Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 285 of 333
Found at i:94238241 original size:20 final size:18
Alignment explanation
Indices: 94238216--94238252 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
94238206 ATTGCTAAGT
94238216 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
94238236 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
94238253 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:94238858 original size:46 final size:46
Alignment explanation
Indices: 94238806--94238980 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
94238796 TGGTTGAGCA
94238806 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
94238852 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
94238897 CATCCGAGCTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
94238944 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94238981 CGGGTTACAT
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 20 0.19
46 54 0.50
47 20 0.19
49 5 0.05
50 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94238961 original size:92 final size:93
Alignment explanation
Indices: 94238803--94238972 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
94238793 GGATGGTTGA
**
94238803 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
94238868 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
94238896 GCATCCGAGCTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAATGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
94238960 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
94238973 ACTTATGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 51 0.71
93 21 0.29
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:94239723 original size:14 final size:14
Alignment explanation
Indices: 94239704--94239734 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
94239694 AACTAGTAAG
94239704 TAGAAATATGAGTC
1 TAGAAATATGAGTC
94239718 TAGAAATATGAGTC
1 TAGAAATATGAGTC
94239732 TAG
1 TAG
94239735 TTTCAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (14 bp):
TAGAAATATGAGTC
Found at i:94245941 original size:30 final size:30
Alignment explanation
Indices: 94245905--94246049 Score: 177
Period size: 30 Copynumber: 4.8 Consensus size: 30
94245895 ACTTTTCTCA
*
94245905 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* * *
94245935 ACTAGCCACTCATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
94245965 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
94245995 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
94246025 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
94246050 CTTGTACCTA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
29 3 0.03
30 97 0.97
ACGTcount: A:0.28, C:0.48, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:94246598 original size:24 final size:23
Alignment explanation
Indices: 94246543--94246601 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
94246533 CCTTTTTTGT
*
94246543 TATTAGTATATTTCTTAATATTA
1 TATTAGTATATTTCTTAATAATA
*
94246566 TATTA-TATATATTCTT-TTAATA
1 TATTAGTATAT-TTCTTAATAATA
94246588 TATTAGGTATATTT
1 TATTA-GTATATTT
94246602 TAAATTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 14 0.45
23 12 0.39
24 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
TATTAGTATATTTCTTAATAATA
Found at i:94246646 original size:25 final size:26
Alignment explanation
Indices: 94246608--94246759 Score: 95
Period size: 25 Copynumber: 6.0 Consensus size: 26
94246598 ATTTTAAATT
94246608 CTATATTACGTGTATATATATATT-ATA
1 CTATATTA--TGTATATATATATTAATA
* *
94246635 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
94246660 TTATATTATTTATATATATATT--TA
1 CTATATTATGTATATATATATTAATA
* * * *
94246684 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTATATATATAT-TAATA
* * *
94246710 CTATATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATATTAATA
* *
94246735 CTATATTATGTACATAT-TTTTAATA
1 CTATATTATGTATATATATATTAATA
94246760 TTATCACGTA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
23 6 0.06
24 17 0.17
25 54 0.53
26 11 0.11
27 13 0.13
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:94246940 original size:16 final size:15
Alignment explanation
Indices: 94246916--94246963 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
94246906 TAATTATTAT
*
94246916 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
94246932 TATTTTAATATTTTA
1 TATTTTAATATTTTA
94246947 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
94246963 T
1 T
94246964 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:94246951 original size:7 final size:8
Alignment explanation
Indices: 94246916--94246967 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
94246906 TAATTATTAT
*
94246916 TATTCTAA
1 TATTTTAA
*
94246924 TATTTTGA
1 TATTTTAA
94246932 TATTTTAA
1 TATTTTAA
94246940 TATTTT-A
1 TATTTTAA
94246947 TATTTTATA
1 TATTTTA-A
*
94246956 TATTTTAT
1 TATTTTAA
94246964 TATT
1 TATT
94246968 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:94248559 original size:12 final size:12
Alignment explanation
Indices: 94248542--94248577 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
94248532 ATTCATTTGA
94248542 CATTCATGCATT
1 CATTCATGCATT
*
94248554 CATTCATGCATC
1 CATTCATGCATT
*
94248566 CATTCATTCATT
1 CATTCATGCATT
94248578 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:94248571 original size:16 final size:17
Alignment explanation
Indices: 94248550--94248581 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
94248540 GACATTCATG
94248550 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
94248566 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
94248582 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:94256813 original size:73 final size:72
Alignment explanation
Indices: 94256632--94258252 Score: 1159
Period size: 72 Copynumber: 21.4 Consensus size: 72
94256622 CTTTTCAAGG
* * * * * *
94256632 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94256697 GTTTTTC-
66 G-TTTTCA
*
94256704 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94256769 GTTTGTCA
66 GTTT-TCA
* *
94256777 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTCAATTTC
*
94256842 TATTTTCA
65 TGTTTTCA
*
94256850 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94256915 GTTTTCA
66 GTTTTCA
* ** * * * *
94256922 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94256987 GTCTTTCAAA
66 GT-TTTC--A
*
94256997 AAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
94257062 GTTGTTAAAA
66 GTT-TT--CA
* **
94257072 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94257137 GTTTTCA
66 GTTTTCA
* * ** * * *
94257144 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94257209 GTTTTCAAAAA
66 GTTTTC----A
* * *
94257220 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
94257284 TCTGTCTTTGAAAA
63 TCTGT-TTT---CA
* * * * *
94257298 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTTTTCAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTA---ATTTCAA
* *
94257363 -TTCAT-ATTGCGA
61 TTTC-TGTTTTC-A
* ** * ** * *** * ** * *** * ** * * *
94257375 GAGGTGAGTTGAGCCT-CGGGGCACGCCGAGGT-ATTTTCA-AATTCTCT-TGTTCAAATCCTGT
1 AAAATCAACTCATATTGC-GAG-A-GGTGAGTTGAGCCTCAGGACACGCTGAGGT--AAT--T-T
* * *
94257436 CTTTAATTTTTACTTTTCC
58 C---AATTTCT-GTTTTCA
*
94257455 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGG-----T-AATT
* * *
94257519 TCTATTTTTCAATTTCTGTTCGT
57 TC-A-ATTTC--TGT-T-TTC-A
** * * * * * *
94257542 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGCTGAGGTA-ATT
*
94257604 TAAATTTCTGTTTTTCA
57 TCAATTTCTG-TTTTCA
* *
94257621 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94257686 GTTTGTCA
66 GTTT-TCA
* * * **
94257694 AAAATTAACTCATATTGCGAGAGGTGTGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
94257758 TCTGTTCTTCAA
63 TCTGTT-TTC-A
** * * * * *
94257770 TTTCTGTTCGTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 -----------AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCAGGACACGC
* *
94257832 TGAGGTATTTTTAAATTTCTGTTTTCA
47 TGAGGTA-ATTTCAATTTCTGTTTTCA
* * *
94257859 AAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94257924 GTTTTCA
66 GTTTTCA
* ** * * *
94257931 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94257996 GTTTTCA
66 GTTTTCA
* ** * ** * * *
94258003 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAGTTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94258068 GCTTTTCA
66 G-TTTTCA
* ** * * *
94258076 AAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94258141 GTTTTCA
66 GTTTTCA
* ** *
94258148 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94258213 GTTTGTCA
66 GTTT-TCA
* *
94258221 AGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
94258253 ACCTTTTAAT
Statistics
Matches: 1252, Mismatches: 191, Indels: 211
0.76 0.12 0.13
Matches are distributed among these distances:
71 3 0.00
72 421 0.34
73 276 0.22
74 38 0.03
75 160 0.13
76 41 0.03
77 9 0.01
78 99 0.08
79 38 0.03
80 20 0.02
81 16 0.01
82 8 0.01
83 8 0.01
84 9 0.01
85 9 0.01
86 9 0.01
87 36 0.03
88 1 0.00
89 1 0.00
90 24 0.02
91 14 0.01
92 8 0.01
93 4 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCA
Found at i:94257131 original size:222 final size:220
Alignment explanation
Indices: 94256632--94257336 Score: 1026
Period size: 222 Copynumber: 3.2 Consensus size: 220
94256622 CTTTTCAAGG
* * * * *
94256632 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* ** * * *
94256697 GTTTTTCAAAA-TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
66 G-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
94256761 CAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
130 CAATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
* * *
94256824 GAGGTATTTTTAAATTTCTATTTT--CA
194 GAGGTA-TTTTCAATTTCTGTTTTAAAA
* *
94256850 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
94256915 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* *
94256980 AATTTTTGTCTTTCAAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
