Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 59 of 295
Found at i:17277245 original size:86 final size:84
Alignment explanation
Indices: 17277144--17277388 Score: 253
Period size: 86 Copynumber: 2.8 Consensus size: 84
17277134 GACATTTATT
*
17277144 GCTATAGAACATGACCTTTAGCGACACTTTTACTACAAACGCTAATATAGAACATGACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGACACTTTT-CTACAAACGC-ACTATAGAACATGACCTTTAGC
*
17277209 GGCGGTTTTATC-ACAAACGCCA
64 GGC-GTTTTACCAACAAACG-CA
** * *
17277231 -CTATAGAACATGACCTTTAGCTGTGA-TTTCTCTACAAACGCCGCTATAGAACGTGACCTTTAG
1 GCTATAGAACATGACCTTTAGC-GACACTTT-TCTACAAACG-CACTATAGAACATGACCTTTAG
* *
17277294 CGGCGCTTTCCCAACAAACGCA
63 CGGCGTTTTACCAACAAACGCA
** * * * * *
17277316 GCTATAGAATGTGACCTTTAGCGGCACTTTCCCGACAAACGCAGCTATAAAACATGACCTTTAGT
1 GCTATAGAACATGACCTTTAGCGACACTTT-TCTACAAACGCA-CTATAGAACATGACCTTTAGC
17277381 GGCGTTTT
64 GGCGTTTT
17277389 CACAAAAAAT
Statistics
Matches: 132, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
85 10 0.08
86 118 0.89
87 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (84 bp):
GCTATAGAACATGACCTTTAGCGACACTTTTCTACAAACGCACTATAGAACATGACCTTTAGCGG
CGTTTTACCAACAAACGCA
Found at i:17277322 original size:129 final size:129
Alignment explanation
Indices: 17277144--17277379 Score: 298
Period size: 129 Copynumber: 1.8 Consensus size: 129
17277134 GACATTTATT
* *
17277144 GCTATAGAACATGACCTTTAGCGACACTTTTACTACAAACGCTAATATAGAACATGACCTTTAGC
1 GCTATAGAACATGACCTTTAGCGACACTTTCACAACAAACGCTAATATAGAACATGACCTTTAGC
** * *
17277209 GGCGGTTTTATC-ACAAACGCCA-CTATAGAACATGACCTTTAGCTGTGATTTCTCTACAAACGC
66 GGC-ACTTTACCGACAAACG-CAGCTATAAAACATGACCTTTAGCTGTGATTTCTCTACAAACGC
17277272 C
129 C
* * * * * **
17277273 GCTATAGAACGTGACCTTTAGCGGCGCTTTCCCAACAAACGC-AGCTATAGAATGTGACCTTTAG
1 GCTATAGAACATGACCTTTAGCGACACTTTCACAACAAACGCTA-ATATAGAACATGACCTTTAG
*
17277337 CGGCACTTTCCCGACAAACGCAGCTATAAAACATGACCTTTAG
65 CGGCACTTTACCGACAAACGCAGCTATAAAACATGACCTTTAG
17277380 TGGCGTTTTC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
128 7 0.08
129 83 0.92
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (129 bp):
GCTATAGAACATGACCTTTAGCGACACTTTCACAACAAACGCTAATATAGAACATGACCTTTAGC
GGCACTTTACCGACAAACGCAGCTATAAAACATGACCTTTAGCTGTGATTTCTCTACAAACGCC
Found at i:17277577 original size:19 final size:19
Alignment explanation
Indices: 17277553--17277589 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17277543 AGCCAAAAAC
*
17277553 AGCAAATACAAATCCAACT
1 AGCAAATACAAAGCCAACT
17277572 AGCAAATACAAAGCCAAC
1 AGCAAATACAAAGCCAAC
17277590 CAAAAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.27, G:0.08, T:0.11
Consensus pattern (19 bp):
AGCAAATACAAAGCCAACT
Found at i:17278273 original size:13 final size:14
Alignment explanation
Indices: 17278247--17278275 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17278237 AACAAAGACG
17278247 AATTAAACCATTAT
1 AATTAAACCATTAT
17278261 AATTAAA-CATTAT
1 AATTAAACCATTAT
17278274 AA
1 AA
17278276 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:17283331 original size:9 final size:9
Alignment explanation
Indices: 17283317--17283468 Score: 91
Period size: 9 Copynumber: 17.1 Consensus size: 9
17283307 TTGATTTAAA
*
17283317 TTATGTTAG
1 TTATGTAAG
*
17283326 TTATGTAAA
1 TTATGTAAG
17283335 TTATGTAAG
1 TTATGTAAG
17283344 TTATGTAAG
1 TTATGTAAG
* *
17283353 TTATAATATG
1 TTAT-GTAAG
* * *
17283363 ATAT-TTAT
1 TTATGTAAG
17283371 TTATGT-A-
1 TTATGTAAG
*
17283378 TTATATAAG
1 TTATGTAAG
17283387 TTATGTAAG
1 TTATGTAAG
*
17283396 TTATGATATG
1 TTATG-TAAG
* * *
17283406 ATATAT-AT
1 TTATGTAAG
17283414 TTATGTAAG
1 TTATGTAAG
17283423 TTATGTAAG
1 TTATGTAAG
17283432 TTATG-ATA-
1 TTATGTA-AG
* * *
17283440 TGATATACAT
1 TTATGTA-AG
17283450 TTATGTAAG
1 TTATGTAAG
17283459 TTATGTAAG
1 TTATGTAAG
17283468 T
1 T
17283469 CCATAGATAT
Statistics
Matches: 108, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
7 5 0.05
8 14 0.13
9 72 0.67
10 17 0.16
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:17283389 original size:43 final size:44
Alignment explanation
Indices: 17283326--17283436 Score: 170
Period size: 43 Copynumber: 2.5 Consensus size: 44
17283316 ATTATGTTAG
*
17283326 TTATGTAAATTATGTAAGTTATGTAAGTTATAATATGATATTTAT
1 TTATGT-AATTATGTAAGTTATGTAAGTTATAATATGATATATAT
* *
17283371 TTATGT-ATTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
17283414 TTATGTAAGTTATGTAAGTTATG
1 TTATGTAA-TTATGTAAGTTATG
17283437 ATATGATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 40 0.67
44 1 0.02
45 19 0.32
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (44 bp):
TTATGTAATTATGTAAGTTATGTAAGTTATAATATGATATATAT
Found at i:17283480 original size:79 final size:77
Alignment explanation
Indices: 17283335--17283487 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 77
17283325 GTTATGTAAA
** * *
17283335 TTATGTAAGTTATGTAAGTTATAATATGATATTTATTTATGTATTATATAAGTTATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCA-GTAAGATAT
17283400 GATATGATATATAT
65 GATAT-ATATATAT
* *
17283414 TTATGTAAGTTATGTAAGTTATGATATGATATACATTTATGTAAGTTATGTAAGTCCA-T-AGAT
1 TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGT-A-TTATATAAGT-CAGTAAGAT
17283477 ATGATATATAT
63 ATGATATATAT
17283488 TTATCTATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.06
79 49 0.75
80 2 0.03
81 9 0.14
82 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (77 bp):
TTATGTAAGTTATGTAAGTTATAATATGATATACATTTATGTATTATATAAGTCAGTAAGATATG
ATATATATATAT
Found at i:17283499 original size:36 final size:36
Alignment explanation
Indices: 17283378--17283491 Score: 183
Period size: 36 Copynumber: 3.1 Consensus size: 36
17283368 TATTTATGTA
*
17283378 TTATATAAGTTATGTAAGTTATGATATGATATATAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
17283414 TTATGTAAGTTATGTAAGTTATGATATGATATACAT
1 TTATGTAAGTTATGTAAGTTATGATATGATATATAT
*
17283450 TTATGTAAGTTATGTAAGTCCATAGATATGATATATAT
1 TTATGTAAGTTATGTAAGT-TAT-GATATGATATATAT
17283488 TTAT
1 TTAT
17283492 CTATTATGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 53 0.74
37 2 0.03
38 17 0.24
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.46
Consensus pattern (36 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATAT
Found at i:17286867 original size:7 final size:7
Alignment explanation
Indices: 17286857--17286988 Score: 101
Period size: 7 Copynumber: 18.6 Consensus size: 7
17286847 GGTTTAGAAT
17286857 TTTAAGG
1 TTTAAGG
17286864 TTTAAGG
1 TTTAAGG
17286871 TTT-AGG
1 TTTAAGG
17286877 ATTTAATGG
1 -TTTAA-GG
17286886 TTTAAGGG
1 TTTAA-GG
17286894 TTT-AGTG
1 TTTAAG-G
17286901 TTT-AGAG
1 TTTAAG-G
17286908 TTT-AGTG
1 TTTAAG-G
*
17286915 TTTATGG
1 TTTAAGG
*
17286922 TTTAGGG
1 TTTAAGG
* *
17286929 TTTATGA
1 TTTAAGG
17286936 TTTAAGG
1 TTTAAGG
*
17286943 TTTAGGG
1 TTTAAGG
*
17286950 TTTAGGG
1 TTTAAGG
*
17286957 TTTAGGG
1 TTTAAGG
*
17286964 TTTAGGG
1 TTTAAGG
17286971 TTTAAGG
1 TTTAAGG
*
17286978 TTTAATG
1 TTTAAGG
17286985 TTTA
1 TTTA
17286989 CAATTTAGGG
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
6 4 0.04
7 90 0.83
8 12 0.11
9 2 0.02
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:17286872 original size:22 final size:22
Alignment explanation
Indices: 17286842--17286898 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
17286832 GAAAGTTATT
*
17286842 TTTAGGGTTTAGAATTTTAA-GG
1 TTTAAGGTTTAGAA-TTTAATGG
*
17286864 TTTAAGGTTTAGGATTTAATGG
1 TTTAAGGTTTAGAATTTAATGG
17286886 TTTAAGGGTTTAG
1 TTTAA-GGTTTAG
17286899 TGTTTAGAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 5 0.16
22 19 0.61
23 7 0.23
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGGTTTAGAATTTAATGG
Found at i:17287622 original size:40 final size:40
Alignment explanation
Indices: 17287532--17287726 Score: 180
Period size: 41 Copynumber: 4.8 Consensus size: 40
17287522 CGTTTGGATA
* * *
17287532 AAAAACACCACTATTGCTCAACCTTTT-GTGGCGTTTTGAAC
1 AAAAACACCACTATTGCTCAA-TTTTTAGCGGC-ATTTGAAC
17287573 AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAA-
1 AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* * * *
17287612 ACAAAGCACCACTATTGCTCAATTTTTAGCTGCGTTTGGAC
1 A-AAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* * * * **
17287653 GAAGAACACCACTATTGCTCAGTTTTTAGCAGCGTTTGTTC
1 -AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
* *
17287694 AAAAAACGCCACTGTTGCTCAACTTTTT-GCGGC
1 -AAAAACACCACTATTGCTCAA-TTTTTAGCGGC
17287727 TTTTTTGTTT
Statistics
Matches: 130, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 44 0.34
41 79 0.61
42 6 0.05
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (40 bp):
AAAAACACCACTATTGCTCAATTTTTAGCGGCATTTGAAC
Found at i:17290153 original size:22 final size:22
Alignment explanation
Indices: 17290112--17290153 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
17290102 TGAATATCAC
*
17290112 TAAAATAAAAATTTGTAGAATT
1 TAAAATAAAAATTAGTAGAATT
17290134 TAAAATAAAACATTAG-AGAA
1 TAAAATAAAA-ATTAGTAGAA
17290154 AAAAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (22 bp):
TAAAATAAAAATTAGTAGAATT
Found at i:17296934 original size:20 final size:20
Alignment explanation
Indices: 17296909--17296947 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17296899 CATTAGTGCC
17296909 CCTGTTTGTACTTCGGTACT
1 CCTGTTTGTACTTCGGTACT
*
17296929 CCTGTTTGTACTTTGGTAC
1 CCTGTTTGTACTTCGGTAC
17296948 CCTTGAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (20 bp):
CCTGTTTGTACTTCGGTACT
Found at i:17297049 original size:40 final size:40
Alignment explanation
Indices: 17296927--17297041 Score: 158
Period size: 40 Copynumber: 2.9 Consensus size: 40
17296917 TACTTCGGTA
* *
17296927 CTCCTGTTTGTACTTTGGTACCCTTGAATGCACATACGTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * *
17296967 CTCCTGTTTGTACTTCAGTACCCCTGAATGCACATGCCTG
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
* * *
17297007 CTCCGGTTTGTACTTCGGTACCCCTAAATGGACAT
1 CTCCTGTTTGTACTTCGGTACCCCTGAATGCACAT
17297042 TTGTGCTCTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (40 bp):
CTCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTG
Found at i:17299671 original size:25 final size:25
Alignment explanation
Indices: 17299625--17299766 Score: 94
Period size: 25 Copynumber: 5.7 Consensus size: 25
17299615 TCCTGTTATA
* **
17299625 TGGCTCTCACGAGCTTTTCGATATT
1 TGGCTCTCATGAGCTTCCCGATATT
*
17299650 TGGCTCTCATGAGCTTCCCGAT-TAA
1 TGGCTCTCATGAGCTTCCCGATAT-T
*
17299675 TGGCTCTCTTGAGCTTCCCG-T-TT
1 TGGCTCTCATGAGCTTCCCGATATT
* * *
17299698 ATGGCTCAT-ATGAGCCTCCAGATAAT
1 -TGGCTC-TCATGAGCTTCCCGATATT
* * * *
17299724 TGGCTCGCAAGAGCTTCCCGTTATA
1 TGGCTCTCATGAGCTTCCCGATATT
** *
17299749 CAGCTCACATGAGCTTCC
1 TGGCTCTCATGAGCTTCC
17299767 TGTTACATGG
Statistics
Matches: 90, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
24 18 0.20
25 71 0.79
26 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.20, T:0.32
Consensus pattern (25 bp):
TGGCTCTCATGAGCTTCCCGATATT
