Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024661.1 Corchorus olitorius cultivar O-4 contig24694, 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: 3192
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Found at i:284 original size:154 final size:154
Alignment explanation
Indices: 1--2008 Score: 2812
Period size: 154 Copynumber: 12.8 Consensus size: 154
* * *
1 AATCGAAGACGAGTCAAAACGGAACTAGTGGGCCCCGATAGGCCAAAAATAACAAGTGTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* *
66 TGAGATAAAAACTTCA-AAGTCGACTAATCTAACCAAAATGATTATAGTTAGGCCATAAACAATG
66 TGAGCTAAAAACTTCACAA-TCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATG
130 GAAAGAAAAGCATTGAGGTTTGCCA
130 GAAAGAAAAGCATTGAGGTTTGCCA
* **
155 AACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
*
220 TGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
285 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
309 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
*
374 TGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
439 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
*
463 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
*
528 TGAGCTAAAAACTTCACAATCGACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
593 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
* * *
617 AATCGAAGACGATTCAAATCGGAACTAATGGGCCCCGATAGGCCAAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* * * *
682 TGAGCTAAAATCTTCACAGTCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTTGACTA
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATA---AAC-A
** * * *
747 ATCTCACAA-AAATG-ATT-ATAGTTAGGCCA
127 AT-GGA-AAGAAAAGCATTGA-GGTT-TGCCA
* *** * * * ** * *** *
776 TAAAC-AATG--GAAAGAAAA--GCATTGAGTTTTGCCAAATCGA-AGACGATTGAAAACGGAAC
1 -AATCGAA-GACGATTCAAAACGGAACT-A-ATGGGCC---CCGATAG--G-CCCAAAA--TAAC
* * * * * *
835 TACTGGGCCGTTAGGCCCAAAATAACAAGTTTTACAAATGAGCTAAAAACTTCACAATCGACTAA
54 -A---AG-TGTT----CC-AAAT---GAG--CTA-AAA--A-CT----TC-ACA--ATCGACTAA
900 TCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCA
93 TCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCA
* * * *
962 AATTGAAGACGATTCACATCGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* *
1027 TGAGCTAAAAACTTCACAATCGAGTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
1092 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
* * * * *
1116 AATCAAAGACGATTCAAAACGGAACTAATTGGCCCCGATAGACCCAGAATAACAAGTTTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* * *
1181 TGAGCTAAAATCTTCACAGTCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
1246 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
* *
1270 AACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
*
1335 TGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATG
66 TGAGCT-AAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATG
1400 GAAAGAAAAGCATTGAGGTTTGCCA
130 GAAAGAAAAGCATTGAGGTTTGCCA
*
1425 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* *
1490 TGAGCTAAAAACTTCATAATCGACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
*
1555 AAAGAAAAGCATTAAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
**
1579 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATATCCCCAAAATAACAAGTGTTCCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
*
1644 TGAGCTAAAAACTTCACAGTCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
1709 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
* * *
1733 AACCGAAGACGATTCAAAACGGAACTATTGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* *
1798 TGAGCTAAAAACTTCACAATCGACAAATTTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
1863 AAAGAAAAGCATTGAGGTTTGCCA
131 AAAGAAAAGCATTGAGGTTTGCCA
*
1887 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAA
1 AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
* * **
1952 TTAGCTAAAATCTTCACAATTAACTAATCTCACCAAAATGATTATAGTTAGGCCATA
66 TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATA
2009 GTCAACTAAT
Statistics
Matches: 1660, Mismatches: 137, Indels: 114
0.87 0.07 0.06
Matches are distributed among these distances:
154 1319 0.79
155 151 0.09
156 5 0.00
157 5 0.00
158 18 0.01
159 11 0.01
160 8 0.00
161 5 0.00
162 2 0.00
163 4 0.00
164 3 0.00
165 5 0.00
166 1 0.00
167 2 0.00
169 1 0.00
170 7 0.00
171 1 0.00
174 1 0.00
175 7 0.00
176 1 0.00
178 2 0.00
179 1 0.00
180 5 0.00
181 3 0.00
182 4 0.00
183 1 0.00
184 5 0.00
185 7 0.00
186 11 0.01
187 17 0.01
188 5 0.00
189 5 0.00
191 37 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (154 bp):
AATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTCCAAA
TGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGG
AAAGAAAAGCATTGAGGTTTGCCA
Found at i:1337 original size:653 final size:656
Alignment explanation
Indices: 87--2248 Score: 3312
Period size: 653 Copynumber: 3.4 Consensus size: 656
77 CTTCAAAGTC
*
87 GACTAATCTAACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
1 GACTAATCTAACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
*
152 CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTCC
66 CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTAC
217 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
131 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
282 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
196 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
*
347 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAA
261 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATCAACTAATATCACCAAAA
*
412 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATT
326 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATT
* *
477 CAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTT
391 CAAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
*
542 CACAATCGACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
456 CACAATCAACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
* *
607 AGGTTTGCCAAATCGAAGACGATTCAAATCGGAACTAATGGGCCCCGATAGGCCAAAAATAACAA
521 AGGTTTGCCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCAAAAATAACAA
* * *
672 GTGTTGCAAATGAGCT-AAAATCTTCACAGTCAACTAATCTCACCAAAATGATTATAGTTAGGCC
586 GTGTTCCAAATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCC
736 ATAGTT
651 ATAGTT
* *
742 GACTAATCTCACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGTTTTG
1 GACTAATCTAACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
* * * ** *
807 CCAAATCGAAGACGATTGAAAACGGAACTACTGGG-CC-GTTAGGCCCAAAATAACAAGTTTTAC
66 CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTAC
*
870 AAATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
131 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
* * *
935 TGGAAAGAAAAGCATTGAGGTTTGCCAAATTGAAGACGATTCACATCGGAACTAATGGGCCCCGA
196 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
* * *
1000 TAGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGAGTAATATCACCAAAA
261 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATCAACTAATATCACCAAAA
1065 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATT
326 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATT
* * * *
1130 CAAAACGGAACTAATTGGCCCCGATAGACCCAGAATAACAAGTTTTCCAAATGAGCTAAAATCTT
391 CAAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
* *
1195 CACAGTCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
456 CACAATCAACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
* *
1260 AGGTTTGCCAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAA
521 AGGTTTGCCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCAAAAATAACAA
1325 GTGTTCCAAATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCC
586 GTGTTCCAAATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCC
1390 ------
651 ATAGTT
*
1390 -A-T-A---AAC----------A-A--T-GG------A-AA--GAAA-AG---CATTGAGGTTTG
1 GACTAATCTAACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
* ** *
1422 CCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGC
66 CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTAC
* * *
1487 AAATGAGCTAAAAACTTCATAATCGACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAA
131 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
*
1552 TGGAAAGAAAAGCATTAAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
196 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
** * * *
1617 TATCCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAGTCGACTAATCTCACCAAAA
261 TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATCAACTAATATCACCAAAA
* *
1682 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAACCGAAGACGATT
326 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATT
* * *
1747 CAAAACGGAACTATTGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTT
391 CAAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
* * *
1812 CACAATCGACAAATTTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
456 CACAATCAACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
* *
1877 AGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAA
521 AGGTTTGCCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCAAAAATAACAA
* * * *
1942 GTGTTGCAAATTAGCT-AAAATCTTCACAATTAACTAATCTCACCAAAATGATTATAGTTAGGCC
586 GTGTTCCAAATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCC
*
2006 ATAGTC
651 ATAGTT
* * * *
2012 AACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGTATTGAGGTTTG
1 GACTAATCTAACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
* ** * * * *
2077 CCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGACAGACCCAAAATAACAAGTTTTCC
66 CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTAC
2142 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
131 AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
* * **
2207 TTGAAAGAAAAACATTGAAATTTGCCAAATCGAAGACGATTC
196 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTC
2249 TGATCGGTCG
Statistics
Matches: 1376, Mismatches: 89, Indels: 84
0.89 0.06 0.05
Matches are distributed among these distances:
615 44 0.03
616 48 0.03
617 465 0.34
618 1 0.00
619 4 0.00
621 2 0.00
622 1 0.00
623 1 0.00
624 1 0.00
625 1 0.00
628 4 0.00
629 1 0.00
631 1 0.00
632 1 0.00
638 1 0.00
639 1 0.00
641 1 0.00
642 4 0.00
645 1 0.00
646 1 0.00
647 1 0.00
648 1 0.00
649 2 0.00
651 4 0.00
652 1 0.00
653 470 0.34
654 48 0.03
655 265 0.19
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (656 bp):
GACTAATCTAACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTG
CCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCAAATAGGCCCAAAATAACAAGTGTTAC
AAATGAGCTAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
TAGGCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTCACAATCAACTAATATCACCAAAA
TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATT
CAAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
CACAATCAACTAATATCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTG
AGGTTTGCCAAACCGAAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCAAAAATAACAA
GTGTTCCAAATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCC
ATAGTT
Found at i:1605 original size:463 final size:462
Alignment explanation
Indices: 743--2008 Score: 2212
Period size: 463 Copynumber: 2.7 Consensus size: 462
