Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 150 of 214
Found at i:44774464 original size:44 final size:44
Alignment explanation
Indices: 44774407--44774492 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
44774397 CTCCCTGAGG
44774407 TCGTAGCGAAGCAGGTTGAAG-ATACAAGTCTTATCTCACTGAAA
1 TCGTAGCGAAGCAGGTTGAAGCA-ACAAGTCTTATCTCACTGAAA
* * *
44774451 TCGTAGTGGAGCAGGTTGAAGCAACAAGTCTTATCTCCCTGA
1 TCGTAGCGAAGCAGGTTGAAGCAACAAGTCTTATCTCACTGA
44774493 CGTTGTAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
TCGTAGCGAAGCAGGTTGAAGCAACAAGTCTTATCTCACTGAAA
Found at i:44779640 original size:21 final size:21
Alignment explanation
Indices: 44779616--44779705 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
44779606 ATTCCTAACT
*
44779616 CTTAACCCCTAACCCCTAAAC
1 CTTAATCCCTAACCCCTAAAC
*
44779637 CTTACATCCC-AACCCTTAAAC
1 CTTA-ATCCCTAACCCCTAAAC
* * * *
44779658 CATAATCCCTAATCCATAATC
1 CTTAATCCCTAACCCCTAAAC
* *
44779679 TCTAAATCCAT-ACTCCCTAAAC
1 -CTTAATCCCTAAC-CCCTAAAC
44779701 CTTAA
1 CTTAA
44779706 AATATGAACT
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
20 5 0.10
21 30 0.58
22 17 0.33
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.26
Consensus pattern (21 bp):
CTTAATCCCTAACCCCTAAAC
Found at i:44779686 original size:15 final size:15
Alignment explanation
Indices: 44779653--44779699 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
44779643 TCCCAACCCT
44779653 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
44779667 T-AATCCATAATCTC
1 TAAATCCATAATCCC
*
44779681 TAAATCCATACTCCC
1 TAAATCCATAATCCC
44779696 TAAA
1 TAAA
44779700 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:44779912 original size:7 final size:7
Alignment explanation
Indices: 44779896--44779941 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
44779886 CCCTCACTCT
44779896 TAACCCC
1 TAACCCC
*
44779903 TAACCAC
1 TAACCCC
44779910 TAACCCC
1 TAACCCC
44779917 TAAACCCC
1 T-AACCCC
*
44779925 TAACCAC
1 TAACCCC
44779932 TAACCCC
1 TAACCCC
44779939 TAA
1 TAA
44779942 ACCTTAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.37, C:0.48, G:0.00, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:44779922 original size:22 final size:22
Alignment explanation
Indices: 44779897--44779944 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
44779887 CCTCACTCTT
44779897 AACCCCTAACCACTAACCCCTA
1 AACCCCTAACCACTAACCCCTA
44779919 AACCCCTAACCACTAACCCCTA
1 AACCCCTAACCACTAACCCCTA
44779941 AACC
1 AACC
44779945 TTAAATCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.50, G:0.00, T:0.12
Consensus pattern (22 bp):
AACCCCTAACCACTAACCCCTA
Found at i:44779963 original size:21 final size:20
Alignment explanation
Indices: 44779911--44779973 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
44779901 CCTAACCACT
*
44779911 AACCCCTAAACCCCTAA-CCAC
1 AACCCCTAAA-CCATAATCC-C
*
44779932 TAACCCCTAAACCTTAAATCCC
1 -AACCCCTAAACCAT-AATCCC
*
44779954 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
44779974 TAATCCATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 15 0.42
22 13 0.36
23 2 0.06
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.17
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:44779981 original size:14 final size:14
Alignment explanation
Indices: 44779964--44779990 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44779954 AACCCTTAAA
44779964 CCATAATCCCTAAT
1 CCATAATCCCTAAT
44779978 CCATAATCCCTAA
1 CCATAATCCCTAA
44779991 ATTCACTCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:44780521 original size:41 final size:40
Alignment explanation
Indices: 44780358--44780521 Score: 175
Period size: 41 Copynumber: 4.0 Consensus size: 40
44780348 GTTTTTAGTA
* * * * * *
44780358 GCGCTTTTTCAAAAATGTCGCTACAGCCCCCAGCATTAGC
1 GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* *
44780398 AGCGCTTTTTAAAAAATGCCGCTAAAACACCGAGCATTAGC
1 -GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* *
44780439 GACGCTTTTTAAAAAACGCCACGAAAACCCCGAGCATTAGC
1 G-CGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
* * * *
44780480 GTCGCATTTTCAAAAACACCGCTAAAGCCCCGAGCATTAGC
1 G-CGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
44780521 G
1 G
44780522 GCACTTTCTT
Statistics
Matches: 105, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 104 0.99
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (40 bp):
GCGCTTTTTAAAAAACGCCGCTAAAACCCCGAGCATTAGC
Found at i:44780546 original size:41 final size:40
Alignment explanation
Indices: 44780382--44780551 Score: 144
Period size: 41 Copynumber: 4.2 Consensus size: 40
44780372 ATGTCGCTAC
* * * * *
44780382 AGCCCCCAGCATTAGCAGCGCTTTTTAAAAAATGCCGCTAA
1 AGCCCCGAGCATTAGCGGCACTTTTT-AAAAACGCCACTAA
* * * * *
44780423 AACACCGAGCATTAGCGACGCTTTTTAAAAAACGCCACGAA
1 AGCCCCGAGCATTAGCGGCACTTTTT-AAAAACGCCACTAA
* * * *
44780464 AACCCCGAGCATTAGCGTCGCA-TTTTCAAAAACACCGCTAA
1 AGCCCCGAGCATTAGCG--GCACTTTTTAAAAACGCCACTAA
* *
44780505 AGCCCCGAGCATTAGCGGCACTTTCTTGAAATCGCCACTAA
1 AGCCCCGAGCATTAGCGGCACTTT-TTAAAAACGCCACTAA
44780546 AGCCCC
1 AGCCCC
44780552 AAAAGGTAAG
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.03
40 3 0.03
41 93 0.89
42 4 0.04
43 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.19
Consensus pattern (40 bp):
AGCCCCGAGCATTAGCGGCACTTTTTAAAAACGCCACTAA
Found at i:44780679 original size:39 final size:40
Alignment explanation
Indices: 44780594--44780680 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
44780584 TTTTTGCGGG
*
44780594 ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTAGAGGC
1 ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTACAGGC
*
44780634 ATTTTTT-GAAAAACGCCGCTAATGCTCAATTTTTACCA-GC
1 ATTTTTTCGAAAAACGCCGCGAATGCTC-ATTTTTA-CAGGC
44780674 ATTTTTT
1 ATTTTTT
44780681 GTCCAAGCGC
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 19 0.44
40 23 0.53
41 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (40 bp):
ATTTTTTCGAAAAACGCCGCGAATGCTCATTTTTACAGGC
Found at i:44783167 original size:25 final size:24
Alignment explanation
Indices: 44783121--44783168 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
44783111 AGTTGTAAAT
44783121 TAGAAAATATCTCTAGAAAATTTC
1 TAGAAAATATCTCTAGAAAATTTC
* * *
44783145 TAGAATAATCTCTTTAGAGAATTT
1 TAGAA-AATATCTCTAGAAAATTT
44783169 TCTCTCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (24 bp):
TAGAAAATATCTCTAGAAAATTTC
Found at i:44783437 original size:37 final size:35
Alignment explanation
Indices: 44783380--44783450 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
44783370 TCACATCAGT
*
44783380 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
44783416 ATTAAATTTAATATTAA-ACTATTAAAATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTA
44783451 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:44787608 original size:35 final size:33
Alignment explanation
Indices: 44787573--44787637 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
44787563 AACTTATACA
*
44787573 AAATT-TAAGTATTTTTTCGTTTTTCGAAATTTAC
1 AAATTCTAAATATTTTTT-GTTTTTC-AAATTTAC
*
44787607 AATTTCTAAATATTTTTTGTTTTTCAAATTT
1 AAATTCTAAATATTTTTTGTTTTTCAAATTT
44787638 TAAACATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 11 0.39
35 11 0.39
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (33 bp):
AAATTCTAAATATTTTTTGTTTTTCAAATTTAC
Found at i:44788047 original size:20 final size:19
Alignment explanation
Indices: 44788022--44788060 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
44788012 GTGTTAAAAC
*
44788022 ATATCACGCTTTATAAATAA
1 ATATCACGC-TAATAAATAA
*
44788042 ATATCATGCTAATAAATAA
1 ATATCACGCTAATAAATAA
44788061 TTTTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATCACGCTAATAAATAA
Found at i:44792276 original size:50 final size:50
Alignment explanation
Indices: 44792218--44792350 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 50
44792208 TATTAAGGTT
* *
44792218 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
* * * * *
44792268 ATGAGAGGTCCCCCGTAAGAACCAAGTCTGAGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCACGTAAG-ACCATGTCTGGGACATAGCATGGGCACCGAG
** * * *
44792319 ATGAGAACTCTCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
44792351 TATGACATTT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 28 0.42
51 39 0.58
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATAGCATGGGCACCGAG
Found at i:44792639 original size:20 final size:20
Alignment explanation
Indices: 44792614--44792662 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44792604 TGAGTTATCT
44792614 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
44792634 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
44792654 AAG-AAGCAA
1 AAGTAAGCAA
44792663 AGACAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:44800592 original size:15 final size:17
Alignment explanation
Indices: 44800563--44800599 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
44800553 TCTTCATTAA
*
44800563 GTTTTTATCTCAT-AAG
1 GTTTTTATCTAATAAAG
44800579 GTTTTT-TCTAATAAAG
1 GTTTTTATCTAATAAAG
44800595 GTTTT
1 GTTTT
44800600 AATGAGACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (17 bp):
GTTTTTATCTAATAAAG
Found at i:44807323 original size:14 final size:15
Alignment explanation
Indices: 44807301--44807338 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
44807291 AAAAAAAAAG
44807301 AGAGAAAGGAGAAGA
1 AGAGAAAGGAGAAGA
44807316 AGAG-AAGGAGAAGA
1 AGAGAAAGGAGAAGA
44807330 AGAAGAAAG
1 AG-AGAAAG
44807339 AAAGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 6 0.29
16 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (15 bp):
AGAGAAAGGAGAAGA
Found at i:44807343 original size:14 final size:15
Alignment explanation
Indices: 44807298--44807344 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
44807288 AGAAAAAAAA
44807298 AAGAGAGAAAGGAGAAG
1 AAGA-AGAAA-GAGAAG
*
44807315 AAG-AGAAGGAGAAG
1 AAGAAGAAAGAGAAG
44807329 AAGAAGAAAGA-AAG
1 AAGAAGAAAGAGAAG
44807343 AA
1 AA
44807345 AAAAGTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 14 0.52
15 10 0.37
17 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AAGAAGAAAGAGAAG
Found at i:44807344 original size:17 final size:17
Alignment explanation
Indices: 44807298--44807344 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
44807288 AGAAAAAAAA
* *
44807298 AAGAGAGAAAGGAGAAG
1 AAGAAAGAAAGAAGAAG
*
44807315 AAGAGAAG-GAGAAGAAG
1 AAGA-AAGAAAGAAGAAG
44807332 AAGAAAGAAAGAA
1 AAGAAAGAAAGAA
44807345 AAAAGTAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AAGAAAGAAAGAAGAAG
Found at i:44807531 original size:22 final size:20
Alignment explanation
Indices: 44807505--44807689 Score: 107
