Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 699 of 770
Found at i:220548889 original size:14 final size:14
Alignment explanation
Indices: 220548858--220548888 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
220548848 CGCTGAGGTA
220548858 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
220548872 TTTTCAATTTCT-G
1 TTTTCAATTTCTGG
220548885 TTTT
1 TTTT
220548889 TAAAATCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:220548990 original size:73 final size:73
Alignment explanation
Indices: 220548873--220549110 Score: 367
Period size: 73 Copynumber: 3.3 Consensus size: 73
220548863 AATTTCTGGT
*
220548873 TTTCAATTTCTGTTT-T-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
220548936 TGAGGTAA
66 TGAGGTAA
*
220548944 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
220549009 TGAGGTAA
66 TGAGGTAA
220549017 TTTCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* **
220549080 TGCTGAGGTCT
63 CGCTGAGGTAA
*
220549091 TTTCAATTTCTGTTTTTCAA
1 TTTCAATTTCTGTTTGTCAA
220549111 TTTCTGTTCG
Statistics
Matches: 154, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
71 16 0.10
72 47 0.31
73 62 0.40
74 20 0.13
75 9 0.06
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAA
Found at i:220549109 original size:14 final size:14
Alignment explanation
Indices: 220549090--220549118 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
220549080 TGCTGAGGTC
220549090 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
220549104 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
220549118 T
1 T
220549119 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:220549149 original size:166 final size:166
Alignment explanation
Indices: 220548962--220549276 Score: 508
Period size: 166 Copynumber: 1.9 Consensus size: 166
220548952 TCTGTTTGTC
*
220548962 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* * *
220549026 -TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTC
66 CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
* *
220549090 TTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAA
129 ATTTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
* *
220549128 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
* *
220549193 CTGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
220549258 TTCAATTTCTGTTTGTCAA
131 TTCAATTTCTGTTTGTCAA
220549277 AAATTAACTC
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
166 83 0.61
167 8 0.06
168 46 0.34
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (166 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATATTTAAATTT
CTGTTTGTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAATTTCTGTTCGTAAAAAA
Found at i:220549301 original size:73 final size:73
Alignment explanation
Indices: 220549128--220549612 Score: 675
Period size: 73 Copynumber: 6.5 Consensus size: 73
220549118 TCGTAAAAAA
* * *
220549128 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
*
220549193 CTGTTTTTC
65 CTGTTTGTC
*
220549202 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
220549267 TGTTTGTC
66 TGTTTGTC
* * **
220549275 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCG-CATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---GACACGCTGAGGTAATTTCAAT
* * *
220549339 TTTTGTTCGTAAAA
63 TTCTGTTTGT---C
* * *
220549353 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
* * *
220549418 CTATTTTTA
65 CTGTTTGTC
*
220549427 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
220549492 TGTTTGTC
66 TGTTTGTC
* * *
220549500 AAAAATTAACTCATATTGCGAAAGGTGAGTTGAGTCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
220549565 TGTTTGTC
66 TGTTTGTC
* *
220549573 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
220549613 CTCACATGCT
Statistics
Matches: 371, Mismatches: 32, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
73 178 0.48
74 105 0.28
75 26 0.07
76 11 0.03
77 13 0.04
78 38 0.10
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:220549497 original size:225 final size:225
Alignment explanation
Indices: 220548890--220549648 Score: 1054
Period size: 225 Copynumber: 3.3 Consensus size: 225
220548880 TTCTGTTTTT
* *
220548890 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* * **
220548954 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
* *
220549019 TCAATTT-TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGC
220549083 TGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCGTAAAAAAA
196 TGAGGTCTTTTCAA----------T---TTT-TGTTCGT--AAAAA
220549129 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
220549194 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
220549259 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGC
220549324 TGAGGTCTTTTCAATTTTTGTTCGTAAAAA
196 TGAGGTCTTTTCAATTTTTGTTCGTAAAAA
220549354 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
220549419 TATTTTTAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
* * *
220549484 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAAAGGTGAGTTGAGTCTCGG---GACACG
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCG-CATG
** * * *
220549546 CTGAGGTAATTTCAATTTCTGTTTGT---CA
195 CTGAGGTCTTTTCAATTTTTGTTCGTAAAAA
* * * *
220549574 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTC-GGCTCACATGCTGAGGTCTTTTT-AAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTTAAAT
*
220549637 TT-TGCTTTTCAA
63 TTCTGTTTTTCAA
220549649 TTTCTGTTTT
Statistics
Matches: 489, Mismatches: 25, Indels: 31
0.90 0.05 0.06
Matches are distributed among these distances:
219 2 0.00
220 43 0.09
221 5 0.01
222 17 0.03
223 25 0.05
225 187 0.38
227 7 0.01
228 3 0.01
231 1 0.00
239 53 0.11
240 77 0.16
241 69 0.14
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (225 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCATGC
TGAGGTCTTTTCAATTTTTGTTCGTAAAAA
Found at i:220549650 original size:13 final size:15
Alignment explanation
Indices: 220549626--220549666 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
220549616 ACATGCTGAG
*
220549626 GTCTTTTTAATTT-T
1 GTCTTTTCAATTTCT
220549640 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
220549654 GTTTTTTCAATTT
1 GTCTTTTCAATTT
220549667 ATATTTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 10 0.43
14 3 0.13
15 10 0.43
ACGTcount: A:0.15, C:0.12, G:0.07, T:0.66
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:220550459 original size:30 final size:30
Alignment explanation
Indices: 220550423--220550523 Score: 193
Period size: 30 Copynumber: 3.4 Consensus size: 30
220550413 ACTTTTCTCA
220550423 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
220550453 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
220550483 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
220550513 ACTAGCCACAC
1 ACTAGCCACAC
220550524 TTGCTCCATT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.29, C:0.49, G:0.04, T:0.19
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:220550471 original size:18 final size:18
Alignment explanation
Indices: 220550423--220550502 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 18
220550413 ACTTTTCTCA
220550423 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
*
220550441 ACCA-CCA-A-C---TCC
1 ACTAGCCACACCTTTTCC
220550453 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
*
220550471 ACCA-CCA-A-C---TCC
1 ACTAGCCACACCTTTTCC
220550483 ACTAGCCACACCTTTTCC
1 ACTAGCCACACCTTTTCC
220550501 AC
1 AC
220550503 CACCAAATCC
Statistics
Matches: 46, Mismatches: 4, Indels: 24
0.62 0.05 0.32
Matches are distributed among these distances:
12 12 0.26
13 6 0.13
14 2 0.04
15 4 0.09
16 2 0.04
17 6 0.13
18 14 0.30
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (18 bp):
ACTAGCCACACCTTTTCC
Found at i:220550544 original size:30 final size:30
Alignment explanation
Indices: 220550423--220550567 Score: 177
Period size: 30 Copynumber: 4.8 Consensus size: 30
220550413 ACTTTTCTCA
*
220550423 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
220550453 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
220550483 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
220550513 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
* *
220550543 ACTAACCACA-CTTGCTCTACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
220550568 CTTGTACCTA
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 3 0.03
30 100 0.97
ACGTcount: A:0.28, C:0.47, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:220551183 original size:58 final size:58
Alignment explanation
Indices: 220551075--220551231 Score: 148
Period size: 58 Copynumber: 2.7 Consensus size: 58
220551065 TTCTTAATAT
*
220551075 TATATTATATATATTCTTT-TAATATATTAGGTATAT-T-TTAAATTCTATATTACGTA
1 TATATTATATATATT-TTTATAATATATTATGTATATATCTTAAATTCTATATTACGTA
* * **
220551131 TATATTATATATATTTTTATACTATTTTATGTATATATCATT-AATAT-TATATTATTTA
1 TATATTATATATATTTTTATAATATATTATGTATATATC-TTAAAT-TCTATATTACGTA
** *
220551189 TATA-TATATAT-TTTTTACATGTTATCTTATGTATATATCTTAA
1 TATATTATATATATTTTT--ATAATATATTATGTATATATCTTAA
220551232 CTATATTATG
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
55 3 0.04
56 34 0.40
57 10 0.12
58 35 0.41
59 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (58 bp):
TATATTATATATATTTTTATAATATATTATGTATATATCTTAAATTCTATATTACGTA
Found at i:220551240 original size:27 final size:27
Alignment explanation
Indices: 220551148--220551248 Score: 71
Period size: 27 Copynumber: 3.6 Consensus size: 27
220551138 TATATATTTT
* *
220551148 TATACTATTTTATGTATATATCATTAATAT
1 TATATTATTTTATGTATATATC-TT-A-AC
* * *
220551178 TATATTATTTATATATATATATTTTTTAC
1 TATATTATTT-TATGTATATA-TCTTAAC
* *
220551207 -ATGTTATCTTATGTATATATCTTAAC
1 TATATTATTTTATGTATATATCTTAAC
*
