genome.fa.s6093.2.7.7.80.10.50.1000.3.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: VEPZ01006093.1 Hibiscus syriacus cultivar Beakdansim tig00014444_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3172561

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1555 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)
634002--634099	22	4.3	22	72	16	83	43	5	1	50	1.31
634039--634109	10	7.8	10	73	20	66	38	8	0	53	1.31
634194--634292	50	1.9	49	86	11	137	45	6	7	41	1.56
634246--634346	41	2.6	40	83	10	120	44	6	4	43	1.52
634335--634399	23	3.0	23	72	19	59	40	4	9	46	1.57
634276--634399	41	3.0	42	82	9	130	41	5	8	45	1.57
634226--634387	13	12.2	13	71	12	107	42	6	6	45	1.54
634283--634415	42	3.1	42	81	10	121	41	7	6	44	1.59
634430--634690	2	134.0	2	66	21	119	42	4	5	47	1.46
634405--634716	37	8.1	37	71	20	121	41	4	6	47	1.49
634673--634736	32	2.0	33	84	3	85	40	6	7	45	1.58
634634--634792	77	2.0	80	80	10	184	43	5	6	44	1.53
634732--634792	30	2.0	31	90	9	99	44	8	4	42	1.55
634775--634845	24	2.9	25	78	14	69	43	7	4	45	1.50
634798--634839	12	3.5	12	83	9	50	42	9	2	45	1.49
634755--634862	54	2.0	55	82	12	134	44	8	3	43	1.52
638705--638793	3	29.7	3	100	0	178	66	0	0	33	0.92
639210--639279	36	1.9	36	86	11	99	31	28	15	24	1.96
642269--642326	18	3.1	18	79	13	71	27	12	10	50	1.72
642734--642774	21	2.0	21	100	0	82	29	24	24	21	1.99
648247--648277	10	3.2	10	90	9	55	41	0	0	58	0.98
648347--648387	21	1.9	22	85	5	57	39	21	2	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650206--650250	18	2.4	18	88	3	63	28	2	4	64	1.25
652043--652113	21	3.4	21	94	0	124	29	28	14	28	1.95
652043--652137	42	2.3	42	86	0	127	27	27	15	29	1.96
652982--653035	25	2.2	25	82	0	63	11	24	3	61	1.46
660163--660193	3	10.3	3	100	0	62	0	35	0	64	0.94
661348--661665	31	10.3	31	96	0	591	38	11	15	33	1.84
662541--662607	19	3.4	20	76	17	61	43	8	0	47	1.34
665424--665456	10	3.2	11	91	8	52	9	21	9	60	1.54
665669--665717	19	2.7	17	84	9	53	26	20	28	24	1.99
673489--673521	10	3.2	11	91	8	52	9	21	9	60	1.54
678372--678557	27	6.7	27	65	16	85	26	19	26	27	1.99
678372--678619	55	4.4	55	76	8	232	26	20	25	27	1.99
678372--678619	113	2.2	112	83	5	304	26	20	25	27	1.99
678709--678864	81	1.9	81	89	2	242	30	21	30	17	1.96
684676--684796	14	8.7	14	80	8	95	19	1	30	48	1.58
684693--684796	21	5.0	21	86	1	120	19	0	29	50	1.47
684686--684792	7	15.4	7	80	7	103	19	0	28	51	1.53
685643--685689	2	23.5	2	100	0	94	51	0	0	48	1.00
686236--686274	14	2.7	14	88	4	51	30	0	0	69	0.89
686641--686687	21	2.2	21	77	7	51	48	12	4	34	1.61
688233--688283	25	2.0	25	92	0	84	41	5	9	43	1.62
690100--690158	21	2.8	21	86	0	82	49	28	5	16	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690376--690420	21	2.1	21	84	8	56	17	17	13	51	1.77
691124--691158	18	1.9	18	94	0	61	28	34	20	17	1.95
711536--711617	24	3.4	24	79	3	85	52	17	9	20	1.72
715746--716108	81	4.5	80	80	6	340	30	18	15	35	1.92
719181--719312	41	3.2	41	66	19	119	23	28	31	16	1.96
719267--719377	55	2.0	55	100	0	222	27	21	34	16	1.95
719413--719481	15	4.9	15	68	20	58	24	30	31	13	1.93
719391--719492	41	2.5	41	96	0	186	23	31	30	14	1.94
