Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold124
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: 1034113
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:739182 original size:1 final size:1
Alignment explanation
Indices: 739178--739231 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
739168 CATTCTTTTT
* * * * * *
739178 AAAAAAAATAAAAAAAAAACAAAAAAAAAAGAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
739232 TAAGAGAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.89, C:0.06, G:0.04, T:0.02
Consensus pattern (1 bp):
A
Found at i:739203 original size:20 final size:19
Alignment explanation
Indices: 739178--739231 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 19
739168 CATTCTTTTT
739178 AAAAAAAATAAAAAAAAAAC
1 AAAAAAAA-AAAAAAAAAAC
739198 AAAAAAAAAAGAAAAAAAAC
1 AAAAAAAAAA-AAAAAAAAC
739218 AAAACAAAGAAAAA
1 AAAA-AAA-AAAAA
739232 TAAGAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.06
20 21 0.68
21 5 0.16
22 3 0.10
ACGTcount: A:0.89, C:0.06, G:0.04, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAAAAC
Found at i:739206 original size:25 final size:25
Alignment explanation
Indices: 739178--739251 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
739168 CATTCTTTTT
*
739178 AAAAAA-AATAAAAAAAAAACAAAA
1 AAAAAAGAAAAAAAAAAAAACAAAA
*
739202 AAAAAAGAAAAAAAACAAAACAAAGA
1 AAAAAAGAAAAAAAAAAAAACAAA-A
* *
739228 AAAATAAGAGAAAAGAAAAGAACA
1 AAAA-AAGA-AAAAAAAAAAAACA
739252 TGCTTAAGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 6 0.15
25 15 0.37
26 5 0.12
27 4 0.10
28 11 0.27
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.03
Consensus pattern (25 bp):
AAAAAAGAAAAAAAAAAAAACAAAA
Found at i:739236 original size:9 final size:9
Alignment explanation
Indices: 739178--739249 Score: 60
Period size: 9 Copynumber: 8.0 Consensus size: 9
739168 CATTCTTTTT
739178 AAAAAA-AA
1 AAAAAAGAA
*
739186 TAAAAA-AA
1 AAAAAAGAA
*
739194 AAACAA-AA
1 AAAAAAGAA
739202 AAAAAAGAA
1 AAAAAAGAA
*
739211 AAAAAACAA
1 AAAAAAGAA
*
739220 AACAAAGAA
1 AAAAAAGAA
739229 AAATAAGAGAA
1 AAA-AA-AGAA
739240 AAGAAAAGAA
1 AA-AAAAGAA
739250 CATGCTTAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
8 18 0.35
9 19 0.37
10 6 0.12
11 8 0.15
12 1 0.02
ACGTcount: A:0.85, C:0.04, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:740412 original size:61 final size:61
Alignment explanation
Indices: 740228--740865 Score: 747
Period size: 61 Copynumber: 10.5 Consensus size: 61
740218 TTTTTTCTTT
*
740228 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
** *
740289 CACTTCCTAGTCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCCACACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
740344 CATTTTTTAGTCCTCAAGGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
740405 CACTTTTTAGTCCTTAAGGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGG
*
740466 CA-TCTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACGAA-TTGGTGG
1 CACT-TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACAC-AAGTTGGTGG
* * * * *
740527 CGCTTTTCTAGTTCTCAAAAAGTAGAATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTT-TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
740589 CACTTTTCAGTCCTCAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* ** * * * ** *
740650 CACCTTCCAGTTCTCAAAGAGTATGATG-CTTTCTCCTTGCAAAGCCCATACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
** * * *
740711 CACCCTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* ** * * *
740772 CACCTTTCTAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACAAGTTAGTGG
1 CA-CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGG
* * * *
740835 CACCTCTTAGTCCTCAAAAAGCACGATGCCT
1 CACTTTTTAGTCCTCAAAGAGCAGGATGCCT
740866 GTAGACACCT
Statistics
Matches: 490, Mismatches: 70, Indels: 33
0.83 0.12 0.06
Matches are distributed among these distances:
55 45 0.09
56 3 0.01
57 1 0.00
59 1 0.00
60 12 0.02
61 293 0.60
62 113 0.23
63 22 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (61 bp):
CACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:740695 original size:245 final size:242
Alignment explanation
Indices: 740232--740851 Score: 804
Period size: 245 Copynumber: 2.5 Consensus size: 242
740222 TTCTTTCACT
* * *
740232 TTTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCT
*
740297 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTTTAGTCC
66 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTAGTCC
* * * ** *
740357 TCAAGGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTTAA
130 TCAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAA
* * * * *
740422 GGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATC
195 AGAGCAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACC
*
740470 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACGAA-TTGGTGGCGCTTTT
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACAC-AAGTTGGTGGCAC-TTT
* * * * *
740534 CTAGTTCTCAAAAAGTAGAATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAG
64 CTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-AG
*
740599 TCCTCAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTTCT
127 TCCTCAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
* * * *
740664 CAAAGAGTATGATG-CTTTCTCCTTGCAAAGCCCATACAAGTTGGTGGCACC
192 CAAAGAGCAGGACGCCTTT-TCCTTGCAAAGCCCACACAAGTTGGTGGCACC
* * *
740715 CTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
740780 TAGTCCTCAAAGAGCAGGACACTTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTCTTAG
65 TAGTCCTCAAAGAGCAGGACGC-CTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTTAG
740845 TCCTCAA
127 TCCTCAA
740852 AAAGCACGAT
Statistics
Matches: 328, Mismatches: 39, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
238 54 0.16
239 23 0.07
240 3 0.01
241 1 0.00
244 10 0.03
245 197 0.60
246 36 0.11
247 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (242 bp):
TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCT
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTAGTCCT
CAAGGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAA
GAGCAGGACGCCTTTTCCTTGCAAAGCCCACACAAGTTGGTGGCACC
Found at i:751867 original size:52 final size:52
Alignment explanation
Indices: 751786--751914 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
751776 CGAAATATGA
751786 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
751838 AAATTTGCCTGTATGTATCAATACGTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
751890 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
751915 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:751925 original size:52 final size:51
Alignment explanation
Indices: 751786--751935 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
751776 CGAAATATGA
751786 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTCATAGTGTATCGATACATCTGGGC
* * *
751838 AAATTTGCCTGTATGTATCAATACGTTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATAC-ATTCATAGTGTATCGATACATCTGGGC
* ***
751890 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTCAT-AGTGTATCGATACAT
751936 TTGAGTAATG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTCATAGTGTATCGATACATCTGGGC
Found at i:751997 original size:13 final size:13
Alignment explanation
Indices: 751979--752061 Score: 67
Period size: 13 Copynumber: 5.5 Consensus size: 13
751969 AGCTTCGTAG
751979 CGATACATTGTAT
1 CGATACATTGTAT
751992 CGATACAAAATTATGTAT
1 CGATAC---A-T-TGTAT
752010 CGATACATTGTAT
1 CGATACATTGTAT
752023 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
752042 CGATACATTGTAT
1 CGATACATTGTAT
752055 CGATACA
1 CGATACA
752062 AATCGTTGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 22
0.73 0.00 0.27
Matches are distributed among these distances:
13 27 0.46
14 2 0.03
15 1 0.02
16 7 0.12
17 1 0.02
18 12 0.20
19 9 0.15
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:752043 original size:32 final size:31
Alignment explanation
Indices: 751979--752063 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 31
751969 AGCTTCGTAG
751979 CGATACATTGTATCGATACAAAATTATGTAT
1 CGATACATTGTATCGATACAAAATTATGTAT
*
752010 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAA-AATTATGTAT
752042 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
752064 TCGTTGAAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
31 22 0.42
32 30 0.58
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (31 bp):
CGATACATTGTATCGATACAAAATTATGTAT
Found at i:759688 original size:29 final size:29
Alignment explanation
Indices: 759648--760139 Score: 566
Period size: 29 Copynumber: 17.3 Consensus size: 29
759638 CTCACCTTCC
*
759648 AAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
759677 AAAGCCCACAAGTCAGTGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
759705 AAAGCCCATAAAGT-AGCGGCAACC--TTCA
1 AAAGCCCA-CAAGTCAGTGGC-ACCTTTTCA
**
759733 AAAGCCCACAAGTCAGTGGCATTTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
759762 AAAGCCCACAAGTTAGTGACACATTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
759790 AAAGCCCACAAGTTAGTGGCACCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
759819 AAAGCCCATAAGTTAGTGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
759847 AAAGCCCATAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
*
759875 AAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * * *
759904 AAATCCCACAAGTTAGTGGCACATTTTTA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
759933 AAAGCCCATAAGTCAGTGGCACATTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
759961 AAAGCCCACAAGTCAATGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* *
759989 AAAGCCCACAAGTTAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
760018 AAAGCCAACAAGTTAGTGGTACCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
760047 AAAGCCCACAA-TCAGTGGCACCTTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
760074 AAAGCACACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* *
760102 GAAGCCCACAAGTCGGTGGCACCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCACC-TTTTCA
760131 AAAGCCCAC
1 AAAGCCCAC
760140 TGTAGACACC
Statistics
Matches: 399, Mismatches: 43, Indels: 42
