 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
19607342 GCATATATAA
* *
19607352 TC TC TC TC TC TC TC TC TC TC TA TA TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19607389 AGTTTTACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:19609815 original size:22 final size:22
Alignment explanation
Indices: 19609787--19609835 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
19609777 TGTTCTTTTA
19609787 AATCCAGTATGTGAATAAATTC
1 AATCCAGTATGTGAATAAATTC
19609809 AATCCAGTATGTGAATAAATTC
1 AATCCAGTATGTGAATAAATTC
19609831 AATCC
1 AATCC
19609836 TTTCTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (22 bp):
AATCCAGTATGTGAATAAATTC
Found at i:19612101 original size:13 final size:13
Alignment explanation
Indices: 19612083--19612107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19612073 AATTTAAAAT
19612083 ATAATATTTTTTA
1 ATAATATTTTTTA
19612096 ATAATATTTTTT
1 ATAATATTTTTT
19612108 CATCACGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATAATATTTTTTA
Found at i:19612425 original size:95 final size:97
Alignment explanation
Indices: 19612235--19612424 Score: 298
Period size: 95 Copynumber: 2.0 Consensus size: 97
19612225 CAAACAATGC
* * *
19612235 TTTCATACAATTATCGATGTTGTGTGTGCTGTCTCTGTGGGCCCACTAGAATAGAGACAAAGTTG
1 TTTCAAACAATTATCGATGTTGTGTGCGCTGTCTCTGTGGGCCCACTAGAATAGAGACAAAGTAG
*
19612300 CAAAGCTAAAGCAACATGATCGGATTTTTTTA
66 CAAAGCTAAAGCAACATGAACGGATTTTTTTA
19612332 TTTCAAACAATTATCGATG-T-TGTGCGCTGTCTCT-TCGGGCCCACTAGAATAGAGACAAAGTA
1 TTTCAAACAATTATCGATGTTGTGTGCGCTGTCTCTGT-GGGCCCACTAGAATAGAGACAAAGTA
*
19612394 GTAAAGCTAAAGCAACATGAAC-GATTTTTTT
65 GCAAAGCTAAAGCAACATGAACGGATTTTTTT
19612425 TTTTGTTTTG
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
94 10 0.11
95 58 0.67
96 1 0.01
97 18 0.21
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (97 bp):
TTTCAAACAATTATCGATGTTGTGTGCGCTGTCTCTGTGGGCCCACTAGAATAGAGACAAAGTAG
CAAAGCTAAAGCAACATGAACGGATTTTTTTA
Found at i:19617214 original size:19 final size:20
Alignment explanation
Indices: 19617190--19617235 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
19617180 CTAAATGGCC
19617190 CAATTTC-ACA-TCCTAACAT
1 CAATTTCAACACT-CTAACAT
19617209 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
19617229 TAATTTC
1 CAATTTC
19617236 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 7 0.29
20 16 0.67
21 1 0.04
ACGTcount: A:0.37, C:0.28, G:0.00, T:0.35
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:19618449 original size:30 final size:30
Alignment explanation
Indices: 19618389--19618449 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
19618379 GGGTTCAAAA
* * *
19618389 CACCTAACTTTTGAAAATTATACTTTTGGT
1 CACCAAACTTTTGAAAATTACACTTATGGT
19618419 CACCAAACTTTTGAAAATTAC-CATTATGGT
1 CACCAAACTTTTGAAAATTACAC-TTATGGT
19618449 C
1 C
19618450 CTTAAACTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (30 bp):
CACCAAACTTTTGAAAATTACACTTATGGT
Found at i:19618651 original size:16 final size:17
Alignment explanation
Indices: 19618630--19618661 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19618620 TATAATGCAT
19618630 ATGAAATCAA-AACATC
1 ATGAAATCAACAACATC
19618646 ATGAAATCAACAACAT
1 ATGAAATCAACAACAT
19618662 ACTTTAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (17 bp):
ATGAAATCAACAACATC
Found at i:19618769 original size:2 final size:2
Alignment explanation
Indices: 19618762--19618830 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
19618752 TCAAGTAAAA
19618762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19618804 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19618831 AATTAATAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.