Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 79 of 320
Found at i:24928258 original size:50 final size:49
Alignment explanation
Indices: 24928195--24928329 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 49
24928185 ACATTATGAG
24928195 AGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCAC-GGATACGGGA-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCACTGGAT---GGATA
* * * * *
24928245 AGCCAGTGTAAGACCATGTTTGGGACATGATA-TCG-ACTTGATGGATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCACTGGATGGATA
* *
24928292 AGCCAGTGTAAGACCGTGTCTGGGACATGGCATTGGCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCA
24928330 TTATACCCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
46 3 0.04
47 28 0.39
48 4 0.06
49 6 0.08
50 30 0.42
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.22
Consensus pattern (49 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGACATTGGCACTGGATGGATA
Found at i:24928295 original size:97 final size:95
Alignment explanation
Indices: 24928153--24928329 Score: 252
Period size: 97 Copynumber: 1.8 Consensus size: 95
24928143 TTTATGTGCT
24928153 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTTTGGGACATGCATCGG-CACATTATGAGAGCCAGTGTAAGACCATGTCTGG
24928218 GACATGACATTGGCACGGATACGGGAAAGCC
65 GACATGACATTGGCACGGATACGGGAAAGCC
* *
24928249 AGTGTAAGACCATGTTTGGGACATGATATC-G-AC-TTGATGGATGAGCCAGTGTAAGACCGTGT
1 AGTGTAAGA-CATGTTTGGGACATG-CATCGGCACATT-AT-GA-GAGCCAGTGTAAGACCATGT
*
24928311 CTGGGACATGGCATTGGCA
61 CTGGGACATGACATTGGCA
24928330 TTATACCCAA
Statistics
Matches: 73, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
94 2 0.03
95 4 0.05
96 11 0.15
97 53 0.73
98 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (95 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCACATTATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGACATTGGCACGGATACGGGAAAGCC
Found at i:24930050 original size:27 final size:26
Alignment explanation
Indices: 24930002--24930082 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 26
24929992 GCAAGGCTGC
* * * *
24930002 CAGATATTGCGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
24930029 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
24930055 CAGATATATGTGGCAGAGCCACTAGAA
1 CAGATAT-TGTGGCAGAGCCACCAGAA
24930082 C
1 C
24930083 GCTTCCTCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:24931498 original size:15 final size:15
Alignment explanation
Indices: 24931478--24931508 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
24931468 GATAGAAGCA
24931478 AACTACCATGAACTT
1 AACTACCATGAACTT
24931493 AACTACCATGAACTT
1 AACTACCATGAACTT
24931508 A
1 A
24931509 CCTTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
AACTACCATGAACTT
Found at i:24931722 original size:26 final size:26
Alignment explanation
Indices: 24931692--24931799 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
24931682 TGAAATTCCC
24931692 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24931718 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
24931744 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
24931770 ACCATGGAACATTAACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
24931796 ATCA
1 ATCA
24931800 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.37, C:0.28, G:0.06, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:24934087 original size:25 final size:26
Alignment explanation
Indices: 24934054--24934107 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
24934044 AGACTAGGAG
*
24934054 TTCATTTTTTAAGTTTAAATAAACTT
1 TTCATTTTTTAAGTTGAAATAAACTT
24934080 TTCATTTTTTAAGTTGAAATAAACTT
1 TTCATTTTTTAAGTTGAAATAAACTT
24934106 TT
1 TT
24934108 ACAATTCAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (26 bp):
TTCATTTTTTAAGTTGAAATAAACTT
Found at i:24939352 original size:23 final size:23
Alignment explanation
Indices: 24939307--24939995 Score: 439
Period size: 23 Copynumber: 30.2 Consensus size: 23
24939297 ACATAAATTA
*
24939307 AATTT-CAGCAAC-TAAACAATTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
24939329 AATTTGCAGTACTTAAAAACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
24939352 AATTTACAACACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939375 AATTAGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939398 AATTTGCAGCACTTTAACAATTC
1 AATTTGCAGCACTTAAACACTTC
* * *
24939421 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
24939444 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
24939467 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939490 AA-TTACAGC-GTTAAA-ACATCTC
1 AATTTGCAGCACTTAAACAC-T-TC
*
24939512 AATTTCCAGCAAC-TAAACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
*
24939535 AATTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
24939558 AATTTAC-GACATTTGAACACTTC
1 AATTTGCAG-CACTTAAACACTTC
* * *
24939581 AATTTACAACA-TTCAAACACTTA
1 AATTTGCAGCACTT-AAACACTTC
*
24939604 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939627 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
**
24939650 AATTTGCAGCACTTTTACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * *
24939673 AATTAACAACATTTATACACCTC
1 AATTTGCAGCACTTAAACACTTC
** *
24939696 AA-TCACAGCGA-TAAAACA-TCTC
1 AATTTGCAGC-ACTTAAACACT-TC
*
24939718 AATTTCCAGCAAC-T--ACACTTC
1 AATTTGCAGC-ACTTAAACACTTC
* *
24939739 AATTTGTAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
24939762 AATTTACAACATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* * *
24939785 AATTTACAGTATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
24939808 AATTTGCAGCACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939831 AATTTGCAACACTTTAACACTTC
1 AATTTGCAGCACTTAAACACTTC
* *
24939854 AATTTACAGCATTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
24939877 AATTTGCAGCACTTTAACA-TCTC
1 AATTTGCAGCACTTAAACACT-TC
** * * * * *
24939900 AATTAACAACATTTATACTCCTC
1 AATTTGCAGCACTTAAACACTTC
**
24939923 AATTAT--AG-TGTTAAA-ACATCTC
1 AATT-TGCAGCACTTAAACAC-T-TC
* * *
24939945 AATTTCCAGCAATTATACACTTC
1 AATTTGCAGCACTTAAACACTTC
*
24939968 AATTTGCAGTACTTAAACACTTC
1 AATTTGCAGCACTTAAACACTTC
24939991 AATTT
1 AATTT
24939996 ACTTCAATTT
Statistics
Matches: 516, Mismatches: 117, Indels: 67
0.74 0.17 0.10
Matches are distributed among these distances:
20 4 0.01
21 22 0.04
22 46 0.09
23 428 0.83
24 12 0.02
25 4 0.01
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.34
Consensus pattern (23 bp):
AATTTGCAGCACTTAAACACTTC
Found at i:24939397 original size:46 final size:45
Alignment explanation
Indices: 24939347--24940506 Score: 603
Period size: 46 Copynumber: 25.2 Consensus size: 45
24939337 GTACTTAAAA
*
24939347 ACTTCAATTTACAACACTTTAACACTTCAATTAGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAATTA-CAGCACTTTAAC
* * *
24939393 ACTTCAATTTGCAGCACTTTAACAATTCAATTTACAACA-TTTAAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCACTTT-AAC
* *
24939439 ACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-TTTATAC
1 ACTTCAATTTACAGCACTTTAACACT-TCAATT-ACAGCACTTTA-AC
* * * * * *
24939485 TCCTCAA-TTACAG--CGTTAAAACATCTCAATTTCCAGCAAC-TAAAC
1 ACTTCAATTTACAGCACTTTAACAC-T-TCAA-TTACAGC-ACTTTAAC
* * *
24939530 ACTTCAATTTGCAGTACTTAAACACTTCAATTTAC-G-ACATTTGAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCAC-TTT-AAC
* * * *
24939576 ACTTCAATTTACAACA-TTCAAACACTTAAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTT-TAACACTTCAA-TTACAGCACTTTAAC
* *
24939622 ACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTTAC
1 ACTTCAATTTACAGCACTTT-AACACTTCAA-TTACAGCACTTTAAC
* * * * **
24939668 A-TCTCAATTAACAACA-TTTATACACCTCAATCACAGCGA-TAAAAC
1 ACT-TCAATTTACAGCACTTTA-ACACTTCAATTACAGC-ACTTTAAC
* ** * *
24939713 A-TCTCAATTTCCAGCAAC--T-ACACTTCAATTTGTAGTACTTAAAC
1 ACT-TCAATTTACAGC-ACTTTAACACTTCAA-TTACAGCACTTTAAC
* *
24939757 ACTTCAATTTACAACA-TTTAAACACTTCAATTTACAGTA-TTTAAAC
1 ACTTCAATTTACAGCACTTT-AACACTTCAA-TTACAGCACTTT-AAC
* * *
24939803 ACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAACACTTTAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCACTTTAAC
*
24939849 ACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCACTTT-AACACTTCAA-TTACAGCACTTTAAC
* * * * * *
24939895 A-TCTCAATTAACAACA-TTTATACTCCTCAATTATAG---TGTTAAA
1 ACT-TCAATTTACAGCACTTTA-ACACTTCAATTACAGCACT-TTAAC
* * * * *
24939938 ACATCTCAATTTCCAGCA-ATTATACACTTCAATTTGCAGTACTTAAAC
1 AC-T-TCAATTTACAGCACTTTA-ACACTTCAA-TTACAGCACTTTAAC
* * **
24939986 ACTTCAATTTACTTCAATTTACAACATTCAAACACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTA---C-A---GC-AC-TT-TAACACTTCAA-TTACAGCACTTTAAC
* **
24940042 ACTTCAATTTGCAGCACTTTAACACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCACTTTAAC
* * * * **
24940088 A-TCTCAATTAACAACA-TTTATACCCCTCAATTACAGCGA-TCAAAC
1 ACT-TCAATTTACAGCACTTTA-ACACTTCAATTACAGC-ACTTTAAC
* * * * * * *
24940133 A-TCTCAATTTCCATCAAC-TAAATACTTCAATTTGCAGTACTTAAAC
1 ACT-TCAATTTACAGC-ACTTTAACACTTCAA-TTACAGCACTTTAAC
*
24940179 ACTTCAATTTACAACA-TTTAAACACTTCAATTTACAGCA-TTTAAAC
1 ACTTCAATTTACAGCACTTT-AACACTTCAA-TTACAGCACTTT-AAC
* *
24940225 ACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-TTTATAC
1 ACTTCAATTTACAGCACTTTAACACT-TCAATT-ACAGCACTTTA-AC
* ** *
24940271 ACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTACAACA-TTTAAGC
1 ACTTCAATTTACAGC-ACTTTAACACT-TCAA-TTACAGCACTTTAA-C
*
24940316 ACTTCAATTTACAGCA-TTTAAACACTTCAATTTACAACA-TTTAAC
1 ACTTCAATTTACAGCACTTT-AACACTTCAA-TTACAGCACTTTAAC
*
24940361 ACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCAC-TTAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCACTTTAAC
*
24940406 ACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTTAAAC
1 ACTTCAATTTACAGCACTTTAACACTTCAA-TTACAGCACTTT-AAC
* * *
24940452 ACTTCAATTTGCTGCACTTTAACA-TCTCAATTAACAACA-TTTATAC
1 ACTTCAATTTACAGCACTTTAACACT-TCAATT-ACAGCACTTTA-AC
*
24940498 ACCTCAATT
1 ACTTCAATT
24940507 AACATCTCAG
Statistics
Matches: 904, Mismatches: 126, Indels: 168
0.75 0.11 0.14
Matches are distributed among these distances:
42 1 0.00
43 23 0.03
44 21 0.02
45 251 0.28
46 529 0.59
47 22 0.02
48 15 0.02
49 3 0.00
50 1 0.00
52 1 0.00
53 2 0.00
54 1 0.00
56 33 0.04
57 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (45 bp):
ACTTCAATTTACAGCACTTTAACACTTCAATTACAGCACTTTAAC
Found at i:24939399 original size:69 final size:67
Alignment explanation
Indices: 24939321--24940461 Score: 707
Period size: 69 Copynumber: 16.5 Consensus size: 67
24939311 TCAGCAACTA
* * *
24939321 AACAATTCAATTTGCAGTACTTAAAAACTTCAATTTACAACACTTTAACACTTCAATTAGCAGCA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA-TTTAACACTTCAATTA-CAGCA
24939386 CTTT
64 CTTT
* * *
24939390 AACACTTCAATTTGCAGCACTTTAACAATTCAATTTACAACATTTAAACACTTCAATTTGCAGCA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGCA
24939455 CTTT
64 CTTT
** * * * * * * * * *
24939459 AACA-TCTCAATTAACAACATTTATACTCCTCAA-TTACAGC-GTTAAAACATCTCAATTTCCAG
1 AACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAACAC-T-TCAA-TTACAG
*
24939521 CAAC-TA
62 C-ACTTT
* * *
24939527 AACACTTCAATTTGCAGTACTTAAACACTTCAATTTACGACATTTGAACACTTCAATTTACAACA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGCA
*
24939592 -TTCA
64 CTT-T
* * * *
24939596 AACACTTAAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGCA
24939661 CTTT
64 CTTT
* ** * * * * * * ** *
24939665 TACA-TCTCAATTAACAACATTTATACACCTCAA-TCACAGCGATAAAACA-TCTCAATTTCCAG
1 AACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAAC-ATTTAACACT-TCAA-TTACAG
24939727 CAAC--T
62 C-ACTTT
* * *
24939732 -ACACTTCAATTTGTAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGTA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGCA
24939796 -TTT
64 CTTT
* *
24939799 AAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAACACTTTAACACTTCAATTTACAGC
1 -AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA-TTTAACACTTCAA-TTACAGC
24939864 A-TTT
63 ACTTT
* * * * *
24939868 AAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACTCCTCAATTATAG-
1 -AACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACATTTA-ACACTTCAATTACAGC
24939931 --TGTT
63 ACT-TT
* * * * * *
24939935 AAAACATCTCAATTTCCAGCAATTATACACTTCAATTTGCAGTAC-TTAAACACTTCAATTTACT
1 AACAC-T-TCAATTTGCAGCACTTAAACACTTCAATTTACA--ACATTTAACACTTCAA-TTA--
* *
24939999 TCAATTTACAACATTCA
59 -C-A---GC-AC-TT-T
* * * * **
24940016 AACACTTCAATTTGTAGCACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGTAGCA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA-TTTAACACTTCAA-TTACAGCA
24940081 CTTT
64 CTTT
** * * * * * * ** * *
24940085 AACA-TCTCAATTAACAACATTTATACCCCTCAA-TTACAGCGATCAAACA-TCTCAATTTCCAT
1 AACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAAC-ATTTAACACT-TCAA-TTACAG
*
24940147 CAAC-TA
62 C-ACTTT
* *
24940153 AATACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCA
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGCA
24940218 -TTT
64 CTTT
* * *
24940221 AAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATACACCTCAATTACAGC
1 -AACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAACATTTA-ACACTTCAATTACAGC
**
24940285 GA-TAA
63 -ACTTT
* * * * * *
24940290 AACA-TCTCAATTTACAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAAC
1 AACACT-TCAATTTGCAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAA-TTACAGC
24940354 A-TTT
63 ACTTT
* * * *
24940358 AACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTTAACACTTCAATTTGCAGCAC
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAACACTTCAA-TTACAGCAC
24940423 TTT
65 TTT
* *
24940426 AACACTTCAATTTACAGCATTTAAACACTTCAATTT
1 AACACTTCAATTTGCAGCACTTAAACACTTCAATTT
24940462 GCTGCACTTT
Statistics
Matches: 838, Mismatches: 165, Indels: 139
0.73 0.14 0.12
Matches are distributed among these distances:
66 34 0.04
67 48 0.06
68 286 0.34
69 395 0.47
70 15 0.02
71 6 0.01
72 1 0.00
73 1 0.00
75 1 0.00
77 1 0.00
79 43 0.05
80 2 0.00
81 5 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (67 bp):
AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACATTTAACACTTCAATTACAGCACT
TT
Found at i:24940083 original size:193 final size:183
Alignment explanation
Indices: 24939775--24940449 Score: 685
Period size: 193 Copynumber: 3.7 Consensus size: 183
24939765 TTACAACATT
* * * * *
24939775 TAAACACTTCAATTTACAGTATTTAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTGCA
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGCA
* *
24939839 ACACTTTAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTAACATCTCAAT
65 GCACTTTAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAACATCTCAAT
* * * * *
24939903 TAACAACATTTATACTCCTCAATTATAGTGTTAAAACATCTCAATTTCCAGCAAT
129 TAACAACATTTATACCCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAAC
*
24939958 TATACACTTCAATTTGCAGTACTTAAACACTTCAATTTACTTCAATTTACAACATTCAAACACTT
1 TAAACACTTCAATTTGCAGTACTT-AA-A---C-----ACTTCAATTTACAACATTCAAACACTT
* *
24940023 CAATTTGTAGCACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGTAGCACTTTAAC
56 CAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAAC
* *
24940088 ATCTCAATTAACAACATTTATACCCCTCAATTACAGCGATCAAACATCTCAATTTCCATCAAC
121 ATCTCAATTAACAACATTTATACCCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAAC
* * *
24940151 TAAATACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAG
** * *
24940216 CA-TTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACA-TTTATACACCTCAA
66 CACTTT-AACACTTCAATTTGCAGCACTTTAACACT-TCAATTTGCAGCACTTTA-ACATCTCAA
* * * ** * * * * **
24940278 TT-ACAGCGA-TAAAACATCTCAATTTACAAC-ATTTAAGCA-CTTCAATTTACAGCATT
128 TTAACAAC-ATTTATACCCCTCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAGCAAC
* * * * * *
24940334 TAAACACTTCAATTTACA--ACATTTAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTAC
1 TAAACACTTCAATTTGCAGTAC-TTAAACACTTCAATTTACAACA-TTCAAACACTTCAATTTGC
*
24940396 AGCAC-TTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTTAA
64 AGCACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAA
24940450 ACACTTCAAT
Statistics
Matches: 422, Mismatches: 47, Indels: 49
0.81 0.09 0.09
Matches are distributed among these distances:
180 1 0.00
181 44 0.10
182 64 0.15
183 144 0.34
184 2 0.00
185 1 0.00
188 2 0.00
191 1 0.00
192 4 0.01
193 156 0.37
194 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (183 bp):
TAAACACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTCAAACACTTCAATTTGCAG
CACTTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTGCAGCACTTTAACATCTCAATTA
ACAACATTTATACCCCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAAC
Found at i:24940259 original size:160 final size:159
Alignment explanation
Indices: 24939996--24940414 Score: 603
Period size: 160 Copynumber: 2.6 Consensus size: 159
24939986 ACTTCAATTT
* ** *
24939996 ACTTCAATTTACAACA-TTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTGCAGCACT
1 ACTTCAATTTACAGCACTT-AAACACTTCAATTTACAACA-TTTAACACTTCAATTTGCAGCACT
* *
24940060 TTAACACTTCAATTTGTAGCACTTTAACATCTCAATTAACAACATTTATACCCCTCAATTACAGC
64 TTAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
* * * *
24940125 GATCAAACATCTCAATTTCCATCAACTAAAT
129 GATAAAACATCTCAATTTACAACAACTAAAC
* * *
24940156 ACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACATTTAAACACTTCAATTTACAGCA-TT
1 ACTTCAATTTACAGCACTTAAACACTTCAATTTACAACATTT-AACACTTCAATTTGCAGCACTT
24940220 TAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
65 T-AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGC
** *
24940285 GATAAAACATCTCAATTTACAACATTTAAGC
129 GATAAAACATCTCAATTTACAACAACTAAAC
*
24940316 ACTTCAATTTACAGCATTTAAACACTTCAATTTACAACATTTAACACTTCAATTTGCAGCACTTT
1 ACTTCAATTTACAGCACTTAAACACTTCAATTTACAACATTTAACACTTCAATTTGCAGCACTTT
*
24940381 AACACTTCAATTTACAGCAC-TTAACA-CTTCAATT
66 AACACTTCAATTTGCAGCACTTTAACATC-TCAATT
24940415 TGCAGCACTT
Statistics
Matches: 233, Mismatches: 21, Indels: 12
0.88 0.08 0.05
Matches are distributed among these distances:
157 1 0.00
158 12 0.05
159 43 0.18
160 175 0.75
161 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.33
Consensus pattern (159 bp):
ACTTCAATTTACAGCACTTAAACACTTCAATTTACAACATTTAACACTTCAATTTGCAGCACTTT
AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAATTACAGCGA
TAAAACATCTCAATTTACAACAACTAAAC
Found at i:24940323 original size:68 final size:69
Alignment explanation
Indices: 24939996--24940461 Score: 397
Period size: 68 Copynumber: 6.8 Consensus size: 69
24939986 ACTTCAATTT
* ** * *
24939996 ACTTCAATTTACAACA-TTCAAACACTTCAATTTGTAGCACTTTAACACTTCAATTTGCAGCACT
1 ACTTCAATTTACAGCACTT-AAACACTTCAATTTACAGCACTTTAACACTTCAATTTACAACA-T
24940060 TT-AAC
64 TTAAAC
** * * * * * *
24940065 ACTTCAATTTGTAGCACTTTAACA-TCTCAATTAACAACA-TTTATACCCCTCAA-TTACAGCGA
1 ACTTCAATTTACAGCACTTAAACACT-TCAATTTACAGCACTTTA-ACACTTCAATTTACAAC-A
*
24940127 -TCAAAC
63 TTTAAAC
* * * * * *
24940133 A-TCTCAATTTCCATCAAC-TAAATACTTCAATTTGCAGTACTTAAACACTTCAATTTACAACAT
1 ACT-TCAATTTACAGC-ACTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTTACAACAT
24940196 TTAAAC
64 TTAAAC
* * *
24940202 ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATT
1 ACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTTAACACT-TCAATTTACAACATT
*
24940266 TATAC
65 TAAAC
* * * *
24940271 ACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTACAACA-TTTAAGCACTTCAATTTACAGCA
1 ACTTCAATTTACAGC-ACTTAAACACT-TCAATTTACAGCACTTTAA-CACTTCAATTTACAACA
24940332 TTTAAAC
63 TTTAAAC
* * * * *
24940339 ACTTCAATTTACAACA-TTTAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCACTT
1 ACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTTACAACATTT
24940403 -AAC
66 AAAC
* *
24940406 ACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCA-TTTAAACACTTCAATTT
1 ACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTT-AACACTTCAATTT
24940462 GCTGCACTTT
Statistics
Matches: 323, Mismatches: 51, Indels: 47
0.77 0.12 0.11
Matches are distributed among these distances:
67 28 0.09
68 166 0.51
69 126 0.39
70 3 0.01
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (69 bp):
ACTTCAATTTACAGCACTTAAACACTTCAATTTACAGCACTTTAACACTTCAATTTACAACATTT
AAAC
Found at i:24940510 original size:23 final size:22
Alignment explanation
Indices: 24939996--24940506 Score: 406
Period size: 23 Copynumber: 22.4 Consensus size: 22
24939986 ACTTCAATTT
* *
24939996 ACTTCAATTTACAACATTCAAAC
1 ACTTCAATTTACAGCATT-TAAC
**
24940019 ACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
24940042 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
**
24940065 ACTTCAATTTGTAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
24940088 A-TCTCAATTAACAACATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
* * **
24940111 CCCTCAA-TTACAGCGATCAAAC
1 ACTTCAATTTACAGC-ATTTAAC
* * * * *
24940133 A-TCTCAATTTCCATCAACTAAAT
1 ACT-TCAATTTACAGC-ATTTAAC
* * *
24940156 ACTTCAATTTGCAGTACTTAAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
24940179 ACTTCAATTTACAACATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
24940202 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
*
24940225 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
24940248 A-TCTCAATTAACAACATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
* **
24940271 ACCTCAA-TTACAGCGATAAAAC
1 ACTTCAATTTACAGC-ATTTAAC
*
24940293 A-TCTCAATTTACAACATTTAAGC
1 ACT-TCAATTTACAGCATTTAA-C
24940316 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
*
24940339 ACTTCAATTTACAACATTTAAC
1 ACTTCAATTTACAGCATTTAAC
*
24940361 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
