Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009075.1 Hibiscus syriacus cultivar Beakdansim tig00112508_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1223780
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:736767 original size:38 final size:37
Alignment explanation
Indices: 736714--736859 Score: 172
Period size: 38 Copynumber: 3.9 Consensus size: 37
736704 AAAATGTTTT
*
736714 TTTTTAAAAAATATATATTATATATATTTTCAAAATGG
1 TTTTTAAAAAATATATATTATATATATTTTCAAAA-CG
* * *
736752 TTTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTTTAAAAAATATATATTATAT--ATATTTTCAAAACG
* *
736791 -TTTTCAAAAGTATATATTATATATATTTT-AAAACG
1 TTTTTAAAAAATATATATTATATATATTTTCAAAACG
* *
736826 TTTTCAAAAACTATATATTATATA-ATTTTCAAAA
1 TTTTTAAAAAATATATATTATATATATTTTCAAAA
736860 AATATATTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
35 10 0.11
36 30 0.32
38 42 0.45
39 1 0.01
40 10 0.11
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTTTAAAAAATATATATTATATATATTTTCAAAACG
Found at i:736833 original size:35 final size:36
Alignment explanation
Indices: 736715--737057 Score: 171
Period size: 36 Copynumber: 9.0 Consensus size: 36
736705 AAATGTTTTT
* * **
736715 TTTTAAAAAATATATATTATATATATTTTCAAAATGG
1 TTTTCAAAACTATATATTATATATATTTT-AAAAACG
* * * * *
736752 TTTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 -TTTTCAAAACTATATATTATAT--ATATTTTAAAAACG
*
736791 TTTTCAAAAGTATATATTATATATATTTT-AAAACG
1 TTTTCAAAACTATATATTATATATATTTTAAAAACG
736826 TTTTCAAAAACTATATATTATATA-ATTTTCAAAAAATATATTTTCAACATGG
1 TTTTC-AAAACTATATATTATATATATTTT------A-A-A-----AAC---G
* * * ** *
736878 TTTTTAAAATTATATA-TATATAAATGTTTTCATACG
1 TTTTCAAAACTATATATTATATATAT-TTTAAAAACG
*
736914 TTTTCAAAAGTATATATTATATATATTTTAAAAACG
1 TTTTCAAAACTATATATTATATATATTTTAAAAACG
**
736950 TTTTCAAAA--ACTATATTATATA-ATTTTCAAAAATA
1 TTTTCAAAACTA-TATATTATATATATTTT-AAAAACG
* * * *
736985 TTTTAAAAACTATATAATATACATATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATATATTTT-AAAAACG
737022 TTTT--AAACTATATATTATATATGTATTTTCAAAAAC
1 TTTTCAAAACTATATATTATATA--TATTTT-AAAAAC
737058 AATTTGCAAA
Statistics
Matches: 244, Mismatches: 31, Indels: 61
0.73 0.09 0.18
Matches are distributed among these distances:
34 6 0.02
35 54 0.22
36 63 0.26
37 37 0.15
38 41 0.17
39 5 0.02
40 6 0.02
43 1 0.00
44 2 0.01
49 3 0.01
50 6 0.02
51 12 0.05
52 8 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
TTTTCAAAACTATATATTATATATATTTTAAAAACG
Found at i:736844 original size:27 final size:24
Alignment explanation
Indices: 736809--736869 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 24
736799 AGTATATATT
736809 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTTTAAAA--TTTTCAAAA
* *
736835 ACTATATATTATATAATTTTCAAAA
1 A-TATATATTTTAAAATTTTCAAAA
736860 A-ATATATTTT
1 ATATATATTTT
736870 CAACATGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 8 0.26
25 10 0.32
26 1 0.03
27 12 0.39
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (24 bp):
ATATATATTTTAAAATTTTCAAAA
Found at i:736928 original size:36 final size:35
Alignment explanation
Indices: 736877--737042 Score: 126
Period size: 37 Copynumber: 4.7 Consensus size: 35
736867 TTTCAACATG
* * ** *
736877 GTTTTTAAAATTATATATATATAAATGTTTTCATAC
1 GTTTTCAAAACTATATATATATAAAT-TTTAAAAAC
* *
736913 GTTTTCAAAAGTATATATTATATATATTTTAAAAAC
1 GTTTTCAAAACTATATA-TATATAAATTTTAAAAAC
*
736949 GTTTTCAAAAACTATAT-TATAT-AATTTTCAAAAAT
1 GTTTTC-AAAACTATATATATATAAATTTT-AAAAAC
* * *
736984 ATTTTAAAAACTATATA-ATATACATATTTTCAAAAAT
1 GTTTTCAAAACTATATATATATA-A-ATTTT-AAAAAC
737021 GTTTT--AAACTATATATTATATA
1 GTTTTCAAAACTATATA-TATATA
737043 TGTATTTTCA
Statistics
Matches: 109, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
34 19 0.17
35 24 0.22
36 28 0.26
37 38 0.35
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
GTTTTCAAAACTATATATATATAAATTTTAAAAAC
Found at i:736965 original size:37 final size:36
Alignment explanation
Indices: 736861--737057 Score: 156
Period size: 35 Copynumber: 5.4 Consensus size: 36
736851 TTTTCAAAAA
* ** *
736861 ATATATTTTCAACATGGTTTTTAAAATTATATATATAT
1 ATATATTTTCAAAAACG-TTTTAAAACTATATAT-TAT
* * * *
736899 AAATGTTTTC--ATACGTTTTCAAAAGTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAACTATATATTAT
736934 ATATATTTT-AAAAACGTTTTCAAAA--ACTATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAACTA-TATATTAT
** *
736969 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTT-AAAACTATATATTAT
* *
737005 ACATATTTTCAAAAATGTTTT-AAACTATATATTAT
1 ATATATTTTCAAAAACGTTTTAAAACTATATATTAT
737040 ATATGTATTTTCAAAAAC
1 ATA--TATTTTCAAAAAC
737058 AATTTGCAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
34 6 0.05
35 53 0.41
36 34 0.26
37 29 0.22
38 8 0.06
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATATTTTCAAAAACGTTTTAAAACTATATATTAT
Found at i:737079 original size:37 final size:35
Alignment explanation
Indices: 736919--737082 Score: 111
Period size: 37 Copynumber: 4.5 Consensus size: 35
736909 ATACGTTTTC
* * **
736919 AAAAGTATATATTATATATATTTT-AAAAACGTTTT
1 AAAACTATATAATATATATATTTTCAAAAA-AATTT
*
736954 CAAAAACTATAT--TATATA-ATTTTCAAAAATATTTT
1 --AAAACTATATAATATATATATTTTCAAAAA-AATTT
* **
736989 AAAAACTATATAATATACATATTTTCAAAAATGTTT
1 -AAAACTATATAATATATATATTTTCAAAAAAATTT
* *
737025 TAAACTATATATTATATATGTATTTTCAAAAACAATTT
1 AAAACTATATA--ATATATATATTTTCAAAAA-AATTT
* *
737063 GCAAACTGTATAATATATAT
1 -AAAACTATATAATATATAT
737083 GTGTATATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
34 16 0.15
35 25 0.24
36 8 0.08
37 44 0.42
38 3 0.03
39 9 0.09
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (35 bp):
AAAACTATATAATATATATATTTTCAAAAAAATTT
Found at i:737865 original size:165 final size:161
Alignment explanation
Indices: 737675--738387 Score: 847
Period size: 165 Copynumber: 4.3 Consensus size: 161
737665 TTGAATATAA
* * * * *
737675 TCGAACTCGGAGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CC
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCC
* * * * * * * * *
737739 TTGGAGCTGAGCGGAGTCGAACTCGAA-GGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGT
66 TCGAAGCTGAGTGTAATCGAACT-GAAGGGTC-TTTGG---CAGATAGCCCTTCTAGACTTAAGC
* * * * *
737803 TATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
126 TATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
**
737840 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCC
1 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCC
* * *
737905 TCGAAGCTGAGTGTAATCGAACTCG-GGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATT
66 TCGAAGCTGAGTGTAATCGAACT-GAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATG
*
737969 CTGCAAATGATGTGCCTAGGAGCTGAGCGTAG
130 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * * * * * *
738001 TCGAACTCAAAGGTCTTTGCTAACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGTTATG
1 TCGAACTCGAAGGTCTTTG---GCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG
* * * *
738066 CCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTA
63 CCCTCGAAGCTGAGTGTAATCGAACTGAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTA
738131 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
128 TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
738165 TCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGT
* *
738230 GCCCTCGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
62 GCCCTCGAAGCTGAGTGTAATCGAACTGAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCT
*
738295 ATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
127 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
738330 TCGAACTCGAAGGTCTTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGCAAAT
1 TCGAACTCGAAGGTCTT--TGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAAT
738388 AGTTTGTTTA
Statistics
Matches: 480, Mismatches: 56, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
161 30 0.06
162 35 0.07
163 30 0.06
164 142 0.30
165 214 0.45
166 29 0.06
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (161 bp):
TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCC
TCGAAGCTGAGTGTAATCGAACTGAAGGGTCTTTGGCAGATAGCCCTTCTAGACTTAAGCTATGC
TGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:742432 original size:17 final size:17
Alignment explanation
Indices: 742410--742442 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
742400 TGCAAACGAT
742410 GAACAAAAAATAAAAGA
1 GAACAAAAAATAAAAGA
*
742427 GAACAAAAAGTAAAAG
1 GAACAAAAAATAAAAG
742443 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:743527 original size:4 final size:4
Alignment explanation
Indices: 743518--743542 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
743508 GAATTAGGGA
743518 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
743543 TAAATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:743774 original size:14 final size:14
Alignment explanation
Indices: 743742--743771 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
743732 TATGGGAAAG
743742 AAATAACAATAATA
1 AAATAACAATAATA
743756 AAATAA-AATAATA
1 AAATAACAATAATA
743769 AAA
1 AAA
743772 ATAGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAACAATAATA
Found at i:743779 original size:13 final size:14
Alignment explanation
Indices: 743742--743774 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
743732 TATGGGAAAG
743742 AAATAACAATAAT-A
1 AAATAA-AATAATAA
743756 AAATAAAATAATAA
1 AAATAAAATAATAA
743770 AAATA
1 AAATA
743775 GATAAAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:745033 original size:20 final size:21
Alignment explanation
Indices: 745008--745054 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
744998 CCCTGCACAA
745008 AAATAAATGAAAAA-AAAAAT
1 AAATAAATGAAAAATAAAAAT
*
745028 AAATAAATTAAAAATAAAAAT
1 AAATAAATGAAAAATAAAAAT
745049 AAATAA
1 AAATAA
745055 TAATAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AAATAAATGAAAAATAAAAAT
Found at i:745040 original size:15 final size:16
Alignment explanation
Indices: 745006--745045 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
744996 GACCCTGCAC
745006 AAAAATAAATGAAAAA
1 AAAAATAAATGAAAAA
**
745022 AAAAATAAAT-AAATT
1 AAAAATAAATGAAAAA
745037 AAAAATAAA
1 AAAAATAAA