131 AATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
94257045 AGGTAATTTCAATTTCTGTTGTTAAAA
195 AGGTATTTTCAATTTCTGTT-TTAAAA
* *
94257072 AAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
94257137 GTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
66 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
* *
94257202 AATTTCTGTTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAT
131 AATTTCTGTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACAC
94257266 GCTGAGGTATTTTCAATTTCTGTCTTTGAAAA
191 GCTGAGGTATTTTCAATTTCTGT-TTT-AAAA
* *
94257298 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAG
94257337 ATCACACACT
Statistics
Matches: 440, Mismatches: 33, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
217 9 0.02
218 117 0.27
219 14 0.03
220 55 0.12
221 4 0.01
222 136 0.31
223 38 0.09
225 27 0.06
226 40 0.09
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (220 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTATTTTCAATTTCTGTTTTAAAA
Found at i:94257770 original size:14 final size:14
Alignment explanation
Indices: 94257751--94257778 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94257741 CTGAGGTCTT
94257751 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
94257765 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
94257779 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:94257813 original size:165 final size:162
Alignment explanation
Indices: 94257620--94258221 Score: 519
Period size: 145 Copynumber: 3.9 Consensus size: 162
94257610 TCTGTTTTTC
* *
94257620 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* * * *
94257684 CTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGTGTTGAGCCTCGGCTCACATGCTGAGGTC
66 CTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGTA
*
94257749 TTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
128 ATTTCAATTTCTGTT-TTCAATTTCTGTTCGTAAAA
* *
94257785 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
* *
94257850 CTGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
66 CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
*
94257915 TCAA------TTTT---TGT-T-TTC------
131 TCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
* * * * *
94257930 AAAATTCAACTCATATTGCGAGAA-ATGAGTTGAGCCTCAAGACACGTTGAGGTAT-TTTCAATT
1 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* ** * **
94257993 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACACATTGAGGT-A
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTAA
* * *
94258056 --T---TTTCAG-TTT---TTGCT-TT--T---C
129 TTTCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
* * * * * *
94258075 AAAATTCAACTCATATTGCGAGAA-ATGAGTTGAGTCTCAAGACACGTTGAGGTA-ATTTCAATT
1 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* ** *
94258138 TCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-ACACGATGAGGTAA
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGGTAA
94258202 TTTCAATTTCTGTTTGTCAA
129 TTTCAATTTCTGTTT-TCAA
94258222 GAATCAACTC
Statistics
Matches: 381, Mismatches: 32, Indels: 57
0.81 0.07 0.12
Matches are distributed among these distances:
141 1 0.00
143 5 0.01
144 63 0.17
145 169 0.44
146 2 0.01
148 1 0.00
151 8 0.02
152 3 0.01
153 3 0.01
156 2 0.01
157 2 0.01
163 17 0.04
165 91 0.24
166 14 0.04
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATTT
CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAATT
TCAATTTCTGTTTTCAATTTCTGTTCGTAAAA
Found at i:94258165 original size:217 final size:217
Alignment explanation
Indices: 94257786--94258242 Score: 693
Period size: 217 Copynumber: 2.1 Consensus size: 217
94257776 TTCGTAAAAA
** * *
94257786 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTTC
*** **
94257851 TGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
66 TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
* *
94257916 CAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
131 CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATGAG
*
94257981 GTATTTTCAATTTCTGTTT-TC
196 GTAATTTCAATTTCTGTTTGTC
* * *
94258002 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTA-TTTTCAGTTT
1 AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTT
* * * *
94258066 TTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTTGAGGTAAT
65 CTG-TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAAT
*
94258131 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATG
129 TTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATG
94258196 AGGTAATTTCAATTTCTGTTTGTC
194 AGGTAATTTCAATTTCTGTTTGTC
94258220 AAGAATCAACTCATATTGCGAGA
1 AA-AATCAACTCATATTGCGAGA
94258243 GGTGGGTTGA
Statistics
Matches: 217, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
216 14 0.06
217 179 0.82
218 22 0.10
219 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTTAAATTTC
TGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGATGAG
GTAATTTCAATTTCTGTTTGTC
Found at i:94258252 original size:145 final size:144
Alignment explanation
Indices: 94257785--94258242 Score: 695
Period size: 145 Copynumber: 3.2 Consensus size: 144
94257775 GTTCGTAAAA
* ** * * *
94257785 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTCAATTT
* *** * *
94257850 CTGTTTTCAAAAATCAACTCATATTGCGAGTGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
65 CTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATT
94257915 TCAATTTTTGTTTTC
130 TCAATTTTTGTTTTC
94257930 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
94257995 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-ATTGAGGTATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGA-TGAGGTAATT
*
94258059 TCAGTTTTTGCTTTTC
130 TCAATTTTTG-TTTTC
* *
94258075 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
94258140 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
66 TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
*
94258205 CAATTTCTGTTTGTC
131 CAATTTTTGTTT-TC
94258220 AAGAA-TCAACTCATATTGCGAGA
1 AA-AATTCAACTCATATTGCGAGA
94258243 GGTGGGTTGA
Statistics
Matches: 287, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
144 77 0.27
145 207 0.72
146 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (144 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAGGTAATTT
CAATTTTTGTTTTC
Found at i:94258394 original size:128 final size:126
Alignment explanation
Indices: 94258134--94258472 Score: 407
Period size: 128 Copynumber: 2.7 Consensus size: 126
94258124 AGGTAATTTC
* ** * *
94258134 AATTTCT-GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGATGAG
1 AATTTCTCTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
* * *
94258198 GTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
65 GTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTT
*
94258260 AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
1 AATTTCT-CTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
* * * *
94258325 GT-ATTCTTAATTTTTGTTGTTTCAAAAATCAACTCATGTTGCGAGAAGTGAGTT-AAGCCTTTT
65 GTAATT-TCAATTTCTGTT-TGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAA-CCTTTT
* * *
94258388 AATTTCTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCT
1 AATTTCTCTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCT
**
94258452 GAGGTCTTTTCAATTTCTGTT
62 GAGGTAATTTCAATTTCTGTT
94258473 CTTCAATTTC
Statistics
Matches: 183, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
126 10 0.05
127 62 0.34
128 91 0.50
130 18 0.10
131 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (126 bp):
AATTTCTCTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGG
TAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTTTT
Found at i:94258414 original size:54 final size:55
Alignment explanation
Indices: 94258331--94258438 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 55
94258321 TGAGGTATTC
* * **
94258331 TTAATTTTTGTTGTTTCAAAAATCAACTCATGTTGCGAGAAGTGAGTTAAGCCTT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCTT
* *
94258386 TTAATTTCTGTT-TGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCT
94258439 CGGCTCACAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 36 0.77
55 11 0.23
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (55 bp):
TTAATTTCTGTTGTGTCAAAAATCAACTCATACTGCGAGAAGTGAGTTAAGCCTT
Found at i:94258479 original size:14 final size:14
Alignment explanation
Indices: 94258460--94258487 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94258450 CTGAGGTCTT
94258460 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
94258474 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
94258488 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:94258602 original size:74 final size:75
Alignment explanation
Indices: 94258494--94258725 Score: 243
Period size: 74 Copynumber: 3.0 Consensus size: 75
94258484 GTTCGTAAAA
94258494 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
94258559 TCTGTTTTTC
66 TCTGTTTTTC
* * * * ** **
94258569 -AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTGTCGATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT-TTTAAAT
*
94258633 TTGTGTTTTTATTTC
65 TTCTG---TT-TTTC
* *
94258648 AAAAAAATAAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTA-TTTT
1 ----AAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT
* *
94258712 CAATTTCTATTTTT
61 AAATTTCTGTTTTT
94258726 TTCCAATTTC
Statistics
Matches: 124, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
74 52 0.42
75 7 0.06
78 2 0.02
79 7 0.06
80 2 0.02
83 5 0.04
84 3 0.02
85 46 0.37
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (75 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
TCTGTTTTTC
Found at i:94258699 original size:159 final size:161
Alignment explanation
Indices: 94258384--94258725 Score: 442
Period size: 167 Copynumber: 2.1 Consensus size: 161
94258374 GAGTTAAGCC
* * *
94258384 TTTTAATTTCTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACA-
** * *
94258449 GCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGC
65 GCTGAGGAATTGTCAATTTCTGTTCTT--ATTTATGTTCG-AAAAAAAAAATCAACTCATATTGC
*
94258514 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
127 GAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTA
* *
94258549 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCAC
1 -TTTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCAC
* * * *
94258614 -GCTGAGGAATTGTCGATTTTTG-TGTT-TTTAT-TTC-AAAAAAATAAATCAACTCATATTGTG
64 AGCTGAGGAATTGTCAATTTCTGTTCTTATTTATGTTCGAAAAAAA-AAATCAACTCATATTGCG
94258674 AGAGGTGAATTGAGCCTCAGGACACGCTGAGGTA
128 AGAGGTGAATTGAGCCTCAGGACACGCTGAGGTA
*
94258708 TTTTCAATTTCTATTTTT
1 TTTT-AATTTCTGTTTTT
94258726 TTCCAATTTC
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
158 23 0.15
159 50 0.32
160 3 0.02
161 4 0.03
164 3 0.02
165 17 0.11
166 4 0.03
167 54 0.34
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (161 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACAG
CTGAGGAATTGTCAATTTCTGTTCTTATTTATGTTCGAAAAAAAAAATCAACTCATATTGCGAGA
GGTGAATTGAGCCTCAGGACACGCTGAGGTA
Found at i:94258726 original size:159 final size:162
Alignment explanation
Indices: 94258384--94258725 Score: 451
Period size: 159 Copynumber: 2.1 Consensus size: 162
94258374 GAGTTAAGCC
* * *
94258384 TTTTAATTTCTGTTTGTCAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACA-
** * *
94258449 GCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGC
65 GCTGAGGAATTGTCAATTTCTGTTCTT--ATTTATGTTCG-AAAAAAAAAATCAACTCATATTGC
*
94258514 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT
127 GAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTAT
* *
94258550 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCAC-
1 TTTT-AATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACA
* * * *
94258614 GCTGAGGAATTGTCGATTTTTG-TGTT-TTTAT-TTC-AAAAAAATAAATCAACTCATATTGTGA
65 GCTGAGGAATTGTCAATTTCTGTTCTTATTTATGTTCGAAAAAAA-AAATCAACTCATATTGCGA
94258675 GAGGTGAATTGAGCCTCAGGACACGCTGAGGTAT
129 GAGGTGAATTGAGCCTCAGGACACGCTGAGGTAT
* *
94258709 TTTCAATTTCTATTTTT
1 TTTTAATTTCTGTTTTT
94258726 TTCCAATTTC
Statistics
Matches: 158, Mismatches: 16, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
158 19 0.12
159 54 0.34
160 3 0.02
161 4 0.03
164 3 0.02
165 17 0.11
166 4 0.03
167 54 0.34
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (162 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATACTGCAAGAGGTGAGTTGAGCCTCGGCGCACAG
CTGAGGAATTGTCAATTTCTGTTCTTATTTATGTTCGAAAAAAAAAATCAACTCATATTGCGAGA
GGTGAATTGAGCCTCAGGACACGCTGAGGTAT
Found at i:94258727 original size:85 final size:85
Alignment explanation
Indices: 94258571--94258727 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 85
94258561 TGTTTTTCAA
* * * * * *
94258571 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGAATTGTCGATTTTTG
1 AAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGCTGAGGAATTGTCAATTTCTA
94258636 TGTTTTTATTTCAAAAAAAT
66 TGTTTTTATTTCAAAAAAAT
** * *
94258656 AAATCAACTCATATTGTGAGAGGTGAATTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTA
1 AAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGCTGAGGAATTGTCAATTTCTA
*
94258721 TTTTTTT
66 TGTTTTT
94258728 CCAATTTCTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (85 bp):
AAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGCTGAGGAATTGTCAATTTCTA
TGTTTTTATTTCAAAAAAAT
Found at i:94259006 original size:77 final size:77
Alignment explanation
Indices: 94258883--94259163 Score: 385
Period size: 77 Copynumber: 3.7 Consensus size: 77
94258873 GAGTTGAGCC
** * *
94258883 TTTT-AATTTCTG-TTTTTTAAA-AATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
94258945 CGTGCTGAGCTA
66 CGTGCTGAGCTA
* *
94258957 TTTTCAATTTCTTCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
94259022 CGTGCTGAGCTA
66 CGTGCTGAGCTA
* ** *
94259034 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
** * *
94259099 CACGCCGAGGC-G
66 CGTGCTGA-GCTA
94259111 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
94259164 TCTCGGGCCA
Statistics
Matches: 188, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
74 4 0.02
75 37 0.20
76 10 0.05
77 135 0.72
78 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (77 bp):
TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
CGTGCTGAGCTA
Found at i:94259169 original size:75 final size:77
Alignment explanation
Indices: 94258883--94259203 Score: 359
Period size: 77 Copynumber: 4.2 Consensus size: 77
94258873 GAGTTGAGCC
** * * **
94258883 TTTT-AATTTCTG-TTTTTTAAA-AATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
94258945 CGTGCTGAGCTA
66 CACGCTGAGCTA
* * **
94258957 TTTTCAATTTCTTCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
**
94259022 CGTGCTGAGCTA
66 CACGCTGAGCTA
* *
94259034 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
* *
94259099 CACGCCGAGGC-G
66 CACGCTGA-GCTA
*
94259111 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-C
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTC
* * *
94259173 ACACACTGAGGTC
65 ACACGCTGAGCTA
* *
94259186 TTTTCAAATTCTGTTTTT
1 TTTTCAATTTCTGCTTTT
94259204 AATTTCTGCT
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
74 5 0.02
75 64 0.29
76 12 0.06
77 135 0.62
78 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (77 bp):
TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCA
CACGCTGAGCTA
Found at i:94259190 original size:152 final size:152
Alignment explanation
Indices: 94258877--94259202 Score: 367
Period size: 152 Copynumber: 2.2 Consensus size: 152
94258867 AGAGGTGAGT
** * **
94258877 TGAGC-CTTTT-AATTTCTGTTTTTTAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTT
1 TGAGCTCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
** * * *
94258940 GCTCACGTGCTGAGCTATTTTCAATTTCTTCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTG
66 GCTCACACGCCGAGCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTG
** ***
94259005 AGTTGAGCCTTTGCTCACGTGC
131 AGTTGAGCCTGGGCTCACACAC
* * *
94259027 TGAGCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT
1 TGAGCTCTTTTCAATTTCTG-TTTTCAAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
* *
94259092 CGGGTCACACGCCGAGGC-GTTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAG
64 CGGCTCACACGCCGA-GCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAG
*
94259154 GTGAGTTGAGTCTCGGGC-CACACAC
128 GTGAGTTGAGCCT-GGGCTCACACAC
* *
94259179 TGAGGTCTTTTCAAATTCTGTTTT
1 TGAGCTCTTTTCAATTTCTGTTTT
94259203 TAATTTCTGC
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
150 5 0.03
151 8 0.05
152 61 0.42
153 12 0.08
154 58 0.40
155 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (152 bp):
TGAGCTCTTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
GCTCACACGCCGAGCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTG
AGTTGAGCCTGGGCTCACACAC
Found at i:94259216 original size:14 final size:13
Alignment explanation
Indices: 94259194--94259230 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
94259184 TCTTTTCAAA
94259194 TTCTGTTTTTAAT
1 TTCTGTTTTTAAT
*
94259207 TTCTGCTTTTCAAT
1 TTCTG-TTTTTAAT
94259221 TTCTGTTTTT
1 TTCTGTTTTT
94259231 TCAATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (13 bp):
TTCTGTTTTTAAT
Found at i:94260032 original size:30 final size:30
Alignment explanation
Indices: 94259996--94260139 Score: 166
Period size: 30 Copynumber: 4.8 Consensus size: 30
94259986 ACTTTTCTCA
*
94259996 ACTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
*
94260026 ACTAGCCACTCCTTT-TCCACCACCAACTCC
1 ACTAGCCAC-ACTTTCTCCACCACCAACTCC
* *
94260056 ACTAGCCACACCTTCT-CACCACCAAATCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
* ** * *
94260085 ACTAGCCACACTTGCTCCATTACCTATTCC
1 ACTAGCCACACTTTCTCCACCACCAACTCC
* *
94260115 ACTAACCACACTTGCTCCACCACCA
1 ACTAGCCACACTTTCTCCACCACCA
94260140 CTTGTACCTA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 29 0.30
30 64 0.66
31 4 0.04
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACTTTCTCCACCACCAACTCC
Found at i:94260116 original size:59 final size:60
Alignment explanation
Indices: 94259996--94260139 Score: 159
Period size: 59 Copynumber: 2.4 Consensus size: 60
94259986 ACTTTTCTCA
* * * * *
94259996 ACTAGCCACACTTTTTCCACCACCAACTCCACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACTACTTCTCCACCACCAACTCC
** * *
94260056 ACTAGCCACACCTTCT-CACCACCAAATCCACTAGCCAC-ACTTGCTCCATTACCTATTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACTACTT-CTCCACCACCAACTCC
*
94260115 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
94260140 CTTGTACCTA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
58 6 0.08
59 43 0.61
60 22 0.31
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (60 bp):
ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACTACTTCTCCACCACCAACTCC
Found at i:94260666 original size:23 final size:23
Alignment explanation
Indices: 94260629--94260758 Score: 63
Period size: 23 Copynumber: 5.5 Consensus size: 23
94260619 TCCTTTTTGT
94260629 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
94260652 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
** *
94260674 TATTAGGTACATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
94260697 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
94260722 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
94260747 TATTATTTATAT
1 TATTATATATAT
94260759 ATATATTTTT
Statistics
Matches: 79, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 26 0.33
24 6 0.08
25 25 0.32
26 2 0.03
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:94260722 original size:25 final size:26
Alignment explanation
Indices: 94260694--94260765 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
94260684 ATTTTAAATT
*
94260694 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
94260719 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
94260744 TTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
94260766 TTTTACATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 34 0.89
26 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:94260750 original size:27 final size:27