*
24940384 ACTTCAATTTACAGCACTTAAC
1 ACTTCAATTTACAGCATTTAAC
*
24940406 ACTTCAATTTGCAGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
24940429 ACTTCAATTTACAGCATTTAAAC
1 ACTTCAATTTACAGCATTT-AAC
* *
24940452 ACTTCAATTTGCTGCACTTTAAC
1 ACTTCAATTTACAGCA-TTTAAC
* *
24940475 A-TCTCAATTAACAACATTTATAC
1 ACT-TCAATTTACAGCATTTA-AC
*
24940498 ACCTCAATT
1 ACTTCAATT
24940507 AACATCTCAG
Statistics
Matches: 398, Mismatches: 63, Indels: 54
0.77 0.12 0.10
Matches are distributed among these distances:
22 85 0.21
23 301 0.76
24 12 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (22 bp):
ACTTCAATTTACAGCATTTAAC
Found at i:24944780 original size:41 final size:41
Alignment explanation
Indices: 24944712--24944830 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
24944702 GGTAAATAAT
* * ** * *
24944712 GGCGTTTTCAACAAAAACGAAATTATAGCTCAATTTTTTAC
1 GGCGTTTTTACCAAAAACGCTACTATAGCTTAATTTTTTAC
* * **
24944753 GGTGTTTTTATCAAAAACGCTACTATAGCTTAATTTTTTGT
1 GGCGTTTTTACCAAAAACGCTACTATAGCTTAATTTTTTAC
* * *
24944794 GGCGTTTTTCCCAAAAACGTTACTATTGCTTAATTTT
1 GGCGTTTTTACCAAAAACGCTACTATAGCTTAATTTT
24944831 ATTTTTTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.41
Consensus pattern (41 bp):
GGCGTTTTTACCAAAAACGCTACTATAGCTTAATTTTTTAC
Found at i:24944981 original size:7 final size:7
Alignment explanation
Indices: 24944965--24945025 Score: 77
Period size: 7 Copynumber: 8.4 Consensus size: 7
24944955 ATATTAAATA
24944965 TTTAAGTT
1 TTTAA-TT
24944973 TTTAATT
1 TTTAATT
24944980 TTTAATT
1 TTTAATT
24944987 TTTAATT
1 TTTAATT
*
24944994 TTTAAAT
1 TTTAATT
*
24945001 TTTAAAT
1 TTTAATT
*
24945008 TTTAAAT
1 TTTAATT
24945015 TTTACATT
1 TTTA-ATT
24945023 TTT
1 TTT
24945026 TTGAAGATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
7 40 0.80
8 10 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (7 bp):
TTTAATT
Found at i:24944997 original size:21 final size:21
Alignment explanation
Indices: 24944958--24945025 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
24944948 GACTAAAATA
24944958 TTAAATATTTAAGTTTTTAATTT
1 TTAAAT-TTTAA-TTTTTAATTT
* *
24944981 TTAATTTTTAATTTTTAAATT
1 TTAAATTTTAATTTTTAATTT
*
24945002 TTAAATTTTAAATTTTACATTT
1 TTAAATTTTAATTTTTA-ATTT
24945024 TT
1 TT
24945026 TTGAAGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 24 0.62
22 10 0.26
23 5 0.13
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (21 bp):
TTAAATTTTAATTTTTAATTT
Found at i:24945910 original size:21 final size:21
Alignment explanation
Indices: 24945869--24945910 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24945859 AACAATAAAT
* *
24945869 CATAAACCCCAAACTCTAAAC
1 CATAAACCCCAAAATCAAAAC
*
24945890 CATAAACCCTAAAATCAAAAC
1 CATAAACCCCAAAATCAAAAC
24945911 TCTAATAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.14
Consensus pattern (21 bp):
CATAAACCCCAAAATCAAAAC
Found at i:24945987 original size:36 final size:37
Alignment explanation
Indices: 24945926--24946015 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 37
24945916 TAACAAAATA
* *
24945926 ATAAACATTATATCATAAACCCTAAAACCTC-AAACC
1 ATAAACATTAAATCATAAACCCTAAAACCCCTAAACC
* ** *
24945962 ATAAACATTAAATCTTAAATTCTAAACCCCCTAAACC
1 ATAAACATTAAATCATAAACCCTAAAACCCCTAAACC
24945999 ATAAATCA-TAAA-CATAA
1 ATAAA-CATTAAATCATAA
24946016 TCTCTAAACC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
36 29 0.64
37 14 0.31
38 2 0.04
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (37 bp):
ATAAACATTAAATCATAAACCCTAAAACCCCTAAACC
Found at i:24946108 original size:15 final size:15
Alignment explanation
Indices: 24946081--24946118 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
24946071 TACTCTTAAA
24946081 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
24946095 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
24946110 CCATAAACC
1 CCATAAACC
24946119 TTAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:24946123 original size:22 final size:21
Alignment explanation
Indices: 24946075--24946123 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
24946065 AACCCCTACT
*
24946075 CTTAAACCATAAACCATAATC
1 CTTAAACCATAAACCATAAAC
* *
24946096 CCTAAACCCATAATCCATAAAC
1 CTTAAA-CCATAAACCATAAAC
24946118 CTTAAA
1 CTTAAA
24946124 ATATTTAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (21 bp):
CTTAAACCATAAACCATAAAC
Found at i:24960572 original size:40 final size:40
Alignment explanation
Indices: 24960482--24960744 Score: 318
Period size: 40 Copynumber: 6.6 Consensus size: 40
24960472 TCCTCGTTCA
* * * * *
24960482 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
24960521 AATGCCTTCGGGA-TATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCACG
24960561 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
24960601 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
24960641 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
24960681 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
24960721 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
24960745 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.18
40 154 0.78
41 9 0.05
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:24985662 original size:21 final size:20
Alignment explanation
Indices: 24985631--24985679 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
24985621 GCCTCTCCAT
24985631 TTTTCTTTTCTT-TTTCTTTTC
1 TTTT-TTTTCTTCTTT-TTTTC
24985652 TTCTTTTTTCTTCTTTTTTTC
1 TT-TTTTTTCTTCTTTTTTTC
24985673 TTTTTTT
1 TTTTTTT
24985680 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTCTTCTTTTTTTC
Found at i:24985667 original size:18 final size:18
Alignment explanation
Indices: 24985633--24985678 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
24985623 CTCTCCATTT
*
24985633 TTCTTTTCTTTTTCTTTTC
1 TTCTTTT-TTCTTCTTTTC
*
24985652 TTCTTTTTTCTTCTTTTT
1 TTCTTTTTTCTTCTTTTC
24985670 TTCTTTTTT
1 TTCTTTTTT
24985679 TGAAATAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTCTTCTTTTC
Found at i:24985677 original size:8 final size:8
Alignment explanation
Indices: 24985641--24985679 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
24985631 TTTTCTTTTC
24985641 TTTTTCTT
1 TTTTTCTT
*
24985649 TTCTTCTTT
1 TTTTTC-TT
24985658 TTTCTTCTT
1 TTT-TTCTT
24985667 TTTTTCTT
1 TTTTTCTT
24985675 TTTTT
1 TTTTT
24985680 GAAATAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 15 0.56
9 9 0.33
10 3 0.11
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:24985679 original size:10 final size:10
Alignment explanation
Indices: 24985630--24985679 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
24985620 GGCCTCTCCA
24985630 TTTTTCTTTTC
1 TTTTT-TTTTC
24985641 TTTTTCTTTTC
1 TTTTT-TTTTC
*
24985652 TTCTTTTTTC
1 TTTTTTTTTC
24985662 TTCTTTTTTTC
1 TT-TTTTTTTC
24985673 TTTTTTT
1 TTTTTTT
24985680 GAAATAGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 12 0.33
11 24 0.67
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:24991701 original size:19 final size:19
Alignment explanation
Indices: 24991677--24991765 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
24991667 TCATATCTTT
*
24991677 TAAGATTGTATATCATATC
1 TAAGATTGCATATCATATC
24991696 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
24991714 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
24991731 TAAGATTGCATATCACATC
1 TAAGATTGCATATCATATC
*
24991750 GAAGATTGCATATCAT
1 TAAGATTGCATATCAT
24991766 TGAAGATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 31 0.49
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:24991732 original size:35 final size:37
Alignment explanation
Indices: 24991677--24991765 Score: 128
Period size: 35 Copynumber: 2.4 Consensus size: 37
24991667 TCATATCTTT
*
24991677 TAAGATTGTATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCACATC
24991714 TAAGATTG-TATCATATCTAAGATTGCATATCACATC
1 TAAGATTGATATCATATCTAAGATTGCATATCACATC
*
24991750 GAAGATTGCATATCAT
1 TAAGATTG-ATATCAT
24991766 TGAAGATTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
35 19 0.40
36 14 0.30
37 8 0.17
38 6 0.13
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCACATC
Found at i:24991744 original size:14 final size:15
Alignment explanation
Indices: 24991689--24991744 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
24991679 AGATTGTATA
24991689 TCATATCTAAGATTG
1 TCATATCTAAGATTG
24991704 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
24991722 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
24991739 -CATATC
1 TCATATC
24991745 ACATCGAAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:24991772 original size:17 final size:18
Alignment explanation
Indices: 24991732--24991773 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
24991722 TATCATATCT
24991732 AAGATTGCATATCACATCG
1 AAGATTGCATAT-ACATCG
*
24991751 AAGATTGCATAT-CATTG
1 AAGATTGCATATACATCG
24991768 AAGATT
1 AAGATT
24991774 ATATTTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.45
19 12 0.55
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
AAGATTGCATATACATCG
Found at i:25009959 original size:23 final size:23
Alignment explanation
Indices: 25009931--25010011 Score: 96
Period size: 22 Copynumber: 3.5 Consensus size: 23
25009921 AAGTTGATAC
*
25009931 ACAGTAAGCTCTATTCAGCTGAA
1 ACAGTAAGCTCTATACAGCTGAA
*
25009954 ACAGTAAGCTCTGA-AGAGCT-AA
1 ACAGTAAGCTCT-ATACAGCTGAA
25009976 ACAGTAAGCTC-ATACGAGCTGAGA
1 ACAGTAAGCTCTATAC-AGCTGA-A
25010000 ACAGTAAGCTCT
1 ACAGTAAGCTCT
25010012 TAAGAGCTGA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 17 0.35
23 17 0.35
24 13 0.27
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (23 bp):
ACAGTAAGCTCTATACAGCTGAA
Found at i:25010007 original size:24 final size:23
Alignment explanation
Indices: 25009931--25010046 Score: 112
Period size: 24 Copynumber: 4.9 Consensus size: 23
25009921 AAGTTGATAC
*
25009931 ACAGTAAGCTCTATTC-AGCTGAA
1 ACAGTAAGCTC-ATACGAGCTGAA
*
25009954 ACAGTAAGCTC-TGAAGAGCT-AA
1 ACAGTAAGCTCAT-ACGAGCTGAA
25009976 ACAGTAAGCTCATACGAGCTGAGA
1 ACAGTAAGCTCATACGAGCTGA-A
* *
25010000 ACAGTAAGCTCTTAAGAGCTGATA
1 ACAGTAAGCTCATACGAGCTGA-A
*
25010024 TATCGGTAAGCTCATACGAGCTG
1 -A-CAGTAAGCTCATACGAGCTG
25010047 CGGTGAGTCC
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
21 1 0.01
22 19 0.25
23 17 0.22
24 22 0.29
25 1 0.01
26 17 0.22
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
ACAGTAAGCTCATACGAGCTGAA
Found at i:25010017 original size:46 final size:48
Alignment explanation
Indices: 25009925--25010046 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 48
25009915 CCTCCTAAGT
* *
25009925 TGATACACAGTAAGCTCTATTC-AGCTGAAACAGTAAGCTCTGAAGAGC
1 TGATATACAGTAAGCTC-ATACGAGCTGAAACAGTAAGCTCTGAAGAGC
*
