Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013881.1 Kokia drynarioides strain JFW-HI SEQ_128909, 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: 4351
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Found at i:212 original size:20 final size:20
Alignment explanation
Indices: 184--225 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
174 TCTCTTCTTT
*
184 AATGGAAAAGGATTGAATGA
1 AATGAAAAAGGATTGAATGA
204 AATGAAAAAGGATTGAATGA
1 AATGAAAAAGGATTGAATGA
224 AA
1 AA
226 CAGTGACACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.26, T:0.19
Consensus pattern (20 bp):
AATGAAAAAGGATTGAATGA
Found at i:604 original size:221 final size:220
Alignment explanation
Indices: 204--4351 Score: 5517
Period size: 221 Copynumber: 18.7 Consensus size: 220
194 GATTGAATGA
*
204 AATGAAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* ** * * * *
269 ACCTTATTAGTATTTTCATTCTTAATTTCAACGTTTTCATCCTGAAAAAAACAAATTAAAATCAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
* * * * *
334 AATCCTGAAATACAGGATGAAATTGATGGTGTGGAACAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
* *
399 ATTTTATACAATCCTTTCTCCTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* * * * *
425 AATGGAAATGAATTGAATGAAACCGTGACACCACGTCATTTGTGTCCCTTTTCCATTAGTTTTAT
1 AATGGAAAAG-ATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * * * *
490 GCCACATCAGTATTTTCAATCTTAATTTCAATATTTTCATCCTCAAAAAATAAAAATAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
** * *
555 AATCCTGAAATTCAAAATGAAATTGTTGATGTGGCATAAAACAATTGGAAAGGGATAATATCCAT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
*
620 GTTTCATACAATCCTTTCTCTTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* *
646 AATGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTATTGGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * *
711 GCCACATCAGTATTTTCATTCTTAATTTTAATATTTTCATCCTTAAAAAATCAAATTAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
* * *
776 AATCCTGAAATTTAGGGTGAAATTGTTGA--TGGCATAAAACTATTGGACAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
* *
839 ATTTTATACAATCCTTTCTCTTTTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
*
865 AATGGAAAAGGATTGAATGAAACAGTGACACCACGTCAGTTGTGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
*
930 GCCATATCAG-AGTTTTCATTCTTAATTTCAACATTTTCATCCTG-AAAAATCAAATTAAAATTA
65 GCCACATCAGTA-TTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTA
* *
993 AAATCCTGAAATACAGGATGAAATTGTTGGTGTGGCATAAAACTATTGGAAAGGGATAATATCCC
129 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCC
1058 TGTTTTATACAATCCTTTCTCTTCTTC
194 TGTTTTATACAATCCTTTCTCTTCTTC
* *
1085 AATGGAAAATGATTGAATGAAACAGTGACACAACGTCATTTGCGTCCCTTTTGC-AATAGTTTTA
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTT-CTAATAGTTTTA
* * *
1149 CGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAGAAAATAAAATTAAAATCA
64 CGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTA
*
1214 AAATCCTG-AATTACAGGATGAAATTGTTGGTGTGGCATAAAACTATTGGAAAGGGATAATATCC
129 AAATCCTGAAATT-CAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCC
1278 CTGTTTTATACAATCCTTTCTCTTCTTC
193 CTGTTTTATACAATCCTTTCTCTTCTTC
* ** *
1306 AATGGAAAAGGATTGAATGTAACAGTGACATGATGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * *
1371 GCCACATCATTATTTTCATTCTTAATTTCATCATTTTCATCCTGAAAAAATCAAATTAGAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
1436 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTTGG-AAGGGATAATATCCC
