Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 58 of 207
Found at i:17039718 original size:7 final size:7
Alignment explanation
Indices: 17039696--17039737 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
17039686 AGGAGGGTTA
17039696 GGGAAAT
1 GGGAAAT
*
17039703 GAGAAAT
1 GGGAAAT
17039710 GGGAAAT
1 GGGAAAT
* *
17039717 GGG-GAG
1 GGGAAAT
17039723 GGGAAAT
1 GGGAAAT
17039730 GGGAAAT
1 GGGAAAT
17039737 G
1 G
17039738 TAAATAATGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.12
Consensus pattern (7 bp):
GGGAAAT
Found at i:17049347 original size:21 final size:22
Alignment explanation
Indices: 17049307--17049349 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
17049297 AACATTAGTT
17049307 GAAAAAAATAAATATGTACATAA
1 GAAAAAAATAAATA-GTACATAA
17049330 GAAAAAAATAAATA-TACATA
1 GAAAAAAATAAATAGTACATA
17049350 TATATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (22 bp):
GAAAAAAATAAATAGTACATAA
Found at i:17052384 original size:12 final size:11
Alignment explanation
Indices: 17052351--17052389 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
17052341 TCCTTTCAGG
17052351 TTTGTTTTAGT
1 TTTGTTTTAGT
17052362 TTCCTGTTTTAGT
1 TT--TGTTTTAGT
17052375 TTTAGTTTTAGT
1 TTT-GTTTTAGT
17052387 TTT
1 TTT
17052390 TATTTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.12
12 11 0.44
13 11 0.44
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.69
Consensus pattern (11 bp):
TTTGTTTTAGT
Found at i:17053050 original size:42 final size:41
Alignment explanation
Indices: 17052993--17053323 Score: 335
Period size: 42 Copynumber: 7.9 Consensus size: 41
17052983 GCGTTTACAG
* *
17052993 AAAAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCATA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
17053034 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTATTA
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC--TTA
** * *
17053078 TCACAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA
*
17053119 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * * * *
17053161 ACGAAAAACGCCGTTAAAGATAATTTTTTTTAGCGGCGCTATG
1 A-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-TA
* *
17053204 TAAAAAATGCCGCTAAAGATCATGTAT-TTTAGCGGCGCTTTTA
1 AAAAAAACGCCGCTAAAGATCATGT-TCTTTAGCGGCGC--TTA
** * * * *
17053247 TCACAAACGCCGCGAAA-AGTAATGTTCTTTAGCGGCACTTA
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA
* *
17053288 AAAAAGACGCCACTAAAGATCATGTTCTTTAGCGGC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGC
17053324 ACTTTTTATC
Statistics
Matches: 238, Mismatches: 38, Indels: 27
0.79 0.13 0.09
Matches are distributed among these distances:
41 36 0.15
42 131 0.55
43 68 0.29
44 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:17053103 original size:85 final size:84
Alignment explanation
Indices: 17052997--17053371 Score: 479
Period size: 85 Copynumber: 4.4 Consensus size: 84
17052987 TTACAGAAAA
* * *
17052997 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGTTC
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTA-AAAAAAACGCCGCTAAAGATCATGTTC
*
17053062 TTTAGCGGCGCTATTATCAC
65 TTTAGCGGCGCTTTTATCAC
17053082 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAAAGACGCCGCTAAAGATCATGTTC
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAAA-ACGCCGCTAAAGATCATGTTC
* * *
17053147 TTTAGTGGCGC--TTAACGAA
65 TTTAGCGGCGCTTTTATC-AC
* * * ** *
17053166 AAACGCCG-TTAAAGATAATTTTTTTTAGCGGCGCTATGTAAAAAATGCCGCTAAAGATCATGTA
1 AAACGCCGCTAAAAG-TAATGTTCTTTAGCGGCGCT-TAAAAAAAACGCCGCTAAAGATCATGT-
17053230 T-TTTAGCGGCGCTTTTATCAC
63 TCTTTAGCGGCGCTTTTATCAC
* * * *
17053251 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAAAGACGCCACTAAAGATCATGTTCT
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGATCATGTTCT
* *
17053316 TTAGCGGCACTTTTTATCTC
66 TTAGCGGCGC-TTTTATCAC
*
17053336 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCGCTT
1 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTT
17053372 TCTTGACAAA
Statistics
Matches: 252, Mismatches: 28, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
83 10 0.04
84 93 0.37
85 141 0.56
86 8 0.03
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (84 bp):
AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGATCATGTTCT
TTAGCGGCGCTTTTATCAC
Found at i:17053218 original size:169 final size:168
Alignment explanation
Indices: 17052995--17053319 Score: 510
Period size: 169 Copynumber: 1.9 Consensus size: 168
17052985 GTTTACAGAA
* *
17052995 AAAAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
* *
17053060 -TCTTTAGCGGCGCTATTATCACAAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGCTTAAAAAA
66 AT-TTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTT-AAAAA
*
17053124 AGACGCCGCTAAAGATCATGTTCTTTAGTGGCGCTTAACG
129 AGACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAACG
* * * * *
17053164 AAAAACGCCGTTAAAGATAATTTTTTTTAGCGGCGC-TATGTAAAAAATGCCGCTAAAGATCATG
1 AAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCATA-GAAAAAAACGCCGCTAAAGATCATG
*
17053228 TATTTTAGCGGCGCTTTTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAAA
65 TATTTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAAA
17053293 GACGCCACTAAAGATCATGTTCTTTAG
130 GACGCCACTAAAGATCATGTTCTTTAG
17053320 CGGCACTTTT
Statistics
Matches: 143, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
168 34 0.24
169 108 0.76
170 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (168 bp):
AAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCATGT
ATTTTAGCGGCGCTATTATCACAAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTAAAAAAG
ACGCCACTAAAGATCATGTTCTTTAGTGGCGCTTAACG
Found at i:17053359 original size:44 final size:43
Alignment explanation
Indices: 17053039--17053387 Score: 172
Period size: 42 Copynumber: 8.2 Consensus size: 43
17053029 GCATAGAAAA
* * * *
17053039 AAACGCCGC-TAAAGATCATGTTCTTTAGCGGCGCTATTATCAC
1 AAACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACTTTTATCAC
* * ** *
17053082 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCGC--TTAAAAA
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
* * * * * *
17053123 AAGACGCCGC-TAAAGATCATGTTCTTTAGTGGCGC--TTAACGAA
1 AA-ACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACTTTTATC-AC
** * * * * *
17053166 AAACGCCG-TTAAAGATAATTTTTTTTAGCGGCGCTATGTA--AA
1 AAACGCCGCGAAAAG-TAATGTTCTTTAGCGGCACT-TTTATCAC
* * * *
17053208 AAATGCCGC-TAAAGATCATGTAT-TTTAGCGGCGCTTTTATCAC
1 AAACGCCGCGAAAAG-TAATGT-TCTTTAGCGGCACTTTTATCAC
* *
17053251 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCAC--TTA-AAA
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
* * * *
17053291 AAGACGCCAC-TAAAGATCATGTTCTTTAGCGGCACTTTTTATCTC
1 AA-ACGCCGCGAAAAG-TAATGTTCTTTAGCGGCAC-TTTTATCAC
* *
17053336 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCGCTTTCT-TGAC
1 AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTT-TATCAC
17053379 AAACGCCGC
1 AAACGCCGC
17053388 TATAGAACAT
Statistics
Matches: 247, Mismatches: 37, Indels: 44
0.75 0.11 0.13
Matches are distributed among these distances:
40 7 0.03
41 40 0.16
42 87 0.35
43 70 0.28
44 35 0.14
45 8 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCGAAAAGTAATGTTCTTTAGCGGCACTTTTATCAC
Found at i:17053843 original size:21 final size:21
Alignment explanation
Indices: 17053819--17053886 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
17053809 CTTCTCTCGA
17053819 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
17053840 TGCTTCTCTCGCTGCAGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
* * *
17053861 TACTTCCCTCGCTGCCGCCTC
1 TGCTTCTCTCGCTGCAGCCTC
17053882 TGCTT
1 TGCTT
17053887 TAAGTTGCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
TGCTTCTCTCGCTGCAGCCTC
Found at i:17057237 original size:29 final size:29
Alignment explanation
Indices: 17057195--17057253 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17057185 AGATGTGATA
17057195 GTCATGTGATTTTAGCGAATATAATCTTT
1 GTCATGTGATTTTAGCGAATATAATCTTT
17057224 GTCATGTGATTTTAGCGAATATAATCTTT
1 GTCATGTGATTTTAGCGAATATAATCTTT
17057253 G
1 G
17057254 ATCTTTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (29 bp):
GTCATGTGATTTTAGCGAATATAATCTTT
Found at i:17059506 original size:16 final size:16
Alignment explanation
Indices: 17059485--17059524 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17059475 ATGTAAGCTA
*
17059485 TATGTAAGTTGTATT-T
1 TATGTAAGTTAT-TTAT
17059501 TATGTAAGTTATTTAT
1 TATGTAAGTTATTTAT
17059517 TATGTAAG
1 TATGTAAG
17059525 CTAAGTAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TATGTAAGTTATTTAT
Found at i:17059532 original size:25 final size:25
Alignment explanation
Indices: 17059504--17059574 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
17059494 TGTATTTTAT
17059504 GTAAGTTATTTATTATGTAAGCTAA
1 GTAAGTTATTTATTATGTAAGCTAA
* *
17059529 GTAAGTTGA-GTATTATGTAAGCTAT
1 GTAAGTT-ATTTATTATGTAAGCTAA
17059554 GT-A-TTATGTTAGTTATGTAAG
1 GTAAGTTAT-TTA-TTATGTAAG
17059575 TTATGTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 3 0.08
25 32 0.82
26 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (25 bp):
GTAAGTTATTTATTATGTAAGCTAA
Found at i:17059545 original size:41 final size:41
Alignment explanation
Indices: 17059475--17059597 Score: 133
Period size: 41 Copynumber: 3.0 Consensus size: 41
17059465 ATTGTGTAGA
* *
17059475 ATGTAAGCTATATGTAAGTTGTA-TTTTATGTAAGTTATTTATT
1 ATGTAAGCTA-A-GTAAGTTG-AGTATTATGTAAGTTATGTATT
*
17059518 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGCTATGTATT
1 ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGTTATGTATT
* * * *
17059559 ATGTTAGTTATGTAAGTT-ATGTATTATGTATGTTATGTA
1 ATGTAAGCTAAGTAAGTTGA-GTATTATGTAAGTTATGTA
17059598 AGTTCTGTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.03
41 57 0.81
42 1 0.01
43 10 0.14
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (41 bp):
ATGTAAGCTAAGTAAGTTGAGTATTATGTAAGTTATGTATT
Found at i:17059579 original size:25 final size:25
Alignment explanation
Indices: 17059541--17059606 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
17059531 AAGTTGAGTA
*
17059541 TTATGTAAGCTATGTATTATGT-TAG
1 TTATGTAAGTTATGTATTATGTAT-G
17059566 TTATGTAAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTATTATGTATG
*
17059591 TTATGTAAGTTCTGTA
1 TTATGTAAGTTATGTA
17059607 GAATGTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTATG
Found at i:17059585 original size:16 final size:16
Alignment explanation
Indices: 17059529--17059619 Score: 71
Period size: 16 Copynumber: 5.6 Consensus size: 16
17059519 TGTAAGCTAA
17059529 GTAAGTTGA-GTATTAT
1 GTAAGTT-ATGTATTAT
*
17059545 GTAAGCTATGTATTAT
1 GTAAGTTATGTATTAT
*
