Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005853.1 Hibiscus syriacus cultivar Beakdansim tig00013738_pilon, whole genome shotgun sequence
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: 876857
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:185618 original size:40 final size:41
Alignment explanation
Indices: 185482--185827 Score: 184
Period size: 41 Copynumber: 8.4 Consensus size: 41
185472 AAGACTCGTA
* * *** *
185482 TTTAGTGGTGTTTTGATATAAACGCCGCTAAATA-TTATAC
1 TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
* ** * * *
185522 TTTAGTGGCATTTTTGGA-ACAA-ATGTCGGTAAATACTCGTTC
1 TTTAGTGGCGTTTTTATATA-AACAT-T-GCTAAATACTCATAC
* * * *
185564 TTTAGAGGCATTTTTATATAAACATTGTTAAATA-TTATAC
1 TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
* * ** * * * *
185604 TTTAGTGGCGTTTTTTTTACAAACGCTGCTAAACAATCGTAT
1 TTTAGTGGCG-TTTTTATATAAACATTGCTAAATACTCATAC
* *** *
185646 TTTAGTGGCGTTTTTATATTAACGCCGCTAAATA-TCGTAC
1 TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
* * * * * * * *
185686 TTTAATGAC-TTTTTTTAAAAAAAATGTTGGTAAATACTCGTAT
1 TTTAGTGGCGTTTTTAT-ATAAACA--TTGCTAAATACTCATAC
*
185729 TTTAGTGGCGTTTTTATATAAACGTTGCTAAATACTCATAC
1 TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
* * * * *
185770 TTTAGGGGCTTTTTTA-ACAAACATCGGTAAATACTCATAC
1 TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
*
185810 TTTAGTGGCGTTTGTATA
1 TTTAGTGGCGTTTTTATA
185828 CAAGCGCCGC
Statistics
Matches: 227, Mismatches: 65, Indels: 27
0.71 0.20 0.08
Matches are distributed among these distances:
39 7 0.03
40 74 0.33
41 80 0.35
42 41 0.18
43 19 0.08
44 6 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATATAAACATTGCTAAATACTCATAC
Found at i:185816 original size:164 final size:164
Alignment explanation
Indices: 185482--185843 Score: 399
Period size: 164 Copynumber: 2.2 Consensus size: 164
185472 AAGACTCGTA
* * * * * ** *
185482 TTTAGTGGTGTTTTGATATAAACGCCGCTAAATATTATACTTTAGTGGCATTTTTGGAACAAATG
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAATATCATACTTTAATGACATTTTTAAAAAAAATG
* *
185547 TCGGTAAATACTCGTTCTTTAGAGGCATTTTTATATAAACATTGTTAAATATTATACTTTAGTGG
66 TCGGTAAATACTCGTTCTTTAGAGGCATTTTTATATAAACATTGCTAAATATCATACTTTAGTGG
* * * *
185612 CGTTTTTTTTACAAACGCTGCTAAACAATCGTAT
131 CGCTTTTTTAACAAACGCTGCTAAACAATCATAC
* * *
185646 TTTAGTGGCGTTTTTATATTAACGCCGCTAAATATCGTACTTTAATGACTTTTTTTAAAAAAAAT
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAATATCATACTTTAATGAC-ATTTTTAAAAAAAAT
* * * *
185711 GTTGGTAAATACTCGTAT-TTTAGTGGCGTTTTTATATAAACGTTGCTAAATACTCATACTTTAG
65 GTCGGTAAATACTCGT-TCTTTAGAGGCATTTTTATATAAACATTGCTAAATA-TCATACTTTAG
* * * *
185775 -GG-GCTTTTTTAACAAAC-ATCGGTAAATACTCATAC
128 TGGCGCTTTTTTAACAAACGCT-GCTAAACAATCATAC
* * * *
185810 TTTAGTGGCGTTTGTATACAAGCGCCGCCAAATA
1 TTTAGTGGCGTTTTTATATAAACGCCGCTAAATA
185844 CTATTTCTTT
Statistics
Matches: 164, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
163 1 0.01
164 94 0.57
165 58 0.35
166 11 0.07
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (164 bp):
TTTAGTGGCGTTTTTATATAAACGCCGCTAAATATCATACTTTAATGACATTTTTAAAAAAAATG
TCGGTAAATACTCGTTCTTTAGAGGCATTTTTATATAAACATTGCTAAATATCATACTTTAGTGG
CGCTTTTTTAACAAACGCTGCTAAACAATCATAC
Found at i:185854 original size:81 final size:81
Alignment explanation
Indices: 185714--185864 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
185704 AAAAAATGTT
* * * * ** *
185714 GGTAAATACTCGTATTTTAGTGGCGTTTTTATATAAACGTTGCTAAATACTCATACTTTAGGGGC
1 GGTAAATACTCATACTTTAGTGGCGTTTGTATACAAACGCCGCCAAATACTCATACTTTAGGGGC
*
185779 TTTTTTAACAAACATC
66 GTTTTTAACAAACATC
* * *
185795 GGTAAATACTCATACTTTAGTGGCGTTTGTATACAAGCGCCGCCAAATACT-ATTTCTTTAGTGG
1 GGTAAATACTCATACTTTAGTGGCGTTTGTATACAAACGCCGCCAAATACTCA-TACTTTAGGGG
185859 CGTTTT
65 CGTTTT
185865 ACGCACCAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 1 0.02
81 57 0.98
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (81 bp):
GGTAAATACTCATACTTTAGTGGCGTTTGTATACAAACGCCGCCAAATACTCATACTTTAGGGGC
GTTTTTAACAAACATC
Found at i:195984 original size:87 final size:87
Alignment explanation
Indices: 195830--196126 Score: 316
Period size: 87 Copynumber: 3.4 Consensus size: 87
195820 ATTTATTCCG
* * * * * * ** * *
195830 AAAATGCCACTATAGATCTCGATCTTTTACGGTGTTTATTTCGAAAACGCTGTTATAGATCTTAC
1 AAAACGCCACTATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCATTATATATCTGAC
*
195895 CTTTTTCGGCATTTGTATCCAA
66 CTTTTTCGGCGTTTGTATCCAA
* * *
195917 AAAATGCCACTATAGATCTTGACCTTTTGCGGCGTTTATTCCAAAAATGCCATTATATATCTGAC
1 AAAACGCCACTATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCATTATATATCTGAC
*
195982 CTTTTGCGGCGTTTGTATCCAAA
66 CTTTTTCGGCGTTTGTATCC-AA
* * * * *
196005 AAAACGCCGCTATAGATCTCAACCTTTTGCGGCGTTTGTTCCAAAAACACCAATATAGATATC-G
1 AAAACGCCACTATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCC-AT-TATATATCTG
196069 ACCTTTTGT-GGCGTTTGT-TCC--
64 ACCTTTT-TCGGCGTTTGTATCCAA
* * *
196090 AAAACGACGCTATAGATATCGACCTTTTGCGGCGTTT
1 AAAACGCCACTATAGATCTCGACCTTTTGCGGCGTTT
196127 TTGTTCTCAA
Statistics
Matches: 181, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
85 34 0.19
87 72 0.40
88 49 0.27
89 19 0.10
90 7 0.04
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.35
Consensus pattern (87 bp):
AAAACGCCACTATAGATCTCGACCTTTTGCGGCGTTTATTCCAAAAACGCCATTATATATCTGAC
CTTTTTCGGCGTTTGTATCCAA
Found at i:195985 original size:42 final size:42
Alignment explanation
Indices: 195812--196126 Score: 263
Period size: 43 Copynumber: 7.3 Consensus size: 42
195802 TTTTCGATAA
* * * * *
195812 TTTGCGGCATTTATTCCGAAAATGCCACTATAGATCTCGATCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCT-GACCT
* * * * * *** *
195855 TTTACGGTGTTTATTTCGAAAACGCTGTTATAGATCTTACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCT
* * *
195897 TTTTCGGCATTTGTATCCAAAAAATGCCACTATAGATCTTGACCT
1 TTTGCGGCGTTTGT-TCC-AAAAACGCCACTATAGATC-TGACCT
* * * *
195942 TTTGCGGCGTTTATTCCAAAAATGCCATTATATATCTGACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCT
* *
195984 TTTGCGGCGTTTGTATCCAAAAAAACGCCGCTATAGATCTCAACCT
1 TTTGCGGCGTTTGT-TCC--AAAAACGCCACTATAGATCT-GACCT
* * *
196030 TTTGCGGCGTTTGTTCCAAAAACACCAATATAGATATCGACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCT-GACCT
* * * *
196073 TTTGTGGCGTTTGTTCC-AAAACGACGCTATAGATATCGACCT
1 TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCT-GACCT
196115 TTTGCGGCGTTT
1 TTTGCGGCGTTT
196127 TTGTTCTCAA
Statistics
Matches: 222, Mismatches: 43, Indels: 15
0.79 0.15 0.05
Matches are distributed among these distances:
42 64 0.29
43 88 0.40
44 17 0.08
45 35 0.16
46 18 0.08
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (42 bp):
TTTGCGGCGTTTGTTCCAAAAACGCCACTATAGATCTGACCT
Found at i:200933 original size:2 final size:2
Alignment explanation
Indices: 200926--200965 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
200916 ATCTAACTTA
200926 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
200966 TTAAATAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203448 original size:17 final size:17
Alignment explanation
Indices: 203426--203464 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
203416 TATTGATAAT
203426 ATATTTT-TCTTAAAAAA
1 ATATTTTAT-TTAAAAAA
*
203443 ATATTTTATTTATAAAA
1 ATATTTTATTTAAAAAA
203460 ATATT
1 ATATT
203465 ATTGATGAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTTTATTTAAAAAA
Found at i:204175 original size:22 final size:24
Alignment explanation
Indices: 204147--204191 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
204137 GCGACTACCA
204147 AATGAACTTTTCA-TATA-TATAT
1 AATGAACTTTTCAGTATAGTATAT
204169 AATGAACTTTTCAGTATAGTATA
1 AATGAACTTTTCAGTATAGTATA
204192 AAGACTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
23 4 0.19
24 4 0.19
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (24 bp):
AATGAACTTTTCAGTATAGTATAT
Found at i:206480 original size:26 final size:26
Alignment explanation
Indices: 206438--206487 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
206428 ATAAAAAGGT
*
206438 AAGAAATAAATAAATTAAATTAAAATG
1 AAGAAATAAACAAATTAAA-TAAAATG
206465 AAGAAA-AAACAAATTAAATAAAA
1 AAGAAATAAACAAATTAAATAAAA
206488 GATAAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 11 0.50
27 6 0.27
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.20
Consensus pattern (26 bp):
AAGAAATAAACAAATTAAATAAAATG
Found at i:206556 original size:13 final size:13
Alignment explanation
Indices: 206522--206617 Score: 65
Period size: 14 Copynumber: 6.9 Consensus size: 13
206512 AAATAGCAAG
206522 TAAAATAAATATAAA
1 TAAAA-AAA-ATAAA
206537 -AAAAAAAA-AAA
1 TAAAAAAAATAAA
*
206548 TAAAGAAAAAGAAGA
1 TAAA-AAAAATAA-A
206563 -AAAAAATATATAAA
1 TAAAAAA-A-ATAAA
206577 TAAAAAAAATAAA
1 TAAAAAAAATAAA
206590 TAAAATAATAAT-AA
1 TAAAA-AA-AATAAA
206604 TAAAGTAAAAATAA
1 TAAA--AAAAATAA
206618 TATATATATA
Statistics
Matches: 68, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
11 3 0.04
12 4 0.06
13 21 0.31
14 23 0.34
15 16 0.24
16 1 0.01
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (13 bp):
TAAAAAAAATAAA
Found at i:206570 original size:38 final size:42
Alignment explanation
Indices: 206500--206596 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 42
206490 TAAGATAAAG
206500 AAAATAAAGATAAAATAGCAAGTAAAATAAATATAAAAAAAAAA
1 AAAATAAAG--AAAATAGCAAGTAAAATAAATATAAAAAAAAAA
* *
206544 AAAATAAAGAAAA-AG-AAG-AAAA-AAATATATAAATAAAA
1 AAAATAAAGAAAATAGCAAGTAAAATAAATATAAAAAAAAAA
*
206582 AAAATAAATAAAATA
1 AAAATAAAGAAAATA
206597 ATAATAATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 26 0.53
39 5 0.10
40 3 0.06
41 2 0.04
42 4 0.08
44 9 0.18
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (42 bp):
AAAATAAAGAAAATAGCAAGTAAAATAAATATAAAAAAAAAA
Found at i:206575 original size:25 final size:24
Alignment explanation
Indices: 206534--206600 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
206524 AAATAAATAT
206534 AAAAA-AAAAAAA-AATAAAGAAA
1 AAAAAGAAAAAAATAATAAAGAAA
* *
206556 AAGAAGAAAAAAATATATAAATAAA
1 AAAAAGAAAAAAATA-ATAAAGAAA
*
206581 AAAAATAAATAAAATAATAA
1 AAAAAGAAA-AAAATAATAA
206601 TAATAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 1 0.03
25 19 0.51
26 6 0.16
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.13
Consensus pattern (24 bp):
AAAAAGAAAAAAATAATAAAGAAA
Found at i:206584 original size:17 final size:17
Alignment explanation
Indices: 206562--206623 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
206552 GAAAAAGAAG
206562 AAAAAAATATATAAATA
1 AAAAAAATATATAAATA
*
206579 AAAAAAATAAAT-AA-A
1 AAAAAAATATATAAATA
* *
206594 ATAATAATA-ATAAAGTA
1 AAAAAAATATATAAA-TA
*
206611 AAAATAATATATA
1 AAAAAAATATATA
206624 TATATATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.05
15 10 0.27
16 2 0.05
17 20 0.54
18 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAAAAATATATAAATA
Found at i:206600 original size:21 final size:20
Alignment explanation
Indices: 206480--206597 Score: 62
Period size: 21 Copynumber: 5.6 Consensus size: 20
206470 AAAACAAATT
* * *
206480 AAATAAAAGATAAGATAAAGA
1 AAAT-AAAGATAAAAAAAAAA
**
206501 AAATAAAGATAAAATAGCAAGTA
1 AAATAAAGATAAAA-A--AAAAA
*
206524 AAATAAATATAAAAAAAAAAA
1 AAATAAAGAT-AAAAAAAAAA
206545 AAATAAAGA-AAAAGAAGAAAA
1 AAATAAAGATAAAA-AA-AAAA
* *
206566 AAATATATAAAT-AAAAAAAAT
1 AAATA-A-AGATAAAAAAAAAA
206587 AAATAAA-ATAA
1 AAATAAAGATAA
206598 TAATAATAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
18 2 0.03
19 6 0.08
20 12 0.16
21 32 0.42
22 3 0.04
23 18 0.23
24 4 0.05
ACGTcount: A:0.76, C:0.01, G:0.08, T:0.15
Consensus pattern (20 bp):
AAATAAAGATAAAAAAAAAA
Found at i:206624 original size:2 final size:2
Alignment explanation
Indices: 206617--206641 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
206607 AGTAAAAATA
206617 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
206642 ATAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:206645 original size:42 final size:40
Alignment explanation
Indices: 206597--206731 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 40
206587 AAATAAAATA