Found at i:17299728 original size:49 final size:49
Alignment explanation
Indices: 17299650--17299789 Score: 124
Period size: 49 Copynumber: 2.8 Consensus size: 49
17299640 TTTCGATATT
* * * **
17299650 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTTCCCGTTTA
1 TGGCTCTCATGAGCCTCCAGATTAATGGCTCGCAAGAGCTTCCCGTTTA
17299699 TGGCTCAT-ATGAGCCTCCAGA-TAATTGGCTCGCAAGAGCTTCCCGTTATA
1 TGGCTC-TCATGAGCCTCCAGATTAA-TGGCTCGCAAGAGCTTCCCGTT-TA
** * * * *
17299749 CAGCTCACATGAGCTTCCTG-TTACATGGCTCGGAAGAGCTT
1 TGGCTCTCATGAGCCTCCAGATTA-ATGGCTCGCAAGAGCTT
17299790 GTTGATTACA
Statistics
Matches: 74, Mismatches: 11, Indels: 11
0.77 0.11 0.11
Matches are distributed among these distances:
48 3 0.04
49 36 0.49
50 34 0.46
51 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (49 bp):
TGGCTCTCATGAGCCTCCAGATTAATGGCTCGCAAGAGCTTCCCGTTTA
Found at i:17299779 original size:25 final size:24
Alignment explanation
Indices: 17299650--17299779 Score: 107
Period size: 25 Copynumber: 5.2 Consensus size: 24
17299640 TTTCGATATT
*
17299650 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCACATGAGCTTCCCG-TTAA
* * *
17299675 TGGCTCTCTTGAGCTTCCCGTTTA
1 TGGCTCACATGAGCTTCCCGTTAA
* * * *
17299699 TGGCTCATATGAGCCTCCAGATAA
1 TGGCTCACATGAGCTTCCCGTTAA
* *
17299723 TTGGCTCGCAAGAGCTTCCCGTTATA
1 -TGGCTCACATGAGCTTCCCGTTA-A
** *
17299749 CAGCTCACATGAGCTTCCTGTTACA
1 TGGCTCACATGAGCTTCCCGTTA-A
17299774 TGGCTC
1 TGGCTC
17299780 GGAAGAGCTT
Statistics
Matches: 80, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
24 20 0.25
25 59 0.74
26 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:17304243 original size:20 final size:20
Alignment explanation
Indices: 17304214--17304258 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17304204 AGCACATGTA
* *
17304214 TTCATAAAATTTTATAATTT
1 TTCATAAAATTTTACAACTT
*
17304234 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
17304254 TTCAT
1 TTCAT
17304259 TTTAGTCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:17306629 original size:16 final size:16
Alignment explanation
Indices: 17306608--17306638 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
17306598 CATGGGGTAG
17306608 ACCATGTCTCACACAC
1 ACCATGTCTCACACAC
17306624 ACCATGTCTCACACA
1 ACCATGTCTCACACA
17306639 TACCCGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.42, G:0.06, T:0.19
Consensus pattern (16 bp):
ACCATGTCTCACACAC
Found at i:17308324 original size:44 final size:44
Alignment explanation
Indices: 17308263--17308434 Score: 210
Period size: 43 Copynumber: 4.0 Consensus size: 44
17308253 ACATAGGATC
* *
17308263 CGATATTTG-TTTTCGTGTAAGACCATGTCTGGGACATTAGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* *
17308306 CGACT-TATGATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGA-TATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* * * *
17308350 C-ATATTTGATTT-CGTATAAGACCCTGTCTGGGACAATGGTAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
* *
17308392 CGATATTTGA-TTACATGTAACACCATGTCTGGGACATTGGCAT
1 CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
17308435 TGTACGAGCT
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.27
43 46 0.43
44 33 0.31
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (44 bp):
CGATATTTGATTTACGTGTAAGACCATGTCTGGGACATTGGCAT
Found at i:17318913 original size:26 final size:25
Alignment explanation
Indices: 17318879--17318928 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
17318869 TTTTAAAGAC
* *
17318879 TTTACTTTATTTTTATTTTTATTTG
1 TTTACTTTATCTTTATTTATATTTG
*
17318904 TTTACTTTTATCTTTGTTTATATTT
1 TTTAC-TTTATCTTTATTTATATTT
17318929 TTAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTACTTTATCTTTATTTATATTTG
Found at i:17320778 original size:21 final size:20
Alignment explanation
Indices: 17320754--17320792 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
17320744 ATAGGAGAGT
*
17320754 AAAAAGAGCGAGAAATGGGCC
1 AAAAAGAGAGA-AAATGGGCC
*
17320775 AAAAATAGAGAAAATGGG
1 AAAAAGAGAGAAAATGGG
17320793 TCAACATGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.08, G:0.31, T:0.08
Consensus pattern (20 bp):
AAAAAGAGAGAAAATGGGCC
Found at i:17323034 original size:47 final size:47
Alignment explanation
Indices: 17322969--17323758 Score: 1246
Period size: 47 Copynumber: 16.7 Consensus size: 47
17322959 TATACACTTC
* * *
17322969 CACATCCATCA-ATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * **
17323015 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17323062 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17323109 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * **
17323156 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17323203 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
17323250 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
17323299 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
17323346 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
17323395 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17323442 CACATTCATCATATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * **
17323489 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17323536 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17323583 CACATTCATCATATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * * **
17323630 CACATTCATCACATTGTCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17323677 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17323724 CACATTCATCACATTGGCCATTAGGCCTTATCACA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA
17323759 TATATACACT
Statistics
Matches: 688, Mismatches: 46, Indels: 19
0.91 0.06 0.03
Matches are distributed among these distances:
46 13 0.02
47 587 0.85
49 86 0.12
50 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:17325089 original size:85 final size:85
Alignment explanation
Indices: 17324960--17325138 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
17324950 TATTTTATTG
*
17324960 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
17325025 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17325045 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
17325110 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17325130 CCCATGCTC
1 CCCATGCTC
17325139 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:17326439 original size:40 final size:40
Alignment explanation
Indices: 17326394--17326754 Score: 526
Period size: 40 Copynumber: 9.1 Consensus size: 40
17326384 CGAATACACG
* * * *
17326394 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
17326434 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
17326474 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
17326514 TCACTAGCATGAATGCTCTTCGGGACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
17326554 TCACTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
17326594 TCACTAGCACGAATGCTCTTCGGAACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
17326634 TCACTAGCATGAATGCTCTTTGAGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
17326674 TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17326714 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17326753 TC
1 TC
17326755 GTCGAGACCT
Statistics
Matches: 289, Mismatches: 32, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.01
40 285 0.99
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:17326877 original size:38 final size:38
Alignment explanation
Indices: 17326808--17326882 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17326798 GAATTTTAAT
*
17326808 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
17326846 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
17326883 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:17329380 original size:45 final size:45
Alignment explanation
Indices: 17329303--17330000 Score: 988
Period size: 45 Copynumber: 15.3 Consensus size: 45
17329293 CCCTTCGGGA
* *
17329303 CTTATCACATTTATTACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACA--TA-TACACTTTCACATTCATCACATTGGCCATTCGGC
17329351 CTTATCACTATATACAC-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC-ATATACACTTTCACATTCATCACATTGGCCATTCGGC
17329396 CTTATC-CATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
17329440 CTTATCACACATACACATGTTCACATTCA-CACATTGGCCATTCGG-
1 CTTATCACATATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
*
17329485 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
* * *
17329532 CTTATCTCACATACAATGTTCACA-TCATCACATTGGCCATTCGGC
1 CTTATCACATATACACT-TTCACATTCATCACATTGGCCATTCGGC
*
17329577 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
17329624 CTTATCACATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
17329669 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATACAC-T-TTCACATTCATCACATTGGCCATTCGGC
17329716 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATACACTTTCACATTCATCACATTGGCCATTCGGC
17329765 CTTATCACATATATACACTTTCACATTCATCACA-TGGCCATTCGGC
1 CTTATCAC--ATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
17329811 CTTATCACTATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC-ATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
17329857 CTTATCACATATATATCTTTCACATTCATCACATTGGCCATTAGG-
1 CTTATCACATATACA-CTTTCACATTCATCACATTGGCCATTCGGC
*
17329902 CTTATCACATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
17329947 CTTATCAC--ATACACTTTCACATTCATCAC-TTGGCCATTAGG-
1 CTTATCACATATACACTTTCACATTCATCACATTGGCCATTCGGC
17329988 CTTATCACATATA
1 CTTATCACATATA
17330001 TATACACTTT
Statistics
Matches: 616, Mismatches: 13, Indels: 47
0.91 0.02 0.07
Matches are distributed among these distances:
41 8 0.01
42 12 0.02
43 31 0.05
44 64 0.10
45 199 0.32
46 123 0.20
47 126 0.20
48 8 0.01
49 37 0.06
50 1 0.00
51 7 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (45 bp):
CTTATCACATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:17329532 original size:92 final size:92
Alignment explanation
Indices: 17329325--17330000 Score: 1001
Period size: 92 Copynumber: 7.4 Consensus size: 92
17329315 ATTACACTTC
*
17329325 CACATCCATCACATTGGCCATTCGGCCTTATCACTATATACAC-TTCACATTCATCACATTGGCC
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATACACTTTCACATTCATCACATTGGCC
*
17329389 ATTCGGCCTTAT--C-CATATACATGTT
65 ATTCGGCCTTATCACACATACACATGTT
*
17329414 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCA-CACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACAC-T-TTCACATTCATCACATTGGC
17329478 CATTCGG-CTTATCACACATACACATGTT
64 CATTCGGCCTTATCACACATACACATGTT
* * *
17329506 CACATTCATCACATTGGCCATTCGGCCTTATCTCACATACAATGTTCACA-TCATCACATTGGCC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACT-TTCACATTCATCACATTGGCC
17329570 ATTCGGCCTTATCACACATACACATGTT
65 ATTCGGCCTTATCACACATACACATGTT
17329598 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTGGCCA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTGGCCA
17329663 TTCGGCCTTATCACACATACACATGTT
