Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_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: 3838456
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:4517 original size:29 final size:29
Alignment explanation
Indices: 4471--4557 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
4461 AACTCTCACC
4471 TAATTAAATTGATGTAAGCAATGACATCAT
1 TAATTAAA-TGATGTAAGCAATGACATCAT
*
4501 TAATTAAATGATGTAAGCAATGACATCTT
1 TAATTAAATGATGTAAGCAATGACATCAT
*
4530 TAATTAAATGATGTAAGTAATGACATCA
1 TAATTAAATGATGTAAGCAATGACATCA
4558 ATTTAGTTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 46 0.85
30 8 0.15
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (29 bp):
TAATTAAATGATGTAAGCAATGACATCAT
Found at i:19648 original size:3 final size:3
Alignment explanation
Indices: 19640--19705 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
19630 CATATGATAT
19640 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19688 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
19706 ATCGTTAGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:26485 original size:24 final size:24
Alignment explanation
Indices: 26430--26485 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
26420 TTTTTGTAAT
*
26430 TCTAGCCTCGTCCACGACCTCGACT
1 TCTA-CCTCGTCCACGACCTCGACA
* * *
26455 TCCACCTCGTCCATGACCTCTACA
1 TCTACCTCGTCCACGACCTCGACA
26479 TCTACCT
1 TCTACCT
26486 TGGCCACGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.18, C:0.45, G:0.11, T:0.27
Consensus pattern (24 bp):
TCTACCTCGTCCACGACCTCGACA
Found at i:29530 original size:24 final size:25
Alignment explanation
Indices: 29494--29545 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
29484 CATTATCTTA
* *
29494 TTTTATTTTATTTATTT-TTCTTTT
1 TTTTATTTGATTTATTTATTCATTT
*
29518 TTTTCTTTGATTTATTTATTCATTT
1 TTTTATTTGATTTATTTATTCATTT
29543 TTT
1 TTT
29546 ATATAACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (25 bp):
TTTTATTTGATTTATTTATTCATTT
Found at i:29967 original size:6 final size:6
Alignment explanation
Indices: 29956--29981 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
29946 GCGAAAATGG
29956 TAAATT TAAATT TAAATT TAAATT TA
1 TAAATT TAAATT TAAATT TAAATT TA
29982 TTTATTCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAAATT
Found at i:30616 original size:17 final size:17
Alignment explanation
Indices: 30596--30628 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30586 CTCACTAACC
*
30596 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
30613 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
30629 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:31260 original size:18 final size:19
Alignment explanation
Indices: 31239--31283 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
31229 ATTTAGACAT
31239 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTGTTATTTTC
31257 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
31276 TTTGCATT
1 TTTGCATT
31284 CACATTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:34907 original size:164 final size:162
Alignment explanation
Indices: 34711--35456 Score: 713
Period size: 164 Copynumber: 4.5 Consensus size: 162
34701 CTATTTGCCA
* * *
34711 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTACATCATTTGTAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * * *
34776 CGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTTGAGGGCATATCATTC
66 CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCATATCATTT
* *
34841 ACATCATAACTCAAGTCTAGAAGGGTTATCTGTT
130 ACAGCATAACTCAAGTCTAGAAGGGTTATCTG-C
* * * * * * *
34875 ATCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATAATTTGCAGCACAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGT
* * * *** * * * * *
34940 CTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCA
66 CGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCATATCA
* * * * *
35005 TTTGCAGCATAGCTTAAGTCGAGAAGAGTTATCTG-
127 TTTACAGCATAACTCAAGTCTAGAAGGGTTATCTGC
** * * * * * ** * *
35040 -CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTCACAGCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAGCATAGCTTAAG
* * * ** * *
35104 TCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCA
65 TCGAGAAGGGCTATC--T-GCCAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCATATCA
* * * *
35169 TTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCC
127 TTTACAGCATAACTCAAGTCTAGAAGGGTTATCTG-C
* * *
35206 AACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAG
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAG
* *
35271 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATATCATT
65 TCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCATATCATT
** * * *
35336 TACAATATAGCTCAAGACTAGAAGGGTTATATGCC
129 TACAGCATAACTCAAGTCTAGAAGGGTTATCTG-C
* * * *
35371 AACCAAAGACCTTCGAGTTCAACTATGCTCAGCTCCAAGGCACATCATCTGCAGCATAGCTTAAG
1 -ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAG
*
35436 TCGAGAAGAGCTATCTGCCAA
65 TCGAGAAGGGCTATCTGCCAA
35457 CCGAGGACCT
Statistics
Matches: 472, Mismatches: 97, Indels: 25
0.79 0.16 0.04
Matches are distributed among these distances:
164 188 0.40
165 158 0.33
167 78 0.17
168 48 0.10
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (162 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGCATAGCTTAAGT
CGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCATATCATTTA
CAGCATAACTCAAGTCTAGAAGGGTTATCTGC
Found at i:34966 original size:84 final size:83
Alignment explanation
Indices: 34695--35494 Score: 695
Period size: 84 Copynumber: 9.7 Consensus size: 83
34685 CTCAAGACAG
* * * * *
34695 GAAGGGCTATTTGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTACATCATTT
1 GAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTT
* * *
34760 GTAGCATAGCTTAAGTCGA
65 GCAGCATAACTTAAGTCTA
* * ** * * ** * *
34779 GAAGAGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACACTCAACTTTGAGGGCATATCATTC
1 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTT
* * *
34841 ACATCATAACTCAAGTCTA
65 GCAGCATAACTTAAGTCTA
** * * * *
34860 GAAGGGTTATCTGTTATCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATAATTTG
1 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
*
34925 CAGCACAACTTAAGTCTA
66 CAGCATAACTTAAGTCTA
* * * * *
34943 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGACACATCATT
1 GAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCATATCATT
* *
35007 TGCAGCATAGCTTAAGTCGA
64 TGCAGCATAACTTAAGTCTA
* ** * * * *
35027 GAAGAGTTATCTG-C--CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTC
1 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTT
* *
35089 ACAGCATAACTCAAGTCTA
65 GCAGCATAACTTAAGTCTA
** *
35108 GAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
1 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
*
35173 CAGCACAACTTAAGTCTA
66 CAGCATAACTTAAGTCTA
* * * *
35191 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATT
1 GAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCATATCATT
* *
35255 TGCAGCATAGCTTAAGTCGA
64 TGCAGCATAACTTAAGTCTA
* ** * ** *
35275 GAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATATCATTT
1 GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTT
* ** * * *
35337 ACAATATAGCTCAAGACTA
65 GCAGCATAACTTAAGTCTA
* * ** * *
35356 GAAGGGTTATATGCCAACCAAAGACCTTCGAGTTCAACTATGCTCAGCTCCAAGGCACATCATCT
1 GAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTT
* *
35421 GCAGCATAGCTTAAGTCGA
65 GCAGCATAACTTAAGTCTA
* * * * * * *
35440 GAAGAGCTATCTGCCAACCGAGGACCTTTGAGTTCGATTACACTCAGCTCAAAGG
1 GAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGG
35495 TAAATCAAGT
Statistics
Matches: 568, Mismatches: 129, Indels: 38
0.77 0.18 0.05
Matches are distributed among these distances:
80 74 0.13
81 109 0.19
82 4 0.01
83 93 0.16
84 264 0.46
85 24 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
GAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
CAGCATAACTTAAGTCTA
Found at i:35110 original size:248 final size:248
Alignment explanation
Indices: 34706--35491 Score: 1194
Period size: 248 Copynumber: 3.2 Consensus size: 248
34696 AAGGGCTATT
* * * * *
34706 TGCCAACCAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGTACATCATTTGTAGCATAGCT
1 TGCCAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCT
*
34771 TAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAACTTTGAGGGCATAT
66 TAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
* * *
34836 CATTCACATCATAACTCAAGTCTAGAAGGGTTATCTGTTATCAAAGACCTTCGAGTTCGACTACG
131 CATTCACAACATAACTCAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACG
* *
34901 CTCAGCTCCAAGACATATAATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
196 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
* *
34954 TGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAGCATAGCT
1 TGCCAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCT
* *
35019 TAAGTCGAGAAGAGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATAT
66 TAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
* * * *
35084 CATTCACAGCATAACTCAAGTCTAGAAGGGTTATCTATCACCAAAGACCTTCGAGTTCGACTACA
131 CATTCACAACATAACTCAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACG
35149 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
196 CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
*
35202 TGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCT
1 TGCCAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCT
*
35267 TAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
66 TAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
* * * * * * * *
35332 CATTTACAATATAGCTCAAGACTAGAAGGGTTATATGCCAACCAAAGACCTTCGAGTTCAACTAT
131 CATTCACAACATAACTCAAGTCTAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTAC
* * * * * * * *
35397 GCTCAGCTCCAAGGCACATCATCTGCAGCATAGCTTAAGTCGAGAAGAGCTATC
195 GCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
** * *
35451 TGCCAACCGAGGACCTTTGAGTTCGATTACACTCAGCTCAA
1 TGCCAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAA
35492 AGGTAAATCA
Statistics
Matches: 491, Mismatches: 46, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
248 387 0.79
249 104 0.21
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (248 bp):
TGCCAACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCT
TAAGTCGAGAAGAGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCATAT
CATTCACAACATAACTCAAGTCTAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTC
Found at i:37890 original size:23 final size:23
Alignment explanation
Indices: 37864--37921 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 23
37854 TAATTCATTA
*
37864 TCTTATTTTATTTTATTTATTT-T
1 TCTT-TTTTATTTGATTTATTTAT
*
37887 TCTTTTTTTCTTTGATTTATTTAT
1 TC-TTTTTTATTTGATTTATTTAT
37911 TCATTTTTTAT
1 TC-TTTTTTAT
37922 ATAACATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 17 0.59
24 12 0.41
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.76
Consensus pattern (23 bp):
TCTTTTTTATTTGATTTATTTAT
Found at i:38005 original size:12 final size:12
Alignment explanation
Indices: 37988--38014 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37978 GAATCGAGTT