Alignment explanation
Indices: 94260720--94260813 Score: 77
Period size: 29 Copynumber: 3.4 Consensus size: 27
94260710 TATATTATAC
*
94260720 TATTTTATGTATATATCTTTAATAT-T
1 TATTTTATGTATATATCTTTAACATGT
* * *
94260746 ATATTATTTATATATATATTTTTTACATGT
1 -TA-T-TTTATGTATATATCTTTAACATGT
*
94260776 TATCTTATGTATATATC-TTAACTATGT
1 TATTTTATGTATATATCTTTAAC-ATGT
*
94260803 TA-TGTATGTAT
1 TATTTTATGTAT
94260814 TTTTAACACT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.21
27 19 0.36
28 2 0.04
29 20 0.38
30 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.57
Consensus pattern (27 bp):
TATTTTATGTATATATCTTTAACATGT
Found at i:94260830 original size:25 final size:25
Alignment explanation
Indices: 94260796--94260844 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
94260786 ATATATCTTA
* **
94260796 ACTATGTTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
94260821 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
94260845 TATTATCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:94261027 original size:16 final size:15
Alignment explanation
Indices: 94261003--94261050 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
94260993 TAATTATTAT
*
94261003 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
94261019 TATTTTAATATTTTA
1 TATTTTAATATTTTA
94261034 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
94261050 T
1 T
94261051 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:94261038 original size:7 final size:8
Alignment explanation
Indices: 94261003--94261054 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
94260993 TAATTATTAT
*
94261003 TATTCTAA
1 TATTTTAA
*
94261011 TATTTTGA
1 TATTTTAA
94261019 TATTTTAA
1 TATTTTAA
94261027 TATTTT-A
1 TATTTTAA
94261034 TATTTTATA
1 TATTTTA-A
*
94261043 TATTTTAT
1 TATTTTAA
94261051 TATT
1 TATT
94261055 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:94261752 original size:17 final size:15
Alignment explanation
Indices: 94261721--94261754 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
94261711 TTTAATTTTT
94261721 TTAAAAATAATAAAA
1 TTAAAAATAATAAAA
94261736 TTAATAAATATATAAAA
1 TTAA-AAATA-ATAAAA
94261753 TT
1 TT
94261755 CTTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAAATAATAAAA
Found at i:94266777 original size:44 final size:42
Alignment explanation
Indices: 94266723--94266874 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 42
94266713 ATATGTGTTA
* * * *
94266723 TCGTGTAAGACCATGTCT-GGCACTTTGGCATCGATTTGTGATT
1 TCGTGTAAGACCATGTCTAGG-ACATTGACATC-ATATATGATT
94266766 TACGTGTAAGACCATGTCTAGGACATTGACATCATATATGATT
1 T-CGTGTAAGACCATGTCTAGGACATTGACATCATATATGATT
* * * * *
94266809 TCGTGTAAAACCATAT-TAGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCATGTCTA-GGACATTGACATC-ATATATGATT
* * * *
94266852 ACATGTAAGACTACGTCTAGGAC
1 TCGTGTAAGACCATGTCTAGGAC
94266875 GTTAGCATTG
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 24 0.27
43 33 0.37
44 28 0.31
45 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGACATTGACATCATATATGATT
Found at i:94266851 original size:43 final size:44
Alignment explanation
Indices: 94266748--94266859 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 44
94266738 TCTGGCACTT
* * *
94266748 TGGCATCGAT-TTGTGATTTACGTGTAAGACCATGTCTAGGACAT
1 TGGCATCGATATT-TGATTTACGTGTAAAACCATATCTAGGACAG
* *
94266792 TGACATC-ATATATGATTT-CGTGTAAAACCATAT-TAGGGACAG
1 TGGCATCGATATTTGATTTACGTGTAAAACCATATCTA-GGACAG
*
94266834 TGGCATCGATATTTGA-TTACATGTAA
1 TGGCATCGATATTTGATTTACGTGTAA
94266860 GACTACGTCT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
41 2 0.04
42 26 0.46
43 21 0.38
44 7 0.12
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGTGTAAAACCATATCTAGGACAG
Found at i:94279743 original size:42 final size:43
Alignment explanation
Indices: 94279636--94279787 Score: 171
Period size: 43 Copynumber: 3.5 Consensus size: 43
94279626 ATATGTGTTA
* * * *
94279636 TCGTGTAAGACCACGTCTGGGACGTTGGCAGCGATTTGTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* *
94279679 TACGTGTAAGACCATGTTTGGGACATTGGCATCG-TATATGATT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* * *
94279722 TCGTGTAAGACCCCGTCTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
* * * *
94279765 ACATGTAAGACCACATTTGGGAC
1 TCGTGTAAGACCACGTCTGGGAC
94279788 GTTGAAATTG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.31
43 35 0.38
44 28 0.31
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATATGATT
Found at i:94282417 original size:9 final size:9
Alignment explanation
Indices: 94282403--94282437 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
94282393 TGAGTTATGT
94282403 TACAAGTTG
1 TACAAGTTG
*
94282412 TACAAGTAG
1 TACAAGTTG
94282421 TTACAAGTTG
1 -TACAAGTTG
94282431 TACAAGT
1 TACAAGT
94282438 AGGTACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (9 bp):
TACAAGTTG
Found at i:94282425 original size:19 final size:19
Alignment explanation
Indices: 94282401--94282444 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
94282391 CTTGAGTTAT
94282401 GTTACAAGTTGTACAAGTA
1 GTTACAAGTTGTACAAGTA
94282420 GTTACAAGTTGTACAAGTA
1 GTTACAAGTTGTACAAGTA
*
94282439 GGTACA
1 GTTACA
94282445 CTAAGCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (19 bp):
GTTACAAGTTGTACAAGTA
Found at i:94290930 original size:24 final size:25
Alignment explanation
Indices: 94290878--94290930 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
94290868 GTCCTCTCTT
**
94290878 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATCC
* *
94290903 GAGCCATGT-ACGGGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTCATCC
94290927 GAGC
1 GAGC
94290931 TGTATAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATCC
Found at i:94294626 original size:3 final size:3
Alignment explanation
Indices: 94294614--94294650 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
94294604 AAATTATTAA
*
94294614 ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
94294651 AAATAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:94294795 original size:3 final size:3
Alignment explanation
Indices: 94294778--94294827 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
94294768 GAATTAAATT
* * *
94294778 TTA TTA -TA TTA -TA TTA TTA CTA TAA TGTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
94294822 TTA TTA
1 TTA TTA
94294828 ACTAACACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.11
3 32 0.84
4 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:94295746 original size:70 final size:75
Alignment explanation
Indices: 94295659--94295834 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 75
94295649 ATATGAACAA
* *
94295659 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATTG-T-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTGATAGAAAATATGTGAATATTTGA
94295719 AA-GTATATTG
65 AATGTATATTG
* *
94295729 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATTG-AT--AGAAAATATGTGAATATT
94295794 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
94295808 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
94295835 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 2 0.02
72 10 0.11
74 1 0.01
77 1 0.01
78 18 0.20
79 18 0.20
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTGATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:94296056 original size:34 final size:36
Alignment explanation
Indices: 94296015--94296082 Score: 106
Period size: 34 Copynumber: 1.9 Consensus size: 36
94296005 AAGTGGAAAA
94296015 GTGAATTTGAATTG-AA-TGAGAATTGA-ATTGAATT
1 GTGAATTTGAATTGAAAGTGA-AATTGACATTGAATT
94296049 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
1 GTGAATTTGAATTGAAAGTGAAATTGACATTGAA
94296083 AGTGATTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 14 0.45
35 8 0.26
36 9 0.29
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (36 bp):
GTGAATTTGAATTGAAAGTGAAATTGACATTGAATT
Found at i:94296083 original size:18 final size:17
Alignment explanation
Indices: 94296012--94296087 Score: 84
Period size: 18 Copynumber: 4.4 Consensus size: 17
94296002 AGAAAGTGGA
*
94296012 AAAGTGAATTTGAATTG
1 AAAGTGAAATTGAATTG
94296029 -AA-TGAGAATTGAATTG
1 AAAGTGA-AATTGAATTG
* *
94296045 AATTGTGAATTTGAATTG
1 AA-AGTGAAATTGAATTG
94296063 AAAGTGAAATTGACATTG
1 AAAGTGAAATTGA-ATTG
94296081 AAAGTGA
1 AAAGTGA
94296088 TTTGAAATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.06
16 11 0.22
17 10 0.20
18 22 0.45
19 3 0.06
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.33
Consensus pattern (17 bp):
AAAGTGAAATTGAATTG
Found at i:94296091 original size:34 final size:33
Alignment explanation
Indices: 94296012--94296093 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 33
94296002 AGAAAGTGGA
94296012 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
1 AAAGTGAATTTGAATTGAATGAGAATTGAATTG
*
94296045 AATTGTGAATTTGAATTGAAAGTGA-AATTGACATTG
1 AA-AGTGAATTTGAATTG-AA-TGAGAATTGA-ATTG
94296081 AAAGTG-ATTTGAA
1 AAAGTGAATTTGAA
94296094 ATGTGAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.49
35 11 0.26
36 9 0.21
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.34
Consensus pattern (33 bp):
AAAGTGAATTTGAATTGAATGAGAATTGAATTG
Found at i:94296100 original size:18 final size:18
Alignment explanation
Indices: 94296012--94296100 Score: 80
Period size: 17 Copynumber: 5.1 Consensus size: 18
94296002 AGAAAGTGGA
94296012 AAAGTGAATTTG-AATTG
1 AAAGTGAATTTGAAATTG
* *
94296029 AATGAGAA-TTG-AATTG
1 AAAGTGAATTTGAAATTG
*
94296045 AATTGTGAATTTG-AATTG
1 AA-AGTGAATTTGAAATTG
* *
94296063 AAAGTGAAATTGACATTG
1 AAAGTGAATTTGAAATTG
94296081 AAAGTG-ATTTGAAATGTG
1 AAAGTGAATTTGAAAT-TG
94296099 AA
1 AA
94296101 TTTGGAGACC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.17
17 26 0.43
18 24 0.40
ACGTcount: A:0.42, C:0.01, G:0.24, T:0.34
Consensus pattern (18 bp):
AAAGTGAATTTGAAATTG
Found at i:94296319 original size:38 final size:38
Alignment explanation
Indices: 94296230--94296323 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 38