220551233 TATATTA-TGTATGTAT
1 TATATTATTTTATGTAT
220551249 TTTTAACACT
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
26 12 0.22
27 14 0.25
28 7 0.13
29 1 0.02
30 9 0.16
31 11 0.20
32 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (27 bp):
TATATTATTTTATGTATATATCTTAAC
Found at i:220551241 original size:22 final size:24
Alignment explanation
Indices: 220551215--220551273 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
220551205 ACATGTTATC
220551215 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
220551237 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
220551262 TTATGTACATAT
1 TTATGTATATAT
220551274 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:220551263 original size:25 final size:25
Alignment explanation
Indices: 220551231--220551279 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
220551221 ATATATCTTA
**
220551231 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
220551256 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
220551280 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:220551463 original size:24 final size:24
Alignment explanation
Indices: 220551427--220551490 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
220551417 ATATTAATTA
*
220551427 TTAT-TATTCTAATATTTTGATATT
1 TTATATATTTTAATATTTT-ATATT
220551451 TTA-ATATTTTAATATTTTATATT
1 TTATATATTTTAATATTTTATATT
*
220551474 TTATATATTTTATTATT
1 TTATATATTTTAATATT
220551491 CACATCATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TTATATATTTTAATATTTTATATT
Found at i:220551474 original size:7 final size:8
Alignment explanation
Indices: 220551431--220551490 Score: 77
Period size: 8 Copynumber: 7.5 Consensus size: 8
220551421 TAATTATTAT
*
220551431 TATTCTAA
1 TATTTTAA
*
220551439 TATTTTGA
1 TATTTTAA
220551447 TATTTTAA
1 TATTTTAA
220551455 TATTTTAA
1 TATTTTAA
220551463 TATTTT-A
1 TATTTTAA
220551470 TATTTTATA
1 TATTTTA-A
*
220551479 TATTTTAT
1 TATTTTAA
220551487 TATT
1 TATT
220551491 CACATCATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 31 0.67
9 8 0.17
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:220553715 original size:28 final size:29
Alignment explanation
Indices: 220553659--220553737 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
220553649 TGACGAGATC
* *
220553659 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGAGCTGGAAAAATAT
220553688 GGCACTAAGTGTGC-AGCTGGAAAAATAT
1 GGCACTAAGTGTGCGAGCTGGAAAAATAT
*
220553716 GGCAC--GGTGTGCGAGCTCGGAA
1 GGCACTAAGTGTGCGAGCT-GGAA
220553738 GGGCATGGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 6 0.13
27 4 0.09
28 21 0.47
29 14 0.31
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGCTGGAAAAATAT
Found at i:220561481 original size:29 final size:29
Alignment explanation
Indices: 220561447--220561524 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
220561437 GTGACGAGAT
* *
220561447 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
220561476 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
220561505 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
220561525 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:220569177 original size:29 final size:28
Alignment explanation
Indices: 220569075--220569178 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
220569065 GTGACAAGAT
*
220569075 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
220569104 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
220569133 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
220569162 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
220569179 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:220573809 original size:30 final size:30
Alignment explanation
Indices: 220573773--220573829 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
220573763 GGCAAGACGT
220573773 TGGCTTGAGTTGTTGAAAGACTATGAATCA
1 TGGCTTGAGTTGTTGAAAGACTATGAATCA
220573803 TGGCTTGAGTTGTTGAAAGACTATGAA
1 TGGCTTGAGTTGTTGAAAGACTATGAA
220573830 CTTCATTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (30 bp):
TGGCTTGAGTTGTTGAAAGACTATGAATCA
Found at i:220577192 original size:29 final size:28
Alignment explanation
Indices: 220577090--220577193 Score: 136
Period size: 29 Copynumber: 3.6 Consensus size: 28
220577080 GTGACAAGAT
*
220577090 TGGCACTAAGTGTGCAAGCTTGAAATATA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
220577119 TGGCACTAAGTGTGCGAACTTAAATTGTA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
220577148 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
220577177 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
220577194 AATCGATTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
28 4 0.06
29 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:220584863 original size:40 final size:40
Alignment explanation
Indices: 220584803--220584986 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
220584793 TATTCGAATG
*
220584803 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
220584843 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
220584883 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
220584923 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
220584963 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
220584987 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:220584936 original size:80 final size:80
Alignment explanation
Indices: 220584803--220584986 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
220584793 TATTCGAATG
* * *
220584803 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
220584867 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
220584883 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
220584948 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
220584963 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
220584987 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:220588038 original size:38 final size:38
Alignment explanation
Indices: 220587987--220588062 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
220587977 TATCAGTGCA
*
220587987 GTATAAAGTACATTATAAATGTAGAACGTACCTGTGAT
1 GTATAAAGTACATTATAAATGAAGAACGTACCTGTGAT
* *
220588025 GTATAAGGTACATTATAAATGAAGAACGTATCTGTGAT
1 GTATAAAGTACATTATAAATGAAGAACGTACCTGTGAT
220588063 AACATCTGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (38 bp):
GTATAAAGTACATTATAAATGAAGAACGTACCTGTGAT
Found at i:220592551 original size:39 final size:40
Alignment explanation
Indices: 220592465--220592640 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
220592455 TGGATGATAA
220592465 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
220592505 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
220592544 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
220592584 CTGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
220592624 CC-GGTTAA-TCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
220592641 TACTTGGCTT
Statistics
Matches: 126, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 9 0.07
39 45 0.36
40 72 0.57
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:220592597 original size:79 final size:80
Alignment explanation
Indices: 220592465--220592640 Score: 277
Period size: 79 Copynumber: 2.2 Consensus size: 80
220592455 TGGATGATAA
*
220592465 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
*
220592530 TGCGAGTA-CTATAT
66 AGCGAGTAGCTATAT
* * *
220592544 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTATGTCCCGAAGGTATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
220592609 AGCGAGTAGCTATAT
66 AGCGAGTAGCTATAT
*
220592624 CC-GGTTAA-TCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
220592641 TACTTGGCTT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
78 9 0.10
79 73 0.81
80 8 0.09
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
AGCGAGTAGCTATAT
Found at i:220596958 original size:40 final size:39
Alignment explanation
Indices: 220596913--220597042 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
220596903 CGGAATATAA
220596913 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
220596953 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
220596993 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
220597033 CCGGATATAA
1 CCGGATATAA
220597043 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:220597057 original size:40 final size:40
Alignment explanation
Indices: 220596929--220597079 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
220596919 ATAACCATGT
* * *
220596929 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
220596969 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
220597009 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
220597049 GCATAATTGTCTTCGGG-ATTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
220597080 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:220597063 original size:80 final size:79
Alignment explanation
Indices: 220596929--220597077 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
220596919 ATAACCATGT
* *
220596929 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
220596994 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
220597009 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
220597072 CCGGAT
64 CCGGAT
220597078 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:220607163 original size:29 final size:29
Alignment explanation
Indices: 220607131--220607203 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
220607121 CTTCGAGCTC
* *
220607131 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
220607160 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
220607189 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