66 TTCGGCCTTATCACACATACACATGTT
17329690 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTG
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC----ATATACACTTTCACATTCATCACATTG
* *
17329755 GCCATTCGGCCTTATCACATATATACACT-TT
62 GCCATTCGGCCTTATCACACATACACA-TGTT
17329786 CACATTCATCACA-TGGCCATTCGGCCTTATCACTATATACACTTTCACATTCATCACATTGGCC
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATACACTTTCACATTCATCACATTGGCC
* * *
17329850 ATTAGGCCTTATCACATATATATC-T-TT
65 ATTCGGCCTTATCACACATACA-CATGTT
*
17329877 CACATTCATCACATTGGCCATTAGG-CTTATCACATATACACTTTCACATTCATCACATTGGCCA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTGGCCA
*
17329941 TTAGGCCTTAT--CACATACAC-T-TT
66 TTCGGCCTTATCACACATACACATGTT
*
17329964 CACATTCATCAC-TTGGCCATTAGG-CTTATCACATATA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACATATA
17330001 TATACACTTT
Statistics
Matches: 557, Mismatches: 14, Indels: 35
0.92 0.02 0.06
Matches are distributed among these distances:
86 25 0.04
87 16 0.03
88 13 0.02
89 38 0.07
90 61 0.11
91 65 0.12
92 250 0.45
93 1 0.00
95 20 0.04
96 67 0.12
97 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (92 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACTTTCACATTCATCACATTGGCCA
TTCGGCCTTATCACACATACACATGTT
Found at i:17331370 original size:84 final size:84
Alignment explanation
Indices: 17331270--17331438 Score: 322
Period size: 84 Copynumber: 2.0 Consensus size: 84
17331260 ATTGCCCAGC
17331270 CTTTATTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATG-TTTTAGCCATAA
1 CTTTATTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAA
17331334 CATCTTGTCCACCCATGCT
66 CATCTTGTCCACCCATGCT
17331353 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTA-TTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
17331418 ACATCTTGTCCACCCATGCT
65 ACATCTTGTCCACCCATGCT
17331438 C
1 C
17331439 ATGGCCGGCC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
83 5 0.06
84 47 0.56
85 32 0.38
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (84 bp):
CTTTATTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAA
CATCTTGTCCACCCATGCT
Found at i:17332548 original size:40 final size:40
Alignment explanation
Indices: 17332503--17332857 Score: 501
Period size: 40 Copynumber: 9.1 Consensus size: 40
17332493 CGAATACACG
* * * *
17332503 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
17332543 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
17332583 TCAC--GCACGAATGCTCTTCGGAAC-TAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17332620 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTCGG-TACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCC-CGGATACA
17332660 TCACTAGCATGAATGCTCTT-GGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
17332699 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17332739 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
17332779 TCACTAGCATGAATGCTCTTCGGAACTTAG-CC-GATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17332817 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
17332856 TC
1 TC
17332858 GTCGAGACCT
Statistics
Matches: 286, Mismatches: 21, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
37 15 0.05
38 55 0.19
39 60 0.21
40 153 0.53
41 3 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:17332699 original size:79 final size:79
Alignment explanation
Indices: 17332503--17332857 Score: 490
Period size: 79 Copynumber: 4.5 Consensus size: 79
17332493 CGAATACACG
* * * * * * **
17332503 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
* *
17332568 TTTAGCACGGATATA
66 CTTAGC-CGGATACA
* * * *
17332583 TCAC--GCACGAATGCTCTTCGGAAC-TAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
17332645 CTTAGCCTCGG-TACA
66 CTTAG-C-CGGATACA
17332660 TCACTAGCATGAATGCTCTT-GGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
17332724 CTTAGCCCGGATACA
66 CTTAG-CCGGATACA
*
17332739 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
17332804 CTTAGCC-GATACA
66 CTTAGCCGGATACA
17332817 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATC
17332858 GTCGAGACCT
Statistics
Matches: 253, Mismatches: 16, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
77 48 0.19
78 71 0.28
79 82 0.32
80 52 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCGGATACA
Found at i:17332980 original size:38 final size:38
Alignment explanation
Indices: 17332911--17332985 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
17332901 GAATTTTAAT
*
17332911 CCGGACATAATCTCTGTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
* *
17332949 CCGGACATAATCTCT-TCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTGT-ACATAGCCAGCGGGTCTTTA
17332986 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTGTACATAGCCAGCGGGTCTTTAC
Found at i:17335466 original size:47 final size:47
Alignment explanation
Indices: 17335424--17336213 Score: 1237
Period size: 47 Copynumber: 16.7 Consensus size: 47
17335414 TATACACTTC
* * *
17335424 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTT
* * * **
17335471 CACATTCATCACATTGGCCATTCGACCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17335518 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17335565 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * **
17335612 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17335659 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
17335706 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
17335755 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* *
17335802 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACT-TT
1 CACATTCATCACATTGGCCATTCGGCCTTATCAC--ACATACACA-TGTT
17335851 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17335898 CACATTCATCATATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * **
17335945 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17335992 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17336039 CACATTCATCATA-TGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * * **
17336085 CACATTCATCACATTGTCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
17336132 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
*
17336179 CACATTCATCACATTGGCCATTAGGCCTTATCACA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA
17336214 TATATACACT
Statistics
Matches: 685, Mismatches: 48, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
46 48 0.07
47 549 0.80
49 86 0.13
50 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:17337544 original size:85 final size:85
Alignment explanation
Indices: 17337415--17337593 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
17337405 TATTTTATTG
*
17337415 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
17337480 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17337500 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
17337565 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
17337585 CCCATGCTC
1 CCCATGCTC
17337594 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:17343381 original size:7 final size:7
Alignment explanation
Indices: 17343354--17343392 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
17343344 CACTAACATA
*
17343354 TTTTGAT
1 TTTTTAT
17343361 TTCTTTATT
1 TT-TTTA-T
17343370 TTTTTAT
1 TTTTTAT
17343377 TTTTTAT
1 TTTTTAT
17343384 TTTTTAT
1 TTTTTAT
17343391 TT
1 TT
17343393 CTAACACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 19 0.66
8 7 0.24
9 3 0.10
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:17343382 original size:15 final size:15
Alignment explanation
Indices: 17343354--17343394 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
17343344 CACTAACATA
*
17343354 TTTTGATTTCTTTATT
1 TTTTTATTTCTTTA-T
17343370 TTTTTATTT-TTTAT
1 TTTTTATTTCTTTAT
17343384 TTTTTATTTCT
1 TTTTTATTTCT
17343395 AACACTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:17343728 original size:21 final size:20
Alignment explanation
Indices: 17343690--17343735 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
17343680 GTGTTGAAGC
*
17343690 CGTGGACCATAATACACGGG
1 CGTGGACCATAACACACGGG
*
17343710 CGTGGTACCCTAACACACGGG
1 CGTGG-ACCATAACACACGGG
17343731 CGTGG
1 CGTGG
17343736 GAGAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.24, C:0.28, G:0.33, T:0.15
Consensus pattern (20 bp):
CGTGGACCATAACACACGGG
Found at i:17345751 original size:6 final size:6
Alignment explanation
Indices: 17345740--17345778 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
17345730 TCCTCTTATC
* * *
17345740 TTTTTA TTTTTA TTTTTC TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
17345779 CAATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:17345761 original size:18 final size:18
Alignment explanation
Indices: 17345738--17345773 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17345728 AATCCTCTTA
17345738 TCTTTTTATTTTTATTTT
1 TCTTTTTATTTTTATTTT
*
17345756 TCTTTTTCTTTTTATTTT
1 TCTTTTTATTTTTATTTT
17345774 CATTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (18 bp):
TCTTTTTATTTTTATTTT
Found at i:17345785 original size:24 final size:24
Alignment explanation
Indices: 17345738--17345785 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
17345728 AATCCTCTTA
* ***
17345738 TCTTTTTATTTTTATTTTTCTTTT
1 TCTTTTTATTTTCATTTCAATTTT
17345762 TCTTTTTATTTTCATTTCAATTTT
1 TCTTTTTATTTTCATTTCAATTTT
17345786 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (24 bp):
TCTTTTTATTTTCATTTCAATTTT
Found at i:17352221 original size:42 final size:44
Alignment explanation
Indices: 17352153--17352246 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 44
17352143 ATTATTTATT
* * * * *
17352153 TGTAAGA-CCATGTTTGGGACATTGGCATTG-TATTTGATTTCA
1 TGTAAGACCCATGTCTGCGACAGTGGCATCGATATTTGATTACA
17352195 TGTAAGACCCA-GTCTGCGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCCATGTCTGCGACAGTGGCATCGATATTTGATTACA
17352238 TGTAAGACC
1 TGTAAGACC
17352247 ACGTCCAGGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
42 22 0.49
43 23 0.51
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (44 bp):
TGTAAGACCCATGTCTGCGACAGTGGCATCGATATTTGATTACA
Found at i:17368231 original size:36 final size:36
Alignment explanation
Indices: 17368170--17368239 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
17368160 CTCGAGACAT
17368170 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
* * *
17368206 AAGTTAGTGTAAGACTATGTTTGGGACATGGCAT
1 AAGTCAGTGTAAGACCATGTCTGGGACATGGCAT
17368240 TGACTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (36 bp):
AAGTCAGTGTAAGACCATGTCTGGGACATGGCATCG
Found at i:17368266 original size:83 final size:81
Alignment explanation
Indices: 17368128--17368286 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 81
17368118 GTGTGTGGGC
* *
17368128 TAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGACATAAGTCAGTGTAAGACCATGTCTG
1 TAGTGTAAGACATGTTTGGGACATGCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTCTG
17368193 GGACATGGCATCGAAGT
66 GG-CATGGCATCGAAGT
* * ** * * *
17368210 TAGTGTAAGACTATGTTTGGGACATGGCAT-TGACTTGAGATGTGAGCCAGTGTAAGATCGTGTC
1 TAGTGTAAGAC-ATGTTTGGGACAT-GCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTC
17368274 TGGGCATGGCATC
64 TGGGCATGGCATC
17368287 AGCACCTTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 20 0.30
83 42 0.64
84 4 0.06
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (81 bp):
TAGTGTAAGACATGTTTGGGACATGCATCGGACTCGAGACATAAGCCAGTGTAAGACCATGTCTG
GGCATGGCATCGAAGT
Found at i:17378378 original size:25 final size:24
Alignment explanation
Indices: 17378350--17378416 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
17378340 TCCTGATATT
17378350 TGGCTCTCATGAGCTTCCCAATTAA
1 TGGCTCTCATGAGCTTCCC-ATTAA
* * * *
17378375 TGGCTCTCTTGAGCTTCTCGTTTA
1 TGGCTCTCATGAGCTTCCCATTAA
17378399 TGGCTCGT-ATGAGCTTCC
1 TGGCTC-TCATGAGCTTCC
17378417 AGATAATTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCATTAA
Found at i:17378487 original size:25 final size:24
Alignment explanation
Indices: 17378424--17378501 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
17378414 TCCAGATAAT
* *
17378424 TGGCTAGCAAGAGCTTCCCGTTATA
1 TGGCTAG-AAGAGCTTCCTGTTACA
* * *
17378449 TAGCTTACATGAGCTTCCTGTTACA
1 TGGC-TAGAAGAGCTTCCTGTTACA
*
17378474 TGGCTCAGAAGAGCTTGCTGATTACA
1 TGGCT-AGAAGAGCTTCCTG-TTACA
17378500 TG
1 TG
17378502 CTCGTATGGG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
24 1 0.02
25 31 0.76
26 9 0.22
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (24 bp):
TGGCTAGAAGAGCTTCCTGTTACA
Found at i:17386547 original size:19 final size:20
Alignment explanation
Indices: 17386497--17386547 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
17386487 GTTAAGTGAC
*
17386497 AGGTTAATTAGATTTTAATTA
1 AGGTTAATTAGA-CTTAATTA
*
17386518 A-GTAAATTTAG-CTTAATTA
1 AGGTTAA-TTAGACTTAATTA
17386537 AGGTTAATTAG
1 AGGTTAATTAG
17386548 GTATAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 12 0.48
20 8 0.32
21 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (20 bp):
AGGTTAATTAGACTTAATTA
Found at i:17387222 original size:24 final size:26
Alignment explanation
Indices: 17387194--17387247 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
17387184 GAAACTTGTT
17387194 TAAAGAA-AG-TATTAAATGAAAATA
1 TAAAGAAGAGTTATTAAATGAAAATA
*
17387218 TAAAGAATGTGTTATTAAATGAAAATA
1 TAAAGAA-GAGTTATTAAATGAAAATA
17387245 TAA
1 TAA
17387248 GATTTATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
26 1 0.04
27 18 0.69
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (26 bp):
TAAAGAAGAGTTATTAAATGAAAATA
Found at i:17390217 original size:42 final size:40
Alignment explanation
Indices: 17390057--17390209 Score: 135
Period size: 42 Copynumber: 3.7 Consensus size: 40
17390047 TGAGTTTACG
* * * * *
17390057 TGTAAGACCATATCCGGAATATGGCATTATTATGATATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGA--TCA
* * * **
17390099 TGTAAAACCATGTCTGGGACATGGCATCAATATGAGAATTG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAG-ATCA
* * *
17390140 TGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAT--CA
17390183 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
17390210 TGGTATGATT
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 19 0.22
42 48 0.55
43 20 0.23
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATCA
Found at i:17401193 original size:20 final size:20
Alignment explanation
Indices: 17401165--17401267 Score: 107
Period size: 20 Copynumber: 5.2 Consensus size: 20
17401155 ACATTAGTGA
* *
17401165 CCCTATTTGTACTTAAGTAC
1 CCCTGTTTGTACTTTAGTAC
*
17401185 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTTAGTAC
* * *
17401205 TCCTGTTTGTACTTTGGTAG
1 CCCTGTTTGTACTTTAGTAC
** *
17401225 CCCTGAATGCACTTTAGTAC
1 CCCTGTTTGTACTTTAGTAC
* *
17401245 TCCTGTTTGTACTTCAGTAC
1 CCCTGTTTGTACTTTAGTAC
17401265 CCC
1 CCC
17401268 AGAGTGCACA
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.41
Consensus pattern (20 bp):
CCCTGTTTGTACTTTAGTAC
Found at i:17401326 original size:40 final size:40
Alignment explanation
Indices: 17401150--17401326 Score: 160
Period size: 40 Copynumber: 4.4 Consensus size: 40
17401140 ATGTTACTGA
* *
17401150 AATGCACATTAGTGAC-CCTATTTGTACTTAAGTACCCCTG
1 AATGCACATTAGTG-CTCCTGTTTGTACTTCAGTACCCCTG
** * * * * ** *
17401190 TTTGTACTTTGGTACTCCTGTTTGTACTTTGGTAGCCCTG
1 AATGCACATTAGTGCTCCTGTTTGTACTTCAGTACCCCTG
* * *
17401230 AATGCACTTTAGTACTCCTGTTTGTACTTCAGTACCCCAG
1 AATGCACATTAGTGCTCCTGTTTGTACTTCAGTACCCCTG
* * *
17401270 AGTGCACATGCA-TGCTCCTGTTTGTACTTCAGTATCCCTG
1 AATGCACAT-TAGTGCTCCTGTTTGTACTTCAGTACCCCTG
*
17401310 AATGCACATTCGTGCTC
1 AATGCACATTAGTGCTC
17401327 TGAAGGCTCT
Statistics
Matches: 107, Mismatches: 27, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
39 1 0.01
40 105 0.98
41 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (40 bp):
AATGCACATTAGTGCTCCTGTTTGTACTTCAGTACCCCTG
Found at i:17402814 original size:22 final size:22
Alignment explanation
Indices: 17402783--17402830 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
17402773 GCACTAAGTC
*
17402783 AACAGAACAGCTCA-AGGCCGTA
1 AACAGAACAGCACATA-GCCGTA
*
17402805 AACAGGACAGCACATAGCCGTA
1 AACAGAACAGCACATAGCCGTA
17402827 AACA
1 AACA
17402831 TCGCAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.27, G:0.21, T:0.08
Consensus pattern (22 bp):
AACAGAACAGCACATAGCCGTA
Found at i:17403061 original size:22 final size:22
Alignment explanation
Indices: 17403033--17403097 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
17403023 GCAAATATGT
*
17403033 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
17403055 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
17403077 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
17403098 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:17403300 original size:41 final size:41
Alignment explanation
Indices: 17403242--17403320 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
17403232 AAGCCACCGG
**
17403242 TGGATCCACAATCGTCAAGCAACCATGTGATCCTCAATCGA
1 TGGATCCACAATCGTCAAGCAACCATACGATCCTCAATCGA
* *
17403283 TGGATCCACGATTGTCAAGCAACCATACGATCCTCAAT
1 TGGATCCACAATCGTCAAGCAACCATACGATCCTCAAT
17403321 TTCTTCCTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (41 bp):
TGGATCCACAATCGTCAAGCAACCATACGATCCTCAATCGA
Found at i:17403588 original size:27 final size:27
Alignment explanation
Indices: 17403558--17403623 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17403548 TTTCACCTTA
* *
17403558 TAAGGGTGTTTTGGTAAATCTACAAAC
1 TAAGGGTATTTCGGTAAATCTACAAAC
* *
17403585 TAAGGGTATTTCGGTAATTTTACAAAC
1 TAAGGGTATTTCGGTAAATCTACAAAC
* *
17403612 CAATGGTATTTC
1 TAAGGGTATTTC
17403624 TATAATTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (27 bp):
TAAGGGTATTTCGGTAAATCTACAAAC
Found at i:17403629 original size:27 final size:27
Alignment explanation
Indices: 17403578--17403894 Score: 102
Period size: 27 Copynumber: 11.7 Consensus size: 27
17403568 TTGGTAAATC
* *
17403578 TACAAACTAAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* *
17403605 TACAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTCGATAA-TTT
** *
17403633 TA-AAAGTTAAGGGTATTTTTG-TAATTT
1 TACAAA-CCAAGGGTA-TTTCGATAATTT
**** * ** *
17403660 TGTTTATCAAAAGTATTTCTATAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * * * *
17403687 TCCAAATCAAGGGTATTTTGGTCATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* ** * *
17403714 TCCAAATTAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * * *
17403741 TACAAATCGAGGGTATTTTGATAGTTT
1 TACAAACCAAGGGTATTTCGATAATTT
**** *
17403768 TACAAGTTGAGGGTATTT-TAGTAATTT
1 TACAAACCAAGGGTATTTCGA-TAATTT
* *** * *
17403795 TATAGGTCAAAGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * * * *
17403822 CACAAATTC-GGGGTATTTTGGTAATTT
1 TACAAA-CCAAGGGTATTTCGATAATTT
* * *
17403849 TACAAACTAAGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCGATAATTT
* * *
17403876 TGCAAATCGAGGGTATTTC
1 TACAAACCAAGGGTATTTC
17403895 TTATTTTTTG
Statistics
Matches: 220, Mismatches: 61, Indels: 18
0.74 0.20 0.06
Matches are distributed among these distances:
26 4 0.02
27 196 0.89
28 17 0.08
29 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCGATAATTT
Found at i:17403677 original size:82 final size:81
Alignment explanation
Indices: 17403590--17403741 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 81
17403580 CAAACTAAGG
* * * *
17403590 GTATTTCGGTAATTTTACAAACCAATGGTATTTCT-ATAATTTTTAAAAGTTAAGGGTATTTTTG
1 GTATTTCGATAATTTTACAAACCAAGGGTATTT-TGATAATTTTCAAAA-TTAAGGGTATTTTGG
17403654 TAATTTTGTTTATCAAAA
64 TAATTTTGTTTATCAAAA
* * * * * *
17403672 GTATTTCTATAATTTTCCAAATCAAGGGTATTTTGGTCATTTTCCAAATTAAGGGTATTTTGGTA
1 GTATTTCGATAATTTTACAAACCAAGGGTATTTTGATAATTTTCAAAATTAAGGGTATTTTGGTA
17403737 ATTTT
66 ATTTT
17403742 ACAAATCGAG
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 22 0.37
82 37 0.63
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAACCAAGGGTATTTTGATAATTTTCAAAATTAAGGGTATTTTGGTA
ATTTTGTTTATCAAAA
Found at i:17403730 original size:54 final size:53
Alignment explanation
Indices: 17403578--17403893 Score: 226
Period size: 54 Copynumber: 5.8 Consensus size: 53
17403568 TTGGTAAATC
* * *
17403578 TACAAA-CTAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTCTATAATTTT
1 TACAAATC-AAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT-TATAA-TTT
* * **** **
17403633 TA-AAAGTTAAGGGTATTTTTGTAATTTTGTTTATCAAAAGTATTTCTATAATTT
1 TACAAA-TCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT-TATAATTT
* * * * *
17403687 TCCAAATCAAGGGTATTTTGGTCATTTTCCAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTT-ATAATTT
* * * * **
17403741 TACAAATCGAGGGTATTTTGATAGTTTTACAAGTTGAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTA-TAATTT
* ** * * * * *
17403795 TATAGGTCAAAGGTATTTCGGTAATTTCACAAATTC-GGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAA-TCAAGGGTATTTT-ATAATTT
* *
17403849 TACAAA-CTAAGGGTATTTTGGTAATTTTGCAAATCGAGGGTATTT
1 TACAAATC-AAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTT
17403894 CTTATTTTTT
Statistics
Matches: 200, Mismatches: 52, Indels: 19
0.74 0.19 0.07
Matches are distributed among these distances:
53 4 0.02
54 156 0.78
55 40 0.20
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (53 bp):
TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTATAATTT
Found at i:17403757 original size:81 final size:81
Alignment explanation
Indices: 17403672--17403894 Score: 236
Period size: 81 Copynumber: 2.8 Consensus size: 81
17403662 TTTATCAAAA
* * * * *
17403672 GTATTTCT-ATAATTTTCCAAATCAAGGGTATTTTGGTCATTTTCCAAATTAAGGGTATTTTGGT
1 GTATTT-TGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGT
*
17403736 AATTTTACAAA-TCGAGG
65 AATTTCACAAATTCG-GG
* * ** * * ** *
17403753 GTATTTTGATAGTTTTACAAGTTGAGGGTATTTTAGTAATTTTATAGGTCAAAGGTATTTCGGTA
1 GTATTTTGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTA
17403818 ATTTCACAAATTCGGG
66 ATTTCACAAATTCGGG
* * *
17403834 GTATTTTGGTAATTTTACAAA-CTAAGGGTATTTTGGTAATTTTGCAAATCGAGGGTATTTC
1 GTATTTTGATAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTC
17403895 TTATTTTTTG
Statistics
Matches: 112, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
80 1 0.01
81 108 0.96
82 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (81 bp):
GTATTTTGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTA
ATTTCACAAATTCGGG
Found at i:17406700 original size:41 final size:40
Alignment explanation
Indices: 17406643--17406763 Score: 179
Period size: 41 Copynumber: 3.0 Consensus size: 40
17406633 AAAGCCACCG
** * *
17406643 GTGGATCCAATGTCGTCAAGCAACCATGCGATCCTTAATC
1 GTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAATC
17406683 AGTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAATC
1 -GTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAATC
*
17406724 GATGGATCCACGATCGTCAAGCAACCATGCAATCCTCAAT
1 G-TGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAAT
17406764 TTCTTCCTCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 73 0.99
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (40 bp):
GTGGATCCACGGTCGTCAAGCAACCATGCAATCCTCAATC
Found at i:17406841 original size:29 final size:29
Alignment explanation
Indices: 17406799--17406858 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
17406789 CCCATGTGCA
17406799 ACATAATATTATATGAATGCAGCAAATAT
1 ACATAATATTATATGAATGCAGCAAATAT
17406828 ACATAATATTATATGAATGCAGCAAATAT
1 ACATAATATTATATGAATGCAGCAAATAT
17406857 AC
1 AC
17406859 GCACGACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.30
Consensus pattern (29 bp):
ACATAATATTATATGAATGCAGCAAATAT
Found at i:17407100 original size:27 final size:27
Alignment explanation
Indices: 17407029--17407238 Score: 127
Period size: 27 Copynumber: 7.8 Consensus size: 27
17407019 TTTCACCCTA
* * *
17407029 CAAGGGTGTTTTGGTAAATTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
*
17407056 CAAGGGTATTTCGGTAATTTTGCAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* * ** **
17407083 CAATGGTATTTCTGTAATTTTTGAATGT
1 CAAGGGTATTTCGGTAATTTTACAA-AC
* * **
17407111 CAAGGGTGTTTCTGTAATTTTGTAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAC
** *** * *
17407137 TTAGGGATATTTTTATAATTTTCCAAAT
1 CAAGGG-TATTTCGGTAATTTTACAAAC
* * * *
17407165 CAAGGGTATTTCAGTCATTTTCCAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
17407192 CAGGGGTATTTTGGTAATTTTA-AAAC
1 CAAGGGTATTTCGGTAATTTTACAAAC
* *
17407218 CAAGGGTTTTTTGGTAATTTT
1 CAAGGGTATTTCGGTAATTTT
17407239 GCTAATTTTG
Statistics
Matches: 144, Mismatches: 36, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
26 26 0.18
27 93 0.65
28 25 0.17
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAC
Found at i:17407202 original size:54 final size:54
Alignment explanation
Indices: 17407032--17407240 Score: 159
Period size: 54 Copynumber: 3.9 Consensus size: 54
17407022 CACCCTACAA
* * * * * * * *
17407032 GGGTGTTTTGGTAAATTTACAAACCAAGGGTATTTCGGTAATTTTGCAAACCAA
1 GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTGCAAATCAG
* * ** * * * * *
17407086 TGGTATTTCTGTAATTTTTGAATGTCAAGGGTGTTTCTGTAATTTTGTAAATTAG
1 GGGTATTTTTGTAATTTTCCAA-ATCAAGGGTATTTCAGTAATTTTGCAAATCAG
* * * *
17407141 GGATATTTTTATAATTTTCCAAATCAAGGGTATTTCAGTCATTTTCCAAATCAG
1 GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTGCAAATCAG
* * * * **
17407195 GGGTATTTTGGTAATTTT-AAAACCAAGGGTTTTTTGGTAATTTTGC
1 GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTGC
17407241 TAATTTTGTA
Statistics
Matches: 116, Mismatches: 38, Indels: 3
0.74 0.24 0.02
Matches are distributed among these distances:
53 21 0.18
54 55 0.47
55 40 0.34
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTTGTAATTTTCCAAATCAAGGGTATTTCAGTAATTTTGCAAATCAG
Found at i:17407270 original size:35 final size:35
Alignment explanation
Indices: 17407199--17407271 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
17407189 AATCAGGGGT
* * **
17407199 ATTTTGGTAATTTTAAAACCAAGGGTTTTTTGGTA
1 ATTTTGCTAATTTTAAAACCAAGGGTTATTCAGTA
*
17407234 ATTTTGCTAATTTTGTAAACCAAGGG-TATTCAGTA
1 ATTTTGCTAATTTT-AAAACCAAGGGTTATTCAGTA
17407269 ATT
1 ATT
17407272 CTATCCTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
ATTTTGCTAATTTTAAAACCAAGGGTTATTCAGTA
Found at i:17407333 original size:27 final size:27
Alignment explanation
Indices: 17407262--17407336 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
17407252 ACCAAGGGTA
* *
17407262 TTCAGTAATTCTATCCTACAGGGGCAT
1 TTCAGTAATTCTACCCTACAGGGGCAC
* *
17407289 TTCTGTAGTTCTACCCTACAGGGGCAC
1 TTCAGTAATTCTACCCTACAGGGGCAC
* * *
17407316 TTCAATAATACTAGCCTACAG
1 TTCAGTAATTCTACCCTACAG
17407337 ATATGAGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (27 bp):
TTCAGTAATTCTACCCTACAGGGGCAC
Found at i:17425116 original size:47 final size:47
Alignment explanation
Indices: 17425032--17425630 Score: 964
Period size: 47 Copynumber: 12.6 Consensus size: 47
17425022 TATTTGAATA
17425032 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17425081 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425128 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
17425177 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425224 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17425273 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425320 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
17425367 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425414 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425463 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17425510 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
17425557 AATGTGAAAGTGTATATATGCGACAGGGTCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17425604 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
17425631 TCCCGAAGGG
Statistics
Matches: 515, Mismatches: 29, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 369 0.72
49 146 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:17425144 original size:96 final size:96
Alignment explanation
Indices: 17425032--17425630 Score: 1003
Period size: 96 Copynumber: 6.3 Consensus size: 96
17425022 TATTTGAATA
17425032 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17425097 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
17425128 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
17425193 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
17425224 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
17425289 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
17425320 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
17425383 TATGTGATAAGGCCTAATAGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
17425414 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
17425479 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
17425510 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * * *
17425573 TATGCGACAGGGTCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
17425604 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
17425631 TCCCGAAGGG
Statistics
Matches: 484, Mismatches: 15, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
94 188 0.39
95 1 0.00
96 295 0.61
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:17425206 original size:143 final size:143
Alignment explanation
Indices: 17425032--17425630 Score: 972
Period size: 143 Copynumber: 4.2 Consensus size: 143
17425022 TATTTGAATA
17425032 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
17425097 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
17425162 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
* * *
17425177 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
17425242 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-T-TGTATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
*
17425305 ATAGCCGATGTGATG
129 ATGGCCGATGTGATG
17425320 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
17425385 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
17425450 GGCCGATGTGATG
131 GGCCGATGTGATG
17425463 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
17425528 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGCGACAGGGTCGAGT
66 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
* *
17425591 GGCCAACGTGATG
131 GGCCGATGTGATG
* *
17425604 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
17425631 TCCCGAAGGG
Statistics
Matches: 426, Mismatches: 24, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
141 95 0.22
142 1 0.00
143 276 0.65
144 1 0.00
145 53 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:17448554 original size:22 final size:22
Alignment explanation
Indices: 17448528--17448572 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
17448518 AGAAAATTTA
*
17448528 AACAATGTAAGCTATAAAGCTT
1 AACAAAGTAAGCTATAAAGCTT
17448550 AACAAAGTAAGCTATAAAGCTT
1 AACAAAGTAAGCTATAAAGCTT
17448572 A
1 A
17448573 GTAAGTTCAT
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:0.49, C:0.13, G:0.13, T:0.24
Consensus pattern (22 bp):
AACAAAGTAAGCTATAAAGCTT
Found at i:17451781 original size:29 final size:28
Alignment explanation
Indices: 17451687--17451786 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
17451677 TATATTAAGT
* *
17451687 CCGCACACTCAGTTGCTATATAATC-AAC
1 CCGCACACTTAG-TGCTATACAATCAAAC
* *
17451715 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
17451743 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
17451772 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
17451787 CAATCTCTGA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.19
28 33 0.52
29 19 0.30
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:17459809 original size:28 final size:27
Alignment explanation
Indices: 17459746--17459843 Score: 106
Period size: 27 Copynumber: 3.5 Consensus size: 27
17459736 ATATTAAGTC
*
17459746 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
17459773 CGCACACTTAGTGGTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
* * * * *
17459801 CGTACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAACT
17459830 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17459844 CAATCTCATG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 21 0.36
28 21 0.36
29 16 0.27
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:17494146 original size:42 final size:42
Alignment explanation
Indices: 17494075--17494180 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
17494065 GAGTTACATG
* * * *
17494075 GCCTGAACACATGCCCATGTCCTTGCCCGTGTGGCTCACACG
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
*
17494117 GCTTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
1 GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
* * *
17494159 GCCTGGGCACACGCTTATGTCC
1 GCCTGAGCACATGCTCATGTCC