25009973 T-A-A-ACAGTAAGCTCATACGAGCTGAGAACAGTAAGCTCTTAAGAGC
1 TGATATACAGTAAGCTCATACGAGCTGA-AACAGTAAGCTCTGAAGAGC
*
25010019 TGATATATCGGTAAGCTCATACGAGCTG
1 TGATATA-CAGTAAGCTCATACGAGCTG
25010047 CGGTGAGTCC
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
44 3 0.05
45 17 0.26
46 21 0.32
47 2 0.03
48 2 0.03
49 1 0.02
50 19 0.29
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (48 bp):
TGATATACAGTAAGCTCATACGAGCTGAAACAGTAAGCTCTGAAGAGC
Found at i:25017025 original size:16 final size:16
Alignment explanation
Indices: 25017000--25017030 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25016990 GACATTCAAT
*
25017000 AAAGAGATTGTTATTC
1 AAAGAAATTGTTATTC
25017016 AAAGAAATTGTTATT
1 AAAGAAATTGTTATT
25017031 TAATCTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.39
Consensus pattern (16 bp):
AAAGAAATTGTTATTC
Found at i:25044618 original size:48 final size:49
Alignment explanation
Indices: 25044487--25044620 Score: 146
Period size: 50 Copynumber: 2.7 Consensus size: 49
25044477 AGGGTTATGT
* *
25044487 GTGATCCCATGAAAGACTATGTCTGGGACATGGCATTGGAATCGATATA
1 GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGATATA
* * * *
25044536 TGTGATCCCATGTAGGACCATATCTGGGATATGGCATTGGCATC-AGTATA
1 -GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGA-TATA
** * *
25044586 -TGATTTCGTGTAAGACCATGTTTGGGACATGGCAT
1 GTGATCCCATGTAAGACCATGTCTGGGACATGGCAT
25044621 CAATATGAGA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 28 0.40
49 1 0.01
50 41 0.59
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
GTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGAATCGATATA
Found at i:25048473 original size:27 final size:27
Alignment explanation
Indices: 25048443--25048620 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
25048433 ATATTGAGCC
* *
25048443 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
25048470 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
25048497 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
25048525 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
25048552 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
25048579 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
25048606 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25048621 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:25048582 original size:82 final size:81
Alignment explanation
Indices: 25048464--25048619 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
25048454 TGCTATATAA
* * *
25048464 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
25048529 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
25048546 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
25048610 CACTTAGTGC
65 CACTTAGTGC
25048620 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:25053512 original size:37 final size:36
Alignment explanation
Indices: 25053462--25053537 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
25053452 ATTCCAAAAA
25053462 TAATATTATTTTTAATAGT-TTATTATTAAATTTAAT-T
1 TAATATTATTTTTAATAGTATT-TT-TT-AATTTAATAT
25053499 TAATACTTA-TTTTAATAGTATTTTTTAATTTAATAT
1 TAATA-TTATTTTTAATAGTATTTTTTAATTTAATAT
25053535 TAA
1 TAA
25053538 AGTATTATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
35 8 0.22
36 6 0.17
37 17 0.47
38 5 0.14
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (36 bp):
TAATATTATTTTTAATAGTATTTTTTAATTTAATAT
Found at i:25053551 original size:37 final size:37
Alignment explanation
Indices: 25053473--25053552 Score: 87
Period size: 37 Copynumber: 2.2 Consensus size: 37
25053463 AATATTATTT
*
25053473 TTAATAGTTTATTATTAAATTTAATTTAATACTTATT
1 TTAATAGTTTATTATTAAATTTAATTTAATACTTATC
25053510 TTAATAGTATT-TT-TT-AATTTAATATTAAAGTA-TTATC
1 TTAATAGT-TTATTATTAAATTTAAT-TT-AA-TACTTATC
25053547 TTAATA
1 TTAATA
25053553 TTAAATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
35 8 0.21
36 4 0.11
37 22 0.58
38 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.55
Consensus pattern (37 bp):
TTAATAGTTTATTATTAAATTTAATTTAATACTTATC
Found at i:25053586 original size:29 final size:31
Alignment explanation
Indices: 25053525--25053586 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
25053515 AGTATTTTTT
*
25053525 AATTTAATATTAAAGTATTATCTTAATATTA
1 AATTTAATATTAAAGTATTATCTTAATAATA
*
25053556 AATTTAAT-TTAATGT-TTATCTT-ATAAATA
1 AATTTAATATTAAAGTATTATCTTAAT-AATA
25053585 AA
1 AA
25053587 CATTCTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.07
29 12 0.43
30 6 0.21
31 8 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
AATTTAATATTAAAGTATTATCTTAATAATA
Found at i:25078854 original size:180 final size:181
Alignment explanation
Indices: 25078595--25078957 Score: 665
Period size: 180 Copynumber: 2.0 Consensus size: 181
25078585 ATGCCACCAG
* * *
25078595 TGAATTAGTTCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAGTATAGGGCCGAAGAGTTCT
1 TGAATCAGTCCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAG-ATAGGGCCGAAGAGTTCC
25078660 GAGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTT
65 GAGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTT
*
25078725 GATGAATTGTCATTGAATCCCGAGGAATGCATAAAATGTATCGTTTCCCTTT
130 GATGAATTGTCATTGAATCCCGAGGAATGCATAAAATGTATCATTTCCCTTT
25078777 TGAATCAGTCCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAG-TAGGGCCGAAGAGTTCCG
1 TGAATCAGTCCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAGATAGGGCCGAAGAGTTCCG
25078841 AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
66 AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
*
25078906 ATGAATTGTCATTGAATCCCGAGGAATGTATAAAATGTATCATTTCCCTTT
131 ATGAATTGTCATTGAATCCCGAGGAATGCATAAAATGTATCATTTCCCTTT
25078957 T
1 T
25078958 AAGAGATACA
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
180 132 0.75
182 44 0.25
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (181 bp):
TGAATCAGTCCAGTTAAGTAGACCACCAGTTGACAATATTAGAAAGATAGGGCCGAAGAGTTCCG
AGCTACAACAAATGATGATGCTGAAAGGGCTGAGTTTTGGTTAGAAAAGACAATATGAGTATTTG
ATGAATTGTCATTGAATCCCGAGGAATGCATAAAATGTATCATTTCCCTTT
Found at i:25083352 original size:93 final size:93
Alignment explanation
Indices: 25083190--25083360 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
25083180 AGGATATTTG
* * * * * *
25083190 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGCTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCACTGAG
25083255 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTTGAGAGATGTAACTA
* *
25083283 GGCATCCGAGA-TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGA
1 GGCATCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCACTGA
25083347 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
25083361 CACTTATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
93 68 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCACTGAG
TTGAGTCCGAGTTTGAGAGATGTAACTA
Found at i:25086365 original size:15 final size:15
Alignment explanation
Indices: 25086337--25086407 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
25086327 GTATCTTGGG
* *
25086337 TTTCTCTATCCTGGA
1 TTTCTTTATTCTGGA
*
25086352 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
25086367 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
25086382 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
25086397 TTTCTTTATTC
1 TTTCTTTATTC
25086408 GATTTTCTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
14 2 0.04
15 42 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:25086397 original size:30 final size:30
Alignment explanation
Indices: 25086328--25086407 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
25086318 CATAGTATCG
* * * *
25086328 TATCTTGGGTTTCTCTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
25086358 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
25086388 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
25086408 GATTTTCTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:25088860 original size:46 final size:46
Alignment explanation
Indices: 25088807--25089075 Score: 259
Period size: 46 Copynumber: 5.8 Consensus size: 46
25088797 TATTTGGGCA
25088807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
25088853 TCCGAACTCGTTGATTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
*
25088898 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *** *
25088946 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GGGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
25088991 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
25089039 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25089076 GCGGGTTACA
Statistics
Matches: 182, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
42 5 0.03
43 12 0.07
45 3 0.02
46 90 0.49
47 53 0.29
48 3 0.02
50 11 0.06
51 5 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:25088965 original size:93 final size:93
Alignment explanation
Indices: 25088803--25089067 Score: 458
Period size: 93 Copynumber: 2.8 Consensus size: 93
25088793 AGGATATTTG
* *
25088803 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAT
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
25088868 TTGAGTCCGAGTTTGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
25088896 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
25088961 TTGAGTCCGAGTTCGGGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
25088989 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
25089054 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
25089068 ACTTATGGGC
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:25089021 original size:47 final size:47
Alignment explanation
Indices: 25088803--25089021 Score: 184
Period size: 47 Copynumber: 4.7 Consensus size: 47
25088793 AGGATATTTG
*** *
25088803 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
25088846 GCGAATGTCCGAACTCGTTGATTTGAGTCCGAGTTTGAGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* *** *
25088896 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
25088939 GCGAATGTTCGAACTCGTTGAGTTGAGTCCGAGTTCGGGAGATGTAACTA
1 G-GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
*
25088989 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
25089022 ACTTATGGAT
Statistics
Matches: 136, Mismatches: 26, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 5 0.04
45 1 0.01
46 58 0.43
47 60 0.44
48 2 0.01
49 6 0.04
50 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:25102400 original size:17 final size:17
Alignment explanation
Indices: 25102378--25102420 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
25102368 CAACTAGCAA
* *
25102378 CTGGCTTTTCGAACCCC
1 CTGGCTCTTCAAACCCC
25102395 CTGGCTCTTCAAACCCC
1 CTGGCTCTTCAAACCCC
25102412 CTGGCTCTT
1 CTGGCTCTT
