genome.fa.s9579.2.7.7.80.10.50.1000.3.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  3  of  29  ( 3390 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)
406942--406981	3	13.3	3	100	0	80	67	0	0	32	0.91
412095--412153	29	2.0	29	96	0	109	23	13	11	50	1.74
412370--412422	21	2.5	21	90	0	88	26	16	15	41	1.88
413304--413374	22	3.1	23	72	21	69	56	1	21	21	1.50
413847--413888	2	21.0	2	100	0	84	50	0	0	50	1.00
416490--416616	64	2.0	65	87	4	186	30	25	16	27	1.97
422405--422460	22	2.7	21	83	10	62	30	23	17	28	1.97
425039--425077	19	2.1	19	95	0	69	20	38	15	25	1.92
425025--425184	65	2.5	63	85	2	212	30	25	16	27	1.96
432339--432389	23	2.3	23	80	6	61	23	41	15	19	1.90
432371--432410	21	1.9	21	89	0	62	25	40	25	10	1.86
434657--434741	34	2.5	34	100	0	170	37	0	29	32	1.58
442874--442933	29	2.1	29	100	0	120	50	13	13	23	1.77
447562--447621	29	2.1	29	100	0	120	50	13	13	23	1.77
448243--448294	24	2.2	24	92	0	86	38	23	9	28	1.86
457395--457420	2	13.0	2	100	0	52	50	0	0	50	1.00
458073--458110	18	2.1	18	90	0	58	36	18	2	42	1.64
459333--459381	19	2.6	19	93	0	80	28	4	20	46	1.68
460720--460762	11	3.9	11	81	0	59	30	9	25	34	1.87
460720--460761	22	1.9	22	95	0	75	30	9	23	35	1.87
462547--462586	21	1.9	21	94	0	71	32	30	15	22	1.94
462612--462650	19	2.1	19	90	0	60	20	35	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462592--462759	64	2.6	64	81	5	189	29	25	15	29	1.96
468552--468611	20	2.8	20	85	7	75	21	31	23	23	1.98
468553--468654	21	4.8	21	85	5	98	23	33	23	19	1.97
477705--477752	19	2.5	19	96	0	87	25	4	20	50	1.66
483276--483338	11	5.9	11	69	14	51	38	3	1	57	1.24
483295--483349	25	2.3	25	81	6	69	38	3	3	54	1.36
483310--483357	25	1.9	25	82	0	60	41	2	4	52	1.32
486550--486585	2	18.5	2	94	5	65	50	0	0	50	1.00
490813--490888	26	3.0	24	87	9	66	51	6	5	36	1.51
490829--490888	26	2.3	26	97	0	111	50	8	5	36	1.55
498301--498358	18	3.1	18	95	5	98	50	10	22	17	1.76
503438--503463	7	3.7	7	100	0	52	26	0	30	42	1.56
504313--504466	20	7.7	20	89	2	247	31	27	19	21	1.97
504275--504467	40	4.8	39	85	2	224	34	26	19	19	1.96
504275--504466	60	3.2	60	83	4	244	34	26	19	19	1.96
504846--504916	33	2.2	33	94	0	124	11	23	16	47	1.79
504996--505102	21	5.6	20	73	17	102	46	18	21	13	1.83
505057--505113	14	3.7	14	75	20	60	43	22	24	8	1.81
505050--505129	33	2.4	33	95	0	142	47	22	21	8	1.78
505125--505252	19	7.1	19	71	19	87	10	25	18	45	1.82
505147--505203	14	3.7	14	75	20	60	8	24	22	43	1.81
505130--505252	33	3.5	33	88	10	165	10	24	18	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505188--505252	21	3.1	21	82	4	96	10	26	15	47	1.78
506931--507246	93	3.4	93	98	0	605	22	13	18	45	1.85
507362--507418	14	3.7	14	72	20	51	43	24	22	8	1.81
507376--507467	19	5.4	18	72	24	65	46	28	17	7	1.75
507344--507467	33	3.7	33	91	1	185	45	27	17	8	1.78
507393--507451	14	3.9	14	76	20	64	47	28	16	6	1.72
507463--507616	19	8.6	19	73	14	139	11	20	23	45	1.82
507485--507541	14	3.7	14	75	20	60	10	21	24	43	1.83
507468--507598	33	3.8	33	90	5	190	9	20	22	46	1.80
509541--509576	14	2.6	14	95	0	63	33	0	22	44	1.53
509667--509754	19	4.8	19	79	14	114	47	14	22	14	1.81
509667--509773	53	2.0	53	96	1	198	45	15	24	14	1.83
509807--509861	14	3.6	14	73	21	56	10	23	20	45	1.82
509821--509986	53	3.2	53	96	0	298	13	21	18	46	1.82
509769--510000	86	2.7	90	90	7	358	12	22	18	46	1.83