733 GCCATAGTTG
* *
743 ACTAATCTCACAAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGTTTTGC
1 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
* * * * *
808 CAAATCGAAGACGATTGAAAACGGAACTACT-GGG-CCGTTAGGCCCAAAATAACAAGTTTTACA
66 CAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTACA
871 AATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAAT
131 AATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAAT
* * *
936 GGAAAGAAAAGCATTGAGGTTTGCCAAATTGAAGACGATTCACATCGGAACTAATGGGCCCCGAT
196 GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAT
*
1001 AGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGAGTAATATCACCAAAAT
261 AGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGACTAATATCACCAAAAT
*
1066 GATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCAAAGACGATTC
326 GATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTAAGGTTTGCCAAATCAAAGACGATTC
* * * *
1131 AAAACGGAACTAATTGGCCCCGATAGACCCAGAATAACAAGTTTTCCAAATGAGCTAAAATCTTC
391 AAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTC
1196 ACAGTCA
456 ACAGTCA
1203 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
1 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
*
1268 CAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTCCA
66 CAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTACA
*
1333 AATGAGCTAAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
131 AATGAGCT-AAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAA
1398 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
195 TGGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGA
*
1463 TAGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCATAATCGACTAATATCACCAAAA
260 TAGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGACTAATATCACCAAAA
*
1528 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTAAGGTTTGCCAAATCGAAGACGATT
325 TGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTAAGGTTTGCCAAATCAAAGACGATT
**
1593 CAAAACGGAACTAATGGGCCCCGATATCCCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
390 CAAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTT
*
1658 CACAGTCG
455 CACAGTCA
1666 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
1 ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
* * *
1731 CAAACCGAAGACGATTCAAAACGGAACTATTGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCA
66 CAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTACA
* *
1796 AATGAGCTAAAAACTTCACAATCGACAAATTTCACCAAAATGATTATAGTTAGGCCATAAACAAT
131 AATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAAT
1861 GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAT
196 GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAT
* * ** *
1926 AGGCCCAAAATAACAAGTGTTGCAAATTAGCTAAAATCTTCACAATTAACTAATCTCACCAAAAT
261 AGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGACTAATATCACCAAAAT
1991 GATTATAGTTAGGCCATA
326 GATTATAGTTAGGCCATA
2009 GTCAACTAAT
Statistics
Matches: 768, Mismatches: 35, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
460 91 0.12
461 3 0.00
462 230 0.30
463 444 0.58
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (462 bp):
ACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGC
CAAACCGAAGACGATTCAAAACGGAACTAATGGGGCCCGATAGGCCCAAAATAACAAGTGTTACA
AATGAGCTAAAAACTTCACAATCGACTAATCTCACCAAAATGATTATAGTTAGGCCATAAACAAT
GGAAAGAAAAGCATTGAGGTTTGCCAAATCGAAGACGATTCAAAACGGAACTAATGGGCCCCGAT
AGGCCCAAAATAACAAGTGTTGCAAATGAGCTAAAAACTTCACAATCGACTAATATCACCAAAAT
GATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTAAGGTTTGCCAAATCAAAGACGATTC
AAAACGGAACTAATGGGCCCCGATAGACCCAAAATAACAAGTGTTCCAAATGAGCTAAAAACTTC
ACAGTCA
Found at i:2027 original size:39 final size:39
Alignment explanation
Indices: 1973--2047 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
1963 CTTCACAATT
1973 AACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTC
1 AACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTC
2012 AACTAATCTCACCAAAATGATTATAGTTAGGCCATA
1 AACTAATCTCACCAAAATGATTATAGTTAGGCCATA
2048 AACAATGGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (39 bp):
AACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTC
Found at i:2162 original size:193 final size:193
Alignment explanation
Indices: 1827--2201 Score: 678
Period size: 193 Copynumber: 1.9 Consensus size: 193
1817 TCGACAAATT
1827 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCG
1 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCG
* * * *
1892 AAGACGATTCAAAACGGAACTAATGGGCCCCGATAGGCCCAAAATAACAAGTGTTGCAAATTAGC
66 AAGACGATTCAAAACGGAACTAATGGGCCCCGACAGACCCAAAATAACAAGTGTTCCAAATGAGC
* *
1957 TAAAATCTTCACAATTAACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTCAACTAATC
131 TAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTCAACTAATC
*
2020 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGTATTGAGGTTTGCCAAATCG
1 TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCG
*
2085 AAGACGATTCAAAACGGAACTAATGGGCCCCGACAGACCCAAAATAACAAGTTTTCCAAATGAGC
66 AAGACGATTCAAAACGGAACTAATGGGCCCCGACAGACCCAAAATAACAAGTGTTCCAAATGAGC
2150 TAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATA
131 TAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATA
2202 AACAATTGAA
Statistics
Matches: 174, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
193 174 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (193 bp):
TCACCAAAATGATTATAGTTAGGCCATAAACAATGGAAAGAAAAGCATTGAGGTTTGCCAAATCG
AAGACGATTCAAAACGGAACTAATGGGCCCCGACAGACCCAAAATAACAAGTGTTCCAAATGAGC
TAAAAACTTCACAATCAACTAATCTCACCAAAATGATTATAGTTAGGCCATAGTCAACTAATC
Done.