745046 AATAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAAATAAATGAAAAA
Found at i:745106 original size:26 final size:27
Alignment explanation
Indices: 745060--745110 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
745050 AATAATAATA
745060 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
745088 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
745111 TGTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:745173 original size:38 final size:37
Alignment explanation
Indices: 745072--745262 Score: 183
Period size: 38 Copynumber: 5.1 Consensus size: 37
745062 ATATATATAT
* * * *
745072 AAACGTTTTCAAAAAC-ATATAATATATAAATTTTTA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
745108 AAATGTTTTTTTTAAAAAACTATATATTATATATATTTTCA
1 AAACG---TTTTT-AAAAACTATATATTATATATATTTTCA
* * *
745149 AAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCA
1 AAA-CGTTTTTAAAAACTATATATTATAT--ATATTTTCA
* * *
745189 TAACG-TTTTCAAAAGTATATATTATATATATTTT-A
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
*
745224 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCA
1 AAACGTTTTTAAAAACTATATATTATATATATTTTCA
745260 AAA
1 AAA
745263 AATATATTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
35 10 0.08
36 34 0.27
38 37 0.29
39 10 0.08
40 16 0.12
41 20 0.16
42 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
AAACGTTTTTAAAAACTATATATTATATATATTTTCA
Found at i:745247 original size:27 final size:25
Alignment explanation
Indices: 745212--745314 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 25
745202 AGTATATATT
*
745212 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
745238 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
* * *
745263 A-ATATATTTTCAACATGGTTTTTAAAA
1 ATATATATTAT-AA-A-AGTTTTCAAAA
745290 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
745315 TAACGTTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
23 8 0.14
24 1 0.02
25 11 0.19
26 1 0.02
27 21 0.36
28 8 0.14
29 9 0.15
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:745271 original size:126 final size:127
Alignment explanation
Indices: 745138--745390 Score: 490
Period size: 126 Copynumber: 2.0 Consensus size: 127
745128 TATATATTAT
745138 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
745203 GTATATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
*
745264 ATATATTTTCAACATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
1 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
745329 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
745391 TATTTAAAAA
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
126 84 0.67
127 41 0.33
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (127 bp):
ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAA
GTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:745379 original size:37 final size:36
Alignment explanation
Indices: 745282--745486 Score: 156
Period size: 37 Copynumber: 5.7 Consensus size: 36
745272 TCAACATGGT
* * * * *
745282 TTTTAAAAATTATATATTATATAAATGTTTTCATAACG
1 TTTTCAAAACTATATATTATAT--ATATTTTAAAAACG
*
745320 TTTTCAAAAGTATATATTATATATATTTTAAAAACG
1 TTTTCAAAACTATATATTATATATATTTTAAAAACG
745356 TTTTCAAAAACTATATATTATATA-ATTTTCAAAAA--
1 TTTTC-AAAACTATATATTATATATATTTT-AAAAACG
* * * *
745391 TATTTAAAAACTATATA-TACATAT-TTTCAAAAATG
1 T-TTTCAAAACTATATATTATATATATTTTAAAAACG
*
745426 TTTT--AAACTATATATTATATATGTATTTTCAAAAACAA
1 TTTTCAAAACTATATATTATATA--TATTTT-AAAAAC-G
* *
745464 TTTGC-AAACTATATAATATATAT
1 TTTTCAAAACTATATATTATATAT
745487 GTGTATATAT
Statistics
Matches: 139, Mismatches: 15, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
32 10 0.07
33 10 0.07
34 11 0.08
35 14 0.10
36 27 0.19
37 28 0.20
38 23 0.17
39 16 0.12
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTTCAAAACTATATATTATATATATTTTAAAAACG
Found at i:745477 original size:69 final size:65
Alignment explanation
Indices: 745337--745482 Score: 154
Period size: 67 Copynumber: 2.2 Consensus size: 65
745327 AAGTATATAT
*
745337 TATAT-ATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATATTTAAAAA
1 TATATAATATTTTAAAAACGTTTT--AAAACTATATATTATATAATTTTCAAAAAAATTTAAAAA
745401 CTA
64 C-A
* *
745404 TATATACATATTTTCAAAAATGTTTT-AAACTATATATTATATATGTATTTTCAAAAACAATTTG
1 TATATA-ATATTTT-AAAAACGTTTTAAAACTATATATTATATA---ATTTTCAAAAA-AATTTA
*
745468 CAAAC-
60 AAAACA
745473 TATATAATAT
1 TATATAATAT
745483 ATATGTGTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
67 22 0.32
68 4 0.06
69 13 0.19
70 21 0.31
71 8 0.12
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (65 bp):
TATATAATATTTTAAAAACGTTTTAAAACTATATATTATATAATTTTCAAAAAAATTTAAAAACA
Found at i:747343 original size:23 final size:23
Alignment explanation
Indices: 747316--747367 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
747306 TAAAAACCAT
*
747316 AAAAATTG-TGCCACAAAAATAA
1 AAAAAATGATGCCACAAAAATAA
* *
747338 AGAAAATGCATTCCACAAAAATAA
1 AAAAAATG-ATGCCACAAAAATAA
747362 AAAAAA
1 AAAAAA
747368 ACATGTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
24 18 0.75
ACGTcount: A:0.63, C:0.13, G:0.08, T:0.15
Consensus pattern (23 bp):
AAAAAATGATGCCACAAAAATAA
Found at i:755089 original size:40 final size:43
Alignment explanation
Indices: 755043--755141 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
755033 TTCTATTTTT
* * **
755043 TTATTTTTAACTATATT-ATTTAATTA-TTAAAATATAA-AAA
1 TTATTTTAAAATATATTAATTTAACCATTTAAAATATAATAAA
755083 TTATTTTAAAATATATTAATTTAACCATTTAAAATATAATAAA
1 TTATTTTAAAATATATTAATTTAACCATTTAAAATATAATAAA
* *
755126 TAATTAT-AAATATATT
1 TTATTTTAAAATATATT
755142 TATTATAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 15 0.30
41 7 0.14
42 20 0.40
43 8 0.16
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (43 bp):
TTATTTTAAAATATATTAATTTAACCATTTAAAATATAATAAA
Found at i:755103 original size:19 final size:19
Alignment explanation
Indices: 755043--755103 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
755033 TTCTATTTTT
* * *
755043 TTATTTTTAACTATATTAT
1 TTATTTTAAAATATATTAA
**
755062 TTAATTATTAAAATATAAAAA
1 TT-ATT-TTAAAATATATTAA
755083 TTATTTTAAAATATATTAA
1 TTATTTTAAAATATATTAA
755102 TT
1 TT
755104 TAACCATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 16 0.48
20 6 0.18
21 11 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTATTTTAAAATATATTAA
Found at i:755148 original size:15 final size:15
Alignment explanation
Indices: 755128--755160 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
755118 ATAATAAATA
755128 ATTATAAATATAT-TT
1 ATTATAAA-ATATGTT
755143 ATTATAAAATATGTT
1 ATTATAAAATATGTT
755158 ATT
1 ATT
755161 TTAATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTATAAAATATGTT
Found at i:759609 original size:13 final size:13
Alignment explanation
Indices: 759591--759617 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
759581 ATTTTTTGTG
759591 TTTTTTCTTTATT
1 TTTTTTCTTTATT
759604 TTTTTTCTTTATT
1 TTTTTTCTTTATT
759617 T
1 T
759618 ACTTTTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCTTTATT
Found at i:760618 original size:106 final size:106
Alignment explanation
Indices: 760433--760630 Score: 333
Period size: 106 Copynumber: 1.9 Consensus size: 106
760423 TCACGGGATG
* *
760433 ACTCTACATGACTAGCTCGGGGGTAGAAGGTATTCTCCCTTTCACTTAGAGTGTGGGATGATAGT
1 ACTCTACATGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
* *
760498 GTGATTAGTTGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
66 GTGATGAGATGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
* *
760539 ACTCTACTTGACTAGCTCGGGGGTTGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
1 ACTCTACATGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
*
760604 GTGATGAGATGACTCCCCTTGAAGTAT
66 GTGATGAGATGACTCCCCTTAAAGTAT
760631 CAAAAGAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 85 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (106 bp):
ACTCTACATGACTAGCTCGGGGGTAGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
GTGATGAGATGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
Found at i:764955 original size:13 final size:13
Alignment explanation
Indices: 764939--764964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
764929 TTTGTGTGTG
764939 TTTTTCTTTATTT
1 TTTTTCTTTATTT
764952 TTTTTCTTTATTT
1 TTTTTCTTTATTT
764965 ACTTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTATTT
Found at i:765964 original size:106 final size:106
Alignment explanation
Indices: 765779--765976 Score: 351
Period size: 106 Copynumber: 1.9 Consensus size: 106
765769 TCACGAGATG
*
765779 ACTCTACATGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGGGATGATAGT
1 ACTCTACATGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
*
765844 GTGATGAGCTGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
66 GTGATGAGATGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
* *
765885 ACTCTACCTGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGGTAGT
1 ACTCTACATGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
*
765950 GTGATGAGATGACTCCCCTTGAAGTAT
66 GTGATGAGATGACTCCCCTTAAAGTAT
765977 CAAAAGAAAA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 87 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (106 bp):
ACTCTACATGACTAGCTCGGGGGTGGAAGGTATGCTCCCTTTCACTTAGAGTGTGAGATGATAGT
GTGATGAGATGACTCCCCTTAAAGTATGCTTAAGAAAAAAA
Found at i:772358 original size:2 final size:2
Alignment explanation
Indices: 772351--772411 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
772341 CATCCGCCAC
772351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
772392 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
772412 CACCAAAATA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:773558 original size:2 final size:2
Alignment explanation
Indices: 773551--773583 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
773541 AACTGTCAAC
773551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
773584 GAGGGTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:773692 original size:15 final size:14
Alignment explanation
Indices: 773672--773702 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
773662 TATTCTTTTG
773672 TTTTTCATTTTCATT
1 TTTTTCATTTTC-TT
773687 TTTTTCATTTTCTT
1 TTTTTCATTTTCTT
773701 TT