17059561 GTTAGTTATGTAAGTTAT
1 GTAAGTTATGT-A-TTAT
17059579 GT-A-TTATGTATGTTAT
1 GTAAGTTATGTA--TTAT
* **
17059595 GTAAGTTCTGTAGAAT
1 GTAAGTTATGTATTAT
17059611 GTAAGTTAT
1 GTAAGTTAT
17059620 CTTAATATTA
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 2 0.03
16 45 0.73
17 3 0.05
18 12 0.19
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:17059612 original size:25 final size:25
Alignment explanation
Indices: 17059541--17059619 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 25
17059531 AAGTTGAGTA
* ** *
17059541 TTATGTAAGCTATGTATTATGTTAG
1 TTATGTAAGTTATGTAGAATGTAAG
** *
17059566 TTATGTAAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTAGAATGTAAG
*
17059591 TTATGTAAGTTCTGTAGAATGTAAG
1 TTATGTAAGTTATGTAGAATGTAAG
17059616 TTAT
1 TTAT
17059620 CTTAATATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTAGAATGTAAG
Found at i:17059658 original size:20 final size:20
Alignment explanation
Indices: 17059609--17059659 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
17059599 GTTCTGTAGA
17059609 ATGTAAGTTATCTTAATATT
1 ATGTAAGTTATCTTAATATT
* *
17059629 ATATAAGTTATCTTAATTTT
1 ATGTAAGTTATCTTAATATT
*
17059649 ATGTAGGTTAT
1 ATGTAAGTTAT
17059660 GCAAGTTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (20 bp):
ATGTAAGTTATCTTAATATT
Found at i:17059692 original size:40 final size:40
Alignment explanation
Indices: 17059648--17059724 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
17059638 ATCTTAATTT
17059648 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
*
17059688 TATGTAGGTTATGCAAGTTATGTATTGTATCAATTTT
1 TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTT
17059725 TAAAAATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (40 bp):
TATGTAGGTTATGCAAGTTATGTAATGTATCAATTTTATG
Found at i:17059912 original size:33 final size:34
Alignment explanation
Indices: 17059873--17059958 Score: 97
Period size: 33 Copynumber: 2.6 Consensus size: 34
17059863 ATGTAAGTTA
* *
17059873 TAAATTTCAAAAATATATATTAATAA-GT-TAAAT
1 TAAATTTTAAAAATATATATTAA-AATATATAAAT
*
17059906 TAAATTTTTAAAATATAT-TTAAAATATATAAAT
1 TAAATTTTAAAAATATATATTAAAATATATAAAT
* *
17059939 CATATTTTAAAAATATATAT
1 TAAATTTTAAAAATATATAT
17059959 ATTTTTAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
31 2 0.05
32 5 0.11
33 36 0.82
34 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (34 bp):
TAAATTTTAAAAATATATATTAAAATATATAAAT
Found at i:17059937 original size:20 final size:23
Alignment explanation
Indices: 17059914--17059957 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
17059904 ATTAAATTTT
17059914 TAAAAT-ATA-TTT-AAAATATA
1 TAAAATCATATTTTAAAAATATA
17059934 T-AAATCATATTTTAAAAATATA
1 TAAAATCATATTTTAAAAATATA
17059956 TA
1 TA
17059958 TATTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 3 0.15
22 9 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAAATCATATTTTAAAAATATA
Found at i:17060918 original size:27 final size:29
Alignment explanation
Indices: 17060864--17060918 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
17060854 TAATTATCAC
*
17060864 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
17060894 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
17060919 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:17062754 original size:15 final size:15
Alignment explanation
Indices: 17062718--17062779 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
17062708 AACATTAACT
*
17062718 ATAAACCCCTAAACC
1 ATAAACCCTTAAACC
*
17062733 -TATAACCCTTAACCC
1 ATA-AACCCTTAAACC
17062748 ATAAACCCTT-AACC
1 ATAAACCCTTAAACC
**
17062762 -CCAACCCTTAAACC
1 ATAAACCCTTAAACC
17062776 ATAA
1 ATAA
17062780 TCCATAAGCC
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
13 7 0.19
14 9 0.25
15 18 0.50
16 2 0.06
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAACCCTTAAACC
Found at i:17062958 original size:7 final size:7
Alignment explanation
Indices: 17062943--17062994 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
17062933 AACTATAAAC
*
17062943 CCCTAAA
1 CCCTTAA
17062950 CCCTTAA
1 CCCTTAA
*
17062957 CCC-TAG
1 CCCTTAA
17062963 CCCTTAA
1 CCCTTAA
*
17062970 CCCCTAAA
1 -CCCTTAA
17062978 CCCTTAA
1 CCCTTAA
17062985 CCCTTAA
1 CCCTTAA
17062992 CCC
1 CCC
17062995 CAATCCTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
6 5 0.13
7 27 0.71
8 6 0.16
ACGTcount: A:0.29, C:0.48, G:0.02, T:0.21
Consensus pattern (7 bp):
CCCTTAA
Found at i:17062960 original size:14 final size:14
Alignment explanation
Indices: 17062943--17062994 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
17062933 AACTATAAAC
17062943 CCCTAAACCCTTAA
1 CCCTAAACCCTTAA
*
17062957 CCCT-AGCCCTTAA
1 CCCTAAACCCTTAA
17062970 CCCCTAAACCCTTAA
1 -CCCTAAACCCTTAA
*
17062985 CCCTTAACCC
1 CCCTAAACCC
17062995 CAATCCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 8 0.24
14 17 0.52
15 8 0.24
ACGTcount: A:0.29, C:0.48, G:0.02, T:0.21
Consensus pattern (14 bp):
CCCTAAACCCTTAA
Found at i:17063005 original size:28 final size:28
Alignment explanation
Indices: 17062940--17063007 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
17062930 ATTAACTATA
* *
17062940 AACCCCTAAACCCTTAACCCTAGCCCTT
1 AACCCCTAAACCCTTAACCCTAACCCTC
17062968 AACCCCTAAACCCTTAACCCTTAACCC-C
1 AACCCCTAAACCCTTAACCC-TAACCCTC
* *
17062996 AATCCTTAAACC
1 AACCCCTAAACC
17063008 ATATCCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 30 0.86
29 5 0.14
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (28 bp):
AACCCCTAAACCCTTAACCCTAACCCTC
Found at i:17063827 original size:114 final size:114
Alignment explanation
Indices: 17063678--17063964 Score: 285
Period size: 114 Copynumber: 2.5 Consensus size: 114
17063668 GTTTTTAGAC
* * * *
17063678 AAGCGCCACTAACGTCTCTAAAACCTAAACTAAAAACGACATA-ATTTTCTTAACAGTTTTGTGT
1 AAGCGCCACTAACGTCTCGAAAACATAAACTAAAAACGACA-ACATTTTCTTAACAGTTTTGCGG
* *
17063742 CGCTTCTAATAAAGCGCCACTAAAGCTTCG-CTACT-GCGGCGTTTTCCAAA
65 CGCTTATAATAAAGCGCCACTAAAGCTT-GACTA-TAGCAGCGTTTTCCAAA
* * * * *
17063792 AATCGCCACTAACGTCTCGAAAAGATAAA-TGAAAAACGGCAACGTTTTCTTAATAGTTTTGCGG
1 AAGCGCCACTAACGTCTCGAAAACATAAACT-AAAAACGACAACATTTTCTTAACAGTTTTGCGG
* * ** *
17063856 CGCTTATGATAAAGCGCCGCTAATTCTTGACTATAGCAGCGTTTTCCAAT
65 CGCTTATAATAAAGCGCCACTAAAGCTTGACTATAGCAGCGTTTTCCAAA
* * * * * ** * *
17063906 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGGTAGCGTTTTCTTAACAGTTT
1 AAGCGCCACTAACGTCTCGAAAACATAAACTAAAAACGACAACATTTTCTTAACAGTTT
17063965 CTTGCATATT
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
113 4 0.03
114 137 0.96
115 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (114 bp):
AAGCGCCACTAACGTCTCGAAAACATAAACTAAAAACGACAACATTTTCTTAACAGTTTTGCGGC
GCTTATAATAAAGCGCCACTAAAGCTTGACTATAGCAGCGTTTTCCAAA
Found at i:17064476 original size:30 final size:30
Alignment explanation
Indices: 17064408--17064479 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
17064398 TTTAAATTAG
* **
17064408 AAATGAT-AAAATTGTATTTTAATTTTTTA
1 AAATGATAAAAATTGTAATTTAATCATTTA
17064437 AAATGATAAAAATT-TAATTTAATCATTTA
1 AAATGATAAAAATTGTAATTTAATCATTTA
*
17064466 AATATTATAAAAAT
1 AA-ATGATAAAAAT
17064480 ATAAACTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATGATAAAAATTGTAATTTAATCATTTA
Found at i:17068007 original size:41 final size:41
Alignment explanation
Indices: 17067935--17068254 Score: 279
Period size: 41 Copynumber: 7.8 Consensus size: 41
17067925 TTTTTTAAAC
* *
17067935 CTTTAGCGGCGTTTTTGTGTAAGTGCCGCTAATGCTCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAT
* ** * *
17067976 CTTTCGCGGCGTTTTTGTGAAAGCGCGGCTAATGCCCCGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAT
* * *
17068017 CTTTAGCGGCGATTTCGTCTAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAT
* * * *
17068058 CTTTAGCGGCGTTTTTTTCTATGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAT
* * *
17068099 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATTCTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCCGAT
* ** * * *
17068140 CTTTAGCGGCGTTTCTAACTGAGCGCCACTAATTCGCT-TG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAA-T-GCTCCGAT
* * * *** *
17068181 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG-TATTTAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CCGAT
* * *
17068222 CTTTAGCGGCGTTTTTGCCGAAGCACCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
17068255 AGTAACAAAA
Statistics
Matches: 230, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 3 0.01
41 220 0.96
42 3 0.01
43 2 0.01
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCCGAT
Found at i:17068165 original size:123 final size:123
Alignment explanation
Indices: 17067935--17068214 Score: 318
Period size: 123 Copynumber: 2.3 Consensus size: 123
17067925 TTTTTTAAAC
* * * * *
17067935 CTTTAGCGGCGTTTTTGTGTAAGTGCCGCTAATGCTCCGATCTTTCGCGGCGTTTTTGTGAAAGC
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGAAAGC
* *
17068000 GCGGCTAATGCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCGCTAA-T-GCTCAGAT
66 GCCGCTAATGCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCACTAATTCGCT-AG-T
* * * *
17068058 CTTTAGCGGCGTTTTTTTCTATGCGCCGCTAATGCTCGGGTCTTTAGCGGCGTTTTTAT-ACAAG
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGA-AAG
* * * * *
17068122 CGCCGCTAATTCTCGGATCTTTAGCGGCG-TTTC-TAACTGAGCGCCACTAATTCGCTTGT
65 CGCCGCTAATGCCCCGATCTTTAGCGGCGATTTCGT--CTAAGCGCCACTAATTCGCTAGT
* *
17068181 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG
1 CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATG
17068215 TATTTACCTT
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
121 1 0.01
122 5 0.04
123 122 0.92
124 2 0.02
125 3 0.02
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCCGATCTTTAGCGGCGTTTTTATGAAAGC
GCCGCTAATGCCCCGATCTTTAGCGGCGATTTCGTCTAAGCGCCACTAATTCGCTAGT
Found at i:17068612 original size:25 final size:26
Alignment explanation
Indices: 17068579--17068634 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
17068569 GTTCGACTAA
17068579 TTTATACAAATTAAATATAT-A-TATAT
1 TTTATAC-AATTAAATAT-TGACTATAT
*
17068605 TTTA-ACAATTAATTATTGACTATAT
1 TTTATACAATTAAATATTGACTATAT
17068630 TTTAT
1 TTTAT
17068635 GATTAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
24 10 0.38
25 11 0.42
26 4 0.15
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTATACAATTAAATATTGACTATAT
Found at i:17068754 original size:15 final size:15
Alignment explanation
Indices: 17068733--17068770 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
17068723 TTTAAGGTTA
17068733 ATTTAGGGGTTAGAG
1 ATTTAGGGGTTAGAG
* *
17068748 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTAGAG
17068763 ATTTAGGG
1 ATTTAGGG
