Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009641.1 Hibiscus syriacus cultivar Beakdansim tig00117051_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: 93586
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.32
Found at i:368 original size:104 final size:106
Alignment explanation
Indices: 1--719 Score: 1116
Period size: 105 Copynumber: 7.0 Consensus size: 106
1 TCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAA-TGAGAA-TTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
63 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT-AAGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
*
103 TCC-ATATCCTTCG--GTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-TG-TTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
163 GCGGT-CCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
* *
203 TCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
*
267 GCGGTCCCTTTGTCGTGAAGTTGAACATGCGTTGTCAAGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
*
308 TCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTG-TTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
* **
371 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
*
412 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC-GAAATTGAGAAGTTGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
**
476 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAG
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
* *
517 TCCAATATCCTTCTTGTGTGAAGTTGAAATTGGCTCTGAAA-TGAGAA-ATGTTTGTTGACAACC
1 TCCAATATCCTTCGT-TGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
* * **
580 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
* *
622 TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AATCGAGAA--TGTTTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
*
684 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
66 GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTC
720 TCGAGTGGCA
Statistics
Matches: 582, Mismatches: 21, Indels: 27
0.92 0.03 0.04
Matches are distributed among these distances:
99 38 0.07
100 40 0.07
101 27 0.05
102 3 0.01
103 91 0.16
104 143 0.25
105 210 0.36
106 26 0.04
107 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (106 bp):
TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCA
GCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAG
Found at i:583 original size:314 final size:310
Alignment explanation
Indices: 1--725 Score: 1128
Period size: 314 Copynumber: 2.3 Consensus size: 310
1 TCCAATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAA-TGAGAATTGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAACCAG
* *
64 CGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGT-AAGAGTCCATATCCTTCGGTGAAGTTGAAA
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCATATCCTTCGGTGAAGTTGAAA
*
128 TTGGCTCTGAAATTGGGAAGTGTTGTTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACATGCG
131 TTGGCTCTGAAATTGAGAAGTGTTGTTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACATGCG
* *
193 TTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGT
196 TTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTGT
* *
258 TGACAACCAGCGGTCCCTTTGTCGTGAAGTTGAACATGCGTTGTCAAGAG
261 TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCAAGAG
*
308 TCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTG-TTGTTGACAACCA
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTGTTGACAACCA
*
371 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTT
65 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCC-ATATCCTTCG--GTGAAGTT
436 GAAATTGGCTC-GAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
127 GAAATTGGCTCTGAAATTGAGAAG-TG-TTGTTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGA
** * *
500 ACATGCGTTGTCTGGAGTCCAATATCCTTCTTGTGTGAAGTTGAAATTGGCTCTGAAA-TGAGAA
189 ACATGCGTTGTCAAGAGTCCAATATCCTTCGT-TGCGAAGTTGAAATTGGCTCTGAAATTGAGAA
* **
564 A-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAG
253 ATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCAAGAG
* *
622 TCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTG-AATCGAGAA-TGTTTGTTGACAACCAG
1 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAACCAG
*
685 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
726 GGCACGATAC
Statistics
Matches: 384, Mismatches: 20, Indels: 22
0.90 0.05 0.05
Matches are distributed among these distances:
307 24 0.06
308 64 0.17
309 11 0.03
310 10 0.03
311 11 0.03
312 23 0.06
313 78 0.20
314 139 0.36
315 24 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (310 bp):
TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCATATCCTTCGGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTGTTGTTGACAACCAGCGGTCCTTCGTCGTGAAGTTGAACATGCG
TTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTGT
TGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCAAGAG
Found at i:1016 original size:103 final size:106
Alignment explanation
Indices: 796--2400 Score: 2465
Period size: 103 Copynumber: 15.5 Consensus size: 106
786 CCTTGACTTG
* * * *
796 ATATCCTTCGTCGTGAAG-TGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
860 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
901 ATATCCTTCGTTGTGAA-TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA-CAGC-G
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* ***
963 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTAAAGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1004 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* **
1068 TCCCTTCGTCGTGAAG-TGAAC-AGCGTTGTCAAGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1107 ATATCCTTCGTTGCGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTG-TGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* *
1170 TCCCTTCGTC-----GTTGAAACATGCGTTGTC-AGAGTCCA
66 TCCCTTCGTCGTGAAGTTG-AACTTGCGTTGTCTGGAGTCCA
* *
1206 ATAT-ATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1269 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1310 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* *
1375 TCCCTTCATCGTGAAG-TGAACATGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1415 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGAGAA-ATGTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* *
1478 TCCCTTCGTCGTGAAGTTGAACTTACGTTGTTTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1519 ATATCCTTCGTTGTGAAGTTG-AATTGACTCTGAAATCGAGAA-ATG-TTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1581 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1622 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCA--GG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1684 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
1725 ATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* *
1787 TCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * *
1828 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1893 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
1934 A-ATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
1998 TCCCTTCGTCGTGAAGTTG-ACTTGTGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
2038 ATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAGTGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
2102 TCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* * * * *
2143 CTATCCTTCGCTGTGAAGTTGAAATTGACTCT-ACAATTG-GAAAATTG-TTATTGACAACCAGC
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAG-AAGTTGTTTGTTGACAACCAGC
2205 GGTCCCTTCGTCGTGAAGTTGAACTTGCG-TGTCTGGAGTCCA
64 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
2247 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* **
2312 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
2353 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGGGAA-TTGTT
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTT
2401 GAGGTGTAGC
Statistics
Matches: 1397, Mismatches: 68, Indels: 70
0.91 0.04 0.05
Matches are distributed among these distances:
97 1 0.00
98 45 0.03
99 38 0.03
100 9 0.01
101 12 0.01
102 23 0.02
103 435 0.31
104 265 0.19
105 409 0.29
106 160 0.11
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:1516 original size:209 final size:212
Alignment explanation
Indices: 796--2400 Score: 2474
Period size: 209 Copynumber: 7.7 Consensus size: 212
786 CCTTGACTTG
* * * *
796 ATATCCTTCGTCGTGAAG-TGAAATTGGCTCTGGATTTGAGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
860 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA-TTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
924 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA-CAGC-GTCCCTTCGTCGTGAAGTTGAACAT
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
***
987 GCGTTGTAAAGAGTCCA
196 GCGTTGTCTGGAGTCCA
*
1004 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* ** *
1068 TCCCTTCGTCGTGAAG-TGAAC-AGCGTTGTCAAGAGTCCAATATCCTTCGTTGCGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1131 TTGGCTCTGAAATTGGGAAGTTG-TTG-TGACAACCAGCGGTCCCTTCGTC-----GTTGAAACA
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG-AACA
*
1189 TGCGTTGTC-AGAGTCCA
