Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 218 of 240
Found at i:65743276 original size:14 final size:15
Alignment explanation
Indices: 65743252--65743346 Score: 99
Period size: 15 Copynumber: 6.4 Consensus size: 15
65743242 TTAATTGACA
*
65743252 CCCTAAA-CCCTAAAT
1 CCCTAAATCCCT-AAC
65743267 CCCT-AA-CCCTTAAC
1 CCCTAAATCCC-TAAC
*
65743281 CCCTAAATCTCCTAGC
1 CCCTAAATC-CCTAAC
*
65743297 CCCTAAATTCCTAAC
1 CCCTAAATCCCTAAC
*
65743312 CCCTAACT-CCTAAC
1 CCCTAAATCCCTAAC
65743326 CCCTAAATCCCTAAC
1 CCCTAAATCCCTAAC
65743341 CCCTAA
1 CCCTAA
65743347 CCCCTAAACC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
14 24 0.35
15 31 0.45
16 12 0.17
17 2 0.03
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (15 bp):
CCCTAAATCCCTAAC
Found at i:65743287 original size:22 final size:21
Alignment explanation
Indices: 65743251--65743354 Score: 102
Period size: 22 Copynumber: 4.7 Consensus size: 21
65743241 CTTAATTGAC
*
65743251 ACCCTAAACCCTAAATCCCTA
1 ACCCTAACCCCTAAATCCCTA
65743272 ACCCTTAACCCCTAAATCTCCTA
1 ACCC-TAACCCCTAAATC-CCTA
* ** *
65743295 GCCCCTAAATTCCT-AACCCCTA
1 -ACCCT-AACCCCTAAATCCCTA
65743317 ACTCCTAACCCCTAAATCCCTA
1 AC-CCTAACCCCTAAATCCCTA
65743339 ACCCCTAACCCCTAAA
1 A-CCCTAACCCCTAAA
65743355 CCTTATATCC
Statistics
Matches: 67, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
21 10 0.15
22 40 0.60
23 9 0.13
24 8 0.12
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (21 bp):
ACCCTAACCCCTAAATCCCTA
Found at i:65743328 original size:29 final size:29
Alignment explanation
Indices: 65743277--65743371 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
65743267 CCCTAACCCT
* *
65743277 TAACCCCTAAATCTCCTAGCCCCTAAATTCC
1 TAACCCCT-AA-CTCCTAACCCCTAAATCCC
65743308 TAACCCCTAACTCCTAACCCCTAAATCCC
1 TAACCCCTAACTCCTAACCCCTAAATCCC
* * * *
65743337 TAACCCCTAACCCCTAAACCTTATATCCC
1 TAACCCCTAACTCCTAACCCCTAAATCCC
*
65743366 AAACCC
1 TAACCC
65743372 TAATAATCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 47 0.82
30 2 0.04
31 8 0.14
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.22
Consensus pattern (29 bp):
TAACCCCTAACTCCTAACCCCTAAATCCC
Found at i:65743370 original size:22 final size:22
Alignment explanation
Indices: 65743251--65743371 Score: 86
Period size: 22 Copynumber: 5.5 Consensus size: 22
65743241 CTTAATTGAC
*
65743251 ACCCTAAA-CCCTAAATCCCTA
1 ACCCCAAACCCCTAAATCCCTA
**
65743272 ACCCTTAACCCCTAAATCTCCTA
1 ACCCCAAACCCCTAAATC-CCTA
* ** *
65743295 GCCCCTAAATTCCT-AACCCCTA
1 ACCCC-AAACCCCTAAATCCCTA
* *
65743317 ACTCCTAACCCCTAAATCCCTA
1 ACCCCAAACCCCTAAATCCCTA
* *
65743339 ACCCCTAACCCCTAAA-CCTTA
1 ACCCCAAACCCCTAAATCCCTA
*
65743360 TATCCCAAACCC
1 -ACCCCAAACCC
65743372 TAATAATCAT
Statistics
Matches: 78, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
21 16 0.21
22 47 0.60
23 10 0.13
24 5 0.06
ACGTcount: A:0.32, C:0.45, G:0.01, T:0.21
Consensus pattern (22 bp):
ACCCCAAACCCCTAAATCCCTA
Found at i:65744200 original size:42 final size:41
Alignment explanation
Indices: 65744137--65744334 Score: 147
Period size: 41 Copynumber: 4.8 Consensus size: 41
65744127 GCGCTTCAAC
* *
65744137 AAAAACGCCAC-AAAAACCTTAACATTAGCGGCGTTTATCAT
1 AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTA-CAT
* * *
65744178 AAAAACGCCGCTAAAAATCTTAACTTTAGCGTCGCTTACAT
1 AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTACAT
* * * *
65744219 AAAAACGCCGGCT-AAGACC-AAATATTCGCGGCGCTT-CA-
1 AAAAACGCC-GCTAAAAACCTTAACATTAGCGGCGCTTACAT
* * * *
65744257 AAGAAATCGCCGCTAAATACCTTAACTTTAGCGGCGGTTGA-TT
1 AA-AAA-CGCCGCTAAAAACCTTAACATTAGCGGCGCTT-ACAT
* * * *
65744300 AAAAACGCCACTAAAACCCTCGACCATTAGCGGCG
1 AAAAACGCCGCTAAAAACCT-TAACATTAGCGGCG
65744335 AGATCCTAAA
Statistics
Matches: 122, Mismatches: 25, Indels: 19
0.73 0.15 0.11
Matches are distributed among these distances:
38 2 0.02
39 8 0.07
40 21 0.17
41 50 0.41
42 39 0.32
43 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTACAT
Found at i:65744220 original size:41 final size:42
Alignment explanation
Indices: 65744137--65744353 Score: 148
Period size: 42 Copynumber: 5.3 Consensus size: 42
65744127 GCGCTTCAAC
* *
65744137 AAAAACGCCAC-AAAAACCTTAACATTAGCGGCGTTTATCAT
1 AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTATCAT
* * *
65744178 AAAAACGCCGCTAAAAATCTTAACTTTAGCGTCGCTTA-CAT
1 AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTATCAT
* * * *
65744219 AAAAACGCCGGCT-AAGACC-AAATATTCGCGGCGC-T-TCA-
1 AAAAACGCC-GCTAAAAACCTTAACATTAGCGGCGCTTATCAT
* * *
65744257 AAGAAATCGCCGCTAAATACCTTAACTTTAGCGGCGGTTGAT--T
1 AA-AAA-CGCCGCTAAAAACCTTAACATTAGCGGCGCTT-ATCAT
* * * * ** *
65744300 AAAAACGCCACTAAAACCCTCGACCATTAGCGGCG-AGATCCT
1 AAAAACGCCGCTAAAAACCT-TAACATTAGCGGCGCTTATCAT
65744342 AAAAACGCCGCT
1 AAAAACGCCGCT
65744354 GAAAGTAAAA
Statistics
Matches: 135, Mismatches: 27, Indels: 27
0.71 0.14 0.14
Matches are distributed among these distances:
38 2 0.01
39 9 0.07
40 21 0.16
41 48 0.36
42 52 0.39
43 2 0.01
44 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.17, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAACCTTAACATTAGCGGCGCTTATCAT
Found at i:65751182 original size:29 final size:30
Alignment explanation
Indices: 65751140--65751198 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
65751130 TATATTTTAA
*
65751140 TGTGTAATTATATACA-AGAACTTTGATTT
1 TGTGTAATTATATACATAAAACTTTGATTT
* *
65751169 TGTGTAATTTTATACATAAAATTTTGATTT
1 TGTGTAATTATATACATAAAACTTTGATTT
65751199 GATCTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (30 bp):
TGTGTAATTATATACATAAAACTTTGATTT
Found at i:65767885 original size:61 final size:65
Alignment explanation
Indices: 65767802--65767941 Score: 186
Period size: 61 Copynumber: 2.2 Consensus size: 65
65767792 TATCTACACA
*
65767802 TTTATATACAT-TTTTTAATTTTCATATCTATATAC-T-TT-ATA-T-CTTATT-TATCTATATA
1 TTTATATACATATTTTTAATTTTCATATATATATACATCTTCATATTCCTTATTATATCT-TATA
65767860 TC
65 -C
65767862 TTTATATACATATTTTTAATTTTCATATATATATACATGCTTGCATATTCCTTATTATATCTTAT
1 TTTATATACATATTTTTAATTTTCATATATATATACAT-CTT-CATATTCCTTATTATATCTTAT
65767927 AC
64 AC
65767929 TTTATATACATAT
1 TTTATATACATAT
65767942 ACCCTTTTGC
Statistics
Matches: 70, Mismatches: 1, Indels: 11
0.85 0.01 0.13
Matches are distributed among these distances:
60 11 0.16
61 23 0.33
62 1 0.01
64 2 0.03
66 3 0.04
67 15 0.21
68 10 0.14
69 5 0.07
ACGTcount: A:0.31, C:0.12, G:0.01, T:0.55
Consensus pattern (65 bp):
TTTATATACATATTTTTAATTTTCATATATATATACATCTTCATATTCCTTATTATATCTTATAC
Found at i:65771408 original size:87 final size:84
Alignment explanation
Indices: 65771237--65771528 Score: 349
Period size: 87 Copynumber: 3.4 Consensus size: 84
65771227 AGACTTGATG
* * * *
65771237 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-C-TTTAATCCGCTCCACTGTAACTTC-G
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
65771299 GGAGATAGGATAGTGTCTT
66 GGAGATAGGATAGTGTCTT
65771318 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTATTTTAATCCGCTCCACTGTAACTT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTC---TTTTAATCCGCTCCACTGTAACTT
65771383 CAGGGAGATAGGATAGTGTCTT
63 CAGGGAGATAGGATAGTGTCTT
* * *
65771405 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT---TTTAATCCGCTCCACTGTAACTT
* *
65771470 CAGGGAGATAAGAT-CTGAAATTCTT
63 CAGGGAGATAGGATAGTG----TCTT
* * * *
65771495 TGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
65771529 CCTGATGTGA
Statistics
Matches: 185, Mismatches: 13, Indels: 17
0.86 0.06 0.08
Matches are distributed among these distances:
81 32 0.17
82 1 0.01
84 1 0.01
86 26 0.14
87 91 0.49
90 34 0.18
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (84 bp):
CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTTTAATCCGCTCCACTGTAACTTCAG
GGAGATAGGATAGTGTCTT
Found at i:65771429 original size:43 final size:42
Alignment explanation
Indices: 65771249--65771698 Score: 212
Period size: 44 Copynumber: 10.5 Consensus size: 42
65771239 ATCTACTCTG
* * *
65771249 CTGTAACCTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAA-CTCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * *
65771288 CTGTAACTTC-GGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * *
65771330 CTGTAATCTCAGGGAGATAAGAT-CTCTTATTTTAATCCGCTCCA
1 CTGTAA-CTCAGGGAGATAAGATACT-GT-CTTCAATCTGCTCCA
* * * *
65771374 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* *
65771417 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAA-CTCAGGGAGATAAGAT-ACTGTCTTCAATCTGCTCCA
*** *
65771461 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAA-CTCAGGGAGATAAGATACTG----TCTTCAATCTGCTCCA
* * * * *
65771507 CTGTAATCTCAGGGAGATAAGA-CCTGAT-GT-GATCTTCTCTA
1 CTGTAA-CTCAGGGAGATAAGATACTG-TCTTCAATCTGCTCCA
* * *
65771548 CTGTAACTTCAGAGAGATAAGAT-C---CTTTAATCCGCTCCA
1 CTGTAAC-TCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
* * * * * *
65771587 TTGTAATCTCAAGGAGATAGGATTACTATCCTT-GATCTGCTCCG
1 CTGTAA-CTCAGGGAGATAAGA-TACTGT-CTTCAATCTGCTCCA
*** *
65771631 CTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAA-CTCAGGGAGATAAGATACTG----TCTTCAATCTGCTCCA
65771677 CTGTAATCTCAGGGAGATAAGA
1 CTGTAA-CTCAGGGAGATAAGA
65771699 CCTGTATAAT
Statistics
Matches: 315, Mismatches: 62, Indels: 61
0.72 0.14 0.14
Matches are distributed among these distances:
38 12 0.04
39 31 0.10
40 3 0.01
41 28 0.09
42 26 0.08
43 46 0.15
44 96 0.30
45 7 0.02
46 66 0.21
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (42 bp):
CTGTAACTCAGGGAGATAAGATACTGTCTTCAATCTGCTCCA
Found at i:65771521 original size:46 final size:45
Alignment explanation
Indices: 65771314--65771698 Score: 263
Period size: 44 Copynumber: 8.8 Consensus size: 45
65771304 TAGGATAGTG
* * *
65771314 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * * *
65771357 TATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGT
1 T-CTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * *
65771400 GTCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT--CT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* ** *
65771444 GGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* * *
65771491 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG-A-
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* * * *
65771534 --TGTGATCTTCTCTACTGTAA-CTTCAGAGAGATAAGATC-----
1 TCTTTGATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT
* * * * * *
65771572 -CTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGAT-T-ACT
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
* *
65771614 ATCCTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 -TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTG-AAT
* *
65771661 TCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGA
1 TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGA
65771699 CCTGTATAAT
Statistics
Matches: 266, Mismatches: 54, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
39 26 0.10
40 2 0.01
41 29 0.11
42 1 0.00
43 32 0.12
44 102 0.38
45 2 0.01
46 69 0.26
47 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
TCTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAT
Found at i:65793840 original size:8 final size:8
Alignment explanation
Indices: 65793805--65793851 Score: 55
Period size: 8 Copynumber: 6.2 Consensus size: 8
65793795 CGATTAGTCT
*
65793805 TTTTAGTA
1 TTTTATTA
*
65793813 TTTTTTTA