25102421 ATCCTACCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.12, C:0.42, G:0.16, T:0.30
Consensus pattern (17 bp):
CTGGCTCTTCAAACCCC
Found at i:25105125 original size:17 final size:18
Alignment explanation
Indices: 25105091--25105125 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25105081 CAATGTATGG
*
25105091 GTTCGCACATGACATATA
1 GTTCACACATGACATATA
25105109 GTTCACACATG-CATATA
1 GTTCACACATGACATATA
25105126 AGCTCGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (18 bp):
GTTCACACATGACATATA
Found at i:25105268 original size:18 final size:17
Alignment explanation
Indices: 25105247--25105280 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25105237 TGCAATGTAT
*
25105247 GGCTCGCTCACATATATA
1 GGCTCGCACACA-ATATA
25105265 GGCTCGCACACAATAT
1 GGCTCGCACACAATAT
25105281 TTATATGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
GGCTCGCACACAATATA
Found at i:25105752 original size:19 final size:19
Alignment explanation
Indices: 25105730--25105766 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
25105720 TTCTTAACTT
25105730 CAGATCTAGTGC-TTAATTA
1 CAGATCTAG-GCATTAATTA
25105749 CAGATCTAGGCATTAATT
1 CAGATCTAGGCATTAATT
25105767 TCACTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
CAGATCTAGGCATTAATTA
Found at i:25108572 original size:23 final size:23
Alignment explanation
Indices: 25108544--25108618 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
25108534 CATGCCATCA
25108544 ATAAATGCACTTATCATGCACTC
1 ATAAATGCACTTATCATGCACTC
* * *
25108567 ATAAAT-CA-TACAATTAGGCA-TC
1 ATAAATGCACT--TATCATGCACTC
25108589 AATAAATGCACTTATCATGCACTC
1 -ATAAATGCACTTATCATGCACTC
25108613 ATAAAT
1 ATAAAT
25108619 CTCATCAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
21 1 0.03
22 4 0.10
23 30 0.75
24 4 0.10
25 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (23 bp):
ATAAATGCACTTATCATGCACTC
Found at i:25111169 original size:15 final size:15
Alignment explanation
Indices: 25111151--25111194 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25111141 GAAGCCCAGA
25111151 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
25111166 ATAAAGAATTTCATG
1 ATAAAGAAATCCAAG
*
25111181 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
25111195 TTTACAACAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:25119304 original size:90 final size:90
Alignment explanation
Indices: 25119196--25119362 Score: 264
Period size: 90 Copynumber: 1.9 Consensus size: 90
25119186 GTAGATTCCC
* *
25119196 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCTTTT
1 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTTCTTGTCATTT
25119261 AATTAG-TTAGCTAAATTCACTTTCT
66 AATT-GTTTAGCTAAATTCACTTTCT
* * * *
25119286 TGAAAATATTTCAAAAAAGCTATTTTAAATGAAACAAACATATATTTAAATTTTTCTTTTCATTT
1 TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTTCTTGTCATTT
25119351 AATTGTTTAGCT
66 AATTGTTTAGCT
25119363 TTAATAGCCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 1 0.01
90 69 0.99
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.43
Consensus pattern (90 bp):
TGAAAATATTTCAAAAAAGATATTTTAAACGAAACAAACATACATTTAAATTTTTCTTGTCATTT
AATTGTTTAGCTAAATTCACTTTCT
Found at i:25120755 original size:43 final size:43
Alignment explanation
Indices: 25120598--25120758 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 43
25120588 TATGTGTTTT
*
25120598 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGTT--TTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTGA--TAT-TTGATTA
* * * * *
25120642 TGTGTAAGACCATGTCTGGGATATTGGCA-TCATATTTGATTT
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTA
*
25120684 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGA-TGTTGGCATTGATATTTGATTA
* *
25120727 CATTTAAGACCACGTCTGGGATGTTGGCATTG
1 CGTGTAAGACCACGTCTGGGATGTTGGCATTG
25120759 TACGAGCTTT
Statistics
Matches: 95, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 26 0.27
43 37 0.39
44 27 0.28
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATTGATATTTGATTA
Found at i:25126497 original size:13 final size:13
Alignment explanation
Indices: 25126479--25126503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25126469 AGGCAGCCAA
25126479 TTTTTTCATTTTC
1 TTTTTTCATTTTC
25126492 TTTTTTCATTTT
1 TTTTTTCATTTT
25126504 TTTAATTTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTCATTTTC
Found at i:25126526 original size:22 final size:22
Alignment explanation
Indices: 25126479--25126526 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
25126469 AGGCAGCCAA
* * *
25126479 TTTTTTCATTTTCTTTTTTCAT
1 TTTTTTAATTTTCTTATTTCAC
25126501 TTTTTTAATTTTC-TATTTCAAC
1 TTTTTTAATTTTCTTATTTC-AC
25126523 TTTT
1 TTTT
25126527 AATTAAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTAATTTTCTTATTTCAC
Found at i:25128020 original size:19 final size:19
Alignment explanation
Indices: 25127987--25128028 Score: 68
Period size: 18 Copynumber: 2.2 Consensus size: 19
25127977 TTCAAAGCTT
25127987 TTTTTTAAATAAAAAT-AA
1 TTTTTTAAATAAAAATAAA
25128005 TTTTTTAAATAAAAAATAAA
1 TTTTTTAAAT-AAAAATAAA
25128025 TTTT
1 TTTT
25128029 AATTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTTTAAATAAAAATAAA
Found at i:25128930 original size:14 final size:14
Alignment explanation
Indices: 25128911--25128942 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25128901 CAGGGGAAAG
*
25128911 AAAGAATGAAGGAA
1 AAAGAAAGAAGGAA
25128925 AAAGAAAGAAGGAA
1 AAAGAAAGAAGGAA
25128939 AAAG
1 AAAG
25128943 GGAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (14 bp):
AAAGAAAGAAGGAA
Found at i:25130606 original size:53 final size:53
Alignment explanation
Indices: 25130539--25130659 Score: 197
Period size: 53 Copynumber: 2.3 Consensus size: 53
25130529 TACTGTTACC
*
25130539 GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTGTGTACCGTAAT
1 GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTATGTACCGTAAT
* * *
25130592 GTTACTGTTACTGTTTCGGATTTGTTCCGATGAGGTACTTTATGTACCGTACT
1 GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTATGTACCGTAAT
*
25130645 GCTACTGTTACTGTT
1 GTTACTGTTACTGTT
25130660 ACTGTTCCGG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (53 bp):
GTTACTGTTACTGTTTCAGATTTGTTCCGATGAGGTACTCTATGTACCGTAAT
Found at i:25130805 original size:19 final size:19
Alignment explanation
Indices: 25130783--25130832 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
25130773 AGTTCGACTA
25130783 TTACTGAATAATTTAATTG
1 TTACTGAATAATTTAATTG
* * *
25130802 TTACTGTAT-ATCTAATTT
1 TTACTGAATAATTTAATTG
25130820 TTACTGAATAATT
1 TTACTGAATAATT
25130833 GACTGTTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
TTACTGAATAATTTAATTG
Found at i:25133036 original size:18 final size:20
Alignment explanation
Indices: 25132998--25133041 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
25132988 TTGTGATTGA
25132998 TCTTTAAGCTTGATAATATC
1 TCTTTAAGCTTGATAATATC
*
25133018 TCTTTAAGCTTGATAATCTC
1 TCTTTAAGCTTGATAATATC
25133038 TCTT
1 TCTT
25133042 GTTGTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (20 bp):
TCTTTAAGCTTGATAATATC
Found at i:25135741 original size:39 final size:39
Alignment explanation
Indices: 25135696--25135855 Score: 268
Period size: 39 Copynumber: 4.1 Consensus size: 39
25135686 AAGCAAGACA
25135696 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
25135735 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
25135774 CTGGAAATGTAT-CGAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCG-GGCTAAAGACCCGCAGGCTTCGTG
* * *
25135813 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
25135852 CTGG
1 CTGG
25135856 TAATATAATT
Statistics
Matches: 116, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
38 2 0.02
39 112 0.97
40 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:25141671 original size:5 final size:5
Alignment explanation
Indices: 25141661--25141757 Score: 69
Period size: 5 Copynumber: 18.6 Consensus size: 5
25141651 AGTAATAAAT
*
25141661 AATAA AATAA AATAA AATAA AAT-- AATGAA TAATAA AATAA AATAA AGTAA
1 AATAA AATAA AATAA AATAA AATAA AAT-AA -AATAA AATAA AATAA AATAA
25141711 TGAAT-A AAT-A AATAAA TAATAA AATAAA AATAA AGA-AA AATACA AAT
1 --AATAA AATAA AAT-AA -AATAA AAT-AA AATAA A-ATAA AATA-A AAT
25141758 TGGGTTGCCT
Statistics
Matches: 77, Mismatches: 2, Indels: 25
0.74 0.02 0.24
Matches are distributed among these distances:
3 3 0.04
4 8 0.10
5 42 0.55
6 16 0.21
7 8 0.10
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:25141672 original size:25 final size:25
Alignment explanation
Indices: 25141657--25141743 Score: 92
Period size: 25 Copynumber: 3.5 Consensus size: 25
25141647 ATAAAGTAAT
25141657 AAATAAT-AA-AATAAAATAAAATA
1 AAATAATAAATAATAAAATAAAATA
*
25141680 AAATAATGAATAATAAAATAAAATA
1 AAATAATAAATAATAAAATAAAATA
* *
25141705 AAGTAATGAATAA-ATAAATAAATAATA
1 AAATAATAAATAATA-AAAT-AA-AATA
25141732 AAATAA-AAATAA
1 AAATAATAAATAA
25141744 AGAAAAATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
23 7 0.12
24 3 0.05
25 30 0.54
26 7 0.12
27 9 0.16
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (25 bp):
AAATAATAAATAATAAAATAAAATA
Found at i:25141680 original size:30 final size:29
Alignment explanation
Indices: 25141644--25141752 Score: 121
Period size: 30 Copynumber: 3.6 Consensus size: 29
25141634 TCACCCAAAC
25141644 AAAATAAAGTAATAAATAATAAAATAAAAT
1 AAAATAAAG-AATAAATAATAAAATAAAAT
* *
25141674 AAAATAAAATAATGAATAATAAAATAAAAT
1 AAAAT-AAAGAATAAATAATAAAATAAAAT
* *
25141704 AAAGTAATGAATAAATAAATAAATAATAAAAT
1 AAAATAAAGAATAAAT-AAT-AA-AATAAAAT
25141736 AAAAATAAAGAA-AAATA
1 -AAAATAAAGAATAAATA
25141753 CAAATTGGGT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
29 8 0.12
30 31 0.47
31 6 0.09
32 12 0.18
33 9 0.14
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (29 bp):
AAAATAAAGAATAAATAATAAAATAAAAT
Found at i:25141757 original size:22 final size:22
Alignment explanation
Indices: 25141657--25141757 Score: 61
Period size: 22 Copynumber: 4.5 Consensus size: 22
25141647 ATAAAGTAAT
*
25141657 AAATAATAAAAT-AAAATAAAATA
1 AAATAATAAAATAAAAAT-AAA-G
*
25141680 AAATAATGAATAAT-AAAATAAAAT
1 AAATAAT-AA-AATAAAAAT-AAAG
* *
25141704 AAAGTAAT-GAAT--AAATAAAT
1 AAA-TAATAAAATAAAAATAAAG
25141724 AAATAATAAAATAAAAATAAAG
1 AAATAATAAAATAAAAATAAAG
25141746 AAA-AATACAAAT
1 AAATAATA-AAAT
25141758 TGGGTTGCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
19 4 0.06
20 10 0.15
21 8 0.12
22 17 0.25
23 7 0.10
24 5 0.07
25 16 0.24
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (22 bp):
AAATAATAAAATAAAAATAAAG
Found at i:25145371 original size:10 final size:10
Alignment explanation
Indices: 25145344--25145406 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
25145334 TTAAATTTTA
25145344 AAAGATAAAT
1 AAAGATAAAT
25145354 ACAA-ATAAAT
