Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 98 of 189
Found at i:27497828 original size:18 final size:17
Alignment explanation
Indices: 27497801--27497834 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
27497791 AAATATTATA
27497801 AATATATTTATATATTTC
1 AATATATTTATA-ATTTC
*
27497819 AATATTTTTATAATTT
1 AATATATTTATAATTT
27497835 TTAAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
AATATATTTATAATTTC
Found at i:27498017 original size:20 final size:20
Alignment explanation
Indices: 27497994--27498031 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27497984 ATAATATATG
*
27497994 ATAATTTATAATAAATATCT
1 ATAATCTATAATAAATATCT
*
27498014 ATAATCTATAATATATAT
1 ATAATCTATAATAAATAT
27498032 AAAAGCACGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAATCTATAATAAATATCT
Found at i:27506629 original size:9 final size:9
Alignment explanation
Indices: 27506615--27506639 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27506605 TTCAATGGAA
27506615 GAAGATGTT
1 GAAGATGTT
27506624 GAAGATGTT
1 GAAGATGTT
27506633 GAAGATG
1 GAAGATG
27506640 CTTCGAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.28
Consensus pattern (9 bp):
GAAGATGTT
Found at i:27511860 original size:40 final size:36
Alignment explanation
Indices: 27511800--27511885 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 36
27511790 AAACTAGTAT
* * *
27511800 TATTATTATGGTTAGTTATTATTTTTAGTA-AAACCC
1 TATTATTATTGTTAGTTATTATTTTGAGTATAAA-AC
27511836 TAATTATTATTGTTAGTTACTATTATTTTGAGTATAAAAC
1 T-ATTATTATTGTTAG-T--TATTATTTTGAGTATAAAAC
27511876 TATTATTATT
1 TATTATTATT
27511886 TTTATTGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
36 1 0.02
37 13 0.31
38 1 0.02
39 9 0.21
40 15 0.36
41 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (36 bp):
TATTATTATTGTTAGTTATTATTTTGAGTATAAAAC
Found at i:27513607 original size:320 final size:319
Alignment explanation
Indices: 27513117--27513893 Score: 1321
Period size: 322 Copynumber: 2.4 Consensus size: 319
27513107 GCAAGTTGAA
* *
27513117 AAAAAAGTTAGTAAAACACTATTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
1 AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
*
27513182 ACTTTAAAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTTAGTGCATTATGTTTG
66 ACTTT-AAAAAAA-ATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTG
*
27513247 AAATTTATTAATTTAGTGTGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTG-CCT
129 AAATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCT
*
27513311 TTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAA-ATAAATATATTATTTTCGTATTTTATT
194 TTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTATT
27513375 ATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
259 ATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
**
27513436 AAAAAAGTTAGTAAGCGTTCAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTT
1 AAAAAAGTTAGTAA---AACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTT
27513501 ATTACTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTT
63 ATTACTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTT
*
27513566 GAAATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCTTGCCC
128 GAAATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCC
27513631 TTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTAT
193 TTTGCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTAT
27513696 TATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
258 TATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
* * * * * *
27513758 AAAAAAGTTAGTAAAACACTC-TTACTTCGACTATTTGTT--TGTTTTTTTCTCTGTATTTTATT
1 AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
* * *
27513820 AATTTAAAAGATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
66 ACTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
27513885 ATTTATTAA
131 ATTTATTAA
27513894 ATATACCATT
Statistics
Matches: 434, Mismatches: 19, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
316 91 0.21
318 16 0.04
319 18 0.04
320 109 0.25
321 47 0.11
322 153 0.35
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.50
Consensus pattern (319 bp):
AAAAAAGTTAGTAAAACAATCTTTACTTCGGCCATTTGTTCGTATTTTTTTCTCGGCATTTTATT
ACTTTAAAAAAAATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATTATGTTTGAA
ATTTATTAATTTAGTGCGTTTTTTAAATTAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTT
GCTCGTATTATTTTCCCGAATTTTATTACTTCCAATAAAAATATATTATTTTCGTATTTTATTAT
TTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATTTTT
Found at i:27513674 original size:158 final size:156
Alignment explanation
Indices: 27513147--27513893 Score: 594
Period size: 158 Copynumber: 4.7 Consensus size: 156
27513137 ATTTACTTCG
* * * *
27513147 GCCATTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTTAAAAAAAATATCATAATTTCTAATT
1 GCCATTTGTTCGTATTATTTTCTCCGAATTTTATTAC-TTCAAAAAAA-ATCATAATTTCTAATT
*
27513212 TTATAATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAATTTAGTG-TG-TTTTTTAA
64 TTATAATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAA-TTAGTGCTGAATTTTTAA
* * *
27513275 ATTAATTTAGTGTAAAAAAAACCCTTATTCCT
128 A-AAAGTTA--GTAAAAAAAACCCTTATTCTT
* * *
27513307 GCC-TTTGCTCGTATTATTTTC-CCGAATTTTATTACTTCCAAATAAATAT-ATTATTTTCGT-A
1 GCCATTTGTTCGTATTATTTTCTCCGAATTTTATTACTT-CAAA-AAAAATCA-TAATTTC-TAA
* * * * * * *
27513368 TTTTATTATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAATT
62 TTTTATAATTTTACATTATTTTAGTGCATTATGTTTG-AA-A-TT-TATTAATTAGTGCTGAATT
**** * * *
27513433 TTTAAAAAAGTTAGTAAGCGTTCAATCTTTACTTC-G
123 TTTAAAAAAGTTAGTAA--AAAAAACCCTTA-TTCTT
* * * *
27513469 GCCATTTGTTCGTATTTTTTTCTCGGCATTTTATTACTTTAAAAAAAATCATAATTTCTAATTTT
1 GCCATTTGTTCGTATTATTTTCTCCGAATTTTATTACTTCAAAAAAAATCATAATTTCTAATTTT
* *
27513534 ATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAATTTAGTGC-G-TTTTTTAAAT
66 ATAATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAA-TTAGTGCTGAATTTTTAAA-
* *
27513597 TAATTTAGTGTAAAAAAAACCCTTATTCTT
129 AAAGTTA--GTAAAAAAAACCCTTATTCTT
* * *
27513627 GCCCTTTGCTCGTATTATTTTC-CCGAATTTTATTACTTCCAATAAAAATAT-ATTATTTTCGT-
1 GCCATTTGTTCGTATTATTTTCTCCGAATTTTATTACTT-CAA-AAAAA-ATCA-TAATTTC-TA
* * * * * * *
27513689 ATTTTATTATTTTATATTATTTTAGTACATTTTGTTAGAAATATTTGTATTAATTATTTCTGAAT
61 ATTTTATAATTTTACATTATTTTAGTGCATTATGTTTG-AA-A-TT-TATTAATTAGTGCTGAAT
* *
27513754 TTTTAAAAAAGTTAGT--AAAACACTCTTA--CTT
122 TTTTAAAAAAGTTAGTAAAAAAAACCCTTATTCTT
* * * * * * * *
27513785 CGACTATTTGTTTGT-TT-TTTTCTCTGTATTTTATTAATTTAAAAGATATCATAATTTCTAATT
1 -G-CCATTTGTTCGTATTATTTTCTCCGAATTTTATTACTTCAAAAAAAATCATAATTTCTAATT
*
27513848 TTATAATTTTACATTATTTCAGTGCATTATGTTTGAAATTTATTAA
64 TTATAATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAA
27513894 ATATACCATT
Statistics
Matches: 463, Mismatches: 86, Indels: 84
0.73 0.14 0.13
Matches are distributed among these distances:
152 6 0.01
153 2 0.00
154 1 0.00
155 3 0.01
156 40 0.09
157 32 0.07
158 105 0.23
159 51 0.11
160 71 0.15
161 12 0.03
162 68 0.15
163 38 0.08
164 26 0.06
165 8 0.02
ACGTcount: A:0.30, C:0.10, G:0.09, T:0.51
Consensus pattern (156 bp):
GCCATTTGTTCGTATTATTTTCTCCGAATTTTATTACTTCAAAAAAAATCATAATTTCTAATTTT
ATAATTTTACATTATTTTAGTGCATTATGTTTGAAATTTATTAATTAGTGCTGAATTTTTAAAAA
AGTTAGTAAAAAAAACCCTTATTCTT
Found at i:27514272 original size:5 final size:5
Alignment explanation
Indices: 27514264--27514364 Score: 70
Period size: 5 Copynumber: 21.0 Consensus size: 5
27514254 TTTATCTCTT
* * *
27514264 CTTTC CTTTT CTTTC CTTT- -TTCTT CTTCTC CTTTC CTTTT CTTTC C-TTC
1 CTTTC CTTTC CTTTC CTTTC CTT-TC CTT-TC CTTTC CTTTC CTTTC CTTTC
* * * * *
27514313 TTTTC CTTT- CTTTC CTCTC CTTTC CTTTT CTTTC TTTTT CTTT- CTTT-
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC
27514360 CTTTC
1 CTTTC
27514365 TTCTTCTTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
3 2 0.03
4 16 0.21
5 51 0.67
6 7 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
CTTTC
Found at i:27514277 original size:10 final size:10
Alignment explanation
Indices: 27514262--27514375 Score: 107
Period size: 10 Copynumber: 11.8 Consensus size: 10
27514252 TTTTTATCTC
27514262 TTCTTTCCTT
1 TTCTTTCCTT
27514272 TTCTTTCCTT
1 TTCTTTCCTT
27514282 TT-TCTT-CTT
1 TTCT-TTCCTT
*
27514291 CTCCTTTCCTT
1 -TTCTTTCCTT
27514302 TTCTTTCCTT
1 TTCTTTCCTT
*
27514312 CT-TTTCC-T
1 TTCTTTCCTT
*
27514320 TTCTTTCCTC
1 TTCTTTCCTT
*
27514330 TCCTTTCCTT
1 TTCTTTCCTT
*
27514340 TTCTTTCTTT
1 TTCTTTCCTT
27514350 TTCTTT-C-T
1 TTCTTTCCTT
27514358 TTCTTT-CTT
1 TTCTTTCCTT
27514367 CTTCTTTCC
1 -TTCTTTCC
27514376 CTCTCTTTCT
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
8 10 0.12
9 15 0.18
10 55 0.65
11 5 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTTTCCTT
Found at i:27514332 original size:38 final size:38
Alignment explanation
Indices: 27514221--27514389 Score: 142
Period size: 38 Copynumber: 4.3 Consensus size: 38
27514211 ATTACCTTTT
* * * * ** *
27514221 TTTTCTTTCCCTCTTCTCCTTTCTTTTTTTTTTTTTATC
1 TTTTCTTTCCTTCTTTTCCTTTCTTTCTTCTCCTTT-CC
* * *
27514260 TCTTCTTTCCTTTTCTTTCCTTTTTCTTCTTCTCCTTTCC
1 TTTTCTTTCCTTCT-TTTCCTTTCT-TTCTTCTCCTTTCC
*
27514300 TTTTCTTTCCTTCTTTTCCTTTCTTTCCTCTCCTTTCC
1 TTTTCTTTCCTTCTTTTCCTTTCTTTCTTCTCCTTTCC
* * *
27514338 TTTTCTTT-CTTTTTCTTTCTTTCTTTCTTCTTCTTTCC
1 TTTTCTTTCCTTCTT-TTCCTTTCTTTCTTCTCCTTTCC
* *
27514376 CTCTCTTTCTCTTC
1 TTTTCTTTC-CTTC
27514390 CCCCCACCCA
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
37 5 0.05
38 47 0.45
39 20 0.19
40 24 0.23
41 8 0.08
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (38 bp):
TTTTCTTTCCTTCTTTTCCTTTCTTTCTTCTCCTTTCC
Found at i:27520067 original size:21 final size:21
Alignment explanation
Indices: 27520043--27520178 Score: 107
Period size: 21 Copynumber: 6.5 Consensus size: 21
27520033 TGTGTTTGAT
*
27520043 TTCAGTTTAGCTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
* *
27520064 TTCAG-TTAACTCATATGAGT
1 TTCAGTTTAACTCTTATGAGC
* * *
27520084 TTCAGTTTAACCCTTCT-AGGT
1 TTCAGTTTAACTCTTATGA-GC
* * *
27520105 TTCAGTTTAGCTCTTTTGAAC
1 TTCAGTTTAACTCTTATGAGC
* *
27520126 TTCAGTTTAACCCTTAT-AGGT
1 TTCAGTTTAACTCTTATGA-GC
* *
27520147 TTCCGTTCAACTCTTATGAGC
1 TTCAGTTTAACTCTTATGAGC
*
27520168 TTCCGTTTAAC
1 TTCAGTTTAAC
27520179 CTTTACGGGT
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
20 19 0.21
21 68 0.76
22 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (21 bp):
TTCAGTTTAACTCTTATGAGC
Found at i:27520082 original size:20 final size:20
Alignment explanation
Indices: 27520043--27520090 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
27520033 TGTGTTTGAT
* *
27520043 TTCAGTTTAGCTCTTATGAGC
1 TTCAG-TTAACTCATATGAGC
*
27520064 TTCAGTTAACTCATATGAGT
1 TTCAGTTAACTCATATGAGC
27520084 TTCAGTT
1 TTCAGTT
27520091 TAACCCTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
TTCAGTTAACTCATATGAGC
Found at i:27520133 original size:42 final size:42
Alignment explanation
Indices: 27520064--27520179 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
27520054 TCTTATGAGC
* ** *
27520064 TTCAGTT-AACTCATATGAGTTTCAGTTTAACCCTTCTAGGT
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
* * *
27520105 TTCAGTTTAGCTCTTTTGAACTTCAGTTTAACCCTTATAGGT
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
* * *
27520147 TTCCGTTCAACTCTTATGAGCTTCCGTTTAACC
1 TTCAGTTCAACTCTTATGAACTTCAGTTTAACC
27520180 TTTACGGGTT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 7 0.11
42 55 0.89
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (42 bp):
TTCAGTTCAACTCTTATGAACTTCAGTTTAACCCTTATAGGT
Found at i:27520190 original size:42 final size:40
Alignment explanation