Period size: 22 Copynumber: 9.0 Consensus size: 20
44807495 TAGATTAGAA
*
44807505 TTTTGTATGAATATTTTAACTT
1 TTTTGTATGAATATTATAA--T
44807527 TTTTGTATGAATATTATAAT
1 TTTTGTATGAATATTATAAT
*
44807547 TTTT-TATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
* *
44807565 TGTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
*
44807585 TATTT-TAT-AATTAAATGTGT-AT
1 T-TTTGTATGAA-T--AT-TATAAT
* *
44807607 TTCTAGTTTTG-A-ATTAGTAATT
1 TT-TTG-TATGAATATTA-TAA-T
*
44807629 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
*
44807648 TTTTGTATGAATATTATATT
1 TTTTGTATGAATATTATAAT
*
44807668 CGTTTTGTATGAATATTGTAAT
1 --TTTTGTATGAATATTATAAT
44807690 ATTATAATTT
Statistics
Matches: 130, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
18 3 0.02
19 47 0.36
20 16 0.12
21 10 0.08
22 48 0.37
23 3 0.02
24 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTTGTATGAATATTATAAT
Found at i:44807549 original size:41 final size:38
Alignment explanation
Indices: 44807498--44807689 Score: 113
Period size: 41 Copynumber: 4.7 Consensus size: 38
44807488 TATAGTTTAG
* * *
44807498 ATTAGAATTTTGTATGAATATTTTAACTTTTTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAA---TGTTGTATGAAT
*
44807539 ATTATAATTTTTTATGAATATTGTAATGTTGTATGAAT
1 ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
* * * *
44807577 ATTGTAATTATTTTAT-AATTAAATGTGT-ATTTCTAGTTTTG-A-
1 ATTATAATT-TTGTATGAA-T--AT-TGTAATGT-T-G-TATGAAT
*
44807619 ATTAGTAATTTTTTGTATGAATATTGTAATTTTGTATGAAT
1 ATTA-TAA--TTTTGTATGAATATTGTAATGTTGTATGAAT
*
44807660 ATTATATTCGTTTTGTATGAATATTGTAAT
1 ATTATA---ATTTTGTATGAATATTGTAAT
44807690 ATTATAATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 36
0.72 0.07 0.21
Matches are distributed among these distances:
38 21 0.17
39 10 0.08
40 4 0.03
41 56 0.46
42 13 0.11
43 5 0.04
44 9 0.07
45 4 0.03
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.54
Consensus pattern (38 bp):
ATTATAATTTTGTATGAATATTGTAATGTTGTATGAAT
Found at i:44807554 original size:19 final size:19
Alignment explanation
Indices: 44807498--44807592 Score: 91
Period size: 19 Copynumber: 4.8 Consensus size: 19
44807488 TATAGTTTAG
* *
44807498 ATTAGAATTTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
44807517 ATTTTAACTTTTTTGTATGAAT
1 ATTATAA--TTTTT-TATGAAT
44807539 ATTATAATTTTTTATGAAT
1 ATTATAATTTTTTATGAAT
* * *
44807558 ATTGTAATGTTGTATGAAT
1 ATTATAATTTTTTATGAAT
*
44807577 ATTGTAATTATTTTAT
1 ATTATAATT-TTTTAT
44807593 AATTAAATGT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 36 0.57
20 10 0.16
21 4 0.06
22 13 0.21
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.55
Consensus pattern (19 bp):
ATTATAATTTTTTATGAAT
Found at i:44807653 original size:19 final size:19
Alignment explanation
Indices: 44807629--44807743 Score: 89
Period size: 19 Copynumber: 6.1 Consensus size: 19
44807619 ATTAGTAATT
44807629 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
44807648 TTTTGTATGAATATTATATTCG
1 TTTTGTATGAATATTGTA---A
44807670 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
* *
44807689 -TAT-TAT-AATTTTGTATGAA
1 TTTTGTATGAATATTG--T-AA
*
44807708 TATT-T-T-AATATTGTAA
1 TTTTGTATGAATATTGTAA
44807724 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
44807743 T
1 T
44807744 GTGGGGATAT
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
16 11 0.14
17 5 0.07
18 4 0.05
19 37 0.49
20 2 0.03
22 17 0.22
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:44807706 original size:27 final size:27
Alignment explanation
Indices: 44807670--44807743 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
44807660 ATTATATTCG
44807670 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATTATAA
* *
44807697 TTTTGTATGAATATTTTAATATTGTAA
1 TTTTGTATGAATATTGTAATATTATAA
44807724 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
44807744 GTGGGGATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (27 bp):
TTTTGTATGAATATTGTAATATTATAA
Found at i:44807865 original size:60 final size:60
Alignment explanation
Indices: 44807784--44807905 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
44807774 TGTATGAATA
* * * * * *
44807784 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTGGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
*
44807844 TTGTAATTA-TTTAAAATTTAATTTATTAGTAATTTAGGATTAAGCTATAAGTTGTTGTGT
1 TTGTAATTATTTTAAAA-TTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
44807904 TT
1 TT
44807906 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 6 0.11
60 48 0.89
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (60 bp):
TTGTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGCTATAAATTGTTGTGT
Found at i:44808061 original size:15 final size:16
Alignment explanation
Indices: 44808022--44808061 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
44808012 TAACTCATTT
44808022 AATTTTCATATAATGTA
1 AATTTT-ATATAATGTA
*
44808039 ACTTTTATATAAT-TA
1 AATTTTATATAATGTA
44808054 AATTTTAT
1 AATTTTAT
44808062 TTGATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 9 0.43
16 7 0.33
17 5 0.24
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (16 bp):
AATTTTATATAATGTA
Found at i:44809706 original size:6 final size:6
Alignment explanation
Indices: 44809687--44809720 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
44809677 GCATCATGCA
44809687 CCAGAG CCAG-G CCAGAG CCAGAG CCAGAG CCAGA
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGA
44809721 ACTACATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.32, C:0.35, G:0.32, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:44824258 original size:3 final size:3
Alignment explanation
Indices: 44824245--44824286 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
44824235 TGACACCTTG
44824245 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
44824287 AAGAGAACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44825381 original size:85 final size:85
Alignment explanation
Indices: 44825222--44825386 Score: 251
Period size: 85 Copynumber: 1.9 Consensus size: 85
44825212 ATTCAAATCC
* * * *
44825222 ATGCTGAAGAACTTTGCATGCCTTAAATACAAGGCTAATAAGACCCCAACAGCAAAAAGAGAAAG
1 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAA
*
44825287 ACGGTATCACAAAATTGGAT
66 ACGGCATCACAAAATTGGAT
44825307 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAGAGACCCCAACACCAAAAAG-GAAA
1 ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATA-AGACCCCAACACCAAAAAGAGAAA
* *
44825371 AATGGCATCACGAAAT
65 AACGGCATCACAAAAT
44825387 CAGCTATGGT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 54 0.75
86 18 0.25
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (85 bp):
ATGCTAAAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAA
ACGGCATCACAAAATTGGAT
Found at i:44832926 original size:20 final size:20
Alignment explanation
Indices: 44832901--44832938 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44832891 ATAATTATAT
*
44832901 TAATTATATATGTTAAATAA
1 TAATTATATATATTAAATAA
44832921 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
44832939 TACTAACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:44833080 original size:39 final size:39
Alignment explanation
Indices: 44833037--44833145 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
44833027 AAAAATTATA
*
44833037 TTTAATACAATAAAAAAATTATTATATTTA-TTTGTGTTT
1 TTTAATACAATAAAAAATTTATTATATTTATTTTG-GTTT
*
44833076 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATACAATAAAAAATTTATTATATTTATTTTGGTTT
* * *
44833115 TTTAATATAATAAAATATTTATCATATTTAT
1 TTTAATACAATAAAAAATTTATTATATTTAT
44833146 GGTAATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
39 60 0.94
40 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (39 bp):
TTTAATACAATAAAAAATTTATTATATTTATTTTGGTTT
Found at i:44833156 original size:40 final size:39
Alignment explanation
Indices: 44833037--44833164 Score: 114
Period size: 39 Copynumber: 3.3 Consensus size: 39
44833027 AAAAATTATA
* * * * * **
44833037 TTTAATACAATAAAAAAATTATTATATTTATTTGTGTTT
1 TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
* * * **
44833076 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
*
44833115 TTTAATATAATAAAATATTTATCATATTTATGGTAA-TTT
1 TTTAATATAATAAAACATTTATCATATTTAT-GTAAGTTT
44833154 TTTAAATATAA
1 TTT-AATATAA
44833165 ATACTTTATT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 69 0.90
40 8 0.10
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.52
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATCATATTTATGTAAGTTT
Found at i:44846793 original size:31 final size:31
Alignment explanation
Indices: 44846729--44846795 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
44846719 AACATCCCAA
* *
44846729 TGACTTAAATAGAAACTTTTGAATAGTTGAG
1 TGACTTAAATAGAAACTTTAGAATAATTGAG
* *
44846760 TGACTTAAAT-GAAAACTTTAGCATAATTTAG
1 TGACTTAAATAG-AAACTTTAGAATAATTGAG
44846791 TGACT
1 TGACT
44846796 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAGAAACTTTAGAATAATTGAG
Found at i:44848964 original size:20 final size:19
Alignment explanation
Indices: 44848937--44848974 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44848927 GCTCAATCTC
*
44848937 TTTTTTTTTTTTGTTTTAA
1 TTTTTTTTTATTGTTTTAA
44848956 TTTTGTTTTTATTGTTTTA
1 TTTT-TTTTTATTGTTTTA
44848975 TCCTTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTATTGTTTTAA
Found at i:44860593 original size:37 final size:37
Alignment explanation
Indices: 44860546--44860618 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
44860536 CATGATTTAA
*
44860546 ACTTACGTTCTTCTTTACGAGTACAATTTACTTTACT
1 ACTTACGTTCTTCTTTACGAGTACAATTTAATTTACT
* * * *
44860583 ACTTATGTTCTTCTTTATGTGTATAATTTAATTTAC
1 ACTTACGTTCTTCTTTACGAGTACAATTTAATTTAC
44860619 CACTACACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (37 bp):
ACTTACGTTCTTCTTTACGAGTACAATTTAATTTACT
Found at i:44863493 original size:14 final size:11
Alignment explanation
Indices: 44863457--44863489 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
44863447 CTCAACACCA
44863457 AAATTGAGAGG
1 AAATTGAGAGG
44863468 AAATTGAGAGG
1 AAATTGAGAGG
44863479 AAATTTGAGAG
1 AAA-TTGAGAG
44863490 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:44866189 original size:68 final size:68
Alignment explanation
Indices: 44866071--44866204 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
44866061 TATTGAAGTA
* * * ** ** * *
44866071 AATTAGTGCCAACACACATCATAACAGGTATTATATCAATGATTTTAACTCAGACAATTTTTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
44866136 AAT
66 AAT
*
44866139 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAATAATTTCTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
44866204 A
66 A