1 A-AAGATAAAT
*
25145364 AAAGATAATT
1 AAAGATAAAT
* *
25145374 AGAGATAATT
1 AAAGATAAAT
* *
25145384 AGAGATAATT
1 AAAGATAAAT
25145394 AAAGATAAAT
1 AAAGATAAAT
25145404 AAA
1 AAA
25145407 ATTGAATCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
9 2 0.04
10 43 0.91
11 2 0.04
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:25145381 original size:20 final size:20
Alignment explanation
Indices: 25145344--25145406 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
25145334 TTAAATTTTA
*
25145344 AAAGATAAATACAA-ATAAAT
1 AAAGATAATTA-AAGATAAAT
* *
25145364 AAAGATAATTAGAGATAATT
1 AAAGATAATTAAAGATAAAT
*
25145384 AGAGATAATTAAAGATAAAT
1 AAAGATAATTAAAGATAAAT
25145404 AAA
1 AAA
25145407 ATTGAATCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
19 1 0.03
20 34 0.97
ACGTcount: A:0.63, C:0.02, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGATAATTAAAGATAAAT
Found at i:25145463 original size:14 final size:13
Alignment explanation
Indices: 25145427--25145464 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
25145417 AAAATTAAAT
25145427 CTAAATAATTATC
1 CTAAATAATTATC
*
25145440 CTTAATAATTATC
1 CTAAATAATTATC
25145453 CTAATATAATTA
1 CTAA-ATAATTA
25145465 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:25146679 original size:17 final size:17
Alignment explanation
Indices: 25146657--25146690 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25146647 TTGGGTTGAG
*
25146657 TAGAATCAATTGATTAT
1 TAGAATCAATTAATTAT
*
25146674 TAGAATGAATTAATTAT
1 TAGAATCAATTAATTAT
25146691 GAATATTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (17 bp):
TAGAATCAATTAATTAT
Found at i:25155114 original size:30 final size:31
Alignment explanation
Indices: 25155078--25155135 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
25155068 TGGAGAATTC
25155078 TTGCTCAACTA-GCTTTGTGGCTAGGAATAT
1 TTGCTCAACTAGGCTTTGTGGCTAGGAATAT
*
25155108 TTGCTCAATTAGGCTTTGTGGCTAGGAA
1 TTGCTCAACTAGGCTTTGTGGCTAGGAA
25155136 CGGGAGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (31 bp):
TTGCTCAACTAGGCTTTGTGGCTAGGAATAT
Found at i:25155701 original size:46 final size:47
Alignment explanation
Indices: 25155608--25155702 Score: 111
Period size: 46 Copynumber: 2.0 Consensus size: 47
25155598 AGAGGCAAAA
* * * * * *
25155608 TTGTTTGGTGTAATATTATCCATTGAAGGAGTTTTGTGAAATACAAT
1 TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
* *
25155655 TTGTTTAGTGTAATAGTAGCC-TTGAAGAAGGTTTGTGATAGCCAAT
1 TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
25155701 TT
1 TT
25155703 TTTGACATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.41
Consensus pattern (47 bp):
TTGTTTAGTGTAATAGTAGCCATTGAAGAAGGTTTGTGAAAGACAAT
Found at i:25161671 original size:19 final size:19
Alignment explanation
Indices: 25161644--25161680 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25161634 CTCATCATAG
25161644 ATTCATAGGCATAACTTAA
1 ATTCATAGGCATAACTTAA
*
25161663 ATTCCTAGGCATAACTTA
1 ATTCATAGGCATAACTTA
25161681 CACATTTTCA
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:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (19 bp):
ATTCATAGGCATAACTTAA
Found at i:25165248 original size:94 final size:94
Alignment explanation
Indices: 25165099--25165404 Score: 261
Period size: 94 Copynumber: 3.3 Consensus size: 94
25165089 TATGTGTGCT
* * *
25165099 AGTGTAAGACATGTTTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGACACAGTACGAGAGCCAGTGTAAGACATGTCTG-G
* **
25165164 G-CATGCATCGGCCTCGA-GATATTTAAGCC
65 GACATGCATCGACCT-GATGATATACAAGCC
* *
25165193 AGTGTAAGACATGTCTGGGACATGCATC-GACATTGAG-ACGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGACA--CAGTACGAGAGCCAGTGTAAGACATGTCTG
* *
25165256 GGACATGCATCGACCTTATGATATACAAGCT
64 GGACATGCATCGACCTGATGATATACAAGCC
* * ** * * * * * *
25165287 AGTGTAAGACCTGTCTGGGACATGGCGTCAG-C-TTGT-TGTGTGTCAATGTAAGACCTGTCTGG
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGACACAGTACGAGAGCCAGTGTAAGACATGTCTGG
* * *
25165349 GACATGGCATCGGCCTCGCT-ATATGA-AAGCT
65 GACAT-GCATCGACCT-GATGATAT-ACAAGCC
25165380 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
25165405 GCTTCGGCAT
Statistics
Matches: 176, Mismatches: 25, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
92 25 0.14
93 34 0.19
94 109 0.62
95 7 0.04
96 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGACACAGTACGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGACCTGATGATATACAAGCC
Found at i:25165268 original size:46 final size:46
Alignment explanation
Indices: 25165096--25165310 Score: 172
Period size: 48 Copynumber: 4.6 Consensus size: 46
25165086 TGATATGTGT
* * * *
25165096 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCA--CAGTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACATTGAG-ACGAGA
* * * * * *
25165142 GCCAGTGTAAGACATGTCTGAGG-CATGCATCGGCCTCGAGA-TATTTAA
1 GCTAGTGTAAGACATGTCTG-GGACATGCATCGACATTGAGACGA---GA
*
25165190 GCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGA
* *
25165236 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTATGATATAC-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-TG--AGACGAGA
*
25165284 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
25165311 GCGTCAGCTT
Statistics
Matches: 141, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
45 3 0.02
46 60 0.43
47 8 0.06
48 65 0.46
49 2 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGA
Found at i:25165306 original size:48 final size:48
Alignment explanation
Indices: 25165096--25165310 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 48
25165086 TGATATGTGT
* ** *
25165096 GCTAGTGTAAGACATGTTTGGGACATGCATC-AGCCACA-G-TATGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CCTTATGATAT-ACAA
* * * **
25165142 GCCAGTGTAAGACATGTCTGAGG-CATGCATCGGCCTCGA-GATATTTAA
1 GCTAGTGTAAGACATGTCTG-GGACATGCATCGACCT-TATGATATACAA
* * *
25165190 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-CAT-TG--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTATGATATAC-A-A
25165236 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTATGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTATGATATACAA
*
25165284 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
25165311 GCGTCAGCTT
Statistics
Matches: 139, Mismatches: 17, Indels: 24
0.77 0.09 0.13
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 62 0.45
47 9 0.06
48 62 0.45
49 1 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTTATGATATACAA
Found at i:25167391 original size:46 final size:45
Alignment explanation
Indices: 25167306--25167520 Score: 166
Period size: 46 Copynumber: 4.6 Consensus size: 45
25167296 GTAAGGTGTT
* *
25167306 GATGCCATGTCCCAGA-ATGGTCTTACATTGAC-TATCATCTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGCC
* * * *
25167353 GACGCATGTCCCAGACATTTCTTACACTGGCTTACATCTCGAGGAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGCC
* * * *
25167399 GATGCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GCC
* * ** *
25167445 GATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATAACATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCA-AGCC
* *
25167493 GATGCATGTTCCAGATATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
25167521 AGCTCACGCA
Statistics
Matches: 136, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 77 0.57
47 35 0.26
48 23 0.17
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGCC
Found at i:25168204 original size:22 final size:22
Alignment explanation
Indices: 25168165--25168208 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
25168155 AAGCTTAAAG
*
25168165 TTGCTAAAATAGTACCCCCATT
1 TTGCTAAAATACTACCCCCATT
25168187 TTGC-AAAATACTACCCCCATT
1 TTGCTAAAATACTACCCCCATT
25168208 T
1 T
25168209 GAAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.32, C:0.30, G:0.07, T:0.32
Consensus pattern (22 bp):
TTGCTAAAATACTACCCCCATT
Found at i:25171766 original size:17 final size:18
Alignment explanation
Indices: 25171744--25171778 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
25171734 GATATGATAC
*
25171744 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
25171761 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
25171779 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:25171897 original size:19 final size:19
Alignment explanation
Indices: 25171873--25171945 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
25171863 TAATTAAATC
25171873 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
25171892 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
25171909 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
25171928 TCCACGATTGCATATCAT
1 TCTAAGATTGCATATCAT
25171946 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:25171924 original size:14 final size:15
Alignment explanation
Indices: 25171887--25171924 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
25171877 AGATTGCATA
25171887 TCATATCTAAGATTG
1 TCATATCTAAGATTG
25171902 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
25171919 -CATATC
1 TCATATC
25171925 ATATCCACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:25171952 original size:36 final size:36
Alignment explanation
Indices: 25171876--25171953 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
25171866 TTAAATCTCT
* *
25171876 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCCAAGATTGTATCATATCG
*
25171912 AAGATTGCATATCATATCCACGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCCAAGATTG--TATCATATCG
25171948 AAGATT
1 AAGATT
25171954 ATATTTCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 30 0.81
37 1 0.03
38 6 0.16
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (36 bp):
AAGATTGCATATCATATCCAAGATTGTATCATATCG
Found at i:25172347 original size:45 final size:45
Alignment explanation
Indices: 25172292--25172565 Score: 277
Period size: 45 Copynumber: 6.1 Consensus size: 45
25172282 GGAAGGTGAT
* * * *
25172292 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCTAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
25172337 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCCA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
25172382 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
25172426 ATCTGTTATCTCCGATTTGCTCCCCGTCGAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
25172471 ATCTGTCATCTTGGATCTACT--TCGATGTAA-ACACATGAAAGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* *
25172516 ATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
25172563 ATC
1 ATC
25172566 ATCTTGGATC
Statistics
Matches: 182, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 6 0.03
44 44 0.24
45 103 0.57
46 1 0.01
47 18 0.10
48 5 0.03
49 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:25172413 original size:89 final size:90
