Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000404.1 Hibiscus syriacus cultivar Beakdansim tig00000745_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: 123496
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:11385 original size:17 final size:19
Alignment explanation
Indices: 11363--11399 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
11353 CGCCCAAAAG
11363 TTTTTAGA-AAA-TATATA
1 TTTTTAGATAAATTATATA
*
11380 TTTTTATATAAATTATATA
1 TTTTTAGATAAATTATATA
11399 T
1 T
11400 ATAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 7 0.41
18 3 0.18
19 7 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTTAGATAAATTATATA
Found at i:14194 original size:12 final size:12
Alignment explanation
Indices: 14177--14201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14167 TTAGATTCAA
14177 AAAAAATATTTC
1 AAAAAATATTTC
14189 AAAAAATATTTC
1 AAAAAATATTTC
14201 A
1 A
14202 TAATCACGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAATATTTC
Found at i:14781 original size:21 final size:21
Alignment explanation
Indices: 14757--14806 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
14747 GATAAAATTA
*
14757 ATTTGTTTTATTTAGGGTTAT
1 ATTTGTTTTATTTAAGGTTAT
*
14778 ATTTGTTATATTTAAGGTTAT
1 ATTTGTTTTATTTAAGGTTAT
14799 ATTTGTTT
1 ATTTGTTT
14807 CATGAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (21 bp):
ATTTGTTTTATTTAAGGTTAT
Found at i:25152 original size:27 final size:27
Alignment explanation
Indices: 25122--25181 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
25112 CAGGTGATGG
25122 TGGCGGCGGT-GGCATCGGGTAAGGGAA
1 TGGCGGC-GTCGGCATCGGGTAAGGGAA
* *
25149 TGGCGGCGTCGGCATCTGGTAATGGAA
1 TGGCGGCGTCGGCATCGGGTAAGGGAA
*
25176 AGGCGG
1 TGGCGG
25182 TGGCAGCATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.18, C:0.17, G:0.48, T:0.17
Consensus pattern (27 bp):
TGGCGGCGTCGGCATCGGGTAAGGGAA
Found at i:25190 original size:27 final size:27
Alignment explanation
Indices: 25123--25191 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
25113 AGGTGATGGT
** *
25123 GGCGGCGGTGGCATCGGGTAAGGGAAT
1 GGCGGCGGCAGCATCGGGTAAGGGAAA
* * * *
25150 GGCGGCGTCGGCATCTGGTAATGGAAA
1 GGCGGCGGCAGCATCGGGTAAGGGAAA
*
25177 GGCGGTGGCAGCATC
1 GGCGGCGGCAGCATC
25192 ATATATGGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.16
Consensus pattern (27 bp):
GGCGGCGGCAGCATCGGGTAAGGGAAA
Found at i:26635 original size:3 final size:3
Alignment explanation
Indices: 26627--26684 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
26617 CTCGAAAACA
* * *
26627 TAT TAT TAT AAT AAT AAT TAT TAT TA- TAT TAT TAT TAT TAAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
26672 TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TA
26685 ACATATATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:26673 original size:24 final size:25
Alignment explanation
Indices: 26626--26684 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 25
26616 TCTCGAAAAC
26626 ATATTATTATAATAATAATTATTATT
1 ATATTATTAT-ATAATAATTATTATT
*
26652 ATATTATTATTATTAATTATTATTATT
1 ATATTATTA-TA-TAATAATTATTATT
26679 ATATTA
1 ATATTA
26685 ACATATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTATATAATAATTATTATT
Found at i:26694 original size:24 final size:27
Alignment explanation
Indices: 26638--26694 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
26628 ATTATTATAA
* **
26638 TAATAATTATTATTATATTATTATTAT
1 TAATTATTATTATTATATTAACATTAT
26665 TAATTATTATTATTATATTAACATATAT
1 TAATTATTATTATTATATTAACAT-TAT
26693 TA
1 TA
26695 CACTATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TAATTATTATTATTATATTAACATTAT
Found at i:27838 original size:29 final size:27
Alignment explanation
Indices: 27806--27861 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
27796 TTTATGTTTA
*
27806 TTTCATTTTGGACTTAATATTTGTTCACT
1 TTTCATTTT-GA-TCAATATTTGTTCACT
*
27835 TTTCATTTTGATCCATATTTGTTCACT
1 TTTCATTTTGATCAATATTTGTTCACT
27862 AGTGTGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.56
28 2 0.08
29 9 0.36
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (27 bp):
TTTCATTTTGATCAATATTTGTTCACT
Found at i:28175 original size:15 final size:16
Alignment explanation
Indices: 28155--28185 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
28145 GTCCTTGTAA
28155 TTTTATTATT-TATTT
1 TTTTATTATTATATTT
28170 TTTTATTATTATATTT
1 TTTTATTATTATATTT
28186 GGTGATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTATTATATTT
Found at i:33641 original size:16 final size:16
Alignment explanation
Indices: 33620--33663 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
33610 TCACAGATCA
*
33620 ACATACATACATCAAT
1 ACATACATACATCAAC
33636 ACATACATACATCAAC
1 ACATACATACATCAAC
33652 ACATACATACAT
1 ACATACATACAT
33664 GTTACATGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (16 bp):
ACATACATACATCAAC
Found at i:34028 original size:35 final size:35
Alignment explanation
Indices: 33974--34077 Score: 120
Period size: 36 Copynumber: 3.0 Consensus size: 35
33964 TGATGTTGTT
*
33974 TTCTTGAAACA-AAATTTTGTCTCGCTTGAGACAG
1 TTCTTGAAAAACAAATTTTGTCTCGCTTGAGACAG
* * *
34008 TTCTTGAAAAACAAATTTTGTCTCACTTAAGACAAT
1 TTCTTGAAAAACAAATTTTGTCTCGCTTGAGAC-AG
* ** *
34044 TTATTTCAAAACAAATTTCGTCTCGCTTGAGACA
1 TTCTTGAAAAACAAATTTTGTCTCGCTTGAGACA
34078 TTTTTCCTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 10 0.17
35 20 0.34
36 28 0.48
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (35 bp):
TTCTTGAAAAACAAATTTTGTCTCGCTTGAGACAG
Found at i:34172 original size:106 final size:106
Alignment explanation
Indices: 34047--34455 Score: 551
Period size: 105 Copynumber: 3.9 Consensus size: 106
34037 AGACAATTTA
*
34047 TTTCAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGATACAAATTTTGAATTTGTT
1 TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCT
*
34111 TCACTTGAAACAAAATTAATCTCACTTGAGATTGTTATTTC
66 TCACTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTC
*** *
34152 TCAAAAAAACAAACTTCGTCTCGCTTGAGACATTTTTTCCTTT--GATACAAATTTTGAATTTGC
1 T-TTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGC
* *
34215 TTCACTTGAAATAAAATTAATCTCATTTGAGATTGTTGTTTC
65 TTCACTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTC
* * *
34257 TTTCAAAACAAATTTCGTCTCGCTTGGGACATTTTTTCCTTTGAGAAAAAAATTTTGAATTTGCT
1 TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCT
* *
34322 TCACTTGAAAAAAAAATTAATCTCACTTGAGATTGTTGTTTA
66 TCACTTG-AAACAAAATTAATCTCACTTGAGATTGTTGTTTC
* * ** ** *
34364 TTTCAAAACAAATTTCGTCTCACTTGAGACA-TTTTCCCTCAGA-ATACAAATTTCAAAGTTG-T
1 TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCT
* *