220607204 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:220608417 original size:24 final size:24
Alignment explanation
Indices: 220608376--220608431 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
220608366 TTTTTTTCCT
220608376 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* *
220608401 TTTCTTT-TTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
220608424 TATTCTTT
1 T-TTCTTT
220608432 CTACATAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 16 0.57
25 7 0.25
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:220615062 original size:29 final size:29
Alignment explanation
Indices: 220615030--220615102 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
220615020 CTTCGAGCTC
* *
220615030 GCACACCCAGTG-TAGTATTTTTCCAGCAT
1 GCACACCCAGTGCCA-TATATTTCCAGCAT
**
220615059 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
220615088 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
220615103 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 38 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:220617833 original size:27 final size:27
Alignment explanation
Indices: 220617813--220618261 Score: 548
Period size: 27 Copynumber: 16.6 Consensus size: 27
220617803 AGGGTATTTT
*
220617813 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
220617840 AGTAATTTTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
220617867 AGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
220617893 TGATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
220617921 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
220617948 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
220617975 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
220618002 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
220618029 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
220618056 GGTAATTCTGTAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * **
220618083 GGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
220618110 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
220618137 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
220618164 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* * *
220618191 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
220618218 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
220618245 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
220618262 GGAGTACTTT
Statistics
Matches: 371, Mismatches: 41, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.01
27 361 0.97
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:220625798 original size:11 final size:10
Alignment explanation
Indices: 220625766--220625819 Score: 58
Period size: 11 Copynumber: 5.4 Consensus size: 10
220625756 CATGAGATTT
220625766 TGATAT-ACA
1 TGATATGACA
*
220625775 TGATTTGACA
1 TGATATGACA
220625785 TGATATGCACA
1 TGATATG-ACA
*
220625796 TGATATG-TA
1 TGATATGACA
220625805 TGATATGCACA
1 TGATATG-ACA
220625816 TGAT
1 TGAT
220625820 GTATTCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 13 0.35
10 9 0.24
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (10 bp):
TGATATGACA
Found at i:220625894 original size:25 final size:25
Alignment explanation
Indices: 220625866--220625960 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
220625856 GAGGAAGTGC
*
220625866 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTACCA
*
220625891 AAAAGGGCTATGCCCCAGTTTACCT
1 AAAAGGGCTATGCCCCAGTTTACCA
* * *
220625916 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCA
*
220625941 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTATGCCCCAGTT
220625961 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCA
Found at i:220625945 original size:50 final size:50
Alignment explanation
Indices: 220625866--220625985 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
220625856 GAGGAAGTGC
*
220625866 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTATGCCCCAGTTTACCT
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTATGCCCCAGTTTACCT
* * * * *
220625916 AAAAGGGCTTTGCCCTAGTTTATCAAAAAGGGCTTTGCCCCAG-TTA-TT
1 AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTATGCCCCAGTTTACCT
*
220625964 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
220625986 ATATGATAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
48 6 0.10
49 10 0.17
50 43 0.73
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCAAAAAGGGCTATGCCCCAGTTTACCT
Found at i:220625973 original size:24 final size:24
Alignment explanation
Indices: 220625866--220625985 Score: 116
Period size: 25 Copynumber: 4.8 Consensus size: 24
220625856 GAGGAAGTGC
**
220625866 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTA-TT
*
220625891 AAAAGGGCTATGCCCCAGTTTACCT
1 AAAAGGGCTATGCCCCAGTTTA-TT
* * *
220625916 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTAT-T
*
220625941 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTATGCCCCAGTTTATT
*
220625964 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTATGCC-CCAGTT
220625986 ATATGATAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
23 5 0.06
24 11 0.13
25 65 0.79
26 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTATGCCCCAGTTTATT
Found at i:220629393 original size:40 final size:40
Alignment explanation
Indices: 220629338--220629507 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
220629328 AACATTGGAA
220629338 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
220629378 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * *
220629418 ATATATCCAGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
220629457 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
220629498 CTATATCCGG
1 ATATATCCGG
220629508 TTAAATCCCG
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 2 0.02
40 107 0.98
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:220633208 original size:80 final size:80
Alignment explanation
Indices: 220633075--220633242 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
220633065 TGAATGATAC
* ** *
220633075 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
220633139 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
220633155 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
220633219 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
220633235 CC-GGCTAA
1 CCGGGCTAA
220633243 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.11
80 65 0.86
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:220633237 original size:40 final size:40
Alignment explanation
Indices: 220633075--220633242 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
220633065 TGAATGATAC
* * * *
220633075 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
220633115 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
220633155 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
220633195 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
220633235 CC-GGCTAA
1 CCGGGCTAA
220633243 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 8 0.08
40 91 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:220641292 original size:80 final size:80
Alignment explanation
Indices: 220641159--220641326 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
220641149 TGAATGATAC
* ** *
220641159 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
220641223 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
220641239 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
220641303 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
220641319 CC-GGCTAA
1 CCGGGCTAA
220641327 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.11
80 65 0.86
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:220641321 original size:40 final size:40
Alignment explanation
Indices: 220641159--220641326 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
220641149 TGAATGATAC
* * * *
220641159 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
220641199 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
220641239 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
220641279 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
220641319 CC-GGCTAA
1 CCGGGCTAA
220641327 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 8 0.08
40 91 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:220649272 original size:40 final size:39
Alignment explanation
Indices: 220649218--220649419 Score: 246
Period size: 40 Copynumber: 5.1 Consensus size: 39
220649208 TGAATGATAC
* * *
220649218 CCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
* *
220649257 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTAAAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
220649297 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-TGTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGT-TATAT
* * *
220649336 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* **
220649376 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGT-GTTATAT
220649416 CCGG
1 CCGG
220649420 CTAAATTCCG
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
39 45 0.32
40 94 0.67
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:220649432 original size:79 final size:80
Alignment explanation
Indices: 220649214--220649423 Score: 309
Period size: 79 Copynumber: 2.7 Consensus size: 80
220649204 CAATTGAATG
* * * *
220649214 ATACCCGGGCTAAG-CCCGAAGGCATTTATGCTAGTGATTATATCCGGGTTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
220649278 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * *
220649293 AAATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
220649357 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
220649372 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAA
220649424 ATTCCGAAGA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 89 0.77
80 26 0.23
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:220663564 original size:28 final size:28
Alignment explanation
Indices: 220663425--220663555 Score: 122
Period size: 28 Copynumber: 4.6 Consensus size: 28
220663415 GTTAGATGAA
* * *
220663425 AAATCACATAGGTGAAATTCATAGAAACG
1 AAATCACATAGG-CAGATTCATAGATACG
** *
220663454 TGATCACATAGGCAGATTCATAGATACA
1 AAATCACATAGGCAGATTCATAGATACG
220663482 AAATCACATAGGCAGATTCATAGATACG
1 AAATCACATAGGCAGATTCATAGATACG
** *
220663510 AAATCTTATAAGCTA-ATTCATATG-TACG
1 AAATCACATAGGC-AGATTCATA-GATACG
* *
220663538 AAATCATATATGCAGATT
1 AAATCACATAGGCAGATT
220663556 TATATGTACA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.01
28 72 0.85
29 12 0.14
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (28 bp):
AAATCACATAGGCAGATTCATAGATACG
Found at i:220666023 original size:29 final size:29
Alignment explanation
Indices: 220665991--220666125 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
220665981 ATACCCTCCG
** * *
220665991 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
220666020 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
220666049 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
220666078 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
220666107 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
220666126 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:220666058 original size:58 final size:58
Alignment explanation
Indices: 220665937--220666126 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
220665927 TACTCGATTT
* * * *** *
220665937 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
220665995 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
220666053 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
220666111 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
220666127 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:220674112 original size:29 final size:29
Alignment explanation
Indices: 220674080--220674214 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
220674070 ATACCCTCCG
** * *
220674080 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
220674109 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
220674138 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
220674167 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
220674196 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
220674215 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:220674147 original size:58 final size:58
Alignment explanation
Indices: 220674026--220674215 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
220674016 TACTCGATTT
* * * *** *
220674026 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
220674084 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
220674142 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
220674200 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
220674216 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:220675998 original size:29 final size:29
Alignment explanation
Indices: 220675963--220676094 Score: 153
Period size: 29 Copynumber: 4.6 Consensus size: 29
220675953 CTACTCGATT
*
220675963 TCGCACACTTAGTGCCACGTA-ATTT-AAGC
1 TCGCACACTTAGTGCCA--TATATTTCCAGC
** *
220675992 TCGCACACACAGTGCCATATTTTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
* *
220676021 TTGCACACTTAGTGCCAAATA-TTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
220676049 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
220676078 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
220676095 ATCTCGACAC
Statistics
Matches: 88, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.02
28 28 0.32
29 58 0.66
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATATTTCCAGC
Found at i:220676054 original size:57 final size:58
Alignment explanation
Indices: 220675964--220676095 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 58
220675954 TACTCGATTT
** * * * *
220675964 CGCACACTTAGTGCCACGTAATTTAAGCTCGCACACACAGTGCCATATTTTTCCAGCT
1 CGCACACTTAGTGCCAAATAATTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
* * **
220676022 TGCACACTTAGTGCCAAAT-ATTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCAAATAATTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
220676079 CGCACACTTAGTGCCAA
1 CGCACACTTAGTGCCAA
220676096 TCTCGACACC
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
57 47 0.75
58 16 0.25
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCAAATAATTCAAGCACGCACACACAGTGCCATATATTTCCAGCA
Found at i:220681718 original size:43 final size:43
Alignment explanation
Indices: 220681642--220681767 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 43
220681632 CTCGTACAAC
* * * ***
220681642 GCCAACGTCCCAGACGTGGTCTTGCATGTAATCAAATATCGAT
1 GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGAT
* * *
220681685 GCC-ACTGTCCCAGATAG-GGTCTTATACGAAATC-AA-ATCAAT
1 GCCAACT-TCCCAGAT-GTGGTCTTACACAAAATCAAATATCGAT
*
220681726 GCCAACTTCCCAGATGTGGTCTTACACAAAATCACATATCGA
1 GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGA
220681768 AATCCTATGT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
40 1 0.02
41 30 0.45
42 8 0.12
43 26 0.39
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGAT
Found at i:220684920 original size:30 final size:29
Alignment explanation
Indices: 220684864--220684921 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
220684854 TACAATTTTG
* *
220684864 TTTTATTTTATTTTAATTTGGCCCTAATA
1 TTTTATTTTATTTCAATTTAGCCCTAATA
* *
220684893 TTTTATATTTGTTTCAATTTAGTCCTAAT
1 TTTTAT-TTTATTTCAATTTAGCCCTAAT
220684922 GGCTATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTTATTTTATTTCAATTTAGCCCTAATA
Found at i:220685222 original size:17 final size:16
Alignment explanation
Indices: 220685197--220685254 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
220685187 ATACGTTTCT
*
220685197 TATAGATTTTTGTTATA
1 TATATATTTTT-TTATA
220685214 TATATATTTTACTTTATA
1 TATATATTTT--TTTATA
220685232 TAT-TATTTATTTTACTA
1 TATATATTT-TTTTA-TA
220685249 TATATA
1 TATATA
220685255 AAATTATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.11
17 19 0.54
18 11 0.31
19 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (16 bp):
TATATATTTTTTTATA
Found at i:220685231 original size:16 final size:17
Alignment explanation
Indices: 220685209--220685254 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
220685199 TAGATTTTTG
220685209 TTATATATATATTTTACT
1 TTATATATATA-TTTACT
*
220685227 TTATATAT-TATTTATT
1 TTATATATATATTTACT
220685243 TTACTATATATA
1 TTA-TATATATA
220685255 AAATTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 10 0.40
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATATATATTTACT
Found at i:220685244 original size:21 final size:20
Alignment explanation
Indices: 220685210--220685254 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
220685200 AGATTTTTGT
*
220685210 TATATATATATTTTACTTTA
1 TATATATATATTTTACTATA
*
220685230 TATATTATTTATTTTACTATA
1 TATA-TATATATTTTACTATA
220685251 TATA
1 TATA
220685255 AAATTATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATATATATTTTACTATA
Found at i:220685358 original size:18 final size:18
Alignment explanation
Indices: 220685335--220685394 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
220685325 TTCCAATATG
220685335 TTTTATTCAT-TATATTAT
1 TTTTATT-ATATATATTAT
220685353 TTTTATTATATATATTAT
1 TTTTATTATATATATTAT
* *
220685371 ATTGTATTATTTAT-TTAT
1 -TTTTATTATATATATTAT
*
220685389 TATTAT
1 TTTTAT
220685395 GTACATTTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 11 0.31
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATATATATTAT
Found at i:220685362 original size:14 final size:14
Alignment explanation
Indices: 220685343--220685394 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
220685333 TGTTTTATTC
*
220685343 ATTATATTATTTTT
1 ATTATATTATTTAT
220685357 ATTATA-TATATTAT
1 ATTATATTAT-TTAT
*
220685371 ATTGTATTATTTAT
1 ATTATATTATTTAT
220685385 -TTATTATTAT
1 ATTA-TATTAT
220685395 GTACATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 5 0.16
14 24 0.75
15 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
ATTATATTATTTAT
Found at i:220697778 original size:220 final size:220
Alignment explanation
Indices: 220697407--220697830 Score: 616
Period size: 220 Copynumber: 1.9 Consensus size: 220
220697397 AGATCTGACC
* * *
220697407 TTCAGGTGTTTACGCTGAAGCAGATCCAAAATGATTTGGCATCTTTGTATTACTAGAGAACAAAT
1 TTCACGTGTTTACACTGAAGCAGATCCAAAATGATTTGGCATCTCTGTATTACTAGAGAACAAAT
* * *
220697472 AGAAGAAACAAATTTGGCATCTCCGTATTTGACAGAGAGTAGATCGGAGACATAGCAGATCTAAC
66 AGAAGAAACAAATTTGGCATCTCCATATTTGACAGAGAGCAGATCGAAGACATAGCAGATCTAAC
* * *
220697537 CTTCAGATGTTTTCACATCGAAATAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGCA
131 CTTCAAATATTTTCACATCGAAACAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGCA
**
220697602 GGTCGAAGACAAAGCAGATTTGGCT
196 AATCGAAGACAAAGCAGATTTGGCT
* ** * * *
220697627 TTCACGTGTTTACACTGAAGCAGATCTAAGTTGATTTGGCATCTCTGTATT-GTCAGAGAGCAAC
1 TTCACGTGTTTACACTGAAGCAGATCCAAAATGATTTGGCATCTCTGTATTACT-AGAGAACAAA
* * * *
220697691 TCGAAGAAACAGATTTGGCATCTCCATATTTGACGGAGAGCAGATTGAAGACATAGCAGATCTAA
65 TAGAAGAAACAAATTTGGCATCTCCATATTTGACAGAGAGCAGATCGAAGACATAGCAGATCTAA
** *
220697756 CCTTCAAATATTTTTGCATCGAAGCAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGC
130 CCTTCAAATATTTTCACATCGAAACAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGC
220697821 AAATCGAAGA
195 AAATCGAAGA
220697831 TAGCAGACTT
Statistics
Matches: 179, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