509787--510000	33	6.2	33	77	13	227	12	22	18	46	1.83
509821--510019	53	3.8	53	87	5	196	13	21	19	46	1.83
512279--512303	12	2.1	12	100	0	50	0	28	0	72	0.86
512478--512524	24	2.0	24	87	8	69	38	21	14	25	1.92
513217--513465	20	12.4	20	87	1	250	18	17	25	38	1.93
513459--513507	21	2.3	20	80	10	53	26	18	20	34	1.95
515643--515712	30	2.3	30	83	9	81	18	0	15	65	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523542--523630	30	3.0	30	90	1	126	32	26	20	20	1.97
523565--523638	30	2.4	30	95	2	130	31	24	21	22	1.99
523626--523726	31	3.2	31	80	8	132	33	18	18	28	1.95
524552--524596	21	2.1	21	87	0	63	15	24	28	31	1.96
527492--527580	30	3.0	30	91	1	135	31	26	21	20	1.98
527576--527676	31	3.2	31	80	8	132	33	18	18	28	1.95
528449--528475	2	13.5	2	100	0	54	48	0	0	51	1.00
528508--528563	29	1.9	29	82	7	69	44	23	1	30	1.63
528950--528994	21	2.1	21	87	0	63	15	24	28	31	1.96
531060--531099	21	1.9	21	89	0	62	55	7	7	30	1.56
533902--534017	49	2.4	49	88	0	187	37	26	15	20	1.93
534080--534186	53	2.0	53	83	7	137	43	20	2	32	1.66
536245--536305	29	2.1	30	84	3	79	36	18	4	40	1.72
538414--538450	18	2.1	18	100	0	74	27	21	10	40	1.86
540975--541012	20	1.9	20	94	0	67	26	26	21	26	1.99
541021--541177	64	2.4	64	87	6	219	29	20	17	31	1.96
545595--545902	153	2.0	154	99	0	609	47	11	9	31	1.71
552514--552673	21	7.6	21	88	6	193	40	22	21	15	1.90
555014--555040	2	13.5	2	100	0	54	48	0	0	51	1.00
555267--555312	17	2.8	16	87	9	65	76	0	23	0	0.79
555267--555311	5	8.2	5	83	16	54	75	0	24	0	0.80
555267--555311	11	4.1	11	83	8	56	75	0	24	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
557536--557637	42	2.4	41	77	6	107	27	26	20	25	1.99
557725--557826	42	2.5	41	80	3	114	25	25	22	26	2.00
557930--558031	42	2.5	41	79	6	107	26	23	21	28	1.99
558145--558246	42	2.5	41	80	3	114	26	26	21	25	2.00
557536--558914	214	6.5	214	95	1	2327	31	17	20	29	1.96
558573--558674	42	2.5	41	82	6	125	25	25	22	26	2.00
558787--558885	42	2.4	41	85	6	128	27	24	20	28	1.99
568514--568559	24	1.9	24	86	8	67	30	0	4	65	1.12
568537--568574	17	2.3	17	90	4	60	36	0	5	57	1.21
574244--574307	23	2.7	24	76	11	69	54	9	1	34	1.42
575141--575181	22	1.9	21	90	5	64	24	2	36	36	1.69
575536--575586	19	2.6	20	90	3	77	43	5	15	35	1.71
579462--579527	22	3.0	22	70	12	55	10	36	34	18	1.85
579523--579556	13	2.6	13	90	9	52	14	32	29	23	1.94
581134--581172	20	2.0	19	85	5	51	41	10	17	30	1.83
582469--583138	330	2.0	334	96	2	1255	30	14	18	37	1.90
583132--583761	311	2.0	318	97	2	1195	38	17	7	37	1.77
595540--595569	15	2.0	15	93	0	51	16	3	6	73	1.18
603257--603289	12	2.8	12	90	9	50	0	0	12	87	0.53
608821--608954	41	3.3	41	73	6	128	33	16	17	32	1.93
608821--609068	81	3.1	81	76	2	185	31	16	20	32	1.94
608958--609112	81	1.9	80	82	10	190	29	15	21	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609058--609169	41	2.8	40	79	5	118	28	15	17	38	1.90
609100--609193	41	2.3	41	87	3	127	24	14	17	43	1.86
610631--610695	28	2.3	28	86	5	87	21	12	7	58	1.59
613387--613443	29	2.0	29	92	0	96	28	22	19	29	1.98
613423--613659	42	5.6	42	79	5	246	25	21	18	35	1.95
613476--613631	43	3.8	40	77	10	111	25	22	17	33	1.96
630263--630291	14	2.1	14	100	0	58	31	20	6	41	1.79
632372--632404	16	1.9	18	88	11	52	42	6	21	30	1.77
635734--635822	9	9.3	9	72	11	61	15	24	29	30	1.96
635733--635773	20	2.0	20	95	0	73	17	17	29	36	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29