34426 TGTACTTGAAACAAAATTAATATCACTTGA
66 T-CACTTGAAACAAAATTAATCTCACTTGA
34456 TATTTTCAAA
Statistics
Matches: 267, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
104 58 0.22
105 78 0.29
106 61 0.23
107 70 0.26
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (106 bp):
TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCT
TCACTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTC
Found at i:34435 original size:211 final size:210
Alignment explanation
Indices: 34047--34455 Score: 563
Period size: 211 Copynumber: 1.9 Consensus size: 210
34037 AGACAATTTA
* * *
34047 TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGTTT
1 TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGAAAAAAATTTTGAATTTGCTT
* * *
34112 CACTTGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTCAAAAAAACAAACTTCGTCTCGCT
66 CACTTGAAAAAAAATTAATCTCACTTGAGATTGTTATTTATCAAAAAAACAAACTTCGTCTCACT
* ** ** * * * *
34177 TGAGACATTTTTTCCTTTGATACAAATTTTGAATTTGCTTCACTTGAAATAAAATTAATCTCATT
131 TGAGACATTTTTCCCTCAGATACAAATTTCAAAGTTGCTTCACTTGAAACAAAATTAATATCACT
34242 TGAGATTGTTGTTTC
196 TGAGATTGTTGTTTC
*
34257 TTTCAAAACAAATTTCGTCTCGCTTGGGACATTTTTTCCTTTGAGAAAAAAATTTTGAATTTGCT
1 TTTCAAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGAAAAAAATTTTGAATTTGCT
* *** *
34322 TCACTTGAAAAAAAAATTAATCTCACTTGAGATTGTTGTTTAT-TTCAAAACAAATTTCGTCTCA
65 TCACTTG-AAAAAAAATTAATCTCACTTGAGATTGTTATTTATCAAAAAAACAAACTTCGTCTCA
*
34386 CTTGAGACA-TTTTCCCTCAGAATACAAATTTCAAAGTTG-TTGTACTTGAAACAAAATTAATAT
129 CTTGAGACATTTTTCCCTCAG-ATACAAATTTCAAAGTTGCTT-CACTTGAAACAAAATTAATAT
34449 CACTTGA
192 CACTTGA
34456 TATTTTCAAA
Statistics
Matches: 173, Mismatches: 22, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
210 40 0.23
211 101 0.58
212 32 0.18
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (210 bp):
TTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGAAAAAAATTTTGAATTTGCTT
CACTTGAAAAAAAATTAATCTCACTTGAGATTGTTATTTATCAAAAAAACAAACTTCGTCTCACT
TGAGACATTTTTCCCTCAGATACAAATTTCAAAGTTGCTTCACTTGAAACAAAATTAATATCACT
TGAGATTGTTGTTTC
Found at i:34941 original size:28 final size:28
Alignment explanation
Indices: 34910--35073 Score: 175
Period size: 28 Copynumber: 5.9 Consensus size: 28
34900 AACACATCAG
* * **
34910 CTTTGAGTTTGTTTTTCTTGAAACAAAT
1 CTTTGAGTCTGTTTCTCTTGAAACTTAT
* * * * **
34938 CTTTGAGTTTATTTTTCCTGAAACAAAT
1 CTTTGAGTCTGTTTCTCTTGAAACTTAT
*
34966 CTTTGAGTATGTTTCTCTTGAAACTTAT
1 CTTTGAGTCTGTTTCTCTTGAAACTTAT
* * *
34994 CTTCGAGTCGGTTTCTCTTGAAATTTAT
1 CTTTGAGTCTGTTTCTCTTGAAACTTAT
*
35022 CTTTGAGTCAGTTTCTCTTGAAACTTAT
1 CTTTGAGTCTGTTTCTCTTGAAACTTAT
* *
35050 CTTTGAATCGGTTTCTCTTGAAAC
1 CTTTGAGTCTGTTTCTCTTGAAAC
35074 CAATATCCCT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 119 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.47
Consensus pattern (28 bp):
CTTTGAGTCTGTTTCTCTTGAAACTTAT
Found at i:35147 original size:40 final size:40
Alignment explanation
Indices: 35092--35388 Score: 175
Period size: 40 Copynumber: 6.8 Consensus size: 40
35082 CTAAAGATGG
*
35092 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCTCCTGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCTGA
* *
35132 CCAGAACTCTTCATCACGCATGAGCCGTGTCA-CCCCTAGATAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCT-G---A
* * * * *
35175 CCAG-ACGTCCTCATCACGTAGGAACCGTGTTATCGCCCGTCCCCAAGATGG
1 CCAGAAC-TCTTCATCACGTATGAGCCGTGTCAT----C-T--CC----TGA
* *
35226 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCTCCTAA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCTGA
* * * *
35266 CCAGAACTCCTCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCAT----C-TCCT---GA
*
35314 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGA
1 ---CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCTGA
* * *
35357 CCAGACCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCA
35389 CCCTAGATAA
Statistics
Matches: 197, Mismatches: 31, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
39 4 0.02
40 89 0.45
42 2 0.01
43 27 0.14
44 3 0.02
45 4 0.02
46 4 0.02
47 2 0.01
48 2 0.01
51 56 0.28
52 2 0.01
54 1 0.01
55 1 0.01
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCTCCTGA
Found at i:35255 original size:51 final size:50
Alignment explanation
Indices: 35185--35354 Score: 146
Period size: 51 Copynumber: 3.6 Consensus size: 50
35175 CCAGACGTCC
35185 TCATCACGTAGGAACCGTGTTATCGCCCGTCCCCAAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCGCCC-TCCCCAAGATGGCCAGAACTCT
* ** * * *
35236 TCATCACGTATGAGTCGTGTCAT----CT--CCTA-A---CCAGAACTCC
1 TCATCACGTAGGAACCGTGTTATCGCCCTCCCCAAGATGGCCAGAACTCT
**
35276 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTTATCGCCC-TCCCCAAGATGGCCAGAACTCT
* * *
35327 TCATCACGTATGAGCCGTGTCATC-CCCT
1 TCATCACGTAGGAACCGTGTTATCGCCCT
35355 GACCAGACCT
Statistics
Matches: 91, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
40 28 0.31
43 1 0.01
44 4 0.04
45 1 0.01
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
50 3 0.03
51 49 0.54
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TCATCACGTAGGAACCGTGTTATCGCCCTCCCCAAGATGGCCAGAACTCT
Found at i:35294 original size:91 final size:91
Alignment explanation
Indices: 35132--35386 Score: 370
Period size: 91 Copynumber: 2.8 Consensus size: 91
35122 CATCTCCTGA
*
35132 CCAGAACTCTTCATCACGCATGAGCCGTGTCA-CCCCTAGATAACCAG-ACGTCCTCATCACGTA
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC----TAACCAGAAC-TCCTCATCACGTA
*
35195 GGAACCGTGTTATCGCCCGTCCCCAAGATGG
61 GGAACCGTGTTATCGCCCGTCCCAAAGATGG
* *
35226 CCAGAACTCTTCATCACGTATGAGTCGTGTCATCTCCTAACCAGAACTCCTCATCACGTAGGAAC
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTAACCAGAACTCCTCATCACGTAGGAAC
* *
35291 CGTGTTATCGCCCTTCCTAAAGATGG
66 CGTGTTATCGCCCGTCCCAAAGATGG
* * *
35317 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGC
1 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTAACCAGAACTCCTCATCACGTAGGAAC
35382 CGTGT
66 CGTGT
35387 CACCCTAGAT
Statistics
Matches: 148, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
91 113 0.76
92 2 0.01
94 30 0.20
95 3 0.02
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (91 bp):
CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCTAACCAGAACTCCTCATCACGTAGGAAC
CGTGTTATCGCCCGTCCCAAAGATGG
Found at i:35462 original size:133 final size:133
Alignment explanation
Indices: 35276--35660 Score: 540
Period size: 133 Copynumber: 2.9 Consensus size: 133
35266 CCAGAACTCC
*
35276 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGCCAGAACTCTTCATCACGTATGAG
1 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGCAAGAACTCTTCATCACGTATGAG