219 1 0.01
220 178 0.99
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (220 bp):
TTCACGTGTTTACACTGAAGCAGATCCAAAATGATTTGGCATCTCTGTATTACTAGAGAACAAAT
AGAAGAAACAAATTTGGCATCTCCATATTTGACAGAGAGCAGATCGAAGACATAGCAGATCTAAC
CTTCAAATATTTTCACATCGAAACAGATCCAAGATGATTTGGCATCCTTGCATTTACAAGGAGCA
AATCGAAGACAAAGCAGATTTGGCT
Found at i:220697865 original size:44 final size:44
Alignment explanation
Indices: 220697817--220698198 Score: 575
Period size: 44 Copynumber: 8.7 Consensus size: 44
220697807 CATTTACAAG
* *
220697817 GAGCAAATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
220697861 GAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGG
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
*
220697905 GAGCAGATCGAAGATAGCAGATTTGGCGTCGCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* *
220697949 GAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGTCAGAA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAG-A
* * *
220697994 GAGTAGATTGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * * *
220698038 GAGCAAATCAAAGATAGCAGATTTGACATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
220698082 GAACAGATCGAAGATAGCAGATTTAGTGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
220698126 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
* * *
220698170 GAGCAGATAGAAGATAACAGATCTGGCGT
1 GAGCAGATCGAAGATAGCAGATTTGGCGT
220698199 TCCTGAGTTT
Statistics
Matches: 302, Mismatches: 35, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
44 263 0.87
45 39 0.13
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
Found at i:220698009 original size:177 final size:175
Alignment explanation
Indices: 220697817--220698198 Score: 566
Period size: 177 Copynumber: 2.2 Consensus size: 175
220697807 CATTTACAAG
* * * *
220697817 GAGCAAATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGA
1 GAGCAGATAGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAAGATAACAGA
* * * * *
220697882 TTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCAGATTTGGCGTCGCTGTATTGTCA
65 TTTGACATCTCTGTATTGTCAGAGAACAGATCGAAGATAGCAGATTTAGCGTCGCTGTATTGTCA
220697947 GAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGTCAGAA
130 GAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGTCAG-A
* * * *
220697994 GAGTAGATTGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAAGATAGCAGA
1 GAGCAGATAGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAAGATAACAGA
* *
220698059 TTTGACATCTCTGTATTGTCAGAGAACAGATCGAAGATAGCAGATTTAGTGTCTCTGTATTGTCA
65 TTTGACATCTCTGTATTGTCAGAGAACAGATCGAAGATAGCAGATTTAGCGTCGCTGTATTGTCA
* *
220698124 GAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
130 GAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGTCAGA
*
220698170 GAGCAGATAGAAGATAACAGATCTGGCGT
1 GAGCAGATAGAAGATAGCAGAT-TGGCGT
220698199 TCCTGAGTTT
Statistics
Matches: 183, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
175 1 0.01
176 24 0.13
177 158 0.86
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (175 bp):
GAGCAGATAGAAGATAGCAGATTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAAGATAACAGAT
TTGACATCTCTGTATTGTCAGAGAACAGATCGAAGATAGCAGATTTAGCGTCGCTGTATTGTCAG
AGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTATTGTCAGA
Found at i:220698020 original size:221 final size:221
Alignment explanation
Indices: 220697792--220698196 Score: 636
Period size: 221 Copynumber: 1.8 Consensus size: 221
220697782 GATCCAAGAT
* * *
220697792 GATTTGGCATC-CTTGCATT-TACA-AGGAGCAAATCGAAGATAGCAGACTTGGCGTCTCTGTAT
1 GATTTGGCATCTC-TGCATTGT-CAGA-GAGCAAATCAAAGATAGCAGACTTGACATCTCTGTAT
* * *
220697854 TGTCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGA
63 TGTCAGAGAACAGATCGAAGATAACAGATTTAGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGA
* *
220697919 TAGCAGATTTGGCGTCGCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGT
128 TAGCAGATTTGGCGTCGCTGTATTGTCAGAGAGCAGATAGAAGATAACAGATCTGGCATCTCTGT
220697984 ATTGTCAGAAGAGTAGATTGAAGATAGTA
193 ATTGTCAGAAGAGTAGATTGAAGATAGTA
* * *
220698013 GATTTGGCGTCTCTGTATTGTCAGAGAGCAAATCAAAGATAGCAGATTTGACATCTCTGTATTGT
1 GATTTGGCATCTCTGCATTGTCAGAGAGCAAATCAAAGATAGCAGACTTGACATCTCTGTATTGT
* *
220698078 CAGAGAACAGATCGAAGATAGCAGATTTAGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
66 CAGAGAACAGATCGAAGATAACAGATTTAGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
*
220698143 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATAGAAGATAACAGATCTGGC
131 CAGATTTGGCGTCGCTGTATTGTCAGAGAGCAGATAGAAGATAACAGATCTGGC
220698197 GTTCCTGAGT
Statistics
Matches: 167, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
221 164 0.98
222 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (221 bp):
GATTTGGCATCTCTGCATTGTCAGAGAGCAAATCAAAGATAGCAGACTTGACATCTCTGTATTGT
CAGAGAACAGATCGAAGATAACAGATTTAGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG
CAGATTTGGCGTCGCTGTATTGTCAGAGAGCAGATAGAAGATAACAGATCTGGCATCTCTGTATT
GTCAGAAGAGTAGATTGAAGATAGTA
Found at i:220700012 original size:39 final size:40
Alignment explanation
Indices: 220699954--220700054 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
220699944 AAATTGAATG
* *
220699954 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
220699993 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
220700033 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
220700055 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:220700047 original size:40 final size:40
Alignment explanation
Indices: 220699954--220700136 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
220699944 AAATTGAATG
* * * * *
220699954 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
220699993 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
220700033 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
220700073 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
220700113 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
220700137 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:220708163 original size:40 final size:40
Alignment explanation
Indices: 220708071--220708252 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
220708061 AAATTGAATG
* * * *
220708071 ATATCCGGGCTAAG-CCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
220708109 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
220708149 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
220708189 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
220708229 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
220708253 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 13 0.11
39 19 0.16
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:220711127 original size:40 final size:40
Alignment explanation
Indices: 220711082--220711249 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
220711072 CGGAATACAA
220711082 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
220711122 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
220711162 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
220711202 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
220711242 CCGGATAT
1 CCGGATAT
220711250 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:220711222 original size:80 final size:80
Alignment explanation
Indices: 220711082--220711249 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
220711072 CGGAATACAA
* *
220711082 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
220711147 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
220711162 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
220711225 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
220711242 CCGGATAT
1 CCGGATAT
220711250 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:220719128 original size:40 final size:40
Alignment explanation
Indices: 220719083--220719250 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
220719073 CGGAATACAA
*
220719083 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
220719123 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
220719163 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
220719203 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
220719243 CCGGATAT
1 CCGGATAT
220719251 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:220719223 original size:80 final size:80
Alignment explanation
Indices: 220719083--220719250 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
220719073 CGGAATACAA
* * *
220719083 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
220719148 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
220719163 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
220719226 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
220719243 CCGGATAT
1 CCGGATAT
220719251 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:220736030 original size:28 final size:28
Alignment explanation
Indices: 220735961--220736061 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
220735951 GACAAGATTG
* * * *
220735961 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
220735991 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
220736019 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
220736048 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220736062 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:220743961 original size:28 final size:28
Alignment explanation
Indices: 220743892--220743992 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
220743882 GACAAGATTG
* * * *
220743892 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
220743922 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
220743950 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
220743979 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