94296220 TTCGGATAGA
* * * *
94296230 TTCGATGTGGTACTGGGTATCACTTTGCTTCGGCTCTG
1 TTCGATGAGGCACTGGGTGTCACTTTGCTTCGACTCTG
* *
94296268 TT-GATAAGACACTGGGTGTCAACTTTGCTTCGAAC-CT-
1 TTCGATGAGGCACTGGGTGTC-ACTTTGCTTCG-ACTCTG
94296305 TTCGATGAGGCACTGGGTG
1 TTCGATGAGGCACTGGGTG
94296324 CCAATCTGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
37 15 0.33
38 29 0.64
39 1 0.02
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.34
Consensus pattern (38 bp):
TTCGATGAGGCACTGGGTGTCACTTTGCTTCGACTCTG
Found at i:94297185 original size:21 final size:20
Alignment explanation
Indices: 94297147--94297186 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
94297137 TTCTTGGAAC
*
94297147 AGGGCACACGTCCATGTGGA
1 AGGGCACACGCCCATGTGGA
*
94297167 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCATGTGG
94297187 TTGTTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGA
Found at i:94298438 original size:50 final size:49
Alignment explanation
Indices: 94298379--94298504 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 49
94298369 AGATGCCGAC
*
94298379 GCCATGTCCCAGACATGGTATTACACTGGCT-TCCATATA--GTGTGGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCT-CATATATCG-GT-GTCGAT
* * * *
94298429 GCCATGTCCCAGGCAAGTCTTACACTAGCTCTCATCTATCGGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGGTGTCGAT
*
94298478 GTCATGTCCCAGACAGGTCTTACACTG
1 GCCATGTCCCAGACAGGTCTTACACTG
94298505 ACACACAACA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
49 46 0.72
50 17 0.27
51 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGGTGTCGAT
Found at i:94298644 original size:94 final size:94
Alignment explanation
Indices: 94298528--94298738 Score: 239
Period size: 94 Copynumber: 2.2 Consensus size: 94
94298518 TGAAGCCATA
**
94298528 TCCCAGACA-GATCTTACACTAGCTTGTATATCGAAAGGCCGATGCATGTACCAAACATGTCTTA
1 TCCCAGACATG-TCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTA
*
94298592 CACTAGCTCTCGT-CTCAAT-GCCGATGCATG
65 CACTAGCTCTCATACT--ATGGCCGATGCATG
* * *** * * **
94298622 TGCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATGTCCCCGACATGTCTTAC
1 TCCCAGACATGTCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
* * *
94298687 ACTGGCTCTCATACTGTGGCTGATGCATG
66 ACTAGCTCTCATACTATGGCCGATGCATG
94298716 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
94298739 ACACATATCA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.96
95 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
TCCCAGACATGTCTTACACTAGCTTAAATATCGAAAGGCCGATGCATGTACCAAACATGTCTTAC
ACTAGCTCTCATACTATGGCCGATGCATG
Found at i:94298683 original size:48 final size:46
Alignment explanation
Indices: 94298563--94298738 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
94298553 GTATATCGAA
* * * ** *
94298563 AGGCCGATGCATGTACCAAACATGTCTTACACTAGCTCTCGT-CTCA
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATACT-G
* * * *
94298609 ATGCCGATGCATGTGCTAGACATGTCTTACACTAGCT-TAAATATCTCG
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCT-AATA-CT-G
* * *
94298657 AGGCTGATGCATGTCCCCGACATGTCTTACACTGGCTCTCATACTG
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATACTG
*
94298703 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 AGGCTGATGCATGTCCCAGACATGTCTTACACTAGC
94298739 ACACATATCA
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.01
46 68 0.62
47 2 0.02
48 37 0.34
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
AGGCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTAATACTG
Found at i:94298718 original size:46 final size:48
Alignment explanation
Indices: 94298528--94298738 Score: 175
Period size: 46 Copynumber: 4.5 Consensus size: 48
94298518 TGAAGCCATA
** *** *
94298528 TCCCAGACA-GATCTTACACTAGCTTGTATATCGAAAGGCCGATGCATG
1 TCCCAGACATG-TCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
* * ** * * *
94298576 TACCAAACATGTCTTACACTAGCTCT---CGTCTCAATGCCGATGCATG
1 TCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGGCTGATGCATG
* *
94298622 TGCTAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
* * * *
94298670 TCCCCGACATGTCTTACACTGGCTCT-CATA-CT-GTGGCTGATGCATG
1 TCCCAGACATGTCTTACACTAGCT-TAAATATCTCGAGGCTGATGCATG
94298716 TCCCAGACATGTCTTACACTAGC
1 TCCCAGACATGTCTTACACTAGC
94298739 ACACATATCA
Statistics
Matches: 134, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 70 0.52
47 2 0.01
48 58 0.43
49 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGTCTTACACTAGCTTAAATATCTCGAGGCTGATGCATG
Found at i:94302052 original size:19 final size:20
Alignment explanation
Indices: 94302030--94302067 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94302020 TATAATATTT
94302030 TATTACTTT-AATAAAATAA
1 TATTACTTTAAATAAAATAA
*
94302049 TATTATTTTAAATAAAATA
1 TATTACTTTAAATAAAATA
94302068 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTACTTTAAATAAAATAA
Found at i:94308805 original size:20 final size:20
Alignment explanation
Indices: 94308780--94308819 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94308770 CGTAAAATGA
*
94308780 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
94308800 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
94308820 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:94308809 original size:34 final size:35
Alignment explanation
Indices: 94308765--94308831 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
94308755 CAGTAAAATA
*
94308765 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
94308799 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
94308832 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:94308934 original size:20 final size:20
Alignment explanation
Indices: 94308909--94308961 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
94308899 GGAAAAGTTA
94308909 TTTTTACATATATTAATATT-
1 TTTTTACATATATTAA-ATTG
*
94308929 TTTTT--ATATTTTAAATTG
1 TTTTTACATATATTAAATTG
*
94308947 CTTTTACATATATTA
1 TTTTTACATATATTA
94308962 CAATGATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.11
18 12 0.44
20 12 0.44
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTTACATATATTAAATTG
Found at i:94309465 original size:18 final size:18
Alignment explanation
Indices: 94309444--94309482 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
94309434 GTTGTATCTT
94309444 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
94309462 TAATTAAATTATTATCCA
1 TAATTAAATTATTATCCA
94309480 TAA
1 TAA
94309483 AGTTGGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAAATTATTATCCA
Found at i:94311168 original size:19 final size:19
Alignment explanation
Indices: 94311144--94311183 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
94311134 AAACCAAATC
94311144 AAGGGAGAACGAAAGGGAG
1 AAGGGAGAACGAAAGGGAG
*
94311163 AAGGGAGAACGAACGGGAG
1 AAGGGAGAACGAAAGGGAG
94311182 AA
1 AA
94311184 CGAAACCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.07, G:0.45, T:0.00
Consensus pattern (19 bp):
AAGGGAGAACGAAAGGGAG
Found at i:94312325 original size:5 final size:5
Alignment explanation
Indices: 94312315--94312339 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
94312305 TGAAAAAAAA
94312315 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
94312340 GTGCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:94320887 original size:21 final size:19
Alignment explanation
Indices: 94320844--94320908 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
94320834 TGTTTTGTTA
* * *
94320844 TTTTTATTTTCCCTCTTGTT
1 TTTTTATTTTTCTTCTT-CT
94320864 TTTTTCATTTTTCATTCTTCT
1 TTTTT-ATTTTTC-TTCTTCT
*
94320885 TTTCTTATTTTTCTTTTTCT
1 TTT-TTATTTTTCTTCTTCT
94320905 TTTT
1 TTTT
94320909 CTGGGCTTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 14 0.37
21 17 0.45
22 6 0.16
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTATTTTTCTTCTTCT
Found at i:94320910 original size:21 final size:23
Alignment explanation
Indices: 94320857--94320910 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
94320847 TTATTTTCCC
*
94320857 TCTTGTTTTT-TTCATTTTTCAT
1 TCTTCTTTTTCTTCATTTTTCAT
94320879 TCTTC-TTTTCTT-ATTTTTC-T
1 TCTTCTTTTTCTTCATTTTTCAT
*
94320899 TTTTCTTTTTCT
1 TCTTCTTTTTCT
94320911 GGGCTTGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 5 0.18
21 17 0.61
22 6 0.21
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (23 bp):
TCTTCTTTTTCTTCATTTTTCAT
Found at i:94323423 original size:27 final size:27
Alignment explanation
Indices: 94323386--94323438 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
94323376 CTAATTTGAC
*
94323386 AAAAAAAATAACAAAATGAAAACAATA
1 AAAAAAAATAACAAAATAAAAACAATA
94323413 AAAAAAAATAACAAAATAAAAACAAT
1 AAAAAAAATAACAAAATAAAAACAAT
94323439 CTTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.11
Consensus pattern (27 bp):
AAAAAAAATAACAAAATAAAAACAATA
Found at i:94337831 original size:19 final size:18
Alignment explanation
Indices: 94337807--94337846 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
94337797 TGGTTCATAT
94337807 TTTCAA-TCTCATATCTCAA
1 TTTCAATTCTCA-AT-TCAA
94337826 TTTCAATTCTCAATTCAA
1 TTTCAATTCTCAATTCAA
94337844 TTT
1 TTT
94337847 ATCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAA
Found at i:94338273 original size:8 final size:10
Alignment explanation
Indices: 94338244--94338284 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
94338234 ATTCTAATAA
*
94338244 TCACATATTT
1 TCACACATTT
94338254 TCACACATTT
1 TCACACATTT
94338264 TCACA-A-TT
1 TCACACATTT
*
94338272 TCATACATTT
1 TCACACATTT
94338282 TCA
1 TCA
94338285 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:94338508 original size:15 final size:15
Alignment explanation
Indices: 94338490--94338538 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
94338480 TTATATATAT
94338490 TATAAATTCAATCAA
1 TATAAATTCAATCAA
94338505 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
94338520 AATGATTTCAATCAA
1 TATAAATTCAATCAA
94338535 TATA
1 TATA
94338539 TATTTGATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:94339537 original size:21 final size:22