*
35341 CCGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCCGTGTCACCCTAGATAACAAGTCG
66 CCGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGTCGTGTCACCCTAGATAACAAGTCG
35406 TCA
131 TCA
* * *
35409 TCATCACGTAGGAACCGTGTTATCGCCCTTCTTAAAGATGGCAAGAACTCTTCATCGCATATGAG
1 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGCAAGAACTCTTCATCACGTATGAG
* * * *
35474 CCGTGCCATTCCCC-GACCAGACCTTCTCATTACGTAGGAGTCGTGTCACCCATAGATAACCAGT
66 CCGTGTCA-TCCCCTGACCAGACCTCCTCATCACGTAGGAGTCGTGTCACCC-TAGATAACAAGT
*
35538 CGTCC
129 CGTCA
* ** ** *
35543 TCATCGCGTAGGAACCAAGTTATCATCATTCCTAAAGATGGCCAAGAACTCTTCATCACGTATGA
1 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGG-CAAGAACTCTTCATCACGTATGA
* * * *
35608 GCAGTGTCAT-CCCTCAACCAGATCTCCTCATCACGTAGGAGTTGTGTCACCCT
65 GCCGTGTCATCCCCT-GACCAGACCTCCTCATCACGTAGGAGTCGTGTCACCCT
35661 TAGACGACCA
Statistics
Matches: 221, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
133 105 0.48
134 56 0.25
135 60 0.27
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (133 bp):
TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGCAAGAACTCTTCATCACGTATGAG
CCGTGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGTCGTGTCACCCTAGATAACAAGTCG
TCA
Found at i:35863 original size:3 final size:3
Alignment explanation
Indices: 35855--35930 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
35845 CTCGAAAACA
* * * *
35855 TAT TAT TAT AAT AAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35902 TAT TAT TAAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TA
35931 ACATATATTA
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 4 0.06
3 59 0.89
4 3 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:35898 original size:27 final size:27
Alignment explanation
Indices: 35856--35930 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
35846 TCGAAAACAT
* *
35856 ATTATTATAATAATTATTATTA-TAATA
1 ATTATTATTATTATTA-TATTATTAATA
*
35883 ATTATTATTATTATTATATTATTATTA
1 ATTATTATTATTATTATATTATTAATA
35910 ATTATTATTATTATTATATTA
1 ATTATTATTATTATTATATTA
35931 ACATATATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 5 0.11
27 39 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
ATTATTATTATTATTATATTATTAATA
Found at i:35939 original size:21 final size:21
Alignment explanation
Indices: 35854--35940 Score: 72
Period size: 21 Copynumber: 4.0 Consensus size: 21
35844 TCTCGAAAAC
*
35854 ATATTATTATAATAATTATTATT
1 ATATTATTAT--TAAATATTATT
* *
35877 ATAATAATTATT-ATTATTATT
1 AT-ATTATTATTAAATATTATT
*
35898 ATATTATTATTAATTATTATT
1 ATATTATTATTAAATATTATT
35919 ATTATTA-TATTAACATA-TATT
1 A-TATTATTATTAA-ATATTATT
35940 A
1 A
35941 CACTATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
20 8 0.14
21 32 0.56
22 8 0.14
23 2 0.04
24 7 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTATTATTAAATATTATT
Found at i:35940 original size:27 final size:26
Alignment explanation
Indices: 35854--35940 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 26
35844 TCTCGAAAAC
* *
35854 ATATTATTATAATAATTATTATTATAAT
1 ATATTATTATTATTATTA-TATTA-AAT
*
35882 A-ATTATTATTATTATTATATT-ATT
1 ATATTATTATTATTATTATATTAAAT
35906 ATTAATTATTATTATTATTATATTAACAT
1 A-T-ATTATTATTATTATTATATTAA-AT
35935 ATATTA
1 ATATTA
35941 CACTATTTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
24 3 0.06
26 4 0.08
27 38 0.76
28 3 0.06
29 2 0.04
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (26 bp):
ATATTATTATTATTATTATATTAAAT
Found at i:38650 original size:9 final size:9
Alignment explanation
Indices: 38620--38671 Score: 65
Period size: 9 Copynumber: 6.1 Consensus size: 9
38610 TTTGCAAAAA
38620 AAATTAAAT
1 AAATTAAAT
38629 AAA-TAAA-
1 AAATTAAAT
*
38636 ATATTAAAT
1 AAATTAAAT
38645 AAATTAAAT
1 AAATTAAAT
*
38654 -ACTTAAAT
1 AAATTAAAT
38662 AAATTAAAT
1 AAATTAAAT
38671 A
1 A
38672 CAAAATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 2 0.06
8 15 0.42
9 19 0.53
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAATTAAAT
Found at i:38652 original size:17 final size:17
Alignment explanation
Indices: 38617--38669 Score: 74
Period size: 16 Copynumber: 3.2 Consensus size: 17
38607 ATATTTGCAA
*
38617 AAAAAATTAAATAAA-T
1 AAAATATTAAATAAATT
38633 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
38650 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
38667 AAA
1 AAA
38670 TACAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 19 0.58
17 12 0.36
18 2 0.06
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:38670 original size:17 final size:17
Alignment explanation
Indices: 38623--38672 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
38613 GCAAAAAAAA
*
38623 TTAAATAAATAAAATA-
1 TTAAATAAATTAAATAC
38639 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
38656 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
38673 AAAATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 15 0.47
17 17 0.53
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:39943 original size:18 final size:19
Alignment explanation
Indices: 39922--39961 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
39912 TGTCGTTTTT
39922 AATATTAATCAGGTAAA-A
1 AATATTAATCAGGTAAACA
* *
39940 AATATTATTTAGGTAAACA
1 AATATTAATCAGGTAAACA
39959 AAT
1 AAT
39962 CCATAGCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (19 bp):
AATATTAATCAGGTAAACA
Found at i:52711 original size:12 final size:12
Alignment explanation
Indices: 52694--52720 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52684 CGTGATACCT
52694 TAAACACGATTA
1 TAAACACGATTA
52706 TAAACACGATTA
1 TAAACACGATTA
52718 TAA
1 TAA
52721 CACATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (12 bp):
TAAACACGATTA
Found at i:53774 original size:20 final size:21
Alignment explanation
Indices: 53740--53784 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 21
53730 CAAAAGGAAC
53740 AAATATATACTTTTTTATTATA
1 AAATATATAC-TTTTTATTATA
53762 AAATATATA-TTTTTATTATA
1 AAATATATACTTTTTATTATA
53782 AAA
1 AAA
53785 ATGTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.61
22 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATATATACTTTTTATTATA
Found at i:57757 original size:35 final size:34
Alignment explanation
Indices: 57711--57823 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
57701 AAAACAATCC
*
57711 TCAATTTCATTCTAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CAAATTCCAAAATAAT
57746 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCC-AAATTCCAAAATAAT
* * *
57781 TCAATTACATTCTAAAACCCAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCCAAATTCCAAAATAAT
57816 TCAATTTC