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTA-TTGGAAAGGGATAATATCCC
1500 TGTTTCT-TACAATCCTTTCTCTTCTTC
194 TGTTT-TATACAATCCTTTCTCTTCTTC
* ** * *
1527 AAAGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTGTGTATCTTTTCTATTGGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
*
1592 GCCACATCAGTATTTTCATTCTTAATGTCAACATTTTCATCCTGAGAAAAA-CAAATTAAAATTA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGA-AAAAATCAAATTAAAATTA
* * * *
1656 AAATCCTGAAATTTAGGATGAAATTGTTGGTGTGGCATAAAACCAATGGAAAGGGATAATATCCC
129 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCC
* *
1721 TGTTTCATACATTCCTTTCTCTTCTTC
194 TGTTTTATACAATCCTTTCTCTTCTTC
* * * *
1748 AATGGAAAATGATTGAATGAAACAGTGCCACCACGTCATTTGTGTACCTTTTCTATTGGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
*
1813 GCCACATCAGTA-TTTCATTCTTAATGTCAACATTTTCATCCTGAGAAAAA-CAAATTAAAATTA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGA-AAAAATCAAATTAAAATTA
** * *
1876 AAATCCTGAAATTTTGGATGAAATTGTTGGTGTGGCATAAAACCATTGGAAAGGGATAATATCCC
129 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCC
1941 TGTTTTATACAATCCTTTCTCTTCTTC
194 TGTTTTATACAATCCTTTCTCTTCTTC
* * *
1968 AATGGAAAAGGATTGAATGAAACAGTGACACGACGTCATCTATGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* *
2033 GCCAGATCAGTATTTTCATTCTTAATTTCATCATTTTCATCCTGAAAAAATCAAATTAAAATT-A
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
* *
2097 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAATACTATTGGAAAGGGATAATATCCGT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
*
2162 GTTTCATACAATCCTTTCTCTTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* * *
2188 AATGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTATTGGTTTTAA
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* ** *** ** * **
2253 GCCACATCAGTATTTTCATCCTTAAAAAATCAA-ATTAAAAT--T-AAAATCCTGAAATTTAGGA
65 GCCACATCAGTATTTTCATTCTT--AATTTCAACATTTTCATCCTGAAAA-AATCAAA-TTAAAA
* * ** * * * *
2314 TGAAATTGTTG--ATGT--GGCATAAAACTATTGGACAG-GG-AT---A--A-T-----------
126 TTAAAATCCTGAAAT-TCAGG-ATGAAATTGTT-GA-TGTGGCATAAAACTATTGGAAAGGGATA
*
2356 --ATCCCTGTTTTATACAATCCTTTCTCTTTTTC
187 ATATCCCTGTTTTATACAATCCTTTCTCTTCTTC
* * * *
2388 AATAGAAAAGGATTGAATGAAACAGTGACACCACGTCAGTTGTGTCCCTTCTCTAATGGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* *
2453 GCCATATCAGTATTTTCATTCTTAATTTCAACATTTTTATCCTG-AAAAATCAAATTAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
* *
2517 AATCCTGAAATACAGGATGAAATTGTTGGTGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
2582 GTTTTATACAATCCTTTCTCTTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* * * *
2608 AACGGAAAAGAATTGAACGAAACAGTGACACGACGTCATCTGTGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAAG-ATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * * * * * *
2673 GCCAGATTAATATTTTCCTTCTTAATTTCATCATTTTCATCCTAAAAAAATCAAAATAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
2738 AATCCTGAAA-TCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
2802 -TTTTCATACAATCCTTTCTCTTCTTC
195 GTTTT-ATACAATCCTTTCTCTTCTTC
* *
2828 AATGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTTGTGTCCCTTTTCTATTGGTTTTA
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCA-TTTGTGTCCCTTTTCTAATAGTTTTA
* *
2893 CGCCACATCAGTATTTTCATTCTTAATGTCAACATTTTCATCCTGAGAAAATCAAATTAAAATTA
64 CGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTA
* *
2958 AAATCCTGAAATTTAGGATGAAATTGTTGATGTGGCATAAAACTATTGGACAGGGATAATATCCC