Alignment explanation
Indices: 94339484--94339540 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
94339474 CAATTTAAAT
*
94339484 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
94339506 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
94339527 AATAATAATAATAA
1 AATAATAATAATAA
94339541 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:94344440 original size:13 final size:14
Alignment explanation
Indices: 94344424--94344459 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
94344414 CAATCTCATA
94344424 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
94344437 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
94344450 TCTC-ATTTCA
1 TCTCAATTTCA
94344460 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:94344442 original size:26 final size:25
Alignment explanation
Indices: 94344404--94344466 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
94344394 AACCTTTTGG
*
94344404 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
94344431 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
94344456 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
94344467 AGCTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:94344449 original size:18 final size:19
Alignment explanation
Indices: 94344411--94344451 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
94344401 TGGTTCATAT
94344411 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
94344430 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
94344448 TTTC
1 TTTC
94344452 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:94344639 original size:27 final size:25
Alignment explanation
Indices: 94344552--94344647 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 25
94344542 ATACGTGGAT
94344552 TCCTCCCAAACACACCAG--A-ATA
1 TCCTCCCAAACACACCAGATATATA
*
94344574 TCCAACCCAAACACACCCAGAATATTATAAA
1 TCC-TCCCAAACACA-CCAG-ATA-TAT--A
94344605 TCCT-CCAAACACACCAGTATATCATA
1 TCCTCCCAAACACACCAG-ATAT-ATA
94344631 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
94344648 ATAAGGCATT
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
22 3 0.05
23 10 0.17
24 4 0.07
26 5 0.08
27 14 0.23
28 9 0.15
29 11 0.18
31 4 0.07
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.17
Consensus pattern (25 bp):
TCCTCCCAAACACACCAGATATATA
Found at i:94344645 original size:29 final size:29
Alignment explanation
Indices: 94344579--94344646 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
94344569 GAATATCCAA
*
94344579 CCCAAACACACCCAGAATATTATAAATCCT
1 CCCAAACACACCCAGAATATCAT-AATCCT
*
94344609 -CCAAACACA-CCAGTATATCAT-ATCCT
1 CCCAAACACACCCAGAATATCATAATCCT
94344635 CCCAAACACACC
1 CCCAAACACACC
94344647 AATAAGGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.15
27 9 0.26
28 11 0.32
29 9 0.26
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (29 bp):
CCCAAACACACCCAGAATATCATAATCCT
Found at i:94344877 original size:8 final size:10
Alignment explanation
Indices: 94344848--94344888 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
94344838 ATTCTAATAA
*
94344848 TCACATATTT
1 TCACACATTT
94344858 TCACACATTT
1 TCACACATTT
94344868 TCACA-A-TT
1 TCACACATTT
*
94344876 TCATACATTT
1 TCACACATTT
94344886 TCA
1 TCA
94344889 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:94345112 original size:15 final size:15
Alignment explanation
Indices: 94345094--94345143 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
94345084 TTATATATAT
94345094 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
94345109 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
94345124 AATGATTTCAATCAA
1 TATAATTTCAATCAA
94345139 TATAA
1 TATAA
94345144 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:94345313 original size:18 final size:18
Alignment explanation
Indices: 94345274--94345316 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
94345264 AATACAAACC
* *
94345274 AAAAAAATAATAAATAAT
1 AAAAAAATAAGAAATAAG
94345292 AAAAAAATGAAGAAA-AAG
1 AAAAAAAT-AAGAAATAAG
94345310 AAAAAAA
1 AAAAAAA
94345317 CGTAACCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAAATAAGAAATAAG
Found at i:94346595 original size:6 final size:7
Alignment explanation
Indices: 94346577--94346602 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94346567 CACTCCCTTT
94346577 TAAAAAA
1 TAAAAAA
94346584 TAAAAAA
1 TAAAAAA
94346591 TAAAAAA
1 TAAAAAA
94346598 TAAAA
1 TAAAA
94346603 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:94348646 original size:19 final size:19
Alignment explanation
Indices: 94348624--94348667 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
94348614 CCCAGGCATT
94348624 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
94348643 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
94348662 TGCATT
1 TGCATT
94348668 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:94350768 original size:6 final size:6
Alignment explanation
Indices: 94350757--94350786 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
94350747 GGCGCTATAT
*
94350757 GGCAAA GGCAAA GGCAAA GGTAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
94350787 AAAAAACAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:94352790 original size:88 final size:87
Alignment explanation
Indices: 94352636--94352859 Score: 342
Period size: 88 Copynumber: 2.6 Consensus size: 87
94352626 AGCTGAAGAT
* *
94352636 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTCGCT
*
94352701 TTCACGTGTTTACGTTAAAGCAG
65 TTCACGTGTTTACGTTAAAGCAA
94352724 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTCGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTCGCT
*
94352789 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACGTTAAAGCAA
* * * *
94352812 ATCTAAGATGATTTGGCATCTCTATAGC-GGCGGAGAGCAGATCAAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
94352860 TAACAGATTT
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.02
87 16 0.13
88 108 0.86
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAATTTCGCTT
TCACGTGTTTACGTTAAAGCAA
Found at i:94352878 original size:44 final size:44
Alignment explanation
Indices: 94352821--94353625 Score: 1177
Period size: 44 Copynumber: 18.4 Consensus size: 44
94352811 AATCTAAGAT
* * *
94352821 GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94352865 GATTTGGCGTCTCTGTAGGGGCGGGGAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94352909 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
94352953 AATTTGGCGTCTCTCTAGCGGCGGAGAGCAGATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94352997 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
94353041 AATTTGGCGTCTCTCTAGCGGCGGAGAGCAGATCGAAGGTAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
94353085 GATTTGGCGTCTCTGTAGCAGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94353129 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
94353173 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94353217 AATTTGGCGTCTCTGTAGTGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
94353261 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * *
94353305 GATTTGGATTCTCTGTAGCGGCGGAGGGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94353349 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94353393 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94353437 GATTTGGCGTCTCTGTAGCGGTGGAAAGCTGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94353477 GATTTGGCATCTCTGTAGCAGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94353521 GATTTGGCGTCTCTGTAGCGGCGGAGACCAGATCAAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
94353565 GATTGGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
94353609 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
94353626 TTAGACGTGG
Statistics
Matches: 681, Mismatches: 76, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
40 34 0.05
44 647 0.95
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:94355150 original size:19 final size:19
Alignment explanation
Indices: 94355126--94355163 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94355116 TTGAGATTGC
94355126 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
94355145 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
94355164 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:94355257 original size:6 final size:7
Alignment explanation
Indices: 94355239--94355264 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94355229 CACTCCCTTT
94355239 TAAAAAA
1 TAAAAAA
94355246 TAAAAAA
1 TAAAAAA
94355253 TAAAAAA
1 TAAAAAA
94355260 TAAAA
1 TAAAA
94355265 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:94357228 original size:19 final size:19
Alignment explanation
Indices: 94357204--94357268 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
94357194 CTTTCTTTCT
94357204 TTTGCATT-CATCACATGCA
1 TTTGCATTGCATCACAT-CA
**
94357223 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCACATCA
* ***
94357242 TTTGCATTACATTGTATCA
1 TTTGCATTGCATCACATCA
94357261 TTTGCATT
1 TTTGCATT
94357269 AGATTTTCCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 35 0.85
20 6 0.15
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (19 bp):
TTTGCATTGCATCACATCA
Found at i:94357254 original size:24 final size:24
Alignment explanation
Indices: 94357205--94357255 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
94357195 TTTCTTTCTT
*
94357205 TTGCATTCATCACATGCATTTGCA
1 TTGCATTCATCACATGCATTTACA
**
94357229 TTGCATTGCATCATTTGCA-TTACA
1 TTGCATT-CATCACATGCATTTACA
94357253 TTG
1 TTG
94357256 TATCATTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (24 bp):
TTGCATTCATCACATGCATTTACA
Found at i:94357269 original size:19 final size:19
Alignment explanation
Indices: 94357221--94357269 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
94357211 TCATCACATG
*
94357221 CATTTGCATTGCATTGCAT
1 CATTTGCATTACATTGCAT
*
94357240 CATTTGCATTACATTGTAT
1 CATTTGCATTACATTGCAT
94357259 CATTTGCATTA
1 CATTTGCATTA