1 TTTTATTA
65793821 TTTT-TTA
1 TTTTATTA
65793828 TTTTATTA
1 TTTTATTA
65793836 TTTTA-T-
1 TTTTATTA
65793842 TTTTATTA
1 TTTTATTA
65793850 TT
1 TT
65793852 AGTATGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.15
7 9 0.26
8 20 0.59
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTATTA
Found at i:65794018 original size:28 final size:30
Alignment explanation
Indices: 65793959--65794058 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 30
65793949 GTACATATTT
65793959 TACATATA-ATTTGTTTAATATATATACGTATA
1 TACATATATA-TT-TTT-ATATATATACGTATA
* *
65793991 CT-CATATTTCTTTTTATATATAT-C-TATA
1 -TACATATATATTTTTATATATATACGTATA
* *
65794019 TACATATATATTTTTAT-TTTATAAGTATA
1 TACATATATATTTTTATATATATACGTATA
* *
65794048 TATATTTATAT
1 TACATATATAT
65794059 GTATGTATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
27 5 0.09
28 17 0.31
29 14 0.25
30 8 0.15
31 3 0.05
32 7 0.13
33 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (30 bp):
TACATATATATTTTTATATATATACGTATA
Found at i:65806792 original size:44 final size:44
Alignment explanation
Indices: 65806512--65806897 Score: 214
Period size: 44 Copynumber: 8.9 Consensus size: 44
65806502 ATTATACAGG
* * * * *
65806512 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---GAGA
*
65806558 TCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGATAGTA-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-GACAG-AGA
* * ** * *
65806602 TCCTATCTCCTTGAGATTACAATGGAGCGGAT--TA-A-AG-GA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGA
* ** * *
65806641 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC-ACA-TCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGA-AGACAGAGA
* * * * * *
65806682 TCTCATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA---GAGA
* * * * *
65806728 TCTTATCTCCCTGAGGTTACAGTGCAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGA
**
65806772 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGA
* * * * * *
65806815 TCCTATCTCCCTGA-AGTTACAG-TGAGCGGAT-TAAAATAAGAGA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGA-CAGAGA
65806858 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA
65806898 CTATCCTATC
Statistics
Matches: 260, Mismatches: 57, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
38 1 0.00
39 24 0.09
40 2 0.01
41 32 0.12
42 14 0.05
43 41 0.16
44 75 0.29
45 7 0.03
46 62 0.24
47 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGA
Found at i:65806835 original size:43 final size:44
Alignment explanation
Indices: 65806725--65806928 Score: 161
Period size: 43 Copynumber: 4.7 Consensus size: 44
65806715 AAAGAATTTC
* * * * * *
65806725 AGATCTTATCTCCCTGAGGTTACAGTGCAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
*
65806769 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG
** * * * * *
65806812 CTATCCTATCTCCCTGAAGTTACAG-TGAGCGGAT-TAAAATAAG
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGA-CAG
*
65806855 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATCGAAGACAG
** *
65806898 CTATCCTATCTCTCC-GAAGTTACAGTGGAGC
1 AGATCCTATCTC-CCTGAAGTTACAGCGGAGC
65806929 GGATTAAAGG
Statistics
Matches: 126, Mismatches: 25, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.02
42 10 0.08
43 60 0.48
44 50 0.40
45 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATCGAAGACAG
Found at i:65806872 original size:86 final size:84
Alignment explanation
Indices: 65806731--65806973 Score: 323
Period size: 86 Copynumber: 2.9 Consensus size: 84
65806721 TTTCAGATCT
* * **
65806731 TATCTCCCTGAGGTTACAGTGCAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCG
1 TATCTCCCTGAAGTTACAGTG-AGCGGATT-AA-AAAGAGATCTTATCTCCCTGAGATTACAGCG
65806796 GAGCAGATCGAAGACACTATCC
63 GAGCAGATCGAAGACACTATCC
65806818 TATCTCCCTGAAGTTACAGTGAGCGGATTAAAATAAGAGATCTTATCTCCCTGAGATTACAGCGG
1 TATCTCCCTGAAGTTACAGTGAGCGGATT-AAA-AAGAGATCTTATCTCCCTGAGATTACAGCGG
65806883 AGCAGATCGAAGACACTATCC
64 AGCAGATCGAAGACACTATCC
* * *
65806904 TATCTCTCC-GAAGTTACAGTGGAGCGGATT--AAAG-GATCTTATCTCTCTGAGGTTACAGCAG
1 TATCTC-CCTGAAGTTACAGT-GAGCGGATTAAAAAGAGATCTTATCTCCCTGAGATTACAGCGG
*
65806965 AGTAGATCG
64 AGCAGATCG
65806974 CATCAAGTCT
Statistics
Matches: 144, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
82 32 0.22
83 3 0.02
84 1 0.01
86 77 0.53
87 31 0.22
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (84 bp):
TATCTCCCTGAAGTTACAGTGAGCGGATTAAAAAGAGATCTTATCTCCCTGAGATTACAGCGGAG
CAGATCGAAGACACTATCC
Found at i:65808637 original size:3 final size:3
Alignment explanation
Indices: 65808559--65808628 Score: 97
Period size: 3 Copynumber: 23.3 Consensus size: 3
65808549 GTACTTTTGC
65808559 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
65808607 CAT CT-T TAC TAT TAT TAG TAT T
1 TAT -TAT TAT TAT TAT TAT TAT T
65808629 GGTATTATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 58 0.98
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:65808838 original size:36 final size:36
Alignment explanation
Indices: 65808759--65808838 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
65808749 AATTTGTTTA
* *
65808759 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
65808795 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
65808831 ATATATAT
1 ATATATAT
65808839 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:65809086 original size:18 final size:18
Alignment explanation
Indices: 65809065--65809101 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65809055 TACACCTATA
*
65809065 TATATATGTACATATTTT
1 TATATATATACATATTTT
*
65809083 TATATATATGCATATTTT
1 TATATATATACATATTTT
65809101 T
1 T
65809102 TTTCTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:65809088 original size:20 final size:18
Alignment explanation
Indices: 65809063--65809101 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
65809053 TATACACCTA
65809063 TATATATATGTACATATTTT
1 TATATATATG--CATATTTT
65809083 TATATATATGCATATTTT
1 TATATATATGCATATTTT
65809101 T
1 T
65809102 TTTCTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TATATATATGCATATTTT
Found at i:65817345 original size:16 final size:16
Alignment explanation
Indices: 65817324--65817355 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65817314 CTGATTCTAT
65817324 GAATTAGTGGGACCAA
1 GAATTAGTGGGACCAA
65817340 GAATTAGTGGGACCAA
1 GAATTAGTGGGACCAA
65817356 AGCTGACACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (16 bp):
GAATTAGTGGGACCAA
Found at i:65821485 original size:70 final size:70
Alignment explanation
Indices: 65821400--65821540 Score: 264
Period size: 70 Copynumber: 2.0 Consensus size: 70
65821390 GCGTAAGTTG
* *
65821400 ACTTGTTATTTTTTTAATCTAATATCATAATATTTACTCGATAATTTAAAATGATTAAATGGTTT
1 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
65821465 AAGTA
66 AAGTA
65821470 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
1 ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
65821535 AAGTA
66 AAGTA
65821540 A
1 A
65821541 GAAAGTCAGT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (70 bp):
ACTTGTTATTGTTTTAATCTAATATCATAATATTTACTCGATAACTTAAAATGATTAAATGGTTT
AAGTA
Found at i:65824856 original size:134 final size:134
Alignment explanation
Indices: 65824707--65825118 Score: 725
Period size: 134 Copynumber: 3.1 Consensus size: 134
65824697 GCCATCTTTG
* *
65824707 ATCTTCAACCTATTCCACTGCTAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
65824772 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATTTGCTTCGCTGCCAAATACTGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
65824837 TGCA
131 TGCA
* *
65824841 ATCTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
65824906 TAGTCAGGGAGGTAAAATCTACCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
*
65824971 TACA
131 TGCA
65824975 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
* *
65825040 TAGTCAGGGAGGTAAAATTTGTCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
65825105 TGCA
131 TGCA
*
65825109 ATTTTCAATC
1 ATCTTCAATC
65825119 AGCTCTGCTA
Statistics
Matches: 263, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
134 263 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:65824903 original size:45 final size:46
Alignment explanation
Indices: 65824843--65825039 Score: 140
Period size: 45 Copynumber: 4.4 Consensus size: 46
65824833 GATCTGCAAT
* *
65824843 CTTCAATCTATTCCACTACCAAATACAGGGAGATAGAGT-TATCAG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * * * *
65824888 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
* * * * * *
65824931 CTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGA-TCTA-CAAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAGTCTATC-AG
* *
65824977 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGT-TATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
*
65825022 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
65825040 TAGTCAGGGA
Statistics
Matches: 112, Mismatches: 30, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
42 11 0.10
43 19 0.17
44 1 0.01
45 40 0.36
46 38 0.34
47 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (46 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTCTATCAG
Found at i:65824996 original size:46 final size:46
Alignment explanation
Indices: 65824812--65825005 Score: 152
Period size: 46 Copynumber: 4.3 Consensus size: 46
65824802 ATTTGCTTCG
* *
65824812 CTGCCAAATACTGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
* * * * *
65824858 CTACCAAATACAGGGA-G-ATAGAGT-TATC-AGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AGA-TCTA-CAATCTTCAATCTATTCCA
* * * * * * * * *
65824903 CTG--TAGT-CAGGGAGGTAAAATCTACCATCTTCGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCT-ATTCCA
65824946 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
65824992 CTGCCAAATACAGG
1 CTGCCAAATACAGG
65825006 GAGATAGAGT
Statistics
Matches: 110, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
42 8 0.07
43 19 0.17
44 3 0.03
45 25 0.23
46 55 0.50
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTACAATCTTCAATCTATTCCA
Found at i:65825185 original size:86 final size:86
Alignment explanation
Indices: 65825064--65825760 Score: 1097
Period size: 86 Copynumber: 8.1 Consensus size: 86
65825054 AAATTTGTCA
* * * * *
65825064 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATTTTCAATCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTA
* *
65825129 CAAATGAGAGATGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* * *
65825151 TCTTCGATCTACTTTGCTGTCAATGCAGGAAGGCAGGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
65825216 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
65825237 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
65825302 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
65825323 TCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
65825388 AAACGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* ** *
65825409 TCTTCGATCTACTTCATTCTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
65825474 AAATGAGAGAGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
65825495 TCTTCGATCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGCTATCTTCAACCAGCTTTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
65825560 AAACGAGAGAGGTAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