129 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCC
3023 TGTTTTATACAATCCTTTCTCTTCTTC
194 TGTTTTATACAATCCTTTCTCTTCTTC
* *
3050 AATGGAAAAGAATTGAATGAAACAGTGACACCACGTCAGTTGTGTCCCTTTTCTAATATTTTTAC
1 AATGGAAAAG-ATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * *
3115 GCCATATCAGTATTTTCATTCTTAATTTCAACATTTCCAGCCTGAAAAAATCAAATTAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
* * * *
3180 AATCCTGAAATACAAGATGAAATTGTTGGTGTGACATAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
3245 GTTTTATACAATCCTTTCTCTTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* * *
3271 AACGGAAAAGAATTGAATGAAACAGTGACACGACGTCATCTGTGTCCCTTTTCTAATAGTTTTAC
1 AATGGAAAAG-ATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * *
3336 GCCAGATCAGTATTTTCATTCTTAATTTCATCATTTTCATCCTAAAAAAATCAAATTAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
*
3401 ATTCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
*
3466 GTTTTATACAATCCTTTCTCCTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* *
3492 AATGGAAAAGGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCATTAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
3557 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTG-AAAAATCAAATTAAAATTAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
3621 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
130 AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCT
*
3686 GTTTCATACAATCCTTTCTCTTCTTC
195 GTTTTATACAATCCTTTCTCTTCTTC
* * *
3712 AATGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTTGTGTCCATTTTCTATTGGTTTTA
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCA-TTTGTGTCCCTTTTCTAATAGTTTTA
* * *
3777 CGCCACATCAGTATTTTCATTCTTAATGTCAACATTTTCATCCTGAGAAAATCAAATTAAAACTA
64 CGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTA
* * * *
3842 AAATCCTGAAATTTAGGATGAAATTGTTTATGTGGCGTAAAACTATTGGAAAGGGATAATATCCT
129 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCC
* *
3907 TGTTTCATACAATCCTTTCACTTCTTC
194 TGTTTTATACAATCCTTTCTCTTCTTC
* *
3934 AATGGAAAATGATTTAATAAAATGGAAAAGGATGAATAAAACAGTGAAACCACGCCATTTGTGTC
1 AATGGAAAA-G-----AT----T-G---A--ATG----AAACAGTGACACCACGTCATTTGTGTC
* * * *
3999 CCTTTT-TCAATAATTTTTCGCTACATCAGTATTTTCATTCTTAATTTCAACATTTACATCCTGA
46 CCTTTTCT-AATAGTTTTACGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGA
* * * *
4063 AAAGAAACAAATTAAAATTAAAATCCTGAAATTCAAGATGAAATTGTTGGTGTGGCAAAAAACTA
110 AAA-AATCAAATTAAAATTAAAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTA
* * ** * * *
4128 TCGAAAAGGGATAATATCCCTACTTCATACCACCCTTTCTCTTCTTTAATGAAAAAGGATTGAAT
174 TTGGAAAGGGATAATATCCCTGTTTTATACAATCCTTTCTCTTC----------------T---T
*
4193 GA
220 -C
* ** *
4195 AATGGAAAAGGATAGAATGAAACAGTGACATAACGTCATTTGTGCCCCTTTTCTAATAGTTTTAC
1 AATGGAAAA-GATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTAC
* * * * * *
4260 ACCATATTAGTATTTTCATTCTTAATTTCAACTTTTTCATCCTGAAAAAAACAAATTAAAATCAA
65 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAA
*
4325 AATCCTGAAATACAGGATGAAATTGTT
130 AATCCTGAAATTCAGGATGAAATTGTT
Statistics
Matches: 3491, Mismatches: 327, Indels: 198
0.87 0.08 0.05
Matches are distributed among these distances:
198 6 0.00
199 17 0.00
200 116 0.03
201 16 0.00
202 2 0.00
204 1 0.00
206 1 0.00
207 1 0.00
213 1 0.00
214 1 0.00
216 1 0.00
218 52 0.01
219 175 0.05
220 925 0.26
221 1608 0.46
222 245 0.07
223 4 0.00
227 2 0.00
231 1 0.00
232 1 0.00