44866205 GAAAATAACC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (68 bp):
AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
AAT
Found at i:44866830 original size:22 final size:24
Alignment explanation
Indices: 44866773--44866839 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
44866763 ATGAATTATA
44866773 AAAAAATATATTTATATTAAAACGTT
1 AAAAAATATATTTATATT-AAAC-TT
** *
44866799 AAAAGTTATATTTATATT-GA-TT
1 AAAAAATATATTTATATTAAACTT
*
44866821 AAAAAATATATTGATATTA
1 AAAAAATATATTTATATTA
44866840 GCCGTTTAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 17 0.50
24 1 0.03
26 16 0.47
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (24 bp):
AAAAAATATATTTATATTAAACTT
Found at i:44874430 original size:27 final size:27
Alignment explanation
Indices: 44874388--44874454 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
44874378 CTTTTAGAGT
* *
44874388 CAGTAAACATGGGGTAGTCCGCCGA-GA
1 CAGTAAACACGAGGTAGTCCG-CGAGGA
* **
44874415 CAGTAAACACGAGGTAGTTCGTTAGGA
1 CAGTAAACACGAGGTAGTCCGCGAGGA
44874442 CAGTAAACACGAG
1 CAGTAAACACGAG
44874455 AGAGTCCACC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.16
Consensus pattern (27 bp):
CAGTAAACACGAGGTAGTCCGCGAGGA
Found at i:44878103 original size:9 final size:10
Alignment explanation
Indices: 44878088--44878129 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 10
44878078 TTAGTCATTT
44878088 AATTTTAAAA
1 AATTTTAAAA
44878098 AATTTATAAAA
1 AATTT-TAAAA
44878109 TAATTATTAAAA
1 -AATT-TTAAAA
44878121 AA-TTTAAAA
1 AATTTTAAAA
44878130 TTTTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.21
10 6 0.21
11 7 0.24
12 9 0.31
13 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:44881290 original size:13 final size:13
Alignment explanation
Indices: 44881272--44881301 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44881262 AGCCCAAACT
44881272 CAATTACCCAACC
1 CAATTACCCAACC
44881285 CAATTACCCAACC
1 CAATTACCCAACC
44881298 CAAT
1 CAAT
44881302 AAAACTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:44881455 original size:9 final size:9
Alignment explanation
Indices: 44881443--44881501 Score: 73
Period size: 9 Copynumber: 6.4 Consensus size: 9
44881433 AATAAAAAAA
44881443 AATTCGGGT
1 AATTCGGGT
44881452 AATTCGGGT
1 AATTCGGGT
* **
44881461 ATTTTTTGGT
1 A-ATTCGGGT
*
44881471 AATTCGGTT
1 AATTCGGGT
44881480 AATTCGGGT
1 AATTCGGGT
44881489 AATTCGGGT
1 AATTCGGGT
44881498 AATT
1 AATT
44881502 GTTAACCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
9 35 0.85
10 6 0.15
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.42
Consensus pattern (9 bp):
AATTCGGGT
Found at i:44881673 original size:12 final size:12
Alignment explanation
Indices: 44881656--44881680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44881646 AGTAATTTCA
44881656 GGTCGGTTAACC
1 GGTCGGTTAACC
44881668 GGTCGGTTAACC
1 GGTCGGTTAACC
44881680 G
1 G
44881681 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:44882781 original size:14 final size:15
Alignment explanation
Indices: 44882761--44882801 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
44882751 TTTGATTGCC
44882761 AGTAAAATATTTTC-
1 AGTAAAATATTTTCT
* *
44882775 CGTAAAATAATTTCT
1 AGTAAAATATTTTCT
44882790 AG-AAAATATTTT
1 AGTAAAATATTTT
44882802 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 21 0.95
15 1 0.05
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
AGTAAAATATTTTCT
Found at i:44882814 original size:34 final size:35
Alignment explanation
Indices: 44882770--44882836 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44882760 CAGTAAAATA
44882770 TTTTCCGTAAAATAATTT-CTAGAAAATATTTTAC
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
* *
44882804 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTAGAAAATATTTT
44882837 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:44883363 original size:13 final size:13
Alignment explanation
Indices: 44883345--44883375 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
44883335 ATTCTTTCTC
44883345 TATTTATGAAGTT
1 TATTTATGAAGTT
44883358 TATTTATGAAGTT
1 TATTTATGAAGTT
44883371 TATTT
1 TATTT
44883376 GTACAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
TATTTATGAAGTT
Found at i:44895546 original size:52 final size:52
Alignment explanation
Indices: 44895489--44895836 Score: 452
Period size: 52 Copynumber: 6.9 Consensus size: 52
44895479 ATCAAGTGAC
* *
44895489 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
44895541 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
44895593 AAAGTGATAAGTAATAG-TTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTT-GGCTACACTTATCTGATCAAGTGACAAGTGG
* *
44895639 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
44895691 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
44895737 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
44895789 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAA
44895837 AGTGATAAGT
Statistics
Matches: 262, Mismatches: 20, Indels: 28
0.85 0.06 0.09
Matches are distributed among these distances:
46 82 0.31
47 3 0.01
51 2 0.01
52 175 0.67
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTTGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:44895714 original size:150 final size:144
Alignment explanation
Indices: 44895442--44895836 Score: 637
Period size: 150 Copynumber: 2.7 Consensus size: 144
44895432 GGTCATATGT
44895442 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
44895507 TTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTT
66 TTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTT
44895572 ATCTGATCAAGTGA
131 ATCTGATCAAGTGA
*
44895586 CAAGTGGAAAGTGATAAGTAATAGTTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 C------AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
44895651 GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCT
60 GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCT
44895716 ATACTTATCTGATCAAGTGA
125 ATACTTATCTGATCAAGTGA
* *
44895736 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
1 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
* *
44895801 GATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
60 GGTAGCTTTAGCTACACTTATCTGATCAAGTGACAA
44895837 AGTGATAAGT
Statistics
Matches: 233, Mismatches: 6, Indels: 18
0.91 0.02 0.07
Matches are distributed among these distances:
144 44 0.19
150 189 0.81
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (144 bp):
CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
TTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTT
ATCTGATCAAGTGA
Found at i:44895847 original size:98 final size:98
Alignment explanation
Indices: 44895442--44895847 Score: 547
Period size: 98 Copynumber: 4.1 Consensus size: 98
44895432 GGTCATATGT
* *
44895442 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
**
44895501 GGTAGCTTTAGCTACACTTATCTGATCAAGTGA
66 AATAGCTTTAGCTACACTTATCTGATCAAGTGA
* *
44895534 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTG
1 C------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
* *
44895599 ATAAGTAATAG-TTTCGGCTATACTTATCTGATCAAGTGA
60 ATAAGTAATAGCTTT-AGCTACACTTATCTGATCAAGTGA
* **
44895638 CAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
** *
44895703 AATAGCTTCGGCTATACTTATCTGATCAAGTGA
66 AATAGCTTTAGCTACACTTATCTGATCAAGTGA
*
44895736 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGT
1 CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
* *
44895801 GATAGCTTTAGCTACACTTATCTGATCAAGAGA
66 AATAGCTTTAGCTACACTTATCTGATCAAGTGA
44895834 CAAAGTGATAAGTG
1 CAAAGTGATAAGTG
44895848 GCTACACTTA
Statistics
Matches: 281, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
92 1 0.00
98 237 0.84
99 2 0.01
103 3 0.01
104 38 0.14
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
CAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
AATAGCTTTAGCTACACTTATCTGATCAAGTGA
Found at i:44895855 original size:37 final size:37
Alignment explanation
Indices: 44895811--44896030 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
44895801 GATAGCTTTA
*
44895811 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
44895848 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
44895885 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
44895922 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
44895959 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
44895996 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
44896031 ATCATACGTA
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 161 0.91
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:44895884 original size:150 final size:139
Alignment explanation
Indices: 44895442--44895884 Score: 394
Period size: 150 Copynumber: 3.0 Consensus size: 139
44895432 GGTCATATGT
44895442 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
* *
44895507 TTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGC-TATACT
66 TTTAGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAG---T-GCTAC-ACTTAT-C-
* * *
44895571 TATCTG-ATCAAGTGACAAGTG
118 TATCAGAAACAAGTGATAAGTG
* *
44895592 GAAAGTGATAAGTAATAGTTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
1 CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
* * * * *
44895657 TTTAGCTACACTTATCTGATCAAGTGAC-AAGTGGA-AAGTGATA-AGTAATAGCT-TCGGCTAT
66 TTTAGCTACACTTATCTGATCAAGTGACAAAGT-GATAAGTGCTACACT--TATCTATCAG--AA
**
44895718 ACTTATCTGATCAAGTG
126 AC--AAGTGAT-AAGTG
* *
44895735 ACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAG
1 -CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAG
* *
44895800 TGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATC
59 TGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGT-GCTACACTTATCT-ATC
44895865 AAGAAACAAAGTGATAAGTG
122 -AGAAAC-AAGTGATAAGTG
44895885 GCTACACTTA
Statistics
Matches: 242, Mismatches: 27, Indels: 48
0.76 0.09 0.15
Matches are distributed among these distances:
137 3 0.01
138 1 0.00
139 3 0.01
140 4 0.02
142 4 0.02
143 12 0.05
144 45 0.19
150 142 0.59
151 17 0.07
152 6 0.02
153 4 0.02
154 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (139 bp):
CAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC
TTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGCTACACTTATCTATCAGAAACAAG
TGATAAGTG
Found at i:44899732 original size:22 final size:21
Alignment explanation
Indices: 44899706--44899749 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44899696 ACAAAAGAAA
44899706 ATGTTT-TACAAACAAGACAAAG
1 ATGTTTCT-CAAACAAGA-AAAG
*
44899728 ATGTTTCTGAAACAAGAAAAG
1 ATGTTTCTCAAACAAGAAAAG
44899749 A
1 A
44899750 CATTTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 14 0.70
