genome.fa.s7832.2.7.7.80.10.50.1000.2.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  2  of  21  ( 2482 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
306038--306078	20	2.0	21	85	4	57	58	2	2	36	1.24
307470--307501	11	2.8	11	95	4	55	43	0	0	56	0.99
307497--307629	3	44.7	3	91	4	216	64	0	2	33	1.06
312213--312252	18	2.2	18	86	0	53	37	7	2	52	1.43
313712--313826	30	3.8	30	70	12	101	19	11	9	60	1.58
317521--317628	26	4.2	26	75	10	87	74	5	18	1	1.11
317590--317648	7	8.3	7	85	9	75	84	1	11	1	0.77
317520--317607	33	2.8	31	75	10	88	70	7	19	2	1.23
317569--317648	14	5.9	13	78	11	72	81	5	12	1	0.91
317557--317648	12	7.4	12	74	16	64	79	4	14	2	0.98
317585--317652	14	4.5	15	85	9	77	83	4	10	1	0.84
318897--319122	65	3.5	62	80	5	200	29	20	12	38	1.89
319081--319121	20	2.0	20	90	0	64	17	21	17	43	1.87
318945--319175	65	3.6	63	82	5	261	25	22	13	38	1.91
319228--319468	130	1.9	130	83	3	315	26	32	16	25	1.96
321484--321534	12	4.3	12	73	11	52	33	0	0	66	0.92
321480--321536	19	2.9	20	73	19	57	33	0	0	66	0.92
323612--323672	31	1.9	31	83	6	77	37	3	1	57	1.25
323629--323676	23	2.1	24	80	11	64	35	2	2	60	1.20
332171--332229	7	9.0	7	78	14	63	83	0	16	0	0.66
332174--332230	12	4.7	12	79	16	64	82	0	17	0	0.67
332177--332229	19	2.8	18	88	11	79	84	0	15	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333370--333885	83	6.2	83	97	0	962	26	13	23	36	1.92
334704--335563	113	7.6	113	93	1	1431	37	14	19	28	1.91
335828--335877	3	17.3	3	78	15	52	34	0	0	66	0.92
335816--335875	12	4.9	12	76	21	54	35	0	0	65	0.93
335816--335876	17	3.3	19	72	25	58	34	0	0	65	0.93
336321--336366	17	2.6	18	80	16	60	56	17	26	0	1.41
337952--338080	30	4.4	29	75	13	129	16	13	9	61	1.56
338026--338130	30	3.6	29	76	10	79	15	12	11	60	1.58
342218--342322	39	2.7	39	74	14	108	46	0	14	39	1.44
350384--350423	21	1.9	21	94	0	71	60	12	2	25	1.45
350387--350437	21	2.4	21	74	9	50	58	13	1	25	1.46
350452--350507	20	2.7	19	81	13	58	64	7	0	28	1.20
350458--350505	21	2.2	22	85	10	64	68	4	0	27	1.07
350543--350577	15	2.3	15	90	0	52	0	40	0	60	0.97
350682--350724	12	3.6	12	81	9	52	41	16	16	25	1.88
350673--350725	23	2.2	24	86	3	72	45	15	15	24	1.84
358260--358299	21	1.9	20	85	10	53	52	2	2	42	1.28
362890--362915	2	13.0	2	100	0	52	50	0	0	50	1.00
363195--363323	55	2.4	55	84	3	163	31	20	13	34	1.91
363295--364007	54	13.5	51	82	9	810	24	24	18	31	1.98
363295--364037	105	7.1	106	85	5	924	24	24	18	32	1.97
363296--364002	315	2.2	315	89	5	1088	24	25	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375393--375424	16	2.0	16	93	0	55	31	28	12	28	1.93
378657--378700	2	22.0	2	100	0	88	50	0	0	50	1.00
385973--386015	20	2.2	20	87	8	61	23	16	6	53	1.67
392603--392676	30	2.4	30	82	6	78	44	2	10	41	1.53
396594--396642	22	2.2	22	92	0	80	40	12	16	30	1.85
410556--410595	21	1.9	21	94	0	71	15	10	25	50	1.74
411733--411819	37	2.4	36	84	7	122	42	18	4	34	1.71
416144--416225	31	2.7	31	86	1	103	32	13	26	26	1.93
417212--417292	31	2.6	30	84	9	101	24	23	13	38	1.91
418497--418561	32	2.0	32	96	0	121	18	20	33	27	1.96
426312--426368	20	2.8	20	86	0	78	33	21	12	33	1.90
430162--430200	20	2.0	20	84	0	51	20	20	28	30	1.98
441567--441602	18	2.0	18	94	0	63	27	30	11	30	1.91
443916--443990	39	1.9	39	94	0	132	53	14	12	20	1.72
446034--446085	25	2.2	24	82	6	61	38	17	13	30	1.88