Indices: 27520071--27520192 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 40
27520061 AGCTTCAGTT
* * * *
27520071 AACTCATATGAGTTTCAGTTTAACCCTTCTAGGTTTCAGTTT
1 AACTCTTATGAGCTTCAGTTTAA-CCTT-TAGGTTTCCGTTC
* * *
27520113 AGCTCTTTTGAACTTCAGTTTAACCCTTATAGGTTTCCGTTC
1 AACTCTTATGAGCTTCAGTTTAA-CCTT-TAGGTTTCCGTTC
*
27520155 AACTCTTATGAGCTTCCGTTTAACCTTTACGGGTTTCC
1 AACTCTTATGAGCTTCAGTTTAACCTTTA--GGTTTCC
27520193 ATTTAGCACT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 2 0.03
41 4 0.06
42 60 0.91
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (40 bp):
AACTCTTATGAGCTTCAGTTTAACCTTTAGGTTTCCGTTC
Found at i:27527262 original size:21 final size:21
Alignment explanation
Indices: 27527225--27527320 Score: 93
Period size: 21 Copynumber: 4.6 Consensus size: 21
27527215 TGTGTTTCAA
* *
27527225 TTAACTCATATGAGTTTCAGT
1 TTAACTCTTATGGGTTTCAGT
* *
27527246 TTAACCCTTCTGGGTTTCAGT
1 TTAACTCTTATGGGTTTCAGT
* * * *
27527267 TTAGCTCTTTTGAGCTTCAGT
1 TTAACTCTTATGGGTTTCAGT
*
27527288 TTAACTCTTATGGGTTTCCGT
1 TTAACTCTTATGGGTTTCAGT
* *
27527309 TCAGCTCTTATG
1 TTAACTCTTATG
27527321 AGCTTCTATT
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
TTAACTCTTATGGGTTTCAGT
Found at i:27527287 original size:42 final size:42
Alignment explanation
Indices: 27527233--27527326 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
27527223 AATTAACTCA
* * *
27527233 TATGAGTTTCAGTTTAACCCTTCTGGGTTTCAGTTTAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
* * *
27527275 TTTGAGCTTCAGTTTAACTCTTATGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
27527317 TATGAGCTTC
1 TATGAGCTTC
27527327 TATTCACTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCAGTTCAGCTCT
Found at i:27527512 original size:43 final size:43
Alignment explanation
Indices: 27527449--27527717 Score: 396
Period size: 43 Copynumber: 6.3 Consensus size: 43
27527439 TTATAGAAAT
* *
27527449 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCTGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
27527492 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * * *
27527535 AAACGCCGCTAATGGCCATGTTCTTTAGCGGTGCTTTTCTCGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* * *
27527578 AAATGCCGCTAAAGGCCATGTTCTTTAGCGGCTCTTTTCCCGA
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
* *
27527621 AAACGCCACTAAATGCCATGTTCTTTAGCGGCGCTTTT-CCGAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCG-C
* * *
27527664 AAACGCCGTTAAAGGTCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
27527707 AAACGCCGCTA
1 AAACGCCGCTA
27527718 TTGTTTGGTG
Statistics
Matches: 202, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
42 3 0.01
43 197 0.98
44 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCGC
Found at i:27528274 original size:25 final size:26
Alignment explanation
Indices: 27528223--27528284 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
27528213 TTTTACAATG
* *
27528223 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
27528249 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
27528274 ATTAAGTTATG
1 ATTAAGTTATG
27528285 TAAGTTGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:27528288 original size:17 final size:17
Alignment explanation
Indices: 27528223--27528290 Score: 50
Period size: 17 Copynumber: 4.0 Consensus size: 17
27528213 TTTTACAATG
* *
27528223 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
27528240 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
27528257 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
27528274 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
27528291 GTTATGTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 1 0.03
16 4 0.10
17 26 0.67
18 8 0.21
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:27528432 original size:9 final size:9
Alignment explanation
Indices: 27528381--27528439 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
27528371 TATTTTAAAA
27528381 TTAT-TAAG
1 TTATGTAAG
*
27528389 TTATGTAAA
1 TTATGTAAG
*
27528398 TTATGTGAG
1 TTATGTAAG
*
27528407 TTGT-TAAG
1 TTATGTAAG
27528415 TTATTATGTAAG
1 ---TTATGTAAG
27528427 TTATGTAAG
1 TTATGTAAG
27528436 TTAT
1 TTAT
27528440 TATGTGAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.17
9 26 0.65
11 3 0.08
12 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:27528437 original size:21 final size:21
Alignment explanation
Indices: 27528380--27528462 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
27528370 ATATTTTAAA
27528380 ATTAT-TAAGTTATGTAA---
1 ATTATGTAAGTTATGTAAGTT
* *
27528397 ATTATGTGAGTTGT-TAAGTT
1 ATTATGTAAGTTATGTAAGTT
27528417 ATTATGTAAGTTATGTAAGTT
1 ATTATGTAAGTTATGTAAGTT
* *
27528438 ATTATGTGAA-TTATATAAGCT
1 ATTATGT-AAGTTATGTAAGTT
27528459 ATTA
1 ATTA
27528463 AGTTATATGG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.15
18 6 0.11
20 12 0.22
21 26 0.48
22 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.47
Consensus pattern (21 bp):
ATTATGTAAGTTATGTAAGTT
Found at i:27529204 original size:21 final size:21
Alignment explanation
Indices: 27529180--27529226 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27529170 TTAACTATTT
* *
27529180 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
27529201 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
27529222 AAATT
1 AAATT
27529227 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:27532822 original size:200 final size:196
Alignment explanation
Indices: 27532400--27532833 Score: 769
Period size: 200 Copynumber: 2.2 Consensus size: 196
27532390 ATATATAAAT
*
27532400 TGAGAACAGAACTTTGCGGCGTTTTTTCCTCAGCGCCGCTAATGACCACCTTTAGCGGCATTTTT
1 TGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCATTTTT
27532465 CCCCTAGCGCCGCAAAACCCATATTCACAGCCAAAAATTGCACCGTTTTGTCTTCATTATTAAGA
66 CCCCTAGCGCCGCAAAACCCATATTCACAGCCAAAAATTGCACCGTTTTGTCTTCATTATTAAGA
*
27532530 ATTTTTTGCGGCATTTTTTAGTAGCGCCACTAATGACCAGGCAAAACGACACCGTTTTACGAAAA
131 ATTTTTTGCGGCATTTTTTAGTAGCGCCACTAATGACCAGACAAAACGACACCGTTTTACGAAAA
27532595 C
196 C
*
27532596 TGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCGTTTTT
1 TGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCATTTTT
*
27532661 CCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAATTGCACCGTTTTGTCTTCATTATTA
66 CCCCTAGCGCCGCAAAACCCA-T--ATTCACAGCCAAAAATTGCACCGTTTTGTCTTCATTATTA
* *
27532726 AGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAAACGACACCGTTTTACG
128 AGAATTTTTTGCGGC-ATTTTTTAGTAGCGCCACTAATGACCAGACAAAACGACACCGTTTTACG
27532791 AAAAC
192 AAAAC
*
27532796 TGAGAACAGAACTTTGCGGTGTTTTTTCCTTAGCGCCG
1 TGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCG
27532834 TAAAACCCAT
Statistics
Matches: 227, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
196 83 0.37
197 1 0.00
199 55 0.24
200 88 0.39
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (196 bp):
TGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACCTTTAGCGGCATTTTT
CCCCTAGCGCCGCAAAACCCATATTCACAGCCAAAAATTGCACCGTTTTGTCTTCATTATTAAGA
ATTTTTTGCGGCATTTTTTAGTAGCGCCACTAATGACCAGACAAAACGACACCGTTTTACGAAAA
C
Found at i:27532830 original size:75 final size:75
Alignment explanation
Indices: 27532733--27532999 Score: 191
Period size: 75 Copynumber: 3.4 Consensus size: 75
27532723 TTAAGAATTT
* *
27532733 TTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAAACGACACCGTTTTACGAAAACTG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGCCCAGCCAAAACGACACCGTTTTACGAAAACTG
27532798 AGAACAGAAC
66 AGAACAGAAC
* ** * * **
27532808 TTTGCGGTGTTTTTTCCTTAGCGCCGTAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTTT
1 TTTGCGGCGTTTTTTCAGTAGCGCC-----A--C--T-AATGCCCAGCC-AAAACGACACCGTTT
**** * ** *
27532873 T--GTCTTCATTATTA-AGAATTT
55 TACGAAAAC-TGAGAACAGAA--C
*
27532894 TTTGCGGTGTTTTTT-AGTAGCGCCACTAATGCCCAGCCAAAACGACACCGTTTTACGAAAACTG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGCCCAGCCAAAACGACACCGTTTTACGAAAACTG
27532958 AGAACAGAAC
66 AGAACAGAAC
** *
27532968 TTTGCGGCGTTTTTTCCTTAGCGCCGCTAATG
1 TTTGCGGCGTTTTTTCAGTAGCGCCACTAATG
27533000 ACCACCTTTA
Statistics
Matches: 139, Mismatches: 35, Indels: 36
0.66 0.17 0.17
Matches are distributed among these distances:
74 28 0.20
75 46 0.33
76 7 0.05
78 1 0.01
80 2 0.01
82 1 0.01
84 7 0.05
85 18 0.13
86 29 0.21
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (75 bp):
TTTGCGGCGTTTTTTCAGTAGCGCCACTAATGCCCAGCCAAAACGACACCGTTTTACGAAAACTG
AGAACAGAAC
Found at i:27532987 original size:160 final size:161
Alignment explanation
Indices: 27532645--27532994 Score: 630
Period size: 160 Copynumber: 2.2 Consensus size: 161
27532635 TAATGACCAC
* *
27532645 CTTTAGCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAATTGCACCGT
1 CTTT-GCGGCGTTTTTTCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGT
27532710 TTTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAA
65 TTTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAA
27532775 ACGACACCGTTTTACGAAAACTGAGAACAGAA
130 ACGACACCGTTTTACGAAAACTGAGAACAGAA
* *
27532807 CTTTGCGGTGTTTTTTCCTTAGCGCCGTAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
1 CTTTGCGGCGTTTTTTCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
* *
27532872 TTGTCTTCATTATTAAGAATTTTTTGCGGTG-TTTTTTAGTAGCGCCACTAATGCCCAGCCAAAA
66 TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAAA
27532936 CGACACCGTTTTACGAAAACTGAGAACAGAA
131 CGACACCGTTTTACGAAAACTGAGAACAGAA
27532967 CTTTGCGGCGTTTTTTCCTTAGCGCCGC
1 CTTTGCGGCGTTTTTTCCTTAGCGCCGC
27532995 TAATGACCAC
Statistics
Matches: 180, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
160 89 0.49
161 87 0.48
162 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (161 bp):
CTTTGCGGCGTTTTTTCCTTAGCGCCGCAAAACCCATTAAATTCACAGCCAAAAACTGCACCGTT
TTGTCTTCATTATTAAGAATTTTTTGCGGCGTTTTTTTAGTAGCGCCACTAATGCCCAGACAAAA
CGACACCGTTTTACGAAAACTGAGAACAGAA
Found at i:27533286 original size:7 final size:8
Alignment explanation
Indices: 27533268--27533307 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 8
27533258 TTTTTATTTC
27533268 TTTTTAAT
1 TTTTTAAT
27533276 TTTTTAAT
1 TTTTTAAT
27533284 TTTTATAAT
1 TTTT-TAAT
*
27533293 TTTTAAAAT
1 TTTT-TAAT
27533302 TTTTTA
1 TTTTTA
27533308 CAATTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 13 0.45
9 16 0.55
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTTAAT
Found at i:27533307 original size:19 final size:19
Alignment explanation
Indices: 27533283--27533323 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
27533273 AATTTTTTAA
*
27533283 TTTTTATAATTTTTAAAAT
1 TTTTTACAATTTTTAAAAT
*
27533302 TTTTTACAATTTTTACAAT
1 TTTTTACAATTTTTAAAAT
27533321 TTT
1 TTT
27533324 AAATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTACAATTTTTAAAAT
Found at i:27533314 original size:9 final size:9
Alignment explanation
Indices: 27533281--27533323 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
27533271 TTAATTTTTT
*
27533281 AATTTTTAT
1 AATTTTTAC
*
27533290 AATTTTTAA
1 AATTTTTAC
27533299 AATTTTTTAC
1 AA-TTTTTAC
27533309 AATTTTTAC
1 AATTTTTAC
27533318 AATTTT
1 AATTTT
27533324 AAATTATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (9 bp):
AATTTTTAC
Found at i:27533327 original size:26 final size:25
Alignment explanation
Indices: 27533268--27533328 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
27533258 TTTTTATTTC
*
27533268 TTTTT-AATTTTTTAATTTTTATAA
1 TTTTTAAATTTTTTAATTTTTACAA
27533292 TTTTTAAAATTTTTTACAATTTTTACAA
1 TTTTT-AAATTTTTT--AATTTTTACAA
27533320 -TTTTAAATT
1 TTTTTAAATT
27533329 ATTATATTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 5 0.16
26 13 0.41
27 4 0.12
28 10 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTAAATTTTTTAATTTTTACAA
Found at i:27533513 original size:82 final size:87
Alignment explanation
Indices: 27533420--27533646 Score: 302
Period size: 90 Copynumber: 2.6 Consensus size: 87
27533410 TATAAAGAAC
* * *
27533420 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCTAACCTGACCCC-AA
1 TTATTTAATATATAAATTAAAAAGTACTAATTAATCTAAATCCTAAACCCTAACCTAACCCCAAA
27533484 -A-T-CC-CTAACCCCTAAACT
66 CACTACCACTAACCCCTAAACT
* *
27533502 TTATTTAATATATAAATTAAAAAGCACTAATTAATCTAACTCCTAAACCCTAAACCTAACCCCAA
1 TTATTTAATATATAAATTAAAAAGTACTAATTAATCTAAATCCTAAACCCT-AACCTAACCCCAA
27533567 AGCACTAACCACTAACCCCTAAACT
65 A-CACT-ACCACTAACCCCTAAACT
* * * * *
27533592 TTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCTAAACCATAACC
1 TTATTTAATATATAAATTAAAAAGTACTAATTAATCTAAATCCTAAACCCTAACC
27533647 CAATCCTGAA
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
82 47 0.38
83 10 0.08
84 2 0.02
86 1 0.01
87 1 0.01
89 6 0.05
90 58 0.46
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (87 bp):
TTATTTAATATATAAATTAAAAAGTACTAATTAATCTAAATCCTAAACCCTAACCTAACCCCAAA
CACTACCACTAACCCCTAAACT
Found at i:27533677 original size:14 final size:14
Alignment explanation
Indices: 27533658--27533691 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
27533648 AATCCTGAAT
*
27533658 CCCTAACCCTTAAC
1 CCCTAACCCCTAAC
27533672 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
27533686 CCCTAA
1 CCCTAA
27533692 ATCTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:27533769 original size:103 final size:103
Alignment explanation
Indices: 27533571--27533781 Score: 241
Period size: 103 Copynumber: 2.0 Consensus size: 103
27533561 CCCCAAAGCA
* * *
27533571 CTAACCACTAACCCCTAAACTTTATTTAATATATAAATTAAAAAATAGTGATTAATCTAAACCCT
1 CTAACCACTAACCCCTAAACTTTATTTAATAAATAAATTAAAAAATACTAATTAATCTAAACCCT
* * *
27533636 AAACCATAACCCAATCCTGAATCCCTAACCCTTAACCC
66 AAACCATAACCCAATCATGAATCCATAACCCTAAACCC
* * *
27533674 CTAACCCCTAACCCCTAAA-TCTTATTTAATAAAT-AATTAAAATATACTAATTAATTTAAACCC
1 CTAACCACTAACCCCTAAACT-TTATTTAATAAATAAATTAAAAAATACTAATTAATCTAAACCC
* ** *
27533737 TAAACTC-TAACCTAA-CATCGAATTTATAAACCCTAAATCC
65 TAAAC-CATAACCCAATCAT-GAATCCAT-AACCCTAAACCC
27533777 CTAAC
1 CTAAC
27533782 TCTTAACATC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
101 2 0.02
102 43 0.47
103 46 0.51
ACGTcount: A:0.43, C:0.27, G:0.02, T:0.29
Consensus pattern (103 bp):
CTAACCACTAACCCCTAAACTTTATTTAATAAATAAATTAAAAAATACTAATTAATCTAAACCCT
AAACCATAACCCAATCATGAATCCATAACCCTAAACCC
Found at i:27533801 original size:7 final size:7
Alignment explanation
Indices: 27533791--27533822 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
27533781 CTCTTAACAT
27533791 CTAACCC
1 CTAACCC
27533798 CTAA--C
1 CTAACCC
27533803 CTAACCC
1 CTAACCC
27533810 CTAACCC
1 CTAACCC
27533817 CTAACC
1 CTAACC
27533823 TTTAACCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.22
7 18 0.78
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAACCC
Found at i:27533808 original size:12 final size:12
Alignment explanation
Indices: 27533791--27533815 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27533781 CTCTTAACAT
27533791 CTAACCCCTAAC
1 CTAACCCCTAAC
27533803 CTAACCCCTAAC
1 CTAACCCCTAAC
27533815 C
1 C
27533816 CCTAACCTTT
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:27533970 original size:20 final size:21
Alignment explanation
Indices: 27533945--27533988 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27533935 ATCCTAAATT
*
27533945 AACCATATATA-TATACCCTA
1 AACCATATATATTAAACCCTA
*
27533965 AACCATATTTATTAAACCCTA
1 AACCATATATATTAAACCCTA
27533986 AAC
1 AAC
27533989 GATAATGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
AACCATATATATTAAACCCTA
Found at i:27534656 original size:114 final size:114
Alignment explanation
Indices: 27534452--27534886 Score: 665
Period size: 114 Copynumber: 3.8 Consensus size: 114
27534442 TTTTAAGTCT
* * *
27534452 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCCTGAAAGCTCAGAAAACGGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
*
27534517 TTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* *
27534566 CTGAGCATCAGCGACGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACAGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
* *
27534631 TTGGGCATAGGTATTTTTACAGCGCTTTCCCAAAAACGCCGCTAAAGCC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * *
27534680 CTGAGCATCAGCGGCGCTTACTGAAAAACGTCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
* * *
27534745 CTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCTGCTAAAGAC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
* * * * * *
27534794 CTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAAATCCCCGAAAGCTCCGAAAACAGTGCCG
1 CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
* *
27534859 TTGGGCTTAGGTA-TTTTGCGACGCTTTC
66 TTGGGCATAGGTATTTTTGCGGCGCTTTC
27534887 TGGAAAACAC
Statistics
Matches: 291, Mismatches: 30, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
113 14 0.05
114 277 0.95
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (114 bp):
CTGAGCATCAGCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACAGCGTCG
TTGGGCATAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
Found at i:27539700 original size:46 final size:46
Alignment explanation
Indices: 27539647--27539734 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
27539637 AAAAGTGTAC
* * *
27539647 TGTGGGCCTTAGCCCATTACAGT-ATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAACCCAATACAGTGA-CAGAATCAAAAATAGAATACA
**
27539693 TGTGGGCCTAAACCCAATACAGTGACAGAATCAGTAATAGAA
1 TGTGGGCCTAAACCCAATACAGTGACAGAATCAAAAATAGAA
27539735 ATGCAACAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (46 bp):
TGTGGGCCTAAACCCAATACAGTGACAGAATCAAAAATAGAATACA
Found at i:27539937 original size:22 final size:22
Alignment explanation
Indices: 27539885--27539958 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
27539875 CAGCAAAGCT
* *
27539885 GCCAGTAACCAGAATGGCTA-AGA
1 GCCA-TAAACAGAATAGCTACA-A
* * *
27539908 GCCGTAAACAGGATAGCTATAA
1 GCCATAAACAGAATAGCTACAA
* *
27539930 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATAGCTACAA
27539952 GCCATAA
1 GCCATAA
27539959 GTACAGTAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (22 bp):
GCCATAAACAGAATAGCTACAA
Found at i:27540018 original size:32 final size:31
Alignment explanation
Indices: 27539948--27540059 Score: 102
Period size: 32 Copynumber: 3.5 Consensus size: 31
27539938 CAGAATGGCT
* * **
27539948 ACAAGCCATAAGTA-CAGTAATATGATTGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
*
27539978 ACAAAACCATCAGTAGCAGTGATATGACCGGTAC
1 AC-AAACCATCAGTAGCAGTAATATGACC-G-AC
* * *
27540012 AC-AACCATCAATAACGGTAATATGACCGAC
1 ACAAACCATCAGTAGCAGTAATATGACCGAC
27540042 ACAAAGCCATCAGTAGCA
1 ACAAA-CCATCAGTAGCA
27540060 TCGCAGCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
30 6 0.09
31 13 0.20
32 40 0.62
33 1 0.02
34 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (31 bp):
ACAAACCATCAGTAGCAGTAATATGACCGAC
Found at i:27540254 original size:11 final size:11
Alignment explanation
Indices: 27540238--27540280 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
27540228 AATCAATCAT
27540238 ACAAATCACAG
1 ACAAATCACAG
*
27540249 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
27540262 ACCAATCACAG
1 ACAAATCACAG
27540273 ACAAATCA
1 ACAAATCA
27540281 GTCATTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.28, G:0.07, T:0.14
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:27540261 original size:24 final size:24
Alignment explanation
Indices: 27540228--27540309 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
27540218 CCATGCTTAG
27540228 AATCAATCATACAAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* *
27540252 AATCAGTCATACCAATCACAGACA
1 AATCAATCATACAAATCACAGACA
* ** * *
27540276 AATCAGTCATTTACATCACGGACA
1 AATCAATCATACAAATCACAGACA
27540300 AATCAATCAT
1 AATCAATCAT
27540310 TTACACTCGA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (24 bp):
AATCAATCATACAAATCACAGACA
Found at i:27540387 original size:27 final size:27
Alignment explanation
Indices: 27540350--27540581 Score: 168
Period size: 27 Copynumber: 8.6 Consensus size: 27
27540340 CCTCATGGGA
** *
27540350 ATTACGGTCATTTTACTTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
** *
27540377 ATTTTGGTCATTTAACCCTATAAGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* *
27540404 ATTACGGTCATTTTACCCTA-CAGAGGC
1 ATTACGGTCATTTTACCCTATAAG-GGT
* **
27540431 ATTACGGTCATTTTATCCTATGGGGGGT
1 ATTACGGTCATTTTACCCTAT-AAGGGT
* * * *
27540459 -TTTCGATTATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
* ** *
27540485 ATTACGGTTATTTTACCCTA-CGGAGGC
1 ATTACGGTCATTTTACCCTATAAG-GGT
**
27540512 ATTACGGAT-ATTTTACCCTATGGGGGGT
1 ATTACGG-TCATTTTACCCTAT-AAGGGT
* *
27540540 TTTTCGGTCATTTTACCCTAT-AGGGT
1 ATTACGGTCATTTTACCCTATAAGGGT
*
27540566 ATTACGATCATTTTAC
1 ATTACGGTCATTTTAC
27540582 AAATATTAGG
Statistics
Matches: 164, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
26 26 0.16
27 113 0.69
28 22 0.13
29 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAAGGGT
Found at i:27540438 original size:81 final size:81
Alignment explanation
Indices: 27540350--27540581 Score: 301
Period size: 81 Copynumber: 2.9 Consensus size: 81
27540340 CCTCATGGGA
* * *
27540350 ATTACGGTCATTTTACTTTAT-AGGGGTATTTTGGTCATTTAACCCTATAAGGGTATTACGGTCA
1 ATTACGGTCATTTTACTCTATGGGGGGT-TTTTGGTCATTTTACCCTATAAGGGTATTACGGTCA
27540414 TTTTACCCTACAGAGGC
65 TTTTACCCTACAGAGGC
* * * * *
27540431 ATTACGGTCATTTTA-TCCTATGGGGGGTTTTCGATTATTTTACCCTATAGGGGTATTACGGTTA
1 ATTACGGTCATTTTACT-CTATGGGGGGTTTTTGGTCATTTTACCCTATAAGGGTATTACGGTCA
*
27540495 TTTTACCCTACGGAGGC
65 TTTTACCCTACAGAGGC
* *
27540512 ATTACGGAT-ATTTTACCCTATGGGGGGTTTTTCGGTCATTTTACCCTAT-AGGGTATTACGATC
1 ATTACGG-TCATTTTACTCTATGGGGGGTTTTT-GGTCATTTTACCCTATAAGGGTATTACGGTC
27540575 ATTTTAC
64 ATTTTAC
27540582 AAATATTAGG
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
80 1 0.01
81 109 0.84
82 20 0.15
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (81 bp):
ATTACGGTCATTTTACTCTATGGGGGGTTTTTGGTCATTTTACCCTATAAGGGTATTACGGTCAT
TTTACCCTACAGAGGC
Found at i:27540440 original size:54 final size:53
Alignment explanation
Indices: 27540331--27540581 Score: 213
Period size: 54 Copynumber: 4.7 Consensus size: 53
27540321 GGGCAAAATA
* ** **
27540331 GTCA-TTTACCCTCAT-GGGAATTACGGTCATTTTACTTTATAGGGGTATTTTG
1 GTCATTTTACCCT-ATAGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * *
27540383 GTCATTTAACCCTATAAGGGTATTACGGTCATTTTACCCTACAGAGGCATTACG
1 GTCATTTTACCCTAT-AGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* * * * *
27540437 GTCATTTTATCCTATGGGGGGT-TTTCGATTATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTAT--AGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
* ** * * * *
27540491 GTTATTTTACCCTACGGAGGCATTACGGAT-ATTTTACCCTATGGGGGGTTTTTCG
1 GTCATTTTACCCTATAG-GGTATTACGG-TCATTTTACCCTAT-AGGGGTATTACG
*
27540546 GTCATTTTACCCTATAGGGTATTACGATCATTTTAC
1 GTCATTTTACCCTATAGGGTATTACGGTCATTTTAC
27540582 AAATATTAGG
Statistics
Matches: 157, Mismatches: 33, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
52 8 0.05
53 10 0.06
54 111 0.71
55 28 0.18
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (53 bp):
GTCATTTTACCCTATAGGGTATTACGGTCATTTTACCCTATAGGGGTATTACG
Found at i:27542852 original size:46 final size:45
Alignment explanation
Indices: 27542827--27543127 Score: 372
Period size: 46 Copynumber: 6.4 Consensus size: 45
27542817 GATCAAGTGA
* *
27542827 CAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTATCTGAT
1 CAAGT-GACAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
* *
27542872 CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGA-CAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27542918 CAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27542964 CAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-------AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27543016 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
* * *
27543062 CAAGAGACAAAGTGAT-AGTGATAGCTTTAGCTACACTTATCTGAT
1 CAAGTGAC-AAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
*
27543107 CAAGAGACAAAGTGATAAGTG
1 CAAGTGAC-AAGTGATAAGTG
27543128 GCTACACTTA
Statistics
Matches: 236, Mismatches: 10, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
44 2 0.01
45 47 0.20
46 143 0.61
52 44 0.19
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
CAAGTGACAAGTGATAAGTGATAGCTTCAGCTATACTTATCTGAT
Found at i:27542888 original size:98 final size:92
Alignment explanation
Indices: 27542834--27543127 Score: 428
Period size: 98 Copynumber: 3.1 Consensus size: 92
27542824 TGACAAGTGG
*
27542834 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCT
* *
27542899 TCGGCTATACTTATCTGATCAAGTGAC
66 TCAGCTACACTTATCTGATCAAGTGAC
* *
27542926 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTG---A-T--AAAGTGATAAGTG
* *
27542991 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
60 ATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
27543024 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGAT-AGTGATAGCT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCT
* *
27543088 TTAGCTACACTTATCTGATCAAGAGAC
66 TCAGCTACACTTATCTGATCAAGTGAC
27543115 AAAGTGATAAGTG
1 AAAGTGATAAGTG
27543128 GCTACACTTA
Statistics
Matches: 185, Mismatches: 11, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
91 46 0.25
92 49 0.26
95 2 0.01
96 1 0.01
98 87 0.47
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (92 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCT
TCAGCTACACTTATCTGATCAAGTGAC
Found at i:27543127 original size:144 final size:144
Alignment explanation
Indices: 27542768--27543116 Score: 628
Period size: 144 Copynumber: 2.4 Consensus size: 144
27542758 TTTGAGTACT
* *
27542768 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
27542833 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
27542898 TTCGGCTATACTTA
131 TTCGGCTATACTTA
*
27542912 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
27542977 GAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
27543042 TTCGGCTATACTTA
131 TTCGGCTATACTTA
* *
27543056 TCTGATCAAGAGACAAAGTGAT-AGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAA
27543117 AGTGATAAGT
Statistics
Matches: 197, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
143 37 0.19
144 160 0.81
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:27543134 original size:37 final size:37
Alignment explanation
Indices: 27543045--27543199 Score: 179
Period size: 37 Copynumber: 4.0 Consensus size: 37
27543035 TGATAGCTTC
*
27543045 GGCTATACTTATCTGATCAAGAGACAAAGTGATAGTGATAGCTTT
1 GGCTACACTTATCTGATCAAGAGACAAAGTG--A-T-A-AG---T
*
27543090 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
27543127 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
27543164 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
27543199 G
1 G
27543200 ATCATACGTA
Statistics
Matches: 102, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 53 0.52
40 2 0.02
41 1 0.01
42 1 0.01
43 1 0.01
45 29 0.28
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:27544516 original size:49 final size:49
Alignment explanation
Indices: 27544455--27544598 Score: 234
Period size: 49 Copynumber: 2.9 Consensus size: 49
27544445 ATGTGAACAT
27544455 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
27544505 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
27544554 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
27544599 AGAAAACGAA
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
49 85 0.96
50 4 0.04
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:27547831 original size:45 final size:46
Alignment explanation
Indices: 27547789--27548077 Score: 435
Period size: 46 Copynumber: 6.3 Consensus size: 46
27547779 TGACAAGTGG
* *
27547789 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
27547835 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
*
27547881 AAAGTGATAAGTGATAGCTTCAGCTA-ACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
27547926 AAGTGAAAGTGATAAGT-ATAGCTTCGGCTATACTTATCTGATCAAGTGA-
1 -----AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
*
27547975 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
* * *
27548021 AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAG-AAC
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
27548065 AAAGTGATAAGTG
1 AAAGTGATAAGTG
27548078 GCTACACTTA
Statistics
Matches: 227, Mismatches: 8, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
44 27 0.12
45 69 0.30
46 89 0.39
49 12 0.05
50 30 0.13
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC
Found at i:27547961 original size:50 final size:51
Alignment explanation
Indices: 27547881--27548061 Score: 228
Period size: 45 Copynumber: 3.8 Consensus size: 51
27547871 ATCAAGTGAC
*
27547881 AAAGTGATAAGTGATAGCTTCAGCTA-ACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
27547931 AAAGTGATAAGT-ATAGCTTCGGCTATACTTATCTGATCAAGTG---A---
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
*
27547975 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
* *
27548021 AAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAG
1 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAG
27548062 AACAAAGTGA
Statistics
Matches: 123, Mismatches: 4, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
44 12 0.10
45 49 0.40
46 20 0.16
47 1 0.01
49 12 0.10
50 29 0.24
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
Found at i:27548011 original size:140 final size:143
Alignment explanation
Indices: 27547723--27548061 Score: 605
Period size: 140 Copynumber: 2.4 Consensus size: 143
27547713 TTTGAGTACT
* *
27547723 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTGACAAGTG
27547788 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
65 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
27547853 TTCGGCTATACTTA
130 TTCGGCTATACTTA
27547867 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTA-ACTTATCTGATCAAGTGACAAGT-
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTT-AGCTACACTTATCTGATCAAGTGACAAGTG
27547930 GAAAGTGATAAGT-ATAGCTTCGGCTATACTTATCTGATCAAGTGA-AAAGTGATAAGTGATAGC
65 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
27547993 TTCGGCTATACTTA
130 TTCGGCTATACTTA
*
27548007 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAG
27548062 AACAAAGTGA
Statistics
Matches: 190, Mismatches: 3, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
139 5 0.03
140 80 0.42
141 32 0.17
142 13 0.07
143 25 0.13
144 35 0.18
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (143 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTGACAAGTGG
AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCT
TCGGCTATACTTA
Found at i:27548103 original size:37 final size:36
Alignment explanation
Indices: 27548042--27548149 Score: 173
Period size: 37 Copynumber: 3.0 Consensus size: 36
27548032 TGATAGCTTA
27548042 GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
*
27548078 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAG-AACAAAGTGATAAGTG
* *
27548115 GCTACACTTATCTGATCAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
27548150 ATCATACGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 11 0.16
36 22 0.33
37 34 0.51
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAACAAAGTGATAAGTG
Found at i:27549504 original size:51 final size:47
Alignment explanation
Indices: 27549396--27549536 Score: 169
Period size: 51 Copynumber: 2.9 Consensus size: 47
27549386 CATTGAACAT
27549396 GTGATTATGTGATTCCGTGT-AACCATAGCTGGGCTATGGCATCGGTA
1 GTGATT-TGTGATTCCGTGTAAACCATAGCTGGGCTATGGCATCGGTA
* * *
27549443 ATGATATGTGATTCCGTGTAAGACCATATCTGTGGGCTTATGGCATCGGTA
1 GTGATTTGTGATTCCGTGTAA-ACCATAGC--TGGGC-TATGGCATCGGTA
* * *
27549494 GTGATTTGTGATTACGTGTAAACCATAGTTGGACTAT-GCATCG
1 GTGATTTGTGATTCCGTGTAAACCATAGCTGGGCTATGGCATCG
27549537 AGAAAAACGA
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
46 19 0.24
47 8 0.10
48 11 0.14
50 11 0.14
51 31 0.39
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
GTGATTTGTGATTCCGTGTAAACCATAGCTGGGCTATGGCATCGGTA
Found at i:27552680 original size:46 final size:46
Alignment explanation
Indices: 27552628--27552988 Score: 381
Period size: 46 Copynumber: 7.6 Consensus size: 46
27552618 ATTGAGTACT
* * * *
27552628 TCTGATCAAGTGATAATGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* *
27552674 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTATACTTA
27552726 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTC-GCTATACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
*
27552771 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCA-CTATACTTACTCTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGC--TA--TACT-TA
* *
27552821 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTATACTTA
*
27552873 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* * * * *
27552919 TCTGATC-AGAGACAAAGTGAT--TTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
* *
27552962 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
27552989 GCTACACTTA
Statistics
Matches: 274, Mismatches: 19, Indels: 44
0.81 0.06 0.13
Matches are distributed among these distances:
43 25 0.09
44 14 0.05
45 57 0.21
46 72 0.26
47 2 0.01
48 2 0.01
49 7 0.03
50 15 0.05
52 52 0.19
53 5 0.02
55 2 0.01
56 20 0.07
57 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (46 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTATACTTA
Found at i:27552846 original size:147 final size:144
Alignment explanation
Indices: 27552628--27552977 Score: 548
Period size: 147 Copynumber: 2.4 Consensus size: 144
27552618 ATTGAGTACT
* * * *
27552628 TCTGATCAAGTGATAATGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
27552693 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
27552758 TTC-GCTATACTTA
131 TTCGGCTATACTTA
27552771 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCA-CTATACTTACTCTATCTGATCAAGTGAC
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGC--TAC--ACT-TATCTGATCAAGTGAC
27552835 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTG
61 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTG
27552900 ATAGCTTCGGCTATACTTA
126 ATAGCTTCGGCTATACTTA
* * * *
27552919 TCTGATC-AGAGACAAAGTGAT--TTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
27552978 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
141 17 0.09
142 4 0.02
143 32 0.17
144 6 0.03
145 10 0.05
146 4 0.02
147 102 0.53
148 17 0.09
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGC
TTCGGCTATACTTA
Found at i:27552961 original size:43 final size:45
Alignment explanation
Indices: 27552841--27553022 Score: 195
Period size: 46 Copynumber: 4.2 Consensus size: 45
27552831 TGACAAGTGG
* * *
27552841 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAT
1 AAAGTGAT-AGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
27552887 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATC-AGAGAC
1 AAAGTGAT-AGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
* ** *
27552932 AAAGTGAT-TTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