1 TT
773703 ATCGTTCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCATTTTCTT
Found at i:773697 original size:27 final size:28
Alignment explanation
Indices: 773649--773717 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
773639 ATTTATTCGC
*
773649 TCATTTT-ATTTGTTATTCTTTTGTTTT-
1 TCATTTTCATTT-TTATTCTTTTCTTTTA
773676 TCATTTTCATTTTT-TTCATTTTCTTTTA
1 TCATTTTCATTTTTATTC-TTTTCTTTTA
*
773704 TCGTTCTTCATTTT
1 TCATT-TTCATTTT
773718 CTCCTTATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 3 0.08
27 17 0.47
28 8 0.22
29 8 0.22
ACGTcount: A:0.12, C:0.13, G:0.04, T:0.71
Consensus pattern (28 bp):
TCATTTTCATTTTTATTCTTTTCTTTTA
Found at i:782148 original size:175 final size:176
Alignment explanation
Indices: 781811--782162 Score: 672
Period size: 174 Copynumber: 2.0 Consensus size: 176
781801 TATTTCTTCG
*
781811 GTGCTCAGGTAATCTCTTTTGAAGTGGCCCTTCTTGCCGCAATTATAACAGGTAAAATCTTTATT
1 GTGCTCAGGCAATCTCTTTTGAAGTGGCCCTTCTTGCCGCAATTATAACAGGTAAAATCTTTATT
781876 TCCTGTTCTTGATTTTCCCCTTCTGGATTTCGATCTGCCACGATTTGAATTTCTTTCTGAGTTCT
66 TCCTGTTCTTGATTTTCCCCTTCTGGATTTCGATCTGCCACGATTTGAATTTCTTTCTGAGTTCT
781941 CCCTCTAGACTCCGTGTGCAAGGCTGAGGAGGTTGATGCTTCACCC
131 CCCTCTAGACTCCGTGTGCAAGGCTGAGGAGGTTGATGCTTCACCC
781987 GTGCTC-GGCAATCTC-TTTGAAGTGGCCCTTCTTGCCGCAATTATAACAGGTAAAATCTTTATT
1 GTGCTCAGGCAATCTCTTTTGAAGTGGCCCTTCTTGCCGCAATTATAACAGGTAAAATCTTTATT
782050 TCCTGTTCTTGATTTTCCCCTTCTGGATTTCGATCTGCCACGATTTGAATTTCTTTCTGAAGTTC
66 TCCTGTTCTTGATTTTCCCCTTCTGGATTTCGATCTGCCACGATTTGAATTTCTTTCTG-AGTTC
782115 TCCCTCTAGACTCCGTGTGCAAGGCTGAGGAGGTTGATGCTTCACCC
130 TCCCTCTAGACTCCGTGTGCAAGGCTGAGGAGGTTGATGCTTCACCC
782162 G
1 G
782163 ATTCTCTCCG
Statistics
Matches: 174, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
174 107 0.61
175 61 0.35
176 6 0.03
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (176 bp):
GTGCTCAGGCAATCTCTTTTGAAGTGGCCCTTCTTGCCGCAATTATAACAGGTAAAATCTTTATT
TCCTGTTCTTGATTTTCCCCTTCTGGATTTCGATCTGCCACGATTTGAATTTCTTTCTGAGTTCT
CCCTCTAGACTCCGTGTGCAAGGCTGAGGAGGTTGATGCTTCACCC
Found at i:786591 original size:23 final size:23
Alignment explanation
Indices: 786557--786622 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 23
786547 AACATAAAAT
786557 ATTATA-ATTTTTTAATTTTTTAA
1 ATTATATA-TTTTTAATTTTTTAA
*
786580 ATTATATA-TTTT-ATTAATCTTAA
1 ATTATATATTTTTAATT--TTTTAA
*
786603 ATTATATTTTTATTAATTTT
1 ATTATATATTT-TTAATTTT
786623 AAATTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
21 3 0.09
22 4 0.12
23 18 0.53
24 4 0.12
25 2 0.06
26 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTATATATTTTTAATTTTTTAA
Found at i:786613 original size:22 final size:23
Alignment explanation
Indices: 786576--786628 Score: 90
Period size: 22 Copynumber: 2.3 Consensus size: 23
786566 TTTTAATTTT
786576 TTAAATTATATATTTTATTAATC
1 TTAAATTATATATTTTATTAATC
*
786599 TTAAATTATAT-TTTTATTAATT
1 TTAAATTATATATTTTATTAATC
786621 TTAAATTA
1 TTAAATTA
786629 AATTATCGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAAATTATATATTTTATTAATC
Found at i:786731 original size:17 final size:17
Alignment explanation
Indices: 786709--786744 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
786699 TGGATGATAG
786709 TAATGATTGGTGGAGAA
1 TAATGATTGGTGGAGAA
786726 TAATGATTGGTGGAGAA
1 TAATGATTGGTGGAGAA
786743 TA
1 TA
786745 GAGATAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (17 bp):
TAATGATTGGTGGAGAA
Found at i:797398 original size:6 final size:7
Alignment explanation
Indices: 797382--797409 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
797372 GGCAGAAGGC
797382 AAAAAGA
1 AAAAAGA
797389 AAAAAGA
1 AAAAAGA
797396 AAAAAGA
1 AAAAAGA
797403 AAAAAGA
1 AAAAAGA
797410 TCAAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:803756 original size:311 final size:311
Alignment explanation
Indices: 803193--803803 Score: 1186
Period size: 311 Copynumber: 2.0 Consensus size: 311
803183 TTCAACTTGC
803193 GTTGTCCCTTGGTATGCTTTAAAGCTTCATGGTCTGTATGAATAACAAATTCTATTGGCAAAAGG
1 GTTGTCCCTTGGTATGCTTTAAAGCTTCATGGTCTGTATGAATAACAAATTCTATTGGCAAAAGG
* *
803258 TAATGTTGCCAAACTTTAAGTGCCCTGATGAGAGAATACATATTTTTGTCATAAGTTGGGTAGTT
66 TAATGTTGCCAAACTTCAAGTGCCCTGATCAGAGAATACATATTTTTGTCATAAGTTGGGTAGTT
*
803323 TAGTGAAGCACCACTTAGTTTTTCACTAAAGTATGCAATGAGTCGTTCTTCTTGAGTTAGAACTG
131 TAGTGAAGCACCACTTAGTTTTTCACTAAAGTATGCAATGAGTCGCTCTTCTTGAGTTAGAACTG
803388 CTCCAATCCCTATTTCGGATGCATCACATTCCACTTCAAAAGTCTTATCAAAGTTAGGTAATACA
196 CTCCAATCCCTATTTCGGATGCATCACATTCCACTTCAAAAGTCTTATCAAAGTTAGGTAATACA
803453 AGTAAAGGTGACTTTGTCAAACACTCATTCATTTCTTTGAGAAAAGGTAAT
261 AGTAAAGGTGACTTTGTCAAACACTCATTCATTTCTTTGAGAAAAGGTAAT
*
803504 GTTGTCCCTTGGTATGCTTTAAAGCTTCATGGTCTGTATGAATAACAAATTCTTTTGGCAAAAGG
1 GTTGTCCCTTGGTATGCTTTAAAGCTTCATGGTCTGTATGAATAACAAATTCTATTGGCAAAAGG
803569 TAATGTTGCCAAACTTCAAGTGCCCTGATCAGAGAATACATATTTTTGTCATAAGTTGGGTAGTT
66 TAATGTTGCCAAACTTCAAGTGCCCTGATCAGAGAATACATATTTTTGTCATAAGTTGGGTAGTT
803634 TAGTGAAGCACCACTTAGTTTTTCACTAAAGTATGCAATGAGTCGCTCTTCTTGAGTTAGAACTG
131 TAGTGAAGCACCACTTAGTTTTTCACTAAAGTATGCAATGAGTCGCTCTTCTTGAGTTAGAACTG
803699 CTCCAATCCCTATTTCGGATGCATCACATTCCACTTCAAAAGTCTTATCAAAGTTAGGTAATACA
196 CTCCAATCCCTATTTCGGATGCATCACATTCCACTTCAAAAGTCTTATCAAAGTTAGGTAATACA
803764 AGTAAAGGTGACTTTGTCAAACACTCATTCATTTCTTTGA
261 AGTAAAGGTGACTTTGTCAAACACTCATTCATTTCTTTGA
803804 AGGCATCTTC
Statistics
Matches: 296, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
311 296 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (311 bp):
GTTGTCCCTTGGTATGCTTTAAAGCTTCATGGTCTGTATGAATAACAAATTCTATTGGCAAAAGG
TAATGTTGCCAAACTTCAAGTGCCCTGATCAGAGAATACATATTTTTGTCATAAGTTGGGTAGTT
TAGTGAAGCACCACTTAGTTTTTCACTAAAGTATGCAATGAGTCGCTCTTCTTGAGTTAGAACTG
CTCCAATCCCTATTTCGGATGCATCACATTCCACTTCAAAAGTCTTATCAAAGTTAGGTAATACA
AGTAAAGGTGACTTTGTCAAACACTCATTCATTTCTTTGAGAAAAGGTAAT
Found at i:808781 original size:23 final size:25
Alignment explanation
Indices: 808754--808807 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
808744 CGTTATGTTT
808754 AATTTTG-TTGGACATTA-AACTTA
1 AATTTTGTTTGGACATTAGAACTTA
*
808777 AATTTTGTTTGGACATTAGAACTTG
1 AATTTTGTTTGGACATTAGAACTTA
808802 AATTTT
1 AATTTT
808808 AAATTTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 7 0.25
24 10 0.36
25 11 0.39
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.46
Consensus pattern (25 bp):
AATTTTGTTTGGACATTAGAACTTA
Found at i:810858 original size:15 final size:15
Alignment explanation
Indices: 810828--810876 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
810818 ATCATAATTT
* *
810828 GGATATATGATATTC
1 GGATATGTGTTATTC
810843 -GAGTATGTGTTATTC
1 GGA-TATGTGTTATTC
810858 GGATATGTGTTATTC
1 GGATATGTGTTATTC
810873 GGAT
1 GGAT
810877 CGGATCAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 2 0.07
15 26 0.87
16 2 0.07
ACGTcount: A:0.24, C:0.06, G:0.27, T:0.43
Consensus pattern (15 bp):
GGATATGTGTTATTC
Found at i:815942 original size:12 final size:12
Alignment explanation
Indices: 815920--815959 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 12
815910 CACCAAAATT
815920 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
815933 AAAAAAAAAAAG
1 AAAAAAAAAAAG
815945 AAAACAAAAATAAG
1 AAAA-AAAAA-AAG
815959 A
1 A
815960 TCGAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 11 0.44
14 4 0.16
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:822130 original size:32 final size:32
Alignment explanation
Indices: 822089--822240 Score: 178
Period size: 32 Copynumber: 4.8 Consensus size: 32
822079 CTCCCGTCCA
*
822089 TTATCTGAATACAACACTGACTCTGATGTGCT
1 TTATCTGAATGCAACACTGACTCTGATGTGCT
* *
822121 TTATTTGAATGCAACACTTACTCTGATGTGCT
1 TTATCTGAATGCAACACTGACTCTGATGTGCT
* * * *
822153 TTATCTGAATGCAACACTGACTGTGCTCTGCA
1 TTATCTGAATGCAACACTGACTCTGATGTGCT
* ** * *
822185 TTATCTAAATGCAACACTGACTCTTCTATGCA
1 TTATCTGAATGCAACACTGACTCTGATGTGCT
* *
822217 TTATCTGAATGCAATACTAACTCT
1 TTATCTGAATGCAACACTGACTCT
822241 ACTTATCATT
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 104 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (32 bp):
TTATCTGAATGCAACACTGACTCTGATGTGCT
Found at i:822169 original size:64 final size:64
Alignment explanation
Indices: 822087--822268 Score: 197
Period size: 64 Copynumber: 2.8 Consensus size: 64
822077 CACTCCCGTC
* * * * * * *
822087 CATTATCTGAATACAACACTGACTCTGATGTGCTTTATTTGAATGCAACACTTACTCTGATGTG
1 CATTATCTGAATGCAACACTGACTCTGATCTGCATTATCTAAATGCAACACTGACTCTGATATG
* * * **
822151 CTTTATCTGAATGCAACACTGACTGTGCTCTGCATTATCTAAATGCAACACTGACTCTTCTATG
1 CATTATCTGAATGCAACACTGACTCTGATCTGCATTATCTAAATGCAACACTGACTCTGATATG
* * *
822215 CATTATCTGAATGCAATACTAACTCT-A-CTTATCATTATCTAAATGCAACACTGA
1 CATTATCTGAATGCAACACTGACTCTGATC-T-GCATTATCTAAATGCAACACTGA
822269 TACTACTATA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 96 0.98
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (64 bp):
CATTATCTGAATGCAACACTGACTCTGATCTGCATTATCTAAATGCAACACTGACTCTGATATG
Found at i:822253 original size:96 final size:96
Alignment explanation
Indices: 822087--822268 Score: 224
Period size: 96 Copynumber: 1.9 Consensus size: 96
822077 CACTCCCGTC
* * * * *
822087 CATTATCTGAATACAACACTGACTCTGATGTGCTTTATTTGAATGCAACACTTACTCTGATGTGC
1 CATTATCTAAATACAACACTGACTCTGATATGCATTATCTGAATGCAACACTAACTCTGATGTGC
* *
822152 TTTATCTGAATGCAACACTGACTGTGCTCTG
66 ATTATCTAAATGCAACACTGACTGTGCTCTG
* ** *
822183 CATTATCTAAATGCAACACTGACTCTTCTATGCATTATCTGAATGCAATACTAACTCT-ACT-TA
1 CATTATCTAAATACAACACTGACTCTGATATGCATTATCTGAATGCAACACTAACTCTGA-TGT-
*
822246 TCATTATCTAAATGCAACACTGA
64 GCATTATCTAAATGCAACACTGA
822269 TACTACTATA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
95 2 0.03
96 70 0.97
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (96 bp):
CATTATCTAAATACAACACTGACTCTGATATGCATTATCTGAATGCAACACTAACTCTGATGTGC
ATTATCTAAATGCAACACTGACTGTGCTCTG
Found at i:822275 original size:32 final size:33
Alignment explanation
Indices: 822087--822268 Score: 144
Period size: 32 Copynumber: 5.7 Consensus size: 33
822077 CACTCCCGTC
* * *
822087 CATTATCTGAATACAACACTGACTCTGA--TGTG
1 CATTATCTAAATGCAACACTGACTCT-ACTTATG
* * * * *
822119 CTTTATTTGAATGCAACACTTACTCTGA--TGTG
1 CATTATCTAAATGCAACACTGACTCT-ACTTATG
* * * * *