0.82 0.09 0.09
Matches are distributed among these distances:
27 34 0.09
28 165 0.41
29 197 0.49
30 3 0.01
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCA
Found at i:759789 original size:85 final size:85
Alignment explanation
Indices: 759641--760139 Score: 557
Period size: 85 Copynumber: 5.9 Consensus size: 85
759631 GAAATTTCTC
* * *
759641 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCA
* *
759706 AAGCCCATAAAGT-AGCGGCA
66 AAGCCCA-CAAGTCAGTGGCA
* * * *
759726 ACCTTCAAAAGCCCACAAGTCAGTGGCATTTTTTCAAAAGCCCACAAGTTAGTGACACATTTTCA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCA
*
759791 AAGCCCACAAGTTAGTGGC-
66 AAGCCCACAAGTCAGTGGCA
* * * **
759810 ACCTTTTCAAAAGCCCATAAGTTAGTGGCACCTTTTC-AAAGCCCATAAGTCAGTGGCA-ACCTT
1 ACC--TTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTT
759873 CAAAAGCCCACAAGTCAGTGGCA
64 C-AAAGCCCACAAGTCAGTGGCA
* * * * *
759896 TCTTTTCAAAATCCCACAAGTTAGTGGCA-CATTTTTAAAAGCCCATAAGTCAGTGGCACATTTT
1 AC-CTTCAAAAGCCCACAAGTTAGTGGCATC-TTTTCAAAAGCCCACAAGTCAGTGGCACATTTT
*
759960 CAAAGCCCACAAGTCAATGGCA
64 CAAAGCCCACAAGTCAGTGGCA
* * * *
759982 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCAACAAGTTAGTGGTACCTTTTCA
1 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTC-
760047 AAAGCCCACAA-TCAGTGGC-
65 AAAGCCCACAAGTCAGTGGCA
* * * * * * *
760066 ACCTTTTC-AAAGCACACAAGTCAGTGGCAAC-CTTCAGAAGCCCACAAGTCGGTGGCACCTTTT
1 ACC--TTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA-CATTT
760129 TCAAAGCCCAC
63 TCAAAGCCCAC
760140 TGTAGACACC
Statistics
Matches: 355, Mismatches: 45, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
84 44 0.12
85 221 0.62
86 86 0.24
87 4 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACATTTTCA
AAGCCCACAAGTCAGTGGCA
Found at i:759851 original size:114 final size:114
Alignment explanation
Indices: 759641--760139 Score: 681
Period size: 114 Copynumber: 4.4 Consensus size: 114
759631 GAAATTTCTC
* *
759641 ACCTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTC-
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
*
759705 AAAGCCCATAAAGT-AGCGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCAT-AAGTCAGTGGC-ACCTTTTC-AAAGCCCACAAGTCAGTGGCA
*** * *
759754 TTTTTTCAAAAGCCCACAAGTTAGTGACA-CATTTTC-AAAGCCCACAAGTTAGTGGCACCTTTT
1 -ACCTTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAAGCCCACAAGTTAGTGGCACCTTTT
* *
759817 CAAAAGCCCATAAGTTAGTGGCACCTTTTCAAAGCCCATAAGTCAGTGGCA
64 CAAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
759868 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAATCCCACAAGTTAGTGGCACATTTTTA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
* *
759933 AAAGCCCATAAGTCAGTGGCACATTTTCAAAGCCCACAAGTCAATGGCA
66 AAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
759982 ACCTTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCAACAAGTTAGTGGTACCTTTTCA
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
* *
760047 AAAGCCCACAA-TCAGTGGCACCTTTTCAAAGCACACAAGTCAGTGGCA
66 AAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
760095 ACCTTCAGAAGCCCACAAGTCGGTGGCACCTTTTTC-AAAGCCCAC
1 ACCTTCAAAAGCCCACAAGTCAGTGGCATC-TTTTCAAAAGCCCAC
760140 TGTAGACACC
Statistics
Matches: 341, Mismatches: 36, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
113 131 0.38
114 207 0.61
115 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (114 bp):
ACCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCTTTTCA
AAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:760634 original size:20 final size:19
Alignment explanation
Indices: 760609--760694 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
760599 TTTACCCAGA
760609 GTATCGATACATTTTGCATT
1 GTATCGATACATTTT-CATT
760629 GTATCGAT--A----CATT
1 GTATCGATACATTTTCATT
*
760642 GTATCGATACATTGCTCATT
1 GTATCGATACATT-TTCATT
* *
760662 GTATTGATACATTTTACAAT
1 GTATCGATACATTTT-CATT
760682 GTATCGATACATT
1 GTATCGATACATT
760695 CAGGCATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
13 12 0.22
15 1 0.02
18 1 0.02
19 1 0.02
20 39 0.72
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (19 bp):
GTATCGATACATTTTCATT
Found at i:760651 original size:33 final size:33
Alignment explanation
Indices: 760609--760674 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
760599 TTTACCCAGA
*
760609 GTATCGATACATT-TTGCATTGTATCGATACATT
1 GTATCGATACATTGCT-CATTGTATCGATACATT
*
760642 GTATCGATACATTGCTCATTGTATTGATACATT
1 GTATCGATACATTGCTCATTGTATCGATACATT
760675 TTACAATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
GTATCGATACATTGCTCATTGTATCGATACATT
Found at i:760674 original size:13 final size:13
Alignment explanation
Indices: 760625--760655 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
760615 ATACATTTTG
760625 CATTGTATCGATA
1 CATTGTATCGATA
760638 CATTGTATCGATA
1 CATTGTATCGATA
760651 CATTG
1 CATTG
760656 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:763066 original size:51 final size:51
Alignment explanation
Indices: 762990--763105 Score: 223
Period size: 51 Copynumber: 2.3 Consensus size: 51
762980 ATTTTTCATC
*
762990 TCGGGGATATTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAA
1 TCGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAA
763041 TCGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAA
1 TCGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAA
763092 TCGGGGATACTCCA
1 TCGGGGATACTCCA
763106 GCCCTATTAT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (51 bp):
TCGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAA
Found at i:763236 original size:51 final size:51
Alignment explanation
Indices: 763122--763237 Score: 169
Period size: 51 Copynumber: 2.3 Consensus size: 51
763112 TTATTTTCGA
* * * *
763122 GGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCATTTTCCATAATT
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
* * *
763173 GGAGATATTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
763224 GGGGATACTCCAAC
1 GGGGATACTCCAAC
763238 CCTGTTATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:763293 original size:27 final size:27
Alignment explanation
Indices: 763227--763296 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
763217 CACAATCGGG
* * *
763227 GATACTCCAACCCTGTTATTTCATTGGG
1 GATACTCCAACCCCGTTATTTCA-CGGA
763255 GATACTCCAACCCCGTTATTTC-CGAGA
1 GATACTCCAACCCCGTTATTTCACG-GA
763282 GATACTCCAACCCCG
1 GATACTCCAACCCCG
763297 GCTTTATTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 16 0.42
28 21 0.55
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (27 bp):
GATACTCCAACCCCGTTATTTCACGGA
Found at i:763303 original size:106 final size:106
Alignment explanation
Indices: 763174--763375 Score: 262
Period size: 106 Copynumber: 1.9 Consensus size: 106
763164 TCCATAATTG
* * * *
763174 GAGATATTCCAACTCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
1 GAGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC
** **
763239 CTGTTA-TTTCATTGGGGATACTCCAACCCCGTTATTTCCGA
66 CCATTATTTTC-GCGGGGATACTCCAACCCCGTTATTTCCGA
* * * ** *
763280 GAGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCACAATTGGGGATACTCCAACC
1 GAGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC
763345 CCATTATTTTCGCGGGGATACTCCAACCCCG
66 CCATTATTTTCGCGGGGATACTCCAACCCCG
763376 GCCTTATTTC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
106 77 0.95
107 4 0.05
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (106 bp):
GAGATACTCCAACCCCGACTTTATTTCCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC
CCATTATTTTCGCGGGGATACTCCAACCCCGTTATTTCCGA
Found at i:763528 original size:79 final size:79
Alignment explanation
Indices: 763252--763584 Score: 298
Period size: 79 Copynumber: 4.2 Consensus size: 79
763242 TTATTTCATT
* * *
763252 GGGGATACTCCAACCCCGTTATTTCCGA-GAGATACTCCAACCCCGGCTTTATTTCTAAAATAT-
1 GGGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCAACCCCGGCTTTATTTCTAAAACATC
* * * *
763315 TAATTTCTCACAATT
66 GATTTTC-CATAATC
* * * *
763330 GGGGATACTCCAACCCCATTATTTTCGCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATC
1 GGGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCAACCCCGGCTTTATTTCTAAAACATC
* *
763395 AATTTTTCATAATC
66 GATTTTCCATAATC
* ** * * * * *
763409 GGGGACACTTTAATCCCATTATTTTCGAGGGGATAGTCCAACCCCAGTTTTATTT-TCAAAACAT
1 GGGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCAACCCCGGCTTTATTTCT-AAAACAT
*
763473 TGATTTTCCATAATC
65 CGATTTTCCATAATC
** * * * * ** *
763488 GGGGATACTCCAACCCTGTTATTTTCAAGGAAATACTCCAACTCTGATTTTA-TTCTCAAAACGT
1 GGGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCAACCCCGGCTTTATTTCT-AAAACAT
763552 CGA-TTTCCTATAATC
65 CGATTTTCC-ATAATC
*
763567 AGGGGATACTCCAGCCCC
1 -GGGGATACTCCAACCCC
763585 GTTGTCATCT
Statistics
Matches: 206, Mismatches: 43, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
78 33 0.16
79 154 0.75
80 19 0.09
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTATTTTCGAGGAGATACTCCAACCCCGGCTTTATTTCTAAAACATC
GATTTTCCATAATC
Found at i:764762 original size:52 final size:52
Alignment explanation
Indices: 764649--764906 Score: 273
Period size: 52 Copynumber: 5.1 Consensus size: 52
764639 ATATTGACAC
* * * *
764649 CTTTAAGTCCAATTTTGTTGGCCTTGAATCAGCACA-TGAGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG-GCACCTTTGTCAT
* * * *
764698 CTTTATGTCCAATATCGCTAGCCTTGAATTAGCATTTTGGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
*
764750 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * * *
764802 CTCTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACC--T-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* * *
764851 CTTTAAG-CCTAATATCACTGGTCC-TGAACCAGCATATTGGCACCTTTATCACT
1 CTTTAAGTCC-AATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTTGTCA-T
764904 CTT
1 CTT
764907 CTCATCTTCA
Statistics
Matches: 175, Mismatches: 24, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
48 2 0.01
49 69 0.39
50 5 0.03
51 2 0.01
52 93 0.53
53 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:764851 original size:101 final size:102
Alignment explanation
Indices: 764649--764905 Score: 269
Period size: 101 Copynumber: 2.5 Consensus size: 102