37988 TTTAAATTTCAA
1 TTTAAATTTCAA
38000 TTTAAATTTCAA
1 TTTAAATTTCAA
38012 TTT
1 TTT
38015 TTCACAAATA
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTTCAA
Found at i:42623 original size:18 final size:18
Alignment explanation
Indices: 42602--42657 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
42592 TGAATTTAAT
42602 ATCAAATTTAAATTATTG
1 ATCAAATTTAAATTATTG
42620 ATCAAA-TT-AATTCA---
1 ATCAAATTTAAATT-ATTG
42634 ATCAAATTTAAATTATTG
1 ATCAAATTTAAATTATTG
42652 ATCAAA
1 ATCAAA
42658 ATAAATTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 6 0.19
15 3 0.09
16 8 0.25
17 3 0.09
18 12 0.38
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (18 bp):
ATCAAATTTAAATTATTG
Found at i:43102 original size:12 final size:12
Alignment explanation
Indices: 43085--43135 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
43075 TTCAAAGAGG
43085 TTTTATATTTAA
1 TTTTATATTTAA
43097 TTTTATA-TTATA
1 TTTTATATTTA-A
*
43109 TTTGAT-TTTAA
1 TTTTATATTTAA
43120 TTTTA-ATATTAA
1 TTTTATAT-TTAA
43132 TTTT
1 TTTT
43136 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:43189 original size:12 final size:12
Alignment explanation
Indices: 43093--43196 Score: 83
Period size: 12 Copynumber: 8.7 Consensus size: 12
43083 GGTTTTATAT
43093 TTAATTTT-ATA
1 TTAATTTTAATA
* *
43104 TT-ATATTTGATT
1 TTAAT-TTTAATA
43116 TTAATTTTAATA
1 TTAATTTTAATA
43128 TTAATTTTTTAA-A
1 TTAA--TTTTAATA
* *
43141 -TAAATTAAATA
1 TTAATTTTAATA
43152 TTAATTTTTAATA
1 TTAA-TTTTAATA
*
43165 TT-ATTATAGATA
1 TTAATTTTA-ATA
43177 TTAATTTTAATA
1 TTAATTTTAATA
43189 TTAATTTT
1 TTAATTTT
43197 TTAATTTATT
Statistics
Matches: 74, Mismatches: 9, Indels: 19
0.73 0.09 0.19
Matches are distributed among these distances:
10 6 0.08
11 10 0.14
12 36 0.49
13 16 0.22
14 6 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TTAATTTTAATA
Found at i:43207 original size:12 final size:14
Alignment explanation
Indices: 43120--43253 Score: 60
Period size: 14 Copynumber: 10.1 Consensus size: 14
43110 TTGATTTTAA
43120 TTTTAATATTAATT
1 TTTTAATATTAATT
43134 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
43144 ATTAAATATTAA-T
1 TTTTAATATTAATT
43157 TTTTAATATT-A--
1 TTTTAATATTAATT
*
43168 TTATAGATATTAA--
1 TTTTA-ATATTAATT
43181 TTTTAATATTAATT
1 TTTTAATATTAATT
43195 TTTTAAT-TT-ATT
1 TTTTAATATTAATT
* *
43207 TTATATCATATAAATT
1 TT-T-TAATATTAATT
*
43223 ATTTT-ATATTTATT
1 -TTTTAATATTAATT
* *
43237 ATTTTTATATTTATT
1 -TTTTAATATTAATT
43252 TT
1 TT
43254 AATTATTTTG
Statistics
Matches: 97, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
10 4 0.04
11 5 0.05
12 24 0.25
13 17 0.18
14 30 0.31
15 11 0.11
16 4 0.04
17 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:43244 original size:15 final size:14
Alignment explanation
Indices: 43220--43251 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
43210 TATCATATAA
43220 ATTATTTTATATTT
1 ATTATTTTATATTT
43234 ATTATTTTTATATTT
1 ATTA-TTTTATATTT
43249 ATT
1 ATT
43252 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTATTTTATATTT
Found at i:43258 original size:21 final size:20
Alignment explanation
Indices: 43221--43267 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
43211 ATCATATAAA
43221 TTATTTTATATTTATTATTT
1 TTATTTTATATTTATTATTT
43241 TTATATTTAT-TTTAATTATTT
1 TTAT-TTTATATTT-ATTATTT
*
43262 TGATTT
1 TTATTT
43268 AAGTTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTATTTTATATTTATTATTT
Found at i:47416 original size:24 final size:24
Alignment explanation
Indices: 47389--47434 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
47379 CACTCCTGTC
47389 AGCTTCCAGGTGGTCTGGTTTGTT
1 AGCTTCCAGGTGGTCTGGTTTGTT
47413 AGCTTCCAGGTGGTCTGGTTTG
1 AGCTTCCAGGTGGTCTGGTTTG
47435 GCAGCTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.17, G:0.35, T:0.39
Consensus pattern (24 bp):
AGCTTCCAGGTGGTCTGGTTTGTT
Found at i:47440 original size:24 final size:24
Alignment explanation
Indices: 47388--47441 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
47378 TCACTCCTGT
*
47388 CAGCTTCCAGGTGGTCTGGTTTGT
1 CAGCTTCCAGGTGGTCTGGTTTGG
*
47412 TAGCTTCCAGGTGGTCTGGTTTGG
1 CAGCTTCCAGGTGGTCTGGTTTGG
47436 CAGCTT
1 CAGCTT
47442 TAGTCGGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.09, C:0.20, G:0.33, T:0.37
Consensus pattern (24 bp):
CAGCTTCCAGGTGGTCTGGTTTGG
Found at i:48548 original size:16 final size:17
Alignment explanation
Indices: 48520--48552 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
48510 ATCGCCAACA
48520 AAATTTCACTATTCACG
1 AAATTTCACTATTCACG
48537 AAATTT-ACTATTCACG
1 AAATTTCACTATTCACG
48553 TAAACAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATTTCACTATTCACG
Found at i:49889 original size:16 final size:16
Alignment explanation
Indices: 49868--49900 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49858 AATGAAAGTA
49868 ACTTCCCTTTTCAACC
1 ACTTCCCTTTTCAACC
49884 ACTTCCCTTTTCAACC
1 ACTTCCCTTTTCAACC
49900 A
1 A
49901 TCCAATCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.36
Consensus pattern (16 bp):
ACTTCCCTTTTCAACC
Found at i:56619 original size:36 final size:34
Alignment explanation
Indices: 56542--56611 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
56532 TCGATCTAAC
*
56542 AAGGAGAAAACAATGACAATTCTCTCTTGATAAA
1 AAGGAAAAAACAATGACAATTCTCTCTTGATAAA
56576 AAGGAAAAAACAATGACAATTCTCTCTTGATAAA
1 AAGGAAAAAACAATGACAATTCTCTCTTGATAAA
56610 AA
1 AA
56612 TGAGAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.23
Consensus pattern (34 bp):
AAGGAAAAAACAATGACAATTCTCTCTTGATAAA
Found at i:63256 original size:22 final size:22
Alignment explanation
Indices: 63201--63249 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
63191 ATTTAAAAAT
*
63201 TAATAATTAATTTTTTATAATAAA
1 TAAT-ATTAA-TTATTATAATAAA
*
63225 TAATATTAATTATTATATTAAA
1 TAATATTAATTATTATAATAAA
63247 TAA
1 TAA
63250 ATGTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 5 0.22
24 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATATTAATTATTATAATAAA
Found at i:66480 original size:42 final size:43
Alignment explanation
Indices: 66419--66503 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 43
66409 GTCAGAGAAT
** *
66419 ATGTTATCATTGTCATATTA-TCACTCATGTCCCTCGGGGGCC
1 ATGTTATCATTACCATATTAGTCACTCATGTCCCTCGAGGGCC
*
66461 ATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGAGGGC
1 ATGTTATCATTACCATATTA-GTCACTCATGTCCCTCGAGGGC
66504 ACTATTCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 17 0.46
44 20 0.54
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (43 bp):
ATGTTATCATTACCATATTAGTCACTCATGTCCCTCGAGGGCC
Found at i:66639 original size:44 final size:44
Alignment explanation
Indices: 66576--66660 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
66566 TGTCAGAGAA
* *
66576 TATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGTGC
1 TATGTTATCATTACCCTATTATGTCACTCAGGTCCCTCGGGTGC
66620 TATGTTATCATTACCCTATTATGTCACTCAGGTCCCTCGGG
1 TATGTTATCATTACCCTATTATGTCACTCAGGTCCCTCGGG
66661 GCATTATTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (44 bp):
TATGTTATCATTACCCTATTATGTCACTCAGGTCCCTCGGGTGC
Found at i:66657 original size:160 final size:160
Alignment explanation
Indices: 66372--67251 Score: 1439
Period size: 160 Copynumber: 5.5 Consensus size: 160
66362 TACTATTCAC
* * *
66372 GTGAAGGCGCGTTCCC-GGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGTCAT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
66435 ATTA--TCACTCATGTCCCTCGGGGGCCATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
66 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
66498 GAGGGCACTATTCATGTCAGTACCCAAAGTG
131 G-GGGCACTATTCATGTCAGTACCCAAAGTG
* *
66529 GTAAAAGCGCGCTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
66593 ATTATGTCACTCATGTCCCTCGGGTGCTATGTTATCATTACCCTATTATGTCACTCAGGTCCCTC
66 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
*
66658 GGGGCATTATTCATGTCAGTACCCAAAGTG
131 GGGGCACTATTCATGTCAGTACCCAAAGTG
* * *
66688 GTGAAAGCGCGTTCCCGGGGGCGCGTCTTGCATTATTTTGTCAGAAAATATGTTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
66753 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGCCACGCATGTCCCTC
66 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
66818 GGGGCACTATTCATGTCAGTACCCAAAGTG
131 GGGGCACTATTCATGTCAGTACCCAAAGTG
* * *
66848 GTGAAAGTGCGTTCCCGGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* * *
66913 ATTATGTCACTCATGTCCCTCGAGGGATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTC
66 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
66978 GGGGACACTATTCATGTCAGTACCCAAAGTG
131 GGGG-CACTATTCATGTCAGTACCCAAAGTG
* * *
67009 GTGAAAGCGCGTTCCTGGGGGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
67074 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTGTTATGCCACTCATGTCCCTC
66 ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
* *
67139 -GGGAACTATTAATGTCAGTACCCAAAGTG
131 GGGGCACTATTCATGTCAGTACCCAAAGTG
*
67168 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCTTTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
67233 ATTATGTCACTCATATCCC
66 ATTATGTCACTCATGTCCC
67252 CCGTAGAACT
Statistics
Matches: 672, Mismatches: 46, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
157 13 0.02
158 49 0.07
159 150 0.22
160 313 0.47
161 147 0.22
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (160 bp):
GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCTCGGGGGCTATGTTATCATTACCCTATTATGTCACTCATGTCCCTC
GGGGCACTATTCATGTCAGTACCCAAAGTG
Found at i:66799 original size:44 final size:44
Alignment explanation
Indices: 66736--66821 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
66726 TGTCAGAAAA
* * *
66736 TATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGGC
1 TATGTTATCATTACCCTATTATGCCACGCATGTCCCTCGGGGGC
66780 TATGTTATCATTACCCTATTATGCCACGCATGTCCCTCGGGG
1 TATGTTATCATTACCCTATTATGCCACGCATGTCCCTCGGGG
66822 CACTATTCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (44 bp):
TATGTTATCATTACCCTATTATGCCACGCATGTCCCTCGGGGGC
Found at i:66932 original size:20 final size:20
Alignment explanation
Indices: 66909--66976 Score: 50
Period size: 20 Copynumber: 3.2 Consensus size: 20
66899 GTTATCATTA
66909 CCCTATTATGTCACTCATGT
1 CCCTATTATGTCACTCATGT
* *
66929 CCCTCGAGGGATATGTTA-TCAT-T
1 CCCT--A---TTATGTCACTCATGT
66952 GCCCTATTATGTCACTCATGT
1 -CCCTATTATGTCACTCATGT
66973 CCCT
1 CCCT
66977 CGGGGACACT
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 6 0.17
20 12 0.33
21 1 0.03
22 2 0.06
23 1 0.03
24 8 0.22
25 6 0.17
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (20 bp):
CCCTATTATGTCACTCATGT
Found at i:66958 original size:44 final size:43
Alignment explanation
Indices: 66895--66982 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 43
66885 TTGTCAGAGA
66895 ATATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGAGGG
1 ATATGTTATCATTACCCTATTATGTCACTCATGTCCCTCG-GGG
*
66939 ATATGTTATCATTGCCCTATTATGTCACTCATGTCCCTCGGGG
1 ATATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGG
66982 A
1 A
66983 CACTATTCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (43 bp):
ATATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGG
Found at i:67123 original size:44 final size:44
Alignment explanation
Indices: 67057--67141 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
67047 TGTCAGAGAA
*
67057 TATGTTATCATTACCCTATTATGTCACTCATGTCCCTCGGGGGC
1 TATGTTATCATTACCCTATTATGCCACTCATGTCCCTCGGGGGC
*
67101 TATGTTATCATTACCCTGTTATGCCACTCATGTCCCTCGGG
1 TATGTTATCATTACCCTATTATGCCACTCATGTCCCTCGGG
67142 AACTATTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (44 bp):
TATGTTATCATTACCCTATTATGCCACTCATGTCCCTCGGGGGC
Found at i:67423 original size:60 final size:60
Alignment explanation
Indices: 67314--67440 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
67304 GCGCGTCCCA
* * * ** * *
67314 GGGATGCGCCTTATCCACGTGGCATCCGATTCAGCAGATCCCATATAAAACGCATCCCCG
1 GGGATGCGCCTTATCCACGTGGCATCCCAGTCAGCAAAAACCAGATAAAACACATCCCCG
* * *
67374 GGGATGCGCCTTA-CACGCGTGGCATCCCAGTCAGCAAAAACCAGGTAAAACACGTCCCCG
1 GGGATGCGCCTTATC-CACGTGGCATCCCAGTCAGCAAAAACCAGATAAAACACATCCCCG
67434 GGGATGC
1 GGGATGC
67441 TCTTTTGTGC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (60 bp):
GGGATGCGCCTTATCCACGTGGCATCCCAGTCAGCAAAAACCAGATAAAACACATCCCCG
Found at i:74465 original size:21 final size:21
Alignment explanation
Indices: 74428--74486 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
74418 TTTTGGTGCA
74428 GAGGGAATCGA-TCCCCCCAT
1 GAGGGAATCGATTCCCCCCAT
*
74448 GAGGGAACCGATTCCCCCCAT
1 GAGGGAATCGATTCCCCCCAT
*
74469 -AGGGGAATCGATACCCCC
1 GA-GGGAATCGATTCCCCC
74487 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.32
21 23 0.68
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.14
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCAT
Found at i:78662 original size:142 final size:142
Alignment explanation
Indices: 78406--78693 Score: 567
Period size: 142 Copynumber: 2.0 Consensus size: 142
78396 AAGTTTAAAG
*
78406 ATTTTCGAAGAATGTGTGAAAAGCTAGGCGTGGCGAAGAAATGTTCAAATTAAAAGAGAGTGTTG
1 ATTTTCGAAGAATGTGTGAAAAGCTAGGCGTGACGAAGAAATGTTCAAATTAAAAGAGAGTGTTG
78471 AATATTATGATTTAAACATGATATTCTACGAATAAGTGTAATATGTATGTGACTATTCATCAAGA
66 AATATTATGATTTAAACATGATATTCTACGAATAAGTGTAATATGTATGTGACTATTCATCAAGA
78536 GTGGATATGCCT
131 GTGGATATGCCT
78548 ATTTTCGAAGAATGTGTGAAAAGCTAGGCGTGACGAAGAAATGTTCAAATTAAAAGAGAGTGTTG
1 ATTTTCGAAGAATGTGTGAAAAGCTAGGCGTGACGAAGAAATGTTCAAATTAAAAGAGAGTGTTG
78613 AATATTATGATTTAAACATGATATTCTACGAATAAGTGTAATATGTATGTGACTATTCATCAAGA
66 AATATTATGATTTAAACATGATATTCTACGAATAAGTGTAATATGTATGTGACTATTCATCAAGA
78678 GTGGATATGCCT
131 GTGGATATGCCT
78690 ATTT
1 ATTT
78694 ATGATGAATA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 145 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (142 bp):
ATTTTCGAAGAATGTGTGAAAAGCTAGGCGTGACGAAGAAATGTTCAAATTAAAAGAGAGTGTTG
AATATTATGATTTAAACATGATATTCTACGAATAAGTGTAATATGTATGTGACTATTCATCAAGA
GTGGATATGCCT
Found at i:86566 original size:3 final size:3
Alignment explanation
Indices: 86558--86629 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
86548 CACACCCTAT
86558 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
86606 ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
86630 GATTTAAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:89106 original size:36 final size:36
Alignment explanation
Indices: 89074--89205 Score: 110
Period size: 35 Copynumber: 3.7 Consensus size: 36
89064 GCAGGTTTAG
89074 CTCTGATCAAGCTAGTAATTCCTTATATAGGTTCAA
1 CTCTGATCAAGCTAGTAATTCCTTATATAGGTTCAA
* * * * *
89110 CTCTGATCAAGCTGGTAATTTCTTATACATGTTTAA
1 CTCTGATCAAGCTAGTAATTCCTTATATAGGTTCAA
* * * * * *
89146 CACCGATC-GGCTGGTAATTCTTTATATATGTTCATTA
1 CTCTGATCAAGCTAGTAATTCCTTATATAGGTTCA--A
*
89183 C-C-GATCAA-CTGGTAATTCCTTAT
1 CTCTGATCAAGCTAGTAATTCCTTAT
89206 GGATCTAAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
35 39 0.49
36 38 0.48
37 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (36 bp):
CTCTGATCAAGCTAGTAATTCCTTATATAGGTTCAA
Found at i:91060 original size:3 final size:3
Alignment explanation
Indices: 91052--91109 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
91042 ACCCTATTTT
91052 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
91100 ATA ATA ATA A
1 ATA ATA ATA A
91110 ATTAAAGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94408 original size:20 final size:19
Alignment explanation
Indices: 94371--94418 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
94361 TCTAAATCTT
*
94371 TTTTCAAAATTTCATTTTG
1 TTTTCAAAATTCCATTTTG
94390 ATTTTCAAAA-TCCATTTTTG
1 -TTTTCAAAATTCCA-TTTTG
*
94410 CTTTCAAAA
1 TTTTCAAAA
94419 GAAAATCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTTCAAAATTCCATTTTG
Found at i:97425 original size:44 final size:44
Alignment explanation
Indices: 97376--97479 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 44
97366 TGGTATATGG
*
97376 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAAC
1 TTATGGATA-AATGGCAAGTGTATGGGTAAAATAAGCTTACGAAC
* * * *
97420 TTATGGATAAATGGTAAGTGTATGGGTAAAATAATCTTATGAGC
1 TTATGGATAAATGGCAAGTGTATGGGTAAAATAAGCTTACGAAC
97464 TTATGGTATTAAATGG
1 TTATGG-A-TAAATGG
97480 TAAGATATTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 43 0.83
45 2 0.04
46 7 0.13
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.34
Consensus pattern (44 bp):
TTATGGATAAATGGCAAGTGTATGGGTAAAATAAGCTTACGAAC
Found at i:100516 original size:35 final size:35
Alignment explanation
Indices: 100465--100538 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
100455 GTCTCTACAG
*
100465 GTTGTTAATTCCTTATATAGGTTCATTATCGATCA
1 GTTGATAATTCCTTATATAGGTTCATTATCGATCA
100500 GTTGATAATTCCTTATATAGGTTCATTATCGATCA
1 GTTGATAATTCCTTATATAGGTTCATTATCGATCA
100535 GTTG
1 GTTG
100539 GTAACTCTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.45
Consensus pattern (35 bp):
GTTGATAATTCCTTATATAGGTTCATTATCGATCA
Found at i:114615 original size:22 final size:22
Alignment explanation
Indices: 114585--114627 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
114575 GATTAGTCGT
* *
114585 TAATCTTATCAATTTATAATAC
1 TAATATTATCAAATTATAATAC
114607 TAATATTATCAAATTATAATA
1 TAATATTATCAAATTATAATA
114628 AATTGACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATATTATCAAATTATAATAC
Found at i:120360 original size:11 final size:11
Alignment explanation
Indices: 120331--120360 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
120321 CTTAAGGATT
120331 GGTTTTTTATG
1 GGTTTTTTATG
120342 GGTGTTTTTATG
1 GGT-TTTTTATG
120354 GGTTTTT
1 GGTTTTT
120361 AGAAGTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.00, G:0.30, T:0.63
Consensus pattern (11 bp):
GGTTTTTTATG
Found at i:121080 original size:22 final size:23
Alignment explanation
Indices: 121049--121091 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
121039 TTTGGACCTG
121049 AAAAATTAATAAAATAA-ATAAAT
1 AAAAATTAAT-AAATAATATAAAT
121072 AAAAA-TAATAAATAATATAA
1 AAAAATTAATAAATAATATAA
121092 TAACAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAAATTAATAAATAATATAAAT
Found at i:121183 original size:37 final size:35
Alignment explanation
Indices: 121141--121441 Score: 259
Period size: 37 Copynumber: 8.3 Consensus size: 35
121131 TTTCAAAACC
* *
121141 ATTATAT-TGTATATGTTTTCAAAGTCGTTTTTAAAA
1 ATTATATAT-TATAAGTTTTCAAAGT-ATTTTTAAAA
121177 ATTTATATATTATAAGTTTTCAAAAGTATTTTTAAAA
1 A-TTATATATTATAAGTTTTC-AAAGTATTTTTAAAA
* * * *
121214 ACTATATATTATACGTTTTCAAA-AATATTTAAAAA
1 ATTATATATTATAAGTTTTCAAAGTAT-TTTTAAAA
* * *
121249 ACTATATATTATACGTTTTCAAAAATATTTTTTTAAAA
1 ATTATATATTATAAGTTTTC-AAAGTA--TTTTTAAAA
* *
121287 ACTATATATTATACGTTTTCAAAGT-TATTTTAAAA
1 ATTATATATTATAAGTTTTCAAAGTAT-TTTTAAAA
* * * *
121322 ACTACATATTATACGTTTTCAAAAATATTTTTTAAAA
1 ATTATATATTATAAGTTTTC-AAAGTA-TTTTTAAAA
* * *
121359 ACTATATATTATATGTTTTCAAAAATATTTTTGAAAA
1 ATTATATATTATAAGTTTTC-AAAGTATTTTT-AAAA
* *
121396 ACTATATATTATATGTTTTCAAAGT-TATTTTAAAA
1 ATTATATATTATAAGTTTTCAAAGTAT-TTTTAAAA
*
121431 ACTATATATTA
1 ATTATATATTA
121442 CATGGTTATA
Statistics
Matches: 237, Mismatches: 14, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
34 3 0.01
35 73 0.31
36 38 0.16
37 88 0.37
38 34 0.14
39 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (35 bp):
ATTATATATTATAAGTTTTCAAAGTATTTTTAAAA
Found at i:121232 original size:73 final size:72
Alignment explanation
Indices: 121150--121441 Score: 369
Period size: 73 Copynumber: 4.0 Consensus size: 72
121140 CATTATATTG
* * * * *
121150 TATATGTTTTCAAAGTCGTTTTTAAAAATTTATATATTATAAGTTTTCAAAAGTA-TTTTTAAAA
1 TATACGTTTTCAAAGT-ATTTTTAAAAA-CTATATATTATACGTTTTCAAAAATATTTTTTAAAA
121214 ACTATATAT
64 ACTATATAT
* *
121223 TATACGTTTTCAAA-AATATTTAAAAAACTATATATTATACGTTTTCAAAAATATTTTTTTAAAA
1 TATACGTTTTCAAAGTAT-TTTTAAAAACTATATATTATACGTTTTCAAAAATA-TTTTTTAAAA
121287 ACTATATAT
64 ACTATATAT
*
121296 TATACGTTTTCAAAGT-TATTTTAAAAACTACATATTATACGTTTTCAAAAATATTTTTTAAAAA
1 TATACGTTTTCAAAGTAT-TTTTAAAAACTATATATTATACGTTTTCAAAAATATTTTTTAAAAA
121360 CTATATAT
65 CTATATAT
* * * * *
121368 TATATGTTTTCAAAAATATTTTTGAAAAACTATATATTATATGTTTTC-AAAGT-TATTTTAAAA
1 TATACGTTTTC-AAAGTATTTTT-AAAAACTATATATTATACGTTTTCAAAAATATTTTTTAAAA
121431 ACTATATAT
64 ACTATATAT
121440 TA
1 TA
121442 CATGGTTATA
Statistics
Matches: 196, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
71 24 0.12
72 57 0.29
73 92 0.47
74 23 0.12
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (72 bp):
TATACGTTTTCAAAGTATTTTTAAAAACTATATATTATACGTTTTCAAAAATATTTTTTAAAAAC
TATATAT
Found at i:121256 original size:35 final size:36
Alignment explanation
Indices: 121168--121441 Score: 383
Period size: 35 Copynumber: 7.6 Consensus size: 36
121158 TTCAAAGTCG
* * *
121168 TTTTTAAAAATTTATATATTATAAGTTTTCAAAAGTA
1 TTTTTAAAAA-CTATATATTATACGTTTTCAAAAATA
121205 TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
1 TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
*
121241 -TTTAAAAAACTATATATTATACGTTTTCAAAAATA
1 TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
**
121276 TTTTTTTAAAAACTATATATTATACGTTTTCAAAGTTA
1 --TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
*
121314 -TTTTAAAAACTACATATTATACGTTTTCAAAAATA
1 TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
*
121349 TTTTTTAAAAACTATATATTATATGTTTTCAAAAATA
1 -TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
* **
121386 TTTTTGAAAAACTATATATTATATGTTTTCAAAGTTA
1 TTTTT-AAAAACTATATATTATACGTTTTCAAAAATA
121423 -TTTTAAAAACTATATATTA
1 TTTTTAAAAACTATATATTA
121442 CATGGTTATA
Statistics
Matches: 217, Mismatches: 14, Indels: 14
0.89 0.06 0.06
Matches are distributed among these distances:
35 81 0.37
36 32 0.15
37 72 0.33
38 32 0.15
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (36 bp):
TTTTTAAAAACTATATATTATACGTTTTCAAAAATA
Found at i:124326 original size:106 final size:107
Alignment explanation
Indices: 124205--124444 Score: 437
Period size: 106 Copynumber: 2.2 Consensus size: 107
124195 TTTGAAGAAT
124205 TTGATATCAATTGTTAGAGAGATATCTTTAACATTTAAAACACATGCATAAACATTTAAATTTAG
1 TTGATATCAATTGTTAGAGAGATATCTTTAACATTTAAAACACATGCATAAACATTTAAATTTAG
*
124270 GT-CAAAAAATTAAAATTTGTAAAAACAAAGCATTTAAAAAG