23 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.16, T:0.23
Consensus pattern (21 bp):
ATGTTTCTCAAACAAGAAAAG
Found at i:44901369 original size:29 final size:29
Alignment explanation
Indices: 44901303--44901369 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
44901293 AAGTTTGATG
*
44901303 TGTATAATTACATTAAATTAAAATTTATA
1 TGTATAATTACATTAAATTAAAAATTATA
* * *
44901332 TATACAATTATATACTAAA-TAAAAATTA-A
1 TGTATAATTACAT--TAAATTAAAAATTATA
44901361 TGTATAATT
1 TGTATAATT
44901370 TTAAGATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
29 18 0.60
30 8 0.27
31 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (29 bp):
TGTATAATTACATTAAATTAAAAATTATA
Found at i:44909595 original size:26 final size:26
Alignment explanation
Indices: 44909526--44909595 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
44909516 AGAACTTGAA
*
44909526 AATATATAAAATT-TATTATAAAATG
1 AATATATAAAATTAAATTATAAAATG
44909551 ACATA-A-AAAATATAAATTATTAAAA-G
1 A-ATATATAAAAT-TAAATTA-TAAAATG
*
44909577 AATATATAAAATTACATTA
1 AATATATAAAATTAAATTA
44909596 AGGCTTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
24 5 0.14
25 6 0.16
26 16 0.43
27 10 0.27
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (26 bp):
AATATATAAAATTAAATTATAAAATG
Found at i:44909659 original size:11 final size:11
Alignment explanation
Indices: 44909643--44909680 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
44909633 ATATTTCTTG
44909643 AATTTTAACAA
1 AATTTTAACAA
44909654 AATTTTCAAC-A
1 AATTTT-AACAA
44909665 AATTTTAACAA
1 AATTTTAACAA
44909676 AATTT
1 AATTT
44909681 CTCTCGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTTAACAA
Found at i:44909690 original size:22 final size:22
Alignment explanation
Indices: 44909635--44909692 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
44909625 TCAAATCAAT
44909635 ATTTCT-T-GAATTTTAACAAA
1 ATTTCTCTCGAATTTTAACAAA
* *
44909655 ATTT-TCAACAAATTTTAACAAA
1 ATTTCTC-TCGAATTTTAACAAA
44909677 ATTTCTCTCGAATTTT
1 ATTTCTCTCGAATTTT
44909693 TTGAATCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.03
20 4 0.13
22 23 0.77
23 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTTCTCTCGAATTTTAACAAA
Found at i:44914857 original size:3 final size:3
Alignment explanation
Indices: 44914849--44914931 Score: 61
Period size: 3 Copynumber: 28.7 Consensus size: 3
44914839 AAACTATCGT
*
44914849 ATA ATA AT- ATG ATAA ATA A-A ATA AT- ATA ATA ATA ATA GA-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* * *
44914892 ATA AGA ATA ATA ATA ATGA ATG ATA AT- ATA TTA A-A ATA AT
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT
44914932 GAAGAAAATA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
2 11 0.17
3 47 0.73
4 6 0.09
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44914874 original size:20 final size:21
Alignment explanation
Indices: 44914849--44914906 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
44914839 AAACTATCGT
*
44914849 ATAATAAT-ATGATAAATA-AA
1 ATAATAATAATAAT-AATAGAA
44914869 ATAAT-ATAATAATAATAGAA
1 ATAATAATAATAATAATAGAA
*
44914889 ATAATAAGAATAATAATA
1 ATAATAATAATAATAATA
44914907 ATGAATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 6 0.18
20 16 0.48
21 11 0.33
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAATAATAATAATAATAGAA
Found at i:44916014 original size:20 final size:20
Alignment explanation
Indices: 44915986--44916028 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
44915976 GCTGAAAATG
*
44915986 GGTTGGGGTGTTTTGGGC-TA
1 GGTTGGGGT-ATTTGGGCTTA
*
44916006 GGTTTGGGTATTTGGGCTTA
1 GGTTGGGGTATTTGGGCTTA
44916026 GGT
1 GGT
44916029 AGGTTATTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.07, C:0.05, G:0.47, T:0.42
Consensus pattern (20 bp):
GGTTGGGGTATTTGGGCTTA
Found at i:44916416 original size:44 final size:41
Alignment explanation
Indices: 44916319--44916560 Score: 214
Period size: 44 Copynumber: 5.7 Consensus size: 41
44916309 ATGATTTATG
* * * **
44916319 TCTGCTCCACTGCAAGTTTAGGGAGATAAGACTGGATGCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
* *
44916360 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGTTTTAA
* * **
44916404 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGG-TT-TT-AA
* * * * ***
44916448 TGTGTTCCACTACAACTTCAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
* *
44916489 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--C-TGGTTTTAA
*
44916533 TCCGCTCCACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
44916561 GGATTGGCTT
Statistics
Matches: 157, Mismatches: 35, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
41 56 0.36
42 3 0.02
43 4 0.03
44 94 0.60
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTTTTAA
Found at i:44916518 original size:129 final size:129
Alignment explanation
Indices: 44916324--44916574 Score: 439
Period size: 129 Copynumber: 1.9 Consensus size: 129
44916314 TTATGTCTGC
* * *
44916324 TCCACTGCAAGTTTAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
* *
44916389 GATCTATGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
66 GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
*
44916453 TCCACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
*
44916518 GATCCGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTC
66 GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTC
44916575 AATCTGTTTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 115 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (129 bp):
TCCACTACAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAA
GATCCATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTGTGTGT
Found at i:44916589 original size:44 final size:43
Alignment explanation
Indices: 44916319--44916591 Score: 175
Period size: 44 Copynumber: 6.3 Consensus size: 43
44916309 ATGATTTATG
* * * * * *
44916319 TCTGCTCCACTGCAAGTTTAGGGAGATAAGACTGG--ATGCAA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
* * *
44916360 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTT-TT-AA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGA--T-TGGTTCTTCAA
* * **
44916404 TCTGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCTG
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAA
* * * * * *
44916448 TGTGTTCCACTACAACTTCAGGGAGATAAGACTGG--ATGCGA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
* * *
44916489 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCGTGGTT-TT-AA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGAT---TGGTTCTTCAA
* * *
44916533 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTGGCTTCTTCAA
1 TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAA
**
44916577 TCTGTTTAACTGCAA
1 TCTGTTCCACTGCAA
44916592 TGTCGAGAAA
Statistics
Matches: 180, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
41 61 0.34
42 5 0.03
43 4 0.02
44 108 0.60
45 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (43 bp):
TCTGTTCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAA
Found at i:44916712 original size:100 final size:99
Alignment explanation
Indices: 44916571--44917886 Score: 1651
Period size: 100 Copynumber: 13.1 Consensus size: 99
44916561 GGATTGGCTT
* * * ** ** **
44916571 CTTCAATCTGTTTAACTGCAATGTCGAGAAAGTAAGATTCACCGTCATAGCTTCAATCTGTTCTG
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
44916636 CTGCACTGCCTGGGGAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * * *
44916671 CTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGTTTCACCGTCGTAGCTTCAATCTATTTCG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* * * *
44916736 CTGCATCGCCTAGAAAGTAAGATTCGCCATTGTGG
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * * * * **
44916771 CTTCAATCTTTTAAATTGTAACGTCGGGGAAGTGAGATACGCCGTCGTAGCTTCAATTTGTTCTG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
* *
44916836 CTACATCGCCTGGGAAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * **
44916871 CTTCAATCTTTTAAATTGTAATGTCGAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCTG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
** * * *
44916936 CTGCACTACCTGGGGAGTAAGATTTGCCGTTGTAG
65 CTGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
* * * * **
44916971 CTTCAATCTTTTTAATTGTAATGTCGGGGAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTCTG
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
*
44917036 CTGCACCGCCTGGGAAAGTAAGATTCACCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * * * * *
44917072 CTTCAATCTTTTGAATTACAATGTCGGGGAAGTGAGATTCGCCATCGTAGCTTCAATCTGTTCCG
1 CTTCAATCTTTT-AATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCA
44917137 CTGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * *
44917173 CCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACTGTTGTAGCTTCAATTTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
44917238 TGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
66 TGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * * *
44917273 CTTCAATCTTTTAATTGCAATGTCGAGGAAGCGAGATTCGCCATTGTAGCTTTAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
* *
44917338 TGCACCGCCTGGGAAAGTAAGATCCGCCGTTATGG
66 TGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* **
44917373 CTTCAATCTTTTAATTGCAATGTCGGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
* * **
44917438 TGTACCGCCTGGAAAAGTAAGATTCATCGTTGTGG
66 TGCACCGCCTGG-GAAGTAAGATTCGCCGTTGTGG
* * * *
44917473 CTTCAATATTTTAATTGCAATGTCGAGGAAGCGAGATTCATCGTTGTAGCTTCAATTTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
** * *
44917538 TGCACCGCCTAGAAAAGTAAGATCCGCTGTTGTGG
66 TGCACCGCCT-GGGAAGTAAGATTCGCCGTTGTGG
* * * *
44917573 CTTCAATATTTTAATTGCAATGTTGAGGAAGCGAGATTCACCGTTGTAGCTTTAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
* *
44917638 TGCACCGCCTGGGAAAGTAAGATCCGCCGTTATGG
66 TGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
* * *
44917673 CTTCAATCTTTTAATTGCAATATCGGGGAAGCGAGATTCATCATTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
*
44917738 TGCACCGCCTAGGAAAGTAAGATTCGCCGTTGTGG
66 TGCACCGCCT-GGGAAGTAAGATTCGCCGTTGTGG
* * *
44917773 CCTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
44917838 TGCACCGCCTGGGAAAGTAAGATTCGCCGTTGTGG
66 TGCACCGCCTGGG-AAGTAAGATTCGCCGTTGTGG
*
44917873 CTTCAATATTTTAA
1 CTTCAATCTTTTAA
44917887 ATTACAAACT
Statistics
Matches: 1075, Mismatches: 132, Indels: 18
0.88 0.11 0.01
Matches are distributed among these distances:
99 6 0.01
100 947 0.88
101 122 0.11
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCGAGATTCACCGTTGTAGCTTCAATCTGTTCCAC
TGCACCGCCTGGGAAGTAAGATTCGCCGTTGTGG
Found at i:44922747 original size:25 final size:27
Alignment explanation