764639 ATATTGACAC
* * * * * *
764649 CTTTAAGTCCAATTTTGTTGGCCTTGAATCAGCACA-TGAGCACC--TTCATCTTTATGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG-GCACCTTTTCATCTCTAAGTCCAAT
* ** *
764711 ATCGCTAGCCTTGAATTAGCATTTTGGCACCTTTGTCAT
65 ATCGCTAGCCTTGAATCAGCACATTAGCACC-TTGTCAT
*
764750 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTCTAAGTCCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTCTAAGTCCAAT
* *
764815 GTCGCTGGCCTTGAATCAGCACATTAGCACC-T-TCAT
65 ATCGCTAGCCTTGAATCAGCACATTAGCACCTTGTCAT
* *
764851 CTTTAAG-CCTAATATCACTGGTCC-TGAACCAGCATATTGGCACCTTTATCA-CTCT
1 CTTTAAGTCC-AATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTT-TCATCTCT
764906 TCTCATCTTC
Statistics
Matches: 133, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
100 6 0.05
101 81 0.61
102 5 0.04
103 1 0.01
104 40 0.30
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.34
Consensus pattern (102 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTCTAAGTCCAATA
TCGCTAGCCTTGAATCAGCACATTAGCACCTTGTCAT
Found at i:767740 original size:61 final size:61
Alignment explanation
Indices: 767644--767782 Score: 206
Period size: 61 Copynumber: 2.2 Consensus size: 61
767634 CGTTGCGACA
* *
767644 ACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGG
1 ACGCC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGCAGG
* * *
767706 ACGCCTTTTCTTTTCAAAGTCCACACGAGTTGGTGGAACTTTTTAGTCCTTAAAGAGCAGG
1 ACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGCAGG
*
767767 ACACCTTTTCCTTTTC
1 ACGCCTTTT-CTTTTC
767783 TCCTTTGCTC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
61 59 0.84
62 11 0.16
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (61 bp):
ACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGAACCTTTTAGTCCTCAAAGAGCAGG
Found at i:767858 original size:42 final size:41
Alignment explanation
Indices: 767810--768140 Score: 222
Period size: 42 Copynumber: 7.8 Consensus size: 41
767800 TAGGACACCT
* *
767810 TTTCCTTTTCTCCTTTGCCCTCAAAGAGCGAGACACATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGC-AGACACATTTCA
** * **
767852 TTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCTTTTTT
1 TTTCCTT-TTTT-CC-TTTGTCCTCAAAGAGCA-GACACATTTCA
* * *
767897 TTTCTTTTTTTCCTTTGTCCTCAAATAGCAAGACGA-ACTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGC-AGAC-ACATTTCA
* * * * *
767939 TTTCCTTCTTTTCCCTTCTAGTTCTCAAACAACAAGGCGCACTTT-A
1 TTTCCTT-TTTT-CCTT-T-GTCCTCAAAGAGC-AGACACA-TTTCA
* * *
767985 TTCTCC-TTTTTCCTTTGTCTTCAAAAAGCAGGACACATTTAA
1 TT-TCCTTTTTTCCTTTGTCCTCAAAGAGCA-GACACATTTCA
* * ** *
768027 TTT-CTTTTTTCCTTTGTCTTCAAAGGGCAGGATGCATTTTA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGCA-GACACATTTCA
* * *
768068 TTTCTTTTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCA
1 TTTCCTTTTTTCCTTTGTCCTCAAAGAGC-AGACACATTTCA
*
768110 TTCTCC-TTTTTCCTTTGTCCTTAAAGAGCAG
1 TT-TCCTTTTTTCCTTTGTCCTCAAAGAGCAG
768141 GATGCCCCAT
Statistics
Matches: 227, Mismatches: 43, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 41 0.18
42 100 0.44
43 14 0.06
44 15 0.07
45 32 0.14
46 19 0.08
47 5 0.02
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (41 bp):
TTTCCTTTTTTCCTTTGTCCTCAAAGAGCAGACACATTTCA
Found at i:768030 original size:88 final size:86
Alignment explanation
Indices: 767812--768117 Score: 223
Period size: 88 Copynumber: 3.5 Consensus size: 86
767802 GGACACCTTT
* * *
767812 TCCTTTTCTCCTTTGCCCTCAAAGAGC-GAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCCT
1 TCCTTTT-TCCTTTGTCCTCAAAAAGCAG-GACACATTTCATTTCCTTCTTTTCCCTTTAGTCCT
* * * * * *
767876 CAAAGAGCAGGATGCTTTTTTTT
64 CAAACAACAGGACGCCTTTATTC
* * * * *
767899 TCTTTTTTTCCTTTGTCCTCAAATAGCAAGACGA-ACTTCATTTCCTTCTTTTCCCTTCTAGTTC
1 TC-CTTTTTCCTTTGTCCTCAAAAAGCAGGAC-ACATTTCATTTCCTTCTTTTCCCTT-TAGTCC
767963 TCAAACAACAAGG-CGCACTTTATTC
63 TCAAACAAC-AGGACGC-CTTTATTC
* * *
767988 TCCTTTTTCCTTTGTCTTCAAAAAGCAGGACACATTTAATTT-CTT-TTTT-CCTTT-GTCTTCA
1 TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTAGTCCTCA
*** * *
768049 AAGGGCAGGATGCATTTTATT-
66 AACAACAGGACGC-CTTTATTC
* ** * *
768070 TCTTTTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTCCTT
1 TC-CTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTCATT-TCCTT
768118 TTTCCTTTGT
Statistics
Matches: 175, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
82 5 0.03
83 49 0.28
84 2 0.01
85 7 0.04
86 4 0.02
87 48 0.27
88 50 0.29
89 10 0.06
ACGTcount: A:0.20, C:0.26, G:0.11, T:0.43
Consensus pattern (86 bp):
TCCTTTTTCCTTTGTCCTCAAAAAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTAGTCCTCA
AACAACAGGACGCCTTTATTC
Found at i:768163 original size:83 final size:82
Alignment explanation
Indices: 767811--768164 Score: 191
Period size: 83 Copynumber: 4.2 Consensus size: 82
767801 AGGACACCTT
* * * * * *
767811 TTCC-TTTTCTCCTTTGCCCTCAAAGAGCGAGACACATTTCATTTCCTTCTTTTCCCTTTTGTCC
1 TTCCTTTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCC-T-TTTT-CC-TTTGTCT
*****
767875 TCAAAGAGCAGGATGCTTTTTT
62 TCAAAGAGCAGGATGC-ACCCA
* * * *
767897 TTTCTTTTTTTCCTTTGTCCTCAAATAGCAAGACGA-ACTTCATTTCCTTCTTTTCCCTTCTAGT
1 TTCCTTTTTTTCCTTTGTCCTCAAAAAGCAAGAC-ACATTTAATTTCC-T-TTTT-CCTT-T-GT
* * * **
767961 -TCTCAAACAACAAGG-CGCACTTTA
60 CT-TCAAAGAGC-AGGATGCAC-CCA
* * * *
767985 TT-CTCCTTTTTCCTTTGTCTTCAAAAAGCAGGACACATTTAATTTCTTTTTTCCTTTGTCTTCA
1 TTCCT-TTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCCTTTGTCTTCA
* ***
768049 AAGGGCAGGATGCATTTTA
65 AAGAGCAGGATGCA-CCCA
* ** * *
768068 TTTCTTTTTTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTCCTTTTTCCTTTGTCCTT-
1 TTCCTTTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATT-TCCTTTTTCCTTTGT-CTTC
768132 AAAGAGCAGGATGC-CCCA
64 AAAGAGCAGGATGCACCCA
768150 TTCCTTTTCTTTCCT
1 TTCCTTTT-TTTCCT
768165 CTTCCAAAGT
Statistics
Matches: 214, Mismatches: 38, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
82 11 0.05
83 54 0.25
84 31 0.14
85 7 0.03
86 9 0.04
87 50 0.23
88 49 0.23
89 3 0.01
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (82 bp):
TTCCTTTTTTTCCTTTGTCCTCAAAAAGCAAGACACATTTAATTTCCTTTTTCCTTTGTCTTCAA
AGAGCAGGATGCACCCA
Found at i:768765 original size:20 final size:20
Alignment explanation
Indices: 768740--768819 Score: 97
Period size: 20 Copynumber: 3.8 Consensus size: 20
768730 TTTTCACAAT
768740 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
768760 TTGTATTGATACATCTGATTATTCA
1 TTGTATCGATACAT-TG----TTCA
*
768785 TTGTATCGATACATGGTTCA
1 TTGTATCGATACATTGTTCA
768805 TTGTATCGATACATT
1 TTGTATCGATACATT
768820 CTGGTTTACC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
20 31 0.61
21 2 0.04
24 1 0.02
25 17 0.33
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:768796 original size:45 final size:47
Alignment explanation
Indices: 768740--768866 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 47
768730 TTTTCACAAT
* **
768740 TTGTATCGATACATTGTTCATTGTATTGATACATCT-GATTATTCA-
1 TTGTATCGATACATTGTTCATTGTATCGATACATCTGGATTACCCAG
* *
768785 TTGTATCGATACATGGTTCATTGTATCGATACATTCTGGTTTACCCAG
1 TTGTATCGATACATTGTTCATTGTATCGATACA-TCTGGATTACCCAG
* * *
768833 ATGTATCGATACATTTTTCAATGTATCGATACAT
1 TTGTATCGATACATTGTTCATTGTATCGATACAT
768867 TAAGGCATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 31 0.44
46 3 0.04
47 7 0.10
48 29 0.41
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (47 bp):
TTGTATCGATACATTGTTCATTGTATCGATACATCTGGATTACCCAG
Found at i:768858 original size:48 final size:46
Alignment explanation
Indices: 768741--768867 Score: 157
Period size: 48 Copynumber: 2.7 Consensus size: 46
768731 TTTCACAATT
* ** *
768741 TGTATCGATACATTGTTCATTGTATTGATACA-TCTGATTATTCAT
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGATTACCCAA
* *
768786 TGTATCGATACATGGTTCATTGTATCGATACATTCTGGTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCT-GATTACCCA-A
* *
768834 TGTATCGATACATTTTTCAATGTATCGATACATT
1 TGTATCGATACATTGTTCATTGTATCGATACATT
768868 AAGGCATTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
45 30 0.43
46 3 0.04
47 6 0.09
48 31 0.44
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (46 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGATTACCCAA
Found at i:771192 original size:50 final size:50
Alignment explanation
Indices: 771133--771261 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
771123 GTTAAATTTC
* * * *
771133 TTGATTTTTCATCTCGGGGATACTCCAACCTCGGTTTTATTTCTAAAATA
1 TTGATTTTTCATCTCGGGGATACTCCAACCCCAGTTTTATTTCCAAAACA
* *
771183 TTGATTTTTCATCTTGGGGATACTCTAACCCCAGTTTTATTTCCAAAACA
1 TTGATTTTTCATCTCGGGGATACTCCAACCCCAGTTTTATTTCCAAAACA
** *
771233 TCAATTTTTCATAATCGGGGATACTCCAA
1 TTGATTTTTCAT-CTCGGGGATACTCCAA
771262 TCCCGTTATT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 54 0.81
51 13 0.19
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (50 bp):
TTGATTTTTCATCTCGGGGATACTCCAACCCCAGTTTTATTTCCAAAACA
Found at i:771491 original size:158 final size:158
Alignment explanation
Indices: 771198--771585 Score: 408
Period size: 158 Copynumber: 2.4 Consensus size: 158
771188 TTTTCATCTT
* ** * *
771198 GGGGATACTCTAACCCCAGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
* * *
771263 CCCGTTATTTCTAAGGGGATACTTCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATT
66 CCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATCGATTTCTCACAATC
* *
771328 GGGGATACTCCAGCCCTGTTATTTTGGC
131 AGGGATACTCCAACCCTGTTATTTTGGC
* * * *
771356 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCTTCAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
* * * *
771421 CCCGTTATTT-TCGAGGGGATACTCCAACCCCGATTTTATTT-TCAAAATGTCGATTT-TCTATA
66 CCCGTTATTTCT-AAGGGGATACTCCAACCCCGACTTTATTTCT-AAAATATCGATTTCTC-ACA
* * *
771483 ATCAGGGATGCTCCAACCCTGTTATTTTTGA
128 ATCAGGGATACTCCAACCCTGTTATTTTGGC
* * * ** * * * *
771514 AGGGATAATCTAACCCC-GATTTTATTTCCAAAACA-CAGATTTTCCATAATCAGAGGATACTTC
1 GGGGATACTCCAACCCCAG-CCTTATTTCCAAAACATCA-ATTTTTCACAATC-GGGGATACTCC
*
771577 AGCCCCGTT
63 AACCCCGTT
771586 GTCATCTCCA
Statistics
Matches: 190, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
157 7 0.04
158 166 0.87
159 17 0.09