94357270 GATTTTCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (19 bp):
CATTTGCATTACATTGCAT
Found at i:94359378 original size:6 final size:6
Alignment explanation
Indices: 94359367--94359396 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
94359357 GGCGCTATAT
*
94359367 GGCAAA GGCAAA GGCAAA GGTAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
94359397 AAAAACAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.33, T:0.03
Consensus pattern (6 bp):
GGCAAA
Found at i:94361392 original size:88 final size:87
Alignment explanation
Indices: 94361243--94361466 Score: 324
Period size: 88 Copynumber: 2.6 Consensus size: 87
94361233 AGCTGAAGAT
* * *
94361243 ATCCAAGATGATTTGGCATCTCTGCATCAAGCGGGGAGTAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
*
94361308 TTCACGTGTTTACATTAAAGCAG
65 TTCACGTGTTTACATTAAAGCAA
*
94361331 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGGCT
* *
94361396 TTCACGTGTTTACGTTGAAGCAA
65 TTCACGTGTTTACATTAAAGCAA
* * *
94361419 ATCTAATATGATTTGGCATCTCTGTAGC-GGCGGAGAGCAGATCGAAGA
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
94361467 TAACAGATTT
Statistics
Matches: 124, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
86 2 0.02
87 17 0.14
88 105 0.85
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (87 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAATTTGGCTT
TCACGTGTTTACATTAAAGCAA
Found at i:94361491 original size:44 final size:44
Alignment explanation
Indices: 94361428--94361788 Score: 540
Period size: 44 Copynumber: 8.4 Consensus size: 44
94361418 AATCTAATAT
*
94361428 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
94361472 GATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
**
94361516 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
94361560 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATTGAAGATAGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
94361604 GATTTTGC-TCTCTGTAGTGGC----AG-AGA--GAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** * *
94361640 GATTTGGCGTCTTTGTAGCGGCAAAGAGCAGATCGAATATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
94361684 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
94361728 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
94361772 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
94361789 TTAGACAGGG
Statistics
Matches: 289, Mismatches: 20, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
36 15 0.05
37 11 0.04
38 3 0.01
39 2 0.01
41 2 0.01
42 3 0.01
43 12 0.04
44 241 0.83
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:94361659 original size:168 final size:169
Alignment explanation
Indices: 94361462--94361788 Score: 539
Period size: 168 Copynumber: 1.9 Consensus size: 169
94361452 AGAGCAGATC
**
94361462 GAAGATAACAGATTTGGAGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTC
1 GAAGATAACAGATTTGGAGTCTCTGTAGCGGCAAAGAGCAGATCGAAGATAACAGATTTGGCGTC
**
94361527 TCTGTAGCGGCGGAGAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
66 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
* ** *
94361592 TTGAAGATAGTAGATTTTGC-TCTCTGTAGTGGCAGAGA
131 TCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGA
* * * *
94361630 GAAGATAACAGATTTGGCGTCTTTGTAGCGGCAAAGAGCAGATCGAATATAGCAGATTTGGCGTC
1 GAAGATAACAGATTTGGAGTCTCTGTAGCGGCAAAGAGCAGATCGAAGATAACAGATTTGGCGTC
94361695 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
66 TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
94361760 TCGAAGATAACAGATTTGGCGTCTCTGTA
131 TCGAAGATAACAGATTTGGCGTCTCTGTA
94361789 TTAGACAGGG
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
168 138 0.95
169 8 0.05
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (169 bp):
GAAGATAACAGATTTGGAGTCTCTGTAGCGGCAAAGAGCAGATCGAAGATAACAGATTTGGCGTC
TCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGA
TCGAAGATAACAGATTTGGCGTCTCTGTAGTGGCAGAGA
Found at i:94363309 original size:19 final size:19
Alignment explanation
Indices: 94363285--94363322 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
94363275 TTAAGATTGC
94363285 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
94363304 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
94363323 TATTCATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:94363416 original size:6 final size:7
Alignment explanation
Indices: 94363398--94363423 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
94363388 TACTCCCTTT
94363398 TAAAAAA
1 TAAAAAA
94363405 TAAAAAA
1 TAAAAAA
94363412 TAAAAAA
1 TAAAAAA
94363419 TAAAA
1 TAAAA
94363424 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:94371986 original size:43 final size:43
Alignment explanation
Indices: 94371918--94372051 Score: 196
Period size: 43 Copynumber: 3.1 Consensus size: 43
94371908 AGTTTAAAAC
* * *
94371918 TTTTAGCGGCGCTTTTCACGAAAACGACGCTAAAGATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* * *
94371961 TTTTAGCGGCGTTTTTCCCTCAAACGCCGCTAAAGATCATGAC
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* *
94372004 CTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAAATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
94372047 TTTTA
1 TTTTA
94372052 AAAATTTATT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
Found at i:94372096 original size:22 final size:23
Alignment explanation
Indices: 94372071--94372113 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
94372061 TTTATTTTAA
*
94372071 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
94372093 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
94372114 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:94388700 original size:39 final size:35
Alignment explanation
Indices: 94388625--94388695 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
94388615 CATAAAAATT
94388625 TATATATAACCATTTAATTAATTTATTGAAATTAA
1 TATATATAACCATTTAATTAATTTATTGAAATTAA
94388660 TATATATAACCATTTAATTAATTTATTGAAATTAA
1 TATATATAACCATTTAATTAATTTATTGAAATTAA
94388695 T
1 T
94388696 TAATAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (35 bp):
TATATATAACCATTTAATTAATTTATTGAAATTAA
Found at i:94390473 original size:16 final size:16
Alignment explanation
Indices: 94390452--94390484 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
94390442 TATCTGTATC
94390452 AAGATGTATTAAAATA
1 AAGATGTATTAAAATA
94390468 AAGATGTATTAAAATA
1 AAGATGTATTAAAATA
94390484 A
1 A
94390485 TATTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AAGATGTATTAAAATA
Found at i:94396535 original size:3 final size:3
Alignment explanation
Indices: 94396527--94396557 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
94396517 TTATATTTAA
94396527 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
94396558 CATGTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:94396776 original size:80 final size:80
Alignment explanation
Indices: 94396643--94396802 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
94396633 GGAGACGATA
94396643 GAATCAGAGGCTTATATAAAAATAAACAGTAGACTTCGAGACGCGGATGACTCTTTCTAAAGAGT
1 GAATCAGAGGCTTATATAAAAATAAACAGTAGACTTCGAGACGCGGATGACTCTTTCTAAAGAGT
94396708 ACTATTTGCCCCCGC
66 ACTATTTGCCCCCGC
94396723 GAATCAGAGGCTTATATAAAAATAAACAGTAGACTTCGAGACGCGGATGACTCTTTCTAAAGAGT
1 GAATCAGAGGCTTATATAAAAATAAACAGTAGACTTCGAGACGCGGATGACTCTTTCTAAAGAGT
94396788 ACTATTTGCCCCCGC
66 ACTATTTGCCCCCGC
94396803 ACAAAGTTGC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (80 bp):
GAATCAGAGGCTTATATAAAAATAAACAGTAGACTTCGAGACGCGGATGACTCTTTCTAAAGAGT
ACTATTTGCCCCCGC
Found at i:94397148 original size:56 final size:55
Alignment explanation
Indices: 94397062--94397169 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 55
94397052 GTATCCATTG
* * *
94397062 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGAAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATT-AATTTGAAA
94397118 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTG
94397170 CAATCTATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 43 0.88
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTGAAA
Found at i:94401043 original size:15 final size:15
Alignment explanation
Indices: 94401023--94401059 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
94401013 CTACTTACGA
94401023 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
94401038 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
*
94401053 AGACTTG
1 GGACTTG
94401060 ATCTATGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (15 bp):
GGACTTGTAATTCAT
Found at i:94401170 original size:23 final size:24
Alignment explanation
Indices: 94401144--94401196 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
94401134 GCTCGGTGTT
*
94401144 GTATTTCTCTTTAGGAACTTTC-A
1 GTATTTCTCTTTAAGAACTTTCTA
*
94401167 GTATTTCTCTTTAAGAGCTTTCTA
1 GTATTTCTCTTTAAGAACTTTCTA
94401191 -TATTTC
1 GTATTTC
94401197 CACCGGGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (24 bp):
GTATTTCTCTTTAAGAACTTTCTA
Found at i:94401574 original size:15 final size:15
Alignment explanation
Indices: 94401541--94401574 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
94401531 TATTTGAGTG
* *
94401541 AGACGATAGAATTGG
1 AGACGATAGAATCGA
94401556 AGACGATAGAATCGA
1 AGACGATAGAATCGA
94401571 AGAC
1 AGAC
94401575 TTATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (15 bp):
AGACGATAGAATCGA
Found at i:94402018 original size:56 final size:56
Alignment explanation
Indices: 94401900--94402010 Score: 147
Period size: 56 Copynumber: 2.0 Consensus size: 56
94401890 TGTATCCGTT
* * * **
94401900 AGATGATAAATCATCACTTTTAATTTGAATGATGCTTATAAATAATTAAATTTGTA
1 AGATAATAAATCATCACTTTTAATTTAAATGATGCTCATAAATAATTAAATTTACA
94401956 AGATAATAAATCATCACTTTTAATTTAAAT-AGTG-TCATAAATAATT-AATTTACA
1 AGATAATAAATCATCACTTTTAATTTAAATGA-TGCTCATAAATAATTAAATTTACA
94402010 A
1 A
94402011 TCTATAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 7 0.14
55 12 0.24
56 30 0.61
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (56 bp):
AGATAATAAATCATCACTTTTAATTTAAATGATGCTCATAAATAATTAAATTTACA