235 1 0.00
237 3 0.00
239 1 0.00
240 64 0.02
241 147 0.04
242 79 0.02
243 1 0.00
246 3 0.00
248 1 0.00
251 1 0.00
256 2 0.00
257 1 0.00
260 1 0.00
261 10 0.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (220 bp):
AATGGAAAAGATTGAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCTAATAGTTTTACG
CCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAATCAAATTAAAATTAAA
ATCCTGAAATTCAGGATGAAATTGTTGATGTGGCATAAAACTATTGGAAAGGGATAATATCCCTG
TTTTATACAATCCTTTCTCTTCTTC
Found at i:3973 original size:19 final size:20
Alignment explanation
Indices: 3934--3974 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
3924 TCACTTCTTC
* *
3934 AATGGAAAATGATTTAATAA
1 AATGGAAAAGGATTGAATAA
3954 AATGGAAAAGGA-TGAATAA
1 AATGGAAAAGGATTGAATAA
3973 AA
1 AA
3975 CAGTGAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (20 bp):
AATGGAAAAGGATTGAATAA
Found at i:4157 original size:241 final size:241
Alignment explanation
Indices: 3712--4351 Score: 836
Period size: 241 Copynumber: 2.7 Consensus size: 241
3702 TCTCTTCTTC
* * *
3712 AATGGAAAATGATTGAATGAAACAGTGACACCACGTCATTTTGTGT-CCATTTTCTATTGGTTTT
1 AATGGAAAAGGA-TGAATGAAACAGTGACACCACGTCA-TTTGTGTCCCATTTTCTAATAGTTTT
* * * *
3776 ACGCCACATCAGTATTTTCATTCTTAATGTCAACATTTTCATCCTGAGAAAATCAAATTAAAACT
64 ACGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAAACAAATTAAAATT
* * ** * *
3841 AAAATCCTGAAATTTAGGATGAAATTGTTTATGTGGCGTAAAACTATTGGAAAGGGATAATATCC
129 AAAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCAAAAAACTATCGAAAAGGGATAATATCC
* ** * * * *
3906 TTGTTTCATACAATCCTTTCACTTCTTCAATGGAAAATGATTTAATAA
194 CTACTTCATACAACCCTTTCACTTCTTCAATGAAAAAGGATTGAATAA
* * * * * *
3954 AATGGAAAAGGATGAATAAAACAGTGAAACCACGCCATTTGTGTCCCTTTTTC-AATAATTTTTC
1 AATGGAAAAGGATGAATGAAACAGTGACACCACGTCATTTGTGTCCCATTTTCTAATAGTTTTAC
* *
4018 GCTACATCAGTATTTTCATTCTTAATTTCAACATTTACATCCTGAAAAGAAACAAATTAAAATTA
66 GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAA-AAACAAATTAAAATTA
* *
4083 AAATCCTGAAATTCAAGATGAAATTGTTGGTGTGGCAAAAAACTATCGAAAAGGGATAATATCCC
130 AAATCCTGAAATTCAGGATGAAATTGTTGATGTGGCAAAAAACTATCGAAAAGGGATAATATCCC
* * * *
4148 TACTTCATACCACCCTTTCTCTTCTTTAATGAAAAAGGATTGAATGA
195 TACTTCATACAACCCTTTCACTTCTTCAATGAAAAAGGATTGAATAA
** *
4195 AATGGAAAAGGATAGAATGAAACAGTGACATAACGTCATTTGTG-CCCCTTTTCTAATAGTTTTA
1 AATGGAAAAGGAT-GAATGAAACAGTGACACCACGTCATTTGTGTCCCATTTTCTAATAGTTTTA
* * * * *
4259 CACCATATTAGTATTTTCATTCTTAATTTCAACTTTTTCATCCTGAAAAAAACAAATTAAAATCA
65 CGCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAAACAAATTAAAATTA
*
4324 AAATCCTGAAATACAGGATGAAATTGTT
130 AAATCCTGAAATTCAGGATGAAATTGTT
Statistics
Matches: 343, Mismatches: 51, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
240 58 0.17
241 198 0.58
242 87 0.25
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (241 bp):
AATGGAAAAGGATGAATGAAACAGTGACACCACGTCATTTGTGTCCCATTTTCTAATAGTTTTAC
GCCACATCAGTATTTTCATTCTTAATTTCAACATTTTCATCCTGAAAAAAACAAATTAAAATTAA
AATCCTGAAATTCAGGATGAAATTGTTGATGTGGCAAAAAACTATCGAAAAGGGATAATATCCCT
ACTTCATACAACCCTTTCACTTCTTCAATGAAAAAGGATTGAATAA
Found at i:4203 original size:20 final size:20
Alignment explanation
Indices: 4175--4216 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4165 TCTCTTCTTT
*
4175 AATGAAAAAGGATTGAATGA
1 AATGAAAAAGGATAGAATGA
*
4195 AATGGAAAAGGATAGAATGA
1 AATGAAAAAGGATAGAATGA
4215 AA
1 AA
4217 CAGTGACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (20 bp):
AATGAAAAAGGATAGAATGA
Done.