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACCCCAGCCTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATCGATTTCTCACAATC
AGGGATACTCCAACCCTGTTATTTTGGC
Found at i:771555 original size:79 final size:80
Alignment explanation
Indices: 771199--771574 Score: 317
Period size: 79 Copynumber: 4.8 Consensus size: 80
771189 TTTCATCTTG
771199 GGGATACTCTAACCCC-AGTTTTATTTCCAAAACATCA-ATTTT-TCATAATCGGGGATACTCCA
1 GGGATACTCTAACCCCGA-TTTTATTTCCAAAACA-CAGATTTTCTCATAATCGGGGATACTCCA
*
771261 ATCCC-GTTATTTCT-AA
64 A-CCCTGTTATTTTTGAA
* * * ** * *
771277 GGGGATACT-TCAACCCCGACTTTATTTCTAAAATATTGA-TTTCTCACAATTGGGGATACTCCA
1 -GGGATACTCT-AACCCCGATTTTATTTCCAAAACACAGATTTTCTCATAATCGGGGATACTCCA
* * **
771340 GCCCTGTTATTTTGGCG
64 ACCCTGTTATTTTTGAA
* *** * * * *
771357 GGGATACTCCAACCCCGGCCTTATTTCTAAAGCTTCA-ATTTT-TCACAATCGGGGATACTCCAA
1 GGGATACTCTAACCCCGATTTTATTTCCAAAAC-ACAGATTTTCTCATAATCGGGGATACTCCAA
* * *
771420 CCCCGTTATTTTCGAG
65 CCCTGTTATTTTTGAA
* * ** * *
771436 GGGATACTCCAACCCCGATTTTATTTTCAAAATGTC-GATTTTCT-ATAATCAGGGATGCTCCAA
1 GGGATACTCTAACCCCGATTTTATTTCCAAAA-CACAGATTTTCTCATAATCGGGGATACTCCAA
771499 CCCTGTTATTTTTGAA
65 CCCTGTTATTTTTGAA
* *
771515 GGGATAATCTAACCCCGATTTTATTTCCAAAACACAGATTTTC-CATAATCAGAGGATACT
1 GGGATACTCTAACCCCGATTTTATTTCCAAAACACAGATTTTCTCATAATC-GGGGATACT
771575 TCAGCCCCGT
Statistics
Matches: 236, Mismatches: 46, Indels: 29
0.76 0.15 0.09
Matches are distributed among these distances:
78 8 0.03
79 217 0.92
80 11 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (80 bp):
GGGATACTCTAACCCCGATTTTATTTCCAAAACACAGATTTTCTCATAATCGGGGATACTCCAAC
CCTGTTATTTTTGAA
Found at i:773982 original size:21 final size:21
Alignment explanation
Indices: 773958--774005 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
773948 ATAAATATAT
*
773958 TATAATTTTGGTAATGTTT-TA
1 TATAATTCT-GTAATGTTTGTA
**
773979 TATAGCTCTGTAATGTTTGTA
1 TATAATTCTGTAATGTTTGTA
774000 TATAAT
1 TATAAT
774006 CTAATAATGT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (21 bp):
TATAATTCTGTAATGTTTGTA
Found at i:775337 original size:134 final size:132
Alignment explanation
Indices: 775177--775581 Score: 467
Period size: 134 Copynumber: 3.0 Consensus size: 132
775167 AAGTTGAGAA
* * * *
775177 TTTTG-AAAATCTCATTTCATACCTTAATGGAGAACCAAAAAATTACGAAAAGTTTTGAAAGTTT
1 TTTTGAAAAAT-TCATTTCGTATCTTAATGGAGAACGAAAAGA-TACGAAAAGTTTTGAAAGTTT
* * * *
775241 CTATACCCCTACAGAAAACCCTAGGAATATCAAAAATCTTGAAAAATTAATATAATAATTTTTAT
64 CTATAACCCTA-AGAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTAT
775306 TTTTT
128 TTTTT
* *
775311 TTTTGAAAAATTCATTTCGTATCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTGAAGGATTC
1 TTTTGAAAAATTCATTTCGTATCTTAATGGAGAAC-GAAAAGATACGAAAAGTTTTGAAAGTTTC
* *
775376 TATAACCCTAAGAAAAACTATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATT
65 TATAACCCTAAG-AAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTA-T
775441 TAATTTT
128 T--TTTT
* *
775448 TTAAATTCAAAAAATTCATTTCGTATCTTAATGGAAAATCGAAAAGATACGAAAAGTTTT-AAAG
1 TT---TT-GAAAAATTCATTTCGTATCTTAATGGAGAA-CGAAAAGATACGAAAAGTTTTGAAAG
* * ** *
775512 ATTTCTAT-GCCTTTGTGAAAAGCCATAGGAATATGAGAAATCTTGAAAAATTAAGATAATAA-T
61 -TTTCTATAACC-CTAAGAAAA-CCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATT
775575 TTTATTT
123 TTTATTT
775582 AGTGATAAAA
Statistics
Matches: 235, Mismatches: 22, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
133 2 0.01
134 101 0.43
135 12 0.05
137 7 0.03
139 2 0.01
140 16 0.07
141 94 0.40
142 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (132 bp):
TTTTGAAAAATTCATTTCGTATCTTAATGGAGAACGAAAAGATACGAAAAGTTTTGAAAGTTTCT
ATAACCCTAAGAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTT
TT
Found at i:775532 original size:141 final size:136
Alignment explanation
Indices: 775182--775582 Score: 458
Period size: 141 Copynumber: 2.9 Consensus size: 136
775172 GAGAATTTTG
* * * * * *
775182 AAAATCTCATTTCATACCTTAATGGAGAAC-CAAAAAATTACGAAAAGTTTTGAAAGTTTCTATA
1 AAAAT-TCATTTCGTATCTTAATGGAAAACTGAAAAGA-TACGAAAAGTTTTGAAAGATTCTATA
* * * *
775246 CCCCTACAG-AAAACCCTAGGAATATCAAAAATCTTGAAAAATTAATATAATAATTTTTA-TT-T
64 ACCCTA-AGAAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAT
*
775308 TTTTTTTGA
128 TTTTTTTAA
* *
775317 AAAATTCATTTCGTATCTTAATGGAGAACTGAAAAGATACGAAAAGTTTTGAAGGATTCTATAAC
1 AAAATTCATTTCGTATCTTAATGGAAAACTGAAAAGATACGAAAAGTTTTGAAAGATTCTATAAC
* *
775382 CCTAAGAAAAACTATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTT
66 CCTAAGAAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTATTT-ATTT
775447 TTTAAATTCAA
130 TTT---TT-AA
775458 AAAATTCATTTCGTATCTTAATGGAAAA-TCGAAAAGATACGAAAAGTTTT-AAAGATTTCTAT-
1 AAAATTCATTTCGTATCTTAATGGAAAACT-GAAAAGATACGAAAAGTTTTGAAAGA-TTCTATA
* * ** * *
775520 GCCTTTGTGAAAAGCCATAGGAATATGAGAAATCTTGAAAAATTAAGATAATAA-TTTTATTTA
64 ACC-CTAAGAAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTA
775583 GTGATAAAAT
Statistics
Matches: 232, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
133 2 0.01
134 96 0.41
135 12 0.05
137 6 0.03
139 1 0.00
140 17 0.07
141 98 0.42
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (136 bp):
AAAATTCATTTCGTATCTTAATGGAAAACTGAAAAGATACGAAAAGTTTTGAAAGATTCTATAAC
CCTAAGAAAAACCATAGGAATATCAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTATTTT
TTTTAA
Found at i:776521 original size:13 final size:15
Alignment explanation
Indices: 776488--776554 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 15
776478 ATTTGCTTAA
* *
776488 TTTTTCTATTTTCTCT
1 TTTTTCT-TTCTCTTT
776504 TTTTT-TTTC-CTTT
1 TTTTTCTTTCTCTTT
776517 TTTTTCTTTCTC--T
1 TTTTTCTTTCTCTTT
*
776530 TTTTTCTCTCT-TTT
1 TTTTTCTTTCTCTTT
776544 TTTTTCTTTCT
1 TTTTTCTTTCT
776555 TCTCAAAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
13 19 0.44
14 17 0.40
15 2 0.05
16 5 0.12
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTCTCTTT
Found at i:776526 original size:26 final size:27
Alignment explanation
Indices: 776497--776554 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
776487 ATTTTTCTAT
*
776497 TTTCTCTTTTTT-TTTCCTTTTTTTTC
1 TTTCTCTTTTTTCTCTCCTTTTTTTTC
*
776523 TTTCTCTTTTTTCTCTCTTTTTTTTTC
1 TTTCTCTTTTTTCTCTCCTTTTTTTTC
776550 TTTCT
1 TTTCT
776555 TCTCAAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTCTCTTTTTTCTCTCCTTTTTTTTC
Found at i:776551 original size:21 final size:23
Alignment explanation
Indices: 776517--776558 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
776507 TTTTTCCTTT
*
776517 TTTTTCTTTCTCTTTTTTCTCTC
1 TTTTTCTTTCTCTTTCTTCTCTC
776540 TTTTT-TTT-TCTTTCTTCTC
1 TTTTTCTTTCTCTTTCTTCTC
776559 AAAGCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTCTTTCTCTTTCTTCTCTC
Found at i:776555 original size:14 final size:14
Alignment explanation
Indices: 776503--776555 Score: 65
Period size: 13 Copynumber: 3.9 Consensus size: 14
776493 CTATTTTCTC
*
776503 TTTTTT-TTTCCTT
1 TTTTTTCTTTCTTT
*
776516 TTTTTTCTTTC-TC
1 TTTTTTCTTTCTTT
*
776529 TTTTTTCTCTCTTT
1 TTTTTTCTTTCTTT
776543 TTTTTTCTTTCTT
1 TTTTTTCTTTCTT
776556 CTCAAAGCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 17 0.50
14 17 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:777321 original size:164 final size:164
Alignment explanation
Indices: 777025--777439 Score: 385
Period size: 164 Copynumber: 2.5 Consensus size: 164
777015 AATACATACT
** * * * * * * *
777025 AAAAAAATTCAAAACTCATAAAA-TAAATTGAAT-TTCTCAAAAATGATTTAATGAGAATTTACT
1 AAAAAAATAAAAAACTCATAAAATTAAA-TGAATGTT-TTAAAACTAATTTAATAAAAATTAAAT
* * * * * *
777088 GACAATATTAGATGAATTATAAAAATTTTAAACCGAAGAAAACCTCCCTGAAACATTTATGGGAT
64 AATAATATTTGATGAATT-TAAAAATTTCAAACCGAAGAAAAACTCCCTGAAACATTTATGGAAT
* * *** * *****
777153 AGAAAATTTAGTTTTTTGGAAATAGGGGCATTTCAAG
128 AGAAAACTTAATTTTTCAAAAACAAAAAAATTTCAAG
*
777190 AAAAAAATAAAAAACTCATGAAAA-TAAATGAAT-TTTGT-AAACTAATTTGATAAAAATTAAAT
1 AAAAAAATAAAAAACTCAT-AAAATTAAATGAATGTTT-TAAAACTAATTTAATAAAAATTAAAT
* * *
777252 GATAATATTTGATGAATATTAAAAATTTCAAACTG-AGAAAAAC-CCCTCGAAAACCTTTATGGA
64 AATAATATTTGATGAAT-TTAAAAATTTCAAACCGAAGAAAAACTCCCT-G-AAACATTTATGGA
777315 ATAGAAAACTTAATTTTTCAAAAACAAAAAAATTTCAAG
126 ATAGAAAACTTAATTTTTCAAAAACAAAAAAATTTCAAG
* * * * **
777354 GAAAAAATGAAAAACTCATAAAATTAAATGAATGTTTTAAAACTGATTTAATGATGATTAAATAA
1 AAAAAAATAAAAAACTCATAAAATTAAATGAATGTTTTAAAACTAATTTAATAAAAATTAAATAA
777419 TAATATTTGATGAATTTAAAA
66 TAATATTTGATGAATTTAAAA
777440 TTTATAAATA
Statistics
Matches: 206, Mismatches: 36, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
162 4 0.02
163 12 0.06
164 119 0.58
165 63 0.31
166 8 0.04
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.31
Consensus pattern (164 bp):
AAAAAAATAAAAAACTCATAAAATTAAATGAATGTTTTAAAACTAATTTAATAAAAATTAAATAA
TAATATTTGATGAATTTAAAAATTTCAAACCGAAGAAAAACTCCCTGAAACATTTATGGAATAGA
AAACTTAATTTTTCAAAAACAAAAAAATTTCAAG
Found at i:777512 original size:164 final size:164
Alignment explanation
Indices: 777182--777553 Score: 359
Period size: 164 Copynumber: 2.3 Consensus size: 164
777172 AAATAGGGGC
*
777182 ATTTCAAGAAAAAAATAAAAAACTCATGAAAATAAATGAATTTTGTAAACTAATTTGATAAAAAT
1 ATTTCAAGAAAAAAATAAAAAACTCATGAAAATAAATGAATTTTGTAAACTAATTTAATAAAAAT
* * * * **
777247 TAAATGATAATATTTGATGAATATTAAAAATTTCAAACTGAGAAAAACCCCTCGAAAACCTTTAT
66 TAAATAATAATATTTGATGAATATTAAAAATTTCAAAATAAAAAAAACCCCTCGAAAAAATTTAT
* * *
777312 GGAATAGAAAACTTAATTTTTCAAAAACAAAAAA
131 CGAAAAGAAAACTTAATATTTCAAAAACAAAAAA
* * * * *
777346 ATTTCAAGGAAAAAATGAAAAACTCAT-AAAATTAAATGAATGTTT-TAAAACTGATTTAATGAT
1 ATTTCAAGAAAAAAATAAAAAACTCATGAAAA-TAAATGAAT-TTTGT-AAACTAATTTAATAAA
*
777409 GATTAAATAATAATATTTGATGAAT-TT-AAAATTT-ATAAATAAAAAAAATCCCC-C-AAACAA
63 AATTAAATAATAATATTTGATGAATATTAAAAATTTCA-AAATAAAAAAAA-CCCCTCGAAA-AA
** *
777469 ATTTA-CGAAGAAGAAAACTCT-ATATTTCGGAAACATGAAAA
125 ATTTATCGAA-AAGAAAACT-TAATATTTCAAAAACA-AAAAA
* * * * * *
777510 ATTTTAA-AAGAAAATCAAAAGCTCTTGAAACAAAAATGAATTTT
1 ATTTCAAGAAAAAAATAAAAAACTCATGAAA-ATAAATGAATTTT
777554 TTGGAACTGA
Statistics
Matches: 171, Mismatches: 26, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
162 7 0.04
163 62 0.36
164 63 0.37
165 39 0.23
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.29
Consensus pattern (164 bp):
