Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002117.1 Hibiscus syriacus cultivar Beakdansim tig00004340_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: 73388
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:2126 original size:14 final size:15
Alignment explanation
Indices: 2095--2128 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
2085 AGCAAGGCTC
2095 TTCGAGTGATGCTTG
1 TTCGAGTGATGCTTG
*
2110 TTCGAGTGA-GTTTG
1 TTCGAGTGATGCTTG
2124 TTCGA
1 TTCGA
2129 ATGGTGAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (15 bp):
TTCGAGTGATGCTTG
Found at i:3816 original size:8 final size:8
Alignment explanation
Indices: 3803--3833 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
3793 TGAGTTCATT
3803 CTTTCTAG
1 CTTTCTAG
3811 CTTTCTAG
1 CTTTCTAG
*
3819 CTTGCTAG
1 CTTTCTAG
3827 CTTTCTA
1 CTTTCTA
3834 ACCTTGTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.26, G:0.13, T:0.48
Consensus pattern (8 bp):
CTTTCTAG
Found at i:7115 original size:23 final size:23
Alignment explanation
Indices: 7081--7141 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
7071 CATAATTGTC
7081 CCGAAG-GACCACATAGGCCTGCA
1 CCGAAGTG-CCACATAGGCCTGCA
* **
7104 TCGAAGTGCCACATAGGTTTGCA
1 CCGAAGTGCCACATAGGCCTGCA
*
7127 CCGAAGTGTCACATA
1 CCGAAGTGCCACATA
7142 TTTGTCCCCG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 31 0.97
24 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
CCGAAGTGCCACATAGGCCTGCA
Found at i:7181 original size:21 final size:22
Alignment explanation
Indices: 7136--7185 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
7126 ACCGAAGTGT
*
7136 CACATATTTGTCCCCGAAAGAC
1 CACATAATTGTCCCCGAAAGAC
7158 CACATAATTGT-CCC-AAATGAC
1 CACATAATTGTCCCCGAAA-GAC
7179 CACATAA
1 CACATAA
7186 AACCCTCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 13 0.50
22 10 0.38
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (22 bp):
CACATAATTGTCCCCGAAAGAC
Found at i:10838 original size:29 final size:29
Alignment explanation
Indices: 10796--10854 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
10786 TATTTGTGAA
10796 CTAACCCTAACGTTAATATATCAACAAAT
1 CTAACCCTAACGTTAATATATCAACAAAT
10825 CTAACCCTAACGTTAATATATCAACAAAT
1 CTAACCCTAACGTTAATATATCAACAAAT
10854 C
1 C
10855 CTTAGATTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.27
Consensus pattern (29 bp):
CTAACCCTAACGTTAATATATCAACAAAT
Found at i:13007 original size:2 final size:2
Alignment explanation
Indices: 13000--13027 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12990 CTTAACATTA
13000 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
13028 TATTTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13086 original size:31 final size:30
Alignment explanation
Indices: 13020--13151 Score: 113
Period size: 31 Copynumber: 4.3 Consensus size: 30
13010 ATATATATAT
* **
13020 ATATATATTATT-TTATTCTTAACTTATTAA
1 ATATATTTTATTCTTATT-TTAACTTAAAAA
* * *
13050 GTATATCTTATTTTTATTTTAACTTACAAAA
1 ATATATTTTATTCTTATTTTAACTTA-AAAA
* * *
13081 ATATATTTTAGTCCTATTTTAACTTAAAAT
1 ATATATTTTATTCTTATTTTAACTTAAAAA
* * * *
13111 ATATATTTTATTCTTATCTTAATTTTTAAAC
1 ATATATTTTATTCTTATTTTAA-CTTAAAAA
13142 ATATATTTTA
1 ATATATTTTA
13152 AATTAAAATA
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
30 40 0.48
31 43 0.52
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.55
Consensus pattern (30 bp):
ATATATTTTATTCTTATTTTAACTTAAAAA
Found at i:13169 original size:29 final size:27
Alignment explanation
Indices: 13137--13378 Score: 90
Period size: 29 Copynumber: 7.9 Consensus size: 27
13127 TCTTAATTTT
13137 TAAACATATATTTTAAATTAAAATAAAA
1 TAAA-ATATATTTTAAATTAAAATAAAA
* *
13165 GTAAAATATATTTCATAAGTTAAGATAAAA
1 -TAAAATATATTT--TAAATTAAAATAAAA
*
13195 TAAAATAT-TTTTAATTTTAATATATGAATTTAA
1 TAAAATATATTTTAA-ATTAA-A-AT-AA---AA
* **
13228 TTTAAAATACATTTTTAAAAATTAAGGTAATAA
1 --TAAAATATATTTT---AAATTAAAATAA-AA
* * *
13261 TAAAATATATTTTTAAGTTGAAATAAGA
1 TAAAATATA-TTTTAAATTAAAATAAAA
*
13289 TGAAAATATTTTTTTTAAATTAAAATAAAAA
1 T-AAAATA--TATTTTAAATTAAAAT-AAAA
**
13320 TAAAATAAAATATATTTAATAAGTTAAGGTAAAA
1 TAAAAT---ATAT-TTT-A-AA-TTAAAATAAAA
13354 TAAAATATATTTTTAATATTAAAAT
1 TAAAATATA-TTTTAA-ATTAAAAT
13379 GTGAATTTAA
Statistics
Matches: 161, Mismatches: 23, Indels: 58
0.67 0.10 0.24
Matches are distributed among these distances:
26 3 0.02
27 4 0.02
28 13 0.08
29 34 0.21
30 34 0.21
31 21 0.13
32 8 0.05
33 7 0.04
34 12 0.07
35 14 0.09
36 5 0.03
38 4 0.02
39 2 0.01
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (27 bp):
TAAAATATATTTTAAATTAAAATAAAA
Found at i:13325 original size:30 final size:30
Alignment explanation
Indices: 13147--13326 Score: 87
Period size: 30 Copynumber: 5.9 Consensus size: 30
13137 TAAACATATA
* *
13147 TTTTAAATTAAAATAAAAGTAAAATATATT
1 TTTTAAATTAAAATAAAAATAAAATATTTT
** * *
13177 TCATAAGTTAAGAT-AAAATAAAATATTTTT
1 TTTTAAATTAAAATAAAAATAAAATA-TTTT
* * * ** *
13207 AATTTTAATATATGAATTTAATTTAAAATACATTT
1 --TTTTAA-AT-TAAAATAAAAATAAAATA-TTTT
** ** * *
13242 TTAAAAATTAAGGTAATAATAAAATA-TAT
1 TTTTAAATTAAAATAAAAATAAAATATTTT
* * *
13271 TTTTAAGTTGAAAT-AAGATGAAAATATTTT
1 TTTTAAATTAAAATAAAAAT-AAAATATTTT
13301 TTTTAAATTAAAATAAAAATAAAATA
1 TTTTAAATTAAAATAAAAATAAAATA
13327 AAATATATTT
Statistics
Matches: 103, Mismatches: 38, Indels: 18
0.65 0.24 0.11
Matches are distributed among these distances:
28 3 0.03
29 26 0.25
30 33 0.32
31 15 0.15
32 6 0.06
33 5 0.05
34 3 0.03
35 12 0.12
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.41
Consensus pattern (30 bp):
TTTTAAATTAAAATAAAAATAAAATATTTT
Found at i:13361 original size:64 final size:64
Alignment explanation
Indices: 13259--13378 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
13249 TTAAGGTAAT
* * *
13259 AATAAAATATATTTTTAAGTTGAAATAAGATGAAAATATTTTTTTTAA-ATTAAAATAAAAATAA
1 AATAAAATATATTTATAAGTTGAAATAAAATGAAAATA-TATTTTTAATATTAAAATAAAAATAA
*
13323 AATAAAATATATTTAATAAGTT-AAGGTAAAAT-AAAATATATTTTTAATATTAAAAT
1 AATAAAATATATTT-ATAAGTTGAA-ATAAAATGAAAATATATTTTTAATATTAAAAT
13379 GTGAATTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
63 8 0.16
64 30 0.61
65 11 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (64 bp):
AATAAAATATATTTATAAGTTGAAATAAAATGAAAATATATTTTTAATATTAAAATAAAAATAA
Found at i:13632 original size:18 final size:20
Alignment explanation
Indices: 13595--13637 Score: 72
Period size: 18 Copynumber: 2.2 Consensus size: 20
13585 TGAATTAAAA
13595 TAAATATAATCCTCTCTAAT
1 TAAATATAATCCTCTCTAAT
13615 TAAATATAAT-CT-TCTAAT
1 TAAATATAATCCTCTCTAAT
13633 TAAAT
1 TAAAT
13638 GATGATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.48
19 2 0.09
20 10 0.43
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATATAATCCTCTCTAAT
Found at i:13820 original size:45 final size:45
Alignment explanation
Indices: 13769--13863 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
13759 TGAATAAATT
13769 AAATAGTTATGTGATCTTATTAATAAAATTAAAAGATCGATAGTA
1 AAATAGTTATGTGATCTTATTAATAAAATTAAAAGATCGATAGTA
* *
13814 AAATAGTTATGTGATTTTATTGATAAAATTAAAAGATCGATAGTA
1 AAATAGTTATGTGATCTTATTAATAAAATTAAAAGATCGATAGTA
13859 AAATA
1 AAATA
13864 AAAAAACTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.47, C:0.03, G:0.14, T:0.36
Consensus pattern (45 bp):
AAATAGTTATGTGATCTTATTAATAAAATTAAAAGATCGATAGTA
Found at i:14438 original size:12 final size:13
Alignment explanation
Indices: 14421--14449 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