220743993 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:220748419 original size:40 final size:40
Alignment explanation
Indices: 220748363--220748462 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
220748353 GGATATAGCG
* * * *
220748363 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
220748403 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
220748443 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
220748463 ATCTTATTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:220748475 original size:40 final size:39
Alignment explanation
Indices: 220748404--220748515 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
220748394 GTTATAATAG
*
220748404 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTC-GGACTTAACCCGGATATGGGAA
** **
220748444 CTCGCACAAATGCCTTCGGATCTTATTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGA-CTTAACCCGGATATGGGAA
* *
220748484 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTC-GGACTTAACCCGGA
220748516 CATCATTCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.05
40 47 0.77
41 11 0.18
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGACTTAACCCGGATATGGGAA
Found at i:220751313 original size:51 final size:51
Alignment explanation
Indices: 220751233--220751334 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
220751223 AATCTATAAA
220751233 ACAGAGAAACAAAGGAACGGAGTAAGCAATTTATGCTTAGTAAGTTTCGAG
1 ACAGAGAAACAAAGGAACGGAGTAAGCAATTTATGCTTAGTAAGTTTCGAG
*
220751284 ACAGAGAAACAAAGGAACGGAGTAGGCAATTTATGCTTAGTAAGTTTCGAG
1 ACAGAGAAACAAAGGAACGGAGTAAGCAATTTATGCTTAGTAAGTTTCGAG
220751335 CCATAATTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.22
Consensus pattern (51 bp):
ACAGAGAAACAAAGGAACGGAGTAAGCAATTTATGCTTAGTAAGTTTCGAG
Found at i:220751763 original size:39 final size:39
Alignment explanation
Indices: 220751682--220751844 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
220751672 TATGGTAACC
* *
220751682 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
220751722 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
220751761 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
220751800 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
220751839 CGCACA
1 CGCACA
220751845 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:220757383 original size:29 final size:29
Alignment explanation
Indices: 220757349--220757480 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
220757339 TACTCGATTT
** * *
220757349 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
220757378 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
220757407 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
220757436 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
220757465 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
220757481 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 2 0.02
29 85 0.98
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:220762499 original size:17 final size:18
Alignment explanation
Indices: 220762457--220762505 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
220762447 AGTTGAAAAG
220762457 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
220762476 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
220762493 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
220762506 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:220763407 original size:39 final size:39
Alignment explanation
Indices: 220763327--220763492 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 39
220763317 AAATTGAATG
* * * * **
220763327 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCTAGTGATT
* *
220763366 ATATCCGGGTTAAGACCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCGAAGGCAATTGTGCTAGTGATT
* * *
220763405 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAA-GACCGAAGGCAATT-GTGCTAGTGATT
* *
220763445 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGA-CCGAAGGCAATTGTGCTA-GTGATT
220763485 ATATCCGG
1 ATATCCGG
220763493 TTATATTCCG
Statistics
Matches: 104, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 48 0.46
40 54 0.52
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCAATTGTGCTAGTGATT
Found at i:220770510 original size:17 final size:18
Alignment explanation
Indices: 220770468--220770516 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
220770458 AGTTGAAAAG
220770468 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
220770487 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
220770504 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
220770517 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:220771405 original size:40 final size:40
Alignment explanation
Indices: 220771339--220771505 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
220771329 AAATTGAATG
* * *
220771339 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
220771378 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
220771418 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
220771458 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
220771498 ATATCCGG
1 ATATCCGG
220771506 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:220774432 original size:47 final size:46
Alignment explanation
Indices: 220774324--220774433 Score: 143
Period size: 47 Copynumber: 2.4 Consensus size: 46
220774314 CCGGGATAAG
*
220774324 CACATAGTGCTTCATCGGAACAAATCCGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAACTTTAACAGTATAGTA
* * *
220774370 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCC-GAACTTTAACAGTA-TAGTA
220774417 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
220774434 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 26 0.47
47 27 0.49
48 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.25
Consensus pattern (46 bp):
CACATAGTGCTTCATCGGAACAAATCCGAACTTTAACAGTATAGTA
Found at i:220775201 original size:4 final size:4
Alignment explanation
Indices: 220775188--220775220 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
220775178 TCAAATTTCC
220775188 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
220775221 CACGTTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
CTTT
Found at i:220781667 original size:47 final size:47
Alignment explanation
Indices: 220781558--220781668 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
220781548 CCGGGATAAG
*
220781558 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
220781605 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
220781652 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
220781669 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:220782434 original size:4 final size:4
Alignment explanation
Indices: 220782425--220782457 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
220782415 AATTTCCCTT
220782425 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
220782458 CACGTTTGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:220789037 original size:28 final size:28
Alignment explanation
Indices: 220788972--220789072 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
220788962 ATAGTGAATC
*
220788972 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
220789001 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
220789029 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
220789059 CGCACACTTAGTGC
1 CGCACACTTAGTGC
220789073 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:220801063 original size:29 final size:28
Alignment explanation
Indices: 220800998--220801099 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
220800988 TACCTATATC
* * *
220800998 TGGCCCATTAAGCCC-ATTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
220801026 TGGCCCATTAGGCCCAAGTCACATGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
*
220801055 TGGCCCATTAGGCCCAAATAACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
*
220801084 TGGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
220801100 GTCGCATTCA
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
28 14 0.22
29 49 0.75
30 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:220801335 original size:8 final size:8
Alignment explanation
Indices: 220801322--220801352 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
220801312 GTAGCCAAAC
220801322 TTTCGGCA
1 TTTCGGCA
220801330 TTTCGGCA
1 TTTCGGCA
220801338 TTTCGGCA
1 TTTCGGCA
220801346 TTTCGGC
1 TTTCGGC
220801353 TTTTGCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.10, C:0.26, G:0.26, T:0.39
Consensus pattern (8 bp):
TTTCGGCA
Found at i:220802609 original size:16 final size:16
Alignment explanation
Indices: 220802584--220802615 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
220802574 AAGTTCGGGA
*
220802584 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
220802600 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
220802616 GCGTTACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:220805902 original size:40 final size:40
Alignment explanation
Indices: 220805857--220806023 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
220805847 CGGAATATAA
220805857 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
220805897 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
220805937 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
220805977 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
220806016 CCGGATAT
1 CCGGATAT
220806024 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:220806007 original size:80 final size:79
Alignment explanation
Indices: 220805857--220806023 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
220805847 CGGAATATAA
* *
220805857 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