195 TGCGTTGTCTGGAGTCCA
* *
1206 ATAT-ATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
1269 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1334 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAG-TGAACAT
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
1398 GCGTTGTCTGGAGTCCA
196 GCGTTGTCTGGAGTCCA
*
1415 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA-TGAGAA-ATGTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* *
1478 TCCCTTCGTCGTGAAGTTGAACTTACGTTGTTTGGAGTCCAATATCCTTCGTTGTGAAGTTG-AA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* * * *
1542 TTGACTCTGAAATCGAGAA-ATG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
1605 GCGTTGTCTGGAGTCCA
196 GCGTTGTCTGGAGTCCA
*
1622 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCA--GG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
*
1684 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
*
1749 TTGGCTCTGAAATTGGGAA---GTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
*
1811 ACGTTGTCTGGAGTCCA
196 GCGTTGTCTGGAGTCCA
* * *
1828 ATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1893 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA-ATCCTTCGTTGTGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* *
1957 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTTG-ACTT
131 TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
*
2021 GTGTTGTCTGGAGTCCA
196 GCGTTGTCTGGAGTCCA
* *
2038 ATATCCTTCGTTGTGAAGTTG-AATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAACCAGTGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* * *
2102 TCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* * *
2167 TTGACTCT-ACAATTG-GAAAATTG-TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TTGGCTCTGA-AATTGAG-AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
2229 TTGCG-TGTCTGGAGTCCA
194 ATGCGTTGTCTGGAGTCCA
2247 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
* **
2312 TCCCTTCGTCGTGAAGTTGAACATGCGTTGTCAAGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
* *
2377 TTGGCTCTAAAATTGGGAA-TTGTT
131 TTGGCTCTGAAATTGAGAAGTTGTT
2401 GAGGTGTAGC
Statistics
Matches: 1288, Mismatches: 73, Indels: 70
0.90 0.05 0.05
Matches are distributed among these distances:
201 74 0.06
202 21 0.02
203 71 0.06
204 3 0.00
205 29 0.02
206 232 0.18
207 134 0.10
208 140 0.11
209 317 0.25
210 228 0.18
211 39 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (212 bp):
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACAT
GCGTTGTCTGGAGTCCA
Found at i:6194 original size:16 final size:16
Alignment explanation
Indices: 6173--6222 Score: 91
Period size: 16 Copynumber: 3.1 Consensus size: 16
6163 TTATAGACTG
*
6173 AAAGTTAAAATCTATA
1 AAAGTTGAAATCTATA
6189 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
6205 AAAGTTGAAATCTATA
1 AAAGTTGAAATCTATA
6221 AA
1 AA
6223 CATTAGTGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (16 bp):
AAAGTTGAAATCTATA
Found at i:8702 original size:39 final size:39
Alignment explanation
Indices: 8658--8733 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
8648 ACTAGAGAAC
8658 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
1 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
8697 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTG
1 AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTG
8734 GGTTATCGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (39 bp):
AACTGACTTGGAACCAGGAGAAACCCTAATGACTGTGAG
Found at i:17828 original size:3 final size:3
Alignment explanation
Indices: 17820--17873 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
17810 ATTTTTTCAT
* *
17820 TTA TTA TTA TTT TTA TTA TTTA TTTA TTA -TA TT- TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
17865 TTA TTA TTA
1 TTA TTA TTA
17874 AAAATAAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 3 0.07
3 34 0.77
4 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:17844 original size:13 final size:13
Alignment explanation
Indices: 17819--17866 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
17809 CATTTTTTCA
17819 TTTATTA-TTATT
1 TTTATTATTTATT
17831 TTTATTATTTATT
1 TTTATTATTTATT
17844 TATTA-TATTTCATT
1 T-TTATTATTT-ATT
*
17858 ATTATTATT
1 TTTATTATT
17867 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 7 0.23
13 14 0.45
14 10 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTATTATTTATT
Found at i:19389 original size:20 final size:20
Alignment explanation
Indices: 19352--19395 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
19342 GTTTTAGTTT