14411 CTTAGTTGCG
14421 AAAATTAAAA-TT
1 AAAATTAAAATTT
14433 AAAATTAAAATTT
1 AAAATTAAAATTT
14446 AAAA
1 AAAA
14450 CATTCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:14448 original size:94 final size:94
Alignment explanation
Indices: 14287--14472 Score: 318
Period size: 94 Copynumber: 2.0 Consensus size: 94
14277 CTTGAACTGC
* * *
14287 CCTTTCGATACCATTTAATTTGTTGATTGTCTTAGTTGCGAAAATTAAAATTGAAATTGAAATTT
1 CCTTTCGATACCATTTAATTTGCTGATTGTCTTAGTTGCGAAAATTAAAATTAAAATTAAAATTT
*
14352 AAAACATTCAATTCAAAATATTTACCTGT
66 AAAACATTCAATTCAAAATACTTACCTGT
*
14381 CCTTTCGGTACCATTTAATTTGCTGATTGTCTTAGTTGCGAAAATTAAAATTAAAATTAAAATTT
1 CCTTTCGATACCATTTAATTTGCTGATTGTCTTAGTTGCGAAAATTAAAATTAAAATTAAAATTT
*
14446 AAAACATTCGATTCAAAATACTTACCT
66 AAAACATTCAATTCAAAATACTTACCT
14473 TTGATTGGTT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (94 bp):
CCTTTCGATACCATTTAATTTGCTGATTGTCTTAGTTGCGAAAATTAAAATTAAAATTAAAATTT
AAAACATTCAATTCAAAATACTTACCTGT
Found at i:15835 original size:3 final size:3
Alignment explanation
Indices: 15821--15858 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
15811 ACAAAAACAC
15821 AAT AATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15859 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:16930 original size:17 final size:18
Alignment explanation
Indices: 16908--16942 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
16898 GCTGGGATTT
16908 AAATAA-TTAATTATAAA
1 AAATAATTTAATTATAAA
16925 AAATAATTTTAATTATAA
1 AAATAA-TTTAATTATAA
16943 CGATCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAATTTAATTATAAA
Found at i:17123 original size:24 final size:22
Alignment explanation
Indices: 17096--17150 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
17086 ACAACATTTA
17096 ATAAATTACGAATTTTAT-ATAATT
1 ATAAATTA--AATTTTATAATAA-T
17120 ATAAATTTAAATTTTATAATAAT
1 ATAAA-TTAAATTTTATAATAAT
*
17143 ATTAATTA
1 ATAAATTA
17151 TATAAACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.11
23 13 0.46
24 9 0.32
25 3 0.11
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATTAAATTTTATAATAAT
Found at i:17843 original size:19 final size:20
Alignment explanation
Indices: 17815--17854 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
17805 TATTATTAAC
*
17815 TAATT-AAAAATATTAAATT
1 TAATTAAAAAATAATAAATT
*
17834 TAATTTAAAAATAATAAATT
1 TAATTAAAAAATAATAAATT
17854 T
1 T
17855 GTTTTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATTAAAAAATAATAAATT
Found at i:21887 original size:30 final size:30
Alignment explanation
Indices: 21853--21909 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
21843 CATGAAGTAC
* *
21853 TAGAATTTAAATCTAATTTAAATTTTTAAT
1 TAGAATTCAAATCAAATTTAAATTTTTAAT
*
21883 TAGAATTCAAATCAAATTTAATTTTTT
1 TAGAATTCAAATCAAATTTAAATTTTT
21910 TAACTGATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (30 bp):
TAGAATTCAAATCAAATTTAAATTTTTAAT
Found at i:22842 original size:14 final size:15
Alignment explanation
Indices: 22825--22856 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22815 ATAATAAATA
22825 ATTAT-AAATATATT
1 ATTATAAAATATATT
22839 ATTATAAAATATATT
1 ATTATAAAATATATT
22854 ATT
1 ATT
22857 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:25294 original size:43 final size:43
Alignment explanation
Indices: 25241--25721 Score: 541
Period size: 43 Copynumber: 11.3 Consensus size: 43
25231 AACCAAAAAT
25241 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
* ** *
25284 GCCGCAAAAGGTTGATATCTATATAGGCGTTTTTGGAACTAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
* *
25327 GTCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
* * * *
25370 GCCGCAATAGG-TCACATATATAGCGGCGTTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCG-TTTTTGGAACAAAC
* * **
25413 GCCGCAATAGG-TCAGATAGATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
* * * *
25455 ACCGCAAAAGG-TCAGATCTATAGAGGCGTTTTT-TATACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGA-ACAAAC
* *
25497 GCCGTAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
*
25540 GCCGCAATAGGTT-AGA--TATAGCGGCGTTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCG-TTTTTGGAACAAAC
* * * *
25581 GTCGCAAAAGG-TCAGATCTATAGCGGCGTTTTT-TATACAAAT
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGA-ACAAAC
* *
25623 ACCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
* ** *
25666 GCCGCAATAGGTT-AGATAGATAGCGGCGTTTTTTTAGAACAAAC
1 GCCGCAAAAGGTTGAGATCTATAGCGGCG--TTTTTGGAACAAAC
* *
25710 GTCACAAAAGGT
1 GCCGCAAAAGGT
25722 CAGATATATA
Statistics
Matches: 376, Mismatches: 49, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
40 11 0.03
41 28 0.07
42 104 0.28
43 209 0.56
44 24 0.06
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAAC
Found at i:25453 original size:85 final size:84
Alignment explanation
Indices: 25241--25743 Score: 507
Period size: 85 Copynumber: 5.9 Consensus size: 84
25231 AACCAAAAAT
* * *
25241 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTTGATATCTAT
1 GCCGCAAAAGG-T-AGATATATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGG-TCATATATAT
** *
25306 ATAGGCG-TTTTTGGAACTAAC
63 AGCGGCGTTTTTTGGAACAAAC
* * * *
25327 GTCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTCACATATATA
1 GCCGCAAAAGGTAGATA--TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATATATA
25392 GCGGCGTTTTTTGGAACAAAC
64 GCGGCGTTTTTTGGAACAAAC
* * * * *
25413 GCCGCAATAGGTCAGATAGATAGCGGCGTTTTTGGAACAAACACCGCAAAAGGTCAGATCTATAG
1 GCCGCAAAAGGT-AGATATATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATATATAG
*
25478 AGGCGTTTTTT--ATACAAAC
65 CGGCGTTTTTTGGA-ACAAAC
* * * *
25497 GCCGTAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGT--TAGATATA
1 GCCGCAAAAGGTAGATA--TATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATATATA
25560 GCGGCGTTTTTTGGAACAAAC
64 GCGGCGTTTTTTGGAACAAAC
* * * ** * *
25581 GTCGCAAAAGGTCAGATCTATAGCGGCGTTTTT-TATACAAATACCGCAAAAGGTTGATATCTAT
1 GCCGCAAAAGGT-AGATATATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGG-TCATATATAT
25645 AGCGGCG-TTTTTGGAACAAAC
63 AGCGGCGTTTTTTGGAACAAAC
* * * * * *
25666 GCCGCAATAGGTTAGATAGATAGCGGCGTTTTTTTAGAACAAACGTCACAAAAGGTCAGATATAT
1 GCCGCAAAAGG-TAGATATATAGCGGCG--TTTTTGGAACAAACGCCGCAAAAGGTCATATATAT
* *
25731 ATCGACGTTTTTT
63 AGCGGCGTTTTTT
25744 TATACAAACT
Statistics
Matches: 345, Mismatches: 53, Indels: 37
0.79 0.12 0.09
Matches are distributed among these distances:
82 1 0.00
83 50 0.14
84 36 0.10
85 138 0.40
86 92 0.27
87 27 0.08
88 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (84 bp):
GCCGCAAAAGGTAGATATATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCATATATATAGC
GGCGTTTTTTGGAACAAAC
Found at i:25614 original size:126 final size:126
Alignment explanation
Indices: 25241--25757 Score: 673
Period size: 126 Copynumber: 4.0 Consensus size: 126
25231 AACCAAAAAT
* *
25241 GCCGCAAAAGGTTGAGATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTT-GATATCTA
1 GCCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGATA---A
** * * * *
25305 TATAGGCGTTTTTGGAACTAACGTCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGA-ACAAA
63 TAGCGGCGTTTTTGGAACAAACGTCGCAAAAGG-TCAGATCTATAGCGGCGTTTTT-TATACAAA
25369 C
126 C
* * * * *
25370 GCCGCAATAGG-TCACATATATAGCGGCGTTTTTTGGAACAAACGCCGCAATAGGTCAGATAGAT
1 GCCGCAAAAGGTTGATATCTATAGCGGCG-TTTTTGGAACAAACGCCGCAATAGGTTAGATA-AT
** *
25434 AGCGGCGTTTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGAGGCGTTTTTTATACAAAC
64 AGCGGCGTTTTTGGAACAAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTATACAAAC
*
25497 GCCGTAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGAT-ATAG
1 GCCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGATAATAG
*
25561 CGGCGTTTTTTGGAACAAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTATACAAAT
66 CGGCG-TTTTTGGAACAAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTATACAAAC
*
25623 ACCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGATAGATA
1 GCCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGATA-ATA
* * * * *
25688 GCGGCGTTTTTTTAGAACAAACGTCACAAAAGGTCAGATATATATCGACGTTTTTTTATACAAAC
65 GCGGCG--TTTTTGGAACAAACGTCGCAAAAGGTCAGATCTATAGCGGCG-TTTTTTATACAAAC
*
25753 TCCGC
1 GCCGC
25758 TAATTTCCGT
Statistics
Matches: 344, Mismatches: 35, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
125 9 0.03
126 111 0.32
127 64 0.19
128 66 0.19
129 73 0.21
130 21 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (126 bp):
GCCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAATAGGTTAGATAATAG
CGGCGTTTTTGGAACAAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTTATACAAAC
Found at i:28858 original size:82 final size:82
Alignment explanation
Indices: 28710--28868 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 82
28700 GTTTGTTACC
* * * * * *
28710 AAAACGCCGCTAAAGTTATAATTTTTTGCGGCGTTTATTAAAAAACGCCGCTATAGGTGAACCCT
1 AAAACACCGCTAAAGTTATAATATGTTGCGGCGTTTATTAAAAAACGCCACAATAGATGAACCCT
**
28775 ATTGTGGCGTTTGTATA
66 ATTACGGCGTTTGTATA
*
28792 AAAACACCGCTAAAG-TACTAATATGTTGCGGCTTTTATTGAAAAAACGCCACAATAGAT-AGA-
1 AAAACACCGCTAAAGTTA-TAATATGTTGCGGCGTTTATT-AAAAAACGCCACAATAGATGA-AC
28854 CCTATTACGGCGTTT
63 CCTATTACGGCGTTT
28869 ATTGAAAATA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
81 2 0.03
82 46 0.71
83 17 0.26
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (82 bp):
AAAACACCGCTAAAGTTATAATATGTTGCGGCGTTTATTAAAAAACGCCACAATAGATGAACCCT
ATTACGGCGTTTGTATA
Found at i:31641 original size:41 final size:41
Alignment explanation
Indices: 31489--31727 Score: 175
Period size: 41 Copynumber: 5.8 Consensus size: 41
31479 AAAATGATAT
* *
31489 TTTAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAA
1 TTTAGCGGCG-TTTTTATACAAACGCCGCAATAGAGTTGTAA
* ** *
31531 TTTAGCGGCGTTTATAGCT-CAAACGATGCAATAGAATTGT--
1 TTTAGCGGCGTTTTTA--TACAAACGCCGCAATAGAGTTGTAA
* * *
31571 TTATAGTGGCGTTTTT-TCAATAAATGCCGCAATAGAGTTGTAA
1 TT-TAGCGGCGTTTTTAT--ACAAACGCCGCAATAGAGTTGTAA
* * *
31614 TTTAGCGGCGTTTTTATACAAACGCCGCGATAGCGTTGT-T
1 TTTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTTGTAA
* * * * * * **
31654 TTTAGAGTCATTTGTTCA-ACAAACGACGCTATTGAGAAGTAA
1 TTTAGCGGCGTTT-TT-ATACAAACGCCGCAATAGAGTTGTAA
*
31696 TTTAGCGGCGTTTTTATACAAACGCCGTAATA
1 TTTAGCGGCGTTTTTATACAAACGCCGCAATA
31728 TCCATGATCT
Statistics
Matches: 148, Mismatches: 36, Indels: 27
0.70 0.17 0.13
Matches are distributed among these distances:
38 1 0.01
40 13 0.09
41 81 0.55
42 50 0.34
43 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATACAAACGCCGCAATAGAGTTGTAA
Found at i:31856 original size:44 final size:42
Alignment explanation
Indices: 31766--31856 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 42
31756 AAACTGCAAT
* * *
31766 AGTTTTGTCATTTAATGGCGTTTCTTTAATAAACGCCGCAGT
1 AGTTTTGTCATTTAAGGGCGTTTCTTTAATAAAAGCCGCAGA
* * * *
31808 AGTTTTGTCCTTTAGGGGCGTTTTTTTGTAATAAAAGCCGTAGA
1 AGTTTTGTCATTTAAGGGCG-TTTCTT-TAATAAAAGCCGCAGA
31852 AGTTT
1 AGTTT
31857 CATTAATCTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 17 0.43
43 5 0.12
44 18 0.45
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (42 bp):
AGTTTTGTCATTTAAGGGCGTTTCTTTAATAAAAGCCGCAGA
Found at i:35623 original size:21 final size:21
Alignment explanation
Indices: 35597--35655 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
35587 TGATTTATTA
*
35597 TTATGGATTTCAATTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
35618 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
35639 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
35656 ATTGAAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.05, G:0.20, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:35852 original size:43 final size:43
Alignment explanation
Indices: 35767--35863 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
35757 GAGGTAATTA
* *
35767 GCGGCGTTTGTATCTTAAAACGCCGCTATAGATATGACCTTTT
1 GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
* *
35810 GCGGCGTTTGT-TCTAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTATCT-AAAAACGCCGCTATAGA-CATGACCTTTT
*
35853 GCGACGTTTGT
1 GCGGCGTTTGT
35864 GGAAAAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
42 3 0.06
43 43 0.91
44 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGACCTTTT
Found at i:35871 original size:43 final size:42
Alignment explanation
Indices: 35783--35879 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
35773 TTTGTATCTT
* * *
35783 AAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCTAA
1 AAAACGCCGCTATAGACATGACCTTTTGCGACGTTTGTGC-AA
* * *
35826 AAAACGCCGCTATATACCA-GATCTTTTGCGACGTTTGTGGAA
1 AAAACGCCGCTATAGA-CATGACCTTTTGCGACGTTTGTGCAA
*
35868 AAAATGCCGCTA
1 AAAACGCCGCTA
35880 AATCTCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
42 13 0.28
43 32 0.70
44 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAACGCCGCTATAGACATGACCTTTTGCGACGTTTGTGCAA
Found at i:36076 original size:43 final size:43
Alignment explanation
Indices: 35803--36056 Score: 260
Period size: 43 Copynumber: 5.9 Consensus size: 43
35793 TATAGATATG
* ** * * *
35803 ACCTTTTGCGGCGTTTGTTCTAAAAAACGCCGCTATATA-CCAG
1 ACCTATTGCGGCGTTTGTT-GGAAAAACGCCGCTAAATATCAAC
* * * * *
35846 ATCTTTTGCGACGTTTG-TGGAAAAAATGCCGCTAAATCTCAAC
1 ACCTATTGCGGCGTTTGTTGG-AAAAACGCCGCTAAATATCAAC
* * * * *
35889 ACCTATTACGACGTTTGTGGGAAAAATGCCGCTAAATCTCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* * * *
35932 ACCTATTGCGTCATTTGTTGGGAAAACGCAGCTAAATATCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* *
35975 ACCTATTGCGACGCTTGTTGGAAAAACGCCGCTAAATATCAAC
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
* *
36018 ACCTATTGCGGCGTTTGTTGGACAAACGCCGCTATATAT
1 ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATAT
36057 GGTTATCTAT
Statistics
Matches: 178, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 15 0.08
43 161 0.90
44 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (43 bp):
ACCTATTGCGGCGTTTGTTGGAAAAACGCCGCTAAATATCAAC
Found at i:36210 original size:20 final size:21
Alignment explanation
Indices: 36173--36211 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36163 TGCGGCGCTT
*
36173 AAAAACGCCGCTATATGTAAA
1 AAAAACGCCGCTAAATGTAAA
*
36194 AAAAACGCTGC-AAATGTA
1 AAAAACGCCGCTAAATGTA
36212 CAATTTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (21 bp):
AAAAACGCCGCTAAATGTAAA
Found at i:37089 original size:222 final size:228
Alignment explanation
Indices: 36697--37181 Score: 831
Period size: 222 Copynumber: 2.1 Consensus size: 228
36687 GTTATATTGT
* * * *
36697 AAAGTATCTATCCTTTTTATAAAAGTATCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
36762 TCTTTGGTTAATATTGTCAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 -CTTTGGTTAATATTGTCAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
36827 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
36892 AAAAAATTGAAACATAAATTACATAACTTT-AAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