220805922 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
220805937 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
220805999 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
220806016 CCGGATAT
1 CCGGATAT
220806024 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:220806870 original size:17 final size:19
Alignment explanation
Indices: 220806847--220806892 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
220806837 AAGAAGCATG
220806847 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
220806865 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
220806883 AATCATGCTC
1 AATCATGCTC
220806893 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:220814874 original size:46 final size:46
Alignment explanation
Indices: 220814824--220814952 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
220814814 TATTTGGGCA
* *
220814824 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
220814870 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
220814916 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220814953 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:220818758 original size:24 final size:24
Alignment explanation
Indices: 220818728--220818874 Score: 240
Period size: 24 Copynumber: 6.1 Consensus size: 24
220818718 GAATGTGACT
* *
220818728 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
220818752 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
220818776 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220818800 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220818824 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
220818848 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220818872 ATA
1 ATA
220818875 TGGTCTTTGC
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 116 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:220826662 original size:24 final size:24
Alignment explanation
Indices: 220826632--220826802 Score: 288
Period size: 24 Copynumber: 7.1 Consensus size: 24
220826622 GAATGTGACT
* *
220826632 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
220826656 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220826680 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
**
220826704 ATAGTGTATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220826728 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220826752 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
220826776 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
220826800 ATA
1 ATA
220826803 TGGTCTTTGC
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 140 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:220828915 original size:15 final size:15
Alignment explanation
Indices: 220828895--220828963 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
220828885 GTATCTTGGG
220828895 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
220828910 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
220828925 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
220828940 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
220828955 TTTCTTTAT
1 TTTCTTTAT
220828964 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:220828964 original size:30 final size:30
Alignment explanation
Indices: 220828886--220828973 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
220828876 CATAGTATCG
* * * *
220828886 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
220828916 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
220828946 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
220828974 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:220831409 original size:46 final size:46
Alignment explanation
Indices: 220831359--220831487 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
220831349 TATTTGGGCA
* *
220831359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
220831405 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
220831451 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220831488 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:220834421 original size:15 final size:15
Alignment explanation
Indices: 220834401--220834469 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
220834391 GTATCTTGGG
220834401 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
220834416 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
220834431 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
220834446 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
220834461 TTTCTTTAT
1 TTTCTTTAT
220834470 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:220834470 original size:30 final size:30
Alignment explanation
Indices: 220834392--220834479 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
220834382 CATAGTATCG
* * * *
220834392 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
220834422 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
220834452 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
220834480 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:220836910 original size:46 final size:46
Alignment explanation
Indices: 220836860--220837035 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
220836850 GATTTGGGCA
220836860 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
220836906 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
220836953 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
220836999 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
220837036 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:220837015 original size:93 final size:93
Alignment explanation
Indices: 220836856--220837027 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
220836846 ACTGGATTTG
* *
220836856 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220836921 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
220836949 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
220837014 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
220837028 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:220846003 original size:28 final size:29
Alignment explanation
Indices: 220845936--220846036 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
220845926 ATAGTGAATC
*
220845936 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
220845965 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
220845993 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
220846023 CGCACACTTAGTGC
1 CGCACACTTAGTGC
220846037 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:220847869 original size:37 final size:37
Alignment explanation
Indices: 220847819--220847928 Score: 211
Period size: 37 Copynumber: 3.0 Consensus size: 37
220847809 GGATGTCACA
220847819 CGATGACTACGTGTGGAGATTATGACCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTATGACCGGGTAAGACC
220847856 CGATGACTACGTGTGGAGATTATGACCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTATGACCGGGTAAGACC
*
220847893 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGAC
1 CGATGACTACGTGTGGAGATTATGACCGGGTAAGAC
220847929 TTCGTAATAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (37 bp):
CGATGACTACGTGTGGAGATTATGACCGGGTAAGACC
Found at i:220852206 original size:26 final size:26
Alignment explanation
Indices: 220852164--220852335 Score: 91
Period size: 24 Copynumber: 6.9 Consensus size: 26
220852154 ACACACCACA
220852164 GCTCTT-ATGAG-TGTCCCATTATATG
1 GCTCTTCATGAGCT-TCCCATTATATG
* *
220852189 GCTCTTCGTGAGCTTCCCGATTA-AAG
1 GCTCTTCATGAGCTTCCC-ATTATATG
* **
220852215 GCTCTTTATGAGCTTCTTGATTA-ATG
1 GCTCTTCATGAGCTTC-CCATTATATG
*
220852241 GCT-TTC-TAGAGCTTCCGATTA-ATG
1 GCTCTTCAT-GAGCTTCCCATTATATG
* * * *
220852265 GCTCTTC-GGAACTACCCGTTAT-TG
1 GCTCTTCATGAGCTTCCCATTATATG
* *
220852289 GCTC-GCATGAGCTTCCTAATTATA--
1 GCTCTTCATGAGCTTCC-CATTATATG
*
220852313 GCTCTT-ATGAGCTTCCCGTTATA
1 GCTCTTCATGAGCTTCCCATTATA
220852336 CAGCCAGAAT
Statistics
Matches: 113, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
23 6 0.05
24 47 0.42
25 22 0.19
26 33 0.29
27 5 0.04
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCATTATATG
Found at i:220852260 original size:24 final size:25
Alignment explanation
Indices: 220852181--220852271 Score: 98
Period size: 26 Copynumber: 3.6 Consensus size: 25
220852171 TGAGTGTCCC
220852181 ATTATATGGCTCTTCGT-GAGCTTCCCG
1 ATTA-ATGGCTCTTC-TAGAGCTT-CCG
* *
220852208 ATTAAAGGCTCTT-TATGAGCTTCTTG
1 ATTAATGGCTCTTCTA-GAGCTTC-CG
220852234 ATTAATGGCT-TTCTAGAGCTTCCG
1 ATTAATGGCTCTTCTAGAGCTTCCG
220852258 ATTAATGGCTCTTC
1 ATTAATGGCTCTTC
220852272 GGAACTACCC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
24 12 0.22
25 13 0.24
26 26 0.47
27 4 0.07
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.40
Consensus pattern (25 bp):
ATTAATGGCTCTTCTAGAGCTTCCG
Found at i:220852372 original size:25 final size:26
Alignment explanation
Indices: 220852344--220852409 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
220852334 TACAGCCAGA
*
220852344 ATAAGCTTCCCGTTACATGGCTC-AT
1 ATAAGCTTCCCGTTACATGGCTCGAG
* * *
220852369 ATAAGCTTCTCATTATATGGCTCGAG
1 ATAAGCTTCCCGTTACATGGCTCGAG
*
220852395 AGAGAGCTTCCCGTT
1 ATA-AGCTTCCCGTT
220852410 TATATGCTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
25 20 0.62
26 3 0.09
27 9 0.28
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (26 bp):
ATAAGCTTCCCGTTACATGGCTCGAG
Found at i:220859465 original size:28 final size:28
Alignment explanation
Indices: 220859433--220859531 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
220859423 GCAATAAGCC
*
220859433 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
220859461 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