66 GTAAAAAAAATTAAAATTTGTAAAAACAAAGCATTTAAAAAG
*
124311 TTGATATCAATTGTTAGAGAGATATCTTTAACATTTAAAACGCATGCATAAACATTTAAATTTAG
1 TTGATATCAATTGTTAGAGAGATATCTTTAACATTTAAAACACATGCATAAACATTTAAATTTAG
124376 GTAAAAAAAAATTAAAATTTGTAAAAACAAAGCATTTAAAAAG
66 GT-AAAAAAAATTAAAATTTGTAAAAACAAAGCATTTAAAAAG
*
124419 TTGATATCAATTGTTAGAGATATATC
1 TTGATATCAATTGTTAGAGAGATATC
124445 ATTTGCATTG
Statistics
Matches: 129, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
106 66 0.51
108 63 0.49
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (107 bp):
TTGATATCAATTGTTAGAGAGATATCTTTAACATTTAAAACACATGCATAAACATTTAAATTTAG
GTAAAAAAAATTAAAATTTGTAAAAACAAAGCATTTAAAAAG
Found at i:125493 original size:14 final size:14
Alignment explanation
Indices: 125474--125501 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
125464 CTTGGCCATA
125474 TCTTCTTCTTCATC
1 TCTTCTTCTTCATC
125488 TCTTCTTCTTCATC
1 TCTTCTTCTTCATC
125502 ATCGTCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.36, G:0.00, T:0.57
Consensus pattern (14 bp):
TCTTCTTCTTCATC
Found at i:132838 original size:32 final size:32
Alignment explanation
Indices: 132797--132862 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
132787 ACCATATCTC
132797 TGGCGTGCCCTATATTGCCGAAGTGCCAAAAG
1 TGGCGTGCCCTATATTGCCGAAGTGCCAAAAG
132829 TGGCGTGCCCTATATTGCCGAAGTGCCAAAAG
1 TGGCGTGCCCTATATTGCCGAAGTGCCAAAAG
132861 TG
1 TG
132863 ACCATATCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (32 bp):
TGGCGTGCCCTATATTGCCGAAGTGCCAAAAG
Found at i:136767 original size:36 final size:35
Alignment explanation
Indices: 136664--136925 Score: 306
Period size: 35 Copynumber: 7.5 Consensus size: 35
136654 TTCAAAGTCA
* * *
136664 TTTTAAAAACTATATATTACATGTTTTCAAAGTAT
1 TTTTAAAAACTATATATTATACGTTTTCAAAATAT
136699 TTTTAAAAACTATATATTATACGTTTTC-AAATAT
1 TTTTAAAAACTATATATTATACGTTTTCAAAATAT
**
136733 TTAAAAAAACTATATATTATACGTTTTCAAAAATAT
1 TTTTAAAAACTATATATTATACGTTTTC-AAAATAT
* * **
136769 TTTTGTAAAACTATAT-TTATATG-TTTCAATTTA-
1 TTTT-AAAAACTATATATTATACGTTTTCAAAATAT
136802 TTTT-AAAACTATATATTAT--GTTTTCAAAAATATT
1 TTTTAAAAACTATATATTATACGTTTTC-AAAATA-T
*
136836 TTTTTAAAACTATATATTATACGTTTTCAAAATATT
1 TTTTAAAAACTATATATTATACGTTTTCAAAATA-T
* *
136872 TTTTAAAAACTATATATTATACGTTTTTAAAGT-T
1 TTTTAAAAACTATATATTATACGTTTTCAAAATAT
136906 ATTTTAAAAACTATATATTA
1 -TTTTAAAAACTATATATTA
136926 CATGGTTATA
Statistics
Matches: 199, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.01
31 14 0.07
32 8 0.04
33 4 0.02
34 40 0.20
35 64 0.32
36 52 0.26
37 16 0.08
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (35 bp):
TTTTAAAAACTATATATTATACGTTTTCAAAATAT
Found at i:139344 original size:684 final size:675
Alignment explanation
Indices: 138148--139503 Score: 2426
Period size: 684 Copynumber: 2.0 Consensus size: 675
138138 TCGAGGACCT
138148 AATTAACGATTTTGGCAGTTTGAAGCCTTCTAGAAATCTCATGTAAATTCACTATTAAGTGAGTC
1 AATTAACGATTTTGGCAGTTTGAAGCCTTCTAGAAATCTCATGTAAATTCACTATTAAGTGAGTC
138213 ATATAAGGCTGTGATAACAACATCCATTGGACGAATGATAAATTCTCTTTTTATTACGAGAATAA
66 ATATAAGGCTGTGATAACAACATCCATTGGACGAATGATAAATTCTCTTTTTATTACGAGAATAA
*
138278 TAAAAAATCTCAAAATAGTTACATCTACCGTAGGAGAAAAGTCTATGAGTAATCAATGTCATGTA
131 TAAAAAATCTCAAAATAGTTACATCTACCATAGGAGAAAAGTCTATGAGTAATCAATGTCATGTA
*
138343 TTTTGAAAATACTTGCAACCAATGTGTTTATATCTCATAATCTTCCTTTTCATTTCTCTTTCCCA
196 TTGTGAAAATACTTGCAACCAATGTGTTTATATCTCATAATCTTCCTTTTCATTTCTCTTTCCCA
138408 CAAAAATCATCTATACGTCACGAGCTTCTCACCTTTAGGAGTACAACTACATGTGAATACTTCAC
261 CAAAAATCATCTATACGTCACGAGCTTCTCACCTTTAGGAGTACAACTACATGTGAATACTTCAC
*
138473 TTTTCTAGAAAATTTTTATCTTTGCAGTTATTGGTCAACCACGCTTCGATCGTGCTCTAAATCAT
326 TTTTCTAGAAAATTTTTATCTTTGCAGTTATTGGTCAACCACGCTTCGATCGTGATCTAAATCAT
138538 TATCATTAGAGTTATCTTTTAGAGACATCAAATTTTAGTCAAAGCATTCACATTTGATATTATGT
391 TATCATTAGAGTTATCTTTTAGAGACATCAAATTTTAGTCAAAGCATTCACATTTGATATTATGT
138603 GACTTAATTACTCAGGTTCATGTTTAATATTAATTCGAATCGAATCGATTACAGATTATCATCAC
456 GACTTAATTACTCAGGTTCATGTTTAATATTAATTCGAATCGAATCGATTACAGATTATCATCAC
138668 CTCGGACCACAAG-AATTTACACTCGAGTTTA-TTCATCAATTTTTCAGATCGGGTAAGTTTTTT
521 CTCGGACCACAAGAAATTTACACTCGAGTTTATTTCATCAA-TTTTCAGATCGGGTAAG-TTTTT
138731 ACACCCTAATAGACTGTAAAT-AAATATAAACGTTGTACTAAGACTAAATGAAATTATCAACCTT
584 ACACCCTAATAGACTGTAAATAAAATAT-AACGTTGTACTAAGACTAAATGAAATTATCAACCTT
138795 TCTTAATGAAATTTCTTCTTCTTCAACTA
648 TC-TAATGAAATTTCTTCTTCTTCAACTA
138824 AATTAACGATTTTTGGCAGTTTGAAGCCTTCTAGAAATCTCATGTAAATTCACTATTAAGTGAGT
1 AATTAACGA-TTTTGGCAGTTTGAAGCCTTCTAGAAATCTCATGTAAATTCACTATTAAGTGAGT
138889 CATATAAATAGGCTGTGATAACAACATCCATTGGACG-ATGATAAATTCTCTTTTT-TTACGAGA
65 CATAT--A-AGGCTGTGATAACAACATCCATTGGACGAATGATAAATTCTCTTTTTATTACGAGA
138952 ATAATAAAAAATCTC-AAATAGTTACATCTACCATAGGAGAATAAGTCTATGAGTAATCAATGTC
127 ATAATAAAAAATCTCAAAATAGTTACATCTACCATAGGAGAA-AAGTCTATGAGTAATCAATGTC
139016 ATGTATTGTGAAAATACTTGCAACCAAATGTGTTTATATCTCATAATCTTCCTTTTCATTTCTCT
191 ATGTATTGTGAAAATACTTGCAACC-AATGTGTTTATATCTCATAATCTTCCTTTTCATTTCTCT
*
139081 TTCCCACAAAAAATCATCTATACGTCACGAGCTTCTCACCTTTAGGAGTACAACTCCATGTCTGA
255 TTCCCAC-AAAAATCATCTATACGTCACGAGCTTCTCACCTTTAGGAGTACAACTACATG--TGA
139146 ATACTTCACTTTTCTAGAAAATTTTTATCTTTGCAAGTTATTGGTCAACCACGCTTCGATCGTGA
317 ATACTTCACTTTTCTAGAAAATTTTTATCTTTGC-AGTTATTGGTCAACCACGCTTCGATCGTGA
139211 TCTAAACTCATTATCAATTAGAGTTTATC-TTTAGAGACATC-AATTTTAGTCAAAGCATTCACA
381 TCTAAA-TCATTATC-ATTAGAG-TTATCTTTTAGAGACATCAAATTTTAGTCAAAGCATTCACA
139274 -TTGATATTTATGTGACTTAATTACTCAGGTTCATG-TTAATATTAATTCGAATTCGAATCGATT
443 TTTGATA-TTATGTGACTTAATTACTCAGGTTCATGTTTAATATTAATTCGAA-TCGAATCGATT
*
139337 GCAGATTATCATCACCTCGGACCACAAGAAATTTACACTCGAGTTTATTTCATCAATTTTCAGAT
506 ACAGATTATCATCACCTCGGACCACAAGAAATTTACACTCGAGTTTATTTCATCAATTTTCAGAT
139402 CGGGTAAGTTTTTACACCCTAATAGACTGTAAATAAAATATAACGTTGTACTAAGACTAAATGAA
571 CGGGTAAGTTTTTACACCCTAATAGACTGTAAATAAAATATAACGTTGTACTAAGACTAAATGAA
139467 ATTATCAACCTTTCTAATGAAATTTCTTCTTCTTCAA
636 ATTATCAACCTTTCTAATGAAATTTCTTCTTCTTCAA
139504 TCTACTAGGT
Statistics
Matches: 657, Mismatches: 5, Indels: 29
0.95 0.01 0.04
Matches are distributed among these distances:
676 9 0.01
677 85 0.13
678 69 0.11
679 65 0.10
680 79 0.12
682 37 0.06
683 80 0.12
684 160 0.24
685 60 0.09
686 13 0.02
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (675 bp):
AATTAACGATTTTGGCAGTTTGAAGCCTTCTAGAAATCTCATGTAAATTCACTATTAAGTGAGTC
ATATAAGGCTGTGATAACAACATCCATTGGACGAATGATAAATTCTCTTTTTATTACGAGAATAA
TAAAAAATCTCAAAATAGTTACATCTACCATAGGAGAAAAGTCTATGAGTAATCAATGTCATGTA
TTGTGAAAATACTTGCAACCAATGTGTTTATATCTCATAATCTTCCTTTTCATTTCTCTTTCCCA
CAAAAATCATCTATACGTCACGAGCTTCTCACCTTTAGGAGTACAACTACATGTGAATACTTCAC
TTTTCTAGAAAATTTTTATCTTTGCAGTTATTGGTCAACCACGCTTCGATCGTGATCTAAATCAT
TATCATTAGAGTTATCTTTTAGAGACATCAAATTTTAGTCAAAGCATTCACATTTGATATTATGT
GACTTAATTACTCAGGTTCATGTTTAATATTAATTCGAATCGAATCGATTACAGATTATCATCAC
CTCGGACCACAAGAAATTTACACTCGAGTTTATTTCATCAATTTTCAGATCGGGTAAGTTTTTAC
ACCCTAATAGACTGTAAATAAAATATAACGTTGTACTAAGACTAAATGAAATTATCAACCTTTCT
AATGAAATTTCTTCTTCTTCAACTA
Found at i:139693 original size:3 final size:3
Alignment explanation
Indices: 139687--139811 Score: 137
Period size: 3 Copynumber: 41.0 Consensus size: 3
139677 TTTCATTTAA
** *
139687 ATT ATT ATT ATT AAA ATT ATT ATT A-T ATT -TAT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
* * *
139731 AGT ATT AGT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
*
139780 ATT ATT ATT ATT AAT ATAT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT AT-T AT-T ATT ATT ATT
139812 TAATAAATAA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
2 3 0.03
3 90 0.87
4 10 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:146245 original size:32 final size:30
Alignment explanation
Indices: 146204--146270 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
146194 ATTTAAACTA
146204 TTTTAGGTTTAAGATCTTTTC-A-ATTCGAATC
1 TTTTAGGTTT-AGAT-TTTTCTAGATTCG-ATC
146235 TTTTCAGGTTTAGATTTTTCTAGATTCGATC
1 TTTT-AGGTTTAGATTTTTCTAGATTCGATC
146266 TTTTA
1 TTTTA
146271 ACTTTTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
30 6 0.18
31 16 0.48
32 11 0.33
ACGTcount: A:0.22, C:0.12, G:0.13, T:0.52
Consensus pattern (30 bp):
TTTTAGGTTTAGATTTTTCTAGATTCGATC
Found at i:147068 original size:59 final size:57
Alignment explanation
Indices: 146940--147068 Score: 136
Period size: 58 Copynumber: 2.2 Consensus size: 57
146930 ATTTTAGGAT
* * * *
146940 AAAA-TATACAAATGATCCCGACTATATAATATTGTTTTGTTGAGTCCTTAAATATTA
1 AAAATTATA-AAATGATCCCAACTATATAAGATTATTTTATTGAGTCCTTAAATATTA
* * * *
146997 AAACTTACAAAATGATCCCCAACTATA-AAGAGTTATTTTATTGAGTCTCTTGACTATTA
1 AAAATTATAAAATGAT-CCCAACTATATAAGA-TTATTTTATTGAGTC-CTTAAATATTA
147056 AAAATTATAAAAT
1 AAAATTATAAAAT
147069 AATCACCCGA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
57 13 0.22
58 25 0.43
59 20 0.34
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (57 bp):
AAAATTATAAAATGATCCCAACTATATAAGATTATTTTATTGAGTCCTTAAATATTA
Found at i:147748 original size:18 final size:18
Alignment explanation
Indices: 147721--147761 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
147711 TACATCTTAG
147721 AATATCTTTTAAAATTTA
1 AATATCTTTTAAAATTTA
* *
147739 AATATTTTTTAATATTTA
1 AATATCTTTTAAAATTTA
*
147757 TATAT
1 AATAT
147762 AAATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATCTTTTAAAATTTA
Found at i:148458 original size:16 final size:16
Alignment explanation
Indices: 148411--148461 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
148401 TTACTCGACT
* *
148411 TGTTTTCAACCTTACT
1 TGTTTTCAACCTGACA
* *
148427 TGTTATGAACCTGACA
1 TGTTTTCAACCTGACA
148443 TGTTTTCAACCTGACA
1 TGTTTTCAACCTGACA
148459 TGT
1 TGT
148462 AAATGATCCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (16 bp):
TGTTTTCAACCTGACA
Found at i:150279 original size:3 final size:3
Alignment explanation
Indices: 150271--150295 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
150261 TACTTTGGAT
150271 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
150296 CTACAAGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:152280 original size:52 final size:52
Alignment explanation
Indices: 152186--152516 Score: 423
Period size: 52 Copynumber: 6.3 Consensus size: 52
152176 AAAATAAGGG
* *
152186 TTAGGGTTAGAGAAGATGAATAGAGACAAAATATAAAGAGGCTCGATTTGGGT
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAA-ATAAAGAGGCTCGATTTGGGT
*
152239 TTAGGGTTAGAGAAGATAAATAGAGATAGAAATAAAGAGGCTCGATTTGGGT
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGT
* * *
152291 TTAGGGTTAGAGAAGATAAATAGAGATAGAAATAAAGAGGCTCAATTTGAGT
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGT
* * * * *
152343 TTGGGGTTAGAGAAGATGAATAGAGATAAAAGATAAAGAGACTTGATTTAGGT
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAA-ATAAAGAGGCTCGATTTGGGT
* * * *
152396 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATGAAGAGGTTAGGTTTGGGT
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGT
* * * * * *
152448 TT-GGGATTAGAGAAGATGAATAGAGATAGAAAGTGAAGAGACTCGGTTAGGGT
1 TTAGGG-TTAGAGAAGATAAATAGAGATA-AAAATAAAGAGGCTCGATTTGGGT
152501 TT-GGGTTAGAGAAGAT
1 TTAGGGTTAGAGAAGAT
152517 GAACATTTGT
Statistics