* *
27552976 AAAGTG--A-T-A-AG--T-GGCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
27553013 AAAGTGATAG
1 AAAGTGATAG
27553023 GTGCTACACT
Statistics
Matches: 122, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
37 29 0.24
38 1 0.01
39 1 0.01
40 2 0.02
41 1 0.01
42 1 0.01
43 25 0.20
44 12 0.10
45 12 0.10
46 38 0.31
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (45 bp):
AAAGTGATAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
Found at i:27552993 original size:37 final size:36
Alignment explanation
Indices: 27552908--27553059 Score: 164
Period size: 37 Copynumber: 4.0 Consensus size: 36
27552898 TGATAGCTTC
*
27552908 GGCTATACTTATCTGATCAGAGACAAAGTGATTTGATAGCTTT
1 GGCTACACTTATCTGATCAGAGACAAAGTGA--T-A-AG---T
*
27552951 AGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATC-AGAGACAAAGTGATAAGT
* *
27552988 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATC-AGAGACAAAGTGATAAGT
*
27553025 -GCTACACTTATCTGATCAGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAGAGACAAAGTGATAAGT
27553059 G
1 G
27553060 ATCATACGTA
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
34 10 0.10
35 4 0.04
36 17 0.17
37 35 0.35
40 2 0.02
41 1 0.01
42 1 0.01
43 16 0.16
44 13 0.13
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.28
Consensus pattern (36 bp):
GGCTACACTTATCTGATCAGAGACAAAGTGATAAGT
Found at i:27553733 original size:17 final size:18
Alignment explanation
Indices: 27553711--27553746 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
27553701 TTTACCCGTG
*
27553711 TGGGCCCATA-AGCCTAT
1 TGGGCCCACACAGCCTAT
27553728 TGGGCCCACACAGCCTAT
1 TGGGCCCACACAGCCTAT
27553746 T
1 T
27553747 TCGACCTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (18 bp):
TGGGCCCACACAGCCTAT
Found at i:27559229 original size:22 final size:24
Alignment explanation
Indices: 27559195--27559242 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
27559185 TGTGAAACTG
*
27559195 TTATAAAATAAAAAT-AA-TATTT
1 TTATAAAACAAAAATAAAGTATTT
*
27559217 TTATTAAACAAAAATAAAGTATTT
1 TTATAAAACAAAAATAAAGTATTT
27559241 TT
1 TT
27559243 TTTCCGCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 2 0.09
24 7 0.32
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TTATAAAACAAAAATAAAGTATTT
Found at i:27565141 original size:66 final size:66
Alignment explanation
Indices: 27565060--27565212 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 66
27565050 GTTATACCAA
* * ** *
27565060 TGAGGCACTAGGTGTCAAACTATGTGATAAGCA-TTCGACGCAACTATTTGCTTCGGATTTATCT
1 TGAGGCATTGGGTGTCAAACTATGTGATAAG-AGTTCGACGCAACTATTTGCTTCAAATTTATCC
*
27565124 GG
65 GC
* * *
27565126 TGAGGCTTTGGGTGTCAAACTATTTGATAAGAGTTCGATGCAACTATTTGCTTCAAATTTATCCG
1 TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTGCTTCAAATTTATCCG
27565191 C
66 C
*
27565192 TGAGGCATTGGGTGCCAAACT
1 TGAGGCATTGGGTGTCAAACT
27565213 GGTGTATTGG
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
65 1 0.01
66 74 0.99
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (66 bp):
TGAGGCATTGGGTGTCAAACTATGTGATAAGAGTTCGACGCAACTATTTGCTTCAAATTTATCCG
C
Found at i:27575427 original size:24 final size:25
Alignment explanation
Indices: 27575400--27575466 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
27575390 TGCGTTTATG
27575400 ATTTCAGAATA-AAATAAAGAAGCA
1 ATTTCAGAATACAAATAAAGAAGCA
* * * *
27575424 ATTTCA-ATTACAGATACAGAGGCA
1 ATTTCAGAATACAAATAAAGAAGCA
27575448 ATTTCAG-ATACAGAATAAA
1 ATTTCAGAATACA-AATAAA
27575467 ATCCTACTCG
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 3 0.09
24 26 0.79
25 4 0.12
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (25 bp):
ATTTCAGAATACAAATAAAGAAGCA
Found at i:27588604 original size:5 final size:6
Alignment explanation
Indices: 27588587--27588611 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27588577 AAAAGCAACC
27588587 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
27588612 CATAGTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:27588770 original size:13 final size:12
Alignment explanation
Indices: 27588736--27588783 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
27588726 CCAGTAAAAT
* *
27588736 TAAAGATAATAG
1 TAAAAATAATAC
*
27588748 TAAGAATAATAC
1 TAAAAATAATAC
27588760 TAAAAAATAATAC
1 T-AAAAATAATAC
27588773 TAAAAATAATA
1 TAAAAATAATA
27588784 GAAATATAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 20 0.65
13 11 0.35
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (12 bp):
TAAAAATAATAC
Found at i:27588883 original size:22 final size:22
Alignment explanation
Indices: 27588858--27588903 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27588848 AAAAGAAAAA
27588858 AATAAGTA-AAATAAAAATAAAT
1 AATAAG-ACAAATAAAAATAAAT
* *
27588880 AATATGACAAATAATAATAAAT
1 AATAAGACAAATAAAAATAAAT
27588902 AA
1 AA
27588904 ATAAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AATAAGACAAATAAAAATAAAT
Found at i:27588910 original size:15 final size:15
Alignment explanation
Indices: 27588833--27588913 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
27588823 AAAATCTAAG
27588833 AATAATAAAAAAGA-A
1 AATAATAAAAAA-ATA
*
27588848 AA-AAGAAAAAAATA
1 AATAATAAAAAAATA
*
27588862 AGTAA-AATAAAAATA
1 AATAATAA-AAAAATA
* *
27588877 AATAATATGACAAAT-
1 AATAATA-AAAAAATA
*
27588892 AATAATAAATAAATA
1 AATAATAAAAAAATA
27588907 AATAATA
1 AATAATA
27588914 GGGGTAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
13 1 0.02
14 17 0.32
15 29 0.55
16 6 0.11
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (15 bp):
AATAATAAAAAAATA
Found at i:27598942 original size:34 final size:31
Alignment explanation
Indices: 27598902--27598980 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 31
27598892 TCTGATATGG
27598902 TATGACATTTTGGTATGATATATGTTTCTGAAAA
1 TATGACATTTTGGTA-G-TATATGTTT-TGAAAA
*
27598936 TATGACATTATAAT-GTAGTATATGTTTTGGAAA
1 TATGACATT-T--TGGTAGTATATGTTTTGAAAA
27598969 TATGACATTTTG
1 TATGACATTTTG
27598981 ATCTGACATA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
30 1 0.03
32 1 0.03
33 14 0.35
34 18 0.45
35 2 0.05
36 3 0.08
37 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (31 bp):
TATGACATTTTGGTAGTATATGTTTTGAAAA
Found at i:27602294 original size:21 final size:20
Alignment explanation
Indices: 27602270--27602313 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
27602260 TATTTTTATC
27602270 ATTTTAATCA-AAATTTTATTT
1 ATTTTAAT-ATAAA-TTTATTT
*
27602291 ATTTTTATATAAATTTATTT
1 ATTTTAATATAAATTTATTT
27602311 ATT
1 ATT
27602314 ACATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTTAATATAAATTTATTT
Found at i:27606376 original size:21 final size:21
Alignment explanation
Indices: 27606347--27606403 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
27606337 TATTTTCGTT
27606347 TTTTCATATATAATT-TATTTA
1 TTTT-ATATATAATTATATTTA
**
27606368 CTTTTATAT-TCTTTATATTTA
1 -TTTTATATATAATTATATTTA
27606389 TTTTATGATATAATT
1 TTTTAT-ATATAATT
27606404 CGGCATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
20 9 0.32
21 12 0.43
22 7 0.25
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTATATATAATTATATTTA
Found at i:27606685 original size:23 final size:22
Alignment explanation
Indices: 27606630--27606674 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
27606620 AAAATATATT
*
27606630 AAATATATATATTTTTATTTTTA
1 AAATATA-ATAGTTTTATTTTTA
*
27606653 AAATATAATAGTTTTAGTTTTA
1 AAATATAATAGTTTTATTTTTA
27606675 TACAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
AAATATAATAGTTTTATTTTTA
Found at i:27607172 original size:16 final size:16
Alignment explanation
Indices: 27607151--27607190 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
27607141 TAATTTGATG
*
27607151 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
27607167 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
27607183 GTTTTAAT
1 ATTTTAAT
27607191 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:27607191 original size:22 final size:23
Alignment explanation
Indices: 27607164--27607225 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
27607154 TTACTAACAA
* *
27607164 TTAATTTTAATAATAAT-TAGTT
1 TTAATTTTAATAAAAATATAATT
*
27607186 TTAATTTTATTAAAAATATAATT
1 TTAATTTTAATAAAAATATAATT
27607209 TTAATTTTAATTAAAAA
1 TTAATTTTAA-TAAAAA
27607226 CGGGCCGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 15 0.44
23 13 0.38
24 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAATATAATT
Found at i:27615157 original size:21 final size:21
Alignment explanation
Indices: 27615124--27615163 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27615114 TAATTCATTT
* * *
27615124 ATTCGCTTTCATATCATTGGC
1 ATTCACTTGCATAACATTGGC
27615145 ATTCACTTGCATAACATTG
1 ATTCACTTGCATAACATTG
27615164 TATTCGTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTCACTTGCATAACATTGGC
Found at i:27622864 original size:16 final size:15
Alignment explanation
Indices: 27622821--27622866 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
27622811 AAAAACAAAC
27622821 AAAAAAGAAAAAGAA
1 AAAAAAGAAAAAGAA
*
27622836 AAAGAAGGAAAAATGAA
1 AAA-AAAGAAAAA-GAA
27622853 AAGAAAAGAAAAAG
1 AA-AAAAGAAAAAG
27622867 GAGAGGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.12
16 9 0.35
17 13 0.50
18 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAAGAA
Found at i:27623338 original size:108 final size:106
Alignment explanation
Indices: 27623130--27623348 Score: 280
Period size: 108 Copynumber: 2.0 Consensus size: 106
27623120 GGGCACCTCA
* * ** * *
27623130 TTTCATCTTATTCATTTTGTATCTTAGCAAATTTGCTATCTTGATTATTTATTTATTTCGAGCTT
1 TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
*
27623195 TGTTTTCAATAAAATTCCATCTTATCCATTATGATAATCCT
66 TGTCTTCAATAAAATTCCATCTTATCCATTATGATAATCCT
* *
27623236 TTTCATCTTATTCATTTTGAATCTTAGCAAAATTCGCTATCCCGATTAATTTGTTTGTTTAGAGC
1 TTTCATCTTATTCATTTTGAATCTTAGC-AAATTCGCTATCCCGATT-ATTTATTTATTTAGAGC
* * *
27623301 TCTGCTCTT-AATAAAATTTCATCTT-TCCCATTGTGATAATCTT
64 TCTG-TCTTCAATAAAATTCCATCTTAT-CCATTATGATAATCCT
27623344 TTTCA
1 TTTCA
27623349 AGAATTTTCC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
106 27 0.28
107 16 0.16
108 51 0.53
109 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (106 bp):
TTTCATCTTATTCATTTTGAATCTTAGCAAATTCGCTATCCCGATTATTTATTTATTTAGAGCTC
TGTCTTCAATAAAATTCCATCTTATCCATTATGATAATCCT
Found at i:27624039 original size:16 final size:16
Alignment explanation
Indices: 27624009--27624045 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27623999 TGACATTCTG
*
27624009 CATTC-ATGCAAATAT
1 CATTCAATGAAAATAT
27624024 CATTCAATGAAAATAT
1 CATTCAATGAAAATAT
27624040 CATTCA
1 CATTCA
27624046 TACACATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.32
Consensus pattern (16 bp):
CATTCAATGAAAATAT
Found at i:27624366 original size:45 final size:45
Alignment explanation
Indices: 27624272--27624366 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
27624262 TTGTATCTTC
* * **
27624272 CTGTATTGGCAGCGAAGTAGAACGAAGTTAGCAAGTCTTGTCTTA
1 CTGTATTGGCAGCAAAGTAGAACGAAGATAGCAAGTCTTACCTTA
* *
27624317 CTGTATTGGCAGCAAAGTAG-ACTGAAGATGGC-AGATCTTACCTTT
1 CTGTATTGGCAGCAAAGTAGAAC-GAAGATAGCAAG-TCTTACCTTA
27624362 CTGTA
1 CTGTA
27624367 CTGGAAATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 4 0.10
45 38 0.90
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
CTGTATTGGCAGCAAAGTAGAACGAAGATAGCAAGTCTTACCTTA
Found at i:27624513 original size:89 final size:89
Alignment explanation
Indices: 27624340--27624620 Score: 395
Period size: 89 Copynumber: 3.2 Consensus size: 89
27624330 AAAGTAGACT
* * * * * *
27624340 GAAGATGGCAGATCTTACCTTTCTGTACTGGAAATGAAGCAGATTAG-AAG-CACTAGCCTTATC