17068771 TTAATTTCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTAGAG
Found at i:17069053 original size:14 final size:14
Alignment explanation
Indices: 17069034--17069060 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17069024 ATTTTTTTGA
17069034 TATATATATATGGC
1 TATATATATATGGC
17069048 TATATATATATGG
1 TATATATATATGG
17069061 TTAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (14 bp):
TATATATATATGGC
Found at i:17070150 original size:37 final size:38
Alignment explanation
Indices: 17070080--17070151 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
17070070 AAATTTGATG
*
17070080 TTTAGGGGTTAGGAGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGGAGGATTTAGGGTGTAAGGGTTATGC
* *
17070118 TTTAGGGTTTA-GATGATTTAGGG-GTAATGGGTTA
1 TTTAGGGGTTAGGAGGATTTAGGGTGTAA-GGGTTA
17070152 GGGGTTATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 3 0.10
37 17 0.57
38 10 0.33
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.39
Consensus pattern (38 bp):
TTTAGGGGTTAGGAGGATTTAGGGTGTAAGGGTTATGC
Found at i:17070357 original size:35 final size:36
Alignment explanation
Indices: 17070318--17070387 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 36
17070308 AATTTATTTA
* *
17070318 TTTAT-CAATAAAATTAAATATTATAA-ATTTCAAAC
1 TTTATACAA-AAAAATAAATATTATAATATTACAAAC
17070353 TTTATACAAAAAAATAAATATTATAATATTACAAA
1 TTTATACAAAAAAATAAATATTATAATATTACAAA
17070388 TTAAAAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 21 0.68
36 10 0.32
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (36 bp):
TTTATACAAAAAAATAAATATTATAATATTACAAAC
Found at i:17073257 original size:31 final size:30
Alignment explanation
Indices: 17073222--17073806 Score: 546
Period size: 31 Copynumber: 19.2 Consensus size: 30
17073212 AATATAAGAT
17073222 ATTACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAA
* *
17073253 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
* *
17073284 ATTACATAACATACATTAATATTATACAGAA
1 ATTACATAACTTA-ATTAATATTATACATAA
* * *
17073315 ATTACATAACTTAGTT-A-ATTA-ATAT-T
1 ATTACATAACTTAATTAATATTATACATAA
17073341 A-TACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAA
* *
17073371 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
* * *
17073402 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
* * *
17073433 ATTACATAACTTAGTTATTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
*
17073464 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTA-AT-ATTATACATAA
* *
17073496 ATTACATAACATACATTAATATTATACAGAA
1 ATTACATAACTTA-ATTAATATTATACATAA
* * *
17073527 ATTACATAACTTAGTT-AT-TTA-ATAT-T
1 ATTACATAACTTAATTAATATTATACATAA
17073553 A-TACATAACTTACATTAATATTATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAA
* *
17073583 ATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
* * *
17073614 ATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
* * *
17073645 ATTACATAACTTAGTTATTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAA
*
17073676 ATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTA-AT-ATTATACATAA
* * * *
17073708 ATTACATAACTTAGTTAAT-TAATATTATAC
1 ATTACATAACTTAATTAATATTATA-CATAA
* * * *
17073738 ATAAC-TTAGTTATTTAATATTATACATAA
1 ATTACATAACTTAATTAATATTATACATAA
17073767 ATTACATAACTTAGTTATTTAATATTATACATAA
1 ATTACATAACTTA---A-TTAATATTATACATAA
*
17073801 CTTACA
1 ATTACA
17073807 ACTTACATAA
Statistics
Matches: 468, Mismatches: 60, Indels: 49
0.81 0.10 0.08
Matches are distributed among these distances:
25 22 0.05
26 6 0.01
27 7 0.01
28 14 0.03
29 30 0.06
30 34 0.07
31 277 0.59
32 53 0.11
33 4 0.01
34 21 0.04
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTACATAACTTAATTAATATTATACATAA
Found at i:17073291 original size:62 final size:61
Alignment explanation
Indices: 17073222--17073806 Score: 603
Period size: 62 Copynumber: 9.6 Consensus size: 61
17073212 AATATAAGAT
17073222 ATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * *
17073284 ATTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATAT---T--
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
17073341 A-TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
1 ATTACATAACTTA-ATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
17073402 ATTACATAACATAATTAGTTAATATACATAAATTACATAACTTAGTTATTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * * * *
17073464 ATTACATAACTTAATTAGTTAATTATACATAAATTACATAACATACATTA-ATATTATACAGAA
1 ATTACATAACTTAATTA-AT-ATTATACATAAATTACATAACTTA-ATTAGTTAATATACATAA
* * * * *
17073527 ATTACATAACTTAGTT-AT-TTA-ATAT-TA-TACATAACTTACATTA-ATATTATACATAA
1 ATTACATAACTTAATTAATATTATACATAAATTACATAACTTA-ATTAGTTAATATACATAA
* * *
17073583 ATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAATTAGTTAATATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
* * *
17073645 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAA
1 ATTACATAACTTAATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAA
* * * * *
17073708 ATTACATAACTTAGTT-A-ATTA-ATAT-TA-TACATAACTTAGTTATTTAATATTATACATAA
1 ATTACATAACTTAATTAATATTATACATAAATTACATAACTTAATTAGTT-A-A-TATACATAA
*
17073767 ATTACATAACTTAGTTATTTAATATTATACATAACTTACA
1 ATTACATAACTTA---A-TTAATATTATACATAAATTACA
17073807 ACTTACATAA
Statistics
Matches: 448, Mismatches: 47, Indels: 50
0.82 0.09 0.09
Matches are distributed among these distances:
56 92 0.21
57 18 0.04
58 6 0.01
59 34 0.08
60 6 0.01
61 11 0.02
62 192 0.43
63 74 0.17
64 4 0.01
65 4 0.01
66 3 0.01
68 4 0.01
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (61 bp):
ATTACATAACTTAATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAA
Found at i:17073345 original size:25 final size:22
Alignment explanation
Indices: 17073317--17073370 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
17073307 ATACAGAAAT
17073317 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTA---AATTAATATTA
*
17073342 TACATAACTTACATTAATATTA
1 TACATAACTTAAATTAATATTA
17073364 TACATAA
1 TACATAA
17073371 ATTACATAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 17 0.61
25 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (22 bp):
TACATAACTTAAATTAATATTA
Found at i:17073360 original size:22 final size:22
Alignment explanation
Indices: 17073332--17073377 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
17073322 AACTTAGTTA
*
17073332 ATTAATATTATACATAACTTAC
1 ATTAATATTATACATAAATTAC
17073354 ATTAATATTATACATAAATTAC
1 ATTAATATTATACATAAATTAC
17073376 AT
1 AT
17073378 AACTTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (22 bp):
ATTAATATTATACATAAATTAC
Found at i:17073573 original size:22 final size:22
Alignment explanation
Indices: 17073545--17073589 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17073535 ACTTAGTTAT
*
17073545 TTAATATTATACATAACTTACA
1 TTAATATTATACATAAATTACA
17073567 TTAATATTATACATAAATTACA
1 TTAATATTATACATAAATTACA
17073589 T
1 T
17073590 AACTTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAATATTATACATAAATTACA
Found at i:17073588 original size:212 final size:212
Alignment explanation
Indices: 17073222--17073773 Score: 949
Period size: 212 Copynumber: 2.6 Consensus size: 212
17073212 AATATAAGAT
* * *
17073222 ATTACATAACTTACATTA-ATATTATACATAAATTACATAACTTAATTAGTTAA-TATACATAAA
1 ATTACATAACTTA-GTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAA
*
17073285 TTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTAATTAATATTATACATAAC
65 TTACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAAC
17073350 TTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATA
130 TTACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATA
17073415 ATTAGTTAATATACATAA
195 ATTAGTTAATATACATAA
17073433 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
1 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
17073498 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACT
66 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACT
17073563 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
131 TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
17073628 TTAGTTAATATACATAA
196 TTAGTTAATATACATAA
17073645 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
1 ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
* * * ** *
17073710 TACATAACTTA-GTT-A-ATTA-ATA-TTA-TACATAACTTAGTTATTTAATATTATACATAAAT
66 TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACT
17073769 TACAT
131 TACAT
17073774 AACTTAGTTA
Statistics
Matches: 329, Mismatches: 10, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
206 38 0.12
207 1 0.00
208 2 0.01
209 4 0.01
210 4 0.01
211 48 0.15
212 232 0.71
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.39
Consensus pattern (212 bp):
ATTACATAACTTAGTTATTTAATATACATAAATTACATAACTTAATTAGTTAATTATACATAAAT
TACATAACATACATTAATATTATACAGAAATTACATAACTTAGTTATTTAATATTATACATAACT
TACATTAATATTATACATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACATAA
TTAGTTAATATACATAA
Found at i:17073744 original size:25 final size:25
Alignment explanation
Indices: 17073710--17073766 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
17073700 ATACATAAAT
17073710 TACATAACTTAGTTAATTAATATTA
1 TACATAACTTAGTTAATTAATATTA
*
17073735 TACATAACTTAGTTATTTAATATTA
1 TACATAACTTAGTTAATTAATATTA
17073760 TACATAA
1 TACATAA
17073767 ATTACATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (25 bp):
TACATAACTTAGTTAATTAATATTA
Found at i:17073818 original size:9 final size:9
Alignment explanation
Indices: 17073794--17073896 Score: 62
Period size: 9 Copynumber: 12.3 Consensus size: 9
17073784 TTTAATATTA
17073794 TACATAACT
1 TACATAACT
17073803 TAC--AACT
1 TACATAACT
17073810 TACATAACT
1 TACATAACT
**
17073819 TACATATTTT
1 TACATA-ACT
*
17073829 TA-ATTA-T
1 TACATAACT
* *
17073836 T-CGTAAAT
1 TACATAACT
17073844 TACATAACT
1 TACATAACT
*
17073853 TACATAATT
1 TACATAACT
*
17073862 TTCATAA--
1 TACATAACT
*
17073869 TAAATAACT
1 TACATAACT
17073878 TACATAA--
1 TACATAACT
17073885 TACATAACT
1 TACATAACT
17073894 TAC
1 TAC
17073897 GTAGCTTAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
7 23 0.32
8 2 0.03
9 43 0.61
10 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:17073826 original size:34 final size:33
Alignment explanation
Indices: 17073751--17073826 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
17073741 ACTTAGTTAT
* * *
17073751 TTAATATTATACATAAATTACATAACTTAGTTAT
1 TTAATATTATACATAAATTACA-AACTTAATAAC
*
17073785 TTAATATTATACATAACTTAC-AACTTACATAAC
1 TTAATATTATACATAAATTACAAACTTA-ATAAC
17073818 TTACATATT
1 TTA-ATATT
17073827 TTTAATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.17
33 5 0.14
34 25 0.69
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.42
Consensus pattern (33 bp):
TTAATATTATACATAAATTACAAACTTAATAAC