Alignment explanation
Indices: 25172292--25172475 Score: 280
Period size: 89 Copynumber: 2.1 Consensus size: 90
25172282 GGAAGGTGAT
** * *
25172292 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCTAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
* * *
25172357 TCCCCGTCTAATATAGAGATGCCCA
66 TCCCCGTCGAATACAGAGATGCCAA
* *
25172382 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
25172446 TCCCCGTCGAATACAGAGATGCCAA
66 TCCCCGTCGAATACAGAGATGCCAA
25172471 ATCTG
1 ATCTG
25172476 TCATCTTGGA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 78 0.92
90 7 0.08
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
TCCCCGTCGAATACAGAGATGCCAA
Found at i:25172799 original size:78 final size:78
Alignment explanation
Indices: 25172505--25172784 Score: 398
Period size: 78 Copynumber: 3.6 Consensus size: 78
25172495 ATGTAAACAC
* * *
25172505 ATGAAAGTCAGATCTGCTATGTCTTCGATCTGCTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
25172570 TGGATCTGCTTTA
66 TGGATCTGCTTCA
* * *
25172583 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
25172648 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * * * *
25172661 ATGAAGGTTAGATCTGTTGTGTCTTCGATCTGCTCCCCGTCTAATATAGGGATGCCAAATCATTT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
25172726 TGGATATGCTTCA
66 TGGATCTGCTTCA
* * *
25172739 ATGAAGGTCAAATCTGCTATGTCTTTGATCTGCTCCCTGTCGAATA
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATA
25172785 TGGAGATGGA
Statistics
Matches: 179, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 179 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:25177648 original size:46 final size:46
Alignment explanation
Indices: 25177598--25177723 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
25177588 TTGAGCATCT
* *
25177598 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
25177644 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
* * *
25177690 GAGCTCGTTGATTTGAGTCTGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
25177724 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
Found at i:25185757 original size:17 final size:17
Alignment explanation
Indices: 25185735--25185767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25185725 GATATGATAC
25185735 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
25185752 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
25185768 AATTCAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:25185768 original size:18 final size:17
Alignment explanation
Indices: 25185735--25185768 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25185725 GATATGATAC
*
25185735 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
25185752 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
25185769 ATTCAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:25186069 original size:23 final size:22
Alignment explanation
Indices: 25186025--25186083 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
25186015 AAAAGGTATC
* *
25186025 TACAAATTAAATCT-CTAAGAT
1 TACAAATCATATCTACTAAGAT
25186046 TACAAAATCATATCTACTAAGAT
1 TAC-AAATCATATCTACTAAGAT
* *
25186069 TGCATATCATATCTA
1 TACAAATCATATCTA
25186084 AGATTGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 3 0.09
22 20 0.62
23 9 0.28
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTACTAAGAT
Found at i:25186086 original size:19 final size:19
Alignment explanation
Indices: 25186054--25186151 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
25186044 ATTACAAAAT
25186054 CATATC-TA-CTAAGATTG
1 CATATCATATCTAAGATTG
25186071 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
25186090 CA-ATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
25186108 --TATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
* **
25186125 CATATCATACCTACTATTG
1 CATATCATATCTAAGATTG
25186144 CATATCAT
1 CATATCAT
25186152 TGAAGATTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
17 22 0.30
18 18 0.25
19 33 0.45
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:25186116 original size:35 final size:37
Alignment explanation
Indices: 25186054--25186151 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 37
25186044 ATTACAAAAT
25186054 CATATC-TA-CTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
25186090 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
* **
25186125 CATATCATACCTACTATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
25186152 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 22 0.41
36 17 0.31
37 9 0.17
38 6 0.11
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:25186130 original size:14 final size:15
Alignment explanation
Indices: 25186075--25186130 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
25186065 AGATTGCATA
25186075 TCATATCTAAGATTG
1 TCATATCTAAGATTG
25186090 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
25186108 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
25186125 -CATATC
1 TCATATC
25186131 ATACCTACTA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:25186307 original size:21 final size:20
Alignment explanation
Indices: 25186270--25186308 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25186260 TTGGACTTTG
**
25186270 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
25186290 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
25186309 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:25190303 original size:46 final size:45
Alignment explanation
Indices: 25190216--25190432 Score: 204
Period size: 46 Copynumber: 4.6 Consensus size: 45
25190206 GGTAAGGTGT
*
25190216 CAATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCATAGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCA-AGC
* * *
25190264 CAATGCATGTCTCAGACATTTCTTACACTGGCTTACATCTCGAGGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTC-AAGC
* * *
25190310 CAATGCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGC
1 CAATGCATGTCCCAGACATGTCTTACACTGGC-TTACATCTCAA-GC
* * ** **
25190356 CAATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATAACGTGGC
1 CAATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC-AAGC
*
25190404 CAATGCATGTCCCAGATATGTCTTACACT
1 CAATGCATGTCCCAGACATGTCTTACACT
25190433 AGCTCACACA
Statistics
Matches: 141, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 70 0.50
47 43 0.30
48 27 0.19
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
CAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGC
Found at i:25190405 original size:94 final size:93
Alignment explanation
Indices: 25190216--25190435 Score: 277
Period size: 94 Copynumber: 2.3 Consensus size: 93
25190206 GGTAAGGTGT
* *
25190216 CAATGCCATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCATAGCCAATGCATGTCTCAG
1 CAATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCATAGCCAATGCATGTCCCAA
* **
25190279 ACATTTCTTACACTGGCTTACATCTCGAGGC
63 ACATGTCTTACACTGGCTTACATAACGAGGC
*
25190310 CAATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCA-ATGCCAATGCCATGTCCCAAA
1 CAATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTCATA-GCCAATG-CATGTCCCAAA
* *
25190373 CATGGTCTTACACTGGCTTTCATAACGTGGC
64 CAT-GTCTTACACTGGCTTACATAACGAGGC
*
25190404 CAATGCATGTCCCAGATATGTCTTACACTAGC
1 CAATGCATGTCCCAGACATGTCTTACACTAGC
25190436 TCACACAAGT
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
91 1 0.01
92 24 0.21
93 27 0.24
94 60 0.54
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (93 bp):
CAATGCATGTCCCAGACATGTCTTACACTAGCACATCATCTCATAGCCAATGCATGTCCCAAACA
TGTCTTACACTGGCTTACATAACGAGGC
Found at i:25202299 original size:35 final size:35
Alignment explanation
Indices: 25202259--25202369 Score: 161
Period size: 35 Copynumber: 3.0 Consensus size: 35
25202249 CCACATAATA
25202259 ATCATTTTAAACTATACCTAACATAAATATAAATC
1 ATCATTTTAAACTATACCTAACATAAATATAAATC
25202294 ATCATTTTAAACTATACTATACCTAACATAAATATAAATC
1 ATCATTTT--A--A-ACTATACCTAACATAAATATAAATC
25202334 ATCATTTT-AACTTATACCTAACATAAATATAAATC
1 ATCATTTTAAAC-TATACCTAACATAAATATAAATC
25202369 A
1 A
25202370 AAATTTCTCC
Statistics
Matches: 70, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
34 2 0.03
35 33 0.47
37 1 0.01
39 1 0.01
40 33 0.47
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (35 bp):
ATCATTTTAAACTATACCTAACATAAATATAAATC
Found at i:25202324 original size:40 final size:37
Alignment explanation
Indices: 25202259--25202369 Score: 167
Period size: 40 Copynumber: 3.0 Consensus size: 37
25202249 CCACATAATA
25202259 ATCATTTTAA--ACTATACCTAACATAAATATAAATC
1 ATCATTTTAACTACTATACCTAACATAAATATAAATC
25202294 ATCATTTTAAACTATACTATACCTAACATAAATATAAATC
1 ATCATTTT-AAC--TACTATACCTAACATAAATATAAATC
25202334 ATCATTTTAACT--TATACCTAACATAAATATAAATC
1 ATCATTTTAACTACTATACCTAACATAAATATAAATC
25202369 A
1 A
25202370 AAATTTCTCC
Statistics
Matches: 71, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
35 32 0.45
36 2 0.03
37 1 0.01
39 3 0.04
40 33 0.46
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (37 bp):
ATCATTTTAACTACTATACCTAACATAAATATAAATC
Found at i:25206024 original size:21 final size:21
Alignment explanation
Indices: 25205999--25206046 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
25205989 TTCTTTAATT
25205999 ATAAAAAATTAATT-TA-AAAAA
1 ATAAAAAATT--TTATAGAAAAA
25206020 AT-AAAAATTTTATAGAAAAA
1 ATAAAAAATTTTATAGAAAAA
25206040 ATAAAAA
1 ATAAAAA
25206047 CATCTCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 14 0.58
21 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAAAAATTTTATAGAAAAA
Found at i:25211959 original size:3 final size:3
Alignment explanation
Indices: 25211951--25212167 Score: 79
Period size: 3 Copynumber: 70.0 Consensus size: 3
25211941 ATTTTTATCG
* * * * * *
25211951 TAT TAT TAT TAT TAT TAT CAC TAT TAT CAT TAT T-T TAC TAT TAC AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
25211999 TAACG TAT TAT TAT TACT T-T TAT TTT TAT TAT TAC TAC CAT TAT TAT
1 T-A-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
25212046 TAT TAAT CTAT TAT TAT TAT TAG TA- TAT TAT TAT T-T CCTAT T-T T-T
1 TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * * * *
25212091 TA- TAT TAT TAT TGTT TAA CAT ATAT TAT TAT TAAT GTAC TGT TAT TTT
1 TAT TAT TAT TAT T-AT TAT TAT -TAT TAT TAT T-AT -TAT TAT TAT TAT
* *
25212139 CTAT TAC TAT TAT TTT CTAT TAT TAT TAT
1 -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
25212168 ACTATAAAAT
Statistics
Matches: 158, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
2 13 0.08
3 120 0.76
4 19 0.12
5 6 0.04
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:25212060 original size:17 final size:17
Alignment explanation
Indices: 25212004--25212080 Score: 73