822151 CTTTATCTGAATGCAACACTGACTGTGC-TCTG
1 CATTATCTAAATGCAACACTGACTCTACTTATG
*
822183 CATTATCTAAATGCAACACTGACTCTTC-TATG
1 CATTATCTAAATGCAACACTGACTCTACTTATG
* * *
822215 CATTATCTGAATGCAATACTAACTCTACTTAT-
1 CATTATCTAAATGCAACACTGACTCTACTTATG
822247 CATTATCTAAATGCAACACTGA
1 CATTATCTAAATGCAACACTGA
822269 TACTACTATA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
32 124 0.98
33 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.35
Consensus pattern (33 bp):
CATTATCTAAATGCAACACTGACTCTACTTATG
Found at i:823301 original size:21 final size:21
Alignment explanation
Indices: 823277--823372 Score: 138
Period size: 21 Copynumber: 4.6 Consensus size: 21
823267 CAAGGTGGGT
*
823277 AGTATCGATACCCTAGGGTCA
1 AGTATCGATACCATAGGGTCA
*
823298 AGTATTGATACCATAGGGTCA
1 AGTATCGATACCATAGGGTCA
* *
823319 AGTATCGACATCATAGGGTCA
1 AGTATCGATACCATAGGGTCA
* *
823340 AGTATCAATACTATAGGGTCA
1 AGTATCGATACCATAGGGTCA
823361 AGTATCGATACC
1 AGTATCGATACC
823373 CCTATGAGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (21 bp):
AGTATCGATACCATAGGGTCA
Found at i:824807 original size:15 final size:15
Alignment explanation
Indices: 824770--824829 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
824760 ATTTTAGCCA
* *
824770 AACCAAAAGTAACCC
1 AACCGAAAGTAACCG
* *
824785 AACAGAAAGCAACCG
1 AACCGAAAGTAACCG
*
824800 AACCGAAAATAACCTG
1 AACCGAAAGTAACC-G
824816 AACCGAAAGTAACC
1 AACCGAAAGTAACC
824830 CAAATTTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
15 22 0.61
16 14 0.39
ACGTcount: A:0.52, C:0.28, G:0.13, T:0.07
Consensus pattern (15 bp):
AACCGAAAGTAACCG
Found at i:825385 original size:60 final size:60
Alignment explanation
Indices: 825317--825476 Score: 180
Period size: 60 Copynumber: 2.7 Consensus size: 60
825307 TGGAAGATCT
* * * *
825317 AAAAGTTTACA-AACCAATTTAGAATGAGATTCATATTTTATGGATGAAATTCG-AATGTTC
1 AAAAGTTTA-AGAACCAATTTAGAATGAGAGTCATAATTTAAGGATGAAATT-GAAATATTC
* * *
825377 AAAAGTTTAAGGACGAATTTAGAATGAGAGTCATAATTTAAGGATGAAATTGAAATATTT
1 AAAAGTTTAAGAACCAATTTAGAATGAGAGTCATAATTTAAGGATGAAATTGAAATATTC
* * * * *
825437 AAAAGTTTAAGGACTAATTTAAAATGAGAGTAATAGTTTA
1 AAAAGTTTAAGAACCAATTTAGAATGAGAGTCATAATTTA
825477 GAGACATATG
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.02
60 85 0.98
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGAACCAATTTAGAATGAGAGTCATAATTTAAGGATGAAATTGAAATATTC
Found at i:825548 original size:22 final size:21
Alignment explanation
Indices: 825522--825565 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
825512 TTTACTTTGG
*
825522 AACTACTAAAATAACTTTTCAA
1 AACTACTAAAATAA-TTTACAA
*
825544 AACTATTAAAATAATTTACAA
1 AACTACTAAAATAATTTACAA
825565 A
1 A
825566 TTGGTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.32
Consensus pattern (21 bp):
AACTACTAAAATAATTTACAA
Found at i:825664 original size:24 final size:23
Alignment explanation
Indices: 825611--825680 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 23
825601 ATTTAAATTT
* *
825611 AATATAAAAATAACTTAGTTTTAT
1 AATAT-AAAATAACTTATTTTTAC
*
825635 ACTATACAAATAACTTATTTTTAC
1 AATATA-AAATAACTTATTTTTAC
*
825659 AATATAAAGATATC-TATTTTTA
1 AATATAAA-ATAACTTATTTTTA
825681 TTTATAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 11 0.28
24 28 0.72
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.43
Consensus pattern (23 bp):
AATATAAAATAACTTATTTTTAC
Found at i:828596 original size:15 final size:15
Alignment explanation
Indices: 828565--828606 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
828555 CGATGATATA
*
828565 TATATATATAGTATTT
1 TATATAT-TAATATTT
*
828581 TATATTTTAATATTT
1 TATATATTAATATTT
828596 TATATATTAAT
1 TATATATTAAT
828607 TATATATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TATATATTAATATTT
Found at i:833176 original size:22 final size:20
Alignment explanation
Indices: 833151--833191 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
833141 ATAGTTCATT
833151 TTTAAAATTATAATTTTTTTAA
1 TTTAAAA-T-TAATTTTTTTAA
*
833173 TTTATAATTAATTTTTTTA
1 TTTAAAATTAATTTTTTTA
833192 TTTCATTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAAAATTAATTTTTTTAA
Found at i:833353 original size:20 final size:19
Alignment explanation
Indices: 833328--833367 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
833318 TAATATTAAA
833328 TATAATTTTAAAAATATATT
1 TATAATTTTAAAAATA-ATT
833348 TATAATTTTAAAAATAATT
1 TATAATTTTAAAAATAATT
833367 T
1 T
833368 TTGAAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATTTTAAAAATAATT
Found at i:834572 original size:4 final size:4
Alignment explanation
Indices: 834558--834586 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
834548 GCATTTCATG
834558 TTGT TTG- TTGT TTGT TTGT TTGT TTGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
834587 TTTTACCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TTGT
Found at i:836975 original size:43 final size:43
Alignment explanation
Indices: 836913--837044 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 43
836903 AGTATGCTTG
* *
836913 AAAAACTAGGGACCTCAATTATAAAAGTAAAATGTGAGATT-AA
1 AAAAATTAGGGGCCTCAATTATAAAAGTAAAA-GTGAGATTGAA
* * *
836956 AATAATTAGGGGCCTCAATTTTAAAGGTAAAAAGTGAGATTGAA
1 AAAAATTAGGGGCCTCAATTATAAAAGT-AAAAGTGAGATTGAA
* * * *
837000 AAAAATCATGAG-CTCAATTATAAAAGTACAAAGTGGGATTGAA
1 AAAAATTAGGGGCCTCAATTATAAAAGTA-AAAGTGAGATTGAA
837043 AA
1 AA
837045 CTTAGGATCA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.01
43 59 0.80
44 14 0.19
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (43 bp):
AAAAATTAGGGGCCTCAATTATAAAAGTAAAAGTGAGATTGAA
Found at i:837909 original size:17 final size:18
Alignment explanation
Indices: 837886--837925 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
837876 AACCCTAAAT
837886 GAGTTTTGGGCCTGGCTC
1 GAGTTTTGGGCCTGGCTC
837904 -AGTTTTGGGCCTGGCTC
1 GAGTTTTGGGCCTGGCTC
837921 GAGTT
1 GAGTT
837926 GAACTTGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.07, C:0.20, G:0.38, T:0.35
Consensus pattern (18 bp):
GAGTTTTGGGCCTGGCTC
Found at i:837998 original size:3 final size:3
Alignment explanation
Indices: 837992--838044 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
837982 GTATTATTTG
*
837992 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
838039 TCAA TA
1 T-AA TA
838045 CGTAAAGTCG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 41 0.89
4 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:848889 original size:14 final size:15
Alignment explanation
Indices: 848862--848890 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
848852 TTTGATTCAC
848862 GAATACGAGGGGTTT
1 GAATACGAGGGGTTT
848877 GAATACG-GGGGTTT
1 GAATACGAGGGGTTT
848891 AAAAAATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.07, G:0.41, T:0.28
Consensus pattern (15 bp):
GAATACGAGGGGTTT
Found at i:852774 original size:143 final size:143
Alignment explanation
Indices: 852499--852759 Score: 400
Period size: 143 Copynumber: 1.8 Consensus size: 143
852489 AACTTGAACT
* *
852499 ACATGCTCCTAAACCATAGTAGAATACATATGTACTTTCAATTTCTCTTTTTGATAACAATTGTT
1 ACATGCTCCTAAACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAACAAATGTT
* * ** *
852564 TTTATTTTTCTATTTAGTCCATCAATTTTTCATAATCTTCTTATTTCTTCAATTCATCATTTATT
66 TATATTTTTCTATTTAGTACATCAATTTTTCATAATCTAATTATTCCTTCAATTCATCATTTATT
852629 TAATTATGGGTTC
131 TAATTATGGGTTC
* * *
852642 ACATTCTCCTAAACCATAGTATAATACATGTGTACTTTCAATTCCTCTTTTTGATAACAAAT-TT
1 ACATGCTCCTAAACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAACAAATGTT
*
852706 TATATTTTT-TAATTTAGTACTTCAATTTTTCATAATCTAATTATTCCTTCAATT
66 TATATTTTTCT-ATTTAGTACATCAATTTTTCATAATCTAATTATTCCTTCAATT
852760 TGTGATTTAT
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
141 1 0.01
142 48 0.45
143 57 0.54
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (143 bp):
ACATGCTCCTAAACCATAGTAGAATACATATGTACTTTCAATTCCTCTTTTTGATAACAAATGTT
TATATTTTTCTATTTAGTACATCAATTTTTCATAATCTAATTATTCCTTCAATTCATCATTTATT
TAATTATGGGTTC
Found at i:858566 original size:17 final size:17
Alignment explanation
Indices: 858546--858579 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
858536 TGCAACATGG
858546 AAATAGATGCAGTTGGT
1 AAATAGATGCAGTTGGT
858563 AAATAGATGCAGTTGGT
1 AAATAGATGCAGTTGGT
858580 GAGGCATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (17 bp):
AAATAGATGCAGTTGGT
Found at i:874964 original size:18 final size:18
Alignment explanation
Indices: 874941--874983 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
874931 GGGTTGGTTT
874941 TTCTATGGTGAGAAATTA
1 TTCTATGGTGAGAAATTA
874959 TTCTATGGTGAGAAATTA
1 TTCTATGGTGAGAAATTA
874977 TTCTATG
1 TTCTATG
874984 CCTAGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (18 bp):
TTCTATGGTGAGAAATTA
Found at i:877094 original size:15 final size:15
Alignment explanation
Indices: 877074--877115 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
877064 ATCTCATATT
877074 TTTTTTCCTTTTTCC
1 TTTTTTCCTTTTTCC
**
877089 TTTTTTATTTTTTCC
1 TTTTTTCCTTTTTCC
*
877104 -TCTTTCCTTTTT
1 TTTTTTCCTTTTT
877116 GATTTATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTCCTTTTTCC
Found at i:877102 original size:22 final size:22
Alignment explanation
Indices: 877074--877120 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
877064 ATCTCATATT
* *
877074 TTTTTTCCTTTTTCCTTTTTTA
1 TTTTTTCCTCTTTCCTTTTTGA
877096 TTTTTTCCTCTTTCCTTTTTGA
1 TTTTTTCCTCTTTCCTTTTTGA
877118 TTT
1 TTT
877121 ATTATTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTCCTCTTTCCTTTTTGA
Found at i:880267 original size:13 final size:13
Alignment explanation
Indices: 880249--880287 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
880239 TAATTAAAGC
880249 AAAAAGAGAAAAT
1 AAAAAGAGAAAAT
*
880262 AAAAAGAGAAAAA
1 AAAAAGAGAAAAT
880275 AACAAAG-GAAAAT
1 AA-AAAGAGAAAAT
880288 TGAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (13 bp):
AAAAAGAGAAAAT
Found at i:880477 original size:69 final size:69
Alignment explanation
Indices: 880359--880496 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
880349 GATTCAAACT
* *
880359 ATGAAATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAAAGCA
1 ATGAAATTGATCAAGAACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAAAGCA
880424 TCAA
66 TCAA