Found at i:17073881 original size:34 final size:34
Alignment explanation
Indices: 17073806--17073891 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
17073796 CATAACTTAC
* * ***
17073806 AACTTACATAACTTACATATTTTTAATTATTCGT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
* *
17073840 AAATTACATAACTTACATAATTTTCATAATAAAT
1 AACTTACATAACTTACATAATTTTAATAATAAAT
17073874 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
17073892 CTTACGTAGC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 7 0.16
34 37 0.84
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (34 bp):
AACTTACATAACTTACATAATTTTAATAATAAAT
Found at i:17073883 original size:16 final size:16
Alignment explanation
Indices: 17073864--17073896 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
17073854 ACATAATTTT
17073864 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
17073880 CATAATACATAACTTA
1 CATAATAAATAACTTA
17073896 C
1 C
17073897 GTAGCTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:17079430 original size:66 final size:65
Alignment explanation
Indices: 17079322--17079488 Score: 210
Period size: 66 Copynumber: 2.5 Consensus size: 65
17079312 TGAGCAAATT
* * *
17079322 ACACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCC
1 ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCC
17079386 A
65 A
* * *
17079387 GCTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCC
1 AC-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCC
17079452 A
65 A
* * * *
17079453 ACAGTAGCTTAAAGCAGATGCGGCAGCAAGAGAAGC
1 ACA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
17079489 AAAGGCGGCA
Statistics
Matches: 87, Mismatches: 12, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 81 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.14
Consensus pattern (65 bp):
ACACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
Found at i:17079537 original size:21 final size:21
Alignment explanation
Indices: 17079464--17079576 Score: 100
Period size: 21 Copynumber: 5.4 Consensus size: 21
17079454 CAGTAGCTTA
* * *
17079464 AAGCAGATGCGGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGAG
* *
17079485 AAGCAAAGGCGGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
* * *
17079506 AAGTACAGGCTGCAGCGAAAG
1 AAGCAGAGGCTGCAGCGAGAG
** *
17079527 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
** *
17079548 AAGCAGAGGCTAAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
17079569 AAGCAGAG
1 AAGCAGAG
17079577 TAGCGTCAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.39, C:0.17, G:0.40, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:17079997 original size:43 final size:42
Alignment explanation
Indices: 17079950--17080136 Score: 184
Period size: 43 Copynumber: 4.4 Consensus size: 42
17079940 GTTTTTGGTC
*
17079950 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAA
1 AAAGCGCCGCTAAAGATCAGGGTCTTT-GCGGCGTTTGTGGAA
* * * *
17079993 AAAGCGCCACTAAAGATCATGGTTTTTTGCGGCGTTTGT-GAG
1 AAAGCGCCGCTAAAGATCA-GGGTCTTTGCGGCGTTTGTGGAA
* * * *
17080035 AAAGCGCCGCTATAGATCAGAGTCTATTGCGGCGTTTGAGGTAT
1 AAAGCGCCGCTAAAGATCAGGGTCT-TTGCGGCGTTTGTGG-AA
*
17080079 AAA-CGCCGCTATAA-ATCAGGGTCTATTGCGGCGTTT-TAGATA
1 AAAGCGCCGCTA-AAGATCAGGGTCT-TTGCGGCGTTTGTGGA-A
*
17080121 AAAACGCCGCTAAAGA
1 AAAGCGCCGCTAAAGA
17080137 CCCTGATCTT
Statistics
Matches: 119, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
41 4 0.03
42 37 0.31
43 67 0.56
44 11 0.09
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCAGGGTCTTTGCGGCGTTTGTGGAA
Found at i:17080108 original size:85 final size:85
Alignment explanation
Indices: 17079950--17080136 Score: 202
Period size: 85 Copynumber: 2.2 Consensus size: 85
17079940 GTTTTTGGTC
* * *
17079950 AAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGAGGAAAAAGCGCCACTAAAGATCAGGG
* *
17080015 TTTTTTGCGGCGTTTGTGAG
66 TCTATTGCGGCGTTTGTGAG
* * * *
17080035 AAAGCGCCGCTATAGATCAGAGTCTATT-GCGGCGTTTGAGGTATAAA-CGCCGCTATAA-ATCA
1 AAAGCGCCGCTAAAGATAAGAGTCT-TTAGCGGCGTTTGAGG-AAAAAGCGCCACTA-AAGATCA
*
17080097 GGGTCTATTGCGGCGTTT-TAGATA
63 GGGTCTATTGCGGCGTTTGT-GA-G
*
17080121 AAAACGCCGCTAAAGA
1 AAAGCGCCGCTAAAGA
17080137 CCCTGATCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
84 1 0.01
85 62 0.73
86 22 0.26
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (85 bp):
AAAGCGCCGCTAAAGATAAGAGTCTTTAGCGGCGTTTGAGGAAAAAGCGCCACTAAAGATCAGGG
TCTATTGCGGCGTTTGTGAG
Found at i:17081162 original size:17 final size:17
Alignment explanation
Indices: 17081140--17081173 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
17081130 TTCCTAATAA
17081140 ATATTATAATTAT-TTAT
1 ATATTAT-ATTATATTAT
17081157 ATATTATATTATATTAT
1 ATATTATATTATATTAT
17081174 TGATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTATATTATATTAT
Found at i:17081393 original size:19 final size:20
Alignment explanation
Indices: 17081351--17081393 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
17081341 TTTAATACTT
*
17081351 AATTTAATTATAAAATATAG
1 AATTTAATTATAAAATATAA
17081371 AATTT-ATTAT-AAATATGAA
1 AATTTAATTATAAAATAT-AA
17081390 AATT
1 AATT
17081394 ATAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AATTTAATTATAAAATATAA
Found at i:17085914 original size:22 final size:23
Alignment explanation
Indices: 17085883--17085937 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
17085873 AAAAAAAACT
17085883 AAACTAAAATTACAACTAAAAA-A
1 AAACT-AAATTACAACTAAAAATA
* *
17085906 AACCTAAATTACAAGTAAAAATA
1 AAACTAAATTACAACTAAAAATA
17085929 AAACTAAAT
1 AAACTAAAT
17085938 AGGAGACGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.54
23 13 0.46
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (23 bp):
AAACTAAATTACAACTAAAAATA
Found at i:17085930 original size:28 final size:28
Alignment explanation
Indices: 17085872--17085931 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
17085862 TACGAGGAAC
* * *
17085872 AAAAAAAAACTAAACTAAAATTACAACT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
* * *
17085900 AAAAAAAACCTAAATTACAAGTAAAAAT
1 AAAAAAAAACTAAACTAAAAGTAAAAAT
17085928 AAAA
1 AAAA
17085932 CTAAATAGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.70, C:0.12, G:0.02, T:0.17
Consensus pattern (28 bp):
AAAAAAAAACTAAACTAAAAGTAAAAAT
Found at i:17092570 original size:2 final size:2
Alignment explanation
Indices: 17092563--17092588 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17092553 TTTCCTTCCT
17092563 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
17092589 AAACAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:17099852 original size:2 final size:2
Alignment explanation
Indices: 17099845--17099891 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
17099835 AGTGAGTCAA
17099845 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
17099887 AG AG A
1 AG AG A
17099892 TCCCTTTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:17103279 original size:10 final size:10
Alignment explanation
Indices: 17103263--17103317 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
17103253 TAACTATAAT
17103263 TAATTAATTA
1 TAATTAATTA
*
17103273 TATTTAA--A
1 TAATTAATTA
17103281 TAA-TAATTCA
1 TAATTAATT-A
17103291 -AATTTAATTA
1 TAA-TTAATTA
17103301 TAATTAATTA
1 TAATTAATTA
17103311 TAATTAA
1 TAATTAA
17103318 ATAATAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
7 3 0.08
8 3 0.08
9 2 0.05
10 22 0.59
11 7 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (10 bp):
TAATTAATTA
Found at i:17103420 original size:47 final size:47
Alignment explanation
Indices: 17103351--17103445 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
17103341 TTAATTCTTA
17103351 AGTCATTTCTTGTACTTAGCGAGATAACGTATTCACTACAGATAGTG
1 AGTCATTTCTTGTACTTAGCGAGATAACGTATTCACTACAGATAGTG
17103398 AGTCATTTCTTGTACTTAGCGAGATAACGTATTCACTACAGATAGTG
1 AGTCATTTCTTGTACTTAGCGAGATAACGTATTCACTACAGATAGTG
17103445 A
1 A
17103446 TACATGCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (47 bp):
AGTCATTTCTTGTACTTAGCGAGATAACGTATTCACTACAGATAGTG
Found at i:17114659 original size:17 final size:17
Alignment explanation
Indices: 17114629--17114661 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17114619 TCCTTTGTTG
17114629 CTTTTATTTCTCTTTTT
1 CTTTTATTTCTCTTTTT
17114646 CTTTT-TTTCTTCTTTT
1 CTTTTATTTC-TCTTTT
17114662 AAGAAACGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTATTTCTCTTTTT
Found at i:17118440 original size:124 final size:123
Alignment explanation
Indices: 17118229--17118463 Score: 389
Period size: 124 Copynumber: 1.9 Consensus size: 123
17118219 AAATCGCTTC
* * *
17118229 TACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGT
17118294 AGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATAAAACCGCTGA
66 AGTCATGTAAGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTATAAAACCGCTGA
* *
17118353 TACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
1 TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAG-
* *
17118418 TGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGT
65 TAGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGT
17118464 GTTTTTAATT
Statistics
Matches: 103, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 75 0.73
125 28 0.27
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (123 bp):
TACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGT
AGTCATGTAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAACCGCTGA
Found at i:17118491 original size:23 final size:23
Alignment explanation
Indices: 17118464--17118924 Score: 532
Period size: 23 Copynumber: 19.1 Consensus size: 23
17118454 AGCAAATAGT
17118464 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
17118487 GTTTTTAATTAAATTAGGTTAGT
1 GTTTTTAATTAAATTAGGTTAGG
*
17118510 GTTTTTAATTAAATTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118533 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
17118561 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
17118584 GTTTTTAATCAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118607 GTTTTTAATTAAATTAGGTTAGGATTAGG
1 GTTTTTAATT-AA--A--TTAGG-TTAGG
*
17118636 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
17118659 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
17118687 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118710 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118733 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
17118756 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
* *
17118779 GTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118802 GTTTTTAATTTAATTAAGTTAGGTTAGG
1 GTTTTTAA-TT-A--AA-TTAGGTTAGG
* * *
17118830 TTTTTTAATTAAGTTATGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118853 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
*
17118876 GTTTTTAATT-AAGTAGGGTTAGG
1 GTTTTTAATTAAATTA-GGTTAGG
17118899 GTTTTTAATTAAATTAGGTTAGG
1 GTTTTTAATTAAATTAGGTTAGG
17118922 GTT
1 GTT
17118925 AGGGTTTTTA
Statistics
Matches: 377, Mismatches: 34, Indels: 54
0.81 0.07 0.12
Matches are distributed among these distances:
22 8 0.02
23 262 0.69
24 20 0.05
25 3 0.01
26 4 0.01
27 10 0.03
28 53 0.14
29 17 0.05
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GTTTTTAATTAAATTAGGTTAGG
Found at i:17118558 original size:74 final size:74
Alignment explanation
Indices: 17118467--17118941 Score: 562
Period size: 74 Copynumber: 6.5 Consensus size: 74
17118457 AAATAGTGTT
* * *
17118467 TTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTAAATTATGTTAG
1 TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
17118532 GGTTTTTAA
66 GGTTTTTAA
* * * *
17118541 TTTAATTAAGTTAGGTTAGGTTTTTTAATTAAGTTATGTTAGGGTTTTTAATCAAATTAGGTTAG
1 TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
17118606 GGTTTTTAA
66 GGTTTTTAA
* * * * *
17118615 TTAAATTAGGTTAGGATTAGGGTTTTTAATT-AAGTAGGGTTAGGGTTTTTAATTTAATTAAGTT
1 TTTAATTAAGTTAGG-TTAGGGTTTTTAATTAAATTA-GGTTAGGGTTTTTAATTAAATTAGGTT
17118679 A-GGTTAGGTTT--
64 AGGGTT---TTTAA
*
17118690 TTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
17118755 GGTTTTTAA
66 GGTTTTTAA
* * * * *
17118764 -TTAAGT-AG---GGTTAGGGTTTTTAATTAAGTTATGTTAGGGTTTTTAATTTAATTAAGTTA-
1 TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
17118823 GGTTAGGTTT--
66 GGTT---TTTAA
* *
17118833 TTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AAGTAGGGTTA
1 TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTA-GGTTA
17118897 GGGTTTTTAA
65 GGGTTTTTAA
* * *
17118907 TTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAAT
1 TTTAATTAAGTTA-GGTTAGGGTTTTTAATTAAAT
17118942 AATGTCAAAA
Statistics
Matches: 341, Mismatches: 38, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
68 4 0.01
69 46 0.13
70 5 0.01
71 5 0.01
72 8 0.02
73 9 0.03
74 180 0.53
75 81 0.24
77 3 0.01
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (74 bp):
TTTAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAG
GGTTTTTAA
Found at i:17118600 original size:120 final size:121
Alignment explanation
Indices: 17118464--17118936 Score: 699
Period size: 120 Copynumber: 3.9 Consensus size: 121
17118454 AGCAAATAGT
* * *
17118464 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTAAATTA-TG
1 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AAGTAGGG
17118528 TTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGTTTTTTAATTAAGTTATGTTAGG
65 TTAGGGTTTTTAATTTAATTAAGTTAGGGTTAGGTTTTTTAATTAAGTTATGTTAGG
*
17118584 GTTTTTAATCAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGATTAGGGTTTTTAATTAAG
1 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATT-AA--A--TTAGG-TTAGGGTTTTTAATTAAG
17118649 TAGGGTTAGGGTTTTTAATTTAATTAAGTTA-GGTTAGGTTTTTTAATTAAGTTATGTTAGG
60 TAGGGTTAGGGTTTTTAATTTAATTAAGTTAGGGTTAGGTTTTTTAATTAAGTTATGTTAGG
17118710 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGT
1 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGT
* *
17118775 TAGGGTTTTTAA-TTAAGTTATGTTAGGGTT---TTTAATTTAATTAAGTTAGGTTAGG
66 TAGGGTTTTTAATTTAA-TTAAGTTAGGGTTAGGTTT--TTTAATTAAGTTATGTTAGG
* * *
17118830 TTTTTTAATTAAGTTATGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGT
1 GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGT
* * *
17118895 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
66 TAGGGTTTTTAATTTAATTAAGTTAGGGTTAGGTTTTTTAAT
17118937 CAAATAATGT
Statistics
Matches: 325, Mismatches: 13, Indels: 29
0.89 0.04 0.08
Matches are distributed among these distances:
118 3 0.01
119 4 0.01
120 180 0.55
121 20 0.06
123 4 0.01
125 11 0.03
126 103 0.32
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.49
Consensus pattern (121 bp):
GTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAGTAGGGT
TAGGGTTTTTAATTTAATTAAGTTAGGGTTAGGTTTTTTAATTAAGTTATGTTAGG
Found at i:17120773 original size:22 final size:22
Alignment explanation
Indices: 17120745--17120786 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17120735 ATTTATAACA
*
17120745 AAAAATAAATTAATAAAAATCT
1 AAAAATAAATAAATAAAAATCT
*
17120767 AAAAATACATAAATAAAAAT
1 AAAAATAAATAAATAAAAAT
17120787 ATCTTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAAATAAATAAATAAAAATCT
Found at i:17120783 original size:14 final size:15
Alignment explanation
Indices: 17120766--17120799 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17120756 AATAAAAATC
17120766 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
17120780 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
17120795 TAAAA
1 TAAAA
17120800 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:17121024 original size:22 final size:22
Alignment explanation
Indices: 17120994--17121035 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17120984 ATTTGAAGAT
*
17120994 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17121016 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17121036 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17121042 original size:30 final size:30
Alignment explanation
Indices: 17121007--17121065 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17120997 TTGAAGGAAA
* *
17121007 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
17121037 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
17121066 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:17121060 original size:52 final size:51
Alignment explanation
Indices: 17120985--17121087 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
17120975 TTAATATGGA
* * *
17120985 TTTGAAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
17121036 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTGA-AGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
17121088 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 5 0.11
52 32 0.70
53 9 0.20
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (51 bp):
TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:17121062 original size:22 final size:21
Alignment explanation
Indices: 17121037--17121114 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 21
17121027 ATTTGAGAGT
17121037 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGG-AA
17121059 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAA-GGAA
*
17121081 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGGAAGGAA
17121103 TTGAGAGAATTT
1 TTGAGAGAATTT
17121115 GTGACAGCCC
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
21 5 0.10
22 36 0.71
23 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAGAGAATTTTGGAAGGAA
Found at i:17123587 original size:48 final size:47
Alignment explanation
Indices: 17123444--17123918 Score: 703
Period size: 47 Copynumber: 10.1 Consensus size: 47
17123434 GAAATGATAG
*
17123444 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
17123491 TAAGGCCTAATGGCCGATGTGATG-A----AAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17123533 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTAATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-T-ATATGTGA
*
17123582 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATTTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
17123628 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGA
*
17123676 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17123723 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
17123772 TAGGGCCTAATGGCCGATGTGAATGAATGTGAAAGTGTATATAAGTGTG-
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATAT-A-TGTGA
17123821 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
17123868 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17123915 TAAG
1 TAAG
17123919 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 17, Indels: 30
0.89 0.04 0.07
Matches are distributed among these distances:
42 41 0.10
43 1 0.00
46 13 0.03
47 156 0.39
48 107 0.27
49 59 0.15
50 19 0.05
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:17123651 original size:95 final size:93
Alignment explanation
Indices: 17123444--17123918 Score: 692
Period size: 95 Copynumber: 5.0 Consensus size: 93
17123434 GAAATGATAG
*
17123444 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGGCCGAT
*
17123509 GTGATG-A----AAAGTGTATATACGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
17123533 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATTAATATGTGATAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA-T-ATATGTGATAGGCCTAATGGCCGA
*
17123598 TGTGATGAATGTGAAAGTGTATATATTTGA
64 TGTGATGAATGTGAAAGTGTATATATGTGA
*
17123628 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGATATACGTGATAAGGCCTAATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGAT-AGGCCTAATGGCCGA
*
17123693 TGTGATGAATGTGAAAGTGTATATACGTGA
64 TGTGATGAATGTGAAAGTGTATATATGTGA
17123723 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA-GGCCTAATGGCCG
17123788 ATGTGAATGAATGTGAAAGTGTATATAAGTGTG-
63 ATGTG-ATGAATGTGAAAGTGTATAT-A-TGTGA
* * * * *
17123821 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA-GGCCTAATGGCCGAT
* *
17123886 GTGATGGATGTGAAAGTGTATAAATGTGA
65 GTGATGAATGTGAAAGTGTATATATGTGA
17123915 TAAG
1 TAAG
17123919 TCCCGAAGGG
Statistics
Matches: 355, Mismatches: 15, Indels: 27
0.89 0.04 0.07
Matches are distributed among these distances:
89 38 0.11
90 23 0.06
91 9 0.03
93 4 0.01
94 13 0.04
95 151 0.43
96 56 0.16
97 21 0.06
98 37 0.10
99 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (93 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCGATG
TGATGAATGTGAAAGTGTATATATGTGA
Found at i:17124093 original size:37 final size:37
Alignment explanation
Indices: 17124037--17124115 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17124027 CCGAGCTCTA
* * *
17124037 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
17124074 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
17124111 AAGAC
1 AAGAC
17124116 TTCGTTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17126013 original size:28 final size:28
Alignment explanation
Indices: 17125977--17126044 Score: 127
Period size: 28 Copynumber: 2.4 Consensus size: 28
17125967 TAAGTGTGCG
*
17125977 GGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTTCACGGTTGTGAGATT
17126005 GGCACTAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTTCACGGTTGTGAGATT
17126033 GGCACTAAGTGT
1 GGCACTAAGTGT
17126045 GCGGGCTTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.13, G:0.32, T:0.31
Consensus pattern (28 bp):
GGCACTAAGTGTTCACGGTTGTGAGATT