Matches: 248, Mismatches: 27, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
51 3 0.01
52 148 0.60
53 97 0.39
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.25
Consensus pattern (52 bp):
TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGT
Found at i:152313 original size:105 final size:103
Alignment explanation
Indices: 152186--152516 Score: 448
Period size: 105 Copynumber: 3.2 Consensus size: 103
152176 AAAATAAGGG
* *
152186 TTAGGGTTAGAGAAGATGAATAGAGACAAAATATAAAGAGGCTCGATTTGGGTTTAGGGTTAGAG
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAA-ATAAAGAGGCTCGATTTGGGTTT-GGGTTAGAG
* *
152251 AAGATAAATAGAGATAGAAATAAAGAGGCTCGATTTGGGT
64 AAGATGAATAGAGATAGAAATAAAGAGACTCGATTTGGGT
* * *
152291 TTAGGGTTAGAGAAGATAAATAGAGATAGAAATAAAGAGGCTCAATTTGAGTTTGGGGTTAGAGA
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGTTT-GGGTTAGAGA
* * *
152356 AGATGAATAGAGATAAAAGATAAAGAGACTTGATTTAGGT
65 AGATGAATAGAGATAGAA-ATAAAGAGACTCGATTTGGGT
* * * *
152396 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATGAAGAGGTTAGGTTTGGGTTTGGGATTAGAGA
1 TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGTTTGGG-TTAGAGA
* * *
152461 AGATGAATAGAGATAGAAAGTGAAGAGACTCGGTTAGGGT
65 AGATGAATAGAGATAGAAA-TAAAGAGACTCGATTTGGGT
152501 TT-GGGTTAGAGAAGAT
1 TTAGGGTTAGAGAAGAT
152517 GAACATTTGT
Statistics
Matches: 199, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
104 65 0.33
105 134 0.67
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.25
Consensus pattern (103 bp):
TTAGGGTTAGAGAAGATAAATAGAGATAAAAATAAAGAGGCTCGATTTGGGTTTGGGTTAGAGAA
GATGAATAGAGATAGAAATAAAGAGACTCGATTTGGGT
Found at i:152379 original size:157 final size:157
Alignment explanation
Indices: 152189--152519 Score: 477
Period size: 157 Copynumber: 2.1 Consensus size: 157
152179 ATAAGGGTTA
* * *
152189 GGGTTAGAGAAGATGAATAGAGACAAAATATAAAGAGGCTCGATTTGGGTTTAGGGTTAGAGAAG
1 GGGTTAGAGAAGATGAATAGAGACAAAAGATAAAGAGACTCGATTTAGGTTTAGGGTTAGAGAAG
* *
152254 ATAAATAGAGATAGAAATAAAGAGGCTCGATTTGGGTTTAGGG-TTAGAGAAGATAAATAGAGAT
66 ATAAATAGAGATAAAAATAAAGAGGCTAGATTTGGGTTT-GGGATTAGAGAAGATAAATAGAGAT
* *
152318 AGAAA-TAAAGAGGCTCAATTTGAGTTT
130 AGAAAGTAAAGAGACTCAATTAGAGTTT
* *
152345 GGGGTTAGAGAAGATGAATAGAGATAAAAGATAAAGAGACTTGATTTAGGTTTAGGGTTAGAGAA
1 -GGGTTAGAGAAGATGAATAGAGACAAAAGATAAAGAGACTCGATTTAGGTTTAGGGTTAGAGAA
* * * *
152410 GATAAATAGAGATAAAAATGAAGAGGTTAGGTTTGGGTTTGGGATTAGAGAAGATGAATAGAGAT
65 GATAAATAGAGATAAAAATAAAGAGGCTAGATTTGGGTTTGGGATTAGAGAAGATAAATAGAGAT
* ** *
152475 AGAAAGTGAAGAGACTCGGTTAGGGTTT
130 AGAAAGTAAAGAGACTCAATTAGAGTTT
152503 GGGTTAGAGAAGATGAA
1 GGGTTAGAGAAGATGAA
152520 CATTTGTGGG
Statistics
Matches: 155, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
156 3 0.02
157 136 0.88
158 16 0.10
ACGTcount: A:0.40, C:0.03, G:0.32, T:0.25
Consensus pattern (157 bp):
GGGTTAGAGAAGATGAATAGAGACAAAAGATAAAGAGACTCGATTTAGGTTTAGGGTTAGAGAAG
ATAAATAGAGATAAAAATAAAGAGGCTAGATTTGGGTTTGGGATTAGAGAAGATAAATAGAGATA
GAAAGTAAAGAGACTCAATTAGAGTTT
Found at i:153326 original size:66 final size:59
Alignment explanation
Indices: 153255--153646 Score: 333
Period size: 66 Copynumber: 6.5 Consensus size: 59
153245 TTCAATTAAT
* * *
153255 ATATATGTTTATAT-TAATAAAT-TAATATATAGTTTATATATACTAATGAACTATATA
1 ATATATATTTATATGTAATTAATATACTATATAGTTTATATATACTAATGAACTATATA
* *
153312 ATATATAGTTTATATATACTAATGAACTATA-TAATATTTAGTTTATATATACTAATGAACTATA
1 ATATATA--TT-TATAT-GTAATTAA-TATACT-ATA--TAGTTTATATATACTAATGAACTATA
153376 TGA
58 T-A
* *
153379 ACTATATA-CTA-ATG-AATT-ATATACTATATAGTTTATATATGCTAATGAACTATATA
1 A-TATATATTTATATGTAATTAATATACTATATAGTTTATATATACTAATGAACTATATA
*
153435 ATATATAATTTATATATACCAATGAATAATATACTATATAGTTTATATATACTAATGAACTATAT
1 ATATAT-ATTTATATGT---AAT---TAATATACTATATAGTTTATATATACTAATGAACTATAT
153500 A
59 A
* * * *
153501 CTATATAGTTTATATAT-ACTAATGA-ACTATATAGTTTATATAAACTAATGAACTATATGA
1 ATATATA-TTTATATGTAATTAAT-ATACTATATAGTTTATATATACTAATGAACTATAT-A
* * *
153561 ACTATACA-CTA-ATG-AACT-ATATACTATATAGTTTATATATACTAATGAACTATATA
1 A-TATATATTTATATGTAATTAATATACTATATAGTTTATATATACTAATGAACTATATA
* * *
153617 ATATATAATTTATATATACTAAATATACTA
1 ATATAT-ATTTATATGTAATTAATATACTA
153647 ATGAACTATA
Statistics
Matches: 277, Mismatches: 23, Indels: 67
0.75 0.06 0.18
Matches are distributed among these distances:
55 9 0.03
56 7 0.03
57 70 0.25
58 9 0.03
59 48 0.17
60 17 0.06
61 8 0.03
62 10 0.04
63 4 0.01
64 7 0.03
65 2 0.01
66 78 0.28
67 2 0.01
68 6 0.02
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (59 bp):
ATATATATTTATATGTAATTAATATACTATATAGTTTATATATACTAATGAACTATATA
Found at i:153384 original size:24 final size:22
Alignment explanation
Indices: 153357--153408 Score: 77
Period size: 24 Copynumber: 2.3 Consensus size: 22
153347 ATTTAGTTTA
153357 TATATACTAATGAACTATATGAAC
1 TATATACTAATGAACTATAT--AC
*
153381 TATATACTAATGAATTATATAC
1 TATATACTAATGAACTATATAC
153403 TATATA
1 TATATA
153409 GTTTATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.30
24 19 0.70
ACGTcount: A:0.46, C:0.10, G:0.06, T:0.38
Consensus pattern (22 bp):
TATATACTAATGAACTATATAC
Found at i:153400 original size:57 final size:56
Alignment explanation
Indices: 153324--153533 Score: 205
Period size: 57 Copynumber: 4.0 Consensus size: 56
153314 ATATAGTTTA
* * *
153324 TATATACTAATGAACTATATAATATTTAGTTTATATATACTAATGAACTATATGAAC
1 TATATACTAATGAATTATATACTATATAGTTTATATATACTAATGAACTATAT-AAC
*
153381 TATATACTAATGAATTATATACTATATAGTTTATATATGCTAATGAACTATAT-A-
1 TATATACTAATGAATTATATACTATATAGTTTATATATACTAATGAACTATATAAC
** * ** *
153435 -ATATA-TAATTTA-TATATACCA-AT-GAATA-ATATACT-AT--A-TAGT-TTA-
1 TATATACTAATGAATTATATACTATATAGTTTATATATACTAATGAACTA-TATAAC
*
153480 TATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATA
1 TATATACTAATGAATTATATACTATATAGTTTATATATACTAATGAACTATATA
153534 GTTTATATAA
Statistics
Matches: 124, Mismatches: 16, Indels: 28
0.74 0.10 0.17
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 5 0.04
47 7 0.06
48 14 0.11
49 5 0.04
50 5 0.04
51 15 0.12
52 7 0.06
53 5 0.04
54 2 0.02
55 4 0.03
57 49 0.40
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (56 bp):
TATATACTAATGAATTATATACTATATAGTTTATATATACTAATGAACTATATAAC
Found at i:153400 original size:90 final size:92
Alignment explanation
Indices: 153291--153658 Score: 405
Period size: 90 Copynumber: 4.1 Consensus size: 92
153281 ATATAGTTTA
* * *
153291 TATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATAATATTTAGTTT
1 TATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATAATATATAATTT
153356 ATATATACT-AATGA-ACTATATGAAC
66 ATATATACTAAATGATACTATATGAAC
* *
153381 TATATACTAATGAATTATATACTATATAGTTTATATATGCTAATGAACTATATAATATATAATTT
1 TATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATAATATATAATTT
*
153446 ATATATAC-CAATGA-A-TA-AT-ATAC
66 ATATATACTAAATGATACTATATGA-AC
*
153469 TATATAGTTTATAT-ATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATAT
1 TATATA--CTA-ATGA-ACT-AT--A-TA----CTATATAGTTTATATATACTAATGAACTATAT
*
153533 AGT-T-T-A--TATA-A-ACT-AATGA-ACTATATGAAC
54 AATATATAATTTATATATACTAAATGATACTATATGAAC
*
153563 TATACACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATAATATATAATTT
1 TATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATAATATATAATTT
153628 ATATATACTAAAT-ATACTA-ATGAAC
66 ATATATACTAAATGATACTATATGAAC
153653 TATATA
1 TATATA
153659 GTTTATTAAT
Statistics
Matches: 237, Mismatches: 13, Indels: 56
0.77 0.04 0.18
Matches are distributed among these distances:
83 34 0.14
84 1 0.00
85 1 0.00
86 1 0.00
87 3 0.01
88 15 0.06
89 3 0.01
90 94 0.40
91 16 0.07
92 13 0.05
93 3 0.01
94 14 0.06
95 3 0.01
96 1 0.00
97 1 0.00
98 1 0.00
99 33 0.14
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (92 bp):
TATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAACTATATAATATATAATTT
ATATATACTAAATGATACTATATGAAC
Found at i:153490 original size:26 final size:26
Alignment explanation
Indices: 153467--153616 Score: 124
Period size: 26 Copynumber: 5.3 Consensus size: 26
153457 TGAATAATAT
153467 ACTATATAGTTTATATATACTAATGAACTATA
1 ACTATATAGTTTATATATACTAATG------A
153499 TACTATATAGTTTATATATACTAATGA
1 -ACTATATAGTTTATATATACTAATGA
*
153526 ACTATATAGTTTATATAAACTAATGA
1 ACTATATAGTTTATATATACTAATGA
* * *
153552 ACTATATGAACTATACACTAATGAACT-AT-A
1 ACTATAT--AGTTTATA-T-AT--ACTAATGA
153582 TACTATATAGTTTATATATACTAATGA
1 -ACTATATAGTTTATATATACTAATGA
153609 ACTATATA
1 ACTATATA
153617 ATATATAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
25 3 0.03
26 42 0.42
27 4 0.04
28 6 0.06
29 6 0.06
30 2 0.02
31 9 0.09
32 3 0.03
33 25 0.25
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (26 bp):
ACTATATAGTTTATATATACTAATGA
Found at i:153533 original size:33 final size:33
Alignment explanation
Indices: 153277--153386 Score: 193
Period size: 33 Copynumber: 3.3 Consensus size: 33
153267 ATTAATAAAT
153277 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
153310 TAATATATAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
*
153343 TAATATTTAGTTTATATATACTAATGAACTATA
1 TAATATATAGTTTATATATACTAATGAACTATA
153376 TGAACTATATA
1 T-AA-TATATA
153387 CTAATGAATT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
33 66 0.90
34 2 0.03
35 5 0.07
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (33 bp):
TAATATATAGTTTATATATACTAATGAACTATA
Found at i:153575 original size:182 final size:185
Alignment explanation
Indices: 153280--153635 Score: 610
Period size: 182 Copynumber: 1.9 Consensus size: 185
153270 AATAAATTAA
153280 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACTATATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAAC---ATA
* * *
153345 ATATTTAGTTTATATATACTAATGAACTATATGAACTATATACTAATGAATTATATACTATATAG
63 ATA-TTAGTTTATATAAACTAATGAACTATATGAACTATACACTAATGAACTATATACTATATAG
*
153410 TTTATATATGCTAATGAACTATATAATATATAATTTATATATACCAATGAATAATATAC
127 TTTATATATACTAATGAACTATATAATATATAATTTATATATACCAATGAATAATATAC
*
153469 TATATAGTTTATATATACTAATGAACTATATACTATATAGTTTATATATACTAATGAAC-T-ATA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACATAATA
153532 -TAGTTTATATAAACTAATGAACTATATGAACTATACACTAATGAACTATATACTATATAGTTTA
66 TTAGTTTATATAAACTAATGAACTATATGAACTATACACTAATGAACTATATACTATATAGTTTA
153596 TATATACTAATGAACTATATAATATATAATTTATATATAC
131 TATATACTAATGAACTATATAATATATAATTTATATATAC
153636 TAAATATACT
Statistics
Matches: 162, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
182 100 0.62
184 3 0.02
185 1 0.01
189 58 0.36
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (185 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATACTAATGAACATAATA
TTAGTTTATATAAACTAATGAACTATATGAACTATACACTAATGAACTATATACTATATAGTTTA
TATATACTAATGAACTATATAATATATAATTTATATATACCAATGAATAATATAC
Found at i:153590 original size:24 final size:23
Alignment explanation
Indices: 153511--153590 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
153501 CTATATAGTT
*
153511 TATATATACTAATGAACTATATA
1 TATATAAACTAATGAACTATATA
153534 GTTTATATAAACTAATGAACTATATGA
1 ---TATATAAACTAATGAACTATAT-A
*
153561 -ACTATACACTAATGAACTATATA
1 TA-TATAAACTAATGAACTATATA
153584 CTATATA
1 -TATATA
153591 GTTTATATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.04