Period size: 17 Copynumber: 4.4 Consensus size: 17
25211994 CAACTTAACG
* *
25212004 TATTATTATTACTTTTAT
1 TATTATTATTA-ATCTAT
* * *
25212022 TTTTATTATTACTACCAT
1 TATTATTATTAAT-CTAT
25212040 TATTATTATTAATCTAT
1 TATTATTATTAATCTAT
* *
25212057 TATTATTATTAGTATAT
1 TATTATTATTAATCTAT
25212074 TATTATT
1 TATTATT
25212081 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
17 26 0.53
18 23 0.47
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (17 bp):
TATTATTATTAATCTAT
Found at i:25212151 original size:16 final size:16
Alignment explanation
Indices: 25212127--25212167 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
25212117 ATTATTAATG
*
25212127 TACTGTTATTTTCTAT
1 TACTATTATTTTCTAT
25212143 TACTATTATTTTCTAT
1 TACTATTATTTTCTAT
*
25212159 TATTATTAT
1 TACTATTAT
25212168 ACTATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (16 bp):
TACTATTATTTTCTAT
Found at i:25213872 original size:40 final size:39
Alignment explanation
Indices: 25213828--25213956 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 39
25213818 ATTTTAAGGA
* *
25213828 AAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAAC
1 AAATCCTATCCACCTTAA-TTACTATAGTGAATCAGGAAT
* *
25213868 AAATCCTATCCA-CTTTATATATTTATAGTGAATCAGGAAT
1 AAATCCTATCCACCTTAAT-TA-CTATAGTGAATCAGGAAT
* * * *
25213908 AAATCCTATTCACTTTAATTTCTTTTAGTGAATCAGGAAT
1 AAATCCTATCCACCTTAATTAC-TATAGTGAATCAGGAAT
25213948 AAATCCTAT
1 AAATCCTAT
25213957 TCACTTTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 6 0.08
40 64 0.85
41 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (39 bp):
AAATCCTATCCACCTTAATTACTATAGTGAATCAGGAAT
Found at i:25213957 original size:40 final size:39
Alignment explanation
Indices: 25213852--25213968 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 39
25213842 TTAAGTTACC
* * *
25213852 ATAGTGAATCAGGAACAAATCCTATCCACTTTATATATTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTA-ATTTTT
25213892 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTT-TT
*
25213932 TTAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 ATAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
25213969 CTCGAGAAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.04
40 61 0.86
41 7 0.10
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (39 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTTT
Found at i:25214873 original size:25 final size:23
Alignment explanation
Indices: 25214823--25214910 Score: 76
Period size: 25 Copynumber: 3.8 Consensus size: 23
25214813 AAACCCTAAT
*
25214823 TTTTTCCTTTTCTTTC-TT-GCCC
1 TTTTTCC-TTTCTTTCTTTCTCCC
25214845 TTTTTCCTTTCTTTCTTTCTCCC
1 TTTTTCCTTTCTTTCTTTCTCCC
* *
25214868 TGTTTTTCGTTTCTATTCTGTTCTTCC
1 --TTTTTCCTTTCT-TTCT-TTCTCCC
25214895 TTTTT-CTTT-TTTCTTT
1 TTTTTCCTTTCTTTCTTT
25214911 TGCTTATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.18
22 13 0.23
23 4 0.07
24 3 0.05
25 16 0.29
26 4 0.07
27 6 0.11
ACGTcount: A:0.01, C:0.26, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTTTCCTTTCTTTCTTTCTCCC
Found at i:25214956 original size:25 final size:24
Alignment explanation
Indices: 25214915--25214965 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
25214905 TTCTTTTGCT
* *
25214915 TATTTTATTTAGTTTATGTTTATTA
1 TATTTTAGTTAGTTTAT-TATATTA
25214940 TATTTTAGTTA-TATTATTATATTA
1 TATTTTAGTTAGT-TTATTATATTA
25214964 TA
1 TA
25214966 ATATTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTTAGTTAGTTTATTATATTA
Found at i:25215082 original size:8 final size:8
Alignment explanation
Indices: 25215069--25215099 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
25215059 TTTAATTAAT
25215069 ATAATATA
1 ATAATATA
25215077 ATAATATA
1 ATAATATA
*
25215085 ATAATAAA
1 ATAATATA
25215093 ATAATAT
1 ATAATAT
25215100 TTACTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
ATAATATA
Found at i:25217172 original size:21 final size:20
Alignment explanation
Indices: 25217146--25217193 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
25217136 AAAGCTTTAA
25217146 AGCTGAACAGAAACTCA-TAAG
1 AGCTGAACA-AAAC-CACTAAG
25217167 AGCTGAACAAAACCACGTAAG
1 AGCTGAACAAAACCAC-TAAG
25217188 AGCTGA
1 AGCTGA
25217194 GCCACCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 19 0.76
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (20 bp):
AGCTGAACAAAACCACTAAG
Found at i:25224200 original size:23 final size:22
Alignment explanation
Indices: 25224169--25224213 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
25224159 GAGGTCAAAA
25224169 GCCCATGTGAAGAGGAGCCACAC
1 GCCCATGTGAAGA-GAGCCACAC
* *
25224192 GCCCGTGTGAAGAGAGGCACAC
1 GCCCATGTGAAGAGAGCCACAC
25224214 TATCGTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.29, C:0.29, G:0.33, T:0.09
Consensus pattern (22 bp):
GCCCATGTGAAGAGAGCCACAC
Found at i:25224241 original size:21 final size:22
Alignment explanation
Indices: 25224169--25224243 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
25224159 GAGGTCAAAA
* *
25224169 GCCCATGTGAAGAGGAGCCACAC
1 GCCCGTGTGAAGA-GAGGCACAC
25224192 GCCCGTGTGAAGAGAGGCACAC
1 GCCCGTGTGAAGAGAGGCACAC
*** **
25224214 TATCGTGTGACTA-AGGCACAC
1 GCCCGTGTGAAGAGAGGCACAC
25224235 GCCCGTGTG
1 GCCCGTGTG
25224244 GACCAGAGAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 14 0.33
22 16 0.38
23 12 0.29
ACGTcount: A:0.25, C:0.28, G:0.32, T:0.15
Consensus pattern (22 bp):
GCCCGTGTGAAGAGAGGCACAC
Found at i:25230490 original size:21 final size:21
Alignment explanation
Indices: 25230438--25230490 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
25230428 TAATGATAAA
*
25230438 TGTATGAATTATGGACTTGTG
1 TGTATGAATTGTGGACTTGTG
25230459 TGTATGAATTGTGGACTTGTG
1 TGTATGAATTGTGGACTTGTG
*
25230480 TGTATGTATTG
1 TGTATGAATTG
25230491 CATGAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.04, G:0.30, T:0.45
Consensus pattern (21 bp):
TGTATGAATTGTGGACTTGTG
Found at i:25230992 original size:26 final size:26
Alignment explanation
Indices: 25230921--25230984 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
25230911 ACATGTCAGA
*
25230921 AAATGGAAGCCTTTGTGGCGTATTTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
*
25230947 AAATGGAAGCTTTTGTGGCGTATCTG
1 AAATGGAAGCCTTTGTGGCGTATCTG
25230973 AAATGGAAGCCT
1 AAATGGAAGCCT
25230985 CTATGGCGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (26 bp):
AAATGGAAGCCTTTGTGGCGTATCTG
Found at i:25244438 original size:21 final size:20
Alignment explanation
Indices: 25244399--25244438 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25244389 GCTTATTTAG
*
25244399 GTATAAATTAAAGGTTAAGA
1 GTATAAATTAAAGGATAAGA
25244419 GTATAAATTAAAAGGATAAG
1 GTATAAATT-AAAGGATAAG
25244439 GACTTGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.20, T:0.28
Consensus pattern (20 bp):
GTATAAATTAAAGGATAAGA
Found at i:25246813 original size:31 final size:31
Alignment explanation
Indices: 25246775--25246836 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
25246765 ATACAGCAAC
25246775 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
1 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
25246806 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
1 TTAGATTGAGTAAAGGGCGCTAATCAATGCA
25246837 CCTTTCCTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (31 bp):
TTAGATTGAGTAAAGGGCGCTAATCAATGCA
Found at i:25249400 original size:2 final size:2
Alignment explanation
Indices: 25249393--25249425 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25249383 ATAAATGAAA
25249393 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
25249426 AATAATGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25251038 original size:39 final size:39
Alignment explanation
Indices: 25250984--25251061 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
25250974 GCTCTAGGGA
*
25250984 GAAAAAAATGTAAGCTTGATTGCCCAATTTTGATTCACT
1 GAAAAAAATGTAAGCTTGATTGCCCAATGTTGATTCACT
25251023 GAAAAAAATGTAAGCTTGATTGCCCAATGTTGATTCACT
1 GAAAAAAATGTAAGCTTGATTGCCCAATGTTGATTCACT
25251062 TCCACATCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (39 bp):
GAAAAAAATGTAAGCTTGATTGCCCAATGTTGATTCACT
Found at i:25255393 original size:19 final size:19
Alignment explanation
Indices: 25255362--25255403 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
25255352 ACATCTAAAA
25255362 ATAAAATTCATAAAAAGTT
1 ATAAAATTCATAAAAAGTT
*
25255381 ATAAATATT-ATAAAAATTT
1 ATAAA-ATTCATAAAAAGTT
25255400 ATAA
1 ATAA
25255404 TAAGTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAATTCATAAAAAGTT
Found at i:25265837 original size:20 final size:20
Alignment explanation
Indices: 25265799--25265837 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25265789 CTCTCCTCAC
* * *
25265799 AACCACCAATTATATCATAG
1 AACCACAAATCATACCATAG
25265819 AACCACAAATCATACCATA
1 AACCACAAATCATACCATA
25265838 CAAATAGATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.28, G:0.03, T:0.21
Consensus pattern (20 bp):
AACCACAAATCATACCATAG
Found at i:25277400 original size:30 final size:30
Alignment explanation
Indices: 25277354--25277477 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
25277344 TTTTATTATG
*
25277354 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
25277385 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25277415 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
25277445 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25277475 CCA
1 CCA
25277478 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:25277409 original size:15 final size:15
Alignment explanation
Indices: 25277364--25277471 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
25277354 CCAATATCTC
25277364 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25277379 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25277394 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
25277409 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
25277424 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
25277439 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
25277454 GATACCCATATCTTT
1 GATACCCATATCTTT
25277469 GAT
1 GAT
25277472 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:25282091 original size:30 final size:30
Alignment explanation
Indices: 25282045--25282168 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
25282035 TTTTATTATG
*
25282045 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
25282076 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
25282106 CCACTATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
25282136 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
25282166 CCA
1 CCA
25282169 TAAATATGGA
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 78 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Done.