Found at i:17126074 original size:29 final size:29
Alignment explanation
Indices: 17126032--17126105 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
17126022 GTTGTGAGAT
* *
17126032 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
17126061 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
17126090 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17126106 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:17126521 original size:40 final size:40
Alignment explanation
Indices: 17126418--17126679 Score: 284
Period size: 40 Copynumber: 6.6 Consensus size: 40
17126408 TTGAATGATG
* *
17126418 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * *
17126458 TCCGGACTAAGAT-CCGAAG-GCATT-GTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
17126497 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
17126537 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
17126577 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
17126617 TCCGTGCTCAA-CCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCT-AAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
17126657 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
17126680 ATCATGCTGG
Statistics
Matches: 193, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 24 0.12
40 156 0.81
41 12 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:17126895 original size:24 final size:25
Alignment explanation
Indices: 17126856--17126905 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
17126846 GTGTATTAAC
17126856 GAATGAATAAGAGCACTATGTATGT
1 GAATGAATAAGAGCACTATGTATGT
* * *
17126881 GAAT-AATTAGAGCACTGTGTGTGT
1 GAATGAATAAGAGCACTATGTATGT
17126905 G
1 G
17126906 CGAATTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (25 bp):
GAATGAATAAGAGCACTATGTATGT
Found at i:17130201 original size:47 final size:47
Alignment explanation
Indices: 17130135--17130565 Score: 686
Period size: 47 Copynumber: 9.1 Consensus size: 47
17130125 GAAATGATAG
*
17130135 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17130182 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
17130231 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
17130277 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17130324 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
17130373 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
17130421 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17130468 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
17130515 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
17130562 TAAG
1 TAAG
17130566 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 15, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 11 0.03
47 215 0.59
48 82 0.23
49 55 0.15
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:17130300 original size:95 final size:93
Alignment explanation
Indices: 17130137--17130565 Score: 680
Period size: 95 Copynumber: 4.5 Consensus size: 93
17130127 AATGATAGTA
*
17130137 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
17130202 GATGAATGTGAAAGTGTATATATATGTGAT
66 GATGAATGTGAAAGTG--TATATATGTGAT
*
17130232 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGT
1 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
17130297 GATGAATGTGAAAGTGTATATACGTGAT
66 GATGAATGTGAAAGTGTATATATGTGAT
17130325 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-AGGCCTAATGGCCGA
1 -AGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGA
17130389 TGTGATGAATGTGAAAGTGTATATATATGTGAT
63 TGTGATGAATGTGAAAGTG--TATATATGTGAT
17130422 AGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
1 A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
*
17130487 TGATGAATGTGAAAGTGTATATATGTGAC
65 TGATGAATGTGAAAGTGTATATATGTGAT
* * * * * *
17130516 AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 A-GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
17130566 TCCCGAAGGG
Statistics
Matches: 317, Mismatches: 10, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
93 11 0.03
94 89 0.28
95 127 0.40
96 46 0.15
97 44 0.14
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (93 bp):
AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
GATGAATGTGAAAGTGTATATATGTGAT
Found at i:17130391 original size:142 final size:142
Alignment explanation
Indices: 17130135--17130565 Score: 731
Period size: 142 Copynumber: 3.0 Consensus size: 142
17130125 GAAATGATAG
17130135 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
17130200 GTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
17130265 GTATATACGTGA
131 GTATATATGTGA
17130277 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
17130342 GTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
66 GTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
17130407 GTATATATATGTGA
131 G--TATATATGTGA
* *
17130421 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* * * * * *
17130486 GTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATA-GGCCTAATGGCCGATGTGATGAATGTGAAAG
*
17130549 TGTATAAATGTGA
130 TGTATATATGTGA
17130562 TAAG
1 TAAG
17130566 TCCCGAAGGG
Statistics
Matches: 275, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
141 13 0.05
142 143 0.52
143 28 0.10
144 91 0.33
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.29
Consensus pattern (142 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGA
Found at i:17130739 original size:36 final size:37
Alignment explanation
Indices: 17130684--17130761 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
17130674 CCGAGCTCTA
* *
17130684 AAGACCCAATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
17130720 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
17130757 AAGAC
1 AAGAC
17130762 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:17133680 original size:14 final size:15
Alignment explanation
Indices: 17133663--17133696 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17133653 AATAAATATC
17133663 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
17133677 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
17133692 TAAAA
1 TAAAA
17133697 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:17133817 original size:27 final size:28
Alignment explanation
Indices: 17133794--17133847 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
17133784 TTGAAAATAT
17133794 TAAAAATTTTAAAATTAT-TTAAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAAA
*
17133821 TAAAAATTTTAAAATTTTCTTAAAAAA
1 TAAAAATTTTAAAATTATCTTAAAAAA
17133848 TGAAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATCTTAAAAAAA
Found at i:17133920 original size:22 final size:22
Alignment explanation
Indices: 17133890--17133931 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17133880 ATTTGAAGAT
*
17133890 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17133912 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17133932 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17133938 original size:30 final size:30
Alignment explanation
Indices: 17133903--17133961 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17133893 TTGAAGGAAA
* *
17133903 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
17133933 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
17133962 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:17133956 original size:52 final size:51
Alignment explanation
Indices: 17133881--17133983 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
17133871 TTAATATGGA
* * *
17133881 TTTGAAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
17133932 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTGA-AGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
17133984 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 5 0.11
52 32 0.70
53 9 0.20
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (51 bp):
TTTGAAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:17133958 original size:22 final size:22
Alignment explanation
Indices: 17133933--17134024 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
17133923 ATTTGAGAGT
17133933 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
*
17133955 TTGAGAGAAATTTT-GAAGGGAA
1 TTGAGAG-AATTTTGGAAGGAAA
*
17133977 TTGAGAGAATTTTTGAAAGG-AA
1 TTGAGAGAA-TTTTGGAAGGAAA
*
17133999 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
17134021 TTGA
1 TTGA
17134025 TATTGAATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.16
22 42 0.68
23 10 0.16
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:17133982 original size:44 final size:44
Alignment explanation
Indices: 17133933--17134024 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
17133923 ATTTGAGAGT
* *
17133933 TTGAGAGAA-TTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGG-AATTGAGAGAAATTTTGAAGGAAA
*
17133977 TTGAGAGAATTTTTGAAAGGAATTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
17134021 TTGA
1 TTGA
17134025 TATTGAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 35 0.80
45 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (44 bp):
TTGAGAGAATTTTTGAAAGGAATTGAGAGAAATTTTGAAGGAAA
Found at i:17135315 original size:15 final size:14
Alignment explanation
Indices: 17135287--17135320 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
17135277 AATAAATATC
17135287 TAAAAATACATAAA
1 TAAAAATACATAAA
*
17135301 TAAAAATATCTTAAA
1 TAAAAATA-CATAAA
17135316 TAAAA
1 TAAAA
17135321 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAAATACATAAA
Found at i:17135436 original size:18 final size:19
Alignment explanation
Indices: 17135406--17135442 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17135396 ATCCGGCCAT
17135406 TTTTGAAAATA-TTAAAAA
1 TTTTGAAAATATTTAAAAA
17135424 TTTT-AAAATTATTTAAAAA
1 TTTTGAAAA-TATTTAAAAA
17135443 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTTGAAAATATTTAAAAA
Found at i:17135547 original size:22 final size:22
Alignment explanation
Indices: 17135517--17135558 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17135507 ATTTGGAGAT
*
17135517 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17135539 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17135559 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17135566 original size:30 final size:30
Alignment explanation
Indices: 17135530--17135588 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
17135520 TTGAAGGAAA
* *
17135530 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
17135560 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
17135589 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:17135585 original size:22 final size:22