24 23 0.48
25 1 0.02
26 21 0.44
27 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.36
Consensus pattern (23 bp):
TATATAAACTAATGAACTATATA
Found at i:153605 original size:33 final size:33
Alignment explanation
Indices: 153563--153664 Score: 127
Period size: 33 Copynumber: 3.0 Consensus size: 33
153553 CTATATGAAC
*
153563 TATACACTAATGAACTATATACTATATAGTTTA
1 TATATACTAATGAACTATATACTATATAGTTTA
* *
153596 TATATACTAATGAACTATATAATATATAATTTA
1 TATATACTAATGAACTATATACTATATAGTTTA
153629 TATATACTAAAT-ATACTA-ATGAACTATATAGTTTA
1 TATATACT-AATGA-ACTATAT--ACTATATAGTTTA
153664 T
1 T
153665 TAATATAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 41 0.68
34 7 0.12
35 12 0.20
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (33 bp):
TATATACTAATGAACTATATACTATATAGTTTA
Found at i:153688 original size:2 final size:2
Alignment explanation
Indices: 153683--153834 Score: 84
Period size: 2 Copynumber: 76.0 Consensus size: 2
153673 TTATATAAAG
* * *
153683 TA TA TA AA T- TA TA TA CTT TA TA TA TA GTA TA T- TA TA TA GTT
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA -TA
* * * *
153724 TA TA TA TA GT- TCA TA TA TA CA CTA CA TA GTT TA TA TA CA T- TA
1 TA TA TA TA -TA T-A TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
* * * * *
153766 TA TA AA TA TG TA AA TA TA AA T- TA TA CA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
153806 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
153835 ATTGTTTTAA
Statistics
Matches: 112, Mismatches: 24, Indels: 28
0.68 0.15 0.17
Matches are distributed among these distances:
1 7 0.06
2 97 0.87
3 8 0.07
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:153720 original size:23 final size:23
Alignment explanation
Indices: 153690--153733 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
153680 AAGTATATAA
153690 ATTATATACTTTATATATAGTAT
1 ATTATATACTTTATATATAGTAT
*
153713 ATTATATAGTTTATATATAGT
1 ATTATATACTTTATATATAGT
153734 TCATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTATATACTTTATATATAGTAT
Found at i:153942 original size:65 final size:63
Alignment explanation
Indices: 153836--153965 Score: 206
Period size: 65 Copynumber: 2.0 Consensus size: 63
153826 TATATTATAA
* *
153836 TTGTTTTAATTTTTTCTTTTAACTTTTGAAATAAATGCAATTTACTTTATTTTTCAGATTTGC
1 TTGTTTTAATTTTTTCTTTTAACTTTTGAAATAAATACAATTTACTCTATTTTTCAGATTTGC
* *
153899 TTGTTTTAATTTTTTTTTCTTTAACTTTTGAAATAAATACAATTTACTCTATTTTTCATATTTGC
1 TTGTTTTAA-TTTTTTCT-TTTAACTTTTGAAATAAATACAATTTACTCTATTTTTCAGATTTGC
153964 TT
1 TT
153966 TACGTTTTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 9 0.15
64 7 0.11
65 45 0.74
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.58
Consensus pattern (63 bp):
TTGTTTTAATTTTTTCTTTTAACTTTTGAAATAAATACAATTTACTCTATTTTTCAGATTTGC
Found at i:155217 original size:32 final size:32
Alignment explanation
Indices: 155145--155234 Score: 96
Period size: 31 Copynumber: 2.8 Consensus size: 32
155135 TAAGTCTAAG
* *
155145 GATTATTTTATAACAACTTA-ATAAATTTAAAT
1 GATTATTTTATAATAATTTATA-AAATTTAAAT
*
155177 -ATTTTTTTATAATAATTTGATAAAATTT-AAT
1 GATTATTTTATAATAATTT-ATAAAATTTAAAT
* *
155208 GATTATTTTATAATTATTTAAAAAATT
1 GATTATTTTATAATAATTTATAAAATT
155235 AATAAAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
31 25 0.51
32 23 0.47
33 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (32 bp):
GATTATTTTATAATAATTTATAAAATTTAAAT
Found at i:157170 original size:54 final size:54
Alignment explanation
Indices: 157071--157176 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
157061 CACTGACAAA
* * * * *
157071 TTGTCGAGCTTGGAGACCTGATGATGTTTCGCGTCCTCGAGGTCTTCCCAGAAT
1 TTGTAGAGCATGGAGACCTGATGATGTTTCACGTCCTCAAAGTCTTCCCAGAAT
*
157125 TTGTAGAGCATGGAGACCTGATGATGTTTCATGTCCTCAAAGTCTTCCCAGA
1 TTGTAGAGCATGGAGACCTGATGATGTTTCACGTCCTCAAAGTCTTCCCAGA
157177 CTTTCAAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (54 bp):
TTGTAGAGCATGGAGACCTGATGATGTTTCACGTCCTCAAAGTCTTCCCAGAAT
Found at i:158357 original size:10 final size:9
Alignment explanation
Indices: 158320--158409 Score: 81
Period size: 10 Copynumber: 9.1 Consensus size: 9
158310 CTGCGTGTGT
158320 TATATATTA
1 TATATATTA
158329 TAAATATATTA
1 T--ATATATTA
158340 TATATATTGA
1 TATATATT-A
*
158350 TTTATATTA
1 TATATATTA
158359 TATATATGTA
1 TATATAT-TA
*
158369 TATGTATGTA
1 TATATAT-TA
158379 TATATATATA
1 TATATAT-TA
*
158389 TATATATGCA
1 TATATAT-TA
158399 TATATCATTA
1 TATAT-ATTA
158409 T
1 T
158410 TAATTATCAT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.22
10 42 0.62
11 11 0.16
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (9 bp):
TATATATTA
Found at i:158403 original size:2 final size:2
Alignment explanation
Indices: 158320--158395 Score: 70
Period size: 2 Copynumber: 39.5 Consensus size: 2
158310 CTGCGTGTGT
* *
158320 TA TA TA T- TA TA AA TA TA T- TA TA TA TA T- TGA TT TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * *
158359 TA TA TA TG TA TA TG TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
158396 GCATATATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
1 4 0.07
2 54 0.92
3 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (2 bp):
TA
Found at i:161692 original size:137 final size:137
Alignment explanation
Indices: 161507--161819 Score: 335
Period size: 137 Copynumber: 2.3 Consensus size: 137
161497 CGTAAGCAAG
* * *** **
161507 GACCAAATAAAAAATTCTCCTAAATTCAAGGACTAATTATGAAATTAAGCCTATGGTAGAGGTTC
1 GACCAAATTAAAAATTC-CCTAAATTCAAGGACTAAGTATGAAATTAAGCCTAAAATAGAGACTC
* *
161572 TAATTATTAACCTAACTAATTTTAATCAATTA-TGACTCAAATAATTAAAATACAAACTC-GAGC
65 TAATTATTAACCTAACTAATTTTAACCAATTATTGACTCAAATAATTAAAAT-CAAACCCTGAGC
161635 AAAAGA-GAA
129 AAAA-ACGAA
* * * *
161644 GACCAAATTAAAAATTCCCTTAAATTTAAGGATTAAGTGTGAAGTTAAGCCTAAAATAGAGACTC
1 GACCAAATTAAAAATTCCC-TAAATTCAAGGACTAAGTATGAAATTAAGCCTAAAATAGAGACTC
* ** * ** **
161709 TAATTGTTAACCTAGTTAATTTTAACCAATTATTTGATTTGAATAATTAAAATGGAACCCTGAGC
65 TAATTATTAACCTAACTAATTTTAACCAATTA-TTGACTCAAATAATTAAAATCAAACCCTGAGC
*
161774 AAAAACGAG
129 AAAAACGAA
*
161783 GACCAAATTAAAAATTTCCCTAAATTAAAAGGACTAA
1 GACCAAATTAAAAA-TTCCCTAAATT-CAAGGACTAA
161820 ACCTAACATC
Statistics
Matches: 145, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
136 2 0.01
137 79 0.54
138 5 0.03
139 46 0.32
140 13 0.09
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (137 bp):
GACCAAATTAAAAATTCCCTAAATTCAAGGACTAAGTATGAAATTAAGCCTAAAATAGAGACTCT
AATTATTAACCTAACTAATTTTAACCAATTATTGACTCAAATAATTAAAATCAAACCCTGAGCAA
AAACGAA
Found at i:164235 original size:44 final size:45
Alignment explanation
Indices: 164126--164237 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 45
164116 TCATTTATTA
164126 TTTTCTTTTTTTCTCTCTTTCTTCATTTTCATTTTTTCATCTTTTTT
1 TTTTCTTTTTTTCTC-CTTT-TTCATTTTCATTTTTTCATCTTTTTT
* *
164173 TTTT-TTTTTCTTCCCCTTTTT-ATTTTTA-TTTTTC-TCGTTTTCTT
1 TTTTCTTTTT-TTCTCCTTTTTCATTTTCATTTTTTCATC-TTTT-TT
*
164217 TTTTCTTTTTTTATCCTTTTT
1 TTTTCTTTTTTTCTCCTTTTT
164238 TTATCAACTA
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.04
43 10 0.18
44 21 0.37
45 7 0.12
46 9 0.16
47 8 0.14
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (45 bp):
TTTTCTTTTTTTCTCCTTTTTCATTTTCATTTTTTCATCTTTTTT
Found at i:164631 original size:44 final size:44
Alignment explanation
Indices: 164551--164661 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 44
164541 AAAAGGTGAC
* * * * * *
164551 GCTGATCCAACTCTTTATGCGATGGATTTGAGCAAAATGACAAT
1 GCTGATCCACCTCTTTCTGTGATGGAATTAAACAAAATGACAAT
* * *
164595 GTTGATCCACCTCTTTCTGTGATGGAATTAAACAAAATGTCGAT
1 GCTGATCCACCTCTTTCTGTGATGGAATTAAACAAAATGACAAT
** *
164639 GCTGATTTACCTCATTCTGTGAT
1 GCTGATCCACCTCTTTCTGTGAT
164662 AAAATCAAGC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
GCTGATCCACCTCTTTCTGTGATGGAATTAAACAAAATGACAAT
Found at i:164763 original size:131 final size:132
Alignment explanation
Indices: 164454--164836 Score: 456
Period size: 131 Copynumber: 2.9 Consensus size: 132
164444 AATCTAGAAA
* * *
164454 AAAACTGACAATGTTGATCCACCTCATTCTGTGATGGAATCGAACATAATGTCAATG-T-ATTTA
1 AAAA-TGACAATGTTGATCCACCTCATTCTGTGATGGAATCAAACAAAATGTCGATGCTGATTTA
** * * ** * *
164517 TATAATTCTGTGATATAATCAAGC-AAAAGGTGACGCTGATCCAACTCTTTATGC-GATGGATTT
65 CCTCATTCTGTGATAAAATCAAGCAAAAAGGTGATTCTGATCCAACTCCTTAT-CTGATAGATTT
164580 GAGC
129 GAGC
* *
164584 AAAATGACAATGTTGATCCACCTCTTTCTGTGATGGAATTAAACAAAATGTCGATGCTGATTTAC
1 AAAATGACAATGTTGATCCACCTCATTCTGTGATGGAATCAAACAAAATGTCGATGCTGATTTAC
* *
164649 CTCATTCTGTGATAAAATCAAGCAAAAAGGCGATTCTAATCCAACTCCTTATCTGATAGATTTGA
66 CTCATTCTGTGATAAAATCAAGCAAAAAGGTGATTCTGATCCAACTCCTTATCTGATAGATTTGA
*
164714 GG
131 GC
* * * * * *
164716 GAAATGGCAATGTTGATCCA-CTCATTCTTTGATGAAATCAAACAAAATGTCGTTGCTGATATAC
1 AAAATGACAATGTTGATCCACCTCATTCTGTGATGGAATCAAACAAAATGTCGATGCTGATTTAC
* * *
164780 CTCATTCTGTGATAGAATCGAGCAACAAA-GTGATGT-TGATCCAACTCCTTATGTGAT
66 CTCATTCTGTGATAAAATCAAGCAA-AAAGGTGAT-TCTGATCCAACTCCTTATCTGAT
164837 GAAATCCAGC
Statistics
Matches: 218, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
129 47 0.22
130 5 0.02
131 110 0.50
132 56 0.26
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (132 bp):
AAAATGACAATGTTGATCCACCTCATTCTGTGATGGAATCAAACAAAATGTCGATGCTGATTTAC
CTCATTCTGTGATAAAATCAAGCAAAAAGGTGATTCTGATCCAACTCCTTATCTGATAGATTTGA
GC
Found at i:164836 original size:44 final size:44
Alignment explanation
Indices: 164787--164888 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
164777 TACCTCATTC
* *
164787 TGTGATAGAATCGAGCAACAAAGTG-ATGTTGATCCAACTCCTTA
1 TGTGATAGAATCCAGCAA-AAAGGGAATGTTGATCCAACTCCTTA
* * *
164831 TGTGAT-GAAATCCAGCAAAAAGGGAATGTTGATTCACCTTCTTA
1 TGTGATAG-AATCCAGCAAAAAGGGAATGTTGATCCAACTCCTTA
164875 TGTGATAGAATCCA
1 TGTGATAGAATCCA
164889 ATCTATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 6 0.12
44 43 0.86
45 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
TGTGATAGAATCCAGCAAAAAGGGAATGTTGATCCAACTCCTTA
Found at i:164859 original size:131 final size:131
Alignment explanation
Indices: 164420--164886 Score: 433
Period size: 131 Copynumber: 3.5 Consensus size: 131
164410 TTCGATTGTA
* * * *
164420 TTGATCCACCTCCTTATGTGATAAAATCTAGAAAAAAACTGACAATGTTGATCCACCTCATTCTG
1 TTGATCCAACTCCTTATGTGATGAAATCGAG-CAAAAA--GACAATGTTGATCCACCTCATTCTG
* * * ** * * *
164485 TGATGGAATCGAACATAATGTCAATG-T-ATTTATATAATTCTGTGATATAATCAAGCAAAAGGT
63 TGATGGAATCAAACAAAATGTCGATGCTGATTTACCTCATTCTGTGATAAAATCAAGCAAAAAGT
*
164548 GACG
128 GATG
* * * * * * * *
164552 CTGATCCAACTCTTTATGCGATGGATTTGAGCAAAATGACAATGTTGATCCACCTCTTTCTGTGA
1 TTGATCCAACTCCTTATGTGATGAAATCGAGCAAAAAGACAATGTTGATCCACCTCATTCTGTGA
* *
164617 TGGAATTAAACAAAATGTCGATGCTGATTTACCTCATTCTGTGATAAAATCAAGCAAAAAGGCGA
66 TGGAATCAAACAAAATGTCGATGCTGATTTACCTCATTCTGTGATAAAATCAAGCAAAAA-GTGA
164682 T-
130 TG
* * * * ** * * *
164683 TCTAATCCAACTCCTTATCTGAT-AGATTTGAGGGAAATGGCAATGTTGATCCA-CTCATTCTTT
1 T-TGATCCAACTCCTTATGTGATGA-AATCGAGCAAAAAGACAATGTTGATCCACCTCATTCTGT
* * * * *
164746 GATGAAATCAAACAAAATGTCGTTGCTGATATACCTCATTCTGTGATAGAATCGAGCAACAAAGT
64 GATGGAATCAAACAAAATGTCGATGCTGATTTACCTCATTCTGTGATAAAATCAAGCAA-AAAGT