447244--447650	216	1.9	214	96	1	760	44	18	13	22	1.85
450152--450184	15	2.2	15	94	0	57	39	0	3	57	1.14
450131--450184	22	2.4	22	82	14	58	37	1	3	57	1.27
452251--452312	24	2.6	22	83	14	79	58	0	0	41	0.98
453230--453336	53	2.0	53	90	0	169	21	21	7	49	1.74
457582--457685	53	2.0	53	98	0	199	21	23	7	48	1.75
463187--463352	85	2.0	85	81	4	201	29	18	19	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466656--466715	2	32.0	2	83	12	83	50	0	0	50	1.00
466650--466721	12	6.8	10	77	17	58	51	1	0	47	1.09
466649--466714	14	5.1	12	83	12	62	53	0	0	46	1.00
467238--467417	66	2.7	66	81	8	184	37	12	18	31	1.89
467374--467486	33	3.4	33	90	6	167	33	11	17	37	1.86
467540--467624	37	2.3	36	91	2	143	37	14	21	27	1.91
467596--467645	21	2.4	21	100	0	100	40	10	20	30	1.85
468150--468584	110	4.0	110	89	0	638	25	17	22	34	1.96
472462--472532	35	2.0	35	91	0	115	53	1	22	22	1.54
472457--472503	24	2.0	24	82	0	58	55	0	19	25	1.43
473730--473789	22	2.9	21	80	19	72	48	1	0	50	1.11
474363--474427	32	2.0	33	93	3	114	29	24	35	10	1.89
478762--478815	23	2.3	23	87	0	90	24	27	24	24	2.00
478933--478980	2	24.5	2	95	4	89	50	0	0	50	1.00
483807--483890	23	3.7	23	88	6	134	19	26	27	27	1.99
487869--488153	54	5.3	54	88	0	401	30	20	19	29	1.97
488472--488672	95	2.1	97	84	4	257	25	24	16	33	1.96
494826--495048	108	2.1	108	86	3	306	32	18	18	30	1.95
494826--495048	54	4.1	55	82	3	247	32	18	18	30	1.95
495371--495425	22	2.7	20	81	10	65	25	29	14	30	1.95
495378--495422	22	2.0	23	91	4	74	26	28	13	31	1.94
495386--495590	95	2.2	95	81	7	238	25	26	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498448--498512	33	2.0	33	87	6	96	30	21	10	36	1.88
501299--501341	22	2.0	21	86	8	61	74	0	0	25	0.82
504321--504411	23	4.0	23	94	0	146	26	23	20	29	1.99
511250--511344	23	4.3	22	82	9	79	31	23	16	28	1.96
511278--511345	23	3.0	23	88	0	100	27	22	19	30	1.97
513329--513372	22	2.0	22	82	8	54	29	18	0	52	1.46
513537--513572	2	18.0	2	100	0	72	50	0	0	50	1.00
519135--519173	15	2.4	17	87	8	55	66	2	10	20	1.33
524945--524987	22	2.0	21	81	4	50	58	6	2	32	1.38
526517--526542	2	13.0	2	100	0	52	50	0	0	50	1.00
526545--526578	2	17.0	2	100	0	68	50	0	50	0	1.00
528255--528342	42	2.1	41	83	10	108	25	18	9	47	1.77
534804--534841	12	3.2	12	92	0	58	84	7	0	7	0.79
534808--534846	6	6.7	6	91	5	53	84	5	0	10	0.76
540352--540393	18	2.3	19	84	12	61	61	4	9	23	1.45
542950--543206	83	3.1	82	77	5	234	36	18	15	29	1.92
548456--548819	183	2.0	181	90	2	568	37	15	26	20	1.93
551925--551969	22	2.0	22	100	0	90	37	8	22	31	1.85
554440--554484	4	11.2	4	82	17	58	75	0	0	24	0.80
554434--554481	14	3.4	14	88	8	71	75	0	0	25	0.81
554443--554484	18	2.3	19	91	4	68	76	0	0	23	0.79
555505--555580	3	26.0	3	75	19	72	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555512--555580	10	6.4	12	72	24	57	63	0	0	36	0.94
555752--556336	124	4.7	124	80	10	580	24	18	24	32	1.97
556002--556459	246	1.9	240	86	5	661	25	17	24	32	1.97
556408--556493	34	2.5	34	92	0	145	20	17	25	36	1.95
557699--557959	95	2.7	94	87	4	355	31	18	17	32	1.94
560507--560575	19	3.7	18	75	12	68	73	1	1	23	0.99
562375--562403	14	2.1	14	100	0	58	34	6	0	58	1.25
564493--564616	47	2.6	47	72	5	115	29	16	16	37	1.91
565303--565467	76	2.2	75	86	3	233	31	2	9	56	1.43
566614--566667	21	2.6	21	96	0	99	25	16	27	29	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21