65825581 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
*
65825646 AACCGAGAGAGGCAAGGTTTGTG
66 AAACGAGAGAGGCAAGG-TT-TG
* * * *
65825669 TCTTCGATCTGCTTCGCCGTCAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
* * *
65825734 AACCAAGAGAGACAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
65825755 TCTTCG
1 TCTTCG
65825761 GTTTTTACTG
Statistics
Matches: 570, Mismatches: 38, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
86 468 0.82
87 22 0.04
88 80 0.14
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTGCTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:65825718 original size:45 final size:45
Alignment explanation
Indices: 65825578--65825718 Score: 139
Period size: 44 Copynumber: 3.2 Consensus size: 45
65825568 GAGGTAAGGT
* *
65825578 TTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
1 TTGTCTTCGATCTGCTTCGCCGTCAATGCAAGAAGGCAAGATCTG
* * * * * * *
65825623 TTGTCTTCAACCAGC-TCTG-C-TACAA-CCGAGAGAGGCAAGGTTTG
1 TTGTCTTCGATCTGCTTC-GCCGT-CAATGCAAGA-AGGCAAGATCTG
65825667 -TGTCTTCGATCTGCTTCGCCGTCAATGCAAGAAGGCAAGATCTG
1 TTGTCTTCGATCTGCTTCGCCGTCAATGCAAGAAGGCAAGATCTG
65825711 TTGTCTTC
1 TTGTCTTC
65825719 AACCAGCTCT
Statistics
Matches: 72, Mismatches: 16, Indels: 16
0.69 0.15 0.15
Matches are distributed among these distances:
43 16 0.22
44 31 0.43
45 25 0.35
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (45 bp):
TTGTCTTCGATCTGCTTCGCCGTCAATGCAAGAAGGCAAGATCTG
Found at i:65826780 original size:19 final size:19
Alignment explanation
Indices: 65826733--65826779 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
65826723 GCCTCTCCTT
*
65826733 TTTCTTTTTTCATTCTTCT
1 TTTCTTTTTTCATTCTTCG
*
65826752 TTTCTTTTTTC-TTTTTCG
1 TTTCTTTTTTCATTCTTCG
65826770 TTTCTTTTTT
1 TTTCTTTTTT
65826780 TTCAAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTCTTTTTTCATTCTTCG
Found at i:65827216 original size:1 final size:1
Alignment explanation
Indices: 65827210--65827282 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
65827200 CCGGTAGAGG
* * * * * ** ** *
65827210 TTTTTTTCTTTTTATTTTTTTATTTTTTTTGTTCTTTTTTTTGCTTTTTTTTTGCTTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65827275 TTTTTTTT
1 TTTTTTTT
65827283 GCCTCCACTG
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.03, C:0.07, G:0.04, T:0.86
Consensus pattern (1 bp):
T
Found at i:65827251 original size:21 final size:22
Alignment explanation
Indices: 65827224--65827283 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
65827214 TTTCTTTTTA
* *
65827224 TTTTTTTATTTTTTTTGTTCTT
1 TTTTTTTCTTTTTTTTGTGCTT
*
65827246 TTTTTTGCTTTTTTTT-TGCTT
1 TTTTTTTCTTTTTTTTGTGCTT
65827267 TTTTTTTCTTTTTTTTG
1 TTTTTTTCTTTTTTTTG
65827284 CCTCCACTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.02, C:0.07, G:0.07, T:0.85
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTTGTGCTT
Found at i:65841790 original size:72 final size:72
Alignment explanation
Indices: 65841673--65841913 Score: 335
Period size: 72 Copynumber: 3.3 Consensus size: 72
65841663 GTTACTCAGC
* *
65841673 TTGATGTTTCAGTAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGTCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTTG
65841738 GAGGAGT
66 GAGGAGT
* * * *
65841745 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTTG
* **
65841810 AAGTTGT
66 GAGGAGT
* *
65841817 TTGATGTTTC-GAAAAATCAGTTAAGCGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTT
1 TTGATGTTTCAG-AAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTT
65841881 GGAGGTA-T
65 GGAGG-AGT
65841889 TAT-ATGTTTCAGAAAATCAATTAAA
1 T-TGATGTTTCAGAAAATCAATTAAA
65841914 TGGTACTTTT
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
71 1 0.01
72 142 0.98
73 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (72 bp):
TTGATGTTTCAGAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTATCATCTTTG
GAGGAGT
Found at i:65847037 original size:119 final size:120
Alignment explanation
Indices: 65846876--65847091 Score: 328
Period size: 119 Copynumber: 1.8 Consensus size: 120
65846866 TCAAATAATT
* * * *
65846876 AAAAAATAATTTTTAATCTCCACTCACGAAAATGGAATACATTTTATTGTCAATCATTTATCTTT
1 AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACGTT
*
65846941 TCAGCAA-GCATCCACATTTAGAAAATTAATCACTATTACCGATGATGGGTATCGA
66 TCAG-AACGCATCCACAGTTAGAAAATTAATCACTATTACCGATGATGGGTATCGA
* *
65846996 AAAAAATAATTTTTAATC-CCGCTCACAAAAATGGAACACATTTTATTGTCACTCATTTAACGTT
1 AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACGTT
* *
65847060 TCAGAACGTATCCACGGTTAGAAAATTAATCA
66 TCAGAACGCATCCACAGTTAGAAAATTAATCA
65847092 TTGCTATCAA
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
118 2 0.02
119 66 0.77
120 18 0.21
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (120 bp):
AAAAAATAATTTTTAATCTCCACTCACAAAAATGGAACACATTTTATTGTCAATCATTTAACGTT
TCAGAACGCATCCACAGTTAGAAAATTAATCACTATTACCGATGATGGGTATCGA
Found at i:65851005 original size:27 final size:26
Alignment explanation
Indices: 65850944--65851002 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 26
65850934 CTCATATTTT
*
65850944 TTTAATAATTTTTAATTTTAAAAATAA
1 TTTAA-AATTTTAAATTTTAAAAATAA
65850971 TTTATAAAATTTTAAATTTTATAAAATTAA
1 -TT-TAAAATTTTAAATTTTA-AAAA-TAA
65851001 TT
1 TT
65851003 AAACACTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 15 0.56
29 9 0.33
30 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTAAAATTTTAAATTTTAAAAATAA
Found at i:65854568 original size:21 final size:21
Alignment explanation
Indices: 65854542--65854582 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65854532 ATCTGCTCAA
* *
65854542 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
65854563 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
65854583 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:65858416 original size:72 final size:72
Alignment explanation
Indices: 65858324--65858556 Score: 358
Period size: 72 Copynumber: 3.2 Consensus size: 72
65858314 TATCTTGCAC
* * *
65858324 AAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTCTGAAGTTGTTTCAT
1 AAAATCAATTAAATGGTCAAATTCCCTTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGAT
65858389 GTTTCAG
66 GTTTCAG
65858396 AAAATCAATTAAATGGTCAAATTCCCTTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGAT
1 AAAATCAATTAAATGGTCAAATTCCCTTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGAT
*
65858461 GTTTCAA
66 GTTTCAG
* * * ** * * *
65858468 AAAATAAATTAAACGGCCAAATTCCCTTGTCTATAGGACAGTTATCATCTTTGGAGGTATTTGAT
1 AAAATCAATTAAATGGTCAAATTCCCTTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGAT
65858533 GTTTCAG
66 GTTTCAG
65858540 AAAATCAATTAAATGGT
1 AAAATCAATTAAATGGT
65858557 ACTTTTCCTC
Statistics
Matches: 145, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (72 bp):
AAAATCAATTAAATGGTCAAATTCCCTTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGAT
GTTTCAG
Found at i:65865137 original size:20 final size:21
Alignment explanation
Indices: 65865112--65865157 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
65865102 TGAAGTACTA
65865112 TTCCTTA-TCAAACTTT-TGCT
1 TTCCTTACTCAAA-TTTCTGCT
65865132 TTCCTTACTCAAATTTCGTGCT
1 TTCCTTACTCAAATTTC-TGCT
65865154 TTCC
1 TTCC
65865158 ATTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.43
21 5 0.22
22 8 0.35
ACGTcount: A:0.17, C:0.28, G:0.07, T:0.48
Consensus pattern (21 bp):
TTCCTTACTCAAATTTCTGCT
Found at i:65867510 original size:12 final size:11
Alignment explanation
Indices: 65867471--65867513 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
65867461 AAAAAATGGT
65867471 TTTATTTATTA
1 TTTATTTATTA
*
65867482 TTTCATTTAATA
1 TTT-ATTTATTA
65867494 TTTTATTTATTTA
1 -TTTATTTA-TTA
65867507 TTTATTT
1 TTTATTT
65867514 TCAATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.11
12 19 0.70
13 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:65867672 original size:15 final size:15
Alignment explanation
Indices: 65867652--65867735 Score: 64
Period size: 15 Copynumber: 5.4 Consensus size: 15
65867642 CAAAACTTAG
65867652 ATTATTATTATCATT
1 ATTATTATTATCATT
65867667 ATTATTATTATCATCAT
1 ATTATTATTATCAT--T
* *
65867684 CATTGTTATTATCGTT
1 -ATTATTATTATCATT
*
65867700 ATTGTTATTTAT-ATT
1 ATTATTA-TTATCATT
**
65867715 ATCGTT-TTCATCATT
1 ATTATTATT-ATCATT
65867730 ATTATT
1 ATTATT
65867736 GTTTATGCAT
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.04
14 2 0.04
15 35 0.61
16 5 0.09
17 1 0.02
18 12 0.21
ACGTcount: A:0.27, C:0.10, G:0.05, T:0.58
Consensus pattern (15 bp):
ATTATTATTATCATT
Found at i:65867696 original size:18 final size:18
Alignment explanation
Indices: 65867652--65867696 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
65867642 CAAAACTTAG
* *
65867652 ATTATTATTATCATTATT
1 ATTATTATCATCATCATT
65867670 ATTATTATCATCATCATT
1 ATTATTATCATCATCATT
*
65867688 GTTATTATC
1 ATTATTATC
65867697 GTTATTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.11, G:0.02, T:0.56
Consensus pattern (18 bp):
ATTATTATCATCATCATT
Found at i:65868772 original size:66 final size:66
Alignment explanation
Indices: 65868666--65868797 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
65868656 TAAATAAGAA
65868666 TGGATGTATGGCATGGTTAAGGCATGGGCAAGGGCAAAAGCTTCAACCTGTATAATTCGTTATAT
1 TGGATGTATGGCATGGTTAAGGCATGGGCAAGGGCAAAAGCTTCAACCTGTATAATTCGTTATAT
65868731 G
66 G
* *
65868732 TGGATGTATGGCATGGTTAAGGCATGGGCAAGGGCAAAAGCTTCAACCTTTATTATTCGTTATAT
1 TGGATGTATGGCATGGTTAAGGCATGGGCAAGGGCAAAAGCTTCAACCTGTATAATTCGTTATAT
65868797 G
66 G
65868798 CAGGCAATTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (66 bp):
TGGATGTATGGCATGGTTAAGGCATGGGCAAGGGCAAAAGCTTCAACCTGTATAATTCGTTATAT
G
Found at i:65871463 original size:21 final size:21
Alignment explanation
Indices: 65871437--65871477 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65871427 ATCTGCTCAA
* *
65871437 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
65871458 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
65871478 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:65876547 original size:72 final size:72
Alignment explanation
Indices: 65876443--65876742 Score: 431
Period size: 72 Copynumber: 4.2 Consensus size: 72
65876433 ATCTTTCAGT
* ** * *
65876443 AAATCAATTAAATGATCAAATTCCATTGTCTATAGGGGAGTTATCGTCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
65876508 TTTCAAA
66 TTTCAAA
* * **
65876515 AAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGA-CATCTTTGGAGAAGTTTGAT
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTT-ATCATCTTTGAAGTTGTTTGAT
*
65876579 GTTTCAGA
65 GTTTCAAA
* * *
65876587 AAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
65876652 TTTCAAA
66 TTTCAAA
* * *
65876659 AAATCAGTTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
1 AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
*
65876724 TTTCAGA
66 TTTCAAA
65876731 AAATCAATTAAA
1 AAATCAATTAAA
65876743 TGGTACTTTT
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
71 1 0.00
72 198 0.99
73 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (72 bp):
AAATCAATTAAACGGCCAAATTCCATTGTCTATAGGGCAGTTATCATCTTTGAAGTTGTTTGATG
TTTCAAA
Found at i:65876690 original size:144 final size:144
Alignment explanation
Indices: 65876430--65876746 Score: 537
Period size: 144 Copynumber: 2.2 Consensus size: 144
65876420 GTTACTCAGC
* * * *