36925 AAAGTATATATCATTTTTATAAAAATGTCCATACTTATTTCACTGTGGAAAACATA-TTATTA-T
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
* *
36988 A-TTTGGTTAATA-TGTTAAATTTAAATTCTAAATAATA-TTTATAAAATATC-AAATAATCAAA
65 ACTTTGGTTAATATTGTCAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
*
37049 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
37114 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
37148 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
37182 GTATAAAAGT
Statistics
Matches: 246, Mismatches: 9, Indels: 9
0.93 0.03 0.03
Matches are distributed among these distances:
222 104 0.42
223 49 0.20
224 24 0.10
225 11 0.04
227 2 0.01
228 48 0.20
229 8 0.03
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
CTTTGGTTAATATTGTCAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAAT
AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:37554 original size:161 final size:162
Alignment explanation
Indices: 37310--37647 Score: 516
Period size: 161 Copynumber: 2.1 Consensus size: 162
37300 CGGTATAGAA
* * * * *
37310 ATGATAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGG
1 ATGATAAAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* * * *
37375 CACTTCGTGAATTTAAAAGAGAAGCATTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATG
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
*
37440 TATCGATCCAAAACGATATACCAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
* *
37472 ATGATAAAACCGGTAAAACGTTACCAGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* ** *
37536 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
*
37601 TATCGATCCACAACGATATAACAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
37633 ATGATAAAACCGGTA
1 ATGATAAAACCGGTA
37648 TCAAAATGAT
Statistics
Matches: 159, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
161 114 0.72
162 45 0.28
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACCAGATACATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAAT
Found at i:37647 original size:20 final size:19
Alignment explanation
Indices: 37624--37670 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
37614 CGATATAACA
37624 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
37644 GGTATCAAAATGATAAAAGC
1 GGTA-AAAAATGATAAAACC
37664 GGTAAAA
1 GGTAAAA
37671 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:39905 original size:20 final size:21
Alignment explanation
Indices: 39880--39922 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
39870 AAGACAATCA
39880 AGAGTCGAAGAGA-ACTTGAG
1 AGAGTCGAAGAGACACTTGAG
* *
39900 AGAGTCGAATATACACTTGAG
1 AGAGTCGAAGAGACACTTGAG
39921 AG
1 AG
39923 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.19
Consensus pattern (21 bp):
AGAGTCGAAGAGACACTTGAG
Found at i:41828 original size:19 final size:19
Alignment explanation
Indices: 41804--41852 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
41794 AATGTAGGGT
41804 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
41823 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
41842 TATTTTTGTAT
1 TAATTTTGTAT
41853 GTGAATATAA
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:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:42501 original size:197 final size:198
Alignment explanation
Indices: 41969--43128 Score: 2048
Period size: 197 Copynumber: 5.9 Consensus size: 198
41959 CAATATGGCC
* *
41969 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
42034 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
42099 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCTAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
42164 TGGAA
194 TGGAA
42169 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
42234 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
42299 AATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
42364 GAA
196 GAA
* *
42367 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
42431 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
42496 AATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
42561 GAA
196 GAA
*
42564 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
42629 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* * *
42694 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTTCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
42759 GGAA
195 GGAA
*
42763 AACAGTGTGCAACCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
42826 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTTAT--GAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
42888 AATATGTCTAACTAATGTGTCGACAC-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
42952 GAA
196 GAA
*
42955 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
43019 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
* *
43084 AATATGTCTAAATAATGTGTCAACACTTTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATA
43129 CTAATTTAAA
Statistics
Matches: 923, Mismatches: 29, Indels: 19
0.95 0.03 0.02
Matches are distributed among these distances:
192 65 0.07
193 67 0.07
194 53 0.06
196 32 0.03
197 299 0.32
198 190 0.21
199 157 0.17
200 60 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATG
GAA
Found at i:42819 original size:395 final size:395
Alignment explanation
Indices: 41969--43128 Score: 2057
Period size: 395 Copynumber: 2.9 Consensus size: 395
41959 CAATATGGCC
* * *
41969 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
1 AACAGTGTGCAACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
42034 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
42099 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCTAGAATGAA
129 GAATATGTCTAACTAATGTGTCGACACT-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAA
*
42164 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
193 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
*
42229 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTAT
258 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
* *
42294 GAGAGAATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAAT
323 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAAT
42359 GAATGGAA
388 GAATGGAA
*
42367 AACA-TGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAAC
1 AACAGT-GTGCAACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAAACATCGAAC
42430 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
64 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
42495 GAATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
129 GAATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAAT
42560 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
194 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
*
42625 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATG
259 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
* *
42690 AGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTTCAGAAT
324 AGAGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGTCGATATTTTTGGTCCAGAAT
42755 GAATGGAA
388 GAATGGAA
42763 AACAGTGTGCAACCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
1 AACAGTGTGCAACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
42827 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG-TTTAT--GAGA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
42889 ATATGTCTAACTAATGTGTCGACAC-TTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATGG
131 ATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATGG
42953 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAACATCGAA
196 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
43017 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
*
43082 AGAATATGTCTAAATAATGTGTCAACACTTTTTAGTTTGTGTCGATA
326 AGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
43129 CTAATTTAAA
Statistics
Matches: 739, Mismatches: 19, Indels: 17
0.95 0.02 0.02
Matches are distributed among these distances:
389 18 0.02
390 103 0.14
391 92 0.12
392 29 0.04
394 25 0.03
395 258 0.35
396 157 0.21
397 10 0.01
398 47 0.06
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (395 bp):
AACAGTGTGCAACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAAACATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
ATATGTCTAACTAATGTGTCGACACTTTTTAGTTGGTGTCGATATTTTTGGTCCAGAATGAATGG
AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAA
CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
AGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:44588 original size:12 final size:12
Alignment explanation
Indices: 44571--44629 Score: 91
Period size: 12 Copynumber: 4.9 Consensus size: 12
44561 GGTCGCAGAA
*
44571 GATGAAGCTGAC
1 GATGAAGATGAC
44583 GATGAAGATGAC
1 GATGAAGATGAC
*
44595 GATGATGATGAC
1 GATGAAGATGAC
*
44607 GATGAAGCTGAC
1 GATGAAGATGAC
44619 GATGAAGATGA
1 GATGAAGATGA
44630 TGACGATGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.19
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:44592 original size:6 final size:6
Alignment explanation
Indices: 44568--44629 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
44558 AGCGGTCGCA
* * * * * *
44568 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
*
44616 GACGAT GAAGAT GA
1 GAAGAT GAAGAT GA
44630 TGACGATGAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.39, C:0.10, G:0.34, T:0.18
Consensus pattern (6 bp):
GAAGAT
Found at i:44610 original size:9 final size:9
Alignment explanation
Indices: 44583--44657 Score: 53
Period size: 9 Copynumber: 8.3 Consensus size: 9
44573 TGAAGCTGAC
*
44583 GATGAAGAT
1 GATGACGAT
* *
44592 GACGATGAT
1 GATGACGAT
44601 GATGACGAT
1 GATGACGAT
* *
44610 GAAG-CTGAC
1 GATGAC-GAT
*
44619 GATGAAGAT
1 GATGACGAT
44628 GATGACGAT
1 GATGACGAT
**
44637 GATGATAAT
1 GATGACGAT
*
44646 GATGATGAT
1 GATGACGAT
44655 GAT
1 GAT
44658 CCAAACAAGT
Statistics
Matches: 51, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
8 1 0.02
9 50 0.98
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (9 bp):
GATGACGAT
Found at i:44618 original size:36 final size:36
Alignment explanation
Indices: 44571--44641 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
44561 GGTCGCAGAA
*
44571 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
*
44607 GATGAAGCTGACGATGAAGATGATGACGATGATGA
1 GATGAAGCTGACGATGAAGATGACGACGATGATGA
44642 TAATGATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:44640 original size:12 final size:12
Alignment explanation
Indices: 44579--44656 Score: 84
Period size: 12 Copynumber: 6.2 Consensus size: 12
44569 AAGATGAAGC
*
44579 TGACGATGAAGA
1 TGACGATGATGA
44591 TGACGATGATGA
1 TGACGATGATGA
* *
44603 TGACGATGAAGC
1 TGACGATGATGA
44615 TGACGATGAAGATGA
1 TGACGAT---GATGA
44630 TGACGATGATGA
1 TGACGATGATGA
* *
44642 TAATGATGATGA
1 TGACGATGATGA
44654 TGA
1 TGA
44657 TCCAAACAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
12 45 0.82
15 10 0.18
ACGTcount: A:0.37, C:0.08, G:0.32, T:0.23
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:44655 original size:6 final size:6
Alignment explanation
Indices: 44583--44657 Score: 69
Period size: 6 Copynumber: 12.5 Consensus size: 6
44573 TGAAGCTGAC
* * * * * * *
44583 GATGAA GATGAC GATGAT GATGAC GATGAA GCTGAC GATGAA GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
* *
44631 GACGAT GATGAT AATGAT GATGAT GAT
1 GATGAT GATGAT GATGAT GATGAT GAT
44658 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.24
Consensus pattern (6 bp):
GATGAT
Found at i:45851 original size:16 final size:16
Alignment explanation
Indices: 45819--45852 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45809 TATCCACAAT
* *
45819 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
45835 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
45851 AA
1 AA
45853 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:46243 original size:23 final size:23
Alignment explanation
Indices: 46217--46284 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
46207 GGTAAAAATG
46217 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
46240 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
46263 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
46285 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:46625 original size:22 final size:22
Alignment explanation
Indices: 46581--46625 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
46571 ATTACATATC
*
46581 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
46603 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
46625 T
1 T
46626 CAACATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:46972 original size:183 final size:182
Alignment explanation
Indices: 46664--47156 Score: 914
Period size: 183 Copynumber: 2.7 Consensus size: 182
46654 GCAATGCTAT
46664 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
46729 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
46794 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
46847 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
46912 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
46977 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
47030 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
47095 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
47157 GTAATTTTAA
Statistics
Matches: 303, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
183 299 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:47702 original size:25 final size:25
Alignment explanation
Indices: 47664--47713 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
47654 AAATCAATTA
*
47664 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
47689 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
47714 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:48119 original size:18 final size:18
Alignment explanation
Indices: 48098--48134 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48088 GTAATTGGAG
48098 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
48116 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
48134 T
1 T
48135 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:48142 original size:24 final size:24
Alignment explanation
Indices: 48090--48136 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48080 TTTCATATGT
* *
48090 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
48114 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
48137 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:48447 original size:39 final size:39
Alignment explanation
Indices: 48404--48490 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
48394 TCCGATGCTC
*
48404 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
48443 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
48482 ATCAAAATC
1 ATCAAAATC
48491 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:48947 original size:23 final size:23
Alignment explanation