206597 ATAATAATAAAGTAAAAATAATATATATATATATATATATAT
1 ATAATAATAAAGTAAAAA-AATATA-ATATATATATATATAT
* * *
206639 ATAATAAATAATAAATAAAAAAA-ATAGTAAATATATATATAT
1 ATAAT-AAT-A-AAGTAAAAAAATATAATATATATATATATAT
*
206681 ATAATTAATAAAATTGATAATAAAAAAATAATATATATATATATAT
1 ATAA-TAAT-AAA--G-TAA-AAAAATATAATATATATATATATAT
206727 ATAAT
1 ATAAT
206732 CTAAAAAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
41 2 0.03
42 28 0.36
43 7 0.09
44 6 0.08
45 14 0.18
46 21 0.27
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (40 bp):
ATAATAATAAAGTAAAAAAATATAATATATATATATATAT
Found at i:206649 original size:46 final size:45
Alignment explanation
Indices: 206594--206745 Score: 168
Period size: 46 Copynumber: 3.3 Consensus size: 45
206584 AATAAATAAA
206594 ATAAT-AATAATAAAGTAAAAATAATATATATATATATATATATAT
1 ATAATAAATAATAAA-TAAAAATAATATATATATATATATATATAT
* *
206639 ATAATAAATAATAAATAAAAAAAATAGTAAATATATATATATATA-
1 ATAATAAATAATAAATAAAAATAATA-TATATATATATATATATAT
* *
206684 ATTAATAAAATTGATAATAAAAAAATAATATATATATATATATATA-AT
1 A-TAAT-AAA-TAATAA-ATAAAAATAATATATATATATATATATATAT
* *
206732 CTAA-AAAAAATAAA
1 ATAATAAATAATAAA
206746 AATATATACT
Statistics
Matches: 91, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 19 0.21
46 30 0.33
47 7 0.08
48 20 0.22
49 10 0.11
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (45 bp):
ATAATAAATAATAAATAAAAATAATATATATATATATATATATAT
Found at i:206656 original size:14 final size:14
Alignment explanation
Indices: 206566--206656 Score: 66
Period size: 14 Copynumber: 6.4 Consensus size: 14
206556 AAGAAGAAAA
206566 AAATATATAAATAA-
1 AAATA-ATAAATAAT
*
206580 AAAAAATAAAT-A-
1 AAATAATAAATAAT
206592 AAATAAT-AATAAT
1 AAATAATAAATAAT
206605 AAAGTAA-AAATAAT
1 AAA-TAATAAATAAT
*
206619 ATATATATATATATATAT
1 A-A-ATA-ATAAATA-AT
*
206637 ATATAATAAATAAT
1 AAATAATAAATAAT
206651 AAATAA
1 AAATAA
206657 AAAAAATAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
11 3 0.05
12 8 0.13
13 9 0.15
14 21 0.34
15 9 0.15
16 5 0.08
17 4 0.06
18 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (14 bp):
AAATAATAAATAAT
Found at i:207759 original size:36 final size:36
Alignment explanation
Indices: 207708--207826 Score: 143
Period size: 36 Copynumber: 3.3 Consensus size: 36
207698 GAGGGTTTTT
* *
207708 TTTGTTTCAAGAGAAACTTTCTCAAGAGGGACAAAA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAA
* *
207744 TTTGTTTCAAAAGAAACTGTCTCTAGAGAGACAAAA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAA
* *
207780 CTTAG-TTCTAAAAGAAACTGTCTCAAG-GGAGACGAAA
1 -TTTGTTTC-AAAAGAAACTGTCTCAAGAGG-GACAAAA
207817 TTTGTTTCAA
1 TTTGTTTCAA
207827 GGAAAAGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
36 41 0.59
37 29 0.41
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGGGACAAAA
Found at i:208066 original size:102 final size:102
Alignment explanation
Indices: 207945--208184 Score: 338
Period size: 102 Copynumber: 2.4 Consensus size: 102
207935 ATATTTTGTG
* ** * *
207945 TTTCAAGGGAAACATTTTCAAGGTTTATGTTTCAAGAGAAACTATATCAAGGGAGATAAAATTTT
1 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTTT
* * *
208010 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAGTTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* *
208047 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTTT
* * * *
208112 GTTTCAATGGAAACTACCCCAAGTGAGATAAAATTTA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
208149 TTT-AAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
1 TTTCAAA-GGAAATGTTTTCAATGTTTATGTTTCAAG
208185 GGAGACAAAA
Statistics
Matches: 123, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
101 3 0.02
102 120 0.98
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (102 bp):
TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATATCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:208188 original size:189 final size:189
Alignment explanation
Indices: 207991--208460 Score: 760
Period size: 189 Copynumber: 2.5 Consensus size: 189
207981 AGAAACTATA
* * ** * * * *
207991 TCAAGGGAGATAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAGTTAATTTCAAAGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
* *
208056 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAATG
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGG
*
208121 GAAACTACCCCAAGTGAGATAAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTT
131 GAAACTACCCCAAGCGAGATAAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTT
*
208180 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTTAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
* *
208245 GAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTAGTTTCAAGG
66 AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGG
*
208310 GAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGTTTTCAATGTTTATGTT
131 GAAACTACCCCAAGCGAGATAAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTT
* * * *
208369 TCAAGGTAGACAAAATTCCGTTTCAAGAGAAACTATCTCAATCGAGATAAAATTCGTTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
*
208434 AAAGGTTTTCAATGTTTATGTTTCAAG
66 AAATGTTTTCAATGTTTATGTTTCAAG
208461 GGAGACAAAA
Statistics
Matches: 259, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 259 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (189 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTAGTTTCAAGG
GAAACTACCCCAAGCGAGATAAAATTTATTTAAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:208227 original size:87 final size:87
Alignment explanation
Indices: 208093--208271 Score: 279
Period size: 87 Copynumber: 2.1 Consensus size: 87
208083 AGAAACTGTC
* * *
208093 TCAAGGGAGACAAAATTTTGTTTCAATGGAAACTACCCCAAGTGAGATAAAATTTATTTAAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGTGAGATAAAATTCATTTAAAGGG
208158 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * *
208180 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAA-TCGAGATAAAATTCATTTTAAGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGT-GAGATAAAATTCATTTAAAGG
*
208244 GGAATGTTTTCAATGTTTATGTT
65 GAAATGTTTTCAATGTTTATGTT
208267 TCAAG
1 TCAAG
208272 AGAAATTGTC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 83 0.99
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGTGAGATAAAATTCATTTAAAGGG
AAATGTTTTCAATGTTTATGTT
Found at i:208266 original size:102 final size:103
Alignment explanation
Indices: 208180--208373 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 103
208170 TGTTTATGTT
* * * * *
208180 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTTAAGGG
1 TCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
*
208245 GAATGTTTTCAATGTTTATG-TTTCAAGAGAAATTGTC
66 AAATGTTTTCAATGTTTATGTTTTCAAGAGAAATTGTC
*
208282 TCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
208347 AAATGTTTTCAATGTTTATG-TTTCAAG
66 AAATGTTTTCAATGTTTATGTTTTCAAG
208374 GTAGACAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (103 bp):
TCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTTTTCAAGAGAAATTGTC
Found at i:208342 original size:87 final size:87
Alignment explanation
Indices: 208282--208547 Score: 442
Period size: 87 Copynumber: 3.1 Consensus size: 87
208272 AGAAATTGTC
* * * * *
208282 TCAAGGGAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
208347 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
* * * *
208369 TCAAGGTAGACAAAATTCCGTTTCAAGAGAAACTATCTCAATCGAGATAAAATTCGTTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
*
208434 AAAGGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
208456 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
1 TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
208521 AAATGTTTTCAATGTTTATGTT
66 AAATGTTTTCAATGTTTATGTT
208543 TCAAG
1 TCAAG
208548 AGAAACTGTC
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 164 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (87 bp):
TCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGG
AAATGTTTTCAATGTTTATGTT
Found at i:208647 original size:276 final size:276
Alignment explanation
Indices: 208093--208652 Score: 813
Period size: 276 Copynumber: 2.0 Consensus size: 276
208083 AGAAACTGTC
** *
208093 TCAAGGGAGACAAAATTTTGTTTCAATGGAAACTACCCCAAGTGAGATAAAATTTATTTAAAGGG
1 TCAAGGGAGACAAAATTCCGTTTCAATGGAAACTACCCCAAGTGAGATAAAATTCATTTAAAGGG
*
208158 AAATGTTTTCAATGTTTATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATC
66 AAAGGTTTTCAATGTTTATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATC
* * *
208223 GAGATAAAATTCATTTTAAGGGGAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGG
131 GAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
* ** * * * **
208288 GAGACAAAATTTAGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTTATTTCAAGGGAAATGT
196 GAGACAAAATTTAGTTCCAAAAGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAACAT
* *
208353 TTTCAATGTTTATGTT
261 ATTCAATATTTATGTT
* * * * *
208369 TCAAGGTAGACAAAATTCCGTTTCAA-GAGAAACTATCTCAA-TCGAGATAAAATTCGTTTCAAG
1 TCAAGGGAGACAAAATTCCGTTTCAATG-GAAACTACCCCAAGT-GAGATAAAATTCATTTAAAG
208432 GGAAAGGTTTTCAATGTTTATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAA
64 GGAAAGGTTTTCAATGTTTATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAA
208497 TCGAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
129 TCGAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAA
** * * *
208562 GGGAGACAAAATTTAGTTCCAAAAGAAAATGTCTCAAGGGAGACAAAA-TTAGTTTCAATGAAAA
194 GGGAGACAAAATTTAGTTCCAAAAGAAAATACCCCAAGCGAGACAAAATTTA-TTTCAAGGAAAA
208626 CATATTCAAATATTT-TGTT
258 CATATTC-AATATTTATGTT
208645 TCAAGGGA
1 TCAAGGGA
208653 AACTTGGAAA
Statistics
Matches: 252, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
275 5 0.02
276 241 0.96
277 6 0.02
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (276 bp):
TCAAGGGAGACAAAATTCCGTTTCAATGGAAACTACCCCAAGTGAGATAAAATTCATTTAAAGGG
AAAGGTTTTCAATGTTTATGTTTCAAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATC
GAGATAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGG
GAGACAAAATTTAGTTCCAAAAGAAAATACCCCAAGCGAGACAAAATTTATTTCAAGGAAAACAT
ATTCAATATTTATGTT
Found at i:208985 original size:106 final size:106
Alignment explanation
Indices: 208820--209122 Score: 399
Period size: 106 Copynumber: 2.9 Consensus size: 106
208810 ATCCTCTGCC
* * * * *
208820 GTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTTTTTGTTGACAACCAGCCGTCCCTTCGCTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGT
* * * * *
208885 GAAGTTGAGCTTGTGCTGTTTCGAGTCCAATATCATTCATT
66 GAAGTTGAACTTGTGTTGTCTCGAGTCAAATATCATTCACT
* * * * *
208926 GTGAAGTTAAAATTAGCCCTGAAATTAGGAAATTATTTGATGACAACCAACCGTCCCTTCATTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGT
* *
208991 GAAGTTGAACTTGTGTTGTCTCGAGTCAAATATCCTTCGCT
66 GAAGTTGAACTTGTGTTGTCTCGAGTCAAATATCATTCACT
* * * * *
209032 GTGAAGTTTAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCATCCATTCGTTGT
1 GTGAAGTTAAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGT
*
209097 GGAGTTGAACTTGTGTTGTCTCGAGT
66 GAAGTTGAACTTGTGTTGTCTCGAGT
209123 GGCACGATAT
Statistics
Matches: 169, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 169 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (106 bp):
GTGAAGTTAAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGT
GAAGTTGAACTTGTGTTGTCTCGAGTCAAATATCATTCACT
Found at i:210797 original size:69 final size:69
Alignment explanation
Indices: 210684--210818 Score: 198
Period size: 69 Copynumber: 2.0 Consensus size: 69
210674 CTCTCTCTTG
* * *
210684 ATGCTCCATGAACTTCGAGTGGAGTGATTCAGTAATTCAGAAATGATTATGCTTTATCAATCTCA
1 ATGCTCCATGAACTTCGAGTGAAGTGATTCAGTAATTCAAAAATGATTATGCTTGATCAATCTCA
210749 TTTT
66 TTTT
* * * * *
210753 ATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCAAAAATGATTGTGCTTGATCAATCTCA
1 ATGCTCCATGAACTTCGAGTGAAGTGATTCAGTAATTCAAAAATGATTATGCTTGATCAATCTCA
210818 T
66 T
210819 AGTTTGAATC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (69 bp):
ATGCTCCATGAACTTCGAGTGAAGTGATTCAGTAATTCAAAAATGATTATGCTTGATCAATCTCA
TTTT
Found at i:210906 original size:12 final size:13
Alignment explanation