65876430 TTGATCTTTCAGTAAATCAATTAAATGATCAAATTCCATTGTCTATAGGGGAGTTATCGTCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
*
65876495 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTTGTCTATAGGGCAGTTGA-
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTT-AT
*
65876559 CATCTTTGGAGAAGT
130 CATCTTTGAAGAAGT
65876574 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
1 TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
*
65876639 AAGTTGTTTGATGTTTCAAAAAATCAGTTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
66 AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
**
65876704 ATCTTTGAAGTTGT
131 ATCTTTGAAGAAGT
65876718 TTGATGTTTCAGAAAATCAATTAAATGGT
1 TTGATGTTTCAGAAAATCAATTAAATGGT
65876747 ACTTTTCCTC
Statistics
Matches: 163, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
143 1 0.01
144 162 0.99
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (144 bp):
TTGATGTTTCAGAAAATCAATTAAATGGTCAAATTCCATTGTCTATAGGGGAGTTATCATCTTTG
AAGTTGTTTGATGTTTCAAAAAATCAATTAAACGGCCAAATTCCCTGGTCTATAGGGCAGTTATC
ATCTTTGAAGAAGT
Found at i:65884831 original size:11 final size:11
Alignment explanation
Indices: 65884815--65884839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
65884805 ATTTATACGT
65884815 AAATTTCAAAC
1 AAATTTCAAAC
65884826 AAATTTCAAAC
1 AAATTTCAAAC
65884837 AAA
1 AAA
65884840 CCTTCAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATTTCAAAC
Found at i:65885561 original size:22 final size:22
Alignment explanation
Indices: 65885533--65885577 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
65885523 GATTAAGTAC
65885533 TTCACAGTCGTGTTTGCTTTTG
1 TTCACAGTCGTGTTTGCTTTTG
*
65885555 TTCACAGTGGTGTTTGCTTTTG
1 TTCACAGTCGTGTTTGCTTTTG
65885577 T
1 T
65885578 GTCTGGGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (22 bp):
TTCACAGTCGTGTTTGCTTTTG
Found at i:65886098 original size:2 final size:2
Alignment explanation
Indices: 65886091--65886120 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
65886081 ATGTGTCATT
65886091 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
65886121 TACCTCGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:65892217 original size:15 final size:16
Alignment explanation
Indices: 65892189--65892221 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
65892179 ACAAATAATT
*
65892189 TAAAAATATTAAAAAA
1 TAAAAATATCAAAAAA
65892205 TAAAAAT-TCAAAAAA
1 TAAAAATATCAAAAAA
65892220 TA
1 TA
65892222 GCATGAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAATATCAAAAAA
Found at i:65902801 original size:18 final size:17
Alignment explanation
Indices: 65902765--65902804 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
65902755 TAGTAAAAAT
65902765 ATAATTTTATCATTTTA
1 ATAATTTTATCATTTTA
65902782 ATAA-TTTAT-ATCTTT-
1 ATAATTTTATCAT-TTTA
65902797 ATAATTTT
1 ATAATTTT
65902805 TAAAGGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATCATTTTA
Found at i:65910952 original size:21 final size:20
Alignment explanation
Indices: 65910915--65910953 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
65910905 TAATTTTTTT
*
65910915 AATTATATTTCTATTAAATA
1 AATTATATTTATATTAAATA
*
65910935 AATTATTATTTATTTTAAA
1 AATTA-TATTTATATTAAA
65910954 ACCTCGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTATATTTATATTAAATA
Found at i:65911389 original size:7 final size:7
Alignment explanation
Indices: 65911367--65911407 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
65911357 AAAATACAAT
*
65911367 TTTATCA
1 TTTATAA
65911374 TTTATTAA
1 TTTA-TAA
65911382 TTTATAA
1 TTTATAA
65911389 TTTATAA
1 TTTATAA
65911396 TTTATAA
1 TTTATAA
65911403 TTTAT
1 TTTAT
65911408 GAATGGACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTATAA
Found at i:65912190 original size:15 final size:16
Alignment explanation
Indices: 65912170--65912208 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
65912160 TTTTCTTTAT
*
65912170 TTTTTTATT-TTTCAC
1 TTTTTTATTATTTAAC
65912185 TTTTTTATTATTTAAC
1 TTTTTTATTATTTAAC
65912201 TTTTTTAT
1 TTTTTTAT
65912209 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTATTATTTAAC
Found at i:65912190 original size:16 final size:17
Alignment explanation
Indices: 65912169--65912206 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
65912159 TTTTTCTTTA
*
65912169 TTTTTTTATT-TTTCAC
1 TTTTTTTATTATTTAAC
65912185 -TTTTTTATTATTTAAC
1 TTTTTTTATTATTTAAC
65912201 TTTTTT
1 TTTTTT
65912207 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 5 0.26
17 5 0.26
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTTATTATTTAAC
Found at i:65915040 original size:23 final size:23
Alignment explanation
Indices: 65915014--65915128 Score: 76
Period size: 23 Copynumber: 5.0 Consensus size: 23
65915004 TTGTAAGAAG
65915014 TTAAAATATAATTTTATTATTTA
1 TTAAAATATAATTTTATTATTTA
* * * * *
65915037 TTAATATATAACTTCATCA-TAA
1 TTAAAATATAATTTTATTATTTA
*
65915059 TT-AAA-ATAATTTTTTTATTTTA
1 TTAAAATATAATTTTATTA-TTTA
* * *
65915081 GGTCAAAGTATAATTTTATCATTTA
1 --TTAAAATATAATTTTATTATTTA
**
65915106 TTAATTTATAA-TTTATTATTTA
1 TTAAAATATAATTTTATTATTTA
65915128 T
1 T
65915129 CAATGGACTA
Statistics
Matches: 67, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
20 8 0.12
21 2 0.03
22 17 0.25
23 23 0.34
24 1 0.01
25 6 0.09
26 10 0.15
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (23 bp):
TTAAAATATAATTTTATTATTTA
Found at i:65915119 original size:15 final size:14
Alignment explanation
Indices: 65915095--65915128 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
65915085 AAAGTATAAT
*
65915095 TTTATCATTTATTAA
1 TTTATAATTTATT-A
65915110 TTTATAATTTATTA
1 TTTATAATTTATTA
65915124 TTTAT
1 TTTAT
65915129 CAATGGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTATAATTTATTA
Found at i:65915858 original size:17 final size:17
Alignment explanation
Indices: 65915817--65915894 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
65915807 AATTATCAAA
*
65915817 AAATTTAAAATATTTTTT
1 AAATTTAAAATA-TTTAT
65915835 AAAATTTAAAATATTTAT
1 -AAATTTAAAATATTTAT
*
65915853 AAATTTCCAAA-ATTTAT
1 AAATTT-AAAATATTTAT
* * * *
65915870 ATATTTAAAAAATATAA
1 AAATTTAAAATATTTAT
65915887 AAATTTAA
1 AAATTTAA
65915895 TTTTTTAAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
16 3 0.06
17 28 0.56
18 7 0.14
19 12 0.24
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTTAAAATATTTAT
Found at i:65923077 original size:65 final size:67
Alignment explanation
Indices: 65922963--65923090 Score: 170
Period size: 65 Copynumber: 1.9 Consensus size: 67
65922953 TATTGATGTT
* * *
65922963 TTTAAATATTTTCTCATATATACATATTTATAGTCTAAAATTTAATTTCTTGATAAATTATATAT
1 TTTAAATAATTTCTCACATATA-ATATTTATAGTCTAAAATTTAATTTCTTCATAAATTATATAT
65923028 ACA
65 ACA
* ** *
65923031 TTTAAATAATTT-TCACATAT-ATATTTATATTCTAAGTTTTAGTTTCTTCATAAATTATAT
1 TTTAAATAATTTCTCACATATAATATTTATAGTCTAAAATTTAATTTCTTCATAAATTATAT
65923091 GTTATTTTGG
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
65 35 0.66
67 7 0.13
68 11 0.21
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (67 bp):
TTTAAATAATTTCTCACATATAATATTTATAGTCTAAAATTTAATTTCTTCATAAATTATATATA
CA
Found at i:65927034 original size:72 final size:72
Alignment explanation
Indices: 65926868--65927027 Score: 302
Period size: 72 Copynumber: 2.2 Consensus size: 72
65926858 GAGGAAAAGT
65926868 ACCATTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACCCCCCTATAGACAATG
1 ACCATTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACCCCCCTATAGACAATG
65926933 GAATTTG
66 GAATTTG
* *
65926940 GCCGTTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACCCCCCTATAGACAATG
1 ACCATTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACCCCCCTATAGACAATG
65927005 GAATTTG
66 GAATTTG
65927012 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
65927028 ACTGAAAGGT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 84 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (72 bp):
ACCATTTAATTGATTTTTTGAAACATCAAACAACTTCAGAGATGATAACCCCCCTATAGACAATG
GAATTTG
Found at i:65928414 original size:37 final size:37
Alignment explanation
Indices: 65928364--65928435 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
65928354 ATACTACTTC
*
65928364 AACTTCTATCTTTATATTCCTGTCTCAACAAAACATA
1 AACTTCTATCTTTATATTCCTGTATCAACAAAACATA
*
65928401 AACTTTTATCTTTATATTCCTGTATCAACAAAACA
1 AACTTCTATCTTTATATTCCTGTATCAACAAAACA
65928436 ATATTAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.39
Consensus pattern (37 bp):
AACTTCTATCTTTATATTCCTGTATCAACAAAACATA
Found at i:65929316 original size:18 final size:18
Alignment explanation
Indices: 65929273--65929316 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
65929263 ATCCAATTCA
* *
65929273 AACCCAAGTATCTAACCC
1 AACCCAATTATCCAACCC
65929291 AACCCAATTATCCAACCC
1 AACCCAATTATCCAACCC
65929309 AACCCAAT
1 AACCCAAT
65929317 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.16
Consensus pattern (18 bp):
AACCCAATTATCCAACCC
Found at i:65929344 original size:21 final size:21
Alignment explanation
Indices: 65929318--65929358 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
65929308 CAACCCAATC
*
65929318 ATAAAAATTACAAATAATTTA
1 ATAAAAAGTACAAATAATTTA
65929339 ATAAAAAGTACAAATAATTT
1 ATAAAAAGTACAAATAATTT
65929359 GTGTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (21 bp):
ATAAAAAGTACAAATAATTTA
Found at i:65931246 original size:29 final size:31
Alignment explanation
Indices: 65931192--65931270 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 31
65931182 TTTAATTCTT
* *
65931192 TTTAATAGTATAGGGA-TTAAATTGATACA-
1 TTTAATAGTAGAGGGACTTAAAGTGATACAG
*
65931221 TTTAATAGTAGAGGGACTT-AAGTGATCCAG
1 TTTAATAGTAGAGGGACTTAAAGTGATACAG
* *
65931251 TTCATATAATAGAGGGACTT
1 TTTA-ATAGTAGAGGGACTT
65931271 GGCAGGTACT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 23 0.55
30 5 0.12
31 14 0.33
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.34
Consensus pattern (31 bp):
TTTAATAGTAGAGGGACTTAAAGTGATACAG
Found at i:65932181 original size:34 final size:35
Alignment explanation
Indices: 65932137--65932203 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
65932127 CAGTAAAATA
65932137 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAT
*
65932171 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
65932204 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAT
Found at i:65941765 original size:20 final size:20
Alignment explanation
Indices: 65941740--65941789 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65941730 TGGCTTAAAA
65941740 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65941760 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65941777 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65941790 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65946404 original size:20 final size:20
Alignment explanation
Indices: 65946379--65946428 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
65946369 TGGCTTAAAA
65946379 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
65946399 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
65946416 GTGGTAGTGGATT
1 TTGGTAGTGGATT
65946429 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:65950755 original size:25 final size:23
Alignment explanation
Indices: 65950713--65950765 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