Indices: 44922691--44922785 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 27
44922681 TATCTAAAAA
* * *
44922691 ATATATATAAAAAAATATACATGTGAG
1 ATATATATAAAAAAAGATAAATATGAG
*
44922718 TTATATA-AAAAAAAGATAAATAT-AG
1 ATATATATAAAAAAAGATAAATATGAG
*
44922743 ATATAGATATAAAAGAAACCGTATAAATAT-AT
1 ATAT--ATATAAAA-AAA--G-ATAAATATGAG
44922775 ATATATATAAA
1 ATATATATAAA
44922786 TATATATACA
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
25 5 0.09
26 13 0.24
27 9 0.16
28 4 0.07
29 3 0.05
30 7 0.13
31 1 0.02
32 13 0.24
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.29
Consensus pattern (27 bp):
ATATATATAAAAAAAGATAAATATGAG
Found at i:44922785 original size:16 final size:16
Alignment explanation
Indices: 44922764--44922799 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44922754 AAAGAAACCG
*
44922764 TATAAATATATATATA
1 TATAAATATATATACA
44922780 TATAAATATATATACA
1 TATAAATATATATACA
44922796 TATA
1 TATA
44922800 TTCGTGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAATATATATACA
Found at i:44922931 original size:3 final size:3
Alignment explanation
Indices: 44922923--44923002 Score: 55
Period size: 3 Copynumber: 27.7 Consensus size: 3
44922913 AAACTATCGT
*
44922923 ATA ATA AT- ATG ATAA ATA A-A ATA AT- ATA ATA ATA GA-A ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * *
44922966 AGA ATA ATA ATA ATGA ATG ATA AT- ATA TTA A-A ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT
44923003 GAAGAAAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
2 11 0.18
3 44 0.72
4 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:44922947 original size:17 final size:17
Alignment explanation
Indices: 44922925--44922965 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
44922915 ACTATCGTAT
*
44922925 AATAATATGATAAATA-A
1 AATAATATAAT-AATAGA
44922942 AATAATATAATAATAGA
1 AATAATATAATAATAGA
44922959 AATAATA
1 AATAATA
44922966 AGAATAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAATATAATAATAGA
Found at i:44924207 original size:205 final size:204
Alignment explanation
Indices: 44923855--44924263 Score: 764
Period size: 205 Copynumber: 2.0 Consensus size: 204
44923845 CCCCTTACAA
44923855 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
1 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
44923920 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
66 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
*
44923985 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGTGGCGCACCTAGGGTTAAGGTTACTGATTTTTTT
131 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTG-TTTTTTT
*
44924050 GTTGAAAATG
195 GCTGAAAATG
44924060 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
1 TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
* *
44924125 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAGAGACGTGACGTGCGGCGGCCGGCAGAGCAA
66 GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
*
44924190 CGGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
131 CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
44924255 CTGAAAATG
196 CTGAAAATG
44924264 GGTTGGGTGT
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
204 16 0.08
205 183 0.92
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.32
Consensus pattern (204 bp):
TTTGTTTTGAATGGCCTTTTATAGCCATTTTTACAATGTTTTTATATTATTTCTTGTCCTTTCTT
GCAGGCCACTTGAAGGCGGTGGAGTAGGTGGGCAAAGACGTGACGTGCGGCGGCCAGCAGAGCAA
CAGTGGCAGGGCAAGTGGGCGACCCTAGGTGCGGCGCACCTAGGGTTAAGGTTACTGTTTTTTTG
CTGAAAATG
Found at i:44928440 original size:19 final size:17
Alignment explanation
Indices: 44928407--44928439 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44928397 ATATATTTTA
44928407 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
44928424 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
44928440 TATATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:44934515 original size:31 final size:32
Alignment explanation
Indices: 44934477--44934590 Score: 98
Period size: 31 Copynumber: 3.7 Consensus size: 32
44934467 GGTCCATTTT
44934477 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* *
44934508 TATTTTAAAAATATTT-TAAAATTTAAAAAA-
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
** * *
44934538 T-TTAAAAAAAGTATTTTAAAATTTAAAAAAA-
1 TATTTTAAAAA-TATTTAAAAAATTAAAAAAAG
*
44934569 -A-TTTAAAAAGTATGTAAAAAAT
1 TATTTTAAAAA-TATTTAAAAAAT
44934591 ATTTTAAAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.10
30 22 0.33
31 35 0.52
32 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:44934558 original size:12 final size:11
Alignment explanation
Indices: 44934477--44934599 Score: 63
Period size: 11 Copynumber: 11.9 Consensus size: 11
44934467 GGTCCATTTT
44934477 TATTTT-AAAA
1 TATTTTAAAAA
44934487 -ATTTTAAAAA
1 TATTTTAAAAA
**
44934497 -ATTAAAAAAA
1 TATTTTAAAAA
44934507 GTATTTTAAAAA
1 -TATTTTAAAAA
44934519 TATTTT--AAA
1 TATTTTAAAAA
44934528 -A-TTTAAAAA
1 TATTTTAAAAA
*
44934537 -ATTTAAAAAAA
1 TATTT-TAAAAA
44934548 GTATTTT--AAA
1 -TATTTTAAAAA
44934558 -A-TTTAAAAA
1 TATTTTAAAAA
* *
44934567 AAATTTAAAAA
1 TATTTTAAAAA
* *
44934578 GTATGTAAAAAA
1 -TATTTTAAAAA
44934590 TATTTTAAAA
1 TATTTTAAAA
44934600 TTAAAAAAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 27
0.69 0.10 0.21
Matches are distributed among these distances:
7 6 0.07
8 2 0.02
9 15 0.17
10 18 0.21
11 27 0.31
12 15 0.17
13 4 0.05
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:44934577 original size:9 final size:9
Alignment explanation
Indices: 44934480--44934546 Score: 55
Period size: 9 Copynumber: 7.0 Consensus size: 9
44934470 CCATTTTTAT
*
44934480 TTTAAAAAT
1 TTTAAAAAA
44934489 TTTAAAAAA
1 TTTAAAAAA
*
44934498 TTAAAAAAAGTA
1 TT-TAAAAA--A
44934510 TTTTAAAAATA
1 -TTTAAAAA-A
*
44934521 TTT-TAAAA
1 TTTAAAAAA
44934529 TTTAAAAAA
1 TTTAAAAAA
44934538 TTTAAAAAA
1 TTTAAAAAA
44934547 AGTATTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 4 0.08
9 26 0.54
10 8 0.17
11 2 0.04
12 6 0.12
13 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:44934600 original size:41 final size:40
Alignment explanation
Indices: 44934483--44934610 Score: 145
Period size: 41 Copynumber: 3.2 Consensus size: 40
44934473 TTTTTATTTT
* * *
44934483 AAAAATTTTAAAAAAT-TAAAAAAAGTATTTTAAAAATATT
1 AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAATTA-A
** *
44934523 TTAAAATTTAAAAAATTTAAAAAAAGTATTTTAAAATTTAA
1 AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAA-TTAA
44934564 AAAAAATTTAAAAAGTATGT-AAAAAA-TATTTTAAAATTAA
1 AAAAAATTTAAAAA--ATGTAAAAAAAGTATTTTAAAATTAA
44934604 AAAAAAT
1 AAAAAAT
44934611 AAATATATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
40 24 0.32
41 41 0.54
42 8 0.11
43 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAAATTTAAAAAATGTAAAAAAAGTATTTTAAAATTAA
Found at i:44935903 original size:38 final size:37
Alignment explanation
Indices: 44935850--44935948 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 37
44935840 CATTTAATTA
*
44935850 ATTTTTAAAATTTAAAAAAATTAA-AAACTATAAAAACT
1 ATTTTTAAAAATTAAAAAAATTAATAAACTAT-AAAA-T
* *
44935888 ATTTTTAAAAATT--AAAAATTATATTAATTATAAAAT
1 ATTTTTAAAAATTAAAAAAATTA-ATAAACTATAAAAT
*
44935924 ATTTTTAAAAATAAAAAAAATTAAT
1 ATTTTTAAAAATTAAAAAAATTAAT
44935949 TAAATGTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
36 21 0.40
37 7 0.13
38 25 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (37 bp):
ATTTTTAAAAATTAAAAAAATTAATAAACTATAAAAT
Found at i:44935937 original size:17 final size:17
Alignment explanation
Indices: 44935882--44935939 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
44935872 AAAAACTATA
44935882 AAAACTATTTTTAAAAATT
1 AAAA-TATTTTTAAAAA-T
**
44935901 AAAA-ATTATATTAATTAT
1 AAAATATT-T-TTAAAAAT
44935919 AAAATATTTTTAAAAAT
1 AAAATATTTTTAAAAAT
44935936 AAAA
1 AAAA
44935940 AAAATTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 13 0.41
18 7 0.22
19 12 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATATTTTTAAAAAT
Found at i:44936686 original size:7 final size:7
Alignment explanation
Indices: 44936674--44936704 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
44936664 CAATCATTCA
44936674 CACCATC
1 CACCATC
44936681 CACCATC
1 CACCATC
44936688 CACCATC
1 CACCATC
*
44936695 CACAATC
1 CACCATC
44936702 CAC
1 CAC
44936705 AATTATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.32, C:0.55, G:0.00, T:0.13
Consensus pattern (7 bp):
CACCATC
Found at i:44938023 original size:17 final size:17
Alignment explanation
Indices: 44938001--44938034 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44937991 GAGTTTCATT
44938001 CCCCCAACCACCCCCCA
1 CCCCCAACCACCCCCCA
* *
44938018 CCCCCACCCCCCCCCCA
1 CCCCCAACCACCCCCCA
44938035 AAAAAAGCTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.82, G:0.00, T:0.00
Consensus pattern (17 bp):
CCCCCAACCACCCCCCA
Found at i:44938783 original size:21 final size:19
Alignment explanation
Indices: 44938759--44938797 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
44938749 GCGACGAAGA
44938759 ATATTTATAGAAAAAAAAAGC
1 ATATTTA-A-AAAAAAAAAGC
44938780 ATATTTAAAAAAAAAAAG
1 ATATTTAAAAAAAAAAAG
44938798 TTGTGATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 1 0.06
21 7 0.39
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (19 bp):
ATATTTAAAAAAAAAAAGC
Found at i:44942236 original size:22 final size:22
Alignment explanation
Indices: 44942211--44942252 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
44942201 ACTTACGCTT
*
44942211 TAAATAAAATTTTAA-AAAATTA
1 TAAA-AAAATATTAATAAAATTA
44942233 TAAAAAAATATTAATAAAAT
1 TAAAAAAATATTAATAAAAT
44942253 ATTACGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAAATATTAATAAAATTA
Found at i:44942396 original size:30 final size:30
Alignment explanation
Indices: 44942360--44942418 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44942350 CCATAATATT
* *
44942360 ATATTATTTTGTTTAATTTATTTGGTTAAG
1 ATATTATCTTGTTTAATTCATTTGGTTAAG
*
44942390 ATATTATCTTGTTTAATTCATTTGTTTAA
1 ATATTATCTTGTTTAATTCATTTGGTTAA
44942419 AATGTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.59
Consensus pattern (30 bp):
ATATTATCTTGTTTAATTCATTTGGTTAAG
Found at i:44946901 original size:42 final size:42
Alignment explanation
Indices: 44946862--44946966 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 42
44946852 CTGAAGAGTC
44946862 AGAGAAACCTG-GTTATAGCACAAAACCACAGCCAGAAGAGGA
1 AGAGAAACCTGAG-TATAGCACAAAACCACAGCCAGAAGAGGA
* * * *
44946904 AGGGAAGCCTGAGTATGGCACTAAACCACAGCCAGAAGAGGA
1 AGAGAAACCTGAGTATAGCACAAAACCACAGCCAGAAGAGGA
* *
44946946 AGA-AAAGCCTGATTATGGCAC
1 AGAGAAA-CCTGAGTATAGCAC
44946967 CAAGCAAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.94
43 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (42 bp):