Indices: 210891--210932 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
210881 TTTTCTTCAA
210891 TTTTC-CTTTGTTT
1 TTTTCTCTTTG-TT
*
210904 TTTTCTCTTT-TA
1 TTTTCTCTTTGTT
210916 TTTTCTCTTTGTT
1 TTTTCTCTTTGTT
210929 TTTT
1 TTTT
210933 TTTCTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.44
13 10 0.40
14 4 0.16
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:210932 original size:26 final size:25
Alignment explanation
Indices: 210879--210949 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 25
210869 TCTTGTCTTC
*
210879 TTTTTTCT-TCAATTTTC-CTTTGT
1 TTTTTTCTCTCTATTTTCTCTTTGT
*
210902 TTTTTTCTCTTTTATTTTCTCTTTGT
1 TTTTTTCTC-TCTATTTTCTCTTTGT
*
210928 TTTTTTTTCTCT-TTTTCTCTTT
1 TTTTTTCTCTCTATTTTCTCTTT
210950 TGCTTTGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 8 0.20
24 10 0.24
25 9 0.22
26 14 0.34
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTTTCTCTCTATTTTCTCTTTGT
Found at i:210935 original size:16 final size:16
Alignment explanation
Indices: 210911--210941 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
210901 TTTTTTTCTC
210911 TTTTATTTTCTCTTTG
1 TTTTATTTTCTCTTTG
*
210927 TTTTTTTTTCTCTTT
1 TTTTATTTTCTCTTT
210942 TTCTCTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATTTTCTCTTTG
Found at i:210940 original size:28 final size:25
Alignment explanation
Indices: 210890--210942 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 25
210880 TTTTTCTTCA
210890 ATTTTCCTTTGTTTTTTTCTCTTTT
1 ATTTTCCTTTGTTTTTTTCTCTTTT
210915 ATTTTCTCTTTGTTTTTTTTTCTCTTTT
1 ATTTTC-CTTTG--TTTTTTTCTCTTTT
210943 TCTCTTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
28 14 0.56
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (25 bp):
ATTTTCCTTTGTTTTTTTCTCTTTT
Found at i:213609 original size:9 final size:9
Alignment explanation
Indices: 213552--213618 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
213542 ATAGTAAGTA
213552 AAATAAATAT
1 AAATAAA-AT
213562 AAA-AAAAT
1 AAATAAAAT
*
213570 AAAGAAAA-
1 AAATAAAAT
* *
213578 AGAAGAAAAA
1 A-AATAAAAT
213588 AATATATAAAT
1 AA-ATA-AAAT
213599 AAATAAAAT
1 AAATAAAAT
213608 AAATAAAAT
1 AAATAAAAT
213617 AA
1 AA
213619 TAATAAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
8 6 0.12
9 30 0.60
10 9 0.18
11 5 0.10
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (9 bp):
AAATAAAAT
Found at i:213615 original size:29 final size:28
Alignment explanation
Indices: 213566--213625 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
213556 AAATATAAAA
213566 AAATAAAGAAAAAGAAGAAAAAAATATAT
1 AAATAAAGAAAAAGAAGAAAAAAATA-AT
* * *
213595 AAATAAATAAAATA-AATAAAATAATAAT
1 AAATAAAGAAAA-AGAAGAAAAAAATAAT
213623 AAA
1 AAA
213626 AATGTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 21 0.78
30 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (28 bp):
AAATAAAGAAAAAGAAGAAAAAAATAAT
Found at i:213627 original size:38 final size:36
Alignment explanation
Indices: 213554--213665 Score: 109
Period size: 38 Copynumber: 3.0 Consensus size: 36
213544 AGTAAGTAAA
* * *
213554 ATAAATATAAAAAAATAAAGAAAAAGAAGAAAAAAATAT
1 ATAAATA-AATAAAATAAA-TAAAA-AATAAAAAAATAT
*
213593 ATAAATAAATAAAATAAATAAAATAATAATAAAAATGT
1 ATAAATAAATAAAATAAATAAAA-AATAA-AAAAATAT
* *
213631 ATATATATATATAAA-AAATAAAAAATAAAAAAATA
1 ATAAATAAATA-AAATAAATAAAAAATAAAAAAATA
213666 GTAAATATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
36 6 0.10
37 13 0.21
38 34 0.54
39 10 0.16
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (36 bp):
ATAAATAAATAAAATAAATAAAAAATAAAAAAATAT
Found at i:213722 original size:43 final size:40
Alignment explanation
Indices: 213558--213731 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
213548 AGTAAAATAA
* * *
213558 ATATA-AAAAAATAAAGAAA-AAGAAGAAAAAA-ATATATAA
1 ATATATAAAAAATAAA-AAATAATAA-AAAAAATGTATATAT
* * *
213597 ATAAATAAAATAA-ATAAAATAATAATAAAAATGTATATAT
1 ATATATAAAA-AATAAAAAATAATAAAAAAAATGTATATAT
* *
213637 ATATATAAAAAATAAAAAATAAAAAAATAGTAAATATATATAT
1 ATATATAAAAAATAAAAAATAATAAAA-A--AAATGTATATAT
*
213680 ATATATATAAATTAATAAAACTGATAATAAAAAAAATGTATATAT
1 ATATATA-AAA--AATAAAA--AATAATAAAAAAAATGTATATAT
213725 ATATATA
1 ATATATA
213732 TATATATATA
Statistics
Matches: 108, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
39 14 0.13
40 36 0.33
41 3 0.03
43 18 0.17
44 3 0.03
45 18 0.17
46 7 0.06
47 1 0.01
48 8 0.07
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.28
Consensus pattern (40 bp):
ATATATAAAAAATAAAAAATAATAAAAAAAATGTATATAT
Found at i:213723 original size:2 final size:2
Alignment explanation
Indices: 213718--213747 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
213708 AAAAAAAATG
213718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
213748 ATCTAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:214017 original size:21 final size:21
Alignment explanation
Indices: 213991--214040 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
213981 GTTTTGCATT
*
213991 TGTATTTTCCGTGCTTTCCTC
1 TGTATTTTCCATGCTTTCCTC
* *
214012 TGTATTTTCCATGTTTTTCTC
1 TGTATTTTCCATGCTTTCCTC
214033 TGTATTTT
1 TGTATTTT
214041 GTATGTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.08, C:0.20, G:0.12, T:0.60
Consensus pattern (21 bp):
TGTATTTTCCATGCTTTCCTC
Found at i:216727 original size:15 final size:15
Alignment explanation
Indices: 216703--216739 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
216693 TCGGATCGAG
216703 TTTAGGTCGAGTTAT
1 TTTAGGTCGAGTTAT
*
216718 TTTAGTTCGAGTTAT
1 TTTAGGTCGAGTTAT
216733 TTTAGGT
1 TTTAGGT
216740 TTAGATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.24, T:0.51
Consensus pattern (15 bp):
TTTAGGTCGAGTTAT
Found at i:217314 original size:9 final size:10
Alignment explanation
Indices: 217294--217356 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 10
217284 ACATAACTAA
217294 ATTTTATATT
1 ATTTTATATT
217304 ATTTT-TATT
1 ATTTTATATT
*
217313 ATAAATCTAATATT
1 AT---T-TTATATT
217327 ATTTTAT-TT
1 ATTTTATATT
*
217336 ATTTTCTATT
1 ATTTTATATT
217346 ATTTT-TATT
1 ATTTTATATT
217355 AT
1 AT
217357 AAATCTAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
9 20 0.45
10 15 0.34
11 1 0.02
12 1 0.02
13 1 0.02
14 6 0.14
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTATATT
Found at i:217318 original size:23 final size:23
Alignment explanation
Indices: 217291--217375 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 23
217281 GTAACATAAC
217291 TAAATTTTATATTATTTTTATTA
1 TAAATTTTATATTATTTTTATTA
* *
217314 TAAATCTAATATTA-TTTTATT-
1 TAAATTTTATATTATTTTTATTA
*
217335 T--ATTTTCTATTATTTTTATTA
1 TAAATTTTATATTATTTTTATTA
*
217356 TAAA-TCTA-A-TATTTTTATTA
1 TAAATTTTATATTATTTTTATTA
217376 CAAGTAAGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
19 8 0.16
20 18 0.35
21 3 0.06
22 9 0.18
23 13 0.25
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TAAATTTTATATTATTTTTATTA
Found at i:217640 original size:32 final size:32
Alignment explanation
Indices: 217601--217692 Score: 105
Period size: 32 Copynumber: 2.8 Consensus size: 32
217591 TTTTTGGTTT
*
217601 AGGTTAAATTTAATTCGGGTTGCTTTCAAGTC
1 AGGTTAAATTCAATTCGGGTTGCTTTCAAGTC
* * *
217633 -GGATTAAATTCAATTCAGGTTACTTTCGAGTC
1 AGG-TTAAATTCAATTCGGGTTGCTTTCAAGTC
**
217665 AGGTTAAAATTCGGTTCGGGTTGCTTTC
1 AGGTT-AAATTCAATTCGGGTTGCTTTC
217693 GATTTCGCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
31 2 0.04
32 27 0.55
33 20 0.41
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (32 bp):
AGGTTAAATTCAATTCGGGTTGCTTTCAAGTC
Found at i:218816 original size:6 final size:6
Alignment explanation
Indices: 218805--218837 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
218795 AGGTACTTTA
218805 TATGTG TATGTG TATGTG TATGTG TATGTG TAT
1 TATGTG TATGTG TATGTG TATGTG TATGTG TAT
218838 AAATAGTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (6 bp):
TATGTG
Found at i:225342 original size:211 final size:211
Alignment explanation
Indices: 224978--225399 Score: 835
Period size: 211 Copynumber: 2.0 Consensus size: 211
224968 ATAGAGACCA
224978 CTTGACTATAGTGTGATTTCAATTTGATAATTGATCTATTAGTTTTAGTTTAAGGTTAGATTTAT
1 CTTGACTATAGTGTGATTTCAATTTGATAATTGATCTATTAGTTTTAGTTTAAGGTTAGATTTAT
225043 AATTTATTAACAAAATTTATCTAAATAACATCAATTAAATCATTTATCATTAATATTTAACAAAA
66 AATTTATTAACAAAATTTATCTAAATAACATCAATTAAATCATTTATCATTAATATTTAACAAAA
225108 AATGATATAATAATTAAAAAATAAGTATAGTTAGCCGTTCTATCGATTTAATTTGAATTTTTATG
131 AATGATATAATAATTAAAAAATAAGTATAGTTAGCCGTTCTATCGATTTAATTTGAATTTTTATG
225173 AAGGAATCATATTTGG
196 AAGGAATCATATTTGG
225189 CTTGACTATAGTGTGATTTCAATTTGATAATTGATCTATTAGTTTTAGTTTAAGGTTAGATTTAT
1 CTTGACTATAGTGTGATTTCAATTTGATAATTGATCTATTAGTTTTAGTTTAAGGTTAGATTTAT
*
225254 AATTTATTAACAAAATTTATCTAAATAACATCAATTAATTCATTTATCATTAATATTTAACAAAA
66 AATTTATTAACAAAATTTATCTAAATAACATCAATTAAATCATTTATCATTAATATTTAACAAAA
225319 AATGATATAATAATTAAAAAATAAGTATAGTTAGCCGTTCTATCGATTTAATTTGAATTTTTATG
131 AATGATATAATAATTAAAAAATAAGTATAGTTAGCCGTTCTATCGATTTAATTTGAATTTTTATG
225384 AAGGAATCATATTTGG
196 AAGGAATCATATTTGG
225400 ATTTGTATGG
Statistics
Matches: 210, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 210 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (211 bp):
CTTGACTATAGTGTGATTTCAATTTGATAATTGATCTATTAGTTTTAGTTTAAGGTTAGATTTAT
AATTTATTAACAAAATTTATCTAAATAACATCAATTAAATCATTTATCATTAATATTTAACAAAA
AATGATATAATAATTAAAAAATAAGTATAGTTAGCCGTTCTATCGATTTAATTTGAATTTTTATG
AAGGAATCATATTTGG
Found at i:226010 original size:15 final size:17
Alignment explanation
Indices: 225990--226029 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
225980 GGTAATTCTT
225990 TTATTTTTATT-T-TTC
1 TTATTTTTATTCTATTC
226005 TTATTTTTATTCTATTC
1 TTATTTTTATTCTATTC
*
226022 TAATTTTT
1 TTATTTTT
226030 TTCAATCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTATTCTATTC
Found at i:242468 original size:13 final size:13
Alignment explanation
Indices: 242431--242470 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
242421 TCTTCATTGA
242431 AAAATAAATA-TT
1 AAAATAAATATTT
*
242443 AAAATAATTTATTT
1 AAAATAA-ATATTT
242457 AAAATAAATATTT
1 AAAATAAATATTT
242470 A
1 A
242471 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:242473 original size:21 final size:23
Alignment explanation
Indices: 242449--242494 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
242439 TATTAAAATA
242449 ATTTATT-TA-AAATAAATATTT
1 ATTTATTATATAAATAAATATTT
* *
242470 ATTTATTATATATATATATATTT
1 ATTTATTATATAAATAAATATTT
242493 AT
1 AT
242495 GACTACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 2 0.10
23 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTATTATATAAATAAATATTT
Found at i:243645 original size:19 final size:19
Alignment explanation
Indices: 243623--243668 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
243613 GGGTCTTCTG
* **
243623 GAGGCGGCTGGAAGCTGTT
1 GAGGCGGCTGGAAACCATT
243642 GAGGCGGCTGGAAACCATT
1 GAGGCGGCTGGAAACCATT
243661 GAGGCGGC
1 GAGGCGGC
243669 GGCACACGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.15
Consensus pattern (19 bp):
GAGGCGGCTGGAAACCATT
Found at i:243799 original size:3 final size:3
Alignment explanation
Indices: 243791--243868 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
243781 TTAATGTATT
* * *
243791 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
243839 TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
243869 ATAAATTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:243878 original size:15 final size:16
Alignment explanation
Indices: 243794--243879 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 16
243784 ATGTATTTAA
*
243794 TAATAAT-AATAATAA
1 TAATAATAAATAATAT
243809 TAATAAT-AATAATAT
1 TAATAATAAATAATAT
* *
243824 TTATAATAATTATAATAA
1 TAATAATAA--ATAATAT
* *
243842 TAATAATTATAATTATAA
1 TAATAA-TA-AATAATAT
243860 TAATAATAAATAA-AT
1 TAATAATAAATAATAT
243875 TAATA
1 TAATA
243880 TGGGTAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
15 26 0.44
16 5 0.08
17 2 0.03
18 23 0.39
19 2 0.03
20 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAAATAATAT
Found at i:244408 original size:225 final size:225
Alignment explanation