1 TCAATTTC
57824 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 64 0.90
36 6 0.08
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (34 bp):
TCAATTTCATTCTAAACCCAAATTCCAAAATAAT
Found at i:58923 original size:35 final size:34
Alignment explanation
Indices: 58875--58986 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 34
58865 ATTCCTCCTT
* *
58875 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
58910 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
58945 AAATTGAATT-TCTTTGGAATTTAGGATTTAGAATG
1 AAATTGAATTAT-TTTGGAATTT-GGGTTTAGAATG
58980 AAATTGA
1 AAATTGA
58987 GGAATGTTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 66 0.94
36 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.43
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:59555 original size:21 final size:20
Alignment explanation
Indices: 59469--59626 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
59459 AAATGACCAA
**
59469 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
59488 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
59508 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
59528 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
59549 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
59570 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
59590 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
59611 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
59627 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:59655 original size:20 final size:20
Alignment explanation
Indices: 59593--59786 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
59583 CGATTTTCCA
* ** *
59593 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
59613 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
59633 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
59653 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
59673 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
59693 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
59713 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
59733 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
59753 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
59774 AAATCGCAACGCG
1 AAATCGCAACGCG
59787 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:59677 original size:60 final size:60
Alignment explanation
Indices: 59593--59786 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
59583 CGATTTTCCA
* ** * *
59593 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
59653 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
59713 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
59774 AAATCGCAACGCG
1 AAATCGCAACGCG
59787 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:60206 original size:33 final size:33
Alignment explanation
Indices: 60168--60238 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
60158 TTCACTTAGA
60168 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
60201 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
60234 TTTCA
1 TTTCA
60239 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:60362 original size:20 final size:20
Alignment explanation
Indices: 60318--60425 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 20
60308 TGCAGAAGAG
*
60318 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
60339 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
*
60359 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
60378 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
60392 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
60411 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
60426 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.13
16 4 0.06
17 4 0.06
19 24 0.34
20 18 0.26
21 11 0.16
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:60395 original size:14 final size:14
Alignment explanation
Indices: 60376--60432 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
60366 GCGAAATGAA
60376 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
60390 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
60409 AATCGCAACGAGAG
1 AATCGCAACGAGAG
60423 AATCGCAACG
1 AATCGCAACG
60433 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:60401 original size:33 final size:33
Alignment explanation
Indices: 60330--60448 Score: 166
Period size: 33 Copynumber: 3.4 Consensus size: 33
60320 GCAACGAGAT
60330 AAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGCG
1 AAATGAAAATCGCAACGAGAG-A--A---TCGCAACGCG
60369 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
60402 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
60435 AAACCAAAATCGCA
1 AAATGAAAATCGCA
60449 TTGCGATTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 55 0.71
36 1 0.01
38 1 0.01
39 21 0.27
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:60466 original size:19 final size:19
Alignment explanation
Indices: 60444--60546 Score: 100
Period size: 19 Copynumber: 5.9 Consensus size: 19
60434 GAAACCAAAA
* *
60444 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
60463 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
*
60479 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATC
*
60496 TCGCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATC
60515 TCGCGTTGCGA--TTC-TC
1 TCGCGTTGCGATTTTCATC
60531 T--CGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
60547 TTCAACCAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
14 16 0.23
16 11 0.16
17 8 0.11
19 35 0.50
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATC
Found at i:60527 original size:52 final size:52
Alignment explanation
Indices: 60444--60549 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
60434 GAAACCAAAA
* *
60444 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
60496 TCGCGTTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
60548 TC
1 TC
60550 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:62399 original size:93 final size:93
Alignment explanation
Indices: 62240--62806 Score: 1107
Period size: 93 Copynumber: 6.1 Consensus size: 93
62230 TAGATTGCTT
*
62240 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62305 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
62333 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62398 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
62426 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62491 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
62519 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62584 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