Found at i:94404662 original size:19 final size:18
Alignment explanation
Indices: 94404640--94404692 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
94404630 TTAGTAAAAT
94404640 AAAATAAAATAATATTTCA
1 AAAATAAAATAATATTT-A
*
94404659 AAAATAATAT-ATATCTTA
1 AAAATAAAATAATAT-TTA
* *
94404677 AAATTAAAATACTATT
1 AAAATAAAATAATATT
94404693 ATTATTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATAAAATAATATTTA
Found at i:94405905 original size:3 final size:3
Alignment explanation
Indices: 94405897--94405922 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
94405887 AAATCAATGT
94405897 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
94405923 TAGATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:94410367 original size:35 final size:35
Alignment explanation
Indices: 94410328--94410406 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
94410318 AATGAAAGTT
*
94410328 ATAAAAATTATT-CAATTTTATTAAAAATTA-AAAAA
1 ATAAAAATT-TTAAAATTTTA-TAAAAATTATAAAAA
*
94410363 ATAAAAAATTTTAAAATTTTATAAAAATTATAAAAT
1 AT-AAAAATTTTAAAATTTTATAAAAATTATAAAAA
94410399 ATAGAAAA
1 ATA-AAAA
94410407 ATATAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
35 14 0.37
36 24 0.63
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (35 bp):
ATAAAAATTTTAAAATTTTATAAAAATTATAAAAA
Found at i:94410424 original size:18 final size:18
Alignment explanation
Indices: 94410349--94410491 Score: 87
Period size: 18 Copynumber: 7.6 Consensus size: 18
94410339 TCAATTTTAT
94410349 TAAAAATTA-AAAAAATA
1 TAAAAATTATAAAAAATA
* **
94410366 -AAAAATTTTAAAATTTTA
1 TAAAAATTATAAAA-AATA
*
94410384 TAAAAATTATAAAATATA
1 TAAAAATTATAAAAAATA
*
94410402 GAAAAA-TATAGAAAAATA
1 TAAAAATTATA-AAAAATA
*
94410420 TAAAATTTTATAAAGAAAATTA
1 TAAAA-ATTAT-AA-AAAA-TA
* *
94410442 TAAAAAATGTAAAGAAATA
1 TAAAAATTATAAA-AAATA
94410461 T-AAAATTCATAAAAAAAATTA
1 TAAAAATT-AT--AAAAAA-TA
94410482 TAAAAATTAT
1 TAAAAATTAT
94410492 CGTACAAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 26
0.71 0.10 0.19
Matches are distributed among these distances:
16 7 0.07
17 8 0.08
18 25 0.26
19 17 0.18
20 12 0.12
21 15 0.15
22 13 0.13
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAATTATAAAAAATA
Found at i:94410454 original size:21 final size:22
Alignment explanation
Indices: 94410411--94410487 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 22
94410401 AGAAAAATAT
* ** *
94410411 AGAAAAATATAAAATTTTATAA
1 AGAAAATTATAAAAAATCATAA
*
94410433 AGAAAATTATAAAAAAT-GTAA
1 AGAAAATTATAAAAAATCATAA
*
94410454 AG-AAA-TAT-AAAATTCATAA
1 AGAAAATTATAAAAAATCATAA
*
94410473 AAAAAATTATAAAAA
1 AGAAAATTATAAAAA
94410488 TTATCGTACA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
18 5 0.11
19 7 0.16
20 6 0.14
21 8 0.18
22 18 0.41
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (22 bp):
AGAAAATTATAAAAAATCATAA
Found at i:94410473 original size:40 final size:41
Alignment explanation
Indices: 94410350--94410487 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 41
94410340 CAATTTTATT
* * *
94410350 AAAAATTA-AAAAAATA-A-AAAATTTTAAAATTTTATAAAA
1 AAAAATTATAAAAAATATAGAAAAATATAAAATTTCAT-AAA
* *
94410389 ATTATAAAATATAGAAAAATATAGAAAAATATAAAATTTTATAAA
1 A--A-AAATTATA-AAAAATATAGAAAAATATAAAATTTCATAAA
* *
94410434 GAAAATTATAAAAAATGTA-AAGAAATATAAAA-TTCATAAA
1 AAAAATTATAAAAAATATAGAA-AAATATAAAATTTCATAAA
94410474 AAAAATTATAAAAA
1 AAAAATTATAAAAA
94410488 TTATCGTACA
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
39 1 0.01
40 22 0.27
41 19 0.23
42 12 0.14
43 2 0.02
44 7 0.08
45 4 0.05
46 16 0.19
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (41 bp):
AAAAATTATAAAAAATATAGAAAAATATAAAATTTCATAAA
Found at i:94410491 original size:9 final size:9
Alignment explanation
Indices: 94410296--94410491 Score: 73
Period size: 10 Copynumber: 20.9 Consensus size: 9
94410286 TGTAACAAAT
*
94410296 AAAATGATA
1 AAAATTATA
94410305 AAAA--ATA
1 AAAATTATA
*
94410312 AAAATTAATG
1 AAAATT-ATA
*
94410322 AAAGTTATA
1 AAAATTATA
*
94410331 AAAATTATTC
1 AAAATTA-TA
**
94410341 AATTTTATTA
1 AAAATTA-TA
94410351 AAAATTA-A
1 AAAATTATA
*
94410359 AAAAATA-A
1 AAAATTATA
*
94410367 AAAATTTTA
1 AAAATTATA
*
94410376 AAATTTTATA
1 AAA-ATTATA
94410386 AAAATTAT-
1 AAAATTATA
94410394 AAAA-TATA
1 AAAATTATA
*
94410402 GAAAAATATA
1 -AAAATTATA
*
94410412 GAAAAATATA
1 -AAAATTATA
*
94410422 AAATTTTATAAA
1 AAA-ATTAT--A
94410434 GAAAATTATA
1 -AAAATTATA
* *
94410444 AAAAATGTA
1 AAAATTATA
*
94410453 AAGAAATAT-
1 AA-AATTATA
94410462 AAAATTCATAAAA
1 AAAATT-AT---A
94410475 AAAATTATA
1 AAAATTATA
94410484 AAAATTAT
1 AAAATTAT
94410492 CGTACAAAAA
Statistics
Matches: 145, Mismatches: 23, Indels: 38
0.70 0.11 0.18
Matches are distributed among these distances:
7 10 0.07
8 20 0.14
9 49 0.34
10 50 0.34
12 7 0.05
13 9 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:94410777 original size:10 final size:10
Alignment explanation
Indices: 94410644--94410725 Score: 60
Period size: 10 Copynumber: 8.2 Consensus size: 10
94410634 TAATGGTGCA
94410644 TTTTATAATT
1 TTTTATAATT
* *
94410654 ATTTATGA-T
1 TTTTATAATT
**
94410663 TTTTATAAAA
1 TTTTATAATT
*
94410673 TTTTACAATT
1 TTTTATAATT
94410683 TTTTATAATT
1 TTTTATAATT
*
94410693 TTTT-TACAAT
1 TTTTATA-ATT
*
94410703 CTTTATAAATT
1 TTTTAT-AATT
*
94410714 TTTCATAATT
1 TTTTATAATT
94410724 TT
1 TT
94410726 CAATATTTTT
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
9 9 0.17
10 37 0.69
11 7 0.13
12 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:94427809 original size:47 final size:47
Alignment explanation
Indices: 94427756--94428191 Score: 710
Period size: 47 Copynumber: 9.3 Consensus size: 47
94427746 ACAAGATATG
*
94427756 TATATGTGATAAGGCCGAATGGCCAATGTGATGAAGGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
94427803 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
94427850 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
94427897 TATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
94427944 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
94427991 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
94428038 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
94428085 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
94428132 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
94428179 TAAATGTGATAAG
1 TATATGTGATAAG
94428192 TCCCGAAGGG
Statistics
Matches: 358, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 358 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:94434838 original size:18 final size:17
Alignment explanation
Indices: 94434798--94434840 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
94434788 TAATAAATTG
94434798 AAAAATTAAATATTAGA
1 AAAAATTAAATATTAGA
94434815 ATAAAATTAAA-ATTTAAGA
1 A-AAAATTAAATA-TT-AGA
94434834 AAAAATT
1 AAAAATT
94434841 CGATCTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAATTAAATATTAGA
Found at i:94450389 original size:50 final size:50
Alignment explanation
Indices: 94450295--94450389 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
94450285 ACTCTTCCAA
* * *
94450295 GCCATATAACGAGAAGCTCATGTGAGCCAATTATCGGGAAGCTCAAGAGC
1 GCCATATAACGAGAAGCTCATGAGAGCCAAATATCAGGAAGCTCAAGAGC
* * * *
94450345 GCCAT-TAATCGAGAAGCTCGTGAGAGTCAAATATTAGGATGCTCA
1 GCCATATAA-CGAGAAGCTCATGAGAGCCAAATATCAGGAAGCTCA
94450390 TAAGAGCTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
49 3 0.08
50 34 0.92
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (50 bp):
GCCATATAACGAGAAGCTCATGAGAGCCAAATATCAGGAAGCTCAAGAGC
Found at i:94451077 original size:99 final size:100
Alignment explanation
Indices: 94450974--94451181 Score: 314
Period size: 99 Copynumber: 2.1 Consensus size: 100
94450964 CAAAATTCTC
94450974 TTTACAAAAGTTGTTTATCTAACAAAAAACTTTCATTTTCTATCAT-AAA-TCATAATTCAAGCA
1 TTTACAAAAGTTGTTTATCTAACAAAAAACTTTCATTTTCTATCATAAAACTCATAATTCAAGCA
94451037 TACTCATCCATGG-AAAATCCCTAATACATTAACGGT
66 TA-TCATCCATGGAAAAAT-CCTAATACATTAACGGT
* * * *
94451073 TTTACAAAGGTTGTTTATCTAATAACAACCTTTCATTTTCTATCATAAAACTTCATAATTCAAGC
1 TTTACAAAAGTTGTTTATCTAACAAAAAACTTTCATTTTCTATCATAAAAC-TCATAATTCAAGC
* *
94451138 ATATCATCCATGGAAAAATCCTAATACTTTAATGGT
65 ATATCATCCATGGAAAAATCCTAATACATTAACGGT
94451174 TTTACAAA
1 TTTACAAA
94451182 TTAATCCCCG
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
99 42 0.42
100 3 0.03
101 33 0.33
102 21 0.21
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.36
Consensus pattern (100 bp):
TTTACAAAAGTTGTTTATCTAACAAAAAACTTTCATTTTCTATCATAAAACTCATAATTCAAGCA
TATCATCCATGGAAAAATCCTAATACATTAACGGT
Found at i:94455898 original size:19 final size:20
Alignment explanation
Indices: 94455870--94455911 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
94455860 TCTTGCTTTG
94455870 TTTCTTTATTTA-TTT-TAT
1 TTTCTTTATTTACTTTATAT
94455888 TTTCTTTTATTTACTTTATAT
1 TTTC-TTTATTTACTTTATAT
94455909 TTT
1 TTT
94455912 AATTATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.19
19 8 0.38
20 3 0.14
21 6 0.29
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTATTTACTTTATAT
Found at i:94457460 original size:18 final size:18
Alignment explanation
Indices: 94457442--94457476 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
94457432 TTAGACATAT
94457442 TTATAA-AATTATTATTA
1 TTATAATAATTATTATTA
94457459 TTATAATAATTATTATTA
1 TTATAATAATTATTATTA
94457477 GATAGGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATAATAATTATTATTA
Found at i:94458460 original size:18 final size:17
Alignment explanation
Indices: 94458439--94458493 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
94458429 GCAATTCTTT
94458439 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
*
94458457 TCTCTTCATCTATTTACTC
1 TCTCTTCTTCT-TTT-CTC
94458476 T-TCTTCTTCTTTTC-C
1 TCTCTTCTTCTTTTCTC
94458491 TCT
1 TCT
94458494 ATAGCTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 2 0.06
16 2 0.06
17 3 0.09
18 18 0.56
19 5 0.16
20 2 0.06
ACGTcount: A:0.05, C:0.35, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Done.