Indices: 244091--244647 Score: 901
Period size: 226 Copynumber: 2.5 Consensus size: 225
244081 GTGACAGAGT
* ** * * *
244091 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC--CT-CTTCTTCAGATGAGTTCTTTTTAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCAT
*** *
244153 TATGAACTTTCTCTGGAAATTTTAATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAATT
244218 CTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
131 CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
* *
244282 AAAGATAATCCATCA-AGTGAT-AGATTTGAG
196 AAAGATAATCCATCATA-TGATGA-ATTTAAA
244312 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCA
244377 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
65 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAAT
244442 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
130 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
244507 AAAAGATAATCCATCATATGATGAATTTAAA
195 AAAAGATAATCCATCATATGATGAATTTAAA
*
244538 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCA
* *
244603 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
65 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTT
244648 AAAGCTTTGC
Statistics
Matches: 313, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
221 32 0.10
223 1 0.00
224 1 0.00
225 108 0.35
226 169 0.54
227 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (225 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAGCGAAAGGTTGAACAAATT
CTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGA
AAAGATAATCCATCATATGATGAATTTAAA
Found at i:244650 original size:113 final size:113
Alignment explanation
Indices: 244091--244647 Score: 768
Period size: 113 Copynumber: 5.0 Consensus size: 113
244081 GTGACAGAGT
* ** * * *
244091 CAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTC--C-T-CTTCTTCAGATGAGTTCTTTTTA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
***
244152 TTATGAACTTTCTCTGGAAATTTTAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
244200 CGAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
****
244264 TTATGAACTCGAACTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
*
244312 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
244377 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATAGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
* *
244425 CGAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * *
244490 TTATGAACTCGAACTGGAAAAGATAATCCATCATA-TGAT-GAATTTAAA
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCA-AGTGATAG-ATTTGAG
*
244538 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
244603 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTT
66 TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTT
244648 AAAGCTTTGC
Statistics
Matches: 395, Mismatches: 44, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
109 30 0.08
111 1 0.00
112 103 0.26
113 259 0.66
114 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGATAATCCATCAAGTGATAGATTTGAG
Found at i:245554 original size:85 final size:84
Alignment explanation
Indices: 245372--245921 Score: 889
Period size: 85 Copynumber: 6.6 Consensus size: 84
245362 CCTACCGAAT
*
245372 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCATATTCATTTTCC-AATTGC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATTTTCCAAATT-C
* *
245435 AATGATTGGTTCTGCCAAAC
65 AATGATTGGTTTTACCAAAC
*
245455 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCCAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT-TTTCCAAATTC
245520 AATGATTGGTTTTACCAAAC
65 AATGATTGGTTTTACCAAAC
* * *
245540 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTA-TGAGCATATTCATTTTCCAACTTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATTTTCCAAATTCA
245604 ATGATTGGTTTTACCAAAC
66 ATGATTGGTTTTACCAAAC
* *
245623 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTA-TGAGCATATTCATTTTCC-AATTGC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATTTTCCAAATT-C
* *
245686 AATGATTGGTTCTGCCAAAC
65 AATGATTGGTTTTACCAAAC
*
245706 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCCAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCAT-TTTCCAAATTC
245771 AATGATTGGTTTTACCAAAC
65 AATGATTGGTTTTACCAAAC
245791 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGGCACATTCATCTTTCCAAATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGA-GCACATTCAT-TTTCCAAATT
245855 CAATGATTGGTTTTACCAAAC
64 CAATGATTGGTTTTACCAAAC
245876 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCAC
245922 CTGGCATTTG
Statistics
Matches: 441, Mismatches: 17, Indels: 17
0.93 0.04 0.04
Matches are distributed among these distances:
82 3 0.01
83 183 0.41
84 38 0.09
85 209 0.47
86 8 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (84 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATTTTCCAAATTCA
ATGATTGGTTTTACCAAAC
Found at i:245650 original size:168 final size:167
Alignment explanation
Indices: 245372--245920 Score: 924
Period size: 168 Copynumber: 3.3 Consensus size: 167
245362 CCTACCGAAT
245372 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTGCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATT-CAA
* *
245437 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
65 TGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
245502 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
130 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
*
245540 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCATATTCATTTTCCAACTTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAA-TTCAA
* * *
245605 TGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTA-TGAGCAT
65 TGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
* *
245669 ATTCAT-TTTCC-AATTGCAATGATTGGTTCTGCCAAAC
130 ATTCATCTTTCCAAATT-CAATGATTGGTTTTACCAAAC
* *
245706 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCCAAATTC
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCATATTCAT-TTTCC-AATTC
*
245771 AATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGGC
63 AATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGC
245836 ACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
128 ACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
245876 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
245921 CCTGGCATTT
Statistics
Matches: 355, Mismatches: 18, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
165 4 0.01
166 62 0.17
167 22 0.06
168 181 0.51
169 19 0.05
170 63 0.18
171 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (167 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTCAAT
GATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACA
TTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
Found at i:245815 original size:251 final size:253
Alignment explanation
Indices: 245372--245920 Score: 1039
Period size: 251 Copynumber: 2.2 Consensus size: 253
245362 CCTACCGAAT
245372 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTGCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTGCAA
245437 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
66 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
245502 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
131 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
* * *
245567 CAGAAGATGTTATGA-GCATATTCAT-TTTCCAACTTCAATGATTGGTTTTACCAAAC
196 CAGAAGATGCTATGAGGCACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
*
245623 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAGCATATTCATTTTCCAATTGCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTGCAA
245688 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
66 TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
245753 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
131 ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
*
245818 CAGAAGATGCTATTAGGCACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
196 CAGAAGATGCTATGAGGCACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
245876 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
245921 CCTGGCATTT
Statistics
Matches: 290, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
251 207 0.71
252 9 0.03
253 74 0.26
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (253 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATTTTCCAATTGCAA
TGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCAC
ATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC
CAGAAGATGCTATGAGGCACATTCATCTTTCCAAATTCAATGATTGGTTTTACCAAAC
Found at i:246972 original size:1 final size:1
Alignment explanation
Indices: 246968--247045 Score: 75
Period size: 1 Copynumber: 78.0 Consensus size: 1
246958 TTGACCCCCC
* * * * * * * *
246968 TTTTTTCTTTTTTTTTTCTTTTTTTTCTTTTTTTTTTCTTTTTTCTCTCTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
247033 TTTTCTTTTTTTT
1 TTTTTTTTTTTTT
247046 CTTTCTTTTC
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:246991 original size:20 final size:20
Alignment explanation
Indices: 246968--247055 Score: 133
Period size: 20 Copynumber: 4.3 Consensus size: 20
246958 TTGACCCCCC
246968 TTTTTTCTTTTTTTTTTCTT
1 TTTTTTCTTTTTTTTTTCTT
246988 TTTTTTCTTTTTTTTTTCTT
1 TTTTTTCTTTTTTTTTTCTT
*
247008 TTTTCTCTCTTTTTTTTTCTT
1 TTTTTTCT-TTTTTTTTTCTT
247029 TTTTTT-TTCTTTTTTTTCTT
1 TTTTTTCTT-TTTTTTTTCTT
*
247049 TCTTTTC
1 TTTTTTC
247056 AAGTATAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.71
21 17 0.27
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTCTT
Found at i:247054 original size:11 final size:11
Alignment explanation
Indices: 246968--247045 Score: 117
Period size: 11 Copynumber: 7.4 Consensus size: 11
246958 TTGACCCCCC
246968 TTTTTTCTTTT
1 TTTTTTCTTTT
246979 TTTTTTC--TT
1 TTTTTTCTTTT
246988 TTTTTTCTTTT
1 TTTTTTCTTTT
246999 TTTTTTCTTTT
1 TTTTTTCTTTT
* *
247010 TTCTCTC-TTT
1 TTTTTTCTTTT
247020 TTTTTTCTTTT
1 TTTTTTCTTTT
247031 TTTTTTCTTTT
1 TTTTTTCTTTT
247042 TTTT
1 TTTT
247046 CTTTCTTTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
9 9 0.15
10 8 0.13
11 43 0.72
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:254325 original size:14 final size:15
Alignment explanation
Indices: 254306--254338 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
254296 TATTCTTTCC
254306 AAATTTTA-ATTAAT
1 AAATTTTATATTAAT
*
254320 AAATTTTATCTTAAT
1 AAATTTTATATTAAT
254335 AAAT
1 AAAT
254339 AAAAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTTATATTAAT
Found at i:258404 original size:13 final size:13
Alignment explanation
Indices: 258367--258406 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
258357 TCTTCATTGA
258367 AAAATAAATA-TT
1 AAAATAAATATTT
*
258379 AAAATAATTTATTT
1 AAAATAA-ATATTT
258393 AAAATAAATATTT
1 AAAATAAATATTT
258406 A
1 A
258407 TTTATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATAAATATTT
Found at i:259534 original size:19 final size:19
Alignment explanation
Indices: 259512--259557 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
259502 GGGTCTTCTG
* **
259512 GAGGCGGCTGGAAGCTGTT
1 GAGGCGGCTGGAAACCATT
259531 GAGGCGGCTGGAAACCATT
1 GAGGCGGCTGGAAACCATT
259550 GAGGCGGC
1 GAGGCGGC
259558 GGCACACGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.46, T:0.15
Consensus pattern (19 bp):
GAGGCGGCTGGAAACCATT
Found at i:259685 original size:3 final size:3
Alignment explanation
Indices: 259677--259749 Score: 107
Period size: 3 Copynumber: 25.0 Consensus size: 3
259667 TTAATGTATT
*
259677 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TTA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
259723 TAA TAA T-A TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA
259750 ATAAATTAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
2 6 0.09
3 56 0.88
4 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:259759 original size:12 final size:11
Alignment explanation
Indices: 259678--259760 Score: 63
Period size: 9 Copynumber: 7.6 Consensus size: 11
259668 TAATGTATTT
259678 AATAAT-AAT-
1 AATAATAAATA
259687 AATAAT-AAT-
1 AATAATAAATA
259696 AATAATATAAT-
1 AATAATA-AATA