17494181 CTAGCCATGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.17, C:0.36, G:0.24, T:0.24
Consensus pattern (42 bp):
GCCTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
Found at i:17494192 original size:42 final size:42
Alignment explanation
Indices: 17494075--17494192 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 42
17494065 GAGTTACATG
* * * * * * *
17494075 GCCTGAACACATGCCCATGTCCTTGCCCGTGTGGCTCACACG
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
* * * *
17494117 GCTTGAGCACATGCTCATGTCCTTACCCGTGTGGCTCACACA
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
* * *
17494159 GCCTGGGCACACGCTTATGTCCCTAGCCATGTGG
1 GCCTGAGCACACGCTCATGTCCCTACCCATGTGG
17494193 TTCCAAAGCG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.17, C:0.35, G:0.25, T:0.24
Consensus pattern (42 bp):
GCCTGAGCACACGCTCATGTCCCTACCCATGTGGCTCACACA
Found at i:17498682 original size:21 final size:21
Alignment explanation
Indices: 17498657--17498696 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17498647 AGAGAGAAAA
*
17498657 TGTG-AGTGAGTGAGTGAGATG
1 TGTGAAGTGAGGGA-TGAGATG
17498678 TGTGAAGTGAGGGATGAGA
1 TGTGAAGTGAGGGATGAGA
17498697 AATGAGGGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.28, C:0.00, G:0.47, T:0.25
Consensus pattern (21 bp):
TGTGAAGTGAGGGATGAGATG
Found at i:17499847 original size:42 final size:42
Alignment explanation
Indices: 17499769--17499848 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
17499759 GTGCAGGTTT
*
17499769 CACACGGCCAAGACACACACCCGTGTTCTAGGCCATGTAGCA
1 CACACGGCCAAGACACACACCCGTGTTCTAGCCCATGTAGCA
**
17499811 CACACGGTTAAGACACACACCCGTGTCTCT-GCCCATGT
1 CACACGGCCAAGACACACACCCGTGT-TCTAGCCCATGT
17499849 GCTCAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCCGTGTTCTAGCCCATGTAGCA
Found at i:17502950 original size:16 final size:15
Alignment explanation
Indices: 17502929--17502962 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
17502919 CTTCAAATTC
17502929 AAGTATACAACATCGA
1 AAGTATACAACATC-A
17502945 AAGTATACAACATCA
1 AAGTATACAACATCA
17502960 AAG
1 AAG
17502963 GATATCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.53, C:0.18, G:0.12, T:0.18
Consensus pattern (15 bp):
AAGTATACAACATCA
Found at i:17505697 original size:43 final size:43
Alignment explanation
Indices: 17505633--17505737 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
17505623 AGATTACCTG
17505633 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
* * * *
17505676 TCTGGGCTAAATCCTTTCTATAATGATATCAATGGATTACCCG
1 TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
*
17505719 TCCGGGCTAAATCCGTTCT
1 TCCGGGCTAAATCCTTTCT
17505738 GCAACACATG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (43 bp):
TCCGGGCTAAATCCTTTCTATAATAATATCAATGGACTACCCA
Found at i:17509100 original size:20 final size:21
Alignment explanation
Indices: 17509061--17509100 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17509051 GTCAATAAGG
17509061 CCACACAGGCGTGTTGCCCTT
1 CCACACAGGCGTGTTGCCCTT
*
17509082 CCACACTGGCGTG-TGCCCT
1 CCACACAGGCGTGTTGCCCT
17509101 GTTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.25, T:0.23
Consensus pattern (21 bp):
CCACACAGGCGTGTTGCCCTT
Found at i:17518606 original size:18 final size:18
Alignment explanation
Indices: 17518576--17518610 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17518566 GCTCGTTCTG
17518576 GCGTAGTTCTGGTTTATC
1 GCGTAGTTCTGGTTTATC
17518594 GCGT-GTTCTTGGTTTAT
1 GCGTAGTTC-TGGTTTAT
17518611 GCGCCTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.14, G:0.29, T:0.49
Consensus pattern (18 bp):
GCGTAGTTCTGGTTTATC
Found at i:17520975 original size:15 final size:15
Alignment explanation
Indices: 17520957--17520989 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17520947 CTACCAAGAG
17520957 AAAAAAAAGTAAATT
1 AAAAAAAAGTAAATT
*
17520972 AAAAAAAATTAAATT
1 AAAAAAAAGTAAATT
17520987 AAA
1 AAA
17520990 TTAAAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAAAAGTAAATT
Found at i:17521493 original size:22 final size:22
Alignment explanation
Indices: 17521465--17521508 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17521455 TTATGTTACT
17521465 ATCCCTATTCAAGACTAATAAC
1 ATCCCTATTCAAGACTAATAAC
17521487 ATCCCTATTCAAGACTAATAAC
1 ATCCCTATTCAAGACTAATAAC
17521509 GTCTAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (22 bp):
ATCCCTATTCAAGACTAATAAC
Found at i:17525519 original size:27 final size:29
Alignment explanation
Indices: 17525387--17525502 Score: 133
Period size: 29 Copynumber: 4.0 Consensus size: 29
17525377 TGAAAATAAG
* * * * *
17525387 GTGATTTGGGCCTAACGGGCCATATAAAG
1 GTGAATTGGGCCTAATGGGTCATATGAAT
* * *
17525416 GTGATTTGGGCCTAATTGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
* * *
17525445 ATGAATTAGGCCTAATAGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
17525474 GTGAATTGGGCCTAATGGGTCATATGAAT
1 GTGAATTGGGCCTAATGGGTCATATGAAT
17525503 TAGATGGGCC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGTCATATGAAT
Found at i:17551496 original size:23 final size:22
Alignment explanation
Indices: 17551469--17551512 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
17551459 GTAAAACTTT
17551469 AATAA-AAAATAAAATATCTTCAA
1 AATAAGAAAA-AAAA-ATCTTCAA
17551492 AATAAGTAAAAAAAAATCTTC
1 AATAAG-AAAAAAAAATCTTC
17551513 TCTTTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
24 4 0.21
25 4 0.21
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (22 bp):
AATAAGAAAAAAAAATCTTCAA
Found at i:17555392 original size:58 final size:57
Alignment explanation
Indices: 17555243--17555392 Score: 137
Period size: 57 Copynumber: 2.6 Consensus size: 57
17555233 ATCGTATAAC
* * *
17555243 AGGATTACCATTTCAGGCTAAATCCTTTATATAACGTAAGCTCAGAGGAGTTCGATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACGTAAGCTCAGAGGAGTTCGATT
* * * *
17555300 AGGATTACTAGTCCAGGCTAAACCCTAATC-ATAACGTAAGCTC-GA-GAGATAT-TATAT
1 AGGATTACCAGTCCAGGCTAAATCCT-TTCTATAACGTAAGCTCAGAGGAG-T-TCGAT-T
* * *
17555357 CGAGATTACCCGTCCGGGCTAAATCCTTTCTATAAC
1 AG-GATTACCAGTCCAGGCTAAATCCTTTCTATAAC
17555393 AACGTCAATA
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
55 3 0.04
56 5 0.07
57 40 0.54
58 26 0.35
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACGTAAGCTCAGAGGAGTTCGATT
Found at i:17555963 original size:20 final size:20
Alignment explanation
Indices: 17555934--17555978 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17555924 AACACATGTA
* *
17555934 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
17555954 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
17555974 TTCAT
1 TTCAT
17555979 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:17559269 original size:51 final size:51
Alignment explanation
Indices: 17559192--17559331 Score: 142
Period size: 51 Copynumber: 2.7 Consensus size: 51
17559182 CGGATGCCCG
* * *
17559192 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTACCTT-TTACACAAA
* *
17559243 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
* * * * *
17559294 GTGG-CTTGCACTTAGCACCACACATGTGATCGAAGCTA
1 GTGGCCTT-CACATAGTACCACACTTGTGACCAAAGCTA
17559332 TCGTACGCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
50 5 0.07
51 70 0.92
52 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTTTACACAAA
Found at i:17559332 original size:51 final size:51
Alignment explanation
Indices: 17559222--17559422 Score: 160
Period size: 51 Copynumber: 4.0 Consensus size: 51
17559212 CCCTTGTAGT
* * * *
17559222 CAAAGCTACCTTCTT-CACAAAGTGGCCTT-CACATAGTACCACACTTGTGAC
1 CAAAGCTATCTT-TTACACATAGTGG-CTTGCACTTAGTACCACACATGTGAC
* *
17559273 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGCACCACACATGTGAT
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
* * * * * *
17559324 CGAAGCTATC--GTACGCATAGTAGCTTGCACTTAGTACTACACACGTGAC
1 CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
* * * * * * *
17559373 CTAAAACCAT-TTTAAACACATAGTAGTTTGCACATAGTACTACACATGTG
1 C-AAAGCTATCTTT-TACACATAGTGGCTTGCACTTAGTACCACACATGTG
17559423 TTCTCACAAC
Statistics
Matches: 121, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
49 33 0.27
50 10 0.08
51 47 0.39
52 31 0.26
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (51 bp):
CAAAGCTATCTTTTACACATAGTGGCTTGCACTTAGTACCACACATGTGAC
Found at i:17561596 original size:42 final size:42
Alignment explanation
Indices: 17561534--17561617 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
17561524 AAACCAAGAG
*
17561534 ATACAATTATCATTCATCACTTAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
*
17561576 ATACAATTATCATTCTTCACTCAATAATTATTTTCCAACAAT
1 ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
17561618 GGTTCTTCTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.40
Consensus pattern (42 bp):
ATACAATTATCATTCATCACTCAATAATTATTTTCCAACAAT
Found at i:17563203 original size:18 final size:18
Alignment explanation
Indices: 17563180--17563216 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17563170 TACAATGAAA
17563180 AAAAACAAAAAAAGAGAG
1 AAAAACAAAAAAAGAGAG
17563198 AAAAACAAAAAAAGAGAG
1 AAAAACAAAAAAAGAGAG
17563216 A
1 A
17563217 GAGAAGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAAAAGAGAG
Found at i:17563209 original size:20 final size:21
Alignment explanation
Indices: 17563176--17563218 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
17563166 ACTATACAAT
17563176 GAAAAAAAACAAAAAAAGAGA
1 GAAAAAAAACAAAAAAAGAGA
* *
17563197 GAAAAACAA-AAAAAGAGAGA
1 GAAAAAAAACAAAAAAAGAGA
17563217 GA
1 GA
17563219 GAAGAGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.77, C:0.05, G:0.19, T:0.00
Consensus pattern (21 bp):
GAAAAAAAACAAAAAAAGAGA
Found at i:17563572 original size:9 final size:9
Alignment explanation
Indices: 17563558--17563599 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
17563548 TTACATAAAC
17563558 TTATAAATA
1 TTATAAATA
17563567 TTATAAA-A
1 TTATAAATA
* *
17563575 ATATAAGTA
1 TTATAAATA
17563584 TTATAAATA
1 TTATAAATA
17563593 TTATAAA
1 TTATAAA
17563600 AATATCCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TTATAAATA
Found at i:17563687 original size:21 final size:20
Alignment explanation
Indices: 17563645--17563712 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
17563635 AGAAAAAATA
*
17563645 ATAAAAATAT-TTAAAATTT
1 ATAAAAATGTATTAAAATTT
17563664 ATAAAAATGTATTAAAATTCT
1 ATAAAAATGTATTAAAATT-T
* *
17563685 ATAAAAA-GCATTAAAATTG
1 ATAAAAATGTATTAAAATTT
17563704 ATATAAAAT
1 ATA-AAAAT
17563713 TATAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 12 0.29
20 22 0.52
21 8 0.19
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (20 bp):
ATAAAAATGTATTAAAATTT
Found at i:17563691 original size:11 final size:10
Alignment explanation
Indices: 17563622--17563691 Score: 54
Period size: 10 Copynumber: 6.9 Consensus size: 10
17563612 ATCTAATAAA
17563622 TTATAAAAAAT
1 TTAT-AAAAAT
* *
17563633 TTAGAAAAAA
1 TTATAAAAAT
*
17563643 TAATAAAAAT
1 TTATAAAAAT
17563653 ATT-T-AAAAT
1 -TTATAAAAAT