ATTTCAAGAAAAAAATAAAAAACTCATGAAAATAAATGAATTTTGTAAACTAATTTAATAAAAAT
TAAATAATAATATTTGATGAATATTAAAAATTTCAAAATAAAAAAAACCCCTCGAAAAAATTTAT
CGAAAAGAAAACTTAATATTTCAAAAACAAAAAA
Found at i:779130 original size:165 final size:164
Alignment explanation
Indices: 778762--779153 Score: 404
Period size: 165 Copynumber: 2.4 Consensus size: 164
778752 TTTTTTCTTA
* * *
778762 AAATTTTTCGGAAGGATTTTCATGGGTTTAGATTTTTAAAATTTATCAAATATTATTATTTAATT
1 AAATTTTTCGGAAGGATTTTCTTTGGTTTAAATTTTTAAAA-TTATCAAATATTATTATTTAATT
* * *
778827 TATATTAAATCAGTTTTTATAAATTTATTCATTTTCATGAGTTTTTAAAAATTTTCCTTGAAATT
65 TATATTAAATCAATTTTTATAAATTCATTCATTTTCATCAGTTTTTAAAAATTTTCCTTGAAATT
* * * **
778892 CTCTTATTTTCGAAATACAGAGTTTTCTACTCTGT
130 CTCTTATTTTCAAAAAACAGAATTTTCTACTCCAT
* *
778927 AAATTTTTTC--AAGGGGATTTTTTTTGGTTTTTAATTTTTAAAATTAATCAAATATTATTATTT
1 AAA-TTTTTCGGAA--GGATTTTCTTTGG-TTTAAATTTTTAAAATT-ATCAAATATTATTATTT
* *** *
778990 -ATTTATGTTAAATCAATTTTTA-AAAGTTCATTCATTTTCATTCA-TTTTT-ATTTTTTTCGTT
61 AATTTATATTAAATCAATTTTTATAAA-TTCATTCATTTTCA-TCAGTTTTTAAAAATTTTCCTT
* *
779051 GAAATTCT-TTTTTTTCAAAAAAATCA-AATTTTCTATTCCAT
124 GAAATTCTCTTATTTTC-AAAAAA-CAGAATTTTCTACTCCAT
* * *
779092 AAATATTTTCGGAAGGATTTTCTTTGGTATAAAATTTTTAAAATGTATCTAATATTGTTATT
1 AAAT-TTTTCGGAAGGATTTTCTTTGGT-TTAAATTTTTAAAAT-TATCAAATATTATTATT
779154 GAACTCTCAT
Statistics
Matches: 188, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
164 11 0.06
165 84 0.45
166 59 0.31
167 34 0.18
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.52
Consensus pattern (164 bp):
AAATTTTTCGGAAGGATTTTCTTTGGTTTAAATTTTTAAAATTATCAAATATTATTATTTAATTT
ATATTAAATCAATTTTTATAAATTCATTCATTTTCATCAGTTTTTAAAAATTTTCCTTGAAATTC
TCTTATTTTCAAAAAACAGAATTTTCTACTCCAT
Found at i:780817 original size:4 final size:4
Alignment explanation
Indices: 780808--780834 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
780798 ATATAAGAGA
780808 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
780835 ACATTATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:781585 original size:2 final size:2
Alignment explanation
Indices: 781578--781617 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
781568 CTCATGAAAC
*
781578 AT AT AT AT AT AT AT AT AT AT AT AT TT 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
781618 GAGAAACTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:784397 original size:12 final size:12
Alignment explanation
Indices: 784382--784412 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
784372 ACCGTCAAAG
784382 ATGATGAAGATA
1 ATGATGAAGATA
*
784394 ATGATGATGATA
1 ATGATGAAGATA
784406 ATGATGA
1 ATGATGA
784413 GGTTGACTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
ATGATGAAGATA
Found at i:788792 original size:18 final size:19
Alignment explanation
Indices: 788766--788804 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
788756 TATGTTGTTT
788766 TTTTATTG-TTGAT-TGAA
1 TTTTATTGTTTGATATGAA
788783 TTTTATTTGTTTGATATGAA
1 TTTTA-TTGTTTGATATGAA
788803 TT
1 TT
788805 AGGATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 5 0.26
20 6 0.32
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (19 bp):
TTTTATTGTTTGATATGAA
Found at i:788948 original size:13 final size:13
Alignment explanation
Indices: 788930--788966 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
788920 AAACAATTCT
788930 TTGTATCGATATA
1 TTGTATCGATATA
*
788943 TTGTATCAATATA
1 TTGTATCGATATA
*
788956 ATGTATCGATA
1 TTGTATCGATA
788967 CATGGGTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATATA
Found at i:789390 original size:20 final size:19
Alignment explanation
Indices: 789365--789435 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
789355 ACCCTGAAAA
789365 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
789385 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
789404 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
789425 GTATCGATACA
1 GTATCGATACA
789436 AGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:789488 original size:53 final size:53
Alignment explanation
Indices: 789405--789541 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
789395 AGATTGCATA
789405 GTATCGATACACACAAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
* *
789459 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
*
789512 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
789542 TTGGAAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
Found at i:789646 original size:24 final size:21
Alignment explanation
Indices: 789591--789631 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
789581 TTCATTACTA
789591 TTCATGTATCAATACATCACT
1 TTCATGTATCAATACATCACT
789612 TTCATGTATCAATACATCAC
1 TTCATGTATCAATACATCAC
789632 ACTGTTCACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (21 bp):
TTCATGTATCAATACATCACT
Found at i:789706 original size:13 final size:13
Alignment explanation
Indices: 789688--789726 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
789678 TCACTATTCA
789688 TGTATCGATACAT
1 TGTATCGATACAT
*
789701 TGTATCGATACAG
1 TGTATCGATACAT
*
789714 TGTATTGATACAT
1 TGTATCGATACAT
789727 CATAAATAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:792049 original size:13 final size:13
Alignment explanation
Indices: 792033--792059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
792023 ACTGGTTTTC
792033 TTGCTATTATGGA
1 TTGCTATTATGGA
792046 TTGCTATTATGGA
1 TTGCTATTATGGA
792059 T
1 T
792060 GATTTTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTGCTATTATGGA
Found at i:792768 original size:20 final size:20
Alignment explanation
Indices: 792743--792781 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
792733 AAAAATAATT
792743 GGTATTTGTATCGATACATA
1 GGTATTTGTATCGATACATA
792763 GGTATTTGTATCGATACAT
1 GGTATTTGTATCGATACAT
792782 TAAGGTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
GGTATTTGTATCGATACATA
Found at i:792914 original size:20 final size:19
Alignment explanation
Indices: 792869--792925 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
792859 TTTATCGATA
*
792869 CATTATATCGATACATGAT
1 CATTGTATCGATACATGAT
792888 CATTGTATCGATACATGCA-
1 CATTGTATCGATACATG-AT
792907 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
792926 AACTGGCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:792999 original size:20 final size:20
Alignment explanation
Indices: 792953--793006 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
792943 CTACCACTAT
792953 TTGTATCGATACATAGCACA
1 TTGTATCGATACATAGCACA
*
792973 TTATATCGATACATAAAG-A-A
1 TTGTATCGATACAT--AGCACA
792993 TTGTATCGATACAT
1 TTGTATCGATACAT
793007 TATCCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 27 0.90
21 1 0.03
22 2 0.07
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGCACA
Found at i:795357 original size:12 final size:12
Alignment explanation
Indices: 795326--795367 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
795316 CCTATTAAAA
795326 ATTATTTAA-TT
1 ATTATTTAATTT
*
795337 ATCATTTAATTT
1 ATTATTTAATTT
* *
795349 TTTATTTAATAT
1 ATTATTTAATTT
795361 ATTATTT
1 ATTATTT
795368 TTATTGAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATTTAATTT
Found at i:796548 original size:2 final size:2
Alignment explanation
Indices: 796543--796584 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
796533 ACACACATAA
*
796543 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
796585 GAGGTCAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:796687 original size:43 final size:43
Alignment explanation
Indices: 796589--796687 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 43
796579 ATATATGAGG
* *
796589 TCAATAGACATGACAATTCTCTAAAGTAAACAATTCTAATAGG
1 TCAATAGACATGACAATTCTCTAAAGTAAACAAGTCTAATAGA
* * *
796632 TCGATAGTCATGACCATTCTCTAAAG-AATACAAGTCT-ATAAGA
1 TCAATAGACATGACAATTCTCTAAAGTAA-ACAAGTCTAAT-AGA
*
796675 TCAATTGACATGA
1 TCAATAGACATGA
796688 ACCCTTTCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (43 bp):
TCAATAGACATGACAATTCTCTAAAGTAAACAAGTCTAATAGA
Found at i:799755 original size:2 final size:2
Alignment explanation
Indices: 799750--799784 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
799740 CTTTTGTGTG
* *
799750 TA TA TA TA CA TA CA 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
799785 CGGTGACTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:800754 original size:2 final size:2
Alignment explanation
Indices: 800747--800782 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
800737 CATGTGTTGC
* *
800747 AG AG AG AG AG AG AC AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
800783 GAGTACCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:801376 original size:18 final size:18
Alignment explanation
Indices: 801353--801406 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
801343 GAATTATATC
801353 TATTATTTATATATAAAA
1 TATTATTTATATATAAAA
* *
801371 TATTATTT-TTTAAAAAA
1 TATTATTTATATATAAAA
801388 TAATTATTTTATATATAAA
1 T-ATTA-TTTATATATAAA
801407 TTTGAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.28
18 12 0.41
19 3 0.10
20 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTATTTATATATAAAA
Found at i:802167 original size:19 final size:22
Alignment explanation
Indices: 802143--802189 Score: 73
Period size: 19 Copynumber: 2.3 Consensus size: 22
802133 TTTAAAATTT
802143 TTAAAAATAATT-TT-TT-ATA
1 TTAAAAATAATTATTATTCATA
802162 TTAAAAATAATTATTATTCATA
1 TTAAAAATAATTATTATTCATA
802184 TTAAAA
1 TTAAAA
802190 TTCTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.48
20 2 0.08
21 2 0.08
22 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAAAAATAATTATTATTCATA
Found at i:805746 original size:37 final size:37
Alignment explanation
Indices: 805704--805813 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
805694 TATTAATCAT
805704 TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
1 TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
*
805741 TACACTAATGTTTCTTGCACTACAATATT-GA-AAAG
1 TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
805776 TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
1 TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