Alignment explanation
Indices: 17135560--17135651 Score: 139
Period size: 22 Copynumber: 4.2 Consensus size: 22
17135550 ATTTGAGAGT
*
17135560 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
17135582 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
* *
17135604 TTGAGGGAATTTTTGAAAGAAA
1 TTGAGAGAATTTTTGAAGGAAA
17135626 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
17135648 TTGA
1 TTGA
17135652 TATTGAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:17135608 original size:52 final size:51
Alignment explanation
Indices: 17135508--17135651 Score: 135
Period size: 52 Copynumber: 2.9 Consensus size: 51
17135498 TTAATATGGA
* * *
17135508 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
17135559 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TT--GA-
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAG-AATTTTGGAA-GGAATTTGAGAG
* * * *
17135608 ---GG-GAATTTTTGAAAGAAATTGAGAGAATTTTTGAAGGAAATTGA
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGA
17135652 TATTGAATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
43 10 0.12
44 26 0.32
45 1 0.01
46 1 0.01
50 2 0.02
51 4 0.05
52 28 0.35
53 9 0.11
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTTGAGAG
Found at i:17137204 original size:14 final size:15
Alignment explanation
Indices: 17137187--17137220 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17137177 AATAAATATC
17137187 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
17137201 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
17137216 TAAAA
1 TAAAA
17137221 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:17137446 original size:22 final size:22
Alignment explanation
Indices: 17137416--17137457 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17137406 ATTTGGAGAT
*
17137416 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
17137438 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
17137458 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:17137465 original size:30 final size:29
Alignment explanation
Indices: 17137429--17137516 Score: 149
Period size: 30 Copynumber: 3.0 Consensus size: 29
17137419 TTGAAGGAAA
*
17137429 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAA-TTGAGAGT
17137459 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
1 TTGAGAGAATTTTGGAAGG-AATTGAGAGT
17137489 TTGAGAGAATTTTGGAAGGAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTGAGAG
17137517 AATTTTTGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 9 0.16
30 45 0.80
31 2 0.04
ACGTcount: A:0.34, C:0.00, G:0.35, T:0.31
Consensus pattern (29 bp):
TTGAGAGAATTTTGGAAGGAATTGAGAGT
Found at i:17137529 original size:22 final size:21
Alignment explanation
Indices: 17137489--17137557 Score: 111
Period size: 22 Copynumber: 3.2 Consensus size: 21
17137479 AATTGAGAGT
*
17137489 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTTGAAGGAA
17137510 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAATTTTTG-AAGGAA
17137532 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGG-AA
17137554 TTGA
1 TTGA
17137558 TATTGAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
21 18 0.40
22 27 0.60
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTTGAAGGAA
Found at i:17147844 original size:25 final size:25
Alignment explanation
Indices: 17147814--17147892 Score: 68
Period size: 25 Copynumber: 3.1 Consensus size: 25
17147804 AATTTTCTCC
*
17147814 TTCTTTCTTTCTCTTTTTCTTTTCT
1 TTCTTTCTTTCTCTATTTCTTTTCT
* * * **
17147839 TTCTTTCCTTCTATGTTTAGTTTCT
1 TTCTTTCTTTCTCTATTTCTTTTCT
* *
17147864 TTCTCTCCTTTTTCTATTTCTTTTTCT
1 TTCT-TTCTTTCTCTATTTC-TTTTCT
17147891 TT
1 TT
17147893 TACTTAATTA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 24 0.60
26 9 0.22
27 7 0.17
ACGTcount: A:0.04, C:0.23, G:0.03, T:0.71
Consensus pattern (25 bp):
TTCTTTCTTTCTCTATTTCTTTTCT
Found at i:17147883 original size:21 final size:21
Alignment explanation
Indices: 17147814--17147886 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
17147804 AATTTTCTCC
17147814 TTCTTTCTTTCTCTTTTTCT-T
1 TTCTTTCTTTC-CTTTTTCTAT
*
17147835 TTCTTTCTTTCCTTCTATGTTTAGT
1 TTCTTTCTTTCCTT-T-T-TCTA-T
*
17147860 TTCTTTCTCTCCTTTTTCTAT
1 TTCTTTCTTTCCTTTTTCTAT
17147881 TTCTTT
1 TTCTTT
17147887 TTCTTTTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
20 3 0.07
21 19 0.43
22 4 0.09
23 3 0.07
24 1 0.02
25 14 0.32
ACGTcount: A:0.04, C:0.23, G:0.03, T:0.70
Consensus pattern (21 bp):
TTCTTTCTTTCCTTTTTCTAT
Found at i:17147917 original size:5 final size:5
Alignment explanation
Indices: 17147907--17148006 Score: 200
Period size: 5 Copynumber: 20.0 Consensus size: 5
17147897 TAATTATTAT
17147907 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
17147957 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
17148007 TACTTAACAT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 95 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:17148058 original size:38 final size:40
Alignment explanation
Indices: 17147988--17148070 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
17147978 TATAATATAA
17147988 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
1 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
* * *
17148028 TATAATATTATATTATATAT-TTTAAC-TTTAAGTTTTAT
1 TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
*
17148066 AATAA
1 TATAA
17148071 AATACACTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.41
39 5 0.13
40 18 0.46
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (40 bp):
TATAATATAATATAATATATACTTAACATTTAAGTTTTAT
Found at i:17149873 original size:21 final size:21
Alignment explanation
Indices: 17149847--17149924 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
17149837 CACAGTTTGT
*
17149847 TCACACGACCATTTGACCCAC
1 TCACACGACCATGTGACCCAC
* *
17149868 TCACACGGCAATGTGACCCAC
1 TCACACGACCATGTGACCCAC
*
17149889 TCACAC-AGCCATGTGAACCAC
1 TCACACGA-CCATGTGACCCAC
* *
17149910 TCACATGAACATGTG
1 TCACACGACCATGTG
17149925 GCTAACCTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
21 46 0.98
22 1 0.02
ACGTcount: A:0.31, C:0.36, G:0.15, T:0.18
Consensus pattern (21 bp):
TCACACGACCATGTGACCCAC
Found at i:17156062 original size:20 final size:20
Alignment explanation
Indices: 17156021--17156065 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
17156011 AAAAAAAATC
*
17156021 TTAAAAATAAATATAAATCA
1 TTAAAAATAAATATAAAACA
*
17156041 TTAAAAATATAT-TAAAAACA
1 TTAAAAATAAATAT-AAAACA
17156061 TTAAA
1 TTAAA
17156066 TCATCAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAATAAATATAAAACA
Found at i:17168058 original size:42 final size:42
Alignment explanation
Indices: 17167974--17168238 Score: 289
Period size: 42 Copynumber: 6.5 Consensus size: 42
17167964 GCCGGCACTT
* * * *
17167974 AGCCTGCTAGACATATAGTCTGA-AATGTTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
*
17168015 AGCCTGCTAGATGTAAAGTCTGATATTGTTTCACTGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
* * * *
17168057 AGCCTGCTAGACGTAAAGTTTAAAATTATTTCACTGGC----
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
* *
17168095 A---T--TAGACGTAAAATCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
* * * *
17168132 AGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
* *
17168174 AGTCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
* *
17168216 AGCCTGCGAGGCGTAAAGTCTGA
1 AGCCTGCTAGACGTAAAGTCTGA
17168239 AATCTCAATT
Statistics
Matches: 185, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
33 26 0.14
35 1 0.01
37 1 0.01
38 1 0.01
40 1 0.01
41 20 0.11
42 135 0.73
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (42 bp):
AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCATTA
Found at i:17168150 original size:75 final size:78
Alignment explanation
Indices: 17168021--17168241 Score: 277
Period size: 75 Copynumber: 2.8 Consensus size: 78
17168011 ATTAAGCCTG
* * *
17168021 CTAGATGTAAAGTCTGATATTGTTTCACTGGCATTAAGCCTGCTAGACGTAAAGTTTAAAATTAT
1 CTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTAAAATTAT
*
17168086 TTCACTGGC-A-T
66 TTCACCGGCAACT
* * *
17168097 -TAGACGTAAAATCTGATATTGTTTCACTGGCAATAAGCCTACTAGACGTAAAGTCTGAAATTAT
1 CTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTAAAATTAT
17168161 TTCACCGGCATTAAGTCT
66 TTCACCGGC---AA--CT
* * *
17168179 GCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCGAGGCGTAAAGTCTGAAAT
1 -CTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTAAAAT
17168242 CTCAATTTCA
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
75 66 0.53
79 1 0.01
82 1 0.01
84 57 0.46
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (78 bp):
CTAGACGTAAAGTCTGATATTGTTTCACTGGCAATAAGCCTGCTAGACGTAAAGTCTAAAATTAT
TTCACCGGCAACT
Found at i:17168206 original size:117 final size:117
Alignment explanation
Indices: 17167999--17168212 Score: 320
Period size: 117 Copynumber: 1.8 Consensus size: 117
17167989 TAGTCTGAAA
* * * * * *
17167999 TGTTTCACCGGCATTAAGCCTGCTAGATGTAAAGTCTGATATTGTTTCACTGGCATTAAGCCTGC
1 TGTTTCACCGGCAATAAGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGC
*
17168064 TAGACGTAAAGTTTAAAATTATTTCACTGGCATTAGACGTAAAATCTGATAT
66 TAGACGTAAAGTCTAAAATTATTTCACTGGCATTAGACGTAAAATCTGATAT
* *
17168116 TGTTTCACTGGCAATAAGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGTCTGC
1 TGTTTCACCGGCAATAAGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGC
* * *
17168181 TAGACGTAAAGTCTGATATTGTTTCACTGGCA
66 TAGACGTAAAGTCTAAAATTATTTCACTGGCA
17168213 ATAAGCCTGC
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 85 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (117 bp):
TGTTTCACCGGCAATAAGCCTACTAGACGTAAAGTCTGAAATTATTTCACCGGCATTAAGCCTGC
TAGACGTAAAGTCTAAAATTATTTCACTGGCATTAGACGTAAAATCTGATAT
Found at i:17169202 original size:4 final size:4
Alignment explanation
Indices: 17169186--17169245 Score: 111
Period size: 4 Copynumber: 15.0 Consensus size: 4
17169176 CACAATAGAT
*
17169186 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17169234 ATAC ATAC ATAC
1 ATAC ATAC ATAC
17169246 TGATTTAATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17174528 original size:21 final size:21
Alignment explanation
Indices: 17174500--17174554 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
17174490 AACAGCGGTG
*
17174500 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTGTA
* *
17174521 GCGGTGAGATTGGGTACTGTA
1 GCAGTGAGATTAGGTACTGTA
17174542 GCAGTGAGATTAG
1 GCAGTGAGATTAG
17174555 AAACTGTGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTGTA
Found at i:17174560 original size:21 final size:21
Alignment explanation
Indices: 17174500--17174561 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