* * * * * **
880428 ATGAGATTGATCAAGAACAATCATTTCTGAATTATTGAATCACTCCACTCGAAGATCATGGAGCA
1 ATGAAATTGATCAAGAACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAAAGCA
880493 TCAA
66 TCAA
880497 GAGAGAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAAATTGATCAAGAACAATCATTTCCGAATCACTGAACCACTCCACTCGAAGATCATAAAGCA
TCAA
Found at i:881477 original size:32 final size:32
Alignment explanation
Indices: 881405--881516 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 32
881395 TGAGGGCATC
881405 TTTGAAGATTCAACATCAAATGTTGGGGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
*
881438 TTT-AGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * *
881469 TTTGAGATTCAACATCGAATATTGGGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
881500 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
881517 CTGATGCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
31 36 0.51
32 32 0.45
33 3 0.04
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:882216 original size:106 final size:106
Alignment explanation
Indices: 882094--882416 Score: 427
Period size: 106 Copynumber: 3.0 Consensus size: 106
882084 ATATCGTGCC
* *
882094 ACTCGAGATAACACAAGTTCAAC-TCAACAACAAAGGGACGACTGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACACAAGTTCAACTTC-ACAACAAAGGGACGACTGGTTGTCAACAAACAATTTCT
* *
882158 CAATTTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
* **
882200 ACTCGAGACAACACAAGTTCAACTTCACAACGAAA-GAACGGTTGGTTGTCAACAAACAATTTCT
1 ACTCGAGACAACACAAGTTCAACTTCACAAC-AAAGGGACGACTGGTTGTCAACAAACAATTTCT
*
882264 CAATTTCAGAGCAAATTTTAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
* * *** * * *
882306 ACTTGAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGACTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGACTGGTTGTCAACAAACAATTTCTC
* * *
882371 AGTTCCAGAGCCAATTTTAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTTAACTTCACAG-CGAAGGATATTGG
882412 ACTCG
1 ACTCG
882417 GAACAATACA
Statistics
Matches: 189, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
105 3 0.02
106 181 0.96
107 5 0.03
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGACTGGTTGTCAACAAACAATTTCTC
AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
Found at i:882760 original size:22 final size:23
Alignment explanation
Indices: 882732--882789 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
882722 GATTGAGATA
*
882732 GTTTCCCTTAAAACG-AAATTTT
1 GTTTCCCTTGAAACGAAAATTTT
882754 GTTTCCCTTGAAA-GAAAATTTT
1 GTTTCCCTTGAAACGAAAATTTT
*
882776 GTCTCCCTTGAAAC
1 GTTTCCCTTGAAAC
882790 ATAAACATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (23 bp):
GTTTCCCTTGAAACGAAAATTTT
Found at i:882866 original size:74 final size:74
Alignment explanation
Indices: 882780--882927 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
882770 AATTTTGTCT
*
882780 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTT
1 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTT
882845 CCCTTGAAA
66 CCCTTGAAA
* * *
882854 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTT
1 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTT
882919 CCCTTGAAA
66 CCCTTGAAA
882928 TAAAATTTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (74 bp):
CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTT
CCCTTGAAA
Found at i:882877 original size:183 final size:176
Alignment explanation
Indices: 882673--883029 Score: 498
Period size: 183 Copynumber: 2.0 Consensus size: 176
882663 GACAGTTTCT
*
882673 CTTGAAACATAAACATTGAAAACATTTCCCTGGAAATGAATTTTATCTCGATTGAGATAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTGGAAATAAATTTTATCTCGATTGAGATAGTTTCC
* * *
882738 CTTAAAACGAAATTTTGTTTCCCTTGAAAGAAAATTTTGTCTCCCTTGAAACATAAACATTGAAA
66 CTTAAAACAAAATTTTGTCTCCCTTG--AG-AAA-GTT-TCT--CTTGAAACATAAACATTGAAA
*
882803 ACATTTCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCTTGAAACC
124 ACATTTCCCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCCCTTGAAACC
* * * *
882856 CTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCC
1 CTTGAAACATAAACATTGAAAACATTTCCCTGGAAATAAATTTTATCTCGATTGAGATAGTTTCC
* * *
882921 CTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTC
66 CTTAAAACAAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAAACATAAACATTGAAAACATTTC
* * * **
882986 CTTTGAAATTAATTTTGTCTCTCTTAAGATAGTTTCCCTTGAAA
131 CCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCCCTTGAAA
883030 TAAAATTTTG
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
176 66 0.42
178 3 0.02
179 2 0.01
180 2 0.01
181 2 0.01
183 82 0.52
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (176 bp):
CTTGAAACATAAACATTGAAAACATTTCCCTGGAAATAAATTTTATCTCGATTGAGATAGTTTCC
CTTAAAACAAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAAACATAAACATTGAAAACATTTC
CCTTGAAATGAATTTTATCTCGATTAAGATAGTTTCCCTTGAAACC
Found at i:882955 original size:37 final size:37
Alignment explanation
Indices: 882880--883066 Score: 121
Period size: 37 Copynumber: 5.3 Consensus size: 37
882870 ATTGAAAACA
* * * **
882880 TTTCCCTTGAAAT-AAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
882916 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
* * * *
882953 TTTCTCTTGAAACATAAA---------CATTGAAAACA-
1 TTTCCCTTGAAATA-AAATTTTGTCTCCCTTG-AGACAG
* * * * *
882982 TTTCCTTTGAAAT-TAATTTTGTCTCTCTTAAGATAG
1 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
*
883018 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGA-AAACG
1 TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACA-G
883055 TTTCCCTTGAAA
1 TTTCCCTTGAAA
883067 ATGTTTCCCT
Statistics
Matches: 113, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
27 2 0.02
29 14 0.12
30 4 0.04
35 3 0.03
36 29 0.26
37 58 0.51
38 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAG
Found at i:883062 original size:15 final size:15
Alignment explanation
Indices: 883042--883081 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
883032 AAATTTTGTC
883042 TCCCTTGAAAACGTT
1 TCCCTTGAAAACGTT
*
883057 TCCCTTGAAAATGTT
1 TCCCTTGAAAACGTT
883072 TCCCTTGAAA
1 TCCCTTGAAA
883082 CACAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (15 bp):
TCCCTTGAAAACGTT
Found at i:883083 original size:102 final size:102
Alignment explanation
Indices: 882854--883066 Score: 329
Period size: 102 Copynumber: 2.1 Consensus size: 102
882844 TCCCTTGAAA
** *
882854 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTT
1 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTAAGATAGTTT
*
882919 CCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTT
66 CCCTTGAAATAAAATTTTGTCTCCCTTGAAACAGTTT
* * * * *
882956 CTCTTGAAACATAAACATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTAAGATAGTTT
1 CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTAAGATAGTTT
883021 CCCTTGAAATAAAATTTTGTCTCCCTTGAAA-ACGTTT
66 CCCTTGAAATAAAATTTTGTCTCCCTTGAAACA-GTTT
883058 CCCTTGAAA
1 CCCTTGAAA
883067 ATGTTTCCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 99 0.99
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
CCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTAAGATAGTTT
CCCTTGAAATAAAATTTTGTCTCCCTTGAAACAGTTT
Found at i:883197 original size:36 final size:36
Alignment explanation
Indices: 883119--883221 Score: 161
Period size: 36 Copynumber: 2.8 Consensus size: 36
883109 AAAACGAGTT
*
883119 TTGAGATAGTTTCCCTTGAAACAGAATCTTGTCTCTC
1 TTGAGATAGTTTCCCTTGAAACA-AATCTTATCTCTC
* *
883156 TTGAGACAGTTTCCCTTGAAACAAATTTTATCTCTC
1 TTGAGATAGTTTCCCTTGAAACAAATCTTATCTCTC
883192 TTGAGATAGTTTCCCTTGAAACAAAATCTT
1 TTGAGATAGTTTCCCTTGAAAC-AAATCTT
883222 TGAATATCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 32 0.53
37 28 0.47
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGAGATAGTTTCCCTTGAAACAAATCTTATCTCTC
Found at i:883297 original size:37 final size:36
Alignment explanation
Indices: 883236--883348 Score: 138
Period size: 36 Copynumber: 3.1 Consensus size: 36
883226 TATCTTTTCC
* * *
883236 TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTT
1 TTGACACAAATTTTGTCTCTCTTGAGACAGTTTCTT
*
883272 TTAGA-ACTAAGTTTTGTCTCTCTTGAGACAGTTTCTT
1 TT-GACAC-AAATTTTGTCTCTCTTGAGACAGTTTCTT
* * *
883309 TTGACACAAATTTTGTCCCTCTTGAGATAGTTTCTC
1 TTGACACAAATTTTGTCTCTCTTGAGACAGTTTCTT
883345 TTGA
1 TTGA
883349 AATACAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
36 35 0.52
37 32 0.48
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.42
Consensus pattern (36 bp):
TTGACACAAATTTTGTCTCTCTTGAGACAGTTTCTT
Found at i:883379 original size:35 final size:39
Alignment explanation
Indices: 883338--883424 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
883328 TCTTGAGATA
*
883338 GTTTCTCTTGAAATACA-A-A-AAAAAACC-TCGAAATT
1 GTTTCTCTTGAAATACACACACAAAAAACCTTCGAAAAT
*
883373 GTTTCTCTTGAAATACACACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAATACACACACAAAAAACCTTCGAAAAT
883412 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
883425 CACCAAACCC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
35 17 0.37
36 1 0.02
37 1 0.02
38 8 0.17
39 19 0.41
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.31
Consensus pattern (39 bp):
GTTTCTCTTGAAATACACACACAAAAAACCTTCGAAAAT
Found at i:884696 original size:17 final size:18
Alignment explanation
Indices: 884676--884712 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
884666 AATATTTAAT
*
884676 TTTTTTATT-TAATTTTA
1 TTTTTTATTCCAATTTTA
884693 -TTTTTATTCCAATTTTA
1 TTTTTTATTCCAATTTTA
884710 TTT
1 TTT
884713 GTGTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.47
17 7 0.41
18 2 0.12
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTATTCCAATTTTA
Found at i:886579 original size:20 final size:19
Alignment explanation
Indices: 886548--886585 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
886538 CCTCTTCTTT
*
886548 TTCTTTTTCTTCTTCTTCC
1 TTCTTTTTCTTCATCTTCC
886567 TTCTTTATTCTTCATCTTC
1 TTCTTT-TTCTTCATCTTC
886586 AAACCAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (19 bp):
TTCTTTTTCTTCATCTTCC
Found at i:888903 original size:18 final size:18
Alignment explanation
Indices: 888880--888918 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
888870 ACTGAATATT
* *
888880 TGTCCCGAATGACCATTA