17563662 TTATAAAAAT
1 TTATAAAAAT
* *
17563672 GTATTAAAAT
1 TTATAAAAAT
17563682 TCTATAAAAA
1 T-TATAAAAA
17563692 GCATTAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
8 2 0.04
9 6 0.13
10 26 0.58
11 11 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAAAT
Found at i:17566150 original size:35 final size:36
Alignment explanation
Indices: 17566101--17566168 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
17566091 TTCTAATTAA
*
17566101 ATTAACTTTAGAAAAATCAAATAATTTGAATAATTG
1 ATTAACTTTAGAAAAATCAAATAACTTGAATAATTG
*
17566137 ATTAACTTT-GAAAAATCAAATAACTTGCATAA
1 ATTAACTTTAGAAAAATCAAATAACTTGAATAA
17566169 CTCAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 21 0.70
36 9 0.30
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (36 bp):
ATTAACTTTAGAAAAATCAAATAACTTGAATAATTG
Found at i:17566160 original size:18 final size:18
Alignment explanation
Indices: 17566103--17566162 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
17566093 CTAATTAAAT
17566103 TAACTTTAGAAAAATCAAA
1 TAACTTT-GAAAAATCAAA
* ** *
17566122 TAA-TTTGAATAATTGAT
1 TAACTTTGAAAAATCAAA
17566139 TAACTTTGAAAAATCAAA
1 TAACTTTGAAAAATCAAA
17566157 TAACTT
1 TAACTT
17566163 GCATAACTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
17 10 0.31
18 19 0.59
19 3 0.09
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (18 bp):
TAACTTTGAAAAATCAAA
Found at i:17566177 original size:36 final size:36
Alignment explanation
Indices: 17566100--17566177 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 36
17566090 TTTCTAATTA
* *
17566100 AATTAACTTTAGAAAAATCAAATAATTTGAATAATT
1 AATTAACTTTAGAAAAATCAAATAACTTGAATAATC
* *
17566136 GATTAACTTT-GAAAAATCAAATAACTTGCATAACTC
1 AATTAACTTTAGAAAAATCAAATAACTTGAATAA-TC
17566172 AATTAA
1 AATTAA
17566178 ATTAATTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 21 0.58
36 15 0.42
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (36 bp):
AATTAACTTTAGAAAAATCAAATAACTTGAATAATC
Found at i:17566891 original size:6 final size:6
Alignment explanation
Indices: 17566882--17566914 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
17566872 TTGTAATGGT
17566882 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
17566915 TTTAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:17567844 original size:14 final size:13
Alignment explanation
Indices: 17567825--17567868 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
17567815 TAATTTATTT
17567825 TAAATAAAATATAA
1 TAAATAAAATA-AA
17567839 TAAATAAAATAAA
1 TAAATAAAATAAA
*
17567852 TTAAT-AAATAAA
1 TAAATAAAATAAA
*
17567864 AAAAT
1 TAAAT
17567869 TTCAGCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TAAATAAAATAAA
Found at i:17567858 original size:17 final size:17
Alignment explanation
Indices: 17567826--17567869 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 17
17567816 AATTTATTTT
17567826 AAATAAAATATAATAAATA
1 AAAT-AAAT-TAATAAATA
17567845 AAATAAATTAATAAATA
1 AAATAAATTAATAAATA
17567862 AAA-AAATT
1 AAATAAATT
17567870 TCAGCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.20
17 12 0.48
18 4 0.16
19 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAATTAATAAATA
Found at i:17572243 original size:11 final size:11
Alignment explanation
Indices: 17572211--17572251 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17572201 GAATAAAAAG
*
17572211 TATATACATAG
1 TATATACATAA
*
17572222 TAT-TA-AAAA
1 TATATACATAA
17572231 TATATACATAA
1 TATATACATAA
17572242 TATATACATA
1 TATATACATA
17572252 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:17572596 original size:25 final size:26
Alignment explanation
Indices: 17572568--17572632 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
17572558 AATAATGTGA
*
17572568 TATTAAAAATATATACAATATATA-G
1 TATTAAAAATATACACAATATATAGG
* *
17572593 TATTAAGAATATACGCAATATATATGG
1 TATTAAAAATATACACAATATATA-GG
17572620 TATTAAAAATATA
1 TATTAAAAATATA
17572633 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.62
27 13 0.38
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (26 bp):
TATTAAAAATATACACAATATATAGG
Found at i:17572771 original size:154 final size:154
Alignment explanation
Indices: 17572604--17572911 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
17572594 ATTAAGAATA
17572604 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
1 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
17572669 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
66 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
17572734 GAATATATAAACAACAATATGTAC
131 GAATATATAAACAACAATATGTAC
17572758 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
1 TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
17572823 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
66 TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
17572888 GAATATATAAACAACAATATGTAC
131 GAATATATAAACAACAATATGTAC
17572912 AGGAAAAAAT
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (154 bp):
TACGCAATATATATGGTATTAAAAATATAGTATTAAAAAACATAATATATACATATACGTATTGA
TTAAAAAATAATACTAATAATAGTAATAGTAAAATACTAATAAATAATAGATATAGTAATAATAA
GAATATATAAACAACAATATGTAC
Found at i:17572983 original size:17 final size:16
Alignment explanation
Indices: 17572950--17572988 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
17572940 TTAGTAACGC
*
17572950 TATATATATGTAAACA
1 TATATATATGGAAACA
17572966 TATATATATTGGAAACA
1 TATATATA-TGGAAACA
17572983 TATATA
1 TATATA
17572989 CATAGTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (16 bp):
TATATATATGGAAACA
Found at i:17572991 original size:25 final size:24
Alignment explanation
Indices: 17572963--17573025 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 24
17572953 ATATATGTAA
17572963 ACATATATATATTGGAAACATATAT
1 ACATATATATATT-GAAACATATAT
* *
17572988 ACATAGTATTAGTATTTAAATATATAT
1 ACATA-TA-TA-TATTGAAACATATAT
17573015 AC-TATA-ATATT
1 ACATATATATATT
17573026 TAAGAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
25 7 0.21
26 4 0.12
27 13 0.39
28 4 0.12
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (24 bp):
ACATATATATATTGAAACATATAT
Found at i:17573238 original size:26 final size:26
Alignment explanation
Indices: 17573147--17573238 Score: 73
Period size: 26 Copynumber: 3.5 Consensus size: 26
17573137 TATATGACTA
*
17573147 ATAATATTTAAGAA-TGTATACATAAT
1 ATAATA-TTAAGAATTATATACATAAT
* ** *
17573173 ATAGTAAGAA-ATATATATATACGTAAT
1 ATAATATTAAGA-AT-TATATACATAAT
*
17573200 ATAGA-ATTTAGAATTATATACATAAT
1 ATA-ATATTAAGAATTATATACATAAT
17573226 ATAATATTAAGAA
1 ATAATATTAAGAA
17573239 AATTAATAAT
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
24 1 0.02
25 4 0.08
26 26 0.53
27 17 0.35
28 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (26 bp):
ATAATATTAAGAATTATATACATAAT
Found at i:17575174 original size:164 final size:148
Alignment explanation
Indices: 17575104--17575395 Score: 422
Period size: 149 Copynumber: 2.0 Consensus size: 148
17575094 ATTGAAAAAC
* * *
17575104 AGAAACTAAAAATACCTCAGCATGTGAGCCGAGGCTTAACTCATCTCTCGCAATATGAGTTGATT
1 AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * *
17575169 TTTTTTGCAAAACAGAAATTAAAAATACCGCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAAT
65 TTTTTTACAAAACAGAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
17575234 ATGAGTTGATTTTGACGAAT
129 ATGAGTTGATTTTGACGAAT
* *
17575254 AGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* ** * * *
17575319 TTTTGATGAAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATA
66 TTTTTACAAAACAGAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
17575384 TAAGTTGATTTT
130 TGAGTTGATTTT
17575396 TGAAACAGAA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
148 4 0.03
149 64 0.51
150 58 0.46
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (148 bp):
AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTTACAAAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTGACGAAT
Found at i:17575237 original size:76 final size:76
Alignment explanation
Indices: 17575099--17575396 Score: 315
Period size: 75 Copynumber: 3.9 Consensus size: 76
17575089 CAAAAATTGA
* * *
17575099 AAAACAGAAACTAAAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAG
1 AAAACAGAAACTAAAAATACCTCAGCA-GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
17575163 TTGATTTTTTTTG
64 TTGATTTTTTTTG
* * *
17575176 CAAAACAGAAATTAAAAATACCGCAGC-GTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGT
1 -AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
17575240 TGA----TTTTG
65 TGATTTTTTTTG
* * * * **
17575248 ACGAATAGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACAGAAACTAAAAATACCTCAGCA-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
17575313 TTGATTTTTTGATG
64 TTGATTTTTT-TTG
* * * * * *
17575327 -AAACAGAAATTAAAATTACCTCAGC-GTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTT
1 AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
17575390 GATTTTT
66 GATTTTT
17575397 GAAACAGAAA
Statistics
Matches: 183, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
72 25 0.14
74 36 0.20
75 40 0.22
76 33 0.18
77 20 0.11
78 26 0.14
79 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
AAAACAGAAACTAAAAATACCTCAGCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTTG
Found at i:17575305 original size:74 final size:73
Alignment explanation
Indices: 17575101--17575412 Score: 312
Period size: 74 Copynumber: 4.2 Consensus size: 73
17575091 AAAATTGAAA
* *
17575101 AACAGAAACTAAAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAGTT
1 AACAGAAACTAAAAATACCTCAGC--GTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
17575165 GATTTTTTTTG-CAA
63 GA---TTTTTGAC-G
* * * *
17575179 AACAGAAATTAAAAATACCGCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTTGA-
1 AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
17575243 TTTTGACG
66 TTTTGACG
* * * *
17575251 AATAGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAACTAAAAATACCTCAGC--GTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
17575316 ATTTTTTGATG
64 A-TTTTTGACG
* * * * * * *
17575327 AAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTTGA
1 -AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17575392 TTTTTGA--
65 TTTTTGACG
17575399 AACAGAAA-TAAAAA
1 AACAGAAACTAAAAA
17575413 CATCAGAATA
Statistics
Matches: 199, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
70 5 0.03
71 8 0.04
72 25 0.13
73 1 0.01
74 43 0.22
75 35 0.18
76 40 0.20
77 20 0.10
78 22 0.11
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (73 bp):
AACAGAAACTAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTGACG
Found at i:17575390 original size:75 final size:74
Alignment explanation
Indices: 17575100--17575396 Score: 307
Period size: 76 Copynumber: 3.9 Consensus size: 74
17575090 AAAAATTGAA
* * * *
17575100 AAACAGAAACTAAAAATACCTCAGCATGTGAGCC-GAGGCTTAACTCATCTCTCGCAATATGAGT
1 AAACAGAAA-TTAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