62612 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62677 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
62705 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
62770 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
62798 AGTAAATTT
1 AGTAAATTT
62807 ATCCATTCAA
Statistics
Matches: 471, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 471 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:62890 original size:19 final size:19
Alignment explanation
Indices: 62850--62978 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
62840 TAGTTTACTT
* *
62850 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
62870 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
62889 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
62908 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
*
62922 TCGCAACGCGAAACCATAA
1 TCGCAACGCGAAACCAAAA
*
62941 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
62955 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
62974 TCGCA
1 TCGCA
62979 TTGCGATTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 21
0.74 0.08 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.52
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:62929 original size:33 final size:32
Alignment explanation
Indices: 62886--62978 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
62876 CGCGAAACCA
**
62886 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
62918 AGAATCGCAACGCGAAACCATAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
62951 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
62979 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:62976 original size:52 final size:52
Alignment explanation
Indices: 62850--62978 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 52
62840 TAGTTTACTT
**
62850 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * * *
62902 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCATAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
62955 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
62979 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 41 0.67
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:62996 original size:19 final size:19
Alignment explanation
Indices: 62974--63108 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
62964 GAAACCAAAA
*
62974 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
62993 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
63009 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
63026 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
63042 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
63059 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
63078 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
63098 TCGTGTTGCGA
1 TCGCGTTGCGA
63109 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:63015 original size:14 final size:14
Alignment explanation
Indices: 62996--63052 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
62986 TTTCATTTCG
62996 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
63010 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
63027 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
63043 CGTTGCGATT
1 CGTTGCGATT
63053 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:63021 original size:33 final size:33
Alignment explanation
Indices: 62979--63071 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
62969 CAAAATCGCA
*
62979 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
63012 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
63045 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
63072 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:65041 original size:14 final size:14
Alignment explanation
Indices: 65022--65057 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
65012 ATTGTTTAAT
65022 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
65036 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
65050 TGATTTGT
1 TGATTTGT
65058 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:65188 original size:19 final size:19
Alignment explanation
Indices: 65164--65263 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
65154 AAAATTGACT
65164 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
65183 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
65202 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
65216 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
65235 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
65255 ATCGCAATG
1 ATCGCAATG
65264 GGAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:65293 original size:53 final size:53
Alignment explanation
Indices: 65164--65280 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
65154 AAAATTGACT
65164 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
65216 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
65269 ATCGCAATGCGA
1 ATCGCAATGCGA
65281 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:65298 original size:19 final size:19
Alignment explanation
Indices: 65270--65418 Score: 139
Period size: 19 Copynumber: 8.6 Consensus size: 19
65260 AATGGGAGAA
* *
65270 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
65289 TCGCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
65305 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
65322 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
65341 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
65357 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
65374 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
65390 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
65407 TCCGCATTGCGA
1 T-CGCATTGCGA
65419 AATGTAATGG
Statistics
Matches: 107, Mismatches: 7, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
14 18 0.17
16 21 0.20
17 19 0.18
18 2 0.02
19 41 0.38
20 6 0.06
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:65333 original size:52 final size:52
Alignment explanation
Indices: 65270--65386 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
65260 AATGGGAGAA
*
65270 TCGCAATGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
* *
65322 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
65374 TCGCATTGCGATT
1 TCGCATTGCGATT
65387 CTCTCGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTTTAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATT
Found at i:65364 original size:33 final size:33
Alignment explanation