65950703 AACTTTATTT
*
65950713 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
65950737 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
65950761 TTATT
1 TTATT
65950766 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:65950860 original size:23 final size:23
Alignment explanation
Indices: 65950833--65950881 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
65950823 ATAATCATCA
*
65950833 TTATTCT-TTATTTGTTATTGTTG
1 TTATTCTATTA-TTGTCATTGTTG
65950856 TTATTCTATTATTGTCATTGTTG
1 TTATTCTATTATTGTCATTGTTG
65950879 TTA
1 TTA
65950882 ATATTGGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.65
Consensus pattern (23 bp):
TTATTCTATTATTGTCATTGTTG
Found at i:65954830 original size:25 final size:24
Alignment explanation
Indices: 65954765--65954831 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 24
65954755 CACTATTTTA
*
65954765 ATTTATCTA-ATAATAATAATAAT
1 ATTTATATATATAATAATAATAAT
* **
65954788 -TTTA-ATATAAAACCATAATAAT
1 ATTTATATATATAATAATAATAAT
65954810 ATTTATATATATAATATATAAT
1 ATTTATATATATAATA-ATAAT
65954832 CGAAGAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 15 0.45
23 4 0.12
24 7 0.21
25 5 0.15
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTATATATATAATAATAATAAT
Found at i:65958576 original size:24 final size:24
Alignment explanation
Indices: 65958549--65958600 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
65958539 TTAGTAAGTC
*
65958549 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65958573 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65958597 AAAT
1 AAAT
65958601 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65961637 original size:41 final size:41
Alignment explanation
Indices: 65961582--65961820 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
65961572 GAATGTAATA
* *
65961582 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
65961623 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
65961664 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
65961705 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
65961746 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
65961787 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
65961821 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:65969269 original size:41 final size:41
Alignment explanation
Indices: 65969214--65969452 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
65969204 GAATGTAATA
* *
65969214 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
65969255 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
65969296 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
65969337 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
65969378 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
65969419 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
65969453 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:65975642 original size:19 final size:20
Alignment explanation
Indices: 65975608--65975648 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
65975598 TTTTGATGCA
* *
65975608 TTTTATAAATTTTTTATGAT
1 TTTTATAAATATTTTATAAT
65975628 TTTTATAAA-ATTTTATAAT
1 TTTTATAAATATTTTATAAT
65975647 TT
1 TT
65975649 CTTTTATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAAATATTTTATAAT
Found at i:65975657 original size:31 final size:30
Alignment explanation
Indices: 65975607--65975665 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
65975597 TTTTTGATGC
65975607 ATTTTATAAATTTTTTATGATTTTTATAAA
1 ATTTTATAAATTTTTTATGATTTTTATAAA
*
65975637 ATTTTATAATTTCTTTTATGATTTTTATA
1 ATTTTATAAATT-TTTTATGATTTTTATA
65975666 TTTTTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (30 bp):
ATTTTATAAATTTTTTATGATTTTTATAAA
Found at i:65975668 original size:20 final size:21
Alignment explanation
Indices: 65975628--65975683 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
65975618 TTTTTATGAT
*
65975628 TTTTATAAAATTTTATAATTTC
1 TTTTAT-AATTTTTATAATTTC
* *
65975650 TTTTATGATTTTTAT-ATTTT
1 TTTTATAATTTTTATAATTTC
*
65975670 TTTTCTAATTTTTA
1 TTTTATAATTTTTA
65975684 ATAAATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 7 0.24
22 6 0.21
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTATAATTTTTATAATTTC
Found at i:65976871 original size:62 final size:62
Alignment explanation
Indices: 65976795--65976920 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
65976785 CACCAGCCCA
65976795 GTAAACTCATTCTAATATGAATTTACAAATAATACTACATAAGCCTACTCAATAGGGATAAG
1 GTAAACTCATTCTAATATGAATTTACAAATAATACTACATAAGCCTACTCAATAGGGATAAG
65976857 GTAAACTCATTCTAATATGAATTTACAAATAATACTACATAAGCCTACTCAATAGGGATAAG
1 GTAAACTCATTCTAATATGAATTTACAAATAATACTACATAAGCCTACTCAATAGGGATAAG
65976919 GT
1 GT
65976921 TAAGATAAAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.29
Consensus pattern (62 bp):
GTAAACTCATTCTAATATGAATTTACAAATAATACTACATAAGCCTACTCAATAGGGATAAG
Found at i:65980979 original size:72 final size:72
Alignment explanation
Indices: 65980852--65981240 Score: 582
Period size: 72 Copynumber: 5.4 Consensus size: 72
65980842 GAGGAAAAGT
** * * *
65980852 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGATAACTCCCCTATAGACAACG
1 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
65980917 GAATTTG
66 GAATTTG
65980924 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
1 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
65980989 GAATTTG
66 GAATTTG
* *
65980996 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAATTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
65981061 GAATTTG
66 GAATTTG
* * ** * * * * *
65981068 GCCGTTTAATTGA-TTTCTTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAAT
1 ACCATTTAATTGATTTTC-TGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAAC
65981132 GGAATTTG
65 GGAATTTG
* *
65981140 ACCATTTAATTGATTTTCTGAAACTTCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
65981205 GAATTTG
66 GAATTTG
* *
65981212 ACCATTTAATTTATTTTCTGAAAGATCAA
1 ACCATTTAATTGATTTTCTGAAACATCAA
65981241 GGTGAGTAAC
Statistics
Matches: 286, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
71 4 0.01
72 278 0.97
73 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAACTGCCCTATAGACAACG
GAATTTG
Found at i:65982776 original size:19 final size:19
Alignment explanation
Indices: 65982744--65982799 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 19
65982734 CATTTAATTG
65982744 ATTTTATAAA--ATTTAAA
1 ATTTTATAAATTATTTAAA
65982761 ATTTTATAAATTATTTTTAAA
1 ATTTTATAAATTA--TTTAAA
*
65982782 A--TTAAAAATTATTTAAA
1 ATTTTATAAATTATTTAAA
65982799 A
1 A
65982800 AATATGAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 17 0.50
19 10 0.29
21 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTTATAAATTATTTAAA
Found at i:65982798 original size:28 final size:30
Alignment explanation
Indices: 65982735--65982798 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 30
65982725 ACATGATAGC
*
65982735 ATTT-AATTGATTTTATAAAATTTAAAATT
1 ATTTAAATTGATTTTATAAAATTAAAAATT
65982764 -TTATAAATT-ATTTT-TAAAATTAAAAATT
1 ATT-TAAATTGATTTTATAAAATTAAAAATT
65982792 ATTTAAA
1 ATTTAAA
65982799 AAATATGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 19 0.61
29 8 0.26
30 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATTTAAATTGATTTTATAAAATTAAAAATT
Found at i:65982801 original size:19 final size:19
Alignment explanation
Indices: 65982754--65982802 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
65982744 ATTTTATAAA
** *
65982754 ATTTAAAATTTTATAAATT
1 ATTTAAAAAATTAAAAATT
**
65982773 ATTTTTAAAATTAAAAATT
1 ATTTAAAAAATTAAAAATT
65982792 ATTTAAAAAAT
1 ATTTAAAAAAT
65982803 ATGAGAATCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAAAAAATTAAAAATT
Found at i:65993826 original size:21 final size:21
Alignment explanation
Indices: 65993801--65993871 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
65993791 CGACACATAA
65993801 GTGCCTGAAACAACACACGAG
1 GTGCCTGAAACAACACACGAG
* *
65993822 GTGCCTGATACGACACACGAG
1 GTGCCTGAAACAACACACGAG
* *
65993843 GTGCCTAAAATATGACACACGAG
1 GTGCCTGAAACA--ACACACGAG
65993866 GTGCCT
1 GTGCCT
65993872 AAAATACGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 27 0.64
23 15 0.36
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACAACACACGAG
Found at i:65993859 original size:23 final size:23
Alignment explanation
Indices: 65993813--65993880 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
65993803 GCCTGAAACA
*
65993813 ACACACGAGGTGCCT--GATACG
1 ACACACGAGGTGCCTAAAATACG
*
65993834 ACACACGAGGTGCCTAAAATATG
1 ACACACGAGGTGCCTAAAATACG
65993857 ACACACGAGGTGCCTAAAATACG
1 ACACACGAGGTGCCTAAAATACG
65993880 A
1 A
65993881 AACATAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
21 15 0.36
23 27 0.64
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.15
Consensus pattern (23 bp):
ACACACGAGGTGCCTAAAATACG
Found at i:65994988 original size:16 final size:16
Alignment explanation
Indices: 65994969--65995001 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
65994959 GAATGGTCTC
*
65994969 TGTTTCTTTTCTTCTT
1 TGTTTCTTTTATTCTT
65994985 TGTTTCTTTTATTCTT
1 TGTTTCTTTTATTCTT
65995001 T
1 T
65995002 TACTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTTATTCTT
Found at i:66001193 original size:118 final size:118
Alignment explanation
Indices: 66000985--66001217 Score: 389
Period size: 118 Copynumber: 2.0 Consensus size: 118
66000975 TTTTGAAAGG
66000985 TTTATTTTTGTTATTCGTATATCTTTTAACGGCTATTTAAATTTAATTTCAAAATGGAACAGACG
1 TTTATTTTTGTTATTCGTATATCTTTTAACGGCTATTTAAATTTAATTTCAAAATGGAACAGACG
*
66001050 TAACATGGAAATCGACTAAAAGTTTAATTAGGTGCCACTATATTCTCATGTGA
66 TAACATGGAAATCGACTAAAAGTTTAATTAGGTGCCACCATATTCTCATGTGA
*
66001103 TTTATTTTTGTTATTCTTATATAC-TTTAACGGCTATTTAAATTTAATTTCAAAATAGG-ACAGA
1 TTTATTTTTGTTATTCGTATAT-CTTTTAACGGCTATTTAAATTTAATTTCAAAAT-GGAACAGA
* * *
66001166 CTTAACATGGAAATTGACTAAAAGTTTAATTAGGTGCCGCCATATTCTCATG
64 CGTAACATGGAAATCGACTAAAAGTTTAATTAGGTGCCACCATATTCTCATG
66001218 CGATACTCTT
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
118 105 0.97
119 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (118 bp):
TTTATTTTTGTTATTCGTATATCTTTTAACGGCTATTTAAATTTAATTTCAAAATGGAACAGACG
TAACATGGAAATCGACTAAAAGTTTAATTAGGTGCCACCATATTCTCATGTGA
Found at i:66001551 original size:15 final size:17
Alignment explanation
Indices: 66001531--66001562 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
66001521 AATTTTACCA
66001531 TTAT-AATT-TAAAATT
1 TTATAAATTATAAAATT
66001546 TTATAAATTATAAAATT
1 TTATAAATTATAAAATT
66001563 AATTTGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATAAATTATAAAATT
Found at i:66004209 original size:25 final size:25
Alignment explanation
Indices: 66004162--66004211 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
66004152 TTTTGACCCC
*
66004162 AAAAATTATAAAAATTTACATTTTT
1 AAAAATTATAAAAATATACATTTTT
* *
66004187 AAAAATTATAAAGATATAGATTTTT
1 AAAAATTATAAAAATATACATTTTT
66004212 TTACTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AAAAATTATAAAAATATACATTTTT
Found at i:66005692 original size:14 final size:13
Alignment explanation
Indices: 66005675--66005713 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
66005665 ATTAATATTG
66005675 ATTAATTAAATAAA
1 ATTAATTAAA-AAA
66005689 ATTAATGTAAAAAA