1 TGTCCCGAAAGACCACTA
888898 TGTCCCGAAAGACCACTA
1 TGTCCCGAAAGACCACTA
888916 TGT
1 TGT
888919 TCCAAAGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (18 bp):
TGTCCCGAAAGACCACTA
Found at i:898211 original size:8 final size:8
Alignment explanation
Indices: 898198--898222 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
898188 GATAGCGAGG
898198 AGTTCCTC
1 AGTTCCTC
898206 AGTTCCTC
1 AGTTCCTC
898214 AGTTCCTC
1 AGTTCCTC
898222 A
1 A
898223 TCCTTCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.16, C:0.36, G:0.12, T:0.36
Consensus pattern (8 bp):
AGTTCCTC
Found at i:911110 original size:23 final size:23
Alignment explanation
Indices: 911079--911172 Score: 71
Period size: 23 Copynumber: 4.1 Consensus size: 23
911069 TCGAAGGTTA
* * *
911079 TACGCGGTCTTTTGGGATAATTC
1 TACGCGGTCCTTCGGGACAATTC
* * *
911102 TACGTGGTCCTTCGGTACATTTC
1 TACGCGGTCCTTCGGGACAATTC
* *
911125 TACGCGGTCCTTCGAGACAATAC
1 TACGCGGTCCTTCGGGACAATTC
* * * * *
911148 TATGTGGTCTTTTGGGACATTTC
1 TACGCGGTCCTTCGGGACAATTC
911171 TA
1 TA
911173 TGTGACGCTT
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.37
Consensus pattern (23 bp):
TACGCGGTCCTTCGGGACAATTC
Found at i:911176 original size:23 final size:23
Alignment explanation
Indices: 911092--911172 Score: 72
Period size: 23 Copynumber: 3.5 Consensus size: 23
911082 GCGGTCTTTT
*
911092 GGGATAATTCTACGTGGTCCTTC
1 GGGACAATTCTACGTGGTCCTTC
* * *
911115 GGTACATTTCTACGCGGTCCTTC
1 GGGACAATTCTACGTGGTCCTTC
* * * * *
911138 GAGACAATACTATGTGGTCTTTT
1 GGGACAATTCTACGTGGTCCTTC
*
911161 GGGACATTTCTA
1 GGGACAATTCTA
911173 TGTGACGCTT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (23 bp):
GGGACAATTCTACGTGGTCCTTC
Found at i:917042 original size:24 final size:25
Alignment explanation
Indices: 917015--917076 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
917005 TAAATCCATA
917015 TATATTAACTTAAAGAAATAT-TTT
1 TATATTAACTTAAAGAAATATATTT
* **
917039 TATATTGACTT-ATTAAATATATTT
1 TATATTAACTTAAAGAAATATATTT
*
917063 TATTATTAGCTTAA
1 TA-TATTAACTTAA
917077 TTTAAAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 7 0.23
24 15 0.50
25 7 0.23
26 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (25 bp):
TATATTAACTTAAAGAAATATATTT
Found at i:918428 original size:22 final size:22
Alignment explanation
Indices: 918392--918440 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
918382 TTAAAAGTTA
*
918392 AAAAATAAAAAATATTTTTTATT
1 AAAAATAAAAAATATTATTT-TT
*
918415 AAAAAT-AAATATATTATTTTT
1 AAAAATAAAAAATATTATTTTT
918436 AAAAA
1 AAAAA
918441 AACACTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 11 0.46
23 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATAAAAAATATTATTTTT
Found at i:923866 original size:788 final size:788
Alignment explanation
Indices: 922350--923919 Score: 2962
Period size: 788 Copynumber: 2.0 Consensus size: 788
922340 AAGGTGGCAA
922350 GGGCTTGATCCACTTTTGGTGTATATTCATGAGCCGACGGTCAATAGGGAGGATTTGACGGTGGC
1 GGGCTTGATCCACTTTTGGTGTATATTCATGAGCCGACGGTCAATAGGGAGGATTTGACGGTGGC
922415 AAGGGATCTGCTGAAGGTGGCCAGCCCGTTTGACATACAGGAAACTGTTACTTTGGGTTCGTATG
66 AAGGGATCTGCTGAAGGTGGCCAGCCCGTTTGACATACAGGAAACTGTTACTTTGGGTTCGTATG
*
922480 GGAGATCTTTTAAGGTGAAAATTAATGTGGGGTCGGCTAGTATCAAACAGGAAAGCTTTGCAGCA
131 GGAGATCTTTTAAGGTGAAAATTAATGTGGGGTCGGCTAGTATCAAACAGGAAAGCTTTGCAACA
*
922545 AATAATTCTACGGTGGCCGGGATGGTGTGCCCAGTATCGAAGCATTATCAGAGGAGGAAGAAGAC
196 AATAATTCTACGGTGGCCGGGATGGTGTGCCCAGTATCGAAGCATTATCAAAGGAGGAAGAAGAC
922610 AGGCATTCAGACAGAGTTGGTAATCCAGATTTGATAGCTGCGGATTCTAGGGACACAGTAGACAG
261 AGGCATTCAGACAGAGTTGGTAATCCAGATTTGATAGCTGCGGATTCTAGGGACACAGTAGACAG
*
922675 ATGGTTGGTAGGGGATAACTTTAGAACTATGTCAGGCGACAAAGGGGGAGAGCATTTATTGTTGC
326 ATGGTTGGTAGGGGATAACTGTAGAACTATGTCAGGCGACAAAGGGGGAGAGCATTTATTGTTGC
*
922740 AGGAAGTAGAAGGTCAAACTAGTGGTGCTAAGATGTCAGACTCACCAGATGAAATTTTGAAATTT
391 AAGAAGTAGAAGGTCAAACTAGTGGTGCTAAGATGTCAGACTCACCAGATGAAATTTTGAAATTT
*
922805 AAAGGGGATTTTCGGGGTCTTGGGTTAGGAAATGATTTTCTAAATGAAAATGATGAAGCCCAGTC
456 AAAGGGGATTTTCGGGGTCTTGGGTTAAGAAATGATTTTCTAAATGAAAATGATGAAGCCCAGTC
*
922870 CGTGGACTTGAGTGAACCCACCACAAACAACTCTAAATTTTCACCTTCTGGGCCTGCTGTTAATA
521 CGTGGACTTGAGTGAACCCACCACAAACAACTCTAAATTTTCACCTTCTGGGCCTACTGTTAATA
*
922935 TAATCAAATTGGGGTATGTTTCGAATCCTGGTGGTGTCATTGATAGAATTCAACCTAGGTGTAGA
586 TAATCAAATTGGGGTATGTTTCGAATCCTGGTGGTGTCATTGACAGAATTCAACCTAGGTGTAGA
*
923000 GGAACTTCCAAAATGTTAAATGAGGAAATTACAGACGATGTGGCAATCCTGAACAAAGAAGCTAG
651 GGAACTTCCAAAAAGTTAAATGAGGAAATTACAGACGATGTGGCAATCCTGAACAAAGAAGCTAG
923065 CAGTGAAGAAGAAACAGAGGAGGGTCGGGAAGCTTTGCCGCTTCATATGGGCAAAATCCAGGGGA
716 CAGTGAAGAAGAAACAGAGGAGGGTCGGGAAGCTTTGCCGCTTCATATGGGCAAAATCCAGGGGA
923130 AAGAAAAT
781 AAGAAAAT
*
923138 GGGCTTGATCCACTTTTGGTGTATATTCATGAGTCGACGGTCAATAGGGAGGATTTGACGGTGGC
1 GGGCTTGATCCACTTTTGGTGTATATTCATGAGCCGACGGTCAATAGGGAGGATTTGACGGTGGC
* *
923203 AAGGGCTCTGCTGAAGGTGGCCAGCCCGTTTGTCATACAGGAAACTGTTACTTTGGGTTCGTATG
66 AAGGGATCTGCTGAAGGTGGCCAGCCCGTTTGACATACAGGAAACTGTTACTTTGGGTTCGTATG
*
923268 GGAGATCTTTTAAGGTGAAAATTAATGTGGGGTCGGCTAGTATCAAACAGGGAAGCTTTGCAACA
131 GGAGATCTTTTAAGGTGAAAATTAATGTGGGGTCGGCTAGTATCAAACAGGAAAGCTTTGCAACA
923333 AATAATTCTACGGTGGCCGGAGATGGTGTGCCCAGTATCGAAGCATTATCAAAGGAGGAAGAAGA
196 AATAATTCTACGGTGGCCGG-GATGGTGTGCCCAGTATCGAAGCATTATCAAAGGAGGAAGAAGA
*
923398 TAGGCATTCAGACAGAGTTGGTAATCCAGATTTGATAGCTGCGGATTCTAGGGACACAGTAGACA
260 CAGGCATTCAGACAGAGTTGGTAATCCAGATTTGATAGCTGCGGATTCTAGGGACACAGTAGACA
923463 GATGGTTGGTAGGGGATAACTGTAGAACTATGTCAGGCGACAAAGGGGGAGAGCATTTATTGTTG
325 GATGGTTGGTAGGGGATAACTGTAGAACTATGTCAGGCGACAAAGGGGGAGAGCATTTATTGTTG
923528 CAAGAAGTAGAAGGTCAAACTAGTGGTGCTAAGATGTCAGACTCACCAGATGAAATTTTGAAATT
390 CAAGAAGTAGAAGGTCAAACTAGTGGTGCTAAGATGTCAGACTCACCAGATGAAATTTTGAAATT
*
923593 TAAAGGGGATTTTCGGGGTCTTGGGTTAAGAAATGATTTTCTAAATGAAAATGATGAAGCCTAGT
455 TAAAGGGGATTTTCGGGGTCTTGGGTTAAGAAATGATTTTCTAAATGAAAATGATGAAGCCCAGT
*
923658 CCGTGGACTTGAGTGAGCCCACCACAAACAACTCTAAATTTTCACCTTCTGGGCCTACTG-TAAT
520 CCGTGGACTTGAGTGAACCCACCACAAACAACTCTAAATTTTCACCTTCTGGGCCTACTGTTAAT
* *
923722 ATAATCAAATTGGGGTATGTTTCGAATCCTGGTGGTGTCATTGACAGAATTCAGCCTATGTGTAG
585 ATAATCAAATTGGGGTATGTTTCGAATCCTGGTGGTGTCATTGACAGAATTCAACCTAGGTGTAG
923787 AGGAACTTCCAAAAAGTTAAATGAGGAAATTACAGACGATGTGGCAATCCTGAACAAAGAAGCTA
650 AGGAACTTCCAAAAAGTTAAATGAGGAAATTACAGACGATGTGGCAATCCTGAACAAAGAAGCTA
*
923852 GCAGTGAAGAAGAAACAGAGGAGGGTCGGGAAGCTTTGCCGCTTCATATGGGCAGAATCCAGGGG
715 GCAGTGAAGAAGAAACAGAGGAGGGTCGGGAAGCTTTGCCGCTTCATATGGGCAAAATCCAGGGG
923917 AAA
780 AAA
923920 TAATGTAATA
Statistics
Matches: 763, Mismatches: 18, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
788 407 0.53
789 356 0.47
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (788 bp):
GGGCTTGATCCACTTTTGGTGTATATTCATGAGCCGACGGTCAATAGGGAGGATTTGACGGTGGC
AAGGGATCTGCTGAAGGTGGCCAGCCCGTTTGACATACAGGAAACTGTTACTTTGGGTTCGTATG
GGAGATCTTTTAAGGTGAAAATTAATGTGGGGTCGGCTAGTATCAAACAGGAAAGCTTTGCAACA
AATAATTCTACGGTGGCCGGGATGGTGTGCCCAGTATCGAAGCATTATCAAAGGAGGAAGAAGAC
AGGCATTCAGACAGAGTTGGTAATCCAGATTTGATAGCTGCGGATTCTAGGGACACAGTAGACAG
ATGGTTGGTAGGGGATAACTGTAGAACTATGTCAGGCGACAAAGGGGGAGAGCATTTATTGTTGC
AAGAAGTAGAAGGTCAAACTAGTGGTGCTAAGATGTCAGACTCACCAGATGAAATTTTGAAATTT
AAAGGGGATTTTCGGGGTCTTGGGTTAAGAAATGATTTTCTAAATGAAAATGATGAAGCCCAGTC
CGTGGACTTGAGTGAACCCACCACAAACAACTCTAAATTTTCACCTTCTGGGCCTACTGTTAATA
TAATCAAATTGGGGTATGTTTCGAATCCTGGTGGTGTCATTGACAGAATTCAACCTAGGTGTAGA
GGAACTTCCAAAAAGTTAAATGAGGAAATTACAGACGATGTGGCAATCCTGAACAAAGAAGCTAG
CAGTGAAGAAGAAACAGAGGAGGGTCGGGAAGCTTTGCCGCTTCATATGGGCAAAATCCAGGGGA
AAGAAAAT
Found at i:936228 original size:18 final size:17
Alignment explanation
Indices: 936172--936231 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 17
936162 TATCAAATTA
936172 AATTATAATAAAAA-A-
1 AATTATAATAAAAATAT
*
936187 AATAATAAT-AAAATAT
1 AATTATAATAAAAATAT
936203 AATTATAATAAAAATAT
1 AATTATAATAAAAATAT
*
936220 ATTTTATAATAA
1 A-ATTATAATAA
936232 CTCACTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
14 4 0.11
15 9 0.24
16 8 0.21
17 8 0.21
18 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTATAATAAAAATAT
Found at i:938868 original size:68 final size:68
Alignment explanation
Indices: 938758--938888 Score: 194
Period size: 68 Copynumber: 1.9 Consensus size: 68
938748 TTTATATTGT
* * *
938758 GTATTAAAGATAAAATAGCAAGTTCATCCTTCATATTCAAAAACCTGGAATCACTTCAAAGAAGA
1 GTATTAAAGATAAAATAGCAAGTTCATCCTTCATATTAAAAAACCTGGAATCAATTAAAAGAAGA
938823 AAG
66 AAG
*
938826 GTATTAAAGATAAACA-AGCAAGTTCATCC-TCGTATTAAAAAAACCTGGAATCAATTAAAAGAA
1 GTATTAAAGATAAA-ATAGCAAGTTCATCCTTCATATT-AAAAAACCTGGAATCAATTAAAAGAA
938889 ACAGAATATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 6 0.11
68 50 0.88
69 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.24
Consensus pattern (68 bp):
GTATTAAAGATAAAATAGCAAGTTCATCCTTCATATTAAAAAACCTGGAATCAATTAAAAGAAGA
AAG
Found at i:938904 original size:68 final size:68
Alignment explanation
Indices: 938759--938905 Score: 183
Period size: 68 Copynumber: 2.2 Consensus size: 68
938749 TTATATTGTG
* * *
938759 TATTAAAGATAAAATAGCAAGTTCATCCTTCATATTCAAAAACCTGGAATCACTTCAAAGAAGAA
1 TATTAAAGATAAAATAGCAAGTTCATCCTTCATATTAAAAAACCTGGAATCAATTAAAAGAAGAA
*
938824 AGG
66 AGA
*
938827 TATTAAAGATAAACA-AGCAAGTTCATCC-TCGTATTAAAAAAACCTGGAATCAATTAAAAGAA-
1 TATTAAAGATAAA-ATAGCAAGTTCATCCTTCATATT-AAAAAACCTGGAATCAATTAAAAGAAG
*
938889 ACAGAA
64 AAAG-A
*
938895 TATTCAAGATA
1 TATTAAAGATA
938906 TCAGTATGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
67 9 0.13
68 59 0.86
69 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.24
Consensus pattern (68 bp):
TATTAAAGATAAAATAGCAAGTTCATCCTTCATATTAAAAAACCTGGAATCAATTAAAAGAAGAA
AGA
Found at i:940206 original size:68 final size:68
Alignment explanation
Indices: 940096--940226 Score: 185
Period size: 68 Copynumber: 1.9 Consensus size: 68
940086 TTTATATTGT
* ** * *
940096 GTATTAAAGATAAAATAGCAAGTTCATCCTTTATATTCAAAAACCTGGAATCACTTCAAAGAAGA
1 GTATTAAAGATAAAATAGCAAGTTCATCCTGTATATAAAAAAACCTGGAATCAATTAAAAGAAGA
940161 AAG
66 AAG
940164 GTATTAAAGATAAACA-AGCAAGTTCATCCTCGTAT-TAAAAAAACCTGGAATCAATTAAAAGAA
1 GTATTAAAGATAAA-ATAGCAAGTTCATCCT-GTATATAAAAAAACCTGGAATCAATTAAAAGAA
940227 ACAGAATATT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 52 0.93