805813 T
1 T
805814 TGGCATTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
35 33 0.48
36 2 0.03
37 34 0.49
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.37
Consensus pattern (37 bp):
TACACTAATGTTTCTTGCACTACAATATTCTATAAAG
Found at i:807029 original size:21 final size:21
Alignment explanation
Indices: 807003--807056 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
806993 GTCTAATTAA
*
807003 ATGTACATATAGTAAAACAAT
1 ATGTACATATAATAAAACAAT
* *
807024 ATGTACACATAATATAACAAT
1 ATGTACATATAATAAAACAAT
807045 ACT-TACATATAA
1 A-TGTACATATAA
807057 CATAGCTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.30
Consensus pattern (21 bp):
ATGTACATATAATAAAACAAT
Found at i:810742 original size:16 final size:16
Alignment explanation
Indices: 810723--810759 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
810713 AAATAACTTG
*
810723 AACTCAAAATGATTTA
1 AACTCAAAATGATTCA
*
810739 AACTTAAAATGATTCA
1 AACTCAAAATGATTCA
810755 AACTC
1 AACTC
810760 GAGATAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (16 bp):
AACTCAAAATGATTCA
Found at i:811694 original size:16 final size:16
Alignment explanation
Indices: 811675--811705 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
811665 AAATAATTCA
*
811675 AACTCGAAATGACCTG
1 AACTCGAAACGACCTG
811691 AACTCGAAACGACCT
1 AACTCGAAACGACCT
811706 AAACCCAAAA
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:0.39, C:0.29, G:0.16, T:0.16
Consensus pattern (16 bp):
AACTCGAAACGACCTG
Found at i:815943 original size:20 final size:20
Alignment explanation
Indices: 815903--815944 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
815893 TTAAATTTTA
815903 ATAGTTTTAAATTTAGATTT
1 ATAGTTTTAAATTTAGATTT
815923 ATAGATTTTAAATTTAG-TTT
1 ATAG-TTTTAAATTTAGATTT
815943 AT
1 AT
815945 TTAAATCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
ATAGTTTTAAATTTAGATTT
Found at i:818220 original size:3 final size:3
Alignment explanation
Indices: 818212--818245 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
818202 TCAACCATCA
* *
818212 ATG ATG ATG AAG ATA ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
818246 AGTTGACTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:825574 original size:12 final size:12
Alignment explanation
Indices: 825554--825590 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
825544 CAAGTACTAG
*
825554 CCTACGACTACT
1 CCTACGACTAAT
*
825566 CCTATGACTAAT
1 CCTACGACTAAT
825578 CCTACGACTAAT
1 CCTACGACTAAT
825590 C
1 C
825591 GTCATTAGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.30, C:0.35, G:0.08, T:0.27
Consensus pattern (12 bp):
CCTACGACTAAT
Found at i:826536 original size:20 final size:20
Alignment explanation
Indices: 826511--826562 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
826501 TACCTAGATG
*
826511 TATCGATACATTTTTCAATA
1 TATCGATACATTTATCAATA
* *
826531 TATCGATACATGTATGAATA
1 TATCGATACATTTATCAATA
826551 TATCGATACATT
1 TATCGATACATT
826563 CTGTCTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (20 bp):
TATCGATACATTTATCAATA
Found at i:826593 original size:71 final size:69
Alignment explanation
Indices: 826462--826612 Score: 239
Period size: 71 Copynumber: 2.2 Consensus size: 69
826452 TGCCCAGATG
* * *
826462 TATCGATACATTTTTAATATATCGATACATTATGTCTTTTACCTAGATGTATCGATACATTTTTC
1 TATCGATACATTATGAATATATCGATACATTATGTCTTTTACCCAGATGTATCGATACATTTTTC
826527 AATA
66 AATA
*
826531 TATCGATACATGTATGAATATATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACATTTT
1 TATCGATACAT-TATGAATATATCGATACATTATGTC-TTTTACCCAGATGTATCGATACATTTT
*
826596 TCAATG
64 TCAATA
826602 TATCGATACAT
1 TATCGATACAT
826613 CTAGTTAAAG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
69 11 0.15
70 22 0.29
71 42 0.56
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (69 bp):
TATCGATACATTATGAATATATCGATACATTATGTCTTTTACCCAGATGTATCGATACATTTTTC
AATA
Found at i:840593 original size:12 final size:11
Alignment explanation
Indices: 840560--840604 Score: 67
Period size: 10 Copynumber: 4.2 Consensus size: 11
840550 CCTTCGTACC
840560 AAAAA-AAACA
1 AAAAATAAACA
840570 AAAAAT-AACA
1 AAAAATAAACA
840580 AAAAATAAACCA
1 AAAAATAAA-CA
840592 AAAAATAAACA
1 AAAAATAAACA
840603 AA
1 AA
840605 CAAAATTAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.47
11 6 0.19
12 11 0.34
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAATAAACA
Found at i:840596 original size:22 final size:21
Alignment explanation
Indices: 840560--840609 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
840550 CCTTCGTACC
840560 AAAAAAAACAAAAAAT-AACA
1 AAAAAAAACAAAAAATAAACA
840580 AAAAATAAACCAAAAAATAAACA
1 AAAAA-AAA-CAAAAAATAAACA
*
840603 AACAAAA
1 AAAAAAA
840610 TTAGAAGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 3 0.12
22 10 0.38
23 8 0.31
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAAAAAACAAAAAATAAACA
Found at i:841904 original size:28 final size:28
Alignment explanation
Indices: 841874--842545 Score: 805
Period size: 28 Copynumber: 23.5 Consensus size: 28
841864 ATACGACCTT
* **
841874 TTTCAAAGCCCACAAGTTAGTGGCATTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
841902 TTTCAAAGCCCACAAGTCAGTGGCATTC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
841930 TTTCAAAGCCCATAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
841957 TTTTTCAAAGCCCACAAGTTAGTGGCATACCC
1 --TTTCAAAGCCCACAAGTCAGTGGCAT--CC
* * *
841989 TTTCAAAGCTCACAAGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
842017 TTTCAAAGCCCACAAGACAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842045 TTTCAAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
842073 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
842101 TTTTCAAAGCCCACAAGTCAGTGGCATACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCAT--CC
*
842132 TTTCAAAGCCCACAAGTC-GATGGCACCC
1 TTTCAAAGCCCACAAGTCAG-TGGCATCC
*
842160 TTTCAAAGCCCACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842188 -TTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842215 TTTCAAAGCCCATAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
842243 TTTTCAAAGCCCACAAGTCAGTGGCATACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCAT--CC
* *
842274 TTTCAAAGCCCACAAGCCGGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
842301 ATTTCGAAGCCCATAAATCAGTGGCATAC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
842330 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
842358 TTTCAAAGCCCACAAGTCAGGGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842386 TTTCAAAGCCCACAAGTTAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
842414 TCTCAAAGCCCGCAAGTCAGTGACATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842442 TTTCAAAGCCAACAAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
842469 ATTTCAAAACCCACAAGTCAATGGCATACC
1 -TTTCAAAGCCCACAAGTCAGTGGCAT-CC
* *
842499 TTTTCAAAACCCACACAAGTCAGTGGCAACTCT
1 -TTTC-AAAGCC-CACAAGTCAGTGGC-A-TCC
842532 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
842546 CAAGTTAGTG
Statistics
Matches: 557, Mismatches: 64, Indels: 44
0.84 0.10 0.07
Matches are distributed among these distances:
27 29 0.05
28 339 0.61
29 75 0.13
30 78 0.14
31 14 0.03
32 19 0.03
33 2 0.00
34 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:842132 original size:143 final size:143
Alignment explanation
Indices: 841874--842545 Score: 915
Period size: 143 Copynumber: 4.7 Consensus size: 143
841864 ATACGACCTT
**
841874 TTTCAAAGCCCACAAGTTAGTGGCATTTTTTCAAAGCCCACAAGTCAGTGGCAT-TCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT-TTTCAAAG
* * * *
841938 CCCATAAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCTCACA
65 CCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACA
842003 AGTCGGTGGCACCC
130 AGTCGGTGGCACCC
** *
842017 TTTCAAAGCCCACAAGACAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
842082 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
66 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
*
842147 GTCGATGGCACCC
131 GTCGGTGGCACCC
* * *
842160 TTTCAAAGCCCACAAGTTAGTGGCATCC-TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
*
842224 CCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
66 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
* *
842289 GCCGGTGGCACCA
131 GTCGGTGGCACCC
* * * * * *
842302 TTTCGAAGCCCATAAATCAGTGGCATACTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
* * * * * *
842367 CCACAAGTCAGGGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCAT--CATCTCAAAGCCCGCAA
66 CCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
* * *
842429 GTCAGTGACATCC
131 GTCGGTGGCACCC
* * *
842442 TTTCAAAGCCAACAAGTTAGTGGCA-CCATTTCAAAACCCACAAGTCAATGGCATACCTTTTCAA
1 TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCAT--CTTTTC-A
* *
842506 AACCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACA
62 AAGCC-CACAAGTCAGTGGC-ACCCTTTTCAAAGCCCACA
842546 CAAGTTAGTG
Statistics
Matches: 468, Mismatches: 52, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
139 1 0.00
140 66 0.14
142 159 0.34
143 212 0.45
144 14 0.03
145 2 0.00
146 14 0.03
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (143 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGC
CCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCCACAA
GTCGGTGGCACCC
Found at i:842516 original size:32 final size:32
Alignment explanation
Indices: 842470--842550 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
842460 AGTGGCACCA
842470 TTTCAAAA-CC-CACAAGTCAATGGCATAC-CT
1 TTTCAAAACCCACACAAGTCAATGGCA-ACTCT
*
842500 TTTCAAAACCCACACAAGTCAGTGGCAACTCT
1 TTTCAAAACCCACACAAGTCAATGGCAACTCT
*
842532 TTTCAAAGCCCACACAAGT
1 TTTCAAAACCCACACAAGT
842551 TAGTGACACC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 8 0.17
31 4 0.09
32 34 0.74
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (32 bp):
TTTCAAAACCCACACAAGTCAATGGCAACTCT
Found at i:842829 original size:19 final size:19
Alignment explanation
Indices: 842805--842867 Score: 57
Period size: 20 Copynumber: 3.6 Consensus size: 19
842795 CTTGTCAAGG
842805 TGTATCGATACTACGAATA
1 TGTATCGATACTACGAATA
842824 TGTATC-A-A-TAC--A-A