* *
19352 TATTCAAATTATTTTTTATA
1 TATTCAAATTAATATTTATA
* *
19372 TATTCTAATTAATATTTATT
1 TATTCAAATTAATATTTATA
19392 TATT
1 TATT
19396 TTTTAATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTCAAATTAATATTTATA
Found at i:20217 original size:17 final size:17
Alignment explanation
Indices: 20197--20238 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
20187 GAAAGCGACG
20197 TCTTCGTGAGAATTTAT
1 TCTTCGTGAGAATTTAT
20214 TCTTCGTGAGAATTTAT
1 TCTTCGTGAGAATTTAT
*
20231 TCTCCGTG
1 TCTTCGTG
20239 TCAGACTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (17 bp):
TCTTCGTGAGAATTTAT
Found at i:22394 original size:20 final size:19
Alignment explanation
Indices: 22369--22423 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
22359 ATATTCATAC
* *
22369 TTTTATGTTTGCATTTGCAT
1 TTTTAT-TTTACATTTGAAT
* *
22389 TTTTATATTTTCATTGGAAT
1 TTTTAT-TTTACATTTGAAT
22409 TTTTATTTTACATTT
1 TTTTATTTTACATTT
22424 CACTTCATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (19 bp):
TTTTATTTTACATTTGAAT
Found at i:22446 original size:12 final size:12
Alignment explanation
Indices: 22415--22461 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
22405 GAATTTTTAT
22415 TTTACATTT-CA
1 TTTACATTTGCA
*
22426 CTT-CATTTGCA
1 TTTACATTTGCA
22437 TTTACATTTGCA
1 TTTACATTTGCA
22449 TTTACATTTGCA
1 TTTACATTTGCA
22461 T
1 T
22462 CTTTGCATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 5 0.16
11 6 0.19
12 21 0.66
ACGTcount: A:0.23, C:0.19, G:0.06, T:0.51
Consensus pattern (12 bp):
TTTACATTTGCA
Found at i:24311 original size:64 final size:65
Alignment explanation
Indices: 24153--24314 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
24143 AATTAAATTG
* * *
24153 AACATCGAATGCATTTCATGCATCGATGCACTTACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACTCACCATGCACCGATGCACTCAGGATTTTATGAA
* * *
24218 AACATCGAATGCATTTGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTT-T-
1 AACATCGAATGCATTTGATGCATCGATGCACTCA-CCATGCACCGATGCACTCAGGAT-TTTATG
24280 AA
64 AA
* *
24282 AACATCTAATGCACTTGATGCATCGATGCACTC
1 AACATCGAATGCATTTGATGCATCGATGCACTC
24315 TTAGTGCACC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
64 32 0.37
65 51 0.59
66 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACTCACCATGCACCGATGCACTCAGGATTTTATGAA
Found at i:30072 original size:31 final size:31
Alignment explanation
Indices: 30030--30088 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
30020 AACTTAAAAG
* *
30030 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
30061 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
30089 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:30139 original size:22 final size:22
Alignment explanation
Indices: 30113--30155 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
30103 TAATAAATTA
30113 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
30135 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
30156 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:30164 original size:22 final size:22
Alignment explanation
Indices: 30115--30163 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
30105 ATAAATTATT
**
30115 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
30137 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
30160 TAAA
1 TAAA
30164 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:30167 original size:54 final size:54
Alignment explanation
Indices: 30103--30519 Score: 525
Period size: 54 Copynumber: 7.8 Consensus size: 54
30093 ACAACTACAA
30103 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** *
30157 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * *
30217 TAAAATAAATCAATTCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
30269 TAATAAATTATTTAAAATAAATCACTCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
30323 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
30377 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
30431 TAATAAATTATTTAAAATAAATCAATCCATA--CT--AATAAATC-AT--TTA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * *
30477 AAATAAATTATTTTAAAATAAATCAATCTATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
30520 TTTATTTTAA
Statistics
Matches: 320, Mismatches: 26, Indels: 37
0.84 0.07 0.10
Matches are distributed among these distances:
46 9 0.03
47 22 0.07
49 3 0.01
50 26 0.08
51 5 0.02
52 2 0.01
53 2 0.01
54 206 0.64
55 3 0.01
56 1 0.00
57 4 0.01
58 16 0.05
59 1 0.00
60 1 0.00
62 19 0.06
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:30173 original size:32 final size:32