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGA-TCGTAAGCCACTAGCCTTATC
*
27624403 TCCCTGAGCAGTAGTGGAGTAGGTC
65 TCCCTGAGCAGCAGTGGAGTAGGTC
*
27624428 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGTAAGCCACTAGCCTTATCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
*
27624493 CCCTGAGCAGCAATGGAGTAGGTC
66 CCCTGAGCAGCAGTGGAGTAGGTC
* * * *
27624517 GAAGATTGTAGATCTTGCCTTCCTATACTGGCAATGAAGCAAATCGTAAGCCACCAGCCTTGTCT
1 GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
* * *
27624582 CCCTGAGCAACAGTAGAGTAGGTT
66 CCCTGAGCAGCAGTGGAGTAGGTC
27624606 GAAGATTGTAGATCT
1 GAAGATTGTAGATCT
27624621 CATCTCCCTA
Statistics
Matches: 173, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 40 0.23
89 131 0.76
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
GAAGATTGTAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCGTAAGCCACTAGCCTTATCT
CCCTGAGCAGCAGTGGAGTAGGTC
Found at i:27624654 original size:44 final size:44
Alignment explanation
Indices: 27624606--27624783 Score: 107
Period size: 44 Copynumber: 4.1 Consensus size: 44
27624596 AGAGTAGGTT
27624606 GAAGATTGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** * *
27624650 GAAGA-CGGCGAATCTTATCTTCCC-AAG-A-TAGTAGGAAGCAGATT
1 GAAGATTGTAG-ATCTCATC-TCCCTAAGCAGTAGT-GG-AGCAGATC
* ***** * * *
27624694 TAAGCCACCAG-TC-CTATCTCCCTGAGCAGTAGTGGAGTAGGTC
1 GAAGATTGTAGATCTC-ATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** *
27624737 GAAGATTATAGATCTTTTCTCCCTAAGTAGTAGTGGAGCAGATC
1 GAAGATTGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATC
27624781 GAA
1 GAA
27624784 AGCACCAACC
Statistics
Matches: 95, Mismatches: 28, Indels: 22
0.66 0.19 0.15
Matches are distributed among these distances:
42 8 0.08
43 22 0.23
44 56 0.59
45 9 0.09
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATTGTAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:27624752 original size:87 final size:88
Alignment explanation
Indices: 27624661--27624852 Score: 227
Period size: 87 Copynumber: 2.2 Consensus size: 88
27624651 AAGACGGCGA
** *
27624661 ATCTTATCTTCCC-AAGATAGTAG-GAAGCAGAT-TTAAGCCACCAGTCC-TATCTCCCTGAGCA
1 ATCTTATCTTCCCTAAG-TAGTAGTGAAGCAGATCGAAAG-CACCA-ACCTTATCTCCCTGAGCA
* *
27624722 GTAGTGGAGTAGGTCGAAGATT-ATAG
63 GCAGCGGAGTAGGTCGAAGATTGA-AG
* *
27624748 ATCTTTTC-TCCCTAAGTAGTAGTGGAGCAGATCGAAAGCACCAACCTTATCTCCCTGAGCAGCA
1 ATCTTATCTTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAACCTTATCTCCCTGAGCAGCA
27624812 GCGGAGTAGGTCGAAGATTGAAG
66 GCGGAGTAGGTCGAAGATTGAAG
27624835 ATCTTATC-TCCCTGAAGT
1 ATCTTATCTTCCCT-AAGT
27624853 TGCAGTGGAG
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
86 12 0.13
87 71 0.78
88 8 0.09
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (88 bp):
ATCTTATCTTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAACCTTATCTCCCTGAGCAGCA
GCGGAGTAGGTCGAAGATTGAAG
Found at i:27624846 original size:44 final size:45
Alignment explanation
Indices: 27624708--27624849 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 45
27624698 CCACCAGTCC
*
27624708 TATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATT-ATAGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATTGACAGATCT
* * * * * *
27624752 TTTCTCCCTAAGTAGTAGTGGAGCAGATCGAA-A--GCACCA-ACCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATTG-A-CAGATCT
* *
27624795 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGA-AGATCT
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATTGACAGATCT
27624839 TATCTCCCTGA
1 TATCTCCCTGA
27624850 AGTTGCAGTG
Statistics
Matches: 76, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
43 31 0.41
44 43 0.57
45 1 0.01
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (45 bp):
TATCTCCCTGAGCAGTAGTGGAGTAGGTCGAAGATTGACAGATCT
Found at i:27624990 original size:130 final size:130
Alignment explanation
Indices: 27624836--27625575 Score: 1101
Period size: 130 Copynumber: 5.7 Consensus size: 130
27624826 AGATTGAAGA
* *
27624836 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
27624901 GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCAG
66 GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
* * * ** * * **
27624966 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
*
27625031 GT-GAAGCGGATTAAAAACCACTA-ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCC
66 GTGGAA-CGGATTAAAAACCAC-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCC
27625094 AG
129 AG
27625096 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * * *
27625161 GTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCAA
66 GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
27625226 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
27625291 GTGGAACGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAA
66 GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
* * * ** * *
27625356 TCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* * * * * *
27625421 GTGGAGCAGATTAAAAA-CACAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCCAG
66 GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
* * *
27625485 TCTTATCTCCCTGAAGTTGCAATGGATCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
* *
27625550 GTGGAGCGGATT-AAAACCACAAATCT
66 GTGGAACGGATTAAAAACCACAGATCT
27625576 CATCCCCATG
Statistics
Matches: 549, Mismatches: 56, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
128 4 0.01
129 121 0.22
130 421 0.77
131 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (130 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
Found at i:27625300 original size:390 final size:389
Alignment explanation
Indices: 27624835--27625565 Score: 1302
Period size: 390 Copynumber: 1.9 Consensus size: 389
27624825 AAGATTGAAG
* *
27624835 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAAAAGAAACCAATCCTATCTTCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGC
27624900 AGTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
66 AGTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
* *
27624965 GTCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTAT
131 ATCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTAC
* * *
27625030 AGTGAAGCGGATTAAAAACCACTA-ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCC
196 AGTGAAGCAGATTAAAAA-CAC-AGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCC
*
27625094 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTG
259 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTG
27625159 CAGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCC
324 CAGTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCC
27625224 A
389 A
27625225 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGC
* *
27625290 AGTGGAACGGATTAAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCA
66 AGTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
*
27625355 ATCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTGAAGTTAC
131 ATCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTAC
* *
27625420 AGTGGAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCCAG
196 AGTGAAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCCAG
* *
27625485 TCTTATCTCCCTGAAGTTGCAATGGATCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCA
261 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
27625550 GTGGAGCGGATTAAAA
326 GTGGAGCGGATTAAAA
27625566 CCACAAATCT
Statistics
Matches: 325, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
388 1 0.00
389 120 0.37
390 204 0.63
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (389 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGC
AGTGGAACGGATTAAAAACCACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCACATCCA
ATCTCATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGCTACTAATCCTATCTCCCTAAAGTTAC
AGTGAAGCAGATTAAAAACACAGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCACATCCAG
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCACATCCA
Found at i:27627812 original size:21 final size:21
Alignment explanation
Indices: 27627779--27627818 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27627769 TAATTCATTT
* * *
27627779 ATTCGCTTTCATATCATTGGC
1 ATTCACTTGCATAACATTGGC
27627800 ATTCACTTGCATAACATTG
1 ATTCACTTGCATAACATTG
27627819 TATTCGTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTCACTTGCATAACATTGGC
Found at i:27632576 original size:30 final size:30
Alignment explanation
Indices: 27632519--27632577 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27632509 TGTCTTTGAA
* * *
27632519 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGACACACCAAATTTTT
27632549 AATATTTACAAAAAGATCA-ACCAAATTTT
1 AATATTTACAAAAAGA-CACACCAAATTTT
27632578 GAAAATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGACACACCAAATTTTT
Found at i:27642018 original size:91 final size:91
Alignment explanation
Indices: 27641704--27642008 Score: 517
Period size: 91 Copynumber: 3.4 Consensus size: 91
27641694 TGATTTTAGT
* *
27641704 AAATTCATATAA-AAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 AAATTCATATAAGAAA-ATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATA
27641768 TTTAATAATAATTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
27641795 AAATTCATATAAGAAAATTTATTA-TCAAGAATTTTATGAAATTA-ATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
27641858 TTTAATAATATTTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
**
27641885 AAATTCATATAAGAAAATTTATTAGTAAGAGCTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
27641950 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
*
27641976 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT
27642009 ATTTTAAATT
Statistics
Matches: 202, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
90 85 0.42
91 114 0.56
92 3 0.01
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:27642161 original size:120 final size:120
Alignment explanation
Indices: 27642015--27642658 Score: 1207
Period size: 120 Copynumber: 5.4 Consensus size: 120
27642005 AATTATTTTA
*
27642015 AATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27642080 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
27642135 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27642200 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
27642255 AATTTTATTAAATCATATATTTTAATTAAAATATATGTAATAATTATTATTTCAAATTATATTTG
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27642320 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
27642375 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27642440 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
* * *
27642495 AACTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATCATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
27642560 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
27642615 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAT
27642659 TATGTTAAAA
Statistics
Matches: 511, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 511 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:27642164 original size:18 final size:17
Alignment explanation
Indices: 27642136--27642170 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27642126 ATTATTAAGA
*
27642136 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27642153 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27642171 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27642301 original size:51 final size:51
Alignment explanation
Indices: 27642246--27642423 Score: 117
Period size: 51 Copynumber: 3.1 Consensus size: 51
27642236 AAGAATATTG
27642246 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATGTAATA
1 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATGTAATA
* * *
27642297 ATTATTATTTCA-AATTATATTTGATAGTATCATATATTATGATTTTAGTAAATTCATATAAG-A
1 ATTATTA----AGAATTTTA-TT-A-A--ATCATATATT-TTA-ATTA--AAA-T-ATAT--GTA
27642360 ATA
49 ATA
*
27642363 TTGATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATA
1 ---ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATGTAATA
*
27642417 ATAATTA
1 ATTATTA
27642424 TTTCAAATTA
Statistics
Matches: 97, Mismatches: 8, Indels: 44
0.65 0.05 0.30
Matches are distributed among these distances:
51 13 0.13
54 10 0.10
55 7 0.07
56 2 0.02
57 4 0.04
59 13 0.13
60 4 0.04
61 13 0.13
63 4 0.04
64 2 0.02
65 7 0.07
66 10 0.10
67 1 0.01
69 7 0.07
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (51 bp):
ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATGTAATA
Found at i:27642391 original size:37 final size:39
Alignment explanation
Indices: 27642088--27642633 Score: 139
Period size: 38 Copynumber: 13.7 Consensus size: 39
27642078 TTATAGTATC
* *
27642088 ATATATTATG-ATTTTAGTAAATTCATATAAGAATAT-TG
1 ATATATTAAGAATTTTATTAAA-TCATATAAGAATATATG
* ** **
27642126 AT-TATTAAGAATTTTATTAAATTATATATTTTAAT-TAAA
1 ATATATTAAGAATTTTATTAAATCATATA--AGAATATATG
* * * *** *
27642165 ATATATTTAATAATAATTATTTCAAATTATAT-TTTATAGTATC
1 ATATA-TTAAGAAT-TTTA-TT-AAATCATATAAGAATA-TATG
* *
27642208 ATATATTATG-ATTTTAGTAAATTCATATAAGAATAT-TG
1 ATATATTAAGAATTTTATTAAA-TCATATAAGAATATATG
** **
27642246 AT-TATTAAGAATTTTATTAAATCATATATTTTAAT-TAAA
1 ATATATTAAGAATTTTATTAAATCATATA--AGAATATATG
* * ** *
27642285 ATATATGTAATAATTATTATTTCAAATTATATTTG-ATAGTATC
1 ATATAT-TAAGAATT-TTA-TT-AAATCATATAAGAATA-TATG
* *
27642328 ATATATTATG-ATTTTAGTAAATTCATATAAGAATAT-TG
1 ATATATTAAGAATTTTATTAAA-TCATATAAGAATATATG
** **
27642366 AT-TATTAAGAATTTTATTAAATCATATATTTTAAT-TAAA
1 ATATATTAAGAATTTTATTAAATCATATA--AGAATATATG
* * * *** *
27642405 ATATATTTAATAATAATTATTTCAAATTATAT-TTTATAGTATC
1 ATATA-TTAAGAAT-TTTA-TT-AAATCATATAAGAATA-TATG
* *
27642448 ATATATTATG-ATTTTAGTAAATTCATATAAGAATAT-TG
1 ATATATTAAGAATTTTATTAAA-TCATATAAGAATATATG
* * ** **
27642486 AT-TATTAAGAACTTTATTAAATTATATATTTTAAT-TAAA
1 ATATATTAAGAATTTTATTAAATCATATA--AGAATATATG
* * *** *
27642525 ATATATTTAATAATAATTATTTCAAATCATAT-TTTATAGTATC
1 ATATA-TTAAGAAT-TTTA-TT-AAATCATATAAGAATA-TATG
* *
27642568 ATATATTATG-ATTTTAGTAAATTCATATAAGAATAT-TG
1 ATATATTAAGAATTTTATTAAA-TCATATAAGAATATATG
*
27642606 AT-TATTAAGAATTTTATTAAATTATATA
1 ATATATTAAGAATTTTATTAAATCATATA
27642634 TTTTAATTAA
Statistics
Matches: 368, Mismatches: 87, Indels: 107
0.65 0.15 0.19
Matches are distributed among these distances:
37 62 0.17
38 79 0.21
39 50 0.14
40 33 0.09
41 50 0.14
42 24 0.07
43 37 0.10
44 33 0.09
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (39 bp):
ATATATTAAGAATTTTATTAAATCATATAAGAATATATG
Found at i:27642644 original size:18 final size:17
Alignment explanation
Indices: 27642616--27642650 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27642606 ATTATTAAGA
*
27642616 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27642633 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27642651 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27642850 original size:39 final size:43
Alignment explanation
Indices: 27642794--27642897 Score: 119
Period size: 46 Copynumber: 2.4 Consensus size: 43
27642784 TTTTCTTATG
* *
27642794 CTATTACACCTCCATTCCA-A-TCAACCAAA-AACAAGAA-TA-
1 CTATTACGCCTCTATTCCACATTCAACCAAACAA-AAGAATTAC
27642833 CTATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCA---CATTCAACCAAACAAAAGAATTAC
27642879 CTATTACGCCTCTATTCCA
1 CTATTACGCCTCTATTCCA
27642898 TTACACCTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
39 17 0.31
43 1 0.02
44 14 0.25
45 4 0.07
46 19 0.35
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.27
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCACATTCAACCAAACAAAAGAATTAC
Found at i:27642874 original size:44 final size:46
Alignment explanation
Indices: 27642804--27642899 Score: 153
Period size: 44 Copynumber: 2.1 Consensus size: 46
27642794 CTATTACACC
27642804 TCCATTCCAATCAACCAAAAACAAGAA-TA-CTATTACGCCTCTAT
1 TCCATTCCAATCAACCAAAAACAAGAATTACCTATTACGCCTCTAT
*
27642848 TCCATTCCATTCAACCAAACAA-AAGAATTACCTATTACGCCTCTAT
1 TCCATTCCAATCAACCAAA-AACAAGAATTACCTATTACGCCTCTAT
27642894 TCCATT
1 TCCATT
27642900 ACACCTCTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
44 23 0.48
45 4 0.08
46 21 0.44
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (46 bp):
TCCATTCCAATCAACCAAAAACAAGAATTACCTATTACGCCTCTAT
Found at i:27642906 original size:16 final size:16
Alignment explanation
Indices: 27642881--27642925 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
27642871 AGAATTACCT
*
27642881 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
27642897 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
27642913 ATTAGACCTCTAT
1 ATTACACCTCTAT
27642926 CCCGTTACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.38
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:27648035 original size:21 final size:21
Alignment explanation
Indices: 27647996--27648035 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27647986 TTGTTTCTAA
*
27647996 AGAAAAATCCAGTTTCACAGC
1 AGAAAAATCCAGTTCCACAGC
27648017 AGAAAAAT-CAGTGTCCACA
1 AGAAAAATCCAGT-TCCACA
27648036 ACCATAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (21 bp):
AGAAAAATCCAGTTCCACAGC
Found at i:27648695 original size:65 final size:66
Alignment explanation
Indices: 27648587--27648741 Score: 174
Period size: 65 Copynumber: 2.4 Consensus size: 66
27648577 TGCTCAGTGT
** * ** *
27648587 AGATAAACCACCAATAAC-ATATTG-AAAATGAGCTACCGGTAATATAGATGAGCCACCAGAA-A
1 AGATAAACTGCCAATAACAAT-TTGCAAAATAAGCTACCAATAATATAGACGAGCCACCA-AATA
27648649 TGC
64 TGC
* * *
27648652 AGATAAACTGCCAATAACAATTTGCAAAA-AAGCTACCAATAATATGGACGAGCCTCTAAATATG
1 AGATAAACTGCCAATAACAATTTGCAAAATAAGCTACCAATAATATAGACGAGCCACCAAATATG
27648716 C
66 C
*
27648717 AGATAAACTGCCAATTACAATTTGC
1 AGATAAACTGCCAATAACAATTTGC
27648742 GGTCAACTAC
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 2 0.03
65 69 0.90
66 6 0.08
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (66 bp):
AGATAAACTGCCAATAACAATTTGCAAAATAAGCTACCAATAATATAGACGAGCCACCAAATATG
C
Found at i:27649958 original size:25 final size:25
Alignment explanation
Indices: 27649928--27650009 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
27649918 CTGTAATTGA
*
27649928 TAAGCTCATATGAGCTGAATAACGG
1 TAAGCTCATACGAGCTGAATAACGG
* *
27649953 TAAGCTCATACGACCTGAATAACAG
1 TAAGCTCATACGAGCTGAATAACGG
* * *
27649978 TAAGCTTATACGAGTTGAATATCGG
1 TAAGCTCATACGAGCTGAATAACGG
27650003 TAAGCTC
1 TAAGCTC
27650010 TCTCGAGCTG
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAACGG
Found at i:27657228 original size:20 final size:20
Alignment explanation
Indices: 27657186--27657232 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
27657176 TTTTCTACCT
* * *
27657186 AAAAAACATGAGGGAGTACA
1 AAAAAATATGAGGAAATACA
*
27657206 AAAAAATATGAGGAAATATA
1 AAAAAATATGAGGAAATACA
27657226 AAAAAAT
1 AAAAAAT
27657233 TGTGAGAATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAAATATGAGGAAATACA
Found at i:27657269 original size:19 final size:19
Alignment explanation
Indices: 27657185--27657272 Score: 54
Period size: 19 Copynumber: 4.5 Consensus size: 19
27657175 GTTTTCTACC
* **
27657185 TAAAAAACATGAGGGAGTA
1 TAAAAAAAATGAGAAAGTA
*
27657204 CAAAAAAATATGAGGAAA-TA
1 TAAAAAAA-ATGA-GAAAGTA
* * *
27657224 TAAAAAAATTGTGAGAATGTGC
1 TAAAAAAA--ATGAGAAAGT-A
27657246 T-AAAAAAATGAGAAAGTA
1 TAAAAAAAATGAGAAAGTA
27657264 TAAAAAAAA
1 TAAAAAAAA
27657273 AAGTAAAAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
18 1 0.02
19 21 0.40
20 16 0.31
21 13 0.25
22 1 0.02
ACGTcount: A:0.60, C:0.03, G:0.18, T:0.18
Consensus pattern (19 bp):
TAAAAAAAATGAGAAAGTA
Found at i:27662690 original size:44 final size:44
Alignment explanation
Indices: 27662627--27662715 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
27662617 GCCAGAAAGT
27662627 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
27662671 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
1 AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
27662715 A
1 A
27662716 GTTTTAAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.53, C:0.20, G:0.13, T:0.13
Consensus pattern (44 bp):
AAACACATTTAAACAACAAAATTGCCACAGAAAGGCAATACGAG
Found at i:27667028 original size:37 final size:37
Alignment explanation
Indices: 27666987--27667059 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
27666977 TGGCCTGAGA
27666987 AGAAAACACCATTTTTGTTAGGTTTGAAGCTTTTGGT
1 AGAAAACACCATTTTTGTTAGGTTTGAAGCTTTTGGT
27667024 AGAAAACACCATTTTTGTTAGGTTTGAAGCTTTTGG
1 AGAAAACACCATTTTTGTTAGGTTTGAAGCTTTTGG
27667060 CTCTAATTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (37 bp):
AGAAAACACCATTTTTGTTAGGTTTGAAGCTTTTGGT
Found at i:27669195 original size:24 final size:25
Alignment explanation
Indices: 27669168--27669218 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
27669158 GGTGAGTTCG
27669168 ATTTAGTCTTTTT-TTATAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
*
27669192 ATTTAGTCTTTTTCTTGTAATTTTT
1 ATTTAGTCTTTTTCTTATAATTTTT
27669217 AT
1 AT
27669219 GTTTTTGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (25 bp):
ATTTAGTCTTTTTCTTATAATTTTT
Found at i:27677987 original size:39 final size:39
Alignment explanation
Indices: 27677947--27678084 Score: 231
Period size: 39 Copynumber: 3.5 Consensus size: 39
27677937 ATTCATTTTT
* * * *
27677947 AAGCATATATCGCATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
27677986 AAGCATGTATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
27678025 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
27678064 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
27678085 AAAACATGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 93 1.00
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:27678016 original size:17 final size:17
Alignment explanation
Indices: 27677994--27678055 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
27677984 TTAAGCATGT
27677994 ATCACAATACTCATATA
1 ATCACAATACTCATATA
*
27678011 ATCAC-ATAACATTCAAGCATA
1 ATCACAAT-AC--TC-A-TATA
27678032 TATCACAATACTCATATA
1 -ATCACAATACTCATATA
27678050 ATCACA
1 ATCACA
27678056 TAACATTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 13 0.36
18 3 0.08
19 3 0.08
20 3 0.08
21 3 0.08
22 7 0.19
23 2 0.06
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (17 bp):
ATCACAATACTCATATA
Found at i:27681269 original size:20 final size:20
Alignment explanation
Indices: 27681241--27681281 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27681231 TTACTATTTG
* *
27681241 AATCGATTCTTTTTTGTTTA
1 AATCAATTCTTTGTTGTTTA
27681261 AATCAATTCTTTGTTGTTTA
1 AATCAATTCTTTGTTGTTTA
27681281 A
1 A
27681282 CTCGATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.56
Consensus pattern (20 bp):
AATCAATTCTTTGTTGTTTA
Found at i:27684325 original size:18 final size:18
Alignment explanation
Indices: 27684302--27684338 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
27684292 ATTGAATAGT
*
27684302 CAAAATAAGTATATGTGA
1 CAAAATAAGTAAATGTGA
27684320 CAAAATAAGTAAATGTGA
1 CAAAATAAGTAAATGTGA
27684338 C
1 C
27684339 GAGTGAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.24
Consensus pattern (18 bp):
CAAAATAAGTAAATGTGA
Found at i:27685700 original size:13 final size:13
Alignment explanation
Indices: 27685682--27685709 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27685672 CCAAGATGGC
27685682 TAGTTAGAATAGT