Indices: 65327--65418 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
65317 TCATTTCGCA
65327 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
65360 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
65393 TTGCGATTTTCATTTCCGCATTGCGA
1 TTGCGATTTTCATTT-CGCATTGCGA
65419 AATGTAATGG
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 48 0.83
34 10 0.17
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:65365 original size:14 final size:14
Alignment explanation
Indices: 65346--65400 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
65336 TCATTTCGCA
65346 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
65360 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
65377 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
65393 TTGCGATT
1 TTGCGATT
65401 TTCATTTCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:65501 original size:19 final size:19
Alignment explanation
Indices: 65477--65574 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
65467 AAAATTGACT
65477 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
65496 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
65515 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
65529 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
65548 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
65568 ATCGCAA
1 ATCGCAA
65575 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:65606 original size:53 final size:53
Alignment explanation
Indices: 65477--65593 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
65467 AAAATTGACT
65477 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
65529 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
65582 ATCGCAATGCGA
1 ATCGCAATGCGA
65594 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:67926 original size:12 final size:12
Alignment explanation
Indices: 67909--67933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67899 TCTTCGGGGA
67909 CTTTTTCTTCTT
1 CTTTTTCTTCTT
67921 CTTTTTCTTCTT
1 CTTTTTCTTCTT
67933 C
1 C
67934 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:68142 original size:24 final size:24
Alignment explanation
Indices: 68108--68154 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
68098 CTGAAACATC
68108 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
68132 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
68155 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:68865 original size:20 final size:20
Alignment explanation
Indices: 68837--69086 Score: 268
Period size: 20 Copynumber: 12.5 Consensus size: 20
68827 AAATTTCAGT
* * *
68837 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
68857 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
68877 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
68897 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
68917 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
68937 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
68957 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
68977 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
*
68997 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
69017 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
69037 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
69057 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
69077 GTTGCGATTT
1 GTTGCGATTT
69087 TGGAAAATCG
Statistics
Matches: 202, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 201 1.00
21 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:69103 original size:21 final size:21
Alignment explanation
Indices: 69073--69155 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
69063 ATTTTCATAT
*
69073 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
69094 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
69115 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
69136 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
69156 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:69146 original size:42 final size:43
Alignment explanation
Indices: 69053--69151 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
69043 ATTTATGTGT
* *
69053 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
69094 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
69136 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
69152 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:91679 original size:21 final size:21
Alignment explanation
Indices: 91650--91702 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
91640 ATTCTGCCTA
91650 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
91671 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
91692 TCGCAATGCGA
1 TCGCATTGCGA
91703 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:91717 original size:20 final size:20
Alignment explanation
Indices: 91692--91765 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
91682 TTTTCCTAAT
91692 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
91712 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
91733 TCACAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
91753 TCGCAATGCGAAT
1 TCGCAATGCGAAT
91766 CTGACTATCG
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
20 27 0.66
21 14 0.34
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:91987 original size:22 final size:22
Alignment explanation
Indices: 91962--92023 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
91952 GGCGACATCC
91962 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
91984 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
92002 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
92024 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:92380 original size:20 final size:20
Alignment explanation
Indices: 92355--92403 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
92345 CAACGAGTGA
92355 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
92375 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
92395 ATCGCAACG
1 ATCGCAACG
92404 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:92470 original size:20 final size:20
Alignment explanation
Indices: 92445--92494 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
92435 TGCGATTCTT
92445 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
92465 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
92485 GTGTTGCGAT
1 GCGTTGCGAT
92495 TTTCATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:92500 original size:20 final size:20
Alignment explanation
Indices: 92462--92516 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