1 ATTAAT-TAAAAAA
*
66005703 ATTAAATAAAA
1 ATTAATTAAAA
66005714 TTAACAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
15 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
ATTAATTAAAAAA
Found at i:66013390 original size:153 final size:155
Alignment explanation
Indices: 66012946--66013616 Score: 866
Period size: 153 Copynumber: 4.4 Consensus size: 155
66012936 TTTAGTGTGT
** * * *
66012946 TTTTTATTGAAAGTAATAAAATTCGGTAAAAAAATACGAACATAGGGCCGAAATAAGAGTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
* * * *
66013011 ACTAAATTTT-TTAAAAAAACATAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
66 --TAAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGT
*
66013075 AAAATAATAAAA-TACAAAAATAATATA
129 AAAATAATAAAATTA-GAAAATAATATA
* * * * *
66013102 TTTTTATTGAAATTAATAAAATAT--GGG-AAAAATATGAACAAA-TGATCGAAATAAGGATTTT
1 TTTTTATTGAAAGTAATAAAAT-TCGGGGAAAAAATACGAACAAAGGGCT-GAAATAAGG-GTTT
*
66013163 TTTTAAAAAAAATTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAAT
63 TTTT----AAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAAT
*
66013228 AATTTAAAATAATAAAATTAGAAAATAATATA
124 AATGTAAAATAATAAAATTAGAAAATAATATA
66013260 TTTTT-TT-AAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
* *
66013323 TAAATTTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAA
66 TAAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
66013388 AATAATAAAATAAGAAAATAATATA
131 AATAATAAAATTAGAAAATAATATA
* *
66013413 TTTTTATTGAAAGTAATAAAA-TC-TGAAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
1 TTTTTATTGAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
** * *
66013476 TAAA-TTTAAATAAAAAACACACTAAATGAATACATTACAAACATAATGTACTAAAATAATATAA
66 TAAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
*
66013540 AATAAT-AAATTAGAAAATAGTATA
131 AATAATAAAATTAGAAAATAATATA
* * * * *
66013564 TTTTT-TT-AAAGTAATAAAATCCGGAGAAAAAATACAAATAAATGGCTGAAATA
1 TTTTTATTGAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATA
66013617 TGAACATGGT
Statistics
Matches: 454, Mismatches: 44, Indels: 39
0.85 0.08 0.07
Matches are distributed among these distances:
149 12 0.03
150 3 0.01
151 45 0.10
152 60 0.13
153 133 0.29
154 25 0.06
155 20 0.04
156 33 0.07
157 19 0.04
158 100 0.22
159 4 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (155 bp):
TTTTTATTGAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCTGAAATAAGGGTTTTTT
TAAATTTTATTTAAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAA
AATAATAAAATTAGAAAATAATATA
Found at i:66013825 original size:16 final size:17
Alignment explanation
Indices: 66013789--66013827 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
66013779 CTTTCTACTG
* *
66013789 ATTTAATCATATTCTAT
1 ATTTATTCATATGCTAT
66013806 ATTTATTCATATGC-AT
1 ATTTATTCATATGCTAT
66013822 ATTTAT
1 ATTTAT
66013828 AGTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (17 bp):
ATTTATTCATATGCTAT
Found at i:66016282 original size:18 final size:19
Alignment explanation
Indices: 66016243--66016282 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
66016233 AAATTACAAA
*
66016243 AAAATTAAAAATAATTTTT
1 AAAATTAAAAATAATTTAT
*
66016262 AAAATTCAAAAT-ATTTAT
1 AAAATTAAAAATAATTTAT
66016280 AAA
1 AAA
66016283 GAATCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAATTAAAAATAATTTAT
Found at i:66016319 original size:27 final size:28
Alignment explanation
Indices: 66016232--66016319 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 28
66016222 TCTCTCAACA
* *
66016232 AAAATTACAAAAAAATTA-AAAATAATTTTT
1 AAAATT-CAAAATATTTATAAAA-AA-TTTT
* **
66016262 AAAATTCAAAATATTTATAAAGAA-TCC
1 AAAATTCAAAATATTTATAAAAAATTTT
* *
66016289 AAAATTC-ATATATTTTTAAAAAATTTT
1 AAAATTCAAAATATTTATAAAAAATTTT
66016316 AAAA
1 AAAA
66016320 AATTAAAAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
26 13 0.28
27 13 0.28
29 11 0.24
30 9 0.20
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAATTCAAAATATTTATAAAAAATTTT
Found at i:66018554 original size:34 final size:35
Alignment explanation
Indices: 66018510--66018576 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
66018500 CAGTAAAATA
* *
66018510 TTTTCCGTAAAATGGTTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
66018544 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
66018577 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:66021823 original size:15 final size:17
Alignment explanation
Indices: 66021803--66021835 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
66021793 TATAATCAAA
66021803 TAAATT-TGT-ATATTT
1 TAAATTATGTAATATTT
66021818 TAAATTATGTAATATTT
1 TAAATTATGTAATATTT
66021835 T
1 T
66021836 TAATCACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TAAATTATGTAATATTT
Found at i:66023510 original size:16 final size:16
Alignment explanation
Indices: 66023489--66023525 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
66023479 TAATTATTTT
66023489 GTAATAATTGAATGAC
1 GTAATAATTGAATGAC
66023505 GTAATAATTGAATGAC
1 GTAATAATTGAATGAC
66023521 GTAAT
1 GTAAT
66023526 TTACCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.32
Consensus pattern (16 bp):
GTAATAATTGAATGAC
Found at i:66043475 original size:18 final size:19
Alignment explanation
Indices: 66043438--66043474 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
66043428 ATATTATAAT
66043438 TTTTTTTACTTACCAAAAA
1 TTTTTTTACTTACCAAAAA
* *
66043457 TTTTTTTATTTACTAAAA
1 TTTTTTTACTTACCAAAA
66043475 TATACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTTACTTACCAAAAA
Found at i:66055513 original size:15 final size:16
Alignment explanation
Indices: 66055488--66055517 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66055478 TTTGTTTCTC
66055488 TCATGTTATATTTAAG
1 TCATGTTATATTTAAG
66055504 TCAT-TTATATTTAA
1 TCATGTTATATTTAA
66055518 AATGTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
TCATGTTATATTTAAG
Found at i:66056746 original size:22 final size:22
Alignment explanation
Indices: 66056700--66056746 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
66056690 TTCAAGGATT
*
66056700 ATTGATAATTTTTTTTATAATA
1 ATTGATAATTTTTTATATAATA
*
66056722 ATTGATACTTTTTTAATATAA-A
1 ATTGATAATTTTTT-ATATAATA
66056744 ATT
1 ATT
66056747 TTGTAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.55
Consensus pattern (22 bp):
ATTGATAATTTTTTATATAATA
Found at i:66061499 original size:31 final size:31
Alignment explanation
Indices: 66061437--66061499 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
66061427 TTAATAACTT
* * *
66061437 AGTGACTTAAATAAAATTTTTTGAATGGTTC
1 AGTGACTTAAATAAAACTTTCTGAATAGTTC
66061468 AGTGACTTAAATGAAAACTTTCT-AATAGTTC
1 AGTGACTTAAAT-AAAACTTTCTGAATAGTTC
66061499 A
1 A
66061500 ATTACCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (31 bp):
AGTGACTTAAATAAAACTTTCTGAATAGTTC
Found at i:66067794 original size:22 final size:22
Alignment explanation
Indices: 66067769--66067817 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
66067759 ATTTTTTAAC
*
66067769 AATAATTTTAAAATTTTAAAAA
1 AATAATTTTAAAATTATAAAAA
* *
66067791 AATATTTTTGAAATTATAAAAA
1 AATAATTTTAAAATTATAAAAA
*
66067813 TATAA
1 AATAA
66067818 AAGTTCCCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAATTTTAAAATTATAAAAA
Found at i:66081013 original size:24 final size:24
Alignment explanation
Indices: 66080981--66081029 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
66080971 ATGCTACTGG
*
66080981 TTGCTACAAATCAGTAGTTAAAGT
1 TTGCTACAAATCAGTAGCTAAAGT
66081005 TTGCTACAAATCAGTAGCTAAAGT
1 TTGCTACAAATCAGTAGCTAAAGT
66081029 T
1 T
66081030 AAAAGCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (24 bp):
TTGCTACAAATCAGTAGCTAAAGT
Found at i:66097988 original size:21 final size:19
Alignment explanation
Indices: 66097954--66097992 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
66097944 GTAATCCTCT
66097954 GGAAAATGGCTTAGATAGA
1 GGAAAATGGCTTAGATAGA
66097973 GGAAACATGGTCTTAGATAG
1 GGAAA-ATGG-CTTAGATAG
66097993 GGAGGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (19 bp):
GGAAAATGGCTTAGATAGA
Found at i:66102639 original size:18 final size:18
Alignment explanation
Indices: 66102616--66102708 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
66102606 CCCAACTACT
*
66102616 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
66102634 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
66102652 GTATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
* * *
66102670 ATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
66102688 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
66102706 GTA
1 GTA
66102709 AACGGTCGTA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:66102668 original size:36 final size:36
Alignment explanation
Indices: 66102616--66102708 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
66102606 CCCAACTACT
* *
66102616 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* **
66102652 GTATATGTGAATAGTACTATATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
66102688 GTATACGTGAATAGTATCGTA
1 GTATACGTGAATAGTACCGTA
66102709 AACGGTCGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:66107507 original size:19 final size:19
Alignment explanation
Indices: 66107458--66108452 Score: 241
Period size: 19 Copynumber: 51.3 Consensus size: 19
66107448 GTGCCAATGG
*
66107458 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
66107477 GTAACTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
66107498 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
66107517 GTAATTATTTTATAATTAATATT
1 GT-A--ATTTTGT-ATGAATATT
66107540 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66107559 GTAATTTTGTAATTTTATATGAATATT
1 GTAATTTTG--------TATGAATATT
66107586 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
66107605 GTAATTATTTTATAATTAATATT
1 GT-A--ATTTTGT-ATGAATATT
66107628 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66107647 GTAATTTTGTAATTTTATATGAATATT
1 GTAATTTTG--------TATGAATATT
*
66107674 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66107693 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
66107712 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
66107728 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
66107750 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
66107773 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
66107792 TTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
**
66107808 -TAATTTTGTATTTATA-T
1 GTAATTTTGTATGAATATT
* *
66107825 -T--TTTTG-ATTAGTATT
1 GTAATTTTGTATGAATATT
* *
66107840 -T--TGTATGAATATTGTAATTTT
1 GTAAT-TTTG--TA-TG-AATATT
*
66107861 GTAATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
*
66107880 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
*
66107896 -TAATTTTGTACT---TATA
1 GTAATTTTGTA-TGAATATT
* *
66107912 GT--TTTTG-ATTAGTATT
1 GTAATTTTGTATGAATATT
* *
66107928 -T--TGTATGAATATTGTAATTTT
1 GTAAT-TTTG--TA-TG-AATATT
*
66107949 GTAATTTTGTATGAATAGT
1 GTAATTTTGTATGAATATT
*
66107968 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * ***
66107991 GTACTTATAGT-TTTTTATT
1 GTAATT-TTGTATGAATATT
66108010 AGT-ATTTTGTATGAATATT
1 -GTAATTTTGTATGAATATT
66108029 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
66108048 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
66108064 -TAATTTTGTATTTATAGTTTTT