Indices: 48917--48984 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
48907 TAAAAACATG
48917 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* * *
48940 ATGTAATAGGCATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
48963 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
48985 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:49343 original size:23 final size:23
Alignment explanation
Indices: 49299--49345 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49289 TCCTTATAGG
*
49299 TAATATAATAGGTATCGTTTATA
1 TAATATAATAGGTATCGGTTATA
*
49322 TAATGTAATAGGTAGT-GGTTATA
1 TAATATAATAGGTA-TCGGTTATA
49345 T
1 T
49346 TGTAAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (23 bp):
TAATATAATAGGTATCGGTTATA
Found at i:49607 original size:361 final size:361
Alignment explanation
Indices: 48938--49655 Score: 1186
Period size: 361 Copynumber: 2.0 Consensus size: 361
48928 AGCGCTTATA
*
48938 TAATGTAATAGGCATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
1 TAATATAATAGGCATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
49003 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGA
49068 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGA-ATATA
49133 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTGTGC
195 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTGTGC
*
49198 AACTGAAATTATAAATTACATAATATTGTAGTAAAAATAAACACTATT-AAAAAATTGAAACATA
260 AAATGAAATTATAAATT--ATAATATTGTAGTAAAAATAAACACTATTAAAAAAATTGAAACATA
*
49262 AA-TACATAAC-TTTAAAAGAAGTATCGATCCTTATAGG
323 AATTACATAACTTTTAAAAAAAGTATCGATCCTTATAGG
* *
49299 TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTT
1 TAATATAATAGGCATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
*
49364 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGA
49429 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACG-ATATAT
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGAATATAT
49492 TATTATTAAATT-AAAATTCTAAAT-ATATTTTATAAAATATCAAAACAATC-AATAATTTTTTG
196 TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA----TTG
49554 TGCAAATGAAATTATTAAA-T-TAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
257 TGCAAATGAAATTA-TAAATTATAATATTGTA-GT--AAAA-AT-AAACACTATT-AAAAAAATT
49617 GAAACATAAATTACATAACTTTTAAAAAAAGTATCGATC
315 GAAACATAAATTACATAACTTTTAAAAAAAGTATCGATC
49656 ATTTTTATAA
Statistics
Matches: 337, Mismatches: 6, Indels: 24
0.92 0.02 0.07
Matches are distributed among these distances:
355 5 0.01
356 36 0.11
357 14 0.04
358 18 0.05
359 21 0.06
360 19 0.06
361 180 0.53
363 18 0.05
364 8 0.02
365 18 0.05
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.40
Consensus pattern (361 bp):
TAATATAATAGGCATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGA
GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGAATATAT
TATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTGTGCA
AATGAAATTATAAATTATAATATTGTAGTAAAAATAAACACTATTAAAAAAATTGAAACATAAAT
TACATAACTTTTAAAAAAAGTATCGATCCTTATAGG
Found at i:49734 original size:23 final size:23
Alignment explanation
Indices: 49704--49771 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
49694 TAAAAACATG
49704 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* * *
49727 ATGTAATAGGCATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
49750 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
49772 TGTAAAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:50161 original size:23 final size:23
Alignment explanation
Indices: 50130--50202 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
50120 ATAGGTAAAA
*
50130 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
50153 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
50176 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
50199 ATAT
1 ATAT
50203 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:50430 original size:430 final size:431
Alignment explanation
Indices: 49299--50981 Score: 3114
Period size: 429 Copynumber: 3.9 Consensus size: 431
49289 TCCTTATAGG
* *
49299 TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTT
1 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
49364 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
49429 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACG--ATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
49491 TTATTATTAAATT-AAAATTCTAAAT-ATATTTTATAAAATATCAAAACAATC-AATAATTTTTT
196 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
49553 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
261 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
* *
49618 AAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTC
326 AAACATAAATTACATAAC-TTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTC
*
49683 AATATAATAGGTAAAAACATGATGTAATAGGTAGCGCTTATA
390 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
49725 TAATGTAATAGGCATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
1 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
*
49790 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
*
49855 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACTATATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
49920 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
196 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
* *
49985 GTGCAACTAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
261 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
50050 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
326 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
50115 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
391 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
50156 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
1 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
50221 TTTATAAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
50285 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
50350 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
196 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
50415 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
261 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
50480 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCA
326 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
50544 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
391 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
* * *
50585 TAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATT
1 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
* *
50650 TTTATAAAAGTGTCCATACTTTTTTCACTGTGG-AAATATTAATTTAAAGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
50714 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
50779 TTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
196 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
*
50844 GTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACACTATTAAAAAAAATTG
261 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
* * *
50909 AAACATAAATTACATAATTTTAAAAGAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCA
326 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
50974 ATATAATA
391 ATATAATA
50982 TAATGTAATA
Statistics
Matches: 1224, Mismatches: 25, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
426 170 0.14
427 12 0.01
429 424 0.35
430 332 0.27
431 194 0.16
432 92 0.08