259707 AATAATTATAATA
1 AATAA-TA-AATA
259720 TAATAATAATATA
1 -AATAATAA-ATA
259733 AATAAT-AAT-
1 AATAATAAATA
259742 AATAATAAATA
1 AATAATAAATA
259753 AATTAATA
1 AA-TAATA
259761 TGGGTAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
9 21 0.32
10 5 0.08
11 11 0.17
12 18 0.28
13 5 0.08
14 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATAATAAATA
Found at i:266578 original size:91 final size:90
Alignment explanation
Indices: 266417--266589 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 90
266407 GTCCACTAAG
*
266417 AGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAATAGCCTGAGTGCATCGATGCATGGTCT
1 AGTGCATCGATGCATAAAATGCATTCAATGTTTT-AAATAGCCTGAGTGCATCGATGCATGGTCT
*
266482 TGTGCATCGATGCATCAAATGCACTA
65 GGTGCATCGATGCATCAAATGCACTA
* *
266508 AGTGCATCGATGCATAAAATGCATTCAATGTTCAATT-AAT-TCCATG-GTTCATCGATGCATGG
1 AGTGCATCGATGCATAAAATGCATTCAATGTT---TTAAATAGCC-TGAGTGCATCGATGCATGG
*
266570 AT-TGGTGCATCGGTGCATCA
62 -TCTGGTGCATCGATGCATCA
266590 CTTTGAAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
91 64 0.89
92 6 0.08
94 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (90 bp):
AGTGCATCGATGCATAAAATGCATTCAATGTTTTAAATAGCCTGAGTGCATCGATGCATGGTCTG
GTGCATCGATGCATCAAATGCACTA
Found at i:268830 original size:23 final size:21
Alignment explanation
Indices: 268787--268870 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
268777 CAGAACCCGT
*
268787 AGGGGGTATCGGTTCCC-TCA
1 AGGGGGAATCGGTTCCCTTCA
268807 AGGAGGGAATCGGTTCCCATTCAA
1 AGG-GGGAATCGGTTCCC-TTC-A
* **
268831 ATGGGGAATCATTTCCCCTTCA
1 AGGGGGAATCGGTT-CCCTTCA
* *
268853 AGGGGGTATCGATTCCCT
1 AGGGGGAATCGGTTCCCT
268871 CTGCACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 3 0.06
21 17 0.33
22 11 0.22
23 14 0.27
24 6 0.12
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCTTCA
Found at i:268868 original size:22 final size:22
Alignment explanation
Indices: 268787--268869 Score: 64
Period size: 23 Copynumber: 3.8 Consensus size: 22
268777 CAGAACCCGT
* *
268787 AGGGGGTATCGGTT-CCC-TCA
1 AGGGGGAATCGATTCCCCTTCA
* *
268807 AGGAGGGAATCGGTTCCCATTCAA
1 AGG-GGGAATCGATTCCCCTTC-A
*
268831 ATGGGGAATC-ATTTCCCCTTCA
1 AGGGGGAATCGA-TTCCCCTTCA
*
268853 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
268870 TCTGCACTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 3 0.06
21 10 0.20
22 16 0.32
23 18 0.36
24 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTCA
Found at i:274727 original size:16 final size:16
Alignment explanation
Indices: 274706--274736 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
274696 ATATCAAAAT
274706 GTTTTCAACAAATCAC
1 GTTTTCAACAAATCAC
*
274722 GTTTTCATCAAATCA
1 GTTTTCAACAAATCA
274737 AACATGGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (16 bp):
GTTTTCAACAAATCAC
Found at i:277985 original size:14 final size:14
Alignment explanation
Indices: 277966--277998 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
277956 GTATCAATAC
277966 CTTAAAATTTCAAA
1 CTTAAAATTTCAAA
277980 CTTAAAATTTCAAA
1 CTTAAAATTTCAAA
277994 CTTAA
1 CTTAA
277999 TTTGGGTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (14 bp):
CTTAAAATTTCAAA
Found at i:278706 original size:23 final size:23
Alignment explanation
Indices: 278679--278739 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
278669 TATGGTACTA
278679 CAGTGCATCTATACGCGGCACTT
1 CAGTGCATCTATACGCGGCACTT
*
278702 CAGTGCAATTCTAT--GTGGCACTT
1 CAGTGC-A-TCTATACGCGGCACTT
* *
278725 CGGTGCATTTATACG
1 CAGTGCATCTATACG
278740 AGTTGTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 4 0.13
22 1 0.03
23 20 0.65
24 1 0.03
25 5 0.16
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (23 bp):
CAGTGCATCTATACGCGGCACTT
Found at i:298737 original size:16 final size:16
Alignment explanation
Indices: 298712--298744 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
298702 CGAAACTCCC
298712 AACCCAATTTAATGTA
1 AACCCAATTTAATGTA
*
298728 AACCCGATTTAATGTA
1 AACCCAATTTAATGTA
298744 A
1 A
298745 GATATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (16 bp):
AACCCAATTTAATGTA
Found at i:306405 original size:21 final size:21
Alignment explanation
Indices: 306376--306419 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
306366 GTTATATAAT
*
306376 ATAACTTAAACTAACACACTA
1 ATAACTTAAACTAACAAACTA
* *
306397 ATAATTTAAATTAACAAACTA
1 ATAACTTAAACTAACAAACTA
306418 AT
1 AT
306420 TTAAATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:310064 original size:14 final size:14
Alignment explanation
Indices: 310045--310088 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
310035 GCAATAATGT
310045 ATATTATAAAAATA
1 ATATTATAAAAATA
*
310059 ATATTAATCAAAAGT-
1 ATATT-AT-AAAAATA
310074 ATATTATAAAAATA
1 ATATTATAAAAATA
310088 A
1 A
310089 AAGGGACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 7 0.28
16 5 0.20
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATTATAAAAATA
Found at i:310695 original size:106 final size:106
Alignment explanation
Indices: 310567--311359 Score: 1308
Period size: 106 Copynumber: 7.6 Consensus size: 106
310557 GTATTGTTCC
* * * ** * * *
310567 GAGTCCAATATCCTCCGATGTGAAGTTGAAATTGGTTCTGGGACTG-GAAAATTATTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGTTGTTTATTGACA
*
310631 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
310673 GAGTCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTG-TTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
310737 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
310778 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
310843 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
310884 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AA-TTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
310937 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
310978 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
311043 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
311084 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
311149 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
311190 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
311255 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
311296 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
311360 GACAACTTTT
Statistics
Matches: 646, Mismatches: 27, Indels: 28
0.92 0.04 0.04
Matches are distributed among these distances:
94 88 0.14
95 3 0.00
96 2 0.00
99 1 0.00
101 1 0.00
104 2 0.00
105 103 0.16
106 445 0.69
107 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:310913 original size:43 final size:43
Alignment explanation
Indices: 310852--311007 Score: 141
Period size: 43 Copynumber: 3.4 Consensus size: 43
310842 ACCAGCGGTC
310852 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * ** ***
310895 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTG--TCTGGA-GTCCA-ATAT
310945 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
310989 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
311008 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
43 40 0.48
44 1 0.01
45 3 0.04
46 7 0.08
48 7 0.08
49 3 0.04
50 1 0.01
51 22 0.26
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:311139 original size:306 final size:307
Alignment explanation
Indices: 310615--311352 Score: 1327
Period size: 306 Copynumber: 2.4 Consensus size: 307
310605 TGGGACTGGA
* *
310615 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
310680 ATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAAATTGAGAAGTTG-TTACTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAACCAGCGG
*
310744 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
310809 TTGGTTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
196 TTGGTTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
310874 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-G
261 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCG
310920 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
310985 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAACCAGCGG
311050 TCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
311115 TTGGTTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
196 TTGGTTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
311180 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
261 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--C-G
311230 AAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 AAATT-----G-T--TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
311295 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
58 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTT
311353 GTTGACAGAC
Statistics
Matches: 416, Mismatches: 4, Indels: 13
0.96 0.01 0.03
Matches are distributed among these distances:
305 109 0.26
306 191 0.46
310 6 0.01
315 1 0.00
316 1 0.00
318 108 0.26
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (307 bp):
AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTACTGACAACCAGCGG
TCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGTTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCG
Found at i:316033 original size:25 final size:26
Alignment explanation
Indices: 315997--316059 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
315987 TAATATATAT
*
315997 ATAATAAA-AAAAATAAACAG-AAATA
1 ATAA-AAATAAAAATAAACAGTAAAGA
*
316022 ATAAAAATAAAAATAATCAGTAAAGA
1 ATAAAAATAAAAATAAACAGTAAAGA
*
316048 ATAAAATTAAAA
1 ATAAAAATAAAA
316060 GAATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.09
25 15 0.45
26 15 0.45
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (26 bp):
ATAAAAATAAAAATAAACAGTAAAGA
Found at i:318325 original size:106 final size:105
Alignment explanation
Indices: 317804--319379 Score: 2226
Period size: 105 Copynumber: 15.1 Consensus size: 105
317794 CATTGTTCCA
* * ** * *
317804 AGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGGTTGTTGAAAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGG-AATTGTTTGTTGACAA
* * * *
317868 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * ** * * **
317910 AGTCCAACATCCTTCGTTGTGAAGTTGAAATTGATTCTG-AA-T--GAAAT-TTTGTTGAGAAGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
317970 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
318010 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAAC
318074 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * **
318115 ATTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-AATTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
* *
318179 AGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
318219 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAAC
*
318284 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
318325 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----G-AA----G--TTGTTTATTGAAAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
318379 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
318419 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAAC
*
318484 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
318525 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
318590 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
318630 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-TTGTTTGTTGACAAC
* *
318695 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCAGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
318736 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTATGAAATT-ATTGTTGACAAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGGAATTGTTTGTTGACAAC
*
318800 CAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
318841 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
318906 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
318946 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTATTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
* *
319011 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCAGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