164811 GATG
128 GATG
* ** * *
164815 TTGATCCAACTCCTTATGTGATGAAATCCAGCAAAAAGGGAATGTTGATTCACCTTC-TTATGTG
1 TTGATCCAACTCCTTATGTGATGAAATCGAGCAAAAAGACAATGTTGATCCACC-TCATTCTGTG
*
164879 ATAGAATC
65 ATGGAATC
164887 CAATCTATAA
Statistics
Matches: 270, Mismatches: 55, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
129 46 0.17
130 1 0.00
131 137 0.51
132 84 0.31
133 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (131 bp):
TTGATCCAACTCCTTATGTGATGAAATCGAGCAAAAAGACAATGTTGATCCACCTCATTCTGTGA
TGGAATCAAACAAAATGTCGATGCTGATTTACCTCATTCTGTGATAAAATCAAGCAAAAAGTGAT
G
Found at i:168995 original size:17 final size:17
Alignment explanation
Indices: 168964--168997 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
168954 GTAAATAAAG
* *
168964 AAGAAGAAGATGAAGAA
1 AAGAAGAACAAGAAGAA
168981 AAGAAGAACAAGAAGAA
1 AAGAAGAACAAGAAGAA
168998 TGATGTAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.68, C:0.03, G:0.26, T:0.03
Consensus pattern (17 bp):
AAGAAGAACAAGAAGAA
Found at i:171743 original size:11 final size:11
Alignment explanation
Indices: 171717--171754 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
171707 TCCTAACATT
*
171717 TTCTTTTCTT-
1 TTCTTTTATTA
171727 TT-TTTTATTA
1 TTCTTTTATTA
171737 TTCTTTTATTA
1 TTCTTTTATTA
171748 TTCTTTT
1 TTCTTTT
171755 TCTCTCCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 6 0.24
10 4 0.16
11 15 0.60
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (11 bp):
TTCTTTTATTA
Found at i:173464 original size:19 final size:18
Alignment explanation
Indices: 173406--173466 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
173396 GATTGAAAGA
* *
173406 ATAAAAATGTAAAAAATA
1 ATAAAAATGTAAAGAATG
173424 ATAAAAATGTAAAGAATG
1 ATAAAAATGTAAAGAATG
*
173442 ATAAAGAATGTGAA-AATG
1 ATAAA-AATGTAAAGAATG
173460 TATAAAA
1 -ATAAAA
173467 TTATTGCCAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 26 0.68
19 12 0.32
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (18 bp):
ATAAAAATGTAAAGAATG
Found at i:176532 original size:19 final size:19
Alignment explanation
Indices: 176489--176532 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
176479 ATTGGAACAC
176489 CTAAAAACATGTAATTTTA
1 CTAAAAACATGTAATTTTA
* * *
176508 AT-AAAACATTTTATTTTA
1 CTAAAAACATGTAATTTTA
176526 CTAAAAA
1 CTAAAAA
176533 ATACCAAGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (19 bp):
CTAAAAACATGTAATTTTA
Found at i:178272 original size:20 final size:20
Alignment explanation
Indices: 178247--178284 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
178237 GTATTAAACC
178247 ATTAGAAATCATCAATCTAA
1 ATTAGAAATCATCAATCTAA
178267 ATTAGAAATCATCAATCT
1 ATTAGAAATCATCAATCT
178285 TAATCTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (20 bp):
ATTAGAAATCATCAATCTAA
Found at i:178328 original size:78 final size:78
Alignment explanation
Indices: 178194--178362 Score: 320
Period size: 78 Copynumber: 2.2 Consensus size: 78
178184 CAGACAAGGA
178194 AAATCATCAATCTTAATCTACATTTTTAGAATTAAATCTCAAAGTATTAAACCATTAGAAATCAT
1 AAATCATCAATCTTAATCTACATTTTTAGAATTAAATCTCAAAGTATTAAACCATTAGAAATCAT
*
178259 CAATCTAAATTAG
66 CAATCTAAATTAC
*
178272 AAATCATCAATCTTAATCTACATTTTTAGAATTAAATCTCAAAGTATTAAAGCATTAGAAATCAT
1 AAATCATCAATCTTAATCTACATTTTTAGAATTAAATCTCAAAGTATTAAACCATTAGAAATCAT
178337 CAATCTAAATTAC
66 CAATCTAAATTAC
178350 AAATCATCAATCT
1 AAATCATCAATCT
178363 AAATTAGAAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 89 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (78 bp):
AAATCATCAATCTTAATCTACATTTTTAGAATTAAATCTCAAAGTATTAAACCATTAGAAATCAT
CAATCTAAATTAC
Found at i:178353 original size:20 final size:20
Alignment explanation
Indices: 178325--178376 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
178315 GTATTAAAGC
178325 ATTAGAAATCATCAATCTAA
1 ATTAGAAATCATCAATCTAA
*
178345 ATTACAAATCATCAATCTAA
1 ATTAGAAATCATCAATCTAA
178365 ATTAGAAATCAT
1 ATTAGAAATCAT
178377 TTAGAATCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (20 bp):
ATTAGAAATCATCAATCTAA
Found at i:183816 original size:29 final size:29
Alignment explanation
Indices: 183782--183840 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
183772 CCTAAATTAA
183782 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
*
183811 TTTGATGTCATTGCTTACATTAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
183840 T
1 T
183841 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.51
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:190180 original size:42 final size:40
Alignment explanation
Indices: 190134--190280 Score: 133
Period size: 41 Copynumber: 3.6 Consensus size: 40
190124 GGTTCATTTA
190134 TAGTGGCGTTTTTTCGACAAACGCCGCAACAGAGTAGTACTT
1 TAGTGGCGTTTTTTC-ACAAACGCCGCAACAGA-TAGTACTT
* * * * *
190176 TAGTGACATTTTTAT-ACAAACGCCTCAATAGATCCA-T-CTA
1 TAGTGGCGTTTTT-TCACAAACGCCGCAACAGAT--AGTACTT
*
190216 TAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGTACTT
1 TAGTGGCGTTTTTTC-ACAAACGCCGCAACAGA-TAGTACTT
190258 TAGTGG-GTTTTTAT-ACAAACGCC
1 TAGTGGCGTTTTT-TCACAAACGCC
190281 ACAATATGGT
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
39 1 0.01
40 23 0.27
41 37 0.44
42 22 0.26
43 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (40 bp):
TAGTGGCGTTTTTTCACAAACGCCGCAACAGATAGTACTT
Found at i:190302 original size:40 final size:40
Alignment explanation
Indices: 190258--190390 Score: 94
Period size: 40 Copynumber: 3.3 Consensus size: 40
190248 ATTAGTACTT
190258 TAGTGGGTTTTTATACAAACGCCACAATATGGTTCACCTA
1 TAGTGGGTTTTTATACAAACGCCACAATATGGTTCACCTA
* * ** * *
190298 TAGTGGCATTTTTCAATA-AATACCGCAACAA-AT--TAGAACTT
1 TAGTGG-GTTTTT--ATACAA-A-CGCCACAATATGGTTCACCTA
* ** *
190339 TAGTGGGTTTTTATACAAATGCCGTAATAGGGTTCACCTA
1 TAGTGGGTTTTTATACAAACGCCACAATATGGTTCACCTA
*
190379 TAGTGGCTTTTT
1 TAGTGGGTTTTT
190391 TAATAAACGC
Statistics
Matches: 67, Mismatches: 17, Indels: 18
0.66 0.17 0.18
Matches are distributed among these distances:
37 4 0.06
38 5 0.07
39 2 0.03
40 26 0.39
41 15 0.22
42 2 0.03
43 6 0.09
44 7 0.10
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (40 bp):
TAGTGGGTTTTTATACAAACGCCACAATATGGTTCACCTA
Found at i:190324 original size:81 final size:81
Alignment explanation
Indices: 190132--190481 Score: 409
Period size: 81 Copynumber: 4.3 Consensus size: 81
190122 AGGGTTCATT
* * * * **
190132 TATAGTGGCGTTTTTTCGACAAACGCCGCAACAGAGTAGTACTTTAGTGACATTTTTATACAAAC
1 TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGAACTTTAGTG-GGTTTTTATACAAAC
* * * *
190197 GCCTCAATAGATCCATC
65 GCCGCAATAGGTTCACC
*
190214 TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGTACTTTAGTGGGTTTTTATACAAACG
1 TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGAACTTTAGTGGGTTTTTATACAAACG
*
190279 CCACAATATGGTTCACC
66 CCGCAATA-GGTTCACC
* ** * *
190296 TATAGTGGC-ATTTTTCAATAAATACCGCAACAAATTAGAACTTTAGTGGGTTTTTATACAAATG
1 TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGAACTTTAGTGGGTTTTTATACAAACG
*
190360 CCGTAATAGGGTTCACC
66 CCGCAATA-GGTTCACC
* * * *
190377 TATAGTGGC-TTTTTT-AATAAACGCCGTAACATATTAGAACTTTAGCGGCGATTTTATACAAAC
1 TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGAACTTTAGTGG-GTTTTTATACAAAC
* * *
190440 GTCGTAATAGTGTTTACC
65 GCCGCAATAG-GTTCACC
190458 TATAGTGGCGTTTTTTCAATAAAC
1 TATAGTGGCGTTTTTTCAATAAAC
190482 TCCATAATTG
Statistics
Matches: 235, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
80 29 0.12
81 133 0.57
82 66 0.28
83 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (81 bp):
TATAGTGGCGTTTTTTCAATAAACGCCGCAACAGATTAGAACTTTAGTGGGTTTTTATACAAACG
CCGCAATAGGTTCACC
Found at i:191142 original size:20 final size:20
Alignment explanation
Indices: 191113--191151 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
191103 AAAGCTCATA
*
191113 TAGGATCATATAGATGCATT
1 TAGGACCATATAGATGCATT
*
191133 TAGGACCATATAGCTGCAT
1 TAGGACCATATAGATGCAT
191152 GTGATGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
TAGGACCATATAGATGCATT
Found at i:192739 original size:20 final size:19
Alignment explanation
Indices: 192714--192770 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
192704 AAAATGTTAA
192714 AGTGTACCGATACACTCTGC
1 AGTGTACCGATACAC-CTGC
192734 AGTGTATCC-ATACA-CTG-
1 AGTGTA-CCGATACACCTGC
192751 -GTGTACCGATACACCCTGC
1 AGTGTACCGATACA-CCTGC
192770 A
1 A
192771 TTATATCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
18 6 0.19
20 11 0.35
21 2 0.06
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (19 bp):
AGTGTACCGATACACCTGC
Found at i:192762 original size:16 final size:17
Alignment explanation
Indices: 192714--192764 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
192704 AAAATGTTAA
192714 AGTGTACCGATACACTCTG
1 AGTGTACCGATACA--CTG
192733 CAGTGTATCC-ATACACTG
1 -AGTGTA-CCGATACACTG
192751 -GTGTACCGATACAC
1 AGTGTACCGATACAC
192765 CCTGCATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.07
16 11 0.38
18 3 0.10
20 11 0.38
21 2 0.07
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (17 bp):
AGTGTACCGATACACTG
Found at i:192906 original size:21 final size:21
Alignment explanation
Indices: 192880--192920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
192870 TTTGAATTTA
*
192880 ATGAAGGTGTACCGATACCCT
1 ATGAAGGGGTACCGATACCCT
*
192901 ATGAAGGGGTATCGATACCC
1 ATGAAGGGGTACCGATACCC
192921 CATGTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
ATGAAGGGGTACCGATACCCT
Found at i:193252 original size:34 final size:34
Alignment explanation
Indices: 193209--193275 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
193199 TATAAAATGA
* *
193209 AAGGTTCTAGCTGATCCCTTGAAAAACTAGGGAT
1 AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGAT
* *
193243 AAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGA
193276 GTTGTAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (34 bp):
AAGGTTCTAGCTGAGCCCGTGAAAAACTAGGGAT
Found at i:195571 original size:16 final size:19
Alignment explanation
Indices: 195523--195573 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
195513 AAAATGCTAA
195523 AGTGTACCGATACACTGTG
1 AGTGTACCGATACACTGTG
195542 CAGTGTATCC-ATACA-T-TG
1 -AGTGTA-CCGATACACTGTG
195560 -GTGTACCGATACAC
1 AGTGTACCGATACAC
195574 CCTGCAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.07
16 10 0.36
18 2 0.07
19 1 0.04
20 11 0.39
21 2 0.07
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (19 bp):
AGTGTACCGATACACTGTG
Found at i:195715 original size:21 final size:21
Alignment explanation
Indices: 195689--195728 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
195679 TTTGAATTTA
*
195689 ATGAAGGTGTATCGATACCCT
1 ATGAAGGGGTATCGATACCCT
195710 ATGAAGGGGTATCGATACC
1 ATGAAGGGGTATCGATACC
195729 TCATGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (21 bp):
ATGAAGGGGTATCGATACCCT
Found at i:196646 original size:12 final size:12
Alignment explanation
Indices: 196589--196640 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
196579 TATAGAATTT
*
196589 TTATTTTACTTT
1 TTATTTTACTTG
**
196601 TTCATTTTTTTTG
1 TT-ATTTTACTTG
196614 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
196628 TTATTTTACTTG
1 TTATTTTACTTG
196640 T