Alignment explanation
Indices: 30135--30484 Score: 317
Period size: 32 Copynumber: 12.4 Consensus size: 32
30125 CAATCCATAT
30135 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
30167 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
30197 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
30215 TTTAAAATAAATCAATTCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30247 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
30279 TTTAAAATAAATC-A--C-T-C-CAT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30301 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30333 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30355 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30387 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30409 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
30441 TTTAAAATAAATCAATCCATACTAATAAATCA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
30473 TTTAAAATAAAT
1 TTTAAAATAAAT
30485 TATTTTAAAA
Statistics
Matches: 264, Mismatches: 8, Indels: 92
0.73 0.02 0.25
Matches are distributed among these distances:
20 1 0.00
22 58 0.22
23 7 0.03
24 5 0.02
25 1 0.00
26 24 0.09
27 2 0.01
28 10 0.04
29 1 0.00
30 4 0.02
31 8 0.03
32 143 0.54
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:30305 original size:22 final size:22
Alignment explanation
Indices: 30279--30321 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
30269 TAATAAATTA
*
30279 TTTAAAATAAATCACTCCATAT
1 TTTAAAATAAATCAATCCATAT
30301 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
30322 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:30330 original size:22 final size:22
Alignment explanation
Indices: 30281--30329 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30271 ATAAATTATT
* **
30281 TAAAATAAATCACTCCATATTT
1 TAAAATAAATCAATCCATATAA
30303 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
30326 TAAA
1 TAAA
30330 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:30359 original size:22 final size:22
Alignment explanation
Indices: 30333--30375 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
30323 TAATAAATTA
30333 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
30355 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
30376 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:30384 original size:22 final size:22
Alignment explanation
Indices: 30335--30383 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
30325 ATAAATTATT
**
30335 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
30357 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
30380 TAAA
1 TAAA
30384 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:30413 original size:22 final size:22
Alignment explanation
Indices: 30387--30429 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
30377 TAATAAATTA
30387 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
30409 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
30430 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:30438 original size:22 final size:22
Alignment explanation
Indices: 30389--30437 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
30379 ATAAATTATT
**
30389 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
30411 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
30434 TAAA
1 TAAA
30438 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:30493 original size:15 final size:15
Alignment explanation
Indices: 30464--30566 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
30454 AATCCATACT
*
30464 AATAAATCA-TTTAA
1 AATAAATTATTTTAA
30478 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
30493 AATAAATCAATCTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
*
30515 AATAATTTATTTTAA
1 AATAAATTATTTTAA
30530 AATAAATTATTTTAA
1 AATAAATTATTTTAA
30545 AATAAATTATTTTAA
1 AATAAATTATTTTAA
30560 AATAAAT
1 AATAAAT
30567 AACCTTATTA
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
14 8 0.11
15 51 0.67
16 1 0.01
17 1 0.01
18 1 0.01
19 2 0.03
20 1 0.01
21 1 0.01
22 10 0.13
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:32744 original size:21 final size:21
Alignment explanation
Indices: 32702--32745 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32692 ACTCCGAGAG
* *
32702 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
32723 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
32744 CT
1 CT
32746 CCTCCTCCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:33922 original size:65 final size:65
Alignment explanation