1 TAGTTAGAATAGT
27685695 TAGTTAGAATAGT
1 TAGTTAGAATAGT
27685708 TA
1 TA
27685710 ACAGTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
TAGTTAGAATAGT
Found at i:27693991 original size:61 final size:61
Alignment explanation
Indices: 27693923--27694113 Score: 223
Period size: 61 Copynumber: 3.2 Consensus size: 61
27693913 ATTTAATAAA
27693923 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCAT
* * * * * * * *
27693984 AATATATAATACT-ATAAAA-T-ATAAT-TTAAAATAATTATTAT-TAAATATAATT-TAATAAA
1 AATATATAAT-TTAATAAAATTCTTAATATT-AAAT-ATTCTTATATGAAT-TTATTAAAATCAT
*
27694043 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCAT
27694104 AATATATAAT
1 AATATATAAT
27694114 ACTATAAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
58 3 0.03
59 32 0.31
60 23 0.22
61 42 0.41
62 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTATTAAAATCAT
Found at i:27694018 original size:120 final size:120
Alignment explanation
Indices: 27693888--27694173 Score: 563
Period size: 120 Copynumber: 2.4 Consensus size: 120
27693878 TTAATAATAT
27693888 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
27693953 AAATATTCTTATATGAATTTATTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27694008 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
27694073 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
27694128 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATT
27694174 CGCCTCACGT
Statistics
Matches: 165, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 165 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:27699956 original size:18 final size:18
Alignment explanation
Indices: 27699916--27699958 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
27699906 TTAATCCTTG
27699916 ATTTA-TTATTTTAATTT
1 ATTTATTTATTTTAATTT
*
27699933 AGTTATTTATTTTAATTGT
1 ATTTATTTATTTTAATT-T
27699952 -TTTATTT
1 ATTTATTT
27699959 GACTTGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 4 0.18
18 17 0.77
19 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (18 bp):
ATTTATTTATTTTAATTT
Found at i:27702081 original size:120 final size:119
Alignment explanation
Indices: 27701937--27702178 Score: 457
Period size: 120 Copynumber: 2.0 Consensus size: 119
27701927 AAGAAAAAGA
*
27701937 TGAAAAAAGAAAAGAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
*
27702002 AAACATAATCCTAATGTAATTAGGGGGGAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTA-GGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
27702057 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
1 TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
27702122 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
66 AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
27702176 TGA
1 TGA
27702179 TAATTTGCCC
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 34 0.28
120 86 0.72
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.19
Consensus pattern (119 bp):
TGAAAAAAGAAAACAGAGAAGAAATAGGGATAGGAGAGCAAAAATTCTAATTGGAATGGAAAAAG
AAACATAATCCTAATGTAATTAGGGGAAAAGGGACTAAATAGCTAGTGGTTGCG
Found at i:27703275 original size:27 final size:27
Alignment explanation
Indices: 27703226--27703282 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
27703216 GAATTTAGGT
*
27703226 TTAGGGTTTAAGAATTTTAAAAAATAAA
1 TTAGAGTTTAAGAATTTTAAAAAA-AAA
*
27703254 TTAGAGTTT-AGAGTTTTAAAAAAAAA
1 TTAGAGTTTAAGAATTTTAAAAAAAAA
27703280 TTA
1 TTA
27703283 ATTATATTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 6 0.22
27 13 0.48
28 8 0.30
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (27 bp):
TTAGAGTTTAAGAATTTTAAAAAAAAA
Found at i:27703292 original size:35 final size:35
Alignment explanation
Indices: 27703250--27703366 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
27703240 TTTTAAAAAA
*
27703250 TAAATTAGAGTTTAGAGTTTTAAAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTAAAAAAAAATTAAT
* * * * *
27703285 TATATTAGGTTTTAGGGGTTTAAAATAAAA--AAT
1 TAAATTAGGGTTTAGAGTTTTAAAAAAAAATTAAT
**
27703318 TAAATTAGGGTTTAGAGTTTT-TTAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTAAAAAAAAATTAAT
27703352 TAAATTAGGGTTTAG
1 TAAATTAGGGTTTAG
27703367 TTTTTTTTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
32 5 0.07
33 20 0.30
34 18 0.27
35 24 0.36
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (35 bp):
TAAATTAGGGTTTAGAGTTTTAAAAAAAAATTAAT
Found at i:27703325 original size:33 final size:32
Alignment explanation
Indices: 27703220--27703366 Score: 102
Period size: 35 Copynumber: 4.3 Consensus size: 32
27703210 TTAAATGAAT
27703220 TTAGGTTTAG-GGTTTAAGAATTTTAAAAAA-TAAA
1 TTAGGTTTAGAGGTTTAA-AA---TAAAAAATTAAA
* * *
27703254 TTAGAGTTTAGAGTTTTAAAAAAAAATTAATTATA
1 TTAG-GTTTAGAGGTTTAAAATAAAA--AATTAAA
*
27703289 TTAGGTTTTAGGGGTTTAAAATAAAAAATTAAA
1 TTAGG-TTTAGAGGTTTAAAATAAAAAATTAAA
* **
27703322 TTAGGGTTTAGAGTTTTTTAAAA-AATTAATTAAA
1 TTA-GGTTTAGAG--GTTTAAAATAAAAAATTAAA
27703356 TTAGGGTTTAG
1 TTA-GGTTTAG
27703367 TTTTTTTTAA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
32 4 0.04
33 15 0.16
34 29 0.31
35 39 0.42
36 6 0.06
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (32 bp):
TTAGGTTTAGAGGTTTAAAATAAAAAATTAAA
Found at i:27703374 original size:35 final size:35
Alignment explanation
Indices: 27703250--27703383 Score: 139
Period size: 34 Copynumber: 3.9 Consensus size: 35
27703240 TTTTAAAAAA
* ** *
27703250 TAAATTAGAGTTTAGAGTTTTAAAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTTAAAATAATTAAT
* * ** **
27703285 TATATTAGGTTTTAG-G-GGTTTAAAATAAAAAAT
1 TAAATTAGGGTTTAGAGTTTTTTAAAATAATTAAT
27703318 TAAATTAGGGTTTAGAGTTTTTTAAAA-AATTAAT
1 TAAATTAGGGTTTAGAGTTTTTTAAAATAATTAAT
**
27703352 TAAATTAGGGTTTAGTTTTTTTTAAAATAATT
1 TAAATTAGGGTTTAGAGTTTTTTAAAATAATT
27703384 TTGTGTTTAG
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
33 23 0.29
34 32 0.41
35 23 0.29
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (35 bp):
TAAATTAGGGTTTAGAGTTTTTTAAAATAATTAAT
Found at i:27703505 original size:12 final size:12
Alignment explanation
Indices: 27703488--27703514 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27703478 ACAGTTCTGA
27703488 AAAGATAATGTC
1 AAAGATAATGTC
27703500 AAAGATAATGTC
1 AAAGATAATGTC
27703512 AAA
1 AAA
27703515 ATAGTTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (12 bp):
AAAGATAATGTC
Found at i:27703630 original size:24 final size:23
Alignment explanation
Indices: 27703574--27703630 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
27703564 AAGAACTTCT
27703574 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
*
27703597 ATTTACTATT-CAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
27703622 ACTTTTATT
1 A-TTTTATT
27703631 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 9 0.31
25 13 0.45
26 3 0.10
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:27718300 original size:108 final size:109
Alignment explanation
Indices: 27718188--27718442 Score: 282
Period size: 108 Copynumber: 2.3 Consensus size: 109
27718178 TTGAACAATT
* * *
27718188 AATTGTATAATTCAATT-GATTACGTTCGTAATTAGAGAT-AAGCATAAACGAGTAATGTCATTA
1 AATTGTATAATTC-ATTCGATCACGTTCATAATTAAAG-TCAAGCATAAACGAGTAATGTCATTA
* *
27718251 CATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTATTTATC
64 CATTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * ** ** *
27718296 AATTGTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTTACGAGTAATGTCATTATA
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
** * *
27718361 TTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACC
66 TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
* * * * *
27718405 AATTGTATAATTCCTCCAATTACGTTCATAATAAAAGT
1 AATTGTATAATTCATTCGATCACGTTCATAATTAAAGT
27718443 TGCGCGTTGA
Statistics
Matches: 122, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
107 4 0.03
108 59 0.48
109 59 0.48
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (109 bp):
AATTGTATAATTCATTCGATCACGTTCATAATTAAAGTCAAGCATAAACGAGTAATGTCATTACA
TTTGTACATAGAAAGATTCAATTAGATCAATGATAGTACTTACC
Found at i:27718432 original size:109 final size:108
Alignment explanation
Indices: 27718235--27718442 Score: 290
Period size: 109 Copynumber: 1.9 Consensus size: 108
27718225 ATAAGCATAA
* *
27718235 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTATTTATCAATT
1 ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
* * * *
27718300 GTATAATTCATTCGATCAGGTTCATAATTAAAGTCATGTGTTT
66 GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
* ** * *
27718343 ACGAGTAATGTCATTATATTTGTACATAGATTGATTCAATTGGATCAATGATCGTACTTACCAAT
1 ACGAGTAATGTCATTACATTTGTACATA-AAAGATTCAATTAGATCAATGATAGTACTTACCAAT
* *
27718408 TGTATAATTCCTCCAATTACGTTCATAATAAAAGT
65 TGTATAATTCATCCAATCACGTTCATAATAAAAGT
27718443 TGCGCGTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
108 27 0.31
109 59 0.69
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (108 bp):
ACGAGTAATGTCATTACATTTGTACATAAAAGATTCAATTAGATCAATGATAGTACTTACCAATT
GTATAATTCATCCAATCACGTTCATAATAAAAGTCATGTGTTT
Found at i:27720373 original size:51 final size:51
Alignment explanation
Indices: 27720316--27720652 Score: 435
Period size: 51 Copynumber: 6.6 Consensus size: 51
27720306 CATATAATAT
* * * *
27720316 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * *
27720367 TATACATAATCAGTACGTACACACTTTGCATAGACAGTTCACACATAGAAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
*
27720418 TTTACATAATCAGTACGCACACACTTTGCATAGATAGTTCACACATA-AAA
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * *
27720468 CTTTACATAATCAGTTCGCACACACTTTGCATGGATAGTTCACACATA-AAA
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * * * *
27720519 CTTTACAAAATCATTATGCACACACTTTGCATGGACAATTCACACATAGAAC
1 -TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* * * *
27720571 TTTACATAATCAGTATGCACATACTTTGCATAGACAGTTCACACATAGGAC
1 TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
* *
27720622 TTTACATAATCAATATGCACACACTTTGCAT
1 TTTACATAATCAGTACGCACACACTTTGCAT
27720653 TGATAGTTAT
Statistics
Matches: 256, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
50 2 0.01
51 252 0.98
52 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (51 bp):
TTTACATAATCAGTACGCACACACTTTGCATAGACAGTTCACACATAGAAA
Found at i:27720561 original size:153 final size:153
Alignment explanation
Indices: 27720316--27720660 Score: 487
Period size: 153 Copynumber: 2.3 Consensus size: 153
27720306 CATATAATAT
* * * * *
27720316 TTTACATAACCAATAAGCACATACTTTGCATAGACAGTTCACACATAGAAATATACATAATCAGT
1 TTTACATAATCAATATGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
* *
27720381 ACGTACACACTTTGCATAGACAGTTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
66 ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
*
27720446 CATAGATAGTTCACACATAAAAC
131 CATAGACAGTTCACACATAAAAC
* * *
27720469 TTTACATAATCAGT-TCGCACACACTTTGCATGGATAGTTCACACATA-AAACTTTACAAAATCA
1 TTTACATAATCAATAT-GCACACACTTTGCATAGATAGTTCACACATAGAAA-TATACAAAATCA
* * * * *
27720532 TTATGCACACACTTTGCATGGACAATTCACACATAGAACTTTACATAATCAGTATGCACATACTT
64 GTACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTT
**
27720597 TGCATAGACAGTTCACACATAGGAC
129 TGCATAGACAGTTCACACATAAAAC
*
27720622 TTTACATAATCAATATGCACACACTTTGCATTGATAGTT
1 TTTACATAATCAATATGCACACACTTTGCATAGATAGTT
27720661 ATGTTGGATC
Statistics
Matches: 169, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
152 3 0.02
153 165 0.98
154 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (153 bp):
TTTACATAATCAATATGCACACACTTTGCATAGATAGTTCACACATAGAAATATACAAAATCAGT
ACGCACACACTTTGCATAGACAATTCACACATAGAACTTTACATAATCAGTACGCACACACTTTG
CATAGACAGTTCACACATAAAAC
Done.