1 T
196641 CTTTTTCAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 12 0.38
13 11 0.34
14 9 0.28
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:199710 original size:16 final size:18
Alignment explanation
Indices: 199689--199726 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
199679 TCTAAAAATG
199689 AAAAAAT-AATTGTG-AT
1 AAAAAATAAATTGTGAAT
199705 AAAAAATGAAATTGTGAAT
1 AAAAAAT-AAATTGTGAAT
199724 AAA
1 AAA
199727 TGCTTCAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (18 bp):
AAAAAATAAATTGTGAAT
Found at i:203198 original size:13 final size:13
Alignment explanation
Indices: 203180--203204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203170 TATTACATCG
203180 GCAATAGAAAACT
1 GCAATAGAAAACT
203193 GCAATAGAAAAC
1 GCAATAGAAAAC
203205 GTATTTTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (13 bp):
GCAATAGAAAACT
Found at i:212705 original size:33 final size:33
Alignment explanation
Indices: 212606--212705 Score: 78
Period size: 33 Copynumber: 3.0 Consensus size: 33
212596 TTAACAATAG
* * * * *
212606 CATATCGAGCAACTTCAACTCCAGCA-CATCCAG
1 CATATCGATCATCTTCAACTGCTGCACCA-CCAA
* * * * *
212639 CAAATCGATCATTTTAAACTGGT-CAACCTCCAA
1 CATATCGATCATCTTCAACTGCTGC-ACCACCAA
212672 CATATCGATCATCTTCAACTGCTGCACCACCAA
1 CATATCGATCATCTTCAACTGCTGCACCACCAA
212705 C
1 C
212706 TGCCCCACCA
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
32 1 0.02
33 46 0.94
34 2 0.04
ACGTcount: A:0.33, C:0.34, G:0.10, T:0.23
Consensus pattern (33 bp):
CATATCGATCATCTTCAACTGCTGCACCACCAA
Found at i:221842 original size:23 final size:22
Alignment explanation
Indices: 221812--221893 Score: 94
Period size: 23 Copynumber: 3.6 Consensus size: 22
221802 GCATGGCCTT
221812 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
221834 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
221856 GTGTATCGATGCACATTCAAGGG
1 GTGCATCGATGCACATTCAA-GG
221879 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
221894 TGTTAGGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
21 15 0.31
22 3 0.06
23 18 0.38
24 12 0.25
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:221912 original size:44 final size:44
Alignment explanation
Indices: 221820--221912 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
221810 TTGTGCATCG
* *
221820 ATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGTATCA
* *
221864 ATGCACATTCAAGGGGATGCATCGATGCA-CTGTTA-GGTGTATCA
1 ATGCACATTCAAGGCG-TGCATCGATGCACCT-TCATGGTGTATCA
221908 ATGCA
1 ATGCA
221913 TTAAGCACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 30 0.70
45 13 0.30
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (44 bp):
ATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGTATCA
Found at i:225759 original size:22 final size:21
Alignment explanation
Indices: 225717--225756 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
225707 GAGCTTATTT
*
225717 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
225738 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
225757 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:236166 original size:26 final size:27
Alignment explanation
Indices: 236137--236191 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
236127 ATAAATAAAT
* *
236137 AAATAAATAAAATGAAA-TAAAAGTAA
1 AAATAAATAAAAGGAAACTAAAAATAA
* *
236163 AAATATATATAAGGAAACTAAAAATAA
1 AAATAAATAAAAGGAAACTAAAAATAA
236190 AA
1 AA
236192 TACATATACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (27 bp):
AAATAAATAAAAGGAAACTAAAAATAA
Found at i:236192 original size:26 final size:26
Alignment explanation
Indices: 236162--236214 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
236152 AATAAAAGTA
*
236162 AAAATATATATAAGGAAACTAAAAAT
1 AAAATACATATAAGGAAACTAAAAAT
** *
236188 AAAATACATATACTGATACTAAAAAT
1 AAAATACATATAAGGAAACTAAAAAT
236214 A
1 A
236215 TGTATGTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (26 bp):
AAAATACATATAAGGAAACTAAAAAT
Found at i:236314 original size:13 final size:13
Alignment explanation
Indices: 236296--236322 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
236286 ATTATATACG
236296 TTTTCAAAAACCA
1 TTTTCAAAAACCA
236309 TTTTCAAAAACCA
1 TTTTCAAAAACCA
236322 T
1 T
236323 ATATATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAACCA
Found at i:236347 original size:16 final size:15
Alignment explanation
Indices: 236326--236359 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
236316 AAACCATATA
236326 TATGTTTTCAAAATAC
1 TATGTTTTCAAAA-AC
236342 TATGTTTTCAAAAAC
1 TATGTTTTCAAAAAC
236357 TAT
1 TAT
236360 ATTATATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (15 bp):
TATGTTTTCAAAAAC
Found at i:236351 original size:76 final size:75
Alignment explanation
Indices: 236264--236443 Score: 215
Period size: 76 Copynumber: 2.4 Consensus size: 75
236254 AAAACAATAT
* *
236264 AATATGTTTTCAAAGATTA-TATATTATATACGTTTT-CAAAAACCATTTTCAAAAAC-CATA-T
1 AATATGTTTTCAAA-A--ACTATATTATATACGTTTTAAAAAAACCATTTTAAAAAACACATATT
236325 ATATGTTTTCAAA
63 ATATGTTTTCAAA
* * * *
236338 ATACTATGTTTTCAAAAACTATATTATATATGTTTTAAAAAAATCGTTTTAAAAAACTATATATT
1 A-A-TATGTTTTCAAAAACTATATTATATACGTTTTAAAAAAACCATTTTAAAAAAC-ACATATT
236403 ATATGTTTTCAAA
63 ATATGTTTTCAAA
*
236416 AATATGTTTTCAAAAACTACATTATATA
1 AATATGTTTTCAAAAACTATATTATATA
236444 TGATATATTT
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
73 1 0.01
74 17 0.18
75 18 0.20
76 37 0.40
77 4 0.04
78 15 0.16
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (75 bp):
AATATGTTTTCAAAAACTATATTATATACGTTTTAAAAAAACCATTTTAAAAAACACATATTATA
TGTTTTCAAA
Found at i:236387 original size:38 final size:38
Alignment explanation
Indices: 236283--236445 Score: 169
Period size: 38 Copynumber: 4.3 Consensus size: 38
236273 TCAAAGATTA
* *
236283 TATATTATATACGTTTTCAAAAACCA--TTTTCAAAAAC
1 TATATTATATATGTTTTCAAAAA-AATGTTTTCAAAAAC
* *
236320 --CA-TATATATGTTTTCAAAATACTATGTTTTCAAAAAC
1 TATATTATATATGTTTTCAAAA-A-AATGTTTTCAAAAAC
*
236357 TATATTATATATGTTTT-AAAAAAATCGTTTTAAAAAAC
1 TATATTATATATGTTTTCAAAAAAAT-GTTTTCAAAAAC
*
236395 TATA-TATTATATGTTTTCAAAAATATGTTTTCAAAAAC
1 TATATTA-TATATGTTTTCAAAAAAATGTTTTCAAAAAC
*
236433 TACATTATATATG
1 TATATTATATATG
236446 ATATATTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
34 16 0.15
35 4 0.04
37 15 0.14
38 46 0.43
39 14 0.13
40 12 0.11
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (38 bp):
TATATTATATATGTTTTCAAAAAAATGTTTTCAAAAAC
Found at i:236422 original size:14 final size:14
Alignment explanation
Indices: 236403--236431 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
236393 ACTATATATT
236403 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
236417 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
236431 A
1 A
236432 CTACATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:236469 original size:2 final size:2
Alignment explanation
Indices: 236464--236523 Score: 104
Period size: 2 Copynumber: 30.0 Consensus size: 2
236454 TTTAAATTAC
236464 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
236506 TA TCA TA TA TA T- TA TA TA
1 TA T-A TA TA TA TA TA TA TA
236524 ATGTAATAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 53 0.95
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:244562 original size:40 final size:40
Alignment explanation
Indices: 244507--244624 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
244497 TTCTCCATAC
244507 TTTGTAGCATAACACGATCTGGTTTCATGTCATTTACATG
1 TTTGTAGCATAACACGATCTGGTTTCATGTCATTTACATG
*
244547 TTTGTAGCATAACACGATATGGTTTCATGTCATTTACATG
1 TTTGTAGCATAACACGATCTGGTTTCATGTCATTTACATG
* *
244587 TTTGTAGCATAACTCGATCTGGTTTCGTGTCATTTACA
1 TTTGTAGCATAACACGATCTGGTTTCATGTCATTTACA
244625 AGATCTTTCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (40 bp):
TTTGTAGCATAACACGATCTGGTTTCATGTCATTTACATG
Found at i:247792 original size:45 final size:45
Alignment explanation
Indices: 247740--247945 Score: 261
Period size: 45 Copynumber: 4.5 Consensus size: 45
247730 TATTCATTAT
* * * *
247740 TTTCATTTGTCACATCCTTTAATGCCTTTAATGCACCATTATACA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCATTATGCA
* * *
247785 TTACATTTATGGCATCCTTTCATGCCTTTAATACACCATTATGCA
1 TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCATTATGCA
**
247830 TTTCATTTATGGA-ATCCTTTCATGCCTTTAATGCACTGTTATGCA
1 TTTCATTTAT-GACATCCTTTCATGCCTTTAATGCACCATTATGCA
*
247875 TTTCATTTATGACATCCTTTCTTTCATGCCTCTAATGCACCATTATGCA
1 TTTCATTTATGACAT-C---CTTTCATGCCTTTAATGCACCATTATGCA
*
247924 TTTCATTTATGGCATCCTTTCA
1 TTTCATTTATGACATCCTTTCA
247946 CGCTTTTTCA
Statistics
Matches: 139, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
44 2 0.01
45 94 0.68
46 2 0.01
48 1 0.01
49 40 0.29
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.43
Consensus pattern (45 bp):
TTTCATTTATGACATCCTTTCATGCCTTTAATGCACCATTATGCA
Found at i:247941 original size:94 final size:90
Alignment explanation
Indices: 247752--247945 Score: 271
Period size: 94 Copynumber: 2.1 Consensus size: 90
247742 TCATTTGTCA
* * *
247752 CATCCTTTAATGCCTTTAATGCACCATTATACATTACATTTATGGCATCCTTTCATGCCTTTAAT
1 CATCCTTTCATGCCTTTAATGCACCATTATACATTACATTTATGACATCCTTTCATGCCTCTAAT
247817 ACACCATTATGCATTTCATTTATGG
66 ACACCATTATGCATTTCATTTATGG
* ** * *
247842 AATCCTTTCATGCCTTTAATGCACTGTTATGCATTTCATTTATGACATCCTTTCTTTCATGCCTC
1 CATCCTTTCATGCCTTTAATGCACCATTATACATTACATTTATGACAT-C---CTTTCATGCCTC
*
247907 TAATGCACCATTATGCATTTCATTTATGG
62 TAATACACCATTATGCATTTCATTTATGG
247936 CATCCTTTCA
1 CATCCTTTCA
247946 CGCTTTTTCA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
90 41 0.46
91 1 0.01
94 48 0.53
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (90 bp):
CATCCTTTCATGCCTTTAATGCACCATTATACATTACATTTATGACATCCTTTCATGCCTCTAAT
ACACCATTATGCATTTCATTTATGG
Found at i:248495 original size:95 final size:95
Alignment explanation
Indices: 248324--248523 Score: 224
Period size: 95 Copynumber: 2.1 Consensus size: 95
248314 CCCTGCCATT
* * * * *
248324 GTATCGATACTTCAATACTATGGTACCGATACCCCCTTTTACTATCGATCCCATTTCCATATTAT
1 GTATCGATACTACAATACTATGGTACCAATACCCCCTTTCACTATCGATACCATTTCCACATTAT
* *
248389 GTAATTAATGGTATCAATACCTTT-CTCTCA
66 GGAATCAATGGTATCAATA-CTTTCCTCTCA
* * * * * *
248419 GTATCGATACTACTATACTATGGTATCAATACTCCCTTTCAGTATCGATACCATTT-TAGCATTC
1 GTATCGATACTACAATACTATGGTACCAATACCCCCTTTCACTATCGATACCATTTCCA-CATTA
* * *
248483 TGGAATCCATGGTATCAATACTTTCCTTTGA
65 TGGAATCAATGGTATCAATACTTTCCTCTCA
248514 GTATCGATAC
1 GTATCGATAC
248524 CCCATCAGTA
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
94 5 0.06
95 82 0.94
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (95 bp):
GTATCGATACTACAATACTATGGTACCAATACCCCCTTTCACTATCGATACCATTTCCACATTAT
GGAATCAATGGTATCAATACTTTCCTCTCA
Found at i:248535 original size:17 final size:17
Alignment explanation
Indices: 248513--248557 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
248503 CTTTCCTTTG
248513 AGTATCGATACCCCATC
1 AGTATCGATACCCCATC
248530 AGTATCGATACCCCATC
1 AGTATCGATACCCCATC
*
248547 ATTATCGATAC
1 AGTATCGATAC
248558 TAATTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (17 bp):
AGTATCGATACCCCATC
Done.