92452 GATAGTCAAA
* **
92462 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
92482 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
92502 TTTGTGTTGCGATTT
1 TTCGTGTTGCGATTT
92517 AAAGTTTCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.51
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:94414 original size:20 final size:20
Alignment explanation
Indices: 94389--94492 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 20
94379 AGAATAGTTT
94389 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
94409 ACTATCGCAACGTGAAAATG
1 ACTATCGCAATGCGAAAATG
*
94429 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
94445 A--ATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
94463 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
94483 ACTATCGCAA
1 ACTATCGCAA
94493 CGAAAGAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
14 6 0.09
16 4 0.06
17 4 0.06
18 3 0.04
20 53 0.76
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:94480 original size:54 final size:54
Alignment explanation
Indices: 94396--94513 Score: 182
Period size: 54 Copynumber: 2.2 Consensus size: 54
94386 TTTACTATCG
** *
94396 CAATGCGAAAATGACTATCGCAACGTGAAAATGACTATCGCAACGAGAGAATCA
1 CAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGAATCA
* **
94450 CAATGCGAAAATGACTATCGCAATACGAAAATGACTATCGCAACGAAAGAATTG
1 CAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGAATCA
94504 CAATGCGAAA
1 CAATGCGAAA
94514 TGAAAATCGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (54 bp):
CAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGAATCA
Found at i:94576 original size:20 final size:20
Alignment explanation
Indices: 94539--94585 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
94529 GATTCTCTCG
*
94539 TTGCGATAGTTAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
94559 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
94579 TTGCGAT
1 TTGCGAT
94586 TTTGTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:94597 original size:34 final size:34
Alignment explanation
Indices: 94559--94652 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 34
94549 TAAATTCGCA
* * *
94559 TTGCGATAGTCATTTTCGCGTTGCGATTTTGTTG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
** * *
94593 TTGCGATTTTCA-TTTCGCATTGCGGTTCTCTCG
1 TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
*
94626 TTGCAATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCGTTGCGAT
94653 AGTCATTTTC
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
33 25 0.53
34 22 0.47
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (34 bp):
TTGCGATAGTCATTTTCGCGTTGCGATTCTCTCG
Found at i:94670 original size:20 final size:20
Alignment explanation
Indices: 94624--94672 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
94614 GCGGTTCTCT
*
94624 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
94644 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
94664 CGTTGCGAT
1 CGTTGCGAT
94673 TTTAAGTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:94682 original size:20 final size:20
Alignment explanation
Indices: 94624--94682 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 20
94614 GCGGTTCTCT
* * *
94624 CGTTGCAATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
94644 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
94664 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
94683 AGATTCTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:95197 original size:18 final size:18
Alignment explanation
Indices: 95174--95243 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 18
95164 CAAGAGGCCT
95174 CCCCTATCATTCAAGAGG
1 CCCCTATCATTCAAGAGG
*
95192 CCCCTATCATCCCTCAAGAGT
1 CCCCTATCAT---TCAAGAGG
*
95213 CCCCTCCCACCATTCAAGAGG
1 CCCCT---ATCATTCAAGAGG
*
95234 CCACTATCAT
1 CCCCTATCAT
95244 CGTTGAAGAG
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
18 14 0.34
21 23 0.56
24 4 0.10
ACGTcount: A:0.26, C:0.41, G:0.11, T:0.21
Consensus pattern (18 bp):
CCCCTATCATTCAAGAGG
Found at i:95208 original size:21 final size:22
Alignment explanation
Indices: 95184--95244 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
95174 CCCCTATCAT
95184 TCAAGAGGCCCCTATCATCC-C
1 TCAAGAGGCCCCTATCATCCAC
* ** *
95205 TCAAGAGTCCCCTCCCA-CCAT
1 TCAAGAGGCCCCTATCATCCAC
*
95226 TCAAGAGGCCACTATCATC
1 TCAAGAGGCCCCTATCATC
95245 GTTGAAGAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.26, C:0.41, G:0.13, T:0.20
Consensus pattern (22 bp):
TCAAGAGGCCCCTATCATCCAC
Found at i:95260 original size:42 final size:42
Alignment explanation
Indices: 95156--95274 Score: 118
Period size: 42 Copynumber: 2.8 Consensus size: 42
95146 GACTCACCTG
* *
95156 TCATCGTTCAAGAGG--CCTCCCCTATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGTCCCT-CCC-AACATTCAAGAGGCCACTA
** *
95198 TCATCCCTCAAGA-GTCCCCTCCCACCATTCAAGAGGCCACTA
1 TCATCGTTCAAGAGGT-CCCTCCCAACATTCAAGAGGCCACTA
* * *
95240 TCATCGTTGAAGAGGTCCCTCTCAACATTCTAGAG
1 TCATCGTTCAAGAGGTCCCTCCCAACATTCAAGAG
95275 CCCGATTCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 54 0.86
43 5 0.08
44 3 0.05
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGTCCCTCCCAACATTCAAGAGGCCACTA
Found at i:96637 original size:14 final size:14
Alignment explanation
Indices: 96618--96653 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
96608 ATTGTTTAAT
96618 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
96632 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
96646 TGATTTGT
1 TGATTTGT
96654 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:96805 original size:33 final size:33
Alignment explanation
Indices: 96766--96833 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
96756 TCGCAACGTG
** *
96766 GAAATGACTATCGCAATGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
96799 GAAATGAAAATCGCAACGAGTGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
96832 GA
1 GA
96834 TTTTCATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:96851 original size:19 final size:19
Alignment explanation
Indices: 96823--96873 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
96813 AACGAGTGAA
*
96823 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
96842 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
96861 TCGCATTACGATT
1 TCGCATTGCGATT
96874 CTCTCGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.43
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:96903 original size:20 final size:20
Alignment explanation
Indices: 96878--96971 Score: 161
Period size: 20 Copynumber: 4.7 Consensus size: 20