AGAGAAACCTGAGTATAGCACAAAACCACAGCCAGAAGAGGA
Found at i:44947040 original size:165 final size:165
Alignment explanation
Indices: 44946766--44947107 Score: 639
Period size: 165 Copynumber: 2.1 Consensus size: 165
44946756 TCAACCAACA
44946766 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
1 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
* *
44946831 AAGACAAGGAGAAGGCCATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACCACAGCCA
66 AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
44946896 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
131 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
44946931 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
1 ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
* *
44946996 AAGACAAGGAGAAGGCAATGCCTGAGGAGTCAGAGAAGCCTGGTTATAGCACAAAACAACAGCCA
66 AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
*
44947061 GAAGAGGAAGGGAAGCCTGAGTATGGTACTAAACC
131 GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
44947096 ACAGCCAGAAGA
1 ACAGCCAGAAGA
44947108 CAAGGAAAAG
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
165 172 1.00
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.13
Consensus pattern (165 bp):
ACAGCCAGAAGAGGAAGAAAAGCCTGATTATGGCACCAAGCAAAATTTCTATAAACCAGAGCTAG
AAGACAAGGAGAAGGCAATGCCTGAAGAGTCAGAGAAACCTGGTTATAGCACAAAACAACAGCCA
GAAGAGGAAGGGAAGCCTGAGTATGGCACTAAACC
Found at i:44948702 original size:34 final size:34
Alignment explanation
Indices: 44948664--44948731 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
44948654 ACTACGGAAG
44948664 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
1 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
44948698 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
1 GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
44948732 ACCAAATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.26
Consensus pattern (34 bp):
GGTTTGCAGGGTTAAGGGTATATTAAAAAGAAAA
Found at i:44957379 original size:25 final size:25
Alignment explanation
Indices: 44957333--44957399 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
44957323 GGTTACCTGG
* *
44957333 AAAGCCTTTGTGG-CATATTATCTAT
1 AAAGCCTTTGTGGTGA-ACTATCTAT
*
44957358 AAAGCCTTTGTGGTGAACTATCTGT
1 AAAGCCTTTGTGGTGAACTATCTAT
* *
44957383 AAAACCCTTGTGGTGAA
1 AAAGCCTTTGTGGTGAA
44957400 TTCTCTGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (25 bp):
AAAGCCTTTGTGGTGAACTATCTAT
Found at i:44960462 original size:38 final size:37
Alignment explanation
Indices: 44960390--44960465 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 37
44960380 ATGCCAAAAG
*
44960390 CATATATTTATACTTATCAACCACATGTACCGAATGCA
1 CATATATATATACTTATCAACCACATGTA-CGAATGCA
44960428 CATATATATATACTTAT-AATCCACACATGT-CGAATGCA
1 CATATATATATACTTATCAA--C-CACATGTACGAATGCA
44960466 TACACATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
37 2 0.06
38 24 0.71
39 1 0.03
40 7 0.21
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (37 bp):
CATATATATATACTTATCAACCACATGTACGAATGCA
Found at i:44960710 original size:41 final size:41
Alignment explanation
Indices: 44960653--44960792 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 41
44960643 GATTCATCGG
44960653 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
1 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
*
44960694 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTTC
1 CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
* *
44960735 CACTTAGCCTGCTAGGCTT-TAAGCCTGAATTGA-TTCACTGT
1 CACTTAGCCTGCTAGGCTTCT-AGCCTG-ATTCAGTTCACTGC
*
44960776 CAATATA-CCTGCTAGGC
1 CACT-TAGCCTGCTAGGC
44960793 GCTGAGCCTG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
40 1 0.01
41 84 0.92
42 6 0.07
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTCTAGCCTGATTCAGTTCACTGC
Found at i:44968708 original size:41 final size:41
Alignment explanation
Indices: 44968587--44968727 Score: 155
Period size: 41 Copynumber: 3.5 Consensus size: 41
44968577 CAGATTCATC
* * *
44968587 GGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCAAATCACC
1 GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT-AATTCACT
*
44968628 GGCACTTAGCCTGCTAGGCTTCT-AGCCT-AATTCAGTTCACT
1 GGCACTTAGCCTGCTAGGCTT-TAAGCCTGAATT-AATTCACT
* * *
44968669 GCCACTTAGCTTGCTAGGCTTTAAGCCTGAATTGATTCACT
1 GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATTAATTCACT
*
44968710 GGCAATTA-CCTGCTAGGC
1 GGCACTTAGCCTGCTAGGC
44968728 GCTGAGCCTG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 10 0.12
41 71 0.84
42 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
GGCACTTAGCCTGCTAGGCTTTAAGCCTGAATTAATTCACT
Found at i:44981966 original size:1 final size:1
Alignment explanation
Indices: 44981960--44982026 Score: 53
Period size: 1 Copynumber: 67.0 Consensus size: 1
44981950 CCGTGGAGGC
* * * * * * * * *
44981960 AAAAAAAATAAAAAAACAAAAAAAAAAAGAATACAAGAAAATAAAAAAATAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
44982025 AA
1 AA
44982027 CCTCTACCAG
Statistics
Matches: 48, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.04, G:0.03, T:0.06
Consensus pattern (1 bp):
A
Found at i:44981974 original size:8 final size:8
Alignment explanation
Indices: 44981961--44982016 Score: 69
Period size: 8 Copynumber: 6.9 Consensus size: 8
44981951 CGTGGAGGCA
44981961 AAAAAAAT
1 AAAAAAAT
*
44981969 AAAAAAAC
1 AAAAAAAT
44981977 AAAAAAA-
1 AAAAAAAT
*
44981984 AAAAGAAT
1 AAAAAAAT
44981992 ACAAGAAAAT
1 A-AA-AAAAT
44982002 AAAAAAAT
1 AAAAAAAT
44982010 AAAAAAA
1 AAAAAAA
44982017 ACAAAAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.14
8 27 0.64
9 4 0.10
10 5 0.12
ACGTcount: A:0.86, C:0.04, G:0.04, T:0.07
Consensus pattern (8 bp):
AAAAAAAT
Found at i:44982022 original size:8 final size:8
Alignment explanation
Indices: 44981961--44982025 Score: 60
Period size: 8 Copynumber: 7.9 Consensus size: 8
44981951 CGTGGAGGCA
*
44981961 AAAAAAAT
1 AAAAAAAC
44981969 AAAAAAAC
1 AAAAAAAC
44981977 AAAAAAA-
1 AAAAAAAC
44981984 AAAAGAATAC
1 AAAA-AA-AC
* *
44981994 AAGAAAAT
1 AAAAAAAC
*
44982002 AAAAAAATA
1 AAAAAAA-C
44982011 AAAAAAAC
1 AAAAAAAC
44982019 AAAAAAA
1 AAAAAAA
44982026 ACCTCTACCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 4 0.09
8 30 0.64
9 10 0.21
10 3 0.06
ACGTcount: A:0.86, C:0.05, G:0.03, T:0.06
Consensus pattern (8 bp):
AAAAAAAC
Found at i:44983473 original size:45 final size:45
Alignment explanation
Indices: 44983408--44983590 Score: 282
Period size: 45 Copynumber: 4.1 Consensus size: 45
44983398 TGAAGTCATC
*
44983408 ATAGCAAGTCCTGTCTTCCTGTATTGGCAGCGAAGTAGAAT-GAAG
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCGAAG
*
44983453 GTAGC-AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAAG-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
44983498 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
* *
44983543 ATAGCAAGTCTTGTCTTTCTGTATTGGCAGCAAAGTAGA-CTGAAG
1 ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-GAAG
44983588 ATA
1 ATA
44983591 ATAGATCTTG
Statistics
Matches: 129, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
44 5 0.04
45 122 0.95
46 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
ATAGCAAGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAG
Found at i:44983608 original size:90 final size:89
Alignment explanation
Indices: 44983424--44983613 Score: 244
Period size: 90 Copynumber: 2.1 Consensus size: 89
44983414 AGTCCTGTCT
* *
44983424 TCCTGTATTGGCAGCGAAGTAGAATGAAGGTAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 TCCTGTATTGGCAGCGAAGTAGAATGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGT
* *
44983489 AGATCGAAGATAGCAAGTCTTGTCT
66 AGATCGAAGATA-CAAGTCTTGCCA
*
44983514 TCCTGTATTGGCAGCGAAGTAG-ATCGAAGATAGCA-AGTCTTGTCTTTCTGTATTGGCAGCAAA
1 TCCTGTATTGGCAGCGAAGTAGAAT-GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCAAA
44983577 GTAGA-CTGAAGATA-ATAGATCTTGCCA
64 GTAGATC-GAAGATACA-AG-TCTTGCCA
*
44983604 TCCTGAATTG
1 TCCTGTATTG
44983614 ATGGTGAAGC
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
88 1 0.01
89 6 0.07
90 82 0.92
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (89 bp):
TCCTGTATTGGCAGCGAAGTAGAATGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGT
AGATCGAAGATACAAGTCTTGCCA
Found at i:44983814 original size:99 final size:99
Alignment explanation
Indices: 44983666--44984245 Score: 643
Period size: 100 Copynumber: 5.8 Consensus size: 99
44983656 GATTGAAATT
* * *
44983666 GCAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTC
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
* *
44983731 GTTCCCCGACATTGCAATTTAAAATATTGAAGCT
66 GTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * * * * *
44983765 GCAACGGCGAATTTTACTTTCCTGGC-GATACAGTGGATCAGATTGAAGCTACAACGG-TAATAT
1 GCAACGGCGAATCTTACTTTCCTGGCAG-TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCT
* * *
44983828 CGTTCACCAACATTTCAATTTAAAAGATTGAAGCC
65 CGTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
** * * * * *
44983863 GCAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAAATTAAAGCTACGACGGCGAATCTT
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
*
44983928 GCTTCCCCGACATTGCAATTAAAAAGATTGAAGCC
66 G-TTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * * * *
44983963 ACAACGGTGAATCTTACTTTCCTGGC-GATGCAGTGGATCAGATTGAAGCTACAACGACGAATCT
1 GCAACGGCGAATCTTACTTTCCTGGCAG-TGCAGTGGAACAGATTAAAGCTACAACGGCGAATCT
**
44984027 TATTCCCCGACATTGCAA-TTAAAAGGATTGAAGCC
65 CGTTCCCCGACATTGCAATTTAAAA-GATTGAAGCC
* * * * * * * *
44984062 ACAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTACGACGGCGAATCTT
1 GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATC-T
* * *
44984127 AC-TTCCCTGATATTGCAATTTAAAAGATTAAAGCC
65 -CGTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
* * *
44984162 GCAACGACGAATCTTA-TTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACGACTGCGAATCG
1 GCAACGGCGAATCTTACTTT-CCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATC-
*
44984226 T-GTTCCCTGACATTGCAATT
64 TCGTTCCCCGACATTGCAATT
44984246 GAGGCCGCAA
Statistics
Matches: 408, Mismatches: 61, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
98 87 0.21
99 155 0.38
100 160 0.39
101 6 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (99 bp):
GCAACGGCGAATCTTACTTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTC
GTTCCCCGACATTGCAATTTAAAAGATTGAAGCC
Found at i:44983975 original size:50 final size:50
Alignment explanation
Indices: 44983667--44984245 Score: 253
Period size: 50 Copynumber: 11.7 Consensus size: 50
44983657 ATTGAAATTG
* * * * ** * *
44983667 CAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * **
44983717 CAACGGCGAATC-T-CGTTCCCCGACATTGCAATTTAAAATATTGAAGCTG
1 CAACGGCGAATCTTAC-TTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** ** *
44983766 CAACGGCGAATTTTACTTTCCTGGCGA-TACAGTGGATCAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAAAGATTGAAGCCA
* * * * * *
44983816 CAACGG-TAAT-AT-CGTTCACC-AACATTTCAATTTAAAAGATTGAAGCCG
1 CAACGGCGAATCTTAC-TTC-CCTGACATTGCAATTAAAAAGATTGAAGCCA
* **** * * * ** * *
44983864 CAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAA-ATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAAT-TAAAAAGATTGAAGCCA
* * *
44983914 CGACGGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * ** ** *
44983964 CAACGGTGAATCTTACTTTCCTGGCGA-TGCAGTGGATCAGATTGAAGCTA
1 CAACGGCGAATCTTACTTCCCTGAC-ATTGCAATTAAAAAGATTGAAGCCA
* * *
44984014 CAACGACGAATCTTA-TTCCCCGACATTGCAATTAAAAGGATTGAAGCCA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** ** * *
44984063 CAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * *
44984113 CGACGGCGAATCTTACTTCCCTGATATTGCAATTTAAAAGATTAAAGCCG
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * * * ** * * *
44984163 CAACGACGAATCTTATTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTA
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
* * * *
44984213 CGACTGCGAATCGT-GTTCCCTGACATTGCAATT
1 CAACGGCGAATCTTACTTCCCTGACATTGCAATT
44984246 GAGGCCGCAA
Statistics
Matches: 373, Mismatches: 140, Indels: 33
0.68 0.26 0.06
Matches are distributed among these distances:
47 2 0.01
48 27 0.07
49 97 0.26
50 241 0.65
51 6 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
CAACGGCGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCCA
Found at i:44984154 original size:199 final size:196
Alignment explanation
Indices: 44983667--44984245 Score: 716
Period size: 199 Copynumber: 2.9 Consensus size: 196
44983657 ATTGAAATTG
* * * *
44983667 CAACGGCGAATCTTACCTCCCTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATC-TC
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTC
* * * *
44983731 GTTCCCCGACATTGCAATTTAAAATATTGAAGCTGCAACGGCGAATTTTACTTTCCTGGCGATAC
66 -TTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGC
* * * * *
44983796 AGTGGATCAGATTGAAGCTACAACG-GTAATATCGTTCACCAACATTTCAATTTAAAAGATTGAA
130 AGTGGATCAGATTGAAGCTACAACGCG-AATCTTGTTCCCCGACATTGCAA-TTAAAAGATTGAA
*
44983860 GCCG
193 GCCA
* ** * *
44983864 CAACGGCGAATCTTACTTTCCTGGTGGTGTAGTGGAGCAAATTAAAGCTACGACGGCGAATCTTG
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT-
* * *
44983929 CTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTTCCTGGCGATGC
65 CTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGC
*
44983994 AGTGGATCAGATTGAAGCTACAACGACGAATCTTATTCCCCGACATTGCAATTAAAAGGATTGAA
130 AGTGGATCAGATTGAAGCTACAACG-CGAATCTTGTTCCCCGACATTGCAATTAAAA-GATTGAA
44984059 GCCA
193 GCCA
* * * *
44984063 CAACGGTGAATCTCACTTCCCTGGCAGTACAATGGAGCAGATTAAAGCTACGACGGCGAATCTTA
1 CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTT-
* * * *
44984128 CTTCCCTGATATTGCAATTTAAAAGATTAAAGCCGCAACGACGAATCTTA-TTTCCCTGGC-AGT
65 CTTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTT-CCTGGCGA-T
* * * * *
44984191 GCAGTGGAACAGATTAAAGCTACGACTGCGAATCGTGTTCCCTGACATTGCAATT
128 GCAGTGGATCAGATTGAAGCTACAAC-GCGAATCTTGTTCCCCGACATTGCAATT
44984246 GAGGCCGCAA
Statistics
Matches: 328, Mismatches: 46, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
197 53 0.16
198 93 0.28
199 180 0.55
200 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (196 bp):
CAACGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGCAGATTAAAGCTACGACGGCGAATCTTC
TTCCCCGACATTGCAATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTTCCTGGCGATGCA
GTGGATCAGATTGAAGCTACAACGCGAATCTTGTTCCCCGACATTGCAATTAAAAGATTGAAGCC
A
Found at i:44984408 original size:44 final size:41
Alignment explanation
Indices: 44984351--44984548 Score: 166
Period size: 44 Copynumber: 4.6 Consensus size: 41
44984341 CATCTAGTTT
*
44984351 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AAGC-ACCAATCC
* * *
44984395 TATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGACCACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAG--CACCAATCC
* * * * * * *
44984439 TATCTCTCTAAAGTTGTAGTAGAGCAGAT-CGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCA-CCAATCC
* *
44984480 TATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG--ATAAG-CACCAATCC
44984524 TATCTCCCTGAAGTT-CTAGTGGAGC
1 TATCTCCCTGAAGTTGC-AGTGGAGC
44984549 GGATTAAAAC
Statistics
Matches: 125, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.02
41 28 0.22
42 1 0.01
43 6 0.05
44 86 0.69
45 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAGCACCAATCC
Found at i:44984583 original size:129 final size:129
Alignment explanation
Indices: 44984261--44984567 Score: 427
Period size: 129 Copynumber: 2.4 Consensus size: 129
44984251 CGCAATGGCG
* * * *
44984261 AATCCTATCTCCCTGAAGTTGCACTGGAGTGAATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* * * * ** ** *
44984326 CAGTAGAGTAGTTCACATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGCTACT
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
* * * *
44984390 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAGACCACAAATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
* *
44984455 TAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
44984519 AATCCTATCTCCCTGAAGTT-CTAGTGGAGCGGATTAAAACCACAAATCT
1 AATCCTATCTCCCTGAAGTTGC-AGTGGAGCGGATTAAAACCACAAATCT
44984568 CGTCCCCATG
Statistics
Matches: 155, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
128 1 0.01
129 154 0.99
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAAATCTTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAAACC
Found at i:44988970 original size:3 final size:3
Alignment explanation
Indices: 44988962--44989001 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44988952 CTGAAATACT
44988962 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
44989002 ACTACTACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:44989734 original size:30 final size:30
Alignment explanation
Indices: 44989700--44989781 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
44989690 TCTGGGCCTG
*
44989700 AGCCCTATACAGTAGCAGTGTGTGGGCCAA
1 AGCCCTATACAGTAACAGTGTGTGGGCCAA
* * * * **
44989730 AGCCCAATACATTATCAGAGTGTGGGCCTT
1 AGCCCTATACAGTAACAGTGTGTGGGCCAA
44989760 AG-CCTAATACAGTAACAGTGTG
1 AGCCCT-ATACAGTAACAGTGTG
44989782 GGCGTTAGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 2 0.05
30 39 0.95
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (30 bp):
AGCCCTATACAGTAACAGTGTGTGGGCCAA
Found at i:44989789 original size:28 final size:29
Alignment explanation
Indices: 44989748--44989807 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
44989738 ACATTATCAG
* *
44989748 AGTGTGGGCCTTAGCCTAATACAGTAA-C
1 AGTGTGGGCCTTAGCCCAAAACAGTAATC
*
44989776 AGTGTGGGCGTTAGCCCAAAACAGTAATC
1 AGTGTGGGCCTTAGCCCAAAACAGTAATC
44989805 AGT
1 AGT
44989808 ACAAATGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (29 bp):
AGTGTGGGCCTTAGCCCAAAACAGTAATC
Found at i:44990017 original size:26 final size:26
Alignment explanation
Indices: 44989915--44990016 Score: 123
Period size: 26 Copynumber: 3.9 Consensus size: 26
44989905 CATCAATATT
* * *
44989915 GCAGTAAAGCTACCAGTAATAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* *
44989941 ACAACAAAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
* * * *
44989967 GTAGCAGAGCTGCCAGTATCAGTATC
1 GCAGCAAAGCTGCCAGTAACAGTAAC
44989993 GCAGCAAAGCTGCCAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAACAGTA
44990017 TTTGTGGCAA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAACAGTAAC
Found at i:44990472 original size:14 final size:17
Alignment explanation
Indices: 44990441--44990477 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
44990431 ATTATAAAGG
44990441 ATATTATTAAATTAATT
1 ATATTATTAAATTAATT
44990458 ATATTA-TAAA-T-ATT
1 ATATTATTAAATTAATT
44990472 ATATTA
1 ATATTA
44990478 AGAAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 4 0.20
17 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTATTAAATTAATT
Found at i:44990653 original size:14 final size:14
Alignment explanation
Indices: 44990627--44990677 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
44990617 GAAAACAAAA
44990627 GAAATAAAATAAAG
1 GAAATAAAATAAAG
*
44990641 GAAATAAAGTAAAG
1 GAAATAAAATAAAG
* * *
44990655 TAAGTTAAAATAAAA
1 GAA-ATAAAATAAAG
44990670 G-AATAAAA
1 GAAATAAAA
44990678 GAAACAAAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 5 0.17
14 16 0.55
15 8 0.28
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAAAG
Found at i:44991852 original size:37 final size:36
Alignment explanation
Indices: 44991749--44991885 Score: 96
Period size: 39 Copynumber: 3.6 Consensus size: 36
44991739 TTCGACCTCG
*
44991749 AGTCGATGAGACACTGGGTGTCACTATATTTCTTCGGAT
1 AGTCGATGAGACACTGGGTGTCA--A-CTTTCTTCGGAT
** ** *
44991788 AGATTCGATGAGGTACTGGGTACCAACTTTCTTCGGCTT
1 AG--TCGATGAGACACTGGGTGTCAACTTTCTTCGG-AT
* *
44991827 TGTCGATGAGACACTGGGTGTCAACTATTGCTTCGAACT
1 AGTCGATGAGACACTGGGTGTCAACT-TT-CTTCGGA-T
*
44991866 A-TCCGATGAGGCACTGGGTG
1 AGT-CGATGAGACACTGGGTG
44991886 CCATTCTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
37 20 0.26
38 12 0.16
39 27 0.36
41 17 0.22
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (36 bp):
AGTCGATGAGACACTGGGTGTCAACTTTCTTCGGAT
Found at i:44992950 original size:27 final size:27
Alignment explanation
Indices: 44992929--44993099 Score: 197
Period size: 27 Copynumber: 6.3 Consensus size: 27
44992919 CTACCTTTCA
*
44992929 AGGGTGTTTCAGTAATTTTACCCATCG
1 AGGGTATTTCAGTAATTTTACCCATCG
*
44992956 AGGGTATTTCAGTAATTTTACCCATCA
1 AGGGTATTTCAGTAATTTTACCCATCG
* *
44992983 AGGGTA-TTCTAGTCATTTTACCCTTCG
1 AGGGTATTTC-AGTAATTTTACCCATCG
44993010 AGGGTATTTC-GATAATTTTACCCATCG
1 AGGGTATTTCAG-TAATTTTACCCATCG
* * *
44993037 AGGGTATTTCGGTAATTTTACCCTTTG
1 AGGGTATTTCAGTAATTTTACCCATCG
* *
44993064 -GAGGTATTTC-GATAATTTTACCTATTG
1 AG-GGTATTTCAG-TAATTTTACCCATCG
44993091 AGGGTATTT
1 AGGGTATTT
44993100 AGGGTTTAGG
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
26 6 0.05
27 115 0.91
28 5 0.04
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACCCATCG
Found at i:44992961 original size:54 final size:53
Alignment explanation
Indices: 44992903--44993085 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 53
44992893 TATCCTATAG
* * * **
44992903 GGGTATTTTGGTCATTCTACCTTTCAAGGGTGTTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCATCAAGGGT-TTTCAGTAATTTTACCCATCGA
* * * *
44992957 GGGTATTTCAGTAATTTTACCCATCAAGGGTATTCTAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCATCAAGGGTTTTC-AGTAATTTTACCCATCGA