1 GTAATTTTGTA-TGA-A--TATT
66108086 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
*
66108109 GTAATTATTTTAT-AATTAATT
1 GTAATT-TTGTATGAA-T-ATT
* * * * *
66108130 TTGCATTTATAGTTTTGGAT-TA
1 GT-AATTT-T-G-TATGAATATT
*
66108152 AT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
66108170 GTAATTTTG--T-AATTTT
1 GTAATTTTGTATGAATATT
* *
66108186 GTATGAATATTG--T-AATTTT
1 G--T-AATTTTGTATGAATATT
*
66108205 ATAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
**
66108224 GTAATTTTGTAAT-TTTATAT
1 GTAATTTTGT-ATGAATAT-T
* *
66108244 G-AATATTG--T-AATTTT
1 GTAATTTTGTATGAATATT
66108259 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66108278 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
**
66108301 GTAATTTTGTAAT-TTTATAT
1 GTAATTTTGT-ATGAATAT-T
* *
66108321 G-AATATTG--T-AATTTT
1 GTAATTTTGTATGAATATT
66108336 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
* *
66108355 GTAATATTGTTTG--TA-T
1 GTAATTTTGTATGAATATT
* *
66108371 G-AATATTG--T-AATTTT
1 GTAATTTTGTATGAATATT
66108386 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66108405 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
66108424 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
66108447 GTAATT
1 GTAATT
66108453 ATTTTATAAT
Statistics
Matches: 744, Mismatches: 94, Indels: 276
0.67 0.08 0.25
Matches are distributed among these distances:
13 2 0.00
14 15 0.02
15 52 0.07
16 66 0.09
17 15 0.02
18 20 0.03
19 293 0.39
20 60 0.08
21 45 0.06
22 32 0.04
23 75 0.10
24 5 0.01
25 7 0.01
26 4 0.01
27 53 0.07
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:66107571 original size:27 final size:27
Alignment explanation
Indices: 66107533--66107684 Score: 153
Period size: 27 Copynumber: 5.4 Consensus size: 27
66107523 ATTTTATAAT
*
66107533 TAATATTGTAATTTTGTATGAATATTG
1 TAATTTTGTAATTTTGTATGAATATTG
*
66107560 TAATTTTGTAATTTTATATGAATATTG
1 TAATTTTGTAATTTTGTATGAATATTG
* * *
66107587 TAATTTTGTATGAATATTGTAATTATTTTATAAT-
1 TAATTTTG--T-AATTTTGT-ATGA----ATATTG
*
66107621 TAATATTGTAATTTTGTATGAATATTG
1 TAATTTTGTAATTTTGTATGAATATTG
* *
66107648 TAATTTTGTAATTTTATATGAATATTA
1 TAATTTTGTAATTTTGTATGAATATTG
66107675 TAATTTTGTA
1 TAATTTTGTA
66107685 TGAATATTGT
Statistics
Matches: 103, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
26 4 0.04
27 67 0.65
29 1 0.01
30 9 0.09
31 10 0.10
32 1 0.01
34 7 0.07
35 4 0.04
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (27 bp):
TAATTTTGTAATTTTGTATGAATATTG
Found at i:66107601 original size:46 final size:47
Alignment explanation
Indices: 66107523--66108433 Score: 330
Period size: 46 Copynumber: 20.0 Consensus size: 47
66107513 TATTGTAATT
*
66107523 ATTTTATAATTAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
66107570 ATTTTAT-ATGAATATTGTAATTTTGTATGAATATTGTAA---T-T-
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
*
66107611 ATTTTATAATTAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
*
66107658 ATTTTAT-ATGAATATTATAATTTTGTATGAATATTGTAATTTTGTATGA
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTG--T-A
* ** * ** * * *
66107707 ATATTGTAATTATTTTATAAT-TAATTTTGTATTTATAGTTTTTGA-TTAGT-
1 AT-TT-T-A-TAATGAATATTGTAATTTTGTATGAATA--TTGTAATTTTGTA
* *
66107757 ATTTTGT-ATGAATATTGTAATTTTGTATGAATATTTTAA---T-T-
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * * *
66107798 ATTTTATAATTAATTTTGTATTTATATTT-TTTG-AT-TAGT-ATTTTGT-
1 ATTTTATAATGAATATTGTA---AT-TTTGTATGAATATTGTAATTTTGTA
** * * *
66107844 A-TGAATATTGTAATTTTGTAATTTTGTATGAATAGTGTAA---T-T-
1 ATTTTATAATG-AATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * * * * *
66107886 ATTTTATAATTAATTTTGTACTTATAGTTTTTG-AT-TAGT-ATTTTGT-
1 ATTTTATAATGAATATTGTAATT-T--TGTATGAATATTGTAATTTTGTA
** * * *
66107932 A-TGAATATTGTAATTTTGTAATTTTGTATGAATAGTGTAA---T-T-
1 ATTTTATAATG-AATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * * * *
66107974 ATTTTATAATTAATTTTGTACTTATAGT-T---T-TT-T-A-TTAGT-
1 ATTTTATAATGAATATTGTAATT-TTGTATGAATATTGTAATTTTGTA
*
66108013 ATTTTGT-ATGAATATTGTAATTTTGTATGAATATTGTAA---T-T-
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * * * * *
66108054 ATTTTATAATTAATTTTGT-A--TT-TAT-AGT-TTTTGA-TTAGT-
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * *
66108093 ATTTTGT-ATGAATATTGTAATTATT-T-T--ATAAT-TAATTTTG-C
1 ATTTTATAATGAATATTGTAATT-TTGTATGAATATTGTAATTTTGTA
** * **
66108134 ATTTATAGTTTTGGAT-TAAT-ATTTTGTATGAATATTGTAATTTTGTA
1 ATTT-TA-TAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* *
66108181 ATTTTGTATGAATATTGTAATTTTATAATTTTGTATGAATATTGTAATTTTGTA
1 A-TTT-TAT--A-A-TG-AATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* *
66108235 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGT-
1 A-TTT-TAT--A-A-TG-AATATTGTAATTTTGTATGAATATTGTAATTTTGTA
* * *
66108288 -TTGTATGAATATTGTAATTTTGTAATTTTATATGAATATTGTAATTTTGTA
1 ATT-T-T--ATAATG-AATATTGTAATTTTGTATGAATATTGTAATTTTGTA
*
66108339 ATTTTGT-ATGAATATTGTAATATTGTTTGTATGAATATTGTAATTTTGTA
1 ATTTTATAATGAATATTGT-A-A-T-TTTGTATGAATATTGTAATTTTGTA
* *
66108389 ATTTTGT-ATGAATATTGTAATTTTGTATGAATATTGTAATATTGT
1 ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGT
66108434 TTGTATGAAT
Statistics
Matches: 668, Mismatches: 104, Indels: 185
0.70 0.11 0.19
Matches are distributed among these distances:
36 5 0.01
37 6 0.01
38 26 0.04
39 18 0.03
40 3 0.00
41 34 0.05
42 93 0.14
43 35 0.05
44 18 0.03
45 36 0.05
46 149 0.22
47 20 0.03
48 10 0.01
49 7 0.01
50 83 0.12
51 6 0.01
52 10 0.01
53 18 0.03
54 87 0.13
55 4 0.01
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (47 bp):
ATTTTATAATGAATATTGTAATTTTGTATGAATATTGTAATTTTGTA
Found at i:66107645 original size:107 final size:107
Alignment explanation
Indices: 66107458--66107783 Score: 357
Period size: 107 Copynumber: 3.0 Consensus size: 107
66107448 GTGCCAATGG
* * *
66107458 GTAATTTTGTATGTATATTGTAACTTTTTGTATGAATATTGT-A--ATTTTGT-ATGAATATTGT
1 GTAATTTTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATTATTTTATAATTAATATTGT
* *
66107519 AATTATTTTATAATTAATATTGTAATTTTGTATGAATATTGTAATTTT
64 -A--ATTTTGT-ATGAATATTGTAATTTTGTATGAATATTGTAATTTT
*
66107567 GTAATTTTATATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAA
1 GTAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAA
** *
66107632 TTTTGTATGAATATTGTAATTTTGTAAT-TTTATATG-AATATT
66 TTTTGTATGAATATTGTAATTTTGT-ATGAATAT-TGTAATTTT
* *
66107674 ATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGT-A
1 GTAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAA
* *
66107738 TTTATAGTTTTTG-AT-TAGT-ATTTTGTATGAATATTGTAATTTT
66 TTT-T-G--TATGAATATTGTAATTTTGTATGAATATTGTAATTTT
66107781 GTA
1 GTA
66107784 TGAATATTTT
Statistics
Matches: 187, Mismatches: 18, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
106 8 0.04
107 121 0.65
108 15 0.08
109 23 0.12
110 10 0.05
111 10 0.05
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (107 bp):
GTAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAA
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTTT
Found at i:66107732 original size:80 final size:80
Alignment explanation
Indices: 66107483--66108114 Score: 518
Period size: 88 Copynumber: 7.5 Consensus size: 80
66107473 TATTGTAACT
* * * *
66107483 TTTTGTATGAATATT-GTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAATT-
1 TTTTATATGATTATTAGT-ATTTTGTATGAATATTGT-A--ATTTTGT-ATGAATATTGTAATTA
*
66107546 TTGTATGAATATTGTAATTTTGTAA
61 TT-T-T--ATAAT-TAATTTTGTAA
* * *
66107571 TTTTATATGAATATT-GTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAATT-
1 TTTTATATGATTATTAGT-ATTTTGTATGAATATTGT-A--ATTTTGT-ATGAATATTGTAATTA
*
66107634 TTGTATGAATATTGTAATTTTGTAA
61 TT-T-T--ATAAT-TAATTTTGTAA
*
66107659 TTTTATATGAATATTA-TAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
1 TTTTATATGATTATTAGT-ATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
66107723 ATAATTAATTTTGT-A
65 ATAATTAATTTTGTAA
** *
66107738 -TTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTTTAATTATTT
1 TTTTATA-TGATT-ATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTT
66107802 TATAATTAATTTTGT-A
64 TATAATTAATTTTGTAA
** *
66107818 -TTTATATTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGTGT
1 TTTTATA-TGATT-ATTAGTATTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTGT
66107882 AATTATTTTATAATTAATTTTGT-A
56 AATTATTTTATAATTAATTTTGTAA
* ** *
66107906 -CTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGTGT
1 TTTTATA-TGATT-ATTAGTATTTTGTATG-A-A---T-A--TTGTAATTTTGTATGAATATTGT
*
66107970 AATTATTTTATAATTAATTTTGTAC
56 AATTATTTTATAATTAATTTTGTAA
* **
66107995 TTATAGT-TTTTTATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
1 TTTTA-TATGATTATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTT
66108059 ATAATTAATTTTGT-A
65 ATAATTAATTTTGTAA
**
66108074 -TTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATT
1 TTTTATA-TGATT-ATTAGTATTTTGTATGAATATTGTAATT
66108115 ATTTTATAAT
Statistics
Matches: 506, Mismatches: 19, Indels: 46
0.89 0.03 0.08
Matches are distributed among these distances:
77 1 0.00
78 9 0.02
79 8 0.02
80 174 0.34
81 6 0.01
82 2 0.00
83 2 0.00
84 15 0.03
85 9 0.02
86 2 0.00
87 2 0.00
88 268 0.53
89 5 0.01
90 2 0.00
91 1 0.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (80 bp):
TTTTATATGATTATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTA
TAATTAATTTTGTAA
Found at i:66107760 original size:27 final size:27
Alignment explanation
Indices: 66107730--66107845 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 27
66107720 TTTATAATTA
66107730 ATTTTGTATTTATAGTTTTTGATTAGT
1 ATTTTGTATTTATAGTTTTTGATTAGT
* * * *
66107757 ATTTTGTATGAATATTGTAATTTTGTATGAAT
1 ATTTTGTAT--TTATAGT--TTTTG-ATTAGT
* * *
66107789 A-TTT-TAATTAT--TTTATAATTA--
1 ATTTTGTATTTATAGTTTTTGATTAGT
*
66107810 ATTTTGTATTTATATTTTTTGATTAGT
1 ATTTTGTATTTATAGTTTTTGATTAGT
66107837 ATTTTGTAT
1 ATTTTGTAT
66107846 GAATATTGTA
Statistics
Matches: 66, Mismatches: 12, Indels: 22
0.66 0.12 0.22
Matches are distributed among these distances:
21 1 0.02
22 3 0.05
23 9 0.14
24 3 0.05
25 8 0.12
26 1 0.02
27 18 0.27
28 3 0.05
29 5 0.08
30 2 0.03
31 8 0.12
32 5 0.08
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (27 bp):
ATTTTGTATTTATAGTTTTTGATTAGT
Found at i:66107959 original size:54 final size:52
Alignment explanation
Indices: 66107896--66108433 Score: 219
Period size: 54 Copynumber: 10.0 Consensus size: 52
66107886 ATTTTATAAT
66107896 TAATTTTGTACTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
1 TAATTTTGTA-TTATA-TTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
* ** * * * * * * *
66107950 TAATTTTGTATGA-A-TAGTG-TAATTATTTTATAATTAATTTTGTACTTATAG
1 TAATTTTGTATTATATTTTTGATTAGTATTTTGT-ATGAATATTGTAATT-TTG
*
66108001 T--TTTT-TATTAGTATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAA
1 TAATTTTGTATTA-TA-TTT-T-TG-AT-TAGT-ATTTTGTATGAATATTGT-A--A-TTT-T--
*
66108063 T
52 G
*
66108064 TAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTATTTTATAAT
1 TAATTTTGTA-TTATA-TTTTTGATTAGTATTTTGTATGAATATTGT-A--A-TTT-T--G
* * *
66108125 TAATTTTGCATTTATAGTTTTGGATTAATATTTTGTATGAATATTGTAATTTTG
1 TAATTTTGTA-TTATA-TTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
*
66108179 TAATTTTGTATGAATATTGTAATT--TTA-TAATTTTGTATGAATATTGTAATTTTG
1 TAATTTTGTAT-TATATT-T--TTGATTAGT-ATTTTGTATGAATATTGTAATTTTG