220859489 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
220859518 CGCACACTTAGTGC
1 CGCACACTTAGTGC
220859532 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:220867460 original size:12 final size:12
Alignment explanation
Indices: 220867443--220867472 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
220867433 TTTGAGCTGT
220867443 TTAAGTAATGAA
1 TTAAGTAATGAA
220867455 TTAAGTAATGAA
1 TTAAGTAATGAA
220867467 TTAAGT
1 TTAAGT
220867473 CTGTTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.37
Consensus pattern (12 bp):
TTAAGTAATGAA
Found at i:220870825 original size:46 final size:46
Alignment explanation
Indices: 220870775--220870947 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
220870765 TGGTTGAGCA
220870775 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
220870821 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
220870866 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
220870914 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
220870948 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:220870931 original size:93 final size:93
Alignment explanation
Indices: 220870772--220870942 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
220870762 GGATGGTTGA
* *
220870772 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220870837 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
220870865 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220870930 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
220870943 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:220878380 original size:46 final size:45
Alignment explanation
Indices: 220878330--220878501 Score: 215
Period size: 46 Copynumber: 3.8 Consensus size: 45
220878320 TGGTTGAGCA
220878330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
220878376 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGAAG
220878422 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
220878468 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
220878502 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 96 0.89
47 2 0.02
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:220878484 original size:92 final size:92
Alignment explanation
Indices: 220878327--220878496 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
220878317 GGATGGTTGA
* *
220878327 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220878392 TGAGTCCGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
220878419 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
220878484 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
220878497 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:220882642 original size:40 final size:39
Alignment explanation
Indices: 220882597--220882726 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
220882587 CGGAATACAA
220882597 CCGGATATAACCGTAGGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCGTA-GCACGAATGCCTTCGGGTCTTAGC
* *
220882637 CCGGATAGAA-CGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCG--TAGCACGAATGCCTTCGGGTCTTAGC
* * * *
220882677 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACC-GTAGCACGAA-TGCCTTCGGGTCTTAGC
220882717 CCGGATATAA
1 CCGGATATAA
220882727 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
39 4 0.05
40 69 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (39 bp):
CCGGATATAACCGTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:220895051 original size:29 final size:29
Alignment explanation
Indices: 220895012--220895099 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
220895002 CAAAGATAAC
*
220895012 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
220895041 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
220895070 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
220895100 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:220895070 original size:15 final size:15
Alignment explanation
Indices: 220895012--220895090 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
220895002 CAAAGATAAC
*
220895012 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
220895026 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
220895041 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
220895055 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
220895070 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
220895085 AAGAAA
1 AAGAAA
220895091 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:220895099 original size:15 final size:15
Alignment explanation
Indices: 220895023--220895099 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
220895013 AGAAAACCGA
220895023 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
220895038 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
220895052 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
220895066 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
220895082 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
220895097 ATA
1 ATA
220895100 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:220900875 original size:40 final size:40
Alignment explanation
Indices: 220900830--220901036 Score: 186
Period size: 40 Copynumber: 5.2 Consensus size: 40
220900820 CGGAATACAA
* *
220900830 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * *
220900870 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* *
220900910 CCGAATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
220900950 CCGGATTTAGTC-ACTAGCA-TAATTGCGTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACGAA-TGCCTTCGGGTCTTAGC
* * * ** * *
220900990 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
220901030 CC-GATAT
1 CCGGATAT
220901037 CATTTAATTG
Statistics
Matches: 139, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 7 0.05
40 129 0.93
41 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
Found at i:220900981 original size:80 final size:80
Alignment explanation
Indices: 220900845--220901032 Score: 218
Period size: 80 Copynumber: 2.4 Consensus size: 80
220900835 TATAACCACA
* *
220900845 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAAC
220900910 CCGAATTTAACAACT
66 CCGAATTTAACAACT
* * * * *
220900925 TGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAATTGCGTTCGGGTCTTA
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGA--TAGAACGACTAGCACAAATGCCTTCGGGTATTA
* *
220900988 ACCCGGATTTAACTACT
64 ACCCGAATTTAACAACT
* ** * *
220901005 AGCATAAATGTCTTCGGGACTTAGCCCG
1 TGCACGAATGCCTTCGGGTCTTAGCCCG
220901033 ATATCATTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
80 88 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATGCCTTCGGGTATTAAC
CCGAATTTAACAACT
Found at i:220902930 original size:305 final size:305
Alignment explanation
Indices: 220902379--220902989 Score: 1204
Period size: 305 Copynumber: 2.0 Consensus size: 305
220902369 AAACATGTCA
220902379 TAACATGTTTTCTTTGCCCATAATTCCTTGCCATGGCCGGCCACCACCTATAAAAAGGGGAATTT
1 TAACATGTTTTCTTTGCCCATAATTCCTTGCCATGGCCGGCCACCACCTATAAAAAGGGGAATTT
220902444 GACATGCAAGTCCATTGTTTTGCATGCATGCTTTAATTAGTCATCACACAATTCCCTATCGTACT
66 GACATGCAAGTCCATTGTTTTGCATGCATGCTTTAATTAGTCATCACACAATTCCCTATCGTACT
220902509 TTCAAAGTTCACTACTAAGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCAATCACCAA
131 TTCAAAGTTCACTACTAAGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCAATCACCAA
220902574 AAAATGTCACACATGAGCACACACATATTATAGGAATCAAAATAAATTTTAAATTATTTTTATGC
196 AAAATGTCACACATGAGCACACACATATTATAGGAATCAAAATAAATTTTAAATTATTTTTATGC
220902639 CTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTT
261 CTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTT
*
220902684 TAACATGTTTTCTTTGCCCATAATTCCTTGCCATGGCCGGCCACCACCTATAAAAAGGGGAGTTT
1 TAACATGTTTTCTTTGCCCATAATTCCTTGCCATGGCCGGCCACCACCTATAAAAAGGGGAATTT
220902749 GACATGCAAGTCCATTGTTTTGCATGCATGCTTTAATTAGTCATCACACAATTCCCTATCGTACT
66 GACATGCAAGTCCATTGTTTTGCATGCATGCTTTAATTAGTCATCACACAATTCCCTATCGTACT
220902814 TTCAAAGTTCACTACTAAGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCAATCACCAA
131 TTCAAAGTTCACTACTAAGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCAATCACCAA
*
220902879 AAAATGTCACACATGAGCACACACATATTATAGGCATCAAAATAAATTTTAAATTATTTTTATGC
196 AAAATGTCACACATGAGCACACACATATTATAGGAATCAAAATAAATTTTAAATTATTTTTATGC
220902944 CTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTT
261 CTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTT
220902989 T
1 T
220902990 GGGCTGTCAC
Statistics
Matches: 304, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
305 304 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (305 bp):
TAACATGTTTTCTTTGCCCATAATTCCTTGCCATGGCCGGCCACCACCTATAAAAAGGGGAATTT
GACATGCAAGTCCATTGTTTTGCATGCATGCTTTAATTAGTCATCACACAATTCCCTATCGTACT
TTCAAAGTTCACTACTAAGTCCTTTCTAGTGAAATTCACCTTTATAACACTAAATCAATCACCAA
AAAATGTCACACATGAGCACACACATATTATAGGAATCAAAATAAATTTTAAATTATTTTTATGC
CTCGGTTTTGTGGTCCCGAAACCACATTCCGACTAGGGTCAATTT
Found at i:220904825 original size:40 final size:40
Alignment explanation
Indices: 220904781--220904917 Score: 172
Period size: 40 Copynumber: 3.4 Consensus size: 40
220904771 GCTCGATTGT
* * *
220904781 CTTCGGGACATAGCCCGG-TTATAGTAATTCGCGCAAATGC
1 CTTCGGGACATAACCCGGATT-TAGTAACTCGCACAAATGC
* * *
220904821 CTTCGGGACTTAACCCGGATTTGGTAACTCGCACAATTGC
1 CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
220904861 CTTCGGGA-ATTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAACCCGGATTTAGTAACTCGCACAAATGC
220904901 CTTCGGGA-ATTAACCCG
1 CTTCGGGACA-TAACCCG
220904918 TATATCATTC
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 84 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAACCCGGATTTAGTAACTCGCACAAATGC
Done.