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
Found at i:50590 original size:23 final size:23
Alignment explanation
Indices: 50559--50631 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
50549 ATAGGTAAAA
*
50559 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
50582 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
50605 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
50628 ATAT
1 ATAT
50632 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:50849 original size:859 final size:857
Alignment explanation
Indices: 49299--50981 Score: 3104
Period size: 859 Copynumber: 2.0 Consensus size: 857
49289 TCCTTATAGG
*
49299 TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATTTATCCTT
1 TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
49364 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
49429 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATTA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATTA
49494 TTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAAACAATCAATAATTTTTTGTGCAA
196 TTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAAACAATCAATAATTTTTTGTGCAA
49559 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
261 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
*
49624 AAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
326 AAATTACATAACTTTTAAAAAAAGTATCGATCACTTTTATAAAAAGTATGGACACTTTCAATATA
*
49689 ATAGGTAAAAACATGATGTAATAGGTAGCGCTTATATAATGTAATAGGCATCGTTTATATAATGT
391 ATAGGTAAAAACATGATGTAATAGGTAGCGCTTATATAATGTAATAGGCAGCGTTTATATAATGT
* *
49754 AATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
456 AATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACT
*
49819 GTGGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
521 GTGGAAAACATTAATTTAAAGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
*
49884 GCGTCTAATGATTTATTTTTTACGTTACTATATATATTATTATTAAATTAAAAATTCTAAATAAT
586 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAAT
*
49949 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAACTAAAATTATTAAATTAATATTG
651 ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTG
50014 TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
716 TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
* *
50079 TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
781 TATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
50144 GTAGCGCTTATA
846 GTAGCGCTTATA
*
50156 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
1 TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
50221 TTTATAAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
66 TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
50285 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
131 GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACG--ATATA
50350 TTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
193 TTATTATTAAATT-AAAATTCTAAAT-ATATTTTATAAAATATCAAAACAATC-AATAATTTTTT
50415 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
255 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTG
*
50480 AAACATAAATTACATAAC-TTTAAAAGAAGTATCGATC-CTTTTATAAAAAGTATGGACACTTTC
320 AAACATAAATTACATAACTTTTAAAAAAAGTATCGATCACTTTTATAAAAAGTATGGACACTTTC
* *
50543 AATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATA
385 AATATAATAGGTAAAAACATGATGTAATAGGTAGCGCTTATATAATGTAATAGGCAGCGTTTATA
50608 TAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTT
450 TAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTT
* *
50673 TTCACTGTGG-AAATATTAATTTAAAGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
515 TTCACTGTGGAAAACATTAATTTAAAGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
50737 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
580 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
* *
50802 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
645 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTA
* *
50867 ATATTGTATGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAATTTTAA
710 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
50932 AAGAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATA
775 AAGAAGTATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATA
50982 TAATGTAATA
Statistics
Matches: 800, Mismatches: 20, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
856 89 0.11
857 95 0.12
859 306 0.38
860 172 0.22
861 44 0.05
862 94 0.12
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (857 bp):
TAATATAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTT
TTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGA
GTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTACGTTACGATATATTA
TTATTAAATTAAAATTCTAAATATATTTTATAAAATATCAAAACAATCAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
AAATTACATAACTTTTAAAAAAAGTATCGATCACTTTTATAAAAAGTATGGACACTTTCAATATA
ATAGGTAAAAACATGATGTAATAGGTAGCGCTTATATAATGTAATAGGCAGCGTTTATATAATGT
AATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACT
GTGGAAAACATTAATTTAAAGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAAT
ATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATAAAATTATTAAATTAATATTG
TAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
TATCGATACTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAG
GTAGCGCTTATA
Found at i:51326 original size:29 final size:29
Alignment explanation
Indices: 51291--51359 Score: 115
Period size: 28 Copynumber: 2.4 Consensus size: 29
51281 AATATTGATG
51291 TTGGAAAATTAGGTAATGCTC-TTTGAATA
1 TTGGAAAATTAGGTAATGCTCATTT-AATA
51320 TTGGAAAA-TAGGTAATGCTCATTTAATA
1 TTGGAAAATTAGGTAATGCTCATTTAATA
51348 TTGGAAAATTAG
1 TTGGAAAATTAG
51360 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 24 0.63
29 14 0.37
ACGTcount: A:0.38, C:0.06, G:0.20, T:0.36
Consensus pattern (29 bp):
TTGGAAAATTAGGTAATGCTCATTTAATA
Found at i:55298 original size:31 final size:31
Alignment explanation
Indices: 55258--55316 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
55248 AAACCCAAGA
55258 AGTTCCTAGTGAGAATGACATATTGAATAGG
1 AGTTCCTAGTGAGAATGACATATTGAATAGG
*
55289 AGTTTCTAGTGAGAATGACATATTGAAT
1 AGTTCCTAGTGAGAATGACATATTGAAT
55317 TCACCGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (31 bp):
AGTTCCTAGTGAGAATGACATATTGAATAGG
Found at i:56233 original size:24 final size:24
Alignment explanation
Indices: 56201--56256 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
56191 CTATTCTTTC
56201 GCTTCAATTGAGCTCAAAATTTAG
1 GCTTCAATTGAGCTCAAAATTTAG
*
56225 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAAATTTAG
56249 GCTTCAAT
1 GCTTCAAT
56257 CAAACTTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAAATTTAG
Found at i:56523 original size:30 final size:30
Alignment explanation
Indices: 56489--56545 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
56479 ACAGTTCAAA
* *
56489 CCGGTTTTGCCGGTTTTCAGTCGGTTCACC
1 CCGGTTTTCCCGGTTTTCAGCCGGTTCACC
56519 CCGGTTTTCCCGGTTTTCAGCCGGTTC
1 CCGGTTTTCCCGGTTTTCAGCCGGTTC
56546 TTTCGGTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.05, C:0.32, G:0.26, T:0.37
Consensus pattern (30 bp):
CCGGTTTTCCCGGTTTTCAGCCGGTTCACC
Found at i:56552 original size:20 final size:20
Alignment explanation
Indices: 56529--56566 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56519 CCGGTTTTCC
56529 CGGTT-TTCAGCCGGTTCTTT
1 CGGTTCTTCA-CCGGTTCTTT
*
56549 CGGTTCTTTACCGGTTCT
1 CGGTTCTTCACCGGTTCT
56567 GTGCTAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.05, C:0.26, G:0.24, T:0.45