1 TGTATCGATACTACGAATA
*
842837 TGTATCGATACTAAGCAATA
1 TGTATCGATACTACG-AATA
*
842857 TGTATCAATAC
1 TGTATCGATAC
842868 ATCTGAGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 13
0.70 0.04 0.26
Matches are distributed among these distances:
13 7 0.20
14 2 0.06
15 1 0.03
16 5 0.14
17 1 0.03
18 1 0.03
19 7 0.20
20 11 0.31
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.32
Consensus pattern (19 bp):
TGTATCGATACTACGAATA
Found at i:842841 original size:32 final size:33
Alignment explanation
Indices: 842805--842868 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
842795 CTTGTCAAGG
*
842805 TGTATCGATACTACG-AATATGTATCAATACAA
1 TGTATCGATACTAAGCAATATGTATCAATACAA
842837 TGTATCGATACTAAGCAATATGTATCAATACA
1 TGTATCGATACTAAGCAATATGTATCAATACA
842869 TCTGAGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (33 bp):
TGTATCGATACTAAGCAATATGTATCAATACAA
Found at i:843996 original size:12 final size:12
Alignment explanation
Indices: 843972--844006 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
843962 AGTACTAGCA
*
843972 TACGACTACTCC
1 TACGACTAATCC
*
843984 TATGACTAATCC
1 TACGACTAATCC
843996 TACGACTAATC
1 TACGACTAATC
844007 GTCACTAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (12 bp):
TACGACTAATCC
Found at i:844919 original size:20 final size:20
Alignment explanation
Indices: 844877--844949 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
844867 TTTTACCTAG
* *
844877 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
*
844897 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
*
844917 ATGTAAT-GATACAT-TACCCA
1 ATGT-ATCGATACATGTA-TCA
844937 GATGTATCGATAC
1 -ATGTATCGATAC
844950 GATACATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.05
20 31 0.70
21 11 0.25
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:845849 original size:20 final size:22
Alignment explanation
Indices: 845809--845849 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
845799 TAGCCTTTGG
*
845809 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
845831 CCATGCA-TTTTTAAC-ATGT
1 CCATGCATTTTTTAACTATGT
845850 CTAGCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:850064 original size:17 final size:17
Alignment explanation
Indices: 850000--850064 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
849990 TTATATTTTA
* * *
850000 TTATATCATAAAATATT
1 TTATATTATATAATAAT
*
850017 TTATATT-TATTATAAAT
1 TTATATTATATAAT-AAT
*
850034 TT-TAATATATTAATAAT
1 TTATATTATA-TAATAAT
850051 TTATATTATATAAT
1 TTATATTATATAAT
850065 TTTTAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 7 0.19
17 21 0.57
18 9 0.24
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATTATATAATAAT
Found at i:850075 original size:34 final size:34
Alignment explanation
Indices: 850011--850076 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
850001 TATATCATAA
*
850011 AATATTTTATATTTATTATAAATTTTAATATATT
1 AATAATTTATATTTATTATAAATTTTAATATATT
* *
850045 AATAATTTATA-TTA-TATAATTTTTAAAATATT
1 AATAATTTATATTTATTATAAATTTTAATATATT
850077 TATATATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 16 0.55
33 3 0.10
34 10 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
AATAATTTATATTTATTATAAATTTTAATATATT
Found at i:853569 original size:40 final size:40
Alignment explanation
Indices: 853503--853596 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
853493 TACATGCCTA
*
853503 AAATATATCGATAC-AAAACTACCCTACATACTGCCAAGG
1 AAATGTATCGATACAAAAACTACCCTACATACTGCCAAGG
853542 AAATGTATCGATACAAAAACTACCCTACATACTGCCAAGG
1 AAATGTATCGATACAAAAACTACCCTACATACTGCCAAGG
853582 AAATGTATCGATACA
1 AAATGTATCGATACA
853597 TAAATAAATG
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 13 0.25
40 40 0.75
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (40 bp):
AAATGTATCGATACAAAAACTACCCTACATACTGCCAAGG
Found at i:853738 original size:49 final size:51
Alignment explanation
Indices: 853633--853751 Score: 172
Period size: 49 Copynumber: 2.4 Consensus size: 51
853623 GTTTGTAATG
* *
853633 ATACATTTTTCATTGTATCGATACATTCTGGGTTTTAACCCAAATGTATCA
1 ATACATTTTTCATTGTATCCATAAATTCTGGGTTTTAACCCAAATGTATCA
*
853684 ATACATTTTTCATTGTATCCATAAATTCT-GG-TTTAACCCAAATGTATCG
1 ATACATTTTTCATTGTATCCATAAATTCTGGGTTTTAACCCAAATGTATCA
*
853733 GTACATTTCTT-ATTGTATC
1 ATACATTT-TTCATTGTATC
853752 GATACATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
49 32 0.51
50 4 0.06
51 27 0.43
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.43
Consensus pattern (51 bp):
ATACATTTTTCATTGTATCCATAAATTCTGGGTTTTAACCCAAATGTATCA
Found at i:853751 original size:20 final size:20
Alignment explanation
Indices: 853726--853775 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
853716 TTAACCCAAA
*
853726 TGTATCGGTACATTTCTTAT
1 TGTATCGATACATTTCTTAT
*
853746 TGTATCGATACATTTCTTAA
1 TGTATCGATACATTTCTTAT
*
853766 TATATCGATA
1 TGTATCGATA
853776 TATTCAGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTCTTAT
Found at i:856438 original size:33 final size:32
Alignment explanation
Indices: 856396--856460 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
856386 CACACCCAGA
*
856396 TGTATCGATACATATTGCTTAGTATCAATACAT
1 TGTATCGATACATATT-CATAGTATCAATACAT
* *
856429 TGTATCGATACATGTTCATAGTATCGATACAT
1 TGTATCGATACATATTCATAGTATCAATACAT
856461 GAAACTGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATATTCATAGTATCAATACAT
Found at i:863667 original size:92 final size:92
Alignment explanation
Indices: 863565--863750 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 92
863555 ATAGAGGTAG
*
863565 AAAAAAACTATTACTTGGCTGTATGAAACTGTTCTATAATAATTCTTAAACCATCTTCTTAGTGA
1 AAAAAAACTATTACTTGGCTGTATGAAACTGTTCTATAATAATTCTTAAACCATCTTCTTAATGA
*
863630 CATCTTTTTGCAAGTAAGAGTGTCTAT
66 CATCTTTTTGCAAGTAAGAGTGTATAT
863657 AAAAAAACTATTACTTGGCTGTATGAAACTGTTCTATAATAATTCTTAAACCATCTTCTTAATGA
1 AAAAAAACTATTACTTGGCTGTATGAAACTGTTCTATAATAATTCTTAAACCATCTTCTTAATGA
*
863722 CATTTTTTTGCAAGTAAGAGTGTATAT
66 CATCTTTTTGCAAGTAAGAGTGTATAT
863749 AA
1 AA
863751 GGTCTGACAA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (92 bp):
AAAAAAACTATTACTTGGCTGTATGAAACTGTTCTATAATAATTCTTAAACCATCTTCTTAATGA
CATCTTTTTGCAAGTAAGAGTGTATAT
Found at i:864872 original size:20 final size:20
Alignment explanation
Indices: 864826--864882 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
864816 TTGTACCGAT
*
864826 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGC
*
864845 TC-ATTGTATCGATACATGC
1 ACAATTGTATCGATACATGC
864864 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
864883 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGC
Found at i:864949 original size:33 final size:32
Alignment explanation
Indices: 864912--864976 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
864902 TACCACTGTT
864912 TGTATCAATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
*
864945 TGTATCGATACATGAAGAATTGTATCGATACA
1 TGTATCAATACATG-AGAATTGTATCGATACA
864977 TTGTCCCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:864950 original size:13 final size:13
Alignment explanation
Indices: 864932--864956 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
864922 CATGGCACAT
864932 TGTATCGATACAA
1 TGTATCGATACAA
864945 TGTATCGATACA
1 TGTATCGATACA
864957 TGAAGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:866900 original size:38 final size:39
Alignment explanation
Indices: 866853--866950 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
866843 TTAAGGGTCA
*
866853 TTTAATAATTTTGAGTCAAAATCGA-TTTTAAAAGTAAT
1 TTTAGTAATTTTGAGTCAAAATCGAGTTTTAAAAGTAAT
* * * * *
866891 TTTAGTAATTTTGAGTTATAATCGAGTTTTAGAGGTTAT
1 TTTAGTAATTTTGAGTCAAAATCGAGTTTTAAAAGTAAT
866930 TTTAGTAATTTTGAGTCAAAA
1 TTTAGTAATTTTGAGTCAAAA
866951 CCAGGTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 22 0.43
39 29 0.57
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (39 bp):
TTTAGTAATTTTGAGTCAAAATCGAGTTTTAAAAGTAAT
Found at i:866976 original size:38 final size:37
Alignment explanation
Indices: 866853--866979 Score: 146
Period size: 38 Copynumber: 3.3 Consensus size: 37
866843 TTAAGGGTCA
* * * *
866853 TTTAATAATTTTGAGTCAAAATCGATTTTAAAAGTAAT
1 TTTAGTAATTTTGAGTCAAAATCGGTTTT-AAGGTTAT
* *
866891 TTTAGTAATTTTGAGTTATAATCGAGTTTTAGAGGTTAT
1 TTTAGTAATTTTGAGTCAAAATCG-GTTTTA-AGGTTAT
*
866930 TTTAGTAATTTTGAGTCAAAACCAGGTTTTAAGGTTAT
1 TTTAGTAATTTTGAGTCAAAATC-GGTTTTAAGGTTAT
*
866968 TTTGGTAATTTT
1 TTTAGTAATTTT
866980 AATCAAACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 40 0.53
39 35 0.46
40 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (37 bp):
TTTAGTAATTTTGAGTCAAAATCGGTTTTAAGGTTAT
Found at i:867041 original size:39 final size:39
Alignment explanation
Indices: 866998--867079 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
866988 TTCTAAGAGA
* * * * *
866998 ATTTTGGTAATTTTATGTCAAAATTGGGTTTTT-AGGGCT
1 ATTTTGGTAACTTTAGGTAAAAATAGAGTTTTTGAGGG-T
*
867037 ATTTTGGTGACTTTAGGTAAAAATAGAGTTTTTGAGGGT
1 ATTTTGGTAACTTTAGGTAAAAATAGAGTTTTTGAGGGT
867076 ATTT
1 ATTT
867080 CAATCATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 32 0.89
40 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (39 bp):
ATTTTGGTAACTTTAGGTAAAAATAGAGTTTTTGAGGGT
Found at i:869946 original size:24 final size:24
Alignment explanation
Indices: 869919--869965 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
869909 ATTATATATG
869919 TATATATAAATATAATAAGAATTA
1 TATATATAAATATAATAAGAATTA
* * **
869943 TATATGTTAATATGTTAAGAATT
1 TATATATAAATATAATAAGAATT
869966 GCATATTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (24 bp):
TATATATAAATATAATAAGAATTA
Found at i:871561 original size:23 final size:22
Alignment explanation
Indices: 871534--871593 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
871524 TATAAAAAAT
871534 GAAAAAAAGAAAAACA-GAAAGA
1 GAAAAAAAGAAAAA-ATGAAAGA
*
871556 GAAAAAAAGAAAGAAATGAGAGA
1 GAAAAAAAGAAA-AAATGAAAGA
*
871579 GAAGAAAAGAAAAAA
1 GAAAAAAAGAAAAAA
871594 GAGAAATAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (22 bp):
GAAAAAAAGAAAAAATGAAAGA
Found at i:873167 original size:266 final size:265
Alignment explanation
Indices: 872694--873226 Score: 870