17575164 TGATTTTTT-TTG
62 TGATTTTTTGATG
* *
17575176 CAAAACAGAAATTAAAAATACCGCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAATATGAGTT
1 --AAACAGAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
17575241 GA--TTTTGACG
63 GATTTTTTGATG
* * * **
17575251 -AATAGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAA-TTAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
17575315 GATTTTTTGATG
63 GATTTTTTGATG
* * * *
17575327 AAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAATATAAGTTGA
1 AAACAGAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
17575392 TTTTT
65 TTTTT
17575397 GAAACAGAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
72 19 0.10
73 1 0.01
74 40 0.22
75 41 0.22
76 45 0.24
77 17 0.09
78 21 0.11
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
AAACAGAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGATG
Found at i:17575398 original size:150 final size:149
Alignment explanation
Indices: 17575104--17575395 Score: 442
Period size: 150 Copynumber: 2.0 Consensus size: 149
17575094 ATTGAAAAAC
* * *
17575104 AGAAACTAAAAATACCTCAGCATGTGAGCCGAGGCTTAACTCATCTCTCGCAATATGAGTTGATT
1 AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * *
17575169 TTTTTTGCAAAACAGAAATTAAAAATACCGCAGCGTGTCCTGAGGCTCAAATCACCTCTCGCAAT
66 TTTTATG-AAAACAGAAATTAAAAATACCGCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAAT
*
17575234 ATGAGTTGATTTTGACGAAT
130 ATAAGTTGATTTTGACGAAT
* *
17575254 AGAAACTGAAAATACCTCAGCATATGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * *
17575319 TTTTGATG-AAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACATTTCGCAAT
66 TTTT-ATGAAAACAGAAATTAAAAATACCGCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAAT
17575383 ATAAGTTGATTTT
130 ATAAGTTGATTTT
17575396 TGAAACAGAA
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
149 62 0.48
150 64 0.50
151 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (149 bp):
AGAAACTAAAAATACCTCAGCATATGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTTATGAAAACAGAAATTAAAAATACCGCAGCGTGTCCTAAGGCTCAAATCACATCTCGCAATA
TAAGTTGATTTTGACGAAT
Found at i:17586516 original size:15 final size:16
Alignment explanation
Indices: 17586496--17586530 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17586486 CGTTTTATTT
*
17586496 AAAAACT-AAACTATA
1 AAAAACTAAAACCATA
17586511 AAAAACTAAAACCATA
1 AAAAACTAAAACCATA
17586527 AAAA
1 AAAA
17586531 CTTAGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACTAAAACCATA
Found at i:17587667 original size:11 final size:11
Alignment explanation
Indices: 17587635--17587675 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
17587625 GGAATAAAAG
*
17587635 TATATACATAG
1 TATATACATAA
*
17587646 TAT-TA-AAAA
1 TATATACATAA
17587655 TATATACATAA
1 TATATACATAA
17587666 TATATACATA
1 TATATACATA
17587676 TTAGAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 5 0.20
10 4 0.16
11 16 0.64
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (11 bp):
TATATACATAA
Found at i:17587755 original size:82 final size:81
Alignment explanation
Indices: 17587662--17587826 Score: 321
Period size: 81 Copynumber: 2.0 Consensus size: 81
17587652 AAATATATAC
17587662 ATAATATATACATATTAGAAATAATAATAATATTAAAAAAACAATTATTACGTAAATATACACAC
1 ATAATATATACATATTAGAAATAATAATAATATT-AAAAAACAATTATTACGTAAATATACACAC
17587727 ACATATATATATTGAAA
65 ACATATATATATTGAAA
17587744 ATAATATATACATATTAGAAATAATAATAATATTAAAAAACAATTATTACGTAAATATACACACA
1 ATAATATATACATATTAGAAATAATAATAATATTAAAAAACAATTATTACGTAAATATACACACA
17587809 CATATATATATTGAAA
66 CATATATATATTGAAA
17587825 AT
1 AT
17587827 TTATAGATAA
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 49 0.59
82 34 0.41
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (81 bp):
ATAATATATACATATTAGAAATAATAATAATATTAAAAAACAATTATTACGTAAATATACACACA
CATATATATATTGAAA
Found at i:17587758 original size:20 final size:18
Alignment explanation
Indices: 17587729--17587781 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 18
17587719 ATACACACAC
17587729 ATATAT-ATATTGAAAATA
1 ATATATAATATT-AAAATA
17587747 ATATATACATATTAGAAATA
1 ATATATA-ATATTA-AAATA
17587767 ATA-ATAATATTAAAA
1 ATATATAATATTAAAA
17587782 AACAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 4 0.12
20 13 0.41
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (18 bp):
ATATATAATATTAAAATA
Found at i:17588096 original size:25 final size:26
Alignment explanation
Indices: 17588068--17588132 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
17588058 AATAATGTGA
*
17588068 TATTTAAAATATATACAATATATA-G
1 TATTTAAAATATACACAATATATAGG
*
17588093 TA-TTAAGAATATACGCAATATATATGG
1 TATTTAA-AATATACACAATATATA-GG
*
17588120 TATTAAAAATATA
1 TATTTAAAATATA
17588133 GTATTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.12
25 17 0.52
27 9 0.27
28 3 0.09
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.37
Consensus pattern (26 bp):
TATTTAAAATATACACAATATATAGG
Found at i:17592957 original size:46 final size:45
Alignment explanation
Indices: 17592859--17593074 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
17592849 ATCTCAATTC
* *
17592859 GATGCCATGTCCCAGAAATGGTCTTACACTGACTATCATCTCGTAGTC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGACT-TCATCTCG-AGGCT
* * *
17592907 GATGCATGTCCCAGACATGTTTTACACTGACTTACGTCTTGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGACTT-CATCTCGAGGCT
* * * *
17592953 GATGCATGTCCCAGACATGGCTTACACTAGCAGTT-GTCTCGATGCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-ACTTCATCTCGAGGCT
* * * *
17592999 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGACT-TCAT-CTCGAGGCT
17593047 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
17593075 AGCTCACAAT
Statistics
Matches: 141, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
45 4 0.03
46 69 0.49
47 42 0.30
48 25 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGACTTCATCTCGAGGCT
Found at i:17606034 original size:267 final size:267
Alignment explanation
Indices: 17605559--17606349 Score: 1510
Period size: 267 Copynumber: 3.0 Consensus size: 267
17605549 CATTCATCAA
* *
17605559 CAAGTATCATAATACACAAGTTGGCATAAGCAAAACTTACTCATCAATATTCAATACACATCATA
1 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
*
17605624 TAGCATATAATGTGGCTCACATTTTATGCATACCAAATAGGTACCTGTATCACTCACAACACGGT
66 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
* *
17605689 TATAGTTTCTCATTAACTAGAAATAAAAACTTTCACCGTTGAACCATTCGGAATGCTATCGAATA
131 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
17605754 TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
196 TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
17605819 CATATCT
261 CATATCT
17605826 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
1 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
17605891 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
66 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
17605956 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
131 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
17606021 TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
196 TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
17606086 CATATCT
261 CATATCT
17606093 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
1 CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
17606158 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
66 TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
17606223 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
131 TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
* * *
17606288 TTCCATAGCATCAAACATGGGTTAAGGTGCCGATGCCATGTCCCAGACATGGTCTTACACTA
196 TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTA
17606350 ACTATCATCT
Statistics
Matches: 516, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
267 516 1.00
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (267 bp):
CAAGTATCATAATACACAAGTGGGCATAAGCAAAACTTACGCATCAATATTCAATACACATCATA
TAGCATATAATGTGGCTCACATTTTATACATACCAAATAGGTACCTGTATCACTCACAACACGGT
TATAGTTTCTCATTAACTAGAAATCAAAACTTTCGCCGTTGAACCATTCGGAATGCTATCGAATA
TTCCATAGCATTAAACGTGGGTTAAGGTGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
CATATCT
Found at i:17606407 original size:46 final size:46
Alignment explanation
Indices: 17606316--17606542 Score: 176
Period size: 46 Copynumber: 4.8 Consensus size: 46
17606306 GGGTTAAGGT
*
17606316 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTA-CATCTCG-AG
* *
17606364 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
* * * * *
17606410 GCCAATGCATGTCCCAGACATGTCATACACTAGCACT-CGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCGAG
* * * * * * * *
17606456 GCCGATGCAATGTTCTAGACGTGGTCTTAGAATGGCTCT-CATAAT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGAG
* *
17606504 GCCGATGCATGTCCTAGAAATGTCTTACACTAGCTTACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACA
17606543 ATAACCCCTA
Statistics
Matches: 144, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.01
46 76 0.53
47 37 0.26
48 28 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAG
Found at i:17609222 original size:76 final size:76
Alignment explanation
Indices: 17609129--17609282 Score: 254
Period size: 76 Copynumber: 2.0 Consensus size: 76
17609119 TAATCTTGTA
* * *
17609129 TGCTGCAATGCAGCATAGGTATTGTATCGAACTGTTAACTTCGTGGAATGGTACTAGATGAAGGG
1 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
*
17609194 GCTCTCGGTGT
66 ACTCTCGGTGT
* *
17609205 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTTGTGGAATGGTGCTAGATGAAGGG
1 TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
17609270 ACTCTCGGTGT
66 ACTCTCGGTGT
17609281 TG
1 TG
17609283 AACTTAGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (76 bp):
TGCTGCAATGCAACATAGGTATTGTATCAAACTATTAACTTCGTGGAATGGTACTAGATGAAGGG
ACTCTCGGTGT
Found at i:17613139 original size:13 final size:13
Alignment explanation
Indices: 17613121--17613161 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
17613111 CTTTTTCAAT
*
17613121 AGGGAAATTGACA
1 AGGGAAATCGACA
*
17613134 AGGGAAATCGATA
1 AGGGAAATCGACA
*
17613147 AGGGAAATGGACA
1 AGGGAAATCGACA
17613160 AG
1 AG
17613162 AAAAAGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.46, C:0.07, G:0.34, T:0.12
Consensus pattern (13 bp):
AGGGAAATCGACA
Found at i:17620635 original size:44 final size:44
Alignment explanation
Indices: 17620581--17620668 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
17620571 CCAAAGAGTA
17620581 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
1 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
17620625 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
1 AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
17620669 GCACACTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.52, C:0.07, G:0.25, T:0.16
Consensus pattern (44 bp):
AAAAAGAGTGGAATGAAGAAGATAGAAGGAAGATTCAACTCAAT
Done.