96868 ACGATTCTCT
96878 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
96898 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
96918 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
96938 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
96958 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
96972 AATGAATGTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:99206 original size:24 final size:24
Alignment explanation
Indices: 99172--99225 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
99162 CTGAAATATC
99172 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
99196 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
99220 ATCAAA
1 ATCAAA
99226 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:99239 original size:24 final size:24
Alignment explanation
Indices: 99172--99239 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
99162 CTGAAATATC
* * *
99172 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
99196 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
99220 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
99240 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:100100 original size:20 final size:20
Alignment explanation
Indices: 100087--100233 Score: 206
Period size: 20 Copynumber: 7.3 Consensus size: 20
100077 CAGAATCTCG
*
100087 TTGCGATTTACAG-ATTCGCA
1 TTGCGATTTAC-GTAATCGCA
100107 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
100127 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
100147 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTAATCGCA
*
100167 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
* ** *
100187 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTAA-TCGCA
*
100208 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCA
100228 TTGCGA
1 TTGCGA
100234 ATTAGGAAAA
Statistics
Matches: 113, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 1 0.01
20 97 0.86
21 15 0.13
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGCGATTTACGTAATCGCA
Found at i:100253 original size:21 final size:21
Alignment explanation
Indices: 100223--100275 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
100213 ATTTACGTAT
*
100223 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
100244 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
100265 TCGCAATGCGA
1 TCGCAATGCGA
100276 TAGTTAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:104522 original size:41 final size:41
Alignment explanation
Indices: 104465--104546 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
104455 TAATTGGTGC
* *
104465 TTCTTGCTCCATTTCCGACACATATTTGGACATGAAAGGAT
1 TTCTTGCTCCATTTCCGACACATAATCGGACATGAAAGGAT
104506 TTCTTGCTCCATTTCCGACACATAATCGGACATGAAAGGAT
1 TTCTTGCTCCATTTCCGACACATAATCGGACATGAAAGGAT
104547 CCTTATGACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (41 bp):
TTCTTGCTCCATTTCCGACACATAATCGGACATGAAAGGAT
Found at i:108612 original size:173 final size:170
Alignment explanation
Indices: 108322--108829 Score: 864
Period size: 165 Copynumber: 3.0 Consensus size: 170
108312 CCCTCCCACC
* * *
108322 AATGTGATCCACTGCCCTCCTTTCATCATCGTTGCAAGGCACGAGTGGTTCTTCAGAAAATGGCG
1 AATGTGATCCACTGCCCTCCTTTCATAATCATTGTAAGGCACGAGTGGTTCTTCAGAAAATGGCG
108387 CAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTGAGCTGAGGAACT
66 CAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTGAGCTGAGGAACT
108452 GATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
131 GATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
* * *
108492 GATGATGTGATCCACTGTCCTCCTTTCATTATCATTGTAAGGCACGAGTGGTTCTTCGGAAAATG
1 -A--ATGTGATCCACTGCCCTCCTTTCATAATCATTGTAAGGCACGAGTGGTTCTTCAGAAAATG
* *
108557 GCGCAATCTTTCTCTACTATTCACTGGACATTACATTATCACTTTCACCATGCTTGAGCTGAGGA
63 GCGCAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTGAGCTGAGGA
*
108622 ACTGATAAGGGAAAAATCTTTGACTGTGAAAATAGC-----GT
128 ACTGATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
108660 AATGTGATCCACTGCCCTCCTTTCATAATCATTGTAAGGCACGAGTGGTTCTTCAGAAAATGGCG
1 AATGTGATCCACTGCCCTCCTTTCATAATCATTGTAAGGCACGAGTGGTTCTTCAGAAAATGGCG
*
108725 CAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTCAGCTGAGGAACT
66 CAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTGAGCTGAGGAACT
108790 GATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
131 GATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
108830 TATTTCACAT
Statistics
Matches: 315, Mismatches: 15, Indels: 15
0.91 0.04 0.04
Matches are distributed among these distances:
165 155 0.49
167 1 0.00
168 2 0.01
170 2 0.01
171 1 0.00
173 154 0.49
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (170 bp):
AATGTGATCCACTGCCCTCCTTTCATAATCATTGTAAGGCACGAGTGGTTCTTCAGAAAATGGCG
CAATCTTTCTCTACTATTCACCGGACACTACATTATCACTTTCACCATGCTTGAGCTGAGGAACT
GATAAGGGAAAAACCTTTGACTGTGAAAATAGCGTAATGT
Found at i:118029 original size:26 final size:28
Alignment explanation
Indices: 118000--118052 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
117990 GATGTTTTTT
*
118000 TTAATTTATTATATCA-T-TTTTATATG
1 TTAAATTATTATATCATTATTTTATATG
*
118026 TTAAATTATTATTTCATTATTTTATAT
1 TTAAATTATTATATCATTATTTTATAT
118053 ATAATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 1 0.04
28 8 0.35
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (28 bp):
TTAAATTATTATATCATTATTTTATATG
Found at i:123425 original size:18 final size:17
Alignment explanation
Indices: 123402--123446 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
123392 CATTTTTATA
123402 AAATTAAAAAAAATATTT
1 AAATTAAAAAAAA-ATTT
123420 AAATT-AAAAAAAATTT
1 AAATTAAAAAAAAATTT
123436 AAATTAAAAAA
1 AAATTAAAAAA
123447 TTAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAAAAATTT
Found at i:123430 original size:16 final size:16
Alignment explanation
Indices: 123409--123447 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
123399 ATAAAATTAA
123409 AAAAAATATTTAAATT
1 AAAAAATATTTAAATT
*
123425 AAAAAAAATTTAAATT
1 AAAAAATATTTAAATT
123441 AAAAAAT
1 AAAAAAT
123448 TAAAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAAATATTTAAATT
Found at i:123444 original size:15 final size:15
Alignment explanation
Indices: 123409--123459 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
123399 ATAAAATTAA
123409 AAAAAATATTTAAATT
1 AAAAAA-ATTTAAATT
123425 AAAAAAAATTTAAATT
1 -AAAAAAATTTAAATT
*
123441 -AAAAAATTAAAAATT
1 AAAAAAATT-TAAATT
123456 AAAA
1 AAAA
123460 TTTCTTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
14 8 0.26
15 5 0.16
16 12 0.39
17 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAAAATTTAAATT
Done.