69 4 0.07
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (68 bp):
GTATTAAAGATAAAATAGCAAGTTCATCCTGTATATAAAAAAACCTGGAATCAATTAAAAGAAGA
AAG
Found at i:940242 original size:68 final size:68
Alignment explanation
Indices: 940097--940243 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 68
940087 TTATATTGTG
* ** * *
940097 TATTAAAGATAAAATAGCAAGTTCATCCTTTATATTCAAAAACCTGGAATCACTTCAAAGAAGAA
1 TATTAAAGATAAAATAGCAAGTTCATCCTGTATATAAAAAAACCTGGAATCAATTAAAAGAAGAA
*
940162 AGG
66 AGA
940165 TATTAAAGATAAACA-AGCAAGTTCATCCTCGTAT-TAAAAAAACCTGGAATCAATTAAAAGAA-
1 TATTAAAGATAAA-ATAGCAAGTTCATCCT-GTATATAAAAAAACCTGGAATCAATTAAAAGAAG
*
940227 ACAGAA
64 AAAG-A
*
940233 TATTCAAGATA
1 TATTAAAGATA
940244 TCAGTATGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
67 3 0.04
68 61 0.90
69 4 0.06
ACGTcount: A:0.48, C:0.14, G:0.12, T:0.25
Consensus pattern (68 bp):
TATTAAAGATAAAATAGCAAGTTCATCCTGTATATAAAAAAACCTGGAATCAATTAAAAGAAGAA
AGA
Found at i:941985 original size:60 final size:59
Alignment explanation
Indices: 941810--941993 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 59
941800 TCGGATGAAC
* * * * *
941810 TTGGGGATGACATTGAAAGATTTAAAAGTTTAGGGACTAATTTAGAATGAGATTTATAGT
1 TTGGGGATGAAATTGAATG-TTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
* * * * * *
941870 TTGGGAATGAATTTCAAATGTTCAAAAAGTTTAAAGACTAATTTAGAATTG-GAGTCGTAGT
1 TTGGGGATGAAATT-GAATGTT-TAAAAGTTTAAGGACTAATTTAGAA-TGAGAGTCATAGT
* *
941931 TTGGGGATGAAATTGGAATGTTTAAAAGTTTAAGGACTAATTTGGAATGAGAGTCATGGT
1 TTGGGGATGAAATT-GAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
941991 TTG
1 TTG
941994 AGGACATGTG
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
59 2 0.02
60 46 0.46
61 50 0.50
62 2 0.02
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
TTGGGGATGAAATTGAATGTTTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGT
Found at i:942250 original size:2 final size:2
Alignment explanation
Indices: 942243--942334 Score: 134
Period size: 2 Copynumber: 45.5 Consensus size: 2
942233 ACCATATGCA
942243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
942285 AT AT AT AT AT AT AT AT AT AT AT AT -T CAT AT GT GAT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT -AT AT AT AT AT
942327 AT CAT AT A
1 AT -AT AT A
942335 GAGTCGAGGG
Statistics
Matches: 83, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
1 2 0.02
2 77 0.93
3 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:942756 original size:13 final size:13
Alignment explanation
Indices: 942738--942813 Score: 71
Period size: 13 Copynumber: 5.4 Consensus size: 13
942728 AATTAAATTT
942738 ATTTAATAATATA
1 ATTTAATAATATA
942751 ATTTAATAATATTAATA
1 ATTTAAT-A-A-T-ATA
942768 ATATTAATAATATA
1 AT-TTAATAATATA
* *
942782 ATTTTATAAATATT
1 ATTTAAT-AATATA
*
942796 ATTTAATAATTTA
1 ATTTAATAATATA
942809 ATTTA
1 ATTTA
942814 TAAAAAATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
13 20 0.38
14 17 0.33
15 2 0.04
16 2 0.04
17 6 0.12
18 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATAATATA
Found at i:942765 original size:22 final size:21
Alignment explanation
Indices: 942738--942810 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
942728 AATTAAATTT
942738 ATTTAATAATATAATTTAATA
1 ATTTAATAATATAATTTAATA
*
942759 ATATTAATAATATTAA-TAATATA
1 AT-TTAATAATA-TAATTTA-ATA
* *
942782 ATTTTATAAATATTATTTAATA
1 ATTTAAT-AATATAATTTAATA
942804 ATTTAAT
1 ATTTAAT
942811 TTATAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.05
22 26 0.62
23 14 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAATAATATAATTTAATA
Found at i:942767 original size:9 final size:9
Alignment explanation
Indices: 942748--942810 Score: 60
Period size: 9 Copynumber: 7.2 Consensus size: 9
942738 ATTTAATAAT
942748 ATAAT-TTA
1 ATAATATTA
942756 ATAATATTA
1 ATAATATTA
942765 ATAATATTA
1 ATAATATTA
942774 ATAATA-TA
1 ATAATATTA
** *
942782 ATTTTATAA
1 ATAATATTA
*
942791 ATATTATTTA
1 ATAATA-TTA
942801 ATAAT-TTA
1 ATAATATTA
942809 AT
1 AT
942811 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
8 16 0.35
9 24 0.52
10 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (9 bp):
ATAATATTA
Found at i:942793 original size:26 final size:27
Alignment explanation
Indices: 942737--942822 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 27
942727 GAATTAAATT
*
942737 TATTTAATAATATAATTTAATAATATTAA
1 TATTTAATAATATAATTTTATAA-A-TAA
*
942766 TAATATTAATAATATAATTTTATAAATAT
1 T-AT-TTAATAATATAATTTTATAAATAA
* *
942795 TATTTAATAATTTAA-TTTATAAAAAA
1 TATTTAATAATATAATTTTATAAATAA
942821 TA
1 TA
942823 CAAATTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
26 11 0.22
27 11 0.22
28 2 0.04
29 4 0.08
30 3 0.06
31 19 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTAATAATATAATTTTATAAATAA
Found at i:942834 original size:58 final size:61
Alignment explanation
Indices: 942731--942857 Score: 133
Period size: 58 Copynumber: 2.1 Consensus size: 61
942721 ACTATTGAAT
* *
942731 TAAAT-TTATTTAATAATATAATTTAATAATATTAATAATATTAAT-AA-TAT-AATTTTA
1 TAAATATTATTTAATAATATAATTTAATAAAAATAATAATATTAATAAAGTATGAATTTTA
*
942788 TAAATATTATTTAATAATTTAATTT-ATAAAAAATACA-AAT-TATAATACAATGTATGAATTTT
1 TAAATATTATTTAATAATATAATTTAAT-AAAAATA-ATAATAT-TAATA-AA-GTATGAATTTT
942850 A
61 A
942851 TAAATAT
1 TAAATAT
942858 ATTATTTTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
57 8 0.14
58 30 0.52
59 1 0.02
60 2 0.03
62 3 0.05
63 14 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (61 bp):
TAAATATTATTTAATAATATAATTTAATAAAAATAATAATATTAATAAAGTATGAATTTTA
Found at i:946736 original size:210 final size:209
Alignment explanation
Indices: 946364--947055 Score: 1105
Period size: 210 Copynumber: 3.3 Consensus size: 209
946354 ATTTAAGAAT
946364 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACA-A---A--AG
* * *
946429 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAAGTATAC
60 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
946494 CCATTTAAAAATTTATGGGCCAATTTAAAAATAGAATTAAGTAAAAAGTATGGATCAATTTCAGA
125 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGA
946559 TGCAAATAAAATTTGGAGGAC
190 TGCAAATAAAA-TTGGAGGAC
* *
946580 TAAATTGAACAAATATGAAATTACAAATAAAAATATAAATAAATTAAACGACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* *
946645 AATCGAAGTAATTTTAAATTGTGATGTTTAAATTAATACAAAAAAGTACTAAATTATACCCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
*
946710 AAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
946775 TAAAAATTGAAGGAC
196 T-AAAATTGGAGGAC
* * * * *
946790 TAAATTGAATAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAAGACTAAAGGGATCG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
* *
946855 GATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACTCATTT
66 AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
946920 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
131 AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
*
946985 TAAAGATTAGAGGAC
196 TAAA-ATTGGAGGAC
*
947000 TAAATTAAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAA
947056 GGGATATTTA
Statistics
Matches: 442, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
209 3 0.01
210 380 0.86
211 4 0.01
212 1 0.00
215 1 0.00
216 53 0.12
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (209 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTT
AAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGATGCAAA
TAAAATTGGAGGAC
Found at i:947077 original size:7 final size:7
Alignment explanation
Indices: 947062--947107 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
947052 ACAAGGGATA
*
947062 TTTATGG
1 TTTAAGG
947069 TTTAAGG
1 TTTAAGG
947076 TTT-AGG
1 TTTAAGG
*
947082 TATTATGG
1 T-TTAAGG
947090 TTTAAGG
1 TTTAAGG
947097 TTTAAGG
1 TTTAAGG
947104 TTTA
1 TTTA
947108 GGATTTAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 4 0.12
7 27 0.79
8 3 0.09
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:947091 original size:14 final size:13
Alignment explanation
Indices: 947062--947114 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
947052 ACAAGGGATA
947062 TTTATGGTTTAAGG
1 TTTA-GGTTTAAGG
*
947076 TTTAGGTATTATGG
1 TTTAGGT-TTAAGG
947090 TTTAAGGTTTAAGG
1 TTT-AGGTTTAAGG
947104 TTTAGGATTTA
1 TTTAGG-TTTA
947115 GGGTGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 6 0.18
14 24 0.71
15 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (13 bp):
TTTAGGTTTAAGG
Found at i:947132 original size:6 final size:6
Alignment explanation
Indices: 947121--947159 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
947111 TTTAGGGTGT
*
947121 TATTTA TATTTA TATTTA TATTTA TGTTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TAT
947160 AAACTACATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:947211 original size:24 final size:26
Alignment explanation
Indices: 947180--947228 Score: 75
Period size: 24 Copynumber: 1.9 Consensus size: 26
947170 CTATAATTTA
947180 TATTTATAT-ACTATA-TTTATATAC
1 TATTTATATAACTATAGTTTATATAC
947204 TATTTATATAAACTATAGTTTATAT
1 TATTTATAT-AACTATAGTTTATAT
947229 TTATATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (26 bp):
TATTTATATAACTATAGTTTATATAC
Found at i:947228 original size:33 final size:33
Alignment explanation
Indices: 947191--947284 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
947181 ATTTATATAC
*
947191 TATATTTATATACTATTTATATAAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
947224 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTTATATACTATATATATAAACTATAGTT
*
947257 TACA--TATGA-ACTATATATATAAACTATA
1 TATATTTAT-ATACTATATATATAAACTATA
947285 TAAACTATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.38
32 1 0.02
33 34 0.61
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (33 bp):
TATATTTATATACTATATATATAAACTATAGTT
Found at i:947241 original size:13 final size:13
Alignment explanation
Indices: 947178--947228 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
947168 TACTATAATT
947178 TATATTTATATAC
1 TATATTTATATAC
947191 TATATTTATATAC
1 TATATTTATATAC
*
947204 TAT-TTATATAAAC
1 TATATT-TATATAC
947217 TATAGTTTATAT
1 TATA-TTTATAT
947229 TTATATACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 2 0.06