319051 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTATGAAATT-ATTGTTGACAAG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGGAATTGTTTGTTGACAAC
319115 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
319156 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATCGGGAA-AATTTGTTGACAACC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
* *
319220 AGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
319260 AGTCCAATATCCTTCGATATGAAGTTGAAATTGGCTCTGAAATTTGGAAGTGTTTGTTGACAATC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
* * ** * *
319325 AGCCGCCCCTTCGTCAAGAAGTTGAGCTTGTGTTGTCTTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
* *
319366 A-TTCAAGATCCTTC
1 AGTCCAATATCCTTC
319380 ATTGAGAAGT
Statistics
Matches: 1332, Mismatches: 109, Indels: 59
0.89 0.07 0.04
Matches are distributed among these distances:
94 87 0.07
97 1 0.00
98 1 0.00
99 2 0.00
100 81 0.06
101 6 0.00
102 3 0.00
103 1 0.00
104 199 0.15
105 625 0.47
106 322 0.24
107 4 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:318353 original size:43 final size:43
Alignment explanation
Indices: 318292--318447 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
318282 ACCAGTGGTC
318292 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * ** ***
318335 CCTTCGTTGTGAAGTTGAAATTGGGAAGTTGTTTATTGAAAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTT--G-CGTTG--T-CTGGAGTCCA-ATAT
318385 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
318429 CCTTCG-CTGTGAAGTTGAA
1 CCTTCGTC-GTGAAGTTGAA
318448 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 20, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
42 1 0.01
43 37 0.44
44 1 0.01
45 7 0.08
46 5 0.06
48 5 0.06
49 7 0.08
50 1 0.01
51 20 0.24
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:318630 original size:211 final size:210
Alignment explanation
Indices: 318350--319379 Score: 1589
Period size: 211 Copynumber: 4.9 Consensus size: 210
318340 GTTGTGAAGT
* * *
318350 TGAAATTGGGAAGTTGTTTATTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
318415 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGA
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATTTTTGTTGA
*
318480 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGT
129 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGT
318545 GAAGTTGAAATTGGCTC
194 GAAGTTGAAATTGGCTC
*
318562 TGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* *
318627 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGAC
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATTTTTGTTGAC
* *
318692 AACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCAGGAGTCCAATATCCTTCGCTGTG
130 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
318757 AAGTTGAAATTGGCTC
195 AAGTTGAAATTGGCTC
** * *
318773 TGAAATTATGAAAT-TATTGTTGACAAGCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGGGAAATGT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
318837 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGAC
65 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTGTTGAC
318902 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
130 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTG
318967 AAGTTGAAATTGGCTC
195 AAGTTGAAATTGGCTC
* * * *
318983 TGAAATTGGGAATTTTTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* ** *
319048 AGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTATGAAATTATTGTTGACA
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTGTTGACA
*
319113 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
319178 AGTTGAAATTGGCTC
196 AGTTGAAATTGGCTC
* * * *
319193 TGAAATCGGGAAA-ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTC
1 TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
* * * * *
319257 TGGAGTCCAATATCCTTCGATATGAAGTTGAAATTGGCTCTGAAATTTGGAAGTGTTTGTTGACA
66 TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTGTTGACA
* * * ** * * * *
319322 ATCAGCCGCCCCTTCGTCAAGAAGTTGAGCTTGTGTTGTCTTGGA-TTCAAGATCCTTC
131 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTC
319380 ATTGAGAAGT
Statistics
Matches: 759, Mismatches: 56, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
209 147 0.19
210 298 0.39
211 303 0.40
212 11 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (210 bp):
TGAAATTGGGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGGCTC
Found at i:323189 original size:25 final size:26
Alignment explanation
Indices: 323153--323215 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
323143 TAATATATAT
*
323153 ATAATAAA-AAAAATAAACAG-AAATA
1 ATAA-AAATAAAAATAAACAGTAAAGA
*
323178 ATAAAAATAAAAATAATCAGTAAAGA
1 ATAAAAATAAAAATAAACAGTAAAGA
*
323204 ATAAAATTAAAA
1 ATAAAAATAAAA
323216 GAATAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.09
25 15 0.45
26 15 0.45
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (26 bp):
ATAAAAATAAAAATAAACAGTAAAGA
Found at i:323274 original size:27 final size:27
Alignment explanation
Indices: 323131--323289 Score: 71
Period size: 26 Copynumber: 5.9 Consensus size: 27
323121 TAAAAGAATT
*
323131 AAAAAAATAAC-ATAATATATATATAATA
1 AAAAAAATAACAAAAATA-ATAT-TAATA
*
323159 AAAAAAATAAACAGAAATAATA--AA-A
1 AAAAAAAT-AACAAAAATAATATTAATA
* * * * *
323184 ATAAAAATAATCAGTAAAGAATA-AAATT
1 AAAAAAATAA-CA-AAAATAATATTAATA
* * * * * *
323212 AAAAGAATAATAAAAA-GATCTAAATG
1 AAAAAAATAACAAAAATAATATTAATA
* *
323238 AAATATATAACAAAAATAATATTAATA
1 AAAAAAATAACAAAAATAATATTAATA
*
323265 AAAAAAATAA-ATTAAATAATATTAA
1 AAAAAAATAACA-AAAATAATATTAA
323290 ATAGAACAAA
Statistics
Matches: 98, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
24 2 0.02
25 12 0.12
26 29 0.30
27 29 0.30
28 16 0.16
29 6 0.06
30 4 0.04
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (27 bp):
AAAAAAATAACAAAAATAATATTAATA
Found at i:323283 original size:18 final size:18
Alignment explanation
Indices: 323244--323279 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
323234 AATGAAATAT
*
323244 ATAACAAAAATAATATTA
1 ATAAAAAAAATAATATTA
323262 ATAAAAAAAATAA-ATTA
1 ATAAAAAAAATAATATTA
323279 A
1 A
323280 ATAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAAAAATAATATTA
Found at i:330090 original size:2 final size:2
Alignment explanation
Indices: 330085--330114 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
330075 ATTATTTATT
330085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
330115 GTTTGAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:330147 original size:36 final size:37
Alignment explanation
Indices: 330099--330288 Score: 121
Period size: 36 Copynumber: 5.1 Consensus size: 37
330089 TATATATATA
*
330099 TATATATATATATATAGTTTGAAATCA-TTTTGAAAAC
1 TATATA-ATATATATAGTTTGAAAACATTTTTGAAAAC
* ** *
330136 TATATAATATATGTTTTTTAAAAAAAAAAACA-TTTTGAAAA-
1 TATATAATATATATAGTTT------GAAAACATTTTTGAAAAC
*
330177 TATATAATATATAGT-TTTTGAAAACATTTTTGAAAAC
1 TATATAATATATA-TAGTTTGAAAACATTTTTGAAAAC
**
330214 -ATAT-ATATTATATAGTTTTTGAAGTCATTTTTGAAAAC
1 TATATAATA-TATATAG--TTTGAAAACATTTTTGAAAAC
* *
330252 -ATATAACATATA-A-TTTCAAAACATTTTTG-AAAC
1 TATATAATATATATAGTTTGAAAACATTTTTGAAAAC
330285 TATA
1 TATA
330289 AGTTTGAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 33
0.73 0.08 0.19
Matches are distributed among these distances:
33 4 0.03
34 16 0.13
35 10 0.08
36 27 0.22
37 7 0.06
38 27 0.22
39 2 0.02
41 16 0.13
42 15 0.12
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (37 bp):
TATATAATATATATAGTTTGAAAACATTTTTGAAAAC
Found at i:330208 original size:12 final size:12
Alignment explanation
Indices: 330191--330215 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
330181 TAATATATAG
330191 TTTTTGAAAACA
1 TTTTTGAAAACA
330203 TTTTTGAAAACA
1 TTTTTGAAAACA
330215 T
1 T
330216 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:330227 original size:38 final size:38
Alignment explanation
Indices: 330162--330283 Score: 143
Period size: 38 Copynumber: 3.4 Consensus size: 38
330152 TTTAAAAAAA
330162 AAAACA-TTTTG-AAA-ATATATAATATATAGTTTTTG
1 AAAACATTTTTGAAAACATATATAATATATAGTTTTTG
*
330197 AAAACATTTTTGAAAACATATATATTATATAGTTTTTG
1 AAAACATTTTTGAAAACATATATAATATATAGTTTTTG
** *
330235 AAGTCATTTTTGAAAACATATA-ACATATA-A---TTTC
1 AAAACATTTTTGAAAACATATATA-ATATATAGTTTTTG
330269 AAAACATTTTTGAAA
1 AAAACATTTTTGAAA
330284 CTATAAGTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
34 16 0.21
35 6 0.08
36 5 0.07
37 5 0.07
38 44 0.58
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (38 bp):
AAAACATTTTTGAAAACATATATAATATATAGTTTTTG
Found at i:330315 original size:27 final size:25
Alignment explanation
Indices: 330259--330315 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
330249 AACATATAAC
*
330259 ATATAATTTCAAAACATTTTTGAAA
1 ATATAATTTCAAAACATTTTTAAAA
* * *
330284 CTATAAGTTTGAAAATATTTTTAAAAA
1 ATATAA-TTTCAAAACATTTTT-AAAA
330311 ATATA
1 ATATA
330316 TATAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 5 0.20
26 13 0.52
27 7 0.28
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (25 bp):
ATATAATTTCAAAACATTTTTAAAA
Found at i:330374 original size:38 final size:38
Alignment explanation
Indices: 330291--330380 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
330281 AAACTATAAG
*
330291 TTTGAAAATATTTTTAAAAAATATATATAATATATAAT
1 TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
* * **
330329 TTT-AAAATATTTTT-GAAAATATATATTATATAGGTT
1 TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
330365 TTTGAAAAATATTTTT
1 TTTG-AAAATATTTTT
330381 TATTATTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
36 20 0.44
37 11 0.24
38 14 0.31
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (38 bp):
TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
Found at i:331721 original size:2 final size:2
Alignment explanation
Indices: 331714--331748 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
331704 TATTTTTATT
331714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
331749 TGAAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:331783 original size:4 final size:4
Alignment explanation
Indices: 331774--331830 Score: 50
Period size: 4 Copynumber: 15.0 Consensus size: 4
331764 TTCCATTTGT
** *
331774 TTTA TTTA TTTA TTTA -ACA TTTA TTTA -TTA TTT- TTATT TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
331820 TTTA TTT- TTTA
1 TTTA TTTA TTTA
331831 CTAACATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
3 9 0.21
4 32 0.74
5 2 0.05
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:331815 original size:15 final size:14
Alignment explanation
Indices: 331792--331828 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
331782 TTTATTTAAC
331792 ATTTATTTATTA-TT
1 ATTTATTT-TTATTT
331806 -TTTATTTTTATTT
1 ATTTATTTTTATTT
331819 ATTTATTTTT
1 ATTTATTTTT
331829 TACTAACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 3 0.14
13 9 0.43
14 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
ATTTATTTTTATTT
Found at i:331827 original size:19 final size:19
Alignment explanation
Indices: 331773--331827 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
331763 TTTCCATTTG
*
331773 TTTTATTTATTTATTTAAC
1 TTTTATTTATTTATTTTAC
* *
331792 ATTTATTTA-TTATTTTTAT
1 TTTTATTTATTTA-TTTTAC
331811 TTTTATTTATTTATTTT
1 TTTTATTTATTTATTTT
331828 TTACTAACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.10
19 24 0.80
20 3 0.10
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTTATTTATTTTAC
Found at i:331910 original size:12 final size:13
Alignment explanation
Indices: 331893--331922 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
331883 TCGAATCGAG
331893 TAATTT-AAATTT
1 TAATTTAAAATTT
331905 TAATTTAAAATTT
1 TAATTTAAAATTT
331918 TAATT
1 TAATT
331923 CTTCGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTTAAAATTT
Found at i:337422 original size:164 final size:164
Alignment explanation
Indices: 336962--337722 Score: 888
Period size: 165 Copynumber: 4.6 Consensus size: 164
336952 TGCAGCTTAG
* * *
336962 CTCAAGGCCAGAAGGGCTATCTGCCCACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCGAGAAGGGTTATCTG-CTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * *
337026 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTA
65 CACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTA
* *
337091 CATTCAGCTTCAAGGGCATAACATTTACAGCATAA
130 CACTCAGCTTCAAGGGCACAACATTTACAGCATAA
* *
337126 CTCAAGGCTAGAAGGGTTATCT-ATGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAAC
1 CTCAAGGCGAGAAGGGTTATCTGCT-ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-
* * *
337189 GGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGAT
63 GGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGAT
* *
337254 TACACTCAGCTTCAAGGGCATAACATTTACAGAATAA
128 TACACTCAGCTTCAAGGGCACAACATTTACAGCATAA
* * * * *
337291 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGT
1 CTCAAGGCGAGAAGGGTTATCTGCTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* ***
337356 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
66 ACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
* * *
337421 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAA
131 ACTCAGCTTCAAGGGCACAACATTTACAGCATAA
* * *
337455 CTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCGAGAAGGGTTATCTG-CTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
** * * * * * * *
337520 CATGTCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCG
65 CACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG-C--C-AAAGACCCTTAAGTTCG
* * * * * * *
337585 ACTACGCTCAACTCCAA-GGCACATCATTTGCAGCATAG
126 ATTACACTCAGCTTCAAGGGCACAACATTTACAGCATAA
* * * * *
337623 CTTAAGTCGAGAAGGGCTATATGCTA--AAA-ACCTTCGAGTTTGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCGAGAAGGGTTATCTGCTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * *
337685 ATATCATTTGTAGCACAACTTAAGTCAAGAAGGACTAT
66 ACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTAT
337723 TTGTCAATAA
Statistics
Matches: 530, Mismatches: 56, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
163 3 0.01
164 226 0.43
165 229 0.43
166 2 0.00
167 2 0.00
168 42 0.08
169 26 0.05
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (164 bp):
CTCAAGGCGAGAAGGGTTATCTGCTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
ACTCAGCTTCAAGGGCACAACATTTACAGCATAA
Found at i:337564 original size:329 final size:329
Alignment explanation
Indices: 336962--337722 Score: 904
Period size: 329 Copynumber: 2.3 Consensus size: 329
336952 TGCAGCTTAG
* * * *
336962 CTCAAGGCCAGAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
1 CTCAAGGCGAGAAGGGCTATATG-CTA-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * **
337027 ACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTAC
64 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTAC
* * * **
337092 ATTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGACCAAA
129 ACTCAGCTTCAAGGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACAACCAAA
* * *
337157 AGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGA
194 AGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCACAACTTAAGTCGAGA
* * * *
337222 AGAGCTATCTG-C-C-AAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTAC
259 AGAGCTATCTGCCACAAAAGACCCTTAAGTTCGACTACACTCAACTCCAA-GGCACAACATTTAC
337284 AGAATAA
323 AGAATAA
* * * * * *
337291 CTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGT
1 CTCAAGGCGAGAAGGGCTATATGCTA--AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
*
337356 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTAC
64 ACATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTAC
* * * * * *
337421 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-A
129 ACTCAGCTTCAAGGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGTTATCT-ACAACCAA
** *
337485 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATGTCATTTGCAGCACAACTTAAGTCTA
193 AAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCACAACTTAAGTCGA
* * * * * * *
337549 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAACTCCAAGGCACATCATTT
257 GAAGAGCTATCTGCC-ACAAAAGACCCTTAAGTTCGACTACACTCAACTCCAAGGCACAACATTT
* * *
337614 GCAGCATAG
321 ACAGAATAA
* * * *
337623 CTTAAGTCGAGAAGGGCTATATGCTAAAA-ACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCAT
1 CTCAAGGCGAGAAGGGCTATATGCTAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
* * * * *
337687 ATCATTTGTAGCACAACTTAAGTCAAGAAGGACTAT
66 ATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTAT
337723 TTGTCAATAA
Statistics
Matches: 366, Mismatches: 59, Indels: 14
0.83 0.13 0.03
Matches are distributed among these distances:
328 1 0.00
329 290 0.79
330 10 0.03
332 37 0.10
333 28 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (329 bp):
CTCAAGGCGAGAAGGGCTATATGCTAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCAC
ATCATTTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACAC
TCAGCTTCAAGGGCACAACATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTACAACCAAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCACAACTTAAGTCGAGAAG
AGCTATCTGCCACAAAAGACCCTTAAGTTCGACTACACTCAACTCCAAGGCACAACATTTACAGA
ATAA
Found at i:338387 original size:12 final size:12
Alignment explanation
Indices: 338370--338394 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
338360 TAATATATAG
338370 TTTTTGAAAACA
1 TTTTTGAAAACA
338382 TTTTTGAAAACA
1 TTTTTGAAAACA
338394 T
1 T
338395 ATATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTTGAAAACA
Found at i:338397 original size:36 final size:36
Alignment explanation
Indices: 338341--338462 Score: 151
Period size: 38 Copynumber: 3.4 Consensus size: 36
338331 TTTTTTAAAA
*
338341 AAAACA-TTTTGAAAATATATAATATATAGTTTTTG
1 AAAACATTTTTGAAAACATATAATATATAGTTTTTG
338376 AAAACATTTTTGAAAACATATATATTATATAGTTTTTG
1 AAAACATTTTTGAAAACATATA-A-TATATAGTTTTTG
** * * *
338414 AAGTCATTTTTGAAAACATATAACATATA--ATTTC
1 AAAACATTTTTGAAAACATATAATATATAGTTTTTG
338448 AAAACATTTTTGAAA
1 AAAACATTTTTGAAA
338463 CTATAAGTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
34 16 0.21
35 6 0.08
36 19 0.25
37 2 0.03
38 33 0.43
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (36 bp):
AAAACATTTTTGAAAACATATAATATATAGTTTTTG
Found at i:338494 original size:27 final size:25
Alignment explanation
Indices: 338438--338494 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
338428 AACATATAAC
*
338438 ATATAATTTCAAAACATTTTTGAAA
1 ATATAATTTCAAAACATTTTTAAAA
* * *
338463 CTATAAGTTTGAAAATATTTTTAAAAA
1 ATATAA-TTTCAAAACATTTTT-AAAA
338490 ATATA
1 ATATA
338495 TATAATATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 5 0.20
26 13 0.52
27 7 0.28
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (25 bp):
ATATAATTTCAAAACATTTTTAAAA
Found at i:338553 original size:38 final size:38
Alignment explanation
Indices: 338470--338559 Score: 112
Period size: 36 Copynumber: 2.4 Consensus size: 38
338460 AAACTATAAG
*
338470 TTTGAAAATATTTTTAAAAAATATATATAATATATAAT
1 TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
* * **
338508 TTT-AAAATATTTTT-GAAAATATATATTATATAGGTT
1 TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
338544 TTTGAAAAATATTTTT
1 TTTG-AAAATATTTTT
338560 TATTATTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
36 20 0.44
37 11 0.24
38 14 0.31
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (38 bp):
TTTGAAAATATTTTTAAAAAATATATATAATATAGAAT
Found at i:339984 original size:12 final size:13
Alignment explanation
Indices: 339943--339984 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
339933 CCATTTGTTT
339943 TTTTTATTTATTAA
1 TTTTTATTTATT-A
**
339957 CATTTATTTATTA
1 TTTTTATTTATTA
339970 TTTTTATTT-TTA
1 TTTTTATTTATTA
339982 TTT
1 TTT
339985 ATTTTTTACT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 6 0.25
13 8 0.33
14 10 0.42
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTATTTATTA
Found at i:340072 original size:12 final size:13
Alignment explanation
Indices: 340055--340084 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
340045 TCGAATCGAG
340055 TAATTTAAA-TTT
1 TAATTTAAATTTT
340067 TAATTTAAATTTT
1 TAATTTAAATTTT
340080 TAATT
1 TAATT
340085 CTTCGCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TAATTTAAATTTT
Found at i:344343 original size:14 final size:15
Alignment explanation
Indices: 344312--344344 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
344302 TTTACCGGAT
*
344312 AAAAAATCGGTTTGA
1 AAAAAATCGGTTTAA
344327 AAAAAATCGG-TTAA
1 AAAAAATCGGTTTAA
344341 AAAA
1 AAAA
344345 CCAGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.06, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAAAATCGGTTTAA
Found at i:348197 original size:132 final size:133
Alignment explanation
Indices: 347956--348298 Score: 458
Period size: 132 Copynumber: 2.6 Consensus size: 133
347946 ATGAAGAGTT
* * *
347956 CTGGTTGTCTAAGGGTGACACGGTTCCTACATGATGAGGAGATCTAGTCGGGGGATGACACGGCT
1 CTGGTTATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTC-GGGGATGACACGGCT
*
348021 CATACGTGATGAAGAGTTCTAGACATCTTTAGTAAGGGTGATAACTCGGTTCCTACGCGATGAGG
65 CATACGTGATGAAGAGTTCTAGACATCTTTAGTAAGGGTGATAACTCGATTCCTACGCGATGAGG
348086 ACAA
130 ACAA
** * * * * * *
348090 CTGGTTATCTTTGGGTGACATGGCTCCTACGTGATGAGGAGGTTTGGT-GGAGATGACACTGCTC
1 CTGGTTATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACGGCTC
* * *
348154 ATACGTGATGAAGAGTTCTTGGTCATCTTTAG-GAGTGGT-ATAACTCGATTCCTACGCGATGAG
66 ATACGTGATGAAGAGTTC-TAGACATCTTTAGTAAG-GGTGATAACTCGATTCCTACGCGATGAG
*
348217 GATAA
129 GACAA
* *
348222 CTGGTTATCTAAGGGTGACACGGTTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGGTT
1 CTGGTTATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTC-GGGGATGACACGGCT
*
348287 CCTACGTGATGA
65 CATACGTGATGA
348299 GGACAACTGG
Statistics
Matches: 178, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
132 102 0.57
133 14 0.08
134 62 0.35
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (133 bp):
CTGGTTATCTAAGGGTGACACGGTTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACGGCTC
ATACGTGATGAAGAGTTCTAGACATCTTTAGTAAGGGTGATAACTCGATTCCTACGCGATGAGGA
CAA
Found at i:348269 original size:43 final size:40
Alignment explanation
Indices: 348202--348308 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
348192 TATAACTCGA
*
348202 TTCCTACGCGATGAGGATAACTGGTTATCTAAGGG-TGACACGG
1 TTCCTACGCGATGAGGAGAACTGG---TC-AAGGGATGACACGG
* **
348245 TTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGG
1 TTCCTACGCGATGAGGAGAACTGGTCAAGGGATGACACGG
* *
348285 TTCCTACGTGATGAGGACAACTGG
1 TTCCTACGCGATGAGGAGAACTGG
348309 CCATCTTTAG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 3 0.05
40 31 0.55
43 22 0.39
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (40 bp):
TTCCTACGCGATGAGGAGAACTGGTCAAGGGATGACACGG
Found at i:348666 original size:97 final size:98
Alignment explanation
Indices: 348554--348739 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 98
348544 TAAAACCTTG
* *
348554 TTTCCAGAGAAACAAACTCAAAGATGATCTTGT-TTT-AAGAGAAAATGTTTCAA-GAAACAAAA
1 TTTCAAGAGAAACAAACTCAAAGAT--T-TTGTATTTCAAGAGAAAATGTCTCAAGGAAACAAAA
348616 TTTGTTTCAA-AGGAAACGA-CTCAAAGATTGTTTTA
63 TTTGTTTCAATA-GAAACGATCTCAAAGATTGTTTTA
* * *
348651 TTTCAAGAGAAACAAACTCAAAGATTTTGTATTTCTAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TTTCAAGAGAAACAAACTCAAAGATTTTGTATTTCAAGAGAAAATGTCTCAA-GGAAACAAAATT
*
348716 TGTTTTAATAGAAACGATCTCAAA
65 TGTTTCAATAGAAACGATCTCAAA
348740 TGTGAGTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
94 4 0.05
95 4 0.05
96 14 0.18
97 24 0.31
98 24 0.31
99 7 0.09
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.30
Consensus pattern (98 bp):
TTTCAAGAGAAACAAACTCAAAGATTTTGTATTTCAAGAGAAAATGTCTCAAGGAAACAAAATTT
GTTTCAATAGAAACGATCTCAAAGATTGTTTTA
Found at i:348702 original size:31 final size:32
Alignment explanation
Indices: 348634--348694 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
348624 AAAGGAAACG
*
348634 ACTCAAAGATTGTTTTATTTCAAGAGAAACAA
1 ACTCAAAGATTGTTGTATTTCAAGAGAAACAA
*
348666 ACTCAAAGATT-TTGTATTTCTAGAGAAAC
1 ACTCAAAGATTGTTGTATTTCAAGAGAAAC
348695 TGTCTCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (32 bp):
ACTCAAAGATTGTTGTATTTCAAGAGAAACAA