17174490 AACAGCGGTG
*
17174500 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGATACTGTA
* * *
17174521 GCGGTGAGATTGGGTACTGTA
1 GCAGTGAGATTAGATACTGTA
*
17174542 GCAGTGAGATTAGAAACTGT
1 GCAGTGAGATTAGATACTGT
17174562 GGTGGAGTGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.34, T:0.29
Consensus pattern (21 bp):
GCAGTGAGATTAGATACTGTA
Found at i:17179942 original size:24 final size:28
Alignment explanation
Indices: 17179892--17179964 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 28
17179882 TGAAATAAAA
17179892 AATATATAAATAAGTAAATAATAATATT
1 AATATATAAATAAGTAAATAATAATATT
*
17179920 AATATAT-AATAAG-ACA-AAT-ATATTT
1 AATATATAAATAAGTAAATAATAATA-TT
* *
17179945 AAAATTTAAATAAGTAAATA
1 AATATATAAATAAGTAAATA
17179965 GAAATAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.08
25 10 0.27
26 8 0.22
27 8 0.22
28 8 0.22
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (28 bp):
AATATATAAATAAGTAAATAATAATATT
Found at i:17179998 original size:15 final size:15
Alignment explanation
Indices: 17179978--17180008 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17179968 ATAGAAATAT
17179978 AATAATAATAATAAC
1 AATAATAATAATAAC
*
17179993 AATAATCATAATAAC
1 AATAATAATAATAAC
17180008 A
1 A
17180009 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:17181754 original size:94 final size:94
Alignment explanation
Indices: 17181612--17181786 Score: 314
Period size: 94 Copynumber: 1.9 Consensus size: 94
17181602 AACCTTAGGG
* *
17181612 AGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCG
1 AGATAAGACTTGTTATGATAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCA
17181677 TTTTAATCCACTCCACCACAACTTCAAGA
66 TTTTAATCCACTCCACCACAACTTCAAGA
* *
17181706 AGATAGGACTTGTTATGATAGATTTAATCTGACCTACTGCAACTTCAGAGGTATAGGATTCATCA
1 AGATAAGACTTGTTATGATAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCA
17181771 TTTTAATCCACTCCAC
66 TTTTAATCCACTCCAC
17181787 TGTAACTTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (94 bp):
AGATAAGACTTGTTATGATAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCA
TTTTAATCCACTCCACCACAACTTCAAGA
Found at i:17181762 original size:50 final size:48
Alignment explanation
Indices: 17181618--17181763 Score: 126
Period size: 50 Copynumber: 3.0 Consensus size: 48
17181608 AGGGAGATAA
17181618 GACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGTATAG
1 GACTTGTTAT-GTAGATTTAAT-CGACCTACTGCAACTTCAGAGGTATAG
* * * ** *
17181668 GA--T-TCATCGT---TTTAATCCACTCCACCACAACTTCAAGAAG-ATAG
1 GACTTGTTAT-GTAGATTTAATCGAC-CTACTGCAACTTC-AGAGGTATAG
17181712 GACTTGTTATGATAGATTTAATCTGACCTACTGCAACTTCAGAGGTATAG
1 GACTTGTTATG-TAGATTTAATC-GACCTACTGCAACTTCAGAGGTATAG
17181762 GA
1 GA
17181764 TTCATCATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 22
0.67 0.12 0.21
Matches are distributed among these distances:
43 3 0.04
44 22 0.31
45 4 0.06
46 2 0.03
47 9 0.12
48 1 0.01
49 4 0.06
50 25 0.35
51 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (48 bp):
GACTTGTTATGTAGATTTAATCGACCTACTGCAACTTCAGAGGTATAG
Found at i:17181794 original size:44 final size:43
Alignment explanation
Indices: 17181634--17181794 Score: 126
Period size: 44 Copynumber: 3.5 Consensus size: 43
17181624 TTATGGTAGA
* *
17181634 TTTAATCCGACCTACTGCAACTTCAGAGGTATAGGATTCATCGT
1 TTTAATCC-ACCCACTGCAACTTCAGAGGTATAGGATTCATCAT
** * * *
17181678 TTTAATCCACTCCACCACAACTTCAAGAAG-ATAGGACTTGTTATGAT
1 TTTAATCCAC-CCACTGCAACTTC-AGAGGTATAGGA--T-TCATCAT
* *
17181725 AGATTTAATCTGACCTACTGCAACTTCAGAGGTATAGGATTCATCAT
1 ---TTTAATC-CACCCACTGCAACTTCAGAGGTATAGGATTCATCAT
*
17181772 TTTAATCCACTCCACTGTAACTT
1 TTTAATCCAC-CCACTGCAACTT
17181795 AAAGGAGATT
Statistics
Matches: 89, Mismatches: 17, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
43 4 0.04
44 41 0.46
45 4 0.04
46 1 0.01
47 9 0.10
48 1 0.01
49 4 0.04
50 23 0.26
51 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (43 bp):
TTTAATCCACCCACTGCAACTTCAGAGGTATAGGATTCATCAT
Found at i:17181873 original size:44 final size:45
Alignment explanation
Indices: 17181825--17181996 Score: 267
Period size: 44 Copynumber: 3.9 Consensus size: 45
17181815 CATCAATCTA
*
17181825 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAACCGG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTG
* * **
17181869 CTCCACTGCAACTTCAGGGAGATAAGGTTGGTTATCTTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTG
17181914 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTG
* *
17181958 CTCCACTACAACTTCAGGGAGATAAGGTTGGTTATCTTC
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTTATCTTC
17181997 GAGGAAACAT
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 69 0.60
45 46 0.40
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAACCTG
Found at i:17181932 original size:89 final size:89
Alignment explanation
Indices: 17181825--17181995 Score: 324
Period size: 89 Copynumber: 1.9 Consensus size: 89
17181815 CATCAATCTA
*
17181825 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCGGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCGGCTCCACTACAACTTCAGGGAG
17181890 ATAAGGTTGGTTATCTTTAGTCTG
66 ATAAGGTTGGTTATCTTTAGTCTG
*
17181914 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACTACAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCGGCTCCACTACAACTTCAGGGAG
17181979 ATAAGGTTGGTTATCTT
66 ATAAGGTTGGTTATCTT
17181996 CGAGGAAACA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (89 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCGGCTCCACTACAACTTCAGGGAG
ATAAGGTTGGTTATCTTTAGTCTG
Found at i:17182206 original size:88 final size:88
Alignment explanation
Indices: 17182104--17182272 Score: 250
Period size: 88 Copynumber: 1.9 Consensus size: 88
17182094 GTCTGATGCG
* * * *
17182104 ATCTGCTCTACTACAACTTCAGAGAGATAAGATCTATCATTTTAATCCACTCTACT-ACAACTTT
1 ATCTGCTCCACTACAACTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCACTGA-AACTTA
* *
17182168 AGGGAGATAGGATTGGTTTCTTCA
65 AAGGAGATAGGACTGGTTTCTTCA
* *
17182192 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCCGCTCCACTGAAACTTAA
1 ATCTGCTCCACTACAACTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCACTGAAACTTAA
17182257 AGGAGATAGGACTGGT
66 AGGAGATAGGACTGGT
17182273 GTTTTCGATC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
88 71 0.99
89 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTGCTCCACTACAACTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCACTGAAACTTAA
AGGAGATAGGACTGGTTTCTTCA
Found at i:17182244 original size:44 final size:44
Alignment explanation
Indices: 17182108--17182264 Score: 149
Period size: 44 Copynumber: 3.6 Consensus size: 44
17182098 GATGCGATCT
* * *
17182108 GCTCTACTACAACTTCAGAGAGATAAGATCTATCATTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCC
* * * * *** *
17182152 ACTCTACTACAACTTTAGGGAGATAGGATTGGT--TTCTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCCATCATT-TT-AATCC
17182196 GCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCC
* *
17182240 GCTCCACTGA-AACTTAAAGGAGATA
1 GCTCCACT-ACAACTTCAGGGAGATA
17182265 GGACTGGTGT
Statistics
Matches: 90, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 81 0.90
45 3 0.03
46 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCC
Found at i:17182312 original size:88 final size:88
Alignment explanation
Indices: 17182104--17182312 Score: 199
Period size: 88 Copynumber: 2.4 Consensus size: 88
17182094 GTCTGATGCG
* * * * * * *
17182104 ATCTGCTCTACTACAACTTCA-GAGAGATAAGATCTATCATTTTAATCCACTCTACTACAACTTT
1 ATCTACTCCACTACAACTACAGGA-AGACAAGATCCATCATTTTAATCCACTCCACTACAACTTA
* *
17182168 AGGGAGATAGGATTGGTTTCTTCA
65 AAGGAGATAGGACTGGTTTCTTCA
* * * * *
17182192 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCCATCATTTTAATCCGCTCCACTGA-AACTTA
1 ATCTACTCCACTACAACTACAGGAAGACAAGATCCATCATTTTAATCCACTCCACT-ACAACTTA
*
17182256 AAGGAGATAGGACTGGTGTT-TTCG
65 AAGGAGATAGGACTGGT-TTCTTCA
* * * *
17182280 ATCTACTTCACTGCTAGTACAGGAAGACAAGAT
1 ATCTACTCCACTACAACTACAGGAAGACAAGAT
17182313 ATACAATCTT
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
88 97 0.96
89 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (88 bp):
ATCTACTCCACTACAACTACAGGAAGACAAGATCCATCATTTTAATCCACTCCACTACAACTTAA
AGGAGATAGGACTGGTTTCTTCA
Found at i:17182389 original size:88 final size:88
Alignment explanation
Indices: 17182268--17182449 Score: 292
Period size: 88 Copynumber: 2.1 Consensus size: 88
17182258 GGAGATAGGA
* *
17182268 CTGGTGTTTTCGATCTACTTCACTGCTAGTACAGGAAGACAAGATATACAATCTTCAACCTACTC
1 CTGGTGTTTTCGATCTACTTCACTACCAGTACAGGAAGACAAGATATACAATCTTCAACCTACTC
17182333 AACTACTGCTCAGGGAAATAAGG
66 AACTACTGCTCAGGGAAATAAGG
* * *
17182356 CTGGTGTTTTCGATCTGCTTTACTACCAGTACAGGAAGACAAGATCTACAATCTTCAACCTACTC
1 CTGGTGTTTTCGATCTACTTCACTACCAGTACAGGAAGACAAGATATACAATCTTCAACCTACTC
* *
17182421 TACTACTGCTCAGGGAGATAAGG
66 AACTACTGCTCAGGGAAATAAGG
*
17182444 TTGGTG
1 CTGGTG
17182450 GCTTAAATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
CTGGTGTTTTCGATCTACTTCACTACCAGTACAGGAAGACAAGATATACAATCTTCAACCTACTC
AACTACTGCTCAGGGAAATAAGG
Found at i:17182498 original size:88 final size:87
Alignment explanation
Indices: 17182297--17182526 Score: 225
Period size: 88 Copynumber: 2.6 Consensus size: 87
17182287 TCACTGCTAG
*
17182297 TACAGGAAGACAAGATAT-ACAATCTTCAACCTACTCAACTACTGCTCAGGGAAATAAGGCTGGT
1 TACAGGAAGACAAGAT-TCACAATCTTCAACCTACTCAACTACTGCTCAGGGAGATAAGGCTGGT
** **
17182361 GTTTTCGATCTGCTTTACTACCA
65 GGCTTAAATCTGCTTTACTACCA
* *
17182384 GTACAGGAAGACAAGA-TCTACAATCTTCAACCTACTCTACTACTGCTCAGGGAGATAAGGTTGG
1 -TACAGGAAGACAAGATTC-ACAATCTTCAACCTACTCAACTACTGCTCAGGGAGATAAGGCTGG
*
17182448 TGGCTTAAATTTGCTTCCCTACTACC-
64 TGGCTTAAATCTGCTT---TACTACCA
** * * * * * * *
17182474 T-TGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TACAGGAAGACAAGATTCACAATCTTCAACCTACTCAACTACTGCTCAGGGAGA
17182527 CAAGATTTAC
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
86 1 0.01
88 108 0.91
89 3 0.03
91 7 0.06
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (87 bp):
TACAGGAAGACAAGATTCACAATCTTCAACCTACTCAACTACTGCTCAGGGAGATAAGGCTGGTG
GCTTAAATCTGCTTTACTACCA
Found at i:17182532 original size:44 final size:44
Alignment explanation
Indices: 17182484--17182570 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
17182474 TTGGGAAGAT
* * * *
17182484 AAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAC
1 AAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGGGAGAC
* **
17182528 AAGATTTACAATCTTCAACCTACTCCACTGTTGCTTAGGGAGA
1 AAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGGGAGA
17182571 TAGGATTGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
AAGATTCACAATCTTCAACCTACTCCACTACTGCTTAGGGAGAC
Done.