* * * * * *
66108233 TAATTTTATATGA-ATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTG
1 TAATTTTGTATTATAT-TTTTGA-TTAGT-ATTTTGTATGAATATTGTAATTTTG
* * *
66108287 T--TTGTATGAATATTGTAATTTTG--TA--ATTTTATATGAATATTGTAATTTTG
1 TAATT-T-TG--TATTATATTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
* * *
66108337 TAATTTTGTATGA-A-TATTG--TAATATTGTTTGTATGAATATTGTAATTTTG
1 TAATTTTGTATTATATTTTTGATTAGTA-T-TTTGTATGAATATTGTAATTTTG
* * *
66108387 TAATTTTGTATGA-A-TATTG--TA--ATTTTGTATGAATATTGTAATATTG
1 TAATTTTGTATTATATTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
66108433 T
1 T
66108434 TTGTATGAAT
Statistics
Matches: 390, Mismatches: 50, Indels: 96
0.73 0.09 0.18
Matches are distributed among these distances:
46 29 0.07
47 2 0.01
48 9 0.02
49 14 0.04
50 86 0.22
51 4 0.01
52 9 0.02
53 12 0.03
54 91 0.23
56 9 0.02
57 14 0.04
58 8 0.02
60 2 0.01
61 78 0.20
62 3 0.01
63 3 0.01
64 2 0.01
65 5 0.01
66 7 0.02
67 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (52 bp):
TAATTTTGTATTATATTTTTGATTAGTATTTTGTATGAATATTGTAATTTTG
Found at i:66108073 original size:34 final size:34
Alignment explanation
Indices: 66108030--66108132 Score: 112
Period size: 34 Copynumber: 3.2 Consensus size: 34
66108020 ATGAATATTG
66108030 TAATTTTGTATGAATATTGTAATTATTTTATAAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAAT
* * * * *
66108064 TAATTTTG--T--AT-TTATAGTT-TTTGATTAG
1 TAATTTTGTATGAATATTGTAATTATTTTATAAT
66108092 T-ATTTTGTATGAATATTGTAATTATTTTATAAT
1 TAATTTTGTATGAATATTGTAATTATTTTATAAT
66108125 TAATTTTG
1 TAATTTTG
66108133 CATTTATAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
27 6 0.12
28 7 0.13
29 7 0.13
30 2 0.04
31 2 0.04
32 7 0.13
33 7 0.13
34 14 0.27
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (34 bp):
TAATTTTGTATGAATATTGTAATTATTTTATAAT
Found at i:66108160 original size:256 final size:256
Alignment explanation
Indices: 66107483--66108229 Score: 820
Period size: 256 Copynumber: 2.8 Consensus size: 256
66107473 TATTGTAACT
*
66107483 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATATTGTAATTTT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGT-A--TT
* * * * * * *
66107548 GTATGAATATTGTAATTTTGTAATTTTATATGAATATTGTAATTTTGTATGAATATTGTAAT-TA
63 -TAT-AGT-TTTTGA-TTAGT-ATTTTGTATGAATATTGTAA-TTT-TAT-AATTTTGT-ATGAA
** * * *
66107612 TTTTATAATTA----ATATTGTAATTTTGTATGAATATTGTAATTTTGTAATTTTATATGAATAT
119 TAGTATAATTATTGGATAAT-TAATTTTGTATGAATATTGTAATTTAGTAATTTTGTATG---A-
*
66107673 TATAATTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTA
179 -AT-A--TTG--T-AATTTTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTA
*
66107738 TTTATAGTTTTTGATTAGTA
237 CTTATAGTTTTTGATTAGTA
*
66107758 TTTTGTATGAATATTGTAATTTTGTATGAATATTTTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
* * *
66107823 ATTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATAGTGTAATTAT
66 AGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATAATTTTGTATGAATAGTATAATTAT
** * * *
66107888 TTTATAATTAATTTTGTACT-TATAGTTTTTGA-TTAGT-ATTTTGTATGAATATTGTAATTTTG
131 TGGATAATTAATTTTGTA-TGAATA--TTGTAATTTAGTAATTTTGTATGAATATTGTAATTTTG
* *
66107950 TAATTTTGTATGAATAGTGTAATTATTTTATAATTAATTTTGTACTTATAGTTTTTTATTAGTA
193 TAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTACTTATAGTTTTTGATTAGTA
66108014 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
* *
66108079 AGTTTTTGATTAGTATTTTGTATGAATATTGTAATTATTTTATAATTAATT-T-TGCAT-TTATA
66 AGTTTTTGATTAGTATTTTGTATGAATATTGT-A--ATTTTATAATT--TTGTATGAATAGTATA
* *
66108141 GTT-TTGGATTAA-T-ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATT
126 ATTATTGGA-TAATTAATTTTGTATGAATATTGTAATTTAGTAATTTTGTATGAATATTGTAATT
*
66108203 TTATAATTTTGTATGAATATTGTAATT
190 TTGTAATTTTGTATGAATATTGTAATT
66108230 TTGTAATTTT
Statistics
Matches: 417, Mismatches: 38, Indels: 53
0.82 0.07 0.10
Matches are distributed among these distances:
254 4 0.01
255 5 0.01
256 220 0.53
257 6 0.01
258 8 0.02
259 17 0.04
260 1 0.00
261 3 0.01
262 2 0.00
263 2 0.00
264 17 0.04
265 2 0.00
266 3 0.01
267 41 0.10
268 13 0.03
269 8 0.02
270 2 0.00
271 3 0.01
272 2 0.00
274 1 0.00
275 57 0.14
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (256 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
AGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATAATTTTGTATGAATAGTATAATTAT
TGGATAATTAATTTTGTATGAATATTGTAATTTAGTAATTTTGTATGAATATTGTAATTTTGTAA
TTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTACTTATAGTTTTTGATTAGTA
Found at i:66108181 original size:8 final size:8
Alignment explanation
Indices: 66108168--66108415 Score: 103
Period size: 8 Copynumber: 28.6 Consensus size: 8
66108158 TGTATGAATA
66108168 TTGTAATT
1 TTGTAATT
66108176 TTGTAATT
1 TTGTAATT
*
66108184 TTGTATGAATA
1 TTG--T-AATT
66108195 TTGTAATT
1 TTGTAATT
*
66108203 TTATAATT
1 TTGTAATT
*
66108211 TTGTATGAATA
1 TTG--T-AATT
66108222 TTGTAATT
1 TTGTAATT
66108230 TTGTAATTT
1 TTGTAA-TT
* *
66108239 TATATGAATA
1 T-TGT-AATT
66108249 TTGTAATT
1 TTGTAATT
66108257 TTGTAATT
1 TTGTAATT
*
66108265 TTGTATGAATA
1 TTG--T-AATT
*
66108276 TTGTAATA
1 TTGTAATT
66108284 TTGT--TT
1 TTGTAATT
*
66108290 GTATG-AATA
1 -T-TGTAATT
66108299 TTGTAATT
1 TTGTAATT
66108307 TTGTAATTT
1 TTGTAA-TT
* *
66108316 TATATGAATA
1 T-TGT-AATT
66108326 TTGTAATT
1 TTGTAATT
66108334 TTGTAATT
1 TTGTAATT
*
66108342 TTGTATGAATA
1 TTG--T-AATT
*
66108353 TTGTAATA
1 TTGTAATT
66108361 TTGT--TT
1 TTGTAATT
*
66108367 GTATG-AATA
1 -T-TGTAATT
66108376 TTGTAATT
1 TTGTAATT
66108384 TTGTAATT
1 TTGTAATT
*
66108392 TTGTATGAATA
1 TTG--T-AATT
66108403 TTGTAATT
1 TTGTAATT
66108411 TTGTA
1 TTGTA
66108416 TGAATATTGT
Statistics
Matches: 185, Mismatches: 24, Indels: 62
0.68 0.09 0.23
Matches are distributed among these distances:
6 2 0.01
7 6 0.03
8 113 0.61
9 17 0.09
10 13 0.07
11 34 0.18
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (8 bp):
TTGTAATT
Found at i:66108184 original size:27 final size:27
Alignment explanation
Indices: 66108154--66108415 Score: 423
Period size: 27 Copynumber: 10.0 Consensus size: 27
66108144 TTGGATTAAT
66108154 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
66108181 ATTTTGTATGAATATTGTAATTTTATA
1 ATTTTGTATGAATATTGTAATTTTGTA
66108208 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
66108235 ATTTTATATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
66108262 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
66108287 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
66108312 ATTTTATATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
*
66108339 ATTTTGTATGAATATTGTAATATTG--
1 ATTTTGTATGAATATTGTAATTTTGTA
66108364 --TTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
66108389 ATTTTGTATGAATATTGTAATTTTGTA
1 ATTTTGTATGAATATTGTAATTTTGTA
66108416 TGAATATTGT
Statistics
Matches: 217, Mismatches: 10, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
23 44 0.20
27 173 0.80
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (27 bp):
ATTTTGTATGAATATTGTAATTTTGTA
Found at i:66108328 original size:77 final size:77
Alignment explanation
Indices: 66108154--66108452 Score: 472
Period size: 77 Copynumber: 3.9 Consensus size: 77
66108144 TTGGATTAAT
*
66108154 ATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATTTTATAAT-TTTGTATG
1 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAA---TAT--TGTTTGTATG
66108218 AATATTGTAATTTTGTA
61 AATATTGTAATTTTGTA
66108235 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
66108300 TGTAATTTTGTA
66 TGTAATTTTGTA
66108312 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
66108377 TGTAATTTTGTA
66 TGTAATTTTGTA
*
66108389 A--TT-T-TG--TA-TG-AATATTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
1 ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
66108446 TGTAATT
66 TGTAATT
66108453 ATTTTATAAT
Statistics
Matches: 215, Mismatches: 2, Indels: 14
0.93 0.01 0.06
Matches are distributed among these distances:
69 53 0.25
70 2 0.01
71 2 0.01
73 2 0.01
74 1 0.00
75 2 0.01
76 1 0.00
77 103 0.48
78 3 0.01
81 46 0.21
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (77 bp):
ATTTTATATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATATTGTTTGTATGAATAT
TGTAATTTTGTA
Found at i:66108713 original size:15 final size:16
Alignment explanation
Indices: 66108677--66108713 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
66108667 CTCATTTAAT
66108677 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
66108693 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
66108708 TTTTAT
1 TTTTAT
66108714 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:66108918 original size:18 final size:18
Alignment explanation
Indices: 66108891--66108933 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
66108881 TATATTTTAT
66108891 AAAT-TTTTTTTAATATA
1 AAATATTTTTTTAATATA
66108908 AAATATTTTTTTAATATA
1 AAATATTTTTTTAATATA
*
66108926 AAAAATTT
1 AAATATTT
66108934 AATATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AAATATTTTTTTAATATA
Found at i:66109537 original size:25 final size:25
Alignment explanation
Indices: 66109509--66109556 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
66109499 TTAAATTGGA
66109509 TGTACAAAAATAAAAAATATTAAGT
1 TGTACAAAAATAAAAAATATTAAGT
66109534 TGTACAAAAATAAAAAATATTAA
1 TGTACAAAAATAAAAAATATTAA
66109557 CTTATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
TGTACAAAAATAAAAAATATTAAGT
Found at i:66109567 original size:25 final size:25
Alignment explanation
Indices: 66109511--66109582 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
66109501 AAATTGGATG
* *
66109511 TACAAAAATAAAAAATATTAAGTTG
1 TACAAAAATAAAAAATATTAACTTA
66109536 TACAAAAATAAAAAATATTAACTTA
1 TACAAAAATAAAAAATATTAACTTA
66109561 TGA-AAAAA-AACAAAATGATTAA
1 T-ACAAAAATAA-AAAAT-ATTAA
66109583 AATTTGTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 2 0.05
25 34 0.81
26 6 0.14
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.25
Consensus pattern (25 bp):
TACAAAAATAAAAAATATTAACTTA
Found at i:66109639 original size:17 final size:18
Alignment explanation
Indices: 66109617--66109650 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66109607 TTGTTTATAA
66109617 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
66109634 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
66109651 AAATTAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:66111718 original size:30 final size:31
Alignment explanation
Indices: 66111682--66111747 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
66111672 CTGAGTTTAT
*
66111682 TTGAATTTTTAGTTTAAT-T-TAAGGATTAAA
1 TTGAATTTCTA-TTTAATATATAAGGATTAAA
*
66111712 TTGAATTTCTATTTAATATATAAGGATTAAT
1 TTGAATTTCTATTTAATATATAAGGATTAAA
66111743 TTGAA
1 TTGAA
66111748 CAATAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 6 0.19
30 11 0.34
31 15 0.47
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (31 bp):
TTGAATTTCTATTTAATATATAAGGATTAAA
Found at i:66120584 original size:12 final size:12
Alignment explanation
Indices: 66120567--66120591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
66120557 AATGGACGAG
66120567 ATTACCTATATC
1 ATTACCTATATC
66120579 ATTACCTATATC
1 ATTACCTATATC
66120591 A
1 A
66120592 CTAGGTAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTACCTATATC
Done.