Found at i:348750 original size:97 final size:96
Alignment explanation
Indices: 348554--348760 Score: 210
Period size: 98 Copynumber: 2.1 Consensus size: 96
348544 TAAAACCTTG
* *
348554 TTTCCAGAGAAACAAACTCAAAGATGATCTTGTTTTAAGAGAAAATGTTTCAAGAAACAAAATTT
1 TTTCAAGAGAAACAAACTCAAAGAT-ATCTTGTTTTAAGAGAAAATGTCTCAAGAAACAAAATTT
**
348619 GTTTCAAAGGAAACGACTCAAAGATTGTTTTA-
65 GTTTCAAAGGAAACGACTCAAAGA-TGTAGTAT
* * *
348651 TTTCAAGAGAAACAAACTCAAAGAT-T-TTGTATTTCTAGAGAAACTGTCTCAAGGGAGACAAAA
1 TTTCAAGAGAAACAAACTCAAAGATATCTTGT-TTT-AAGAGAAAATGTCTCAA--GAAACAAAA
*
348714 TTTGTTTTAATA-GAAACGATCTC-AA-ATGTGAGTAT
62 TTTGTTTCAA-AGGAAACGA-CTCAAAGATGT-AGTAT
*
348749 TTTCAAAAGAAA
1 TTTCAAGAGAAA
348761 TTGTCTCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
94 4 0.04
95 4 0.04
96 17 0.18
97 27 0.29
98 37 0.40
99 4 0.04
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (96 bp):
TTTCAAGAGAAACAAACTCAAAGATATCTTGTTTTAAGAGAAAATGTCTCAAGAAACAAAATTTG
TTTCAAAGGAAACGACTCAAAGATGTAGTAT
Found at i:349237 original size:31 final size:33
Alignment explanation
Indices: 349199--349279 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
349189 GATTTTTCAT
349199 TTTGTTTCAAGTGAAACAGACTCAAAGAT-A-C
1 TTTGTTTCAAGTGAAACAGACTCAAAGATGATC
** * *
349230 TTTGTTTCAAAAGAAAC-GACTCAAGGATGATG
1 TTTGTTTCAAGTGAAACAGACTCAAAGATGATC
*
349262 TTTGTTTCCAGTGAAACA
1 TTTGTTTCAAGTGAAACA
349280 AATTCATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
30 10 0.25
31 16 0.40
32 14 0.35
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (33 bp):
TTTGTTTCAAGTGAAACAGACTCAAAGATGATC
Found at i:349335 original size:36 final size:34
Alignment explanation
Indices: 349293--349421 Score: 125
Period size: 36 Copynumber: 3.6 Consensus size: 34
349283 TCATAATTTG
* *
349293 GAAAATTTTCTCAAGTGAGACAATATTTGTTTTTA
1 GAAAATTGTCTCAAGCGAGACAA-ATTTGTTTTTA
* *
349328 GATAAATTGTCTCAAACGAGACAAAAATTGTTTTTA
1 GA-AAATTGTCTCAAGCGAGAC-AAATTTGTTTTTA
*
349364 GAGAAATTGTCTAAAGCGAGACAAAGTTTGTTTTTTGA
1 GA-AAATTGTCTCAAGCGAGACAAA-TTTG-TTTTT-A
*
349402 GAAAA-TGATCTCAAGTGAGA
1 GAAAATTG-TCTCAAGCGAGA
349422 TCAACTTTAT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
35 5 0.06
36 50 0.64
37 20 0.26
38 3 0.04
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (34 bp):
GAAAATTGTCTCAAGCGAGACAAATTTGTTTTTA
Found at i:350136 original size:4 final size:4
Alignment explanation
Indices: 350127--351026 Score: 1744
Period size: 4 Copynumber: 227.0 Consensus size: 4
350117 ATGCAAATTT
350127 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350175 TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350221 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350269 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350317 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350365 TATG TATG TATG TATG TATG TATG TAT- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350412 TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350459 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350507 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350555 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350603 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350651 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350699 TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350745 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350793 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350841 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350889 TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350935 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
350983 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
351027 GCTGCGAGAG
Statistics
Matches: 888, Mismatches: 0, Indels: 16
0.98 0.00 0.02
Matches are distributed among these distances:
2 6 0.01
3 6 0.01
4 876 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:352229 original size:11 final size:11
Alignment explanation
Indices: 352213--352279 Score: 77
Period size: 11 Copynumber: 6.2 Consensus size: 11
352203 TTATTCATTG
352213 TTTTTCTTTGC
1 TTTTTCTTTGC
352224 TTTTTCTTTGC
1 TTTTTCTTTGC
*
352235 TTTTTCTTT-T
1 TTTTTCTTTGC
352245 TTTTTC-TT-C
1 TTTTTCTTTGC
*
352254 TTTTCTCTTTGTT
1 TTTT-TCTTTG-C
352267 TTTTTCTTTGC
1 TTTTTCTTTGC
352278 TT
1 TT
352280 CTTTTCTCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
9 6 0.12
10 8 0.17
11 24 0.50
12 6 0.12
13 4 0.08
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (11 bp):
TTTTTCTTTGC
Found at i:352249 original size:32 final size:32
Alignment explanation
Indices: 352213--352275 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
352203 TTATTCATTG
352213 TTTTTCTTTGCTTTT-TCTTTG-CTTTTTCTTTT
1 TTTTTC-TT-CTTTTCTCTTTGTCTTTTTCTTTT
*
352245 TTTTTCTTCTTTTCTCTTTGTTTTTTTCTTT
1 TTTTTCTTCTTTTCTCTTTGTCTTTTTCTTT
352276 GCTTCTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 5 0.18
31 8 0.29
32 15 0.54
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (32 bp):
TTTTTCTTCTTTTCTCTTTGTCTTTTTCTTTT
Found at i:352262 original size:20 final size:19
Alignment explanation
Indices: 352224--352306 Score: 69
Period size: 20 Copynumber: 4.2 Consensus size: 19
352214 TTTTCTTTGC
* *
352224 TTTTTCTTTGCTTTT-TCT
1 TTTTTTTTTTCTTTTCTCT
352242 TTTTTTTTCTTCTTTTCTCT
1 TTTTTTTT-TTCTTTTCTCT
* *
352262 TTGTTTTTTTCTTTGCTTCT
1 TTTTTTTTTTCTTTTC-TCT
*
352282 TTTCTCTTTGTTTTTTTTCTCT
1 TTT-T-TTT-TTTCTTTTCTCT
352304 TTT
1 TTT
352307 CTTTGATTTG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.13
19 13 0.25
20 15 0.29
21 1 0.02
22 9 0.17
23 7 0.13
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTTTTTTCTTTTCTCT
Found at i:352297 original size:13 final size:13
Alignment explanation
Indices: 352254--352297 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
352244 TTTTTTCTTC
352254 TTTTCTCTTTGTT
1 TTTTCTCTTTGTT
352267 TTTT-TCTTTGCTT
1 TTTTCTCTTTG-TT
352280 CTTTTCTCTTTGTT
1 -TTTTCTCTTTGTT
352294 TTTT
1 TTTT
352298 TTCTCTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.21
13 10 0.36
14 6 0.21
15 6 0.21
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Found at i:352308 original size:27 final size:26
Alignment explanation
Indices: 352192--352310 Score: 111
Period size: 27 Copynumber: 4.5 Consensus size: 26
352182 ACTTCTTATC
* *
352192 TTCTTTTTCTTTTATTCATTGTTTTTCT
1 TTCTTTTTCTTTT-CTCTTTGTTTTT-T
*
352220 TTGCTTTTTCTTTGCT-TTT-TCTTTTT
1 TT-CTTTTTCTTTTCTCTTTGT-TTTTT
*
352246 TT-TTCTTCTTTTCTCTTTG-TTTTT
1 TTCTTTTTCTTTTCTCTTTGTTTTTT
352270 TTCTTTGCTTCTTTTCTCTTTGTTTTTT
1 TTCTTT--TTCTTTTCTCTTTGTTTTTT
352298 TTCTCTTTTCTTT
1 TTCT-TTTTCTTT
352311 GATTTGATCT
Statistics
Matches: 76, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
24 17 0.22
25 5 0.07
26 4 0.05
27 26 0.34
28 12 0.16
29 12 0.16
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (26 bp):
TTCTTTTTCTTTTCTCTTTGTTTTTT
Found at i:352310 original size:47 final size:41
Alignment explanation
Indices: 352213--352311 Score: 117
Period size: 47 Copynumber: 2.2 Consensus size: 41
352203 TTATTCATTG
352213 TTTTTCTTTGCTTTTTCTTTGCTTTTTCTTTTTTTTTCTTC
1 TTTTTCTTTGCTTTTTCTTTGCTTTTTCTTTTTTTTTCTTC
* *
352254 TTTTCTCTTTGTTTTTTTCTTTGCTTCTTTTCTCTTTGTTTTTTTTC
1 TTTT-TCTTTG-CTTTTTCTTTGC-T-TTTTCT-TTT-TTTTTCTTC
352301 TCTTTTCTTTG
1 T-TTTTCTTTG
352312 ATTTGATCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
41 4 0.08
42 6 0.12
43 11 0.22
44 1 0.02
45 6 0.12
46 3 0.06
47 15 0.31
48 3 0.06
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (41 bp):
TTTTTCTTTGCTTTTTCTTTGCTTTTTCTTTTTTTTTCTTC
Found at i:354422 original size:49 final size:49
Alignment explanation
Indices: 354369--354493 Score: 178
Period size: 49 Copynumber: 2.6 Consensus size: 49
354359 GAATAAAACA
* * *
354369 CCTACCCTGTCATGATATATACCCGAACATGCTTTAATTAAATAACATT
1 CCTACCCAGACATGATATATACCCAAACATGCTTTAATTAAATAACATT
* * *
354418 CCTACCCAGACATGCTATCTACCCAAACTTGCTTTAATTAAATAACATT
1 CCTACCCAGACATGATATATACCCAAACATGCTTTAATTAAATAACATT
* *
354467 CCTACCCAGACATGCTATCTACCCAAA
1 CCTACCCAGACATGATATATACCCAAA
354494 ATGATTAATT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.34, C:0.30, G:0.07, T:0.29
Consensus pattern (49 bp):
CCTACCCAGACATGATATATACCCAAACATGCTTTAATTAAATAACATT
Found at i:358108 original size:3 final size:3
Alignment explanation
Indices: 358100--358134 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
358090 TAAATTGTAA
*
358100 AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
358135 AATTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:362674 original size:407 final size:407
Alignment explanation
Indices: 361910--362685 Score: 1437
Period size: 407 Copynumber: 1.9 Consensus size: 407
361900 CTTACCATTA
*
361910 GACCATTTAAAACAACGCACAAAGAGCTATTATGCCTCTTAAATTCAAGAAGAATACCTATCTTT
1 GACCATTTAAAACAACGCACAAAGAGCTATTATACCTCTTAAATTCAAGAAGAATACCTATCTTT
* *
361975 TTCCAATTATTTCCTTTAAAACGTGGAGCAGCATTGCACAGAATCTCATCCTGGAAGCGCATACA
66 TTCCAATTATTTCCTTTAAAACGTGGAACAGCATTGCACAAAATCTCATCCTGGAAGCGCATACA
*
362040 ATTATTTAGTCAAAATGAAAAATCATTAAAGGATATGCATGGGACTAAACTATAGATGTTACACT
131 ATTATGTAGTCAAAATGAAAAATCATTAAAGGATATGCATGGGACTAAACTATAGATGTTACACT
362105 GATACAGATATTACAGGCTAGGACTAAACTAGGGGACGCTATAATACATGGCAGAAAAAGTGCAA
196 GATACAGATATTACAGGCTAGGACTAAACTAGGGGACGCTATAATACATGGCAGAAAAAGTGCAA
362170 AAAAGTTATAGATTGGAAGGCAATGTCTTAAAACATAAGTGATGTGATTCCAATCAGCCCTAACT
261 AAAAGTTATAGATTGGAAGGCAATGTCTTAAAACATAAGTGATGTGATTCCAATCAGCCCTAACT
362235 TTCTTCTTGAATTGATTAAATCATTGAAGTTCACCAAGACATTTTATTATAATGTTGGTTCCTAG
326 TTCTTCTTGAATTGATTAAATCATTGAAGTTCACCAAGACATTTTATTATAATGTTGGTTCCTAG
362300 CTCACCTATAGTTTTTT
391 CTCACCTATAGTTTTTT
*
362317 GACCTTTTAAAACAACGCACAAAGAGCTATTATACCTCTTAAATTCAAGAAGAATACCTATCTTT
1 GACCATTTAAAACAACGCACAAAGAGCTATTATACCTCTTAAATTCAAGAAGAATACCTATCTTT
* *
362382 TTCCAATTATTTCCTTTAAAACGTTGAACATCATTGCACAAAATCTCATCCTGGAAGCGCATACA
66 TTCCAATTATTTCCTTTAAAACGTGGAACAGCATTGCACAAAATCTCATCCTGGAAGCGCATACA
362447 ATTATGTAGTCAAAATGAAAAATCATTAAAGGATATGCATGGGACTAAACTATAGATGTTACACT
131 ATTATGTAGTCAAAATGAAAAATCATTAAAGGATATGCATGGGACTAAACTATAGATGTTACACT
* *
362512 GATACATATATTACAGGGTAGGACTAAACTAGGGGACGCTATAATACATGGCAGAAAAAGTGCAA
196 GATACAGATATTACAGGCTAGGACTAAACTAGGGGACGCTATAATACATGGCAGAAAAAGTGCAA
362577 AAAAGTTATAGATTGGAAGGCAATGTCTTAAAACATAAGTGATGTGATTCCAATCAGCCCTAACT
261 AAAAGTTATAGATTGGAAGGCAATGTCTTAAAACATAAGTGATGTGATTCCAATCAGCCCTAACT
* *
362642 TTCTTCTTG-ATCTGATTAAATCATTTAAGTTCACCAAGTCATTT
326 TTCTTCTTGAAT-TGATTAAATCATTGAAGTTCACCAAGACATTT
362686 GCATGCTGCT
Statistics
Matches: 357, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
406 2 0.01
407 355 0.99
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (407 bp):
GACCATTTAAAACAACGCACAAAGAGCTATTATACCTCTTAAATTCAAGAAGAATACCTATCTTT
TTCCAATTATTTCCTTTAAAACGTGGAACAGCATTGCACAAAATCTCATCCTGGAAGCGCATACA
ATTATGTAGTCAAAATGAAAAATCATTAAAGGATATGCATGGGACTAAACTATAGATGTTACACT
GATACAGATATTACAGGCTAGGACTAAACTAGGGGACGCTATAATACATGGCAGAAAAAGTGCAA
AAAAGTTATAGATTGGAAGGCAATGTCTTAAAACATAAGTGATGTGATTCCAATCAGCCCTAACT
TTCTTCTTGAATTGATTAAATCATTGAAGTTCACCAAGACATTTTATTATAATGTTGGTTCCTAG
CTCACCTATAGTTTTTT
Found at i:363654 original size:16 final size:14
Alignment explanation
Indices: 363633--363685 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
363623 AATAAAAGGA
363633 AAAAATAGAAAGTAAT
1 AAAAATA-AAA-TAAT
363649 AAAAATAAAATAAT
1 AAAAATAAAATAAT
*
363663 AATAAA-ATAATAAT
1 AA-AAATAAAATAAT
363677 -AAAATAAAA
1 AAAAATAAAA
363686 ACGAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 13 0.39
15 6 0.18
16 7 0.21
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (14 bp):
AAAAATAAAATAAT
Found at i:363666 original size:11 final size:11
Alignment explanation
Indices: 363646--363683 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
363636 AATAGAAAGT
*
363646 AATAAAAATAA
1 AATAATAATAA
363657 AATAATAATAA
1 AATAATAATAA
363668 AATAATAATAA
1 AATAATAATAA
363679 AATAA
1 AATAA
363684 AAACGAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AATAATAATAA
Done.