Period size: 266 Copynumber: 2.0 Consensus size: 265
872684 TTGTTAAGGG
872694 TTGTTAGGATCTTGGTTTTGATATAACAAAGGTTGAATAAAACCGAAAATTAATTTGAAAATACC
1 TTGTTAGGATCTTGGTTTTGATATAACAAAGGTTGAATAAAACCGAAAATTAATTTGAAAATACC
* * * * * *
872759 AAAAATGTGTTTTATTCATTTAAGTACTTTATAAATTTTGTGCTAAATGATTTTTAACTCACTAA
66 AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTAACTCACCAA
* *
872824 ATGTTTTCTAGATAAGTATAAATGTTTTCAAGGCGTAAAATGATTGATTTTCAAGTTAAAATTTA
131 ATGTTTTCTAGATAAGTACAAATGTTTTCAAGGCGTAAAATGATTGATTTTCAAGTTAAAATATA
*
872889 TCAAAGTATCGATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGCTATAAA-GGTCA
196 TCAAAGTATCGATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGATA-AAATGGTCA
872953 AAACCC
260 AAACCC
* * *
872959 TTGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATGC
1 TTGTTAGGATCTTGGTTTTGATATAACAAAGG-TTGAATAAAACCGAAAATTAATTTGAAAATAC
* *
873024 CAAAAATATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTGATTCACCA
65 CAAAAATATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTAACTCACCA
* * * *
873089 AATGTTTTCTAGTTAAGTACAAATGTTTTCAATGCTTAAAATGATTGATTTTTAAGTTAAAATAT
130 AATGTTTTCTAGATAAGTACAAATGTTTTCAAGGCGTAAAATGATTGATTTTCAAGTTAAAATAT
*
873154 ATCAAAGTATCGATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGATAAAATTGTCA
195 ATCAAAGTATCGATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGATAAAATGGTCA
873219 AAACCC
260 AAACCC
873225 TT
1 TT
873227 AAAAATATCG
Statistics
Matches: 247, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
265 35 0.14
266 212 0.86
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (265 bp):
TTGTTAGGATCTTGGTTTTGATATAACAAAGGTTGAATAAAACCGAAAATTAATTTGAAAATACC
AAAAATATGTTTTATTCAATTAAGTACTTAATAAATTTTGTACCAAATGATTTTTAACTCACCAA
ATGTTTTCTAGATAAGTACAAATGTTTTCAAGGCGTAAAATGATTGATTTTCAAGTTAAAATATA
TCAAAGTATCGATACATAGGTATTTGTATCGATACATTAAGGTTGACTTAGGATAAAATGGTCAA
AACCC
Found at i:873379 original size:20 final size:20
Alignment explanation
Indices: 873334--873385 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
873324 GTAGCCAAAC
**
873334 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
873354 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
873373 TTGTATCGATACA
1 TTGTATCGATACA
873386 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:875626 original size:21 final size:21
Alignment explanation
Indices: 875593--875642 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
875583 TTGCAAGTTG
*
875593 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
875615 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
875636 AAATAAA
1 AAATAAA
875643 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:877460 original size:15 final size:15
Alignment explanation
Indices: 877440--877470 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
877430 TAAAAATGTC
*
877440 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
877455 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
877470 C
1 C
877471 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:878873 original size:13 final size:13
Alignment explanation
Indices: 878855--878892 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
878845 CATTTTTCTT
878855 TGTATCGATACAA
1 TGTATCGATACAA
*
878868 TGTATCGATACAC
1 TGTATCGATACAA
878881 TGTATCGATACA
1 TGTATCGATACA
878893 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:879047 original size:20 final size:20
Alignment explanation
Indices: 879004--879049 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
878994 AAATCTTTTG
879004 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
879025 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
879045 CAAAA
1 CAAAA
879050 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:880546 original size:23 final size:21
Alignment explanation
Indices: 880504--880547 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
880494 GTTTAATGTT
**
880504 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
880525 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
880548 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:880796 original size:18 final size:18
Alignment explanation
Indices: 880773--880808 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
880763 GGGGGATAAA
880773 GTACGAATTTGTTAAAAT
1 GTACGAATTTGTTAAAAT
880791 GTACGAATTTGTTAAAAT
1 GTACGAATTTGTTAAAAT
880809 TATTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
GTACGAATTTGTTAAAAT
Found at i:881398 original size:20 final size:19
Alignment explanation
Indices: 881347--881398 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
881337 CCCTTAAAAA
*
881347 TATCGATACATAATTCAAAG
1 TATCGATACAT-GTTCAAAG
*
881367 TATCGATACATGTTGCAATG
1 TATCGATACATGTT-CAAAG
881387 TATCGATACATG
1 TATCGATACATG
881399 AAAAAGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TATCGATACATGTTCAAAG
Found at i:881486 original size:13 final size:13
Alignment explanation
Indices: 881468--881493 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
881458 TACACAAAGT
881468 ATGTATCGATACA
1 ATGTATCGATACA
881481 ATGTATCGATACA
1 ATGTATCGATACA
881494 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:881491 original size:32 final size:33
Alignment explanation
Indices: 881450--881513 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
881440 TAGCCAAACT
**
881450 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
881482 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
881514 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:888432 original size:8 final size:8
Alignment explanation
Indices: 888419--888449 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
888409 ATTTGATTAA
888419 ATTTTGTG
1 ATTTTGTG
888427 ATTTTGTG
1 ATTTTGTG
888435 ATTTTGTG
1 ATTTTGTG
888443 ATGTTTG
1 AT-TTTG
888450 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:889135 original size:21 final size:21
Alignment explanation
Indices: 889100--889140 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
889090 AGCACTCACC
*
889100 AGGTCGCGACCGGCA-CCCCG
1 AGGTCGCAACCGGCAGCCCCG
889120 AGGTCGCAACCGGGCAGCCCC
1 AGGTCGCAACC-GGCAGCCCC
889141 CACACTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.17, C:0.44, G:0.34, T:0.05
Consensus pattern (21 bp):
AGGTCGCAACCGGCAGCCCCG
Found at i:890234 original size:37 final size:37
Alignment explanation
Indices: 890193--890266 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
890183 GCATTGATTC
*
890193 GATCGATGCTCGACTCATCAAAATCGAGCATCAGCTT
1 GATCGAAGCTCGACTCATCAAAATCGAGCATCAGCTT
*
890230 GATCGAAGCTCGGCTCATCAAAATCGAGCATCAGCTT
1 GATCGAAGCTCGACTCATCAAAATCGAGCATCAGCTT
890267 TGTCCTAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (37 bp):
GATCGAAGCTCGACTCATCAAAATCGAGCATCAGCTT
Found at i:890532 original size:21 final size:21
Alignment explanation
Indices: 890506--890548 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
890496 CTTTGCAAAT
890506 AAATTTATGATTAAGGGGGAG
1 AAATTTATGATTAAGGGGGAG
* *
890527 AAATTTTTTATTAAGGGGGAG
1 AAATTTATGATTAAGGGGGAG
890548 A
1 A
890549 GATAAGGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (21 bp):
AAATTTATGATTAAGGGGGAG
Found at i:891240 original size:20 final size:20
Alignment explanation
Indices: 891197--891248 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
891187 CTTAACTGTT
*
891197 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
* *
891216 TGTATCAATACATCCCAAAA
1 TGTATCGATACATCACAAAA
891236 TGTATCGATACAT
1 TGTATCGATACAT
891249 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:892362 original size:13 final size:13
Alignment explanation
Indices: 892344--892384 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
892334 TCTGGAAATT
892344 CAATGTATCGATA
1 CAATGTATCGATA
892357 CAATGTATCGATA
1 CAATGTATCGATA
*
892370 CACTGTATCGATA
1 CAATGTATCGATA
892383 CA
1 CA
892385 GGGGGATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:892539 original size:20 final size:20
Alignment explanation
Indices: 892496--892541 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
892486 AAATCTTTTG
892496 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
892517 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
892537 CAAAA
1 CAAAA
892542 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:894038 original size:23 final size:21
Alignment explanation
Indices: 893996--894039 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
893986 GTTTAATGTT
**
893996 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
894017 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
894040 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:894288 original size:18 final size:18
Alignment explanation
Indices: 894265--894300 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
894255 GGGGGATAAA
894265 GTACGAATTTGTTAAAAT
1 GTACGAATTTGTTAAAAT
894283 GTACGAATTTGTTAAAAT
1 GTACGAATTTGTTAAAAT
894301 TATTTTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (18 bp):
GTACGAATTTGTTAAAAT
Found at i:894890 original size:20 final size:19
Alignment explanation
Indices: 894839--894890 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
894829 CCCTTAAAAA
*
894839 TATCGATACATAATTCAAAG
1 TATCGATACAT-GTTCAAAG
*
894859 TATCGATACATGTTGCAATG
1 TATCGATACATGTT-CAAAG
894879 TATCGATACATG
1 TATCGATACATG
894891 AAAAAGATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (19 bp):
TATCGATACATGTTCAAAG
Found at i:894986 original size:20 final size:20
Alignment explanation
Indices: 894941--894992 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
894931 GTAGCCAAAC
**
894941 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
894961 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
894980 TTGTATCGATACA
1 TTGTATCGATACA
894993 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:895814 original size:13 final size:13
Alignment explanation
Indices: 895796--895820 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
895786 ATATTGCACA
895796 GTATCGATACATT
1 GTATCGATACATT
895809 GTATCGATACAT
1 GTATCGATACAT
895821 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Done.