Consensus pattern (20 bp):
CGGTTCTTCACCGGTTCTTT
Found at i:56964 original size:29 final size:29
Alignment explanation
Indices: 56931--57038 Score: 191
Period size: 29 Copynumber: 3.7 Consensus size: 29
56921 CTCATTGAAT
56931 ATTG-ATATTGGAAAATTAGGTAAATGCTC
1 ATTGAATATTGGAAAATTAGGT-AATGCTC
56960 ATTGAATATTGGAAAATTAGGTAATGCTC
1 ATTGAATATTGGAAAATTAGGTAATGCTC
56989 ATTGAATATTGGAAAATTAGGTAATGCTC
1 ATTGAATATTGGAAAATTAGGTAATGCTC
*
57018 ATTTAATATTGGAAAATTAGG
1 ATTGAATATTGGAAAATTAGG
57039 CATTTCCACT
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 60 0.78
30 17 0.22
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (29 bp):
ATTGAATATTGGAAAATTAGGTAATGCTC
Found at i:61940 original size:41 final size:42
Alignment explanation
Indices: 61895--62012 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 42
61885 TTTTCCCGAA
61895 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAAT-AT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATGAT
* * * * *
61936 TTCCCGTGTTTGTTTTATGTAATTCGTTTTTGGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATGAT
* * *
61978 TTCTCATGTTTGTTTCACGTAATT-GTTTTCCGAAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAA
62013 TGTAATTCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 43 0.67
42 21 0.33
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.49
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTTCGAAAAATGAT
Found at i:62383 original size:23 final size:23
Alignment explanation
Indices: 62357--62401 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
62347 AATAATATTT
62357 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
62380 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
62402 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:62501 original size:31 final size:30
Alignment explanation
Indices: 62442--62502 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
62432 ATATAATTTA
*
62442 TAATATTTTTTCATTAAAATATACAAAAAT
1 TAATATTTTTTCAATAAAATATACAAAAAT
*
62472 TAATATTTTTATTAATAAAATTATA-AAAAAT
1 TAATATTTTT-TCAATAAAA-TATACAAAAAT
62503 ATTTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 10 0.37
31 13 0.48
32 4 0.15
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATATTTTTTCAATAAAATATACAAAAAT
Found at i:62550 original size:22 final size:22
Alignment explanation
Indices: 62513--62571 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
62503 ATTTAATAAT
* *
62513 AAATAAATTATTTTAATATTTTA
1 AAATAAATAATATTAA-ATTTTA
62536 AAAT-AATAATATTAAATTTTA
1 AAATAAATAATATTAAATTTTA
**
62557 TGATAAATAATATTA
1 AAATAAATAATATTA
62572 TTTATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 8 0.26
22 19 0.61
23 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATAAATAATATTAAATTTTA
Found at i:63077 original size:26 final size:26
Alignment explanation
Indices: 63038--63094 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
63028 GATTTGATTT
* *
63038 GAAAACTTTAAAATTGAGCTAGACTC
1 GAAAACTCTAAAATGGAGCTAGACTC
* *
63064 GAAAACTCTGAAATGGAGCTCGACTC
1 GAAAACTCTAAAATGGAGCTAGACTC
*
63090 AAAAA
1 GAAAA
63095 TTCGCGAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (26 bp):
GAAAACTCTAAAATGGAGCTAGACTC
Found at i:63163 original size:11 final size:11
Alignment explanation
Indices: 63147--63174 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
63137 CTTTAATTAA
63147 AGCTCGTGAGC
1 AGCTCGTGAGC
63158 AGCTCGTGAGC
1 AGCTCGTGAGC
63169 AGCTCG
1 AGCTCG
63175 AAAAGGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (11 bp):
AGCTCGTGAGC
Found at i:63773 original size:8 final size:8
Alignment explanation
Indices: 63762--63798 Score: 60
Period size: 7 Copynumber: 4.9 Consensus size: 8
63752 AATATATGTT
63762 AATATAAA
1 AATATAAA
63770 AATAT-AA
1 AATATAAA
63777 AATATAAA
1 AATATAAA
63785 AATAT-AA
1 AATATAAA
63792 AATATAA
1 AATATAA
63799 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 14 0.52
8 13 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATATAAA
Found at i:63780 original size:15 final size:15
Alignment explanation
Indices: 63762--63798 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
63752 AATATATGTT
63762 AATATAAAAATATAA
1 AATATAAAAATATAA
63777 AATATAAAAATATAA
1 AATATAAAAATATAA
63792 AATATAA
1 AATATAA
63799 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATATAAAAATATAA
Found at i:63805 original size:2 final size:2
Alignment explanation
Indices: 63793--63822 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
63783 AAAATATAAA
63793 AT AT A- 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 A
63823 AATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:63950 original size:2 final size:2
Alignment explanation
Indices: 63943--63987 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
63933 TCCAAAATTA
63943 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
63985 AT A
1 AT A
63988 ATCAGACCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:64557 original size:173 final size:176
Alignment explanation
Indices: 64258--64598 Score: 480
Period size: 178 Copynumber: 1.9 Consensus size: 176
64248 TAAATATTAA
* * * *
64258 ATATATATAACATATGGGCTCAGCCTAAACTTTTGAAACCCAATTAATAATTTAAGATCTAATAA
1 ATATATATAACATATGGGCTAAGCCTAAACATTTAAAACCCAATTAATAATTTAAGATCCAATAA
64323 CTTTTAAACCTAAATCAATATTAATTAATCAAAAAATTATATAAATTTTTATTTTATAA-T-TAT
66 C-TTTAAACCTAAATCAATATTAATTAA-CAAAAAATTATATAAATTTTTATTTTATAATTATAT
* *
64386 ATTATTTAAATTAATTGTAAACTGTTTTTTAATTAAAAATATTAAATAT
129 ATTATTTAAATTAATTATAAACT-TTTTTAAATTAAAAATATTAAATAT
* **
64435 ATATATATAACATATGGGCTAAATCC-AAACCATTTAAAATTCAATTAATAATTTAAGATCCAAT
1 ATATATATAACATATGGGCT-AAGCCTAAA-CATTTAAAACCCAATTAATAATTTAAGATCCAAT
* *
64499 AAC-TTAAACCTAAATCAATATTAATT-A-AAAAATTTATCTGAAA-TTTTATTTTATAATTATA
64 AACTTTAAACCTAAATCAATATTAATTAACAAAAAATTATAT-AAATTTTTATTTTATAATTATA
64560 TATTATTTAAATTAATTATAAACTTTTTTAAATTAAAAA
128 TATTATTTAAATTAATTATAAACTTTTTTAAATTAAAAA
64599 ACATTTAATT
Statistics
Matches: 148, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
173 23 0.16
174 18 0.12
175 26 0.18
176 23 0.16
177 23 0.16
178 35 0.24
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (176 bp):
ATATATATAACATATGGGCTAAGCCTAAACATTTAAAACCCAATTAATAATTTAAGATCCAATAA
CTTTAAACCTAAATCAATATTAATTAACAAAAAATTATATAAATTTTTATTTTATAATTATATAT
TATTTAAATTAATTATAAACTTTTTTAAATTAAAAATATTAAATAT
Found at i:64577 original size:20 final size:21
Alignment explanation
Indices: 64552--64595 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64542 TTTTATTTTA
*
64552 TAATTATATA-TTATTTAAAT
1 TAATTATAAACTTATTTAAAT
*
64572 TAATTATAAACTTTTTTAAAT
1 TAATTATAAACTTATTTAAAT
64593 TAA
1 TAA
64596 AAAACATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTATAAACTTATTTAAAT
Found at i:72048 original size:30 final size:31
Alignment explanation
Indices: 71987--72072 Score: 108
Period size: 30 Copynumber: 2.8 Consensus size: 31
71977 GTACTTTTCA
71987 TTTGATAAAATGTCCAATATGGTACACATAC
1 TTTGATAAAATGTCCAATATGGTACACATAC
72018 TTTGATAAAATGTCC-AT-TGGGTAC-CTATAC
1 TTTGATAAAATGTCCAATAT-GGTACAC-ATAC
*
72048 TTTG-TCAAAATGTCTAATATGGTAC
1 TTTGAT-AAAATGTCCAATATGGTAC
72073 TTGAATATTA
Statistics
Matches: 49, Mismatches: 1, Indels: 10
0.82 0.02 0.17
Matches are distributed among these distances:
29 3 0.06
30 23 0.47
31 22 0.45
32 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (31 bp):
TTTGATAAAATGTCCAATATGGTACACATAC
Done.