13 25 0.76
14 4 0.12
15 2 0.06
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (13 bp):
TATATTTATATAC
Found at i:947251 original size:13 final size:13
Alignment explanation
Indices: 947235--947286 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 13
947225 ATATTTATAT
947235 ACTATATATATGA
1 ACTATATATATGA
947248 ACTATAGTTTACATATGA
1 ACTATA---T--ATATGA
*
947266 ACTATATATATAA
1 ACTATATATATGA
947279 ACTATATA
1 ACTATATA
947287 AACTATATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
13 19 0.58
15 1 0.03
16 1 0.03
18 12 0.36
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (13 bp):
ACTATATATATGA
Found at i:947263 original size:18 final size:18
Alignment explanation
Indices: 947242--947479 Score: 122
Period size: 18 Copynumber: 12.7 Consensus size: 18
947232 TATACTATAT
947242 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
947260 ATATGAACTATA-TATATAAAC
1 ATATGAACTATAGT-T-T--AC
*
947281 TATATAAACTATATAGTTTAC
1 -ATATGAAC--TATAGTTTAC
947302 ATATGAACTATA-TATATAC
1 ATATGAACTATAGT-T-TAC
* *
947321 -TA--AAGTTGATA-TTTAT
1 ATATGAA-CT-ATAGTTTAC
947337 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
* *
947355 ATATAAACTATATGGTTTAT
1 ATATGAACTATA--GTTTAC
947375 ATACT-AACTATAGTTTAC
1 ATA-TGAACTATAGTTTAC
* *
947393 ATATAAAATATAGTTGATATTTAC
1 ATATGAACTATA---G---TTTAC
947417 ATATGAACTATAGTTTAC
1 ATATGAACTATAGTTTAC
947435 ATATGAACTATA---TAC
1 ATATGAACTATAGTTTAC
947450 ATA--AACTATATAGTTTAC
1 ATATGAAC--TATAGTTTAC
*
947468 ATATGACCTATA
1 ATATGAACTATA
947480 TATATATATA
Statistics
Matches: 174, Mismatches: 13, Indels: 66
0.69 0.05 0.26
Matches are distributed among these distances:
13 3 0.02
15 10 0.06
16 4 0.02
17 10 0.06
18 81 0.47
19 6 0.03
20 24 0.14
21 7 0.04
22 7 0.04
23 1 0.01
24 20 0.11
25 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (18 bp):
ATATGAACTATAGTTTAC
Found at i:947275 original size:22 final size:22
Alignment explanation
Indices: 947250--947317 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
947240 ATATATGAAC
947250 TATAGTTTACATATGAACTATA
1 TATAGTTTACATATGAACTATA
** *
947272 TATA-TAAACTATATAAAC--TA
1 TATAGTTTAC-ATATGAACTATA
947292 TATAGTTTACATATGAACTATA
1 TATAGTTTACATATGAACTATA
947314 TATA
1 TATA
947318 TACTAAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 13 0.36
21 6 0.17
22 17 0.47
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (22 bp):
TATAGTTTACATATGAACTATA
Found at i:947276 original size:42 final size:43
Alignment explanation
Indices: 947230--947323 Score: 133
Period size: 42 Copynumber: 2.2 Consensus size: 43
947220 AGTTTATATT
*
947230 TATATACTATA-TATATGAAC-TATAGTTTACATATGAACTATA
1 TATATACTA-ACTATATAAACATATAGTTTACATATGAACTATA
947272 TATATA--AACTATATAAACTATATAGTTTACATATGAACTATA
1 TATATACTAACTATATAAAC-ATATAGTTTACATATGAACTATA
947314 TATATACTAA
1 TATATACTAA
947324 AGTTGATATT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
39 1 0.02
40 9 0.20
42 34 0.74
44 2 0.04
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (43 bp):
TATATACTAACTATATAAACATATAGTTTACATATGAACTATA
Found at i:947384 original size:38 final size:39
Alignment explanation
Indices: 947331--947447 Score: 148
Period size: 38 Copynumber: 2.9 Consensus size: 39
947321 TAAAGTTGAT
947331 ATTTATATATGAACTATAGTTTACATATAAACTATATG-
1 ATTTATATATGAACTATAGTTTACATATAAACTATATGA
* *
947369 GTTTATATACT-AACTATAGTTTACATATAAAATATAGTTGA
1 ATTTATATA-TGAACTATAGTTTACATATAAACTATA--TGA
* *
947410 TATTTACATATGAACTATAGTTTACATATGAACTATAT
1 -ATTTATATATGAACTATAGTTTACATATAAACTATAT
947448 ACATAAACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
38 32 0.48
39 1 0.01
40 3 0.04
41 1 0.01
42 30 0.45
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (39 bp):
ATTTATATATGAACTATAGTTTACATATAAACTATATGA
Found at i:947483 original size:2 final size:2
Alignment explanation
Indices: 947476--947611 Score: 64
Period size: 2 Copynumber: 65.0 Consensus size: 2
947466 ACATATGACC
*
947476 TA TA TA TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA -TA
* * ** *
947519 TA TA -A TT TA CA TA TGA CC TA TA TA TA TA TA TA -A TA TA GTT TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * *
947561 TA TT TA TA TA CTG TA TA T- TA TA TA TA TA AA CTA TA TG TA CTA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA
947603 TA TA GTA TA
1 TA TA -TA TA
947612 ATTTACATAT
Statistics
Matches: 100, Mismatches: 20, Indels: 28
0.68 0.14 0.19
Matches are distributed among these distances:
1 4 0.04
2 82 0.82
3 14 0.14
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
TA
Found at i:947555 original size:33 final size:33
Alignment explanation
Indices: 947425--947560 Score: 142
Period size: 33 Copynumber: 4.3 Consensus size: 33
947415 ACATATGAAC
* * *
947425 TATAGTTTACATATGAACTATATACATAAACTA
1 TATAGTTTACATATGACCTATATATATATACTA
947458 TATAGTTTACATATGACCTATATATATATA-TA
1 TATAGTTTACATATGACCTATATATATATACTA
** *
947490 TATA---TAC-TAT-AGTTGATATTTATATACTA
1 TATAGTTTACATATGACCT-ATATATATATACTA
*
947519 TATAATTTACATATGACCTATATATATATA-TAA
1 TATAGTTTACATATGACCTATATATATATACT-A
947552 TATAGTTTA
1 TATAGTTTA
947561 TATTTATATA
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
27 2 0.02
28 13 0.15
29 9 0.11
32 10 0.12
33 49 0.58
34 2 0.02
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
TATAGTTTACATATGACCTATATATATATACTA
Found at i:947595 original size:55 final size:55
Alignment explanation
Indices: 947482--947616 Score: 164
Period size: 55 Copynumber: 2.4 Consensus size: 55
947472 GACCTATATA
* * * *
947482 TATATATATATATACTATAGTTGATATTTATATACTATATAATTTACATATGACC
1 TATATATATATATAATATAGTTTATATTTATATACTATATAATTTACATATAAAC
* *
947537 TATATATATATATAATATAGTTTATATTTATATACTGTAT-ATTATATATATAAAC
1 TATATATATATATAATATAGTTTATATTTATATACTATATAATT-TACATATAAAC
* * *
947592 TATATGTACTATATAGTATAATTTA
1 TATATATA-TATATAATATAGTTTA
947617 CATATGAATT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
54 3 0.04
55 52 0.75
56 14 0.20
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (55 bp):
TATATATATATATAATATAGTTTATATTTATATACTATATAATTTACATATAAAC
Found at i:949332 original size:17 final size:17
Alignment explanation
Indices: 949310--949350 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
949300 TCAAAGAGTA
*
949310 ATCATATTAATTTAATT
1 ATCATAATAATTTAATT
949327 ATCATAATAATTTAATT
1 ATCATAATAATTTAATT
949344 ATCATAA
1 ATCATAA
949351 GTTTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (17 bp):
ATCATAATAATTTAATT
Found at i:951906 original size:26 final size:26
Alignment explanation
Indices: 951873--951925 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
951863 TCTCTTTTCA
951873 CACTGATGATAATTGGCATTTCCACT
1 CACTGATGATAATTGGCATTTCCACT
951899 CACTGATGATAATTGGCATTTCCACT
1 CACTGATGATAATTGGCATTTCCACT
951925 C
1 C
951926 TTCAGCTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (26 bp):
CACTGATGATAATTGGCATTTCCACT
Found at i:953706 original size:13 final size:13
Alignment explanation
Indices: 953688--953714 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
953678 AAAGTCATCA
953688 AGACTCATGGACC
1 AGACTCATGGACC
953701 AGACTCATGGACC
1 AGACTCATGGACC
953714 A
1 A
953715 AGATGCTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (13 bp):
AGACTCATGGACC
Found at i:954886 original size:2 final size:2
Alignment explanation
Indices: 954879--954935 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
954869 TCAATCTACA
954879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
954921 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
954936 ATTTACGACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957320 original size:31 final size:31
Alignment explanation
Indices: 957282--957345 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
957272 ACCGTCAAGT
* * *
957282 CCAGTAAGACCCTGAGCACAAATCCGAGGAG
1 CCAGTAAGACCATGAGAACAAAGCCGAGGAG
*
957313 CCAGTAAGGCCATGAGAACAAAGCCGAGGAG
1 CCAGTAAGACCATGAGAACAAAGCCGAGGAG
957344 CC
1 CC
957346 TCCAGGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.28, G:0.28, T:0.08
Consensus pattern (31 bp):
CCAGTAAGACCATGAGAACAAAGCCGAGGAG
Found at i:958288 original size:15 final size:15
Alignment explanation
Indices: 958268--958296 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
958258 GGTCAATAGT
958268 TCGGGTCAGGTCGGG
1 TCGGGTCAGGTCGGG
958283 TCGGGTCAGGTCGG
1 TCGGGTCAGGTCGG
958297 ACTGGGTCGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (15 bp):
TCGGGTCAGGTCGGG
Found at i:958303 original size:15 final size:15
Alignment explanation
Indices: 958268--958309 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
958258 GGTCAATAGT
*
958268 TCGGGTCAGGTCGGG
1 TCGGGTCAGGTCGGC
958283 TCGGGTCAGGTCGGAC
1 TCGGGTCAGGTCGG-C
*
958299 T-GGGTCGGGTC
1 TCGGGTCAGGTC
958310 AAACCGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (15 bp):
TCGGGTCAGGTCGGC
Found at i:963949 original size:14 final size:14
Alignment explanation
Indices: 963925--963962 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
963915 GACTTTTATG
*
963925 TCAA-AGTCAACGG
1 TCAACAGTCAACGA
*
963938 TCAACGGTCAACGA
1 TCAACAGTCAACGA
963952 TCAACAGTCAA
1 TCAACAGTCAA
963963 TGGCCAGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 4 0.19
14 17 0.81
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.16
Consensus pattern (14 bp):
TCAACAGTCAACGA
Found at i:967734 original size:46 final size:46
Alignment explanation
Indices: 967683--967859 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
967673 ATGGTCTTTT
* ** * * * *
967683 TTTCATGCATTAATATATCCATTCATACATTTTAATCATGACATCC
1 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCC
* * *
967729 TTTCATGCCCTAACGCATCCTTTCATGCATTTTAGTTATGACATCT
1 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCC
* *
967775 TTTCATGCCTTAATGCATCCTTTTATGCATTTTAGTTATGAAATCC
1 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCC
* *
967821 TTTCATGCCTTAATGCATCTTTTCATGTATTTTAGTTAT
1 TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTAT
967860 AGATTCAGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 113 1.00
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (46 bp):
TTTCATGCCTTAATGCATCCTTTCATGCATTTTAGTTATGACATCC
Done.