* * * * *
44993011 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCTTTG-
1 GGGTATTTCGGTAATTTTACCCATCAAGGGT-TTTCAGTAATTTTACCCATCGA
*
44993064 GAGGTATTTCGATAATTTTACC
1 G-GGTATTTCGGTAATTTTACC
44993086 TATTGAGGGT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.04
54 103 0.94
55 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (53 bp):
GGGTATTTCGGTAATTTTACCCATCAAGGGTTTTCAGTAATTTTACCCATCGA
Found at i:44993071 original size:81 final size:81
Alignment explanation
Indices: 44992903--44993059 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 81
44992893 TATCCTATAG
* * * *
44992903 GGGTATTTTGGTCATTCTACCTTTCAAGGGTGTTTCAGTAATTTTACCCATCGAGGGTATTTCAG
1 GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAG
44992968 TAATTTTACCCATCAA
66 TAATTTTACCCATCAA
* * *
44992984 GGGTATTCTAGTCATTTTACCCTTCGAGGGTATTTC-GATAATTTTACCCATCGAGGGTATTTCG
1 GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAG-TAATTTTACCCATCGAGGGTATTTCA
44993048 GTAATTTTACCC
65 GTAATTTTACCC
44993060 TTTGGAGGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (81 bp):
GGGTATTCTAGTCATTCTACCCTTCAAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCAG
TAATTTTACCCATCAA
Found at i:44993094 original size:54 final size:54
Alignment explanation
Indices: 44992929--44993099 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
44992919 CTACCTTTCA
* * *
44992929 AGGGTGTTTCAGTAATTTTACCCATCGAGGGTATTTC-AGTAATTTTACCCATCA
1 AGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGA-TAATTTTACCCATCG
*
44992983 AGGGTA-TTCTAGTCATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
1 AGGGTATTTC-AGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
* * * *
44993037 AGGGTATTTCGGTAATTTTACCCTTTG-GAGGTATTTCGATAATTTTACCTATTG
1 AGGGTATTTCAGTAATTTTACCCTTCGAG-GGTATTTCGATAATTTTACCCATCG
44993091 AGGGTATTT
1 AGGGTATTT
44993100 AGGGTTTAGG
Statistics
Matches: 104, Mismatches: 9, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
53 4 0.04
54 96 0.92
55 4 0.04
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCATCG
Found at i:44993109 original size:7 final size:7
Alignment explanation
Indices: 44993097--44993140 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
44993087 ATTGAGGGTA
44993097 TTTAGGG
1 TTTAGGG
44993104 TTTAGGG
1 TTTAGGG
44993111 TTTAGGG
1 TTTAGGG
*
44993118 TTTAGAG
1 TTTAGGG
44993125 TTTAGGG
1 TTTAGGG
*
44993132 TTTAAGG
1 TTTAGGG
44993139 TT
1 TT
44993141 CAGTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:44993276 original size:27 final size:27
Alignment explanation
Indices: 44993246--44993857 Score: 574
Period size: 27 Copynumber: 22.7 Consensus size: 27
44993236 TATCCTATAG
* *
44993246 GGGTA-TTCTGGTCATTTTACCCTTTGA
1 GGGTATTTC-GGTAATTTTACCCTTCGA
* *
44993273 GGGTATTTCAGTAATTTTACCCGTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
44993300 GGGTATTTCAGTCATTTTACCTTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
44993327 GGGTATTTCGATAATTTTA-CCTATCGA
1 GGGTATTTCGGTAATTTTACCCT-TCGA
* *
44993354 GGGTATTTCAGTAATTTTA-CCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * * *
44993380 TGGTATTTCGATAATTTTACTCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
44993407 GGGTATTTCAGTCATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
**
44993434 GGGTATTTTAGTAATTTTA-CCTATC-A
1 GGGTATTTCGGTAATTTTACCCT-TCGA
* *
44993460 GGGGTATTTCGATCATTTTACCCTTCGA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
* ** * *
44993488 AGGTATTTTAGTAATTTTACGCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
44993515 GGGTATTTTGGTCATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* ** *
44993542 AGGTATTTTAGTCATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
44993569 -GGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
44993595 GGGTATTTCAGTAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
44993622 GGGTATTTAGGTAATTTTACCCTTC-A
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
44993648 GGGGTATTTTGGTAATTTTACCCTTCAA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
***
44993676 GGGTATTTTAATAATTTTACCCTTC-A
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
44993702 GGGGTATTTCAGTAATTTTACCTTTCGA
1 -GGGTATTTCGGTAATTTTACCCTTCGA
* ** *
44993730 GGGTATTTCGATAATTTTTTCCTTCGG
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
44993757 GGGTATTTCAGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
** * * *
44993784 ACGTATTTCGGTCATTCTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
** * *
44993811 GGGTATTTTAGTAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCCTTCGA
44993838 GGGTATTTCGGTAATTTTAC
1 GGGTATTTCGGTAATTTTAC
44993858 GACCCAAACC
Statistics
Matches: 486, Mismatches: 87, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
26 49 0.10
27 428 0.88
28 9 0.02
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:45008695 original size:9 final size:9
Alignment explanation
Indices: 45008683--45008750 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
45008673 TTAATTTATT
45008683 AAATTTTAA
1 AAATTTTAA
**
45008692 AAATTCAAA
1 AAATTTTAA
45008701 AAATTTATAA
1 AAATTT-TAA
45008711 AAA--TTAA
1 AAATTTTAA
45008718 AAATTATTAA
1 AAATT-TTAA
**
45008728 AAGTATTTTTT
1 AA--ATTTTAA
45008739 AAATTTTAA
1 AAATTTTAA
45008748 AAA
1 AAA
45008751 ATTAATTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
7 6 0.13
8 1 0.02
9 20 0.44
10 11 0.24
11 4 0.09
12 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (9 bp):
AAATTTTAA
Found at i:45008719 original size:17 final size:17
Alignment explanation
Indices: 45008683--45008729 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
45008673 TTAATTTATT
45008683 AAATTTTAAAAATTCAAA
1 AAATTTTAAAAATT-AAA
45008701 AAATTTATAAAAATT-AA
1 AAATTT-TAAAAATTAAA
45008718 AAATTATTAAAA
1 AAATT-TTAAAA
45008730 GTATTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.44
18 7 0.26
19 8 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTTTAAAAATTAAA
Found at i:45009337 original size:98 final size:98
Alignment explanation
Indices: 45009160--45009338 Score: 286
Period size: 98 Copynumber: 1.8 Consensus size: 98
45009150 GAGTAATATG
* * *
45009160 TGGAAACAATAAGTTGACATGGTATTTCATATGTGTTAATATGTTTATCACATTAAATTTTGGAA
1 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
*
45009225 ATAGTTAAACTTAATAAACTTAATATCCAATTT
66 ATAGCTAAACTTAATAAACTTAATATCCAATTT
* * *
45009258 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAGTATGTCTGTCGCATTAAATTTTGGAA
1 TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
*
45009323 ATAGCTAAATTTAATA
66 ATAGCTAAACTTAATA
45009339 TTCAATTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 73 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.38
Consensus pattern (98 bp):
TGGAAACAATAAGTTGACATGGTATTTCACATGTGATAATATGTCTATCACATTAAATTTTGGAA
ATAGCTAAACTTAATAAACTTAATATCCAATTT
Found at i:45010714 original size:29 final size:29
Alignment explanation
Indices: 45010651--45010728 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
45010641 GTGGTCAGGG
* *
45010651 TTGCTCATACAAGCTGACATTTATGAATC
1 TTGCTCACACAAGCTGACATTTATAAATC
*
45010680 TT-CTCACACAAGTTGACATTTTATAAAT-
1 TTGCTCACACAAGCTGACA-TTTATAAATC
*
45010708 TTGCTCACACAAGCTAACATT
1 TTGCTCACACAAGCTGACATT
45010729 GTATCAATGT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (29 bp):
TTGCTCACACAAGCTGACATTTATAAATC
Found at i:45011910 original size:43 final size:42
Alignment explanation
Indices: 45011844--45012001 Score: 226
Period size: 43 Copynumber: 3.7 Consensus size: 42
45011834 TTTTAGAAAT
*
45011844 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGGTCA-GACCTTTAGCGGCGCTTTTCCCAC
* * *
45011887 AAACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTTCCAA
1 AAACGCCGCTATAGGTC-AGACCTTTAGCGGCGCTTTTCCCAC
45011930 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGGTC-AGACCTTTAGCGGCGCTTTTCCCAC
** *
45011973 AAACGCCGCTATAGAACAAACCTTTAGCG
1 AAACGCCGCTATAGGTCAGACCTTTAGCG
45012002 ATGCTTCTCA
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 11 0.11
43 91 0.88
44 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGGTCAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:45011953 original size:86 final size:85
Alignment explanation
Indices: 45011844--45012021 Score: 268
Period size: 86 Copynumber: 2.1 Consensus size: 85
45011834 TTTTAGAAAT
* ** *
45011844 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCGAGAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAAC-AAAC
*
45011909 CTTTAGCGACGCTTTTTC-CAA
65 CTTTAGCGACGC-TTCTCACAA
*
45011930 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
*
45011995 TTTAGCGATGCTTCTCACAA
66 TTTAGCGACGCTTCTCACAA
45012015 AAACGCC
1 AAACGCC
45012022 ACTAAAAACA
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
84 4 0.05
85 24 0.29
86 56 0.67
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACC
TTTAGCGACGCTTCTCACAA
Found at i:45012019 original size:42 final size:42
Alignment explanation
Indices: 45011844--45012021 Score: 212
Period size: 43 Copynumber: 4.2 Consensus size: 42
45011834 TTTTAGAAAT
* * *
45011844 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCA-AACCTTTAGCGACGCTTTTCCCAA
* * *
45011887 AAACGCCGCTATAGGTCGAGACCTTTAGCGACGCTTTTTCCAA
1 AAACGCCGCTATAGATC-AAACCTTTAGCGACGCTTTTCCCAA
* * *
45011930 AAACGCCGCTATAGGTCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAA-ACCTTTAGCGACGCTTTTCCCAA
* * * *
45011973 AAACGCCGCTATAGAACAAACCTTTAGCGATGCTTCTCACAA
1 AAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTCCCAA
45012015 AAACGCC
1 AAACGCC
45012022 ACTAAAAACA
Statistics
Matches: 118, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
42 26 0.22
43 91 0.77
44 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTATAGATCAAACCTTTAGCGACGCTTTTCCCAA
Found at i:45012067 original size:16 final size:14
Alignment explanation
Indices: 45012026--45012068 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 14
45012016 AACGCCACTA
45012026 AAAACATAATATTTT
1 AAAA-ATAATATTTT
45012041 AAAAA-AATATTTT
1 AAAAATAATATTTT
45012054 AATCAAATAATATTT
1 AA--AAATAATATTT
45012069 ATTTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 10 0.40
14 1 0.04
15 7 0.28
16 7 0.28
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAAATAATATTTT
Found at i:45012323 original size:12 final size:13
Alignment explanation
Indices: 45012295--45012327 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
45012285 TATTAAAGTA
45012295 AAAATAAAAATTT
1 AAAATAAAAATTT
*
45012308 AAAATCAAAA-TT
1 AAAATAAAAATTT
45012320 AAAATAAA
1 AAAATAAA
45012328 TCAATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAATAAAAATTT
Done.