Indices: 33803--34014 Score: 238
Period size: 65 Copynumber: 3.3 Consensus size: 65
33793 TTTTTCAGAG
* * * **
33803 TGATGCACCGATGCAC-CAATCCATGCATCGATGCAC-CATGAATTAAATTG-AACATCGAATGC
1 TGATGCATCGATGCACTC-AGCCATGCATCGATGCACTC-TGGA-TATTTTGAAACATCGAATGC
33865 ATT
63 ATT
* * * *
33868 TCATGCATCGATGCACTTA-CCATGCATCGATGCGCTGTGGAT-TTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACTCAGCCATGCATCGATGCACTCTGGATATTT-TG-AAACATCGAATGCA
33931 TT
64 TT
* *
33933 TGATGCATCGATGCAC-CAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACTCAGCCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
33997 TGATGCATCGATGCACTC
1 TGATGCATCGATGCACTC
34015 TTAGTGCACC
Statistics
Matches: 125, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 50 0.40
65 68 0.54
66 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (65 bp):
TGATGCATCGATGCACTCAGCCATGCATCGATGCACTCTGGATATTTTGAAACATCGAATGCATT
Found at i:34012 original size:17 final size:19
Alignment explanation
Indices: 33984--34032 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
33974 TATTTTGAAA
33984 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
34002 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
34021 CACCGATGCACT
1 CATCGATGCACT
34033 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:37102 original size:123 final size:123
Alignment explanation
Indices: 36767--37170 Score: 609
Period size: 123 Copynumber: 3.3 Consensus size: 123
36757 CACTCGATGG
*
36767 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAAAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
36832 ATGAGAAGAACTTGTTTAACATTTTGCTCGATTCTATCACAGAATGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAGATAGATCAGC
* * * *
36890 ACCAACATTTCCAGAG-AGAGTTCATAAT---AAGAACTCATCTGAAAAGGAATAAGAAGTTCAT
1 ATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCAT
* *
36951 AATGAGAAGAACATGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATCAGC
65 AATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAGATAGATCAGC
* * *
37010 ATCAACATTTCTAGGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * * * *
37075 ATGAGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAAAATAAGATAAATCAAC
66 ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAGATAGATCAGC
37133 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT
1 ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACT
37171 TGTTCAATAT
Statistics
Matches: 252, Mismatches: 24, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
119 1 0.00
120 108 0.43
123 142 0.56
124 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (123 bp):
ATCAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAATGAGATAGATCAGC
Found at i:37208 original size:84 final size:84
Alignment explanation
Indices: 37067--37254 Score: 286
Period size: 84 Copynumber: 2.2 Consensus size: 84
37057 AGGAAGAAGA
* *
37067 AGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTCGACTCTATCACAAAATAAGATAAATCAA
1 AGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAAATCAA
*
37132 CATCAACATTGCCAGGTAG
66 CATCAACATTGCCAGATAG
* * * * * *
37151 AGTTCATAATGAGAAGAACTTGTTCAATATTTTTCTTGACTCTATCACAAAAGAAGATAGATCAG
1 AGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAAATCAA
*
37216 CATCAACATTTCCAGATAG
66 CATCAACATTGCCAGATAG
37235 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
37255 CATCTAAAGA
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 94 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (84 bp):
AGTTCATAATGAGAAGAACTTATTCAACATTTTGCTCGACTCTATCACAAAAGAAGATAAATCAA
CATCAACATTGCCAGATAG
Found at i:37544 original size:136 final size:138
Alignment explanation
Indices: 37217--37579 Score: 448
Period size: 136 Copynumber: 2.6 Consensus size: 138
37207 ATAGATCAGC
*
37217 ATCAACATTTCCAGATA-GAGTTCATAATGAGAAGAACTCATCTAAAGAGAAAGAAGAAGTTCAT
1 ATCAACATTTCCAGA-AGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* * * *
37281 AATGAGAAGAACTTGTTCGACCTTAACTTGATTCATCACCTATGGAGTTGAATTAGAGAAAAACC
65 AATGAGAAGAACTTGTTCGACC-TAACTTAATTCATCACATATGAAGTTGAATCAGAG-AAAACC
37346 TCACTCAAGGG
128 TCACTCAAGGG
* * * * * *
37357 GTCAATATTTCCAG-AGAAAGTTCATAATGAGAAGAACTCGTCTAAAAAGGAATAAGAAGTTCAT
1 ATCAACATTTCCAGAAG-GAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCAT
* * ** *
37421 AATGAGAAGAATTTGTTCAACCTGCCTTAATTCATCACATATGAAGTTGAATCA-ACG-ACACCT
65 AATGAGAAGAACTTGTTCGACCTAACTTAATTCATCACATATGAAGTTGAATCAGA-GAAAACCT
** **
37484 CTTTTGA-GG
129 CACTCAAGGG
* *
37493 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGACGAGGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATA
37558 ATGAGAAGAACTTGTTCGACCT
66 ATGAGAAGAACTTGTTCGACCT
37580 TTTGCTAGAT
Statistics
Matches: 189, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
136 76 0.40
137 10 0.05
138 2 0.01
139 27 0.14
140 74 0.39
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (138 bp):
ATCAACATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCGACCTAACTTAATTCATCACATATGAAGTTGAATCAGAGAAAACCTCA
CTCAAGGG
Found at i:37840 original size:3 final size:3
Alignment explanation
Indices: 37832--37885 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
37822 ATTTTTTCAT
* *
37832 TTA TTA TTA TTT TTA TTA TTTA TTTA TTA TATA TTA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA T-TA TTA TTA TTA TTA TTA
*
37880 TAA TTA
1 TTA TTA
37886 AAAATAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
3 33 0.77
4 10 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:39361 original size:2 final size:2
Alignment explanation
Indices: 39354--39383 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39344 ATAAAAACAA
39354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39384 TTGTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:40846 original size:2 final size:2
Alignment explanation
Indices: 40835--40893 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
40825 GATTCGAAAG
40835 TA TA -A 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
40876 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
40894 ACTTTTACGA
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:44008 original size:43 final size:43
Alignment explanation
Indices: 43947--44054 Score: 207
Period size: 43 Copynumber: 2.5 Consensus size: 43
43937 GAGCACCCAT
*
43947 ATTCTAACCTCTTAAGATGATGAGGAAGGATGAGTCTTTTGAG
1 ATTCTAACCTCTTAAGATGATGAGGAAGGATGAGTCGTTTGAG
43990 ATTCTAACCTCTTAAGATGATGAGGAAGGATGAGTCGTTTGAG
1 ATTCTAACCTCTTAAGATGATGAGGAAGGATGAGTCGTTTGAG
44033 ATTCTAACCTCTTAAGATGATG
1 ATTCTAACCTCTTAAGATGATG
44055 GGGAGCTTTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTCTAACCTCTTAAGATGATGAGGAAGGATGAGTCGTTTGAG
Found at i:45277 original size:39 final size:39
Alignment explanation
Indices: 45223--45301 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45213 GTCGATAACC
45223 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
1 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
*
45262 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCGGTTCT
1 CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
45301 C
1 C
45302 TAGTAGTTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (39 bp):
CACAGTCATTAGGGTTTCTCCTGGTTCCAAGTCAGTTCT
Found at i:46268 original size:23 final size:24
Alignment explanation
Indices: 46237--46291 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
46227 TAAGAACAAT
*
46237 TCTACCTTTAT-GAGATGTTTTTC-
1 TCTATCTTTATGGA-ATGTTTTTCG
*
46260 TCTATCTTTGTGGAATGTTTTTCG
1 TCTATCTTTATGGAATGTTTTTCG
46284 TCT-TCTTT
1 TCTATCTTT
46292 TTCAGTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.13, C:0.16, G:0.15, T:0.56
Consensus pattern (24 bp):
TCTATCTTTATGGAATGTTTTTCG
Found at i:46774 original size:22 final size:25
Alignment explanation
Indices: 46746--46790 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46736 AATAATTTCC
46746 TTTTAAG-T-AAAT-TTTGTTTCAT
1 TTTTAAGTTGAAATCTTTGTTTCAT
46768 TTTTAAGTTGAAATCTTTGTTTC
1 TTTTAAGTTGAAATCTTTGTTTC
46791 TTTCTACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 4 0.20
25 8 0.40
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTTAAGTTGAAATCTTTGTTTCAT
Found at i:52328 original size:42 final size:43
Alignment explanation
Indices: 52281--52510 Score: 340
Period size: 42 Copynumber: 5.4 Consensus size: 43
52271 TTAATTATCG
* *
52281 TTACAG-TTCCCCATGTCCCTTTGCTGTGTGCAAGGATAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
52323 TTACAG-TTCCCCAGGTCCCTTTACTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
52365 TTACAG-TTCCCTAGGTCCCTTTGATGTATGCAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
52407 TTATAGTTTCCCCAGGTCCCTTTGATGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
52450 TTACAGTTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAG-TTT-CCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
52495 TTACAGTTTCCCCAGG
1 TTACAGTTTCCCCAGG
52511 CTCTTTTTTT
Statistics
Matches: 172, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
42 82 0.48
43 46 0.27
44 6 0.03
45 38 0.22
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (43 bp):
TTACAGTTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:52451 original size:85 final size:85
Alignment explanation
Indices: 52281--52510 Score: 347
Period size: 88 Copynumber: 2.7 Consensus size: 85
52271 TTAATTATCG
* *
52281 TTACAGTTCCCCATGTCCCTTTGCTGTGTGCAAGGATAAGCCTTACAG-TTCCCCAGGTCCCTTT
1 TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCCTTT
52345 ACTGTGTGCAAGGGTAAGCC
66 ACTGTGTGCAAGGGTAAGCC
* * * *
52365 TTACAGTTCCCTAGGTCCCTTTGATGTATGCAAGGGTAAGCCTTATAGTTTCCCCAGGTCCCTTT
1 TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCCTTT
52430 GA-TGTGTGCAAGGGTAAGCC
66 -ACTGTGTGCAAGGGTAAGCC
*
52450 TTACAGTTTTCCCCCAGGTTCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGG
1 TTACAG--TT-CCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGG
52511 CTCTTTTTTT
Statistics
Matches: 130, Mismatches: 11, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
84 42 0.32
85 40 0.31
86 1 0.01
87 2 0.02
88 45 0.35
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (85 bp):
TTACAGTTCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCCTTT
ACTGTGTGCAAGGGTAAGCC
Found at i:56803 original size:20 final size:20
Alignment explanation
Indices: 56756--56795 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
56746 TTTTAGCTCT
56756 AAATGTCAATTTCGGGTTCC
1 AAATGTCAATTTCGGGTTCC
56776 AAATGTCAATTTCGGGTTCC
1 AAATGTCAATTTCGGGTTCC
56796 GGATGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
AAATGTCAATTTCGGGTTCC
Found at i:58836 original size:19 final size:19
Alignment explanation
Indices: 58812--58863 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
58802 ATACTCATTT
58812 ATCTGATACTGCATTAATA
1 ATCTGATACTGCATTAATA
58831 ATCTGATACTGCATTAATA
1 ATCTGATACTGCATTAATA
*
58850 ATTTGATACTGCAT
1 ATCTGATACTGCAT
58864 GGGTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (19 bp):
ATCTGATACTGCATTAATA
Found at i:69162 original size:20 final size:21
Alignment explanation
Indices: 69137--69180 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
69127 GTCAAAGGAA
69137 GTCAACAGTCAACGGTC-ACG
1 GTCAACAGTCAACGGTCAACG
*
69157 GTCAACGGTCAACGGTCAACG
1 GTCAACAGTCAACGGTCAACG
69178 GTC
1 GTC
69181 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (21 bp):
GTCAACAGTCAACGGTCAACG
Found at i:69192 original size:17 final size:17
Alignment explanation
Indices: 69170--69217 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
69160 AACGGTCAAC
69170 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
69187 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
69204 GGTC-A-GGTCGGGTC
1 GGTCAACGGTCGGGTC
69218 AGACCGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.29
16 1 0.03
17 21 0.68
ACGTcount: A:0.10, C:0.23, G:0.48, T:0.19
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:69197 original size:7 final size:7
Alignment explanation
Indices: 69137--69180 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
69127 GTCAAAGGAA
*
69137 GTCAACA
1 GTCAACG
69144 GTCAACG
1 GTCAACG
69151 GTC-ACG
1 GTCAACG
69157 GTCAACG
1 GTCAACG
69164 GTCAACG
1 GTCAACG
69171 GTCAACG
1 GTCAACG
69178 GTC
1 GTC
69181 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 6 0.17
7 29 0.83
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:78325 original size:57 final size:57
Alignment explanation
Indices: 78237--78352 Score: 214
Period size: 57 Copynumber: 2.0 Consensus size: 57
78227 GATGGAACCA
*
78237 CCAACACCTTTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
*
78294 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTGTGAAGAT
1 CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
78351 CC
1 CC
78353 TTCAGGTAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (57 bp):
CCAACACCTCTGCAGCAAAACCAAGAATCTGATCCTAGTCCAAGATCTTATGAAGAT
Found at i:93235 original size:46 final size:46
Alignment explanation
Indices: 93181--93311 Score: 167
Period size: 46 Copynumber: 2.8 Consensus size: 46
93171 TTGAATAAAT
* *
93181 GTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTTGAGCATA
1 GTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTCGAACA-A
*
93228 -TATGCGAACTAGAAATCATGCGGCTAGGTTTATTTTTCTCGAACAA
1 GTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTT-TCGAACAA
* * * *
93274 GCATGCGAATTAGATATCATGCGGTTAGGATT-TTTTTT
1 GTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTT
93312 GTGAATGACA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 42 0.57
47 31 0.42
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (46 bp):
GTATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTTCGAACAA
Done.