719506--719644	29	4.8	29	100	0	278	16	30	28	23	1.96
719650--719709	23	2.6	23	100	0	120	25	45	6	23	1.77
719820--719871	25	2.1	25	92	0	86	28	9	32	28	1.89
719910--719967	4	14.0	4	75	7	53	63	0	34	1	1.04
719909--719940	17	1.9	16	93	6	55	62	0	37	0	0.95
719910--719967	25	2.3	25	96	0	107	63	0	34	1	1.04
720173--720263	45	2.0	47	87	8	134	41	0	12	46	1.41
722626--722658	17	1.9	17	93	0	57	45	12	6	36	1.66
722708--722746	17	2.3	17	100	0	78	46	15	0	38	1.46
722726--722798	26	2.8	27	87	4	71	43	12	2	41	1.56
722741--722785	12	3.6	12	77	11	54	40	6	4	48	1.49
722787--722887	8	11.0	9	73	19	61	46	13	0	39	1.44
722784--722860	19	3.6	19	72	24	73	48	16	0	35	1.47
722781--723375	46	12.3	46	79	8	427	44	11	1	42	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
722873--723554	26	27.7	25	76	17	426	43	10	2	43	1.52
722735--723457	170	4.2	165	78	15	586	43	11	2	42	1.52
723077--723153	19	3.6	19	72	24	73	48	16	0	35	1.47
722734--723330	293	2.0	294	97	0	1133	44	11	2	42	1.52
723022--723457	196	2.2	196	99	0	854	44	11	2	42	1.51
723273--723349	19	3.6	19	72	24	73	48	16	0	35	1.47
722873--723499	170	3.7	169	77	11	625	43	10	2	43	1.52
723417--723570	71	2.2	70	81	11	181	43	11	3	41	1.57
726436--726494	26	2.3	24	78	16	64	40	3	8	47	1.51
727236--727332	49	2.0	50	79	16	116	49	7	1	42	1.37
727309--727362	28	1.9	28	92	0	90	55	12	0	31	1.38
727304--727369	28	2.4	28	82	10	89	54	10	0	34	1.35
727697--727760	32	2.0	32	100	0	128	31	21	25	21	1.98
727835--727972	50	2.8	50	94	4	237	18	53	7	19	1.69
727925--728045	33	3.7	33	86	10	185	16	52	9	22	1.72
727901--728031	16	8.2	16	73	13	99	16	53	7	22	1.68
727925--728050	65	1.9	66	95	3	227	16	50	9	23	1.75
727850--728037	81	2.3	80	77	8	218	17	53	7	21	1.68
728012--728101	45	2.0	45	100	0	180	15	42	15	26	1.87
728083--728136	18	3.1	18	97	2	101	16	20	24	38	1.92
728158--728246	29	3.1	29	100	0	178	17	37	31	13	1.89
729246--729322	39	2.0	39	97	0	145	29	16	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
730575--730608	16	2.1	16	94	0	59	32	8	26	32	1.87
740831--740911	9	10.0	8	75	12	69	71	2	0	25	0.98
740805--740891	40	2.3	38	80	9	97	67	2	0	29	1.03
740825--740911	24	3.5	24	73	19	81	70	3	0	26	1.03
743378--743455	28	2.8	28	86	1	104	33	24	16	25	1.96
753324--753491	82	2.0	82	81	2	194	29	19	19	30	1.97
754275--754319	21	2.1	21	83	0	54	22	2	20	55	1.54
754959--755043	43	2.0	42	90	2	134	21	30	3	44	1.69
758189--758632	55	8.1	55	86	4	558	29	25	15	29	1.96
758416--758717	55	6.0	46	85	7	266	28	23	15	31	1.96
758703--759004	56	5.4	56	87	1	394	26	22	16	34	1.95
759006--759086	37	2.2	37	89	8	121	20	18	16	44	1.87
759313--759393	37	2.2	37	89	8	121	20	18	16	44	1.87
758899--759511	307	2.0	307	99	0	1199	28	18	15	37	1.92
759717--759849	37	3.6	37	82	9	146	25	15	22	36	1.93
760604--760849	126	2.0	126	87	3	361	25	26	15	32	1.95
770423--770467	22	2.0	22	91	4	72	26	22	22	28	1.99
771595--771774	90	2.0	90	98	0	351	25	17	11	46	1.81
776329--776394	31	2.1	31	88	5	98	21	13	10	54	1.69
778983--779070	43	2.0	44	86	2	124	56	19	1	22	1.48
779204--779249	19	2.4	19	100	0	92	41	10	0	47	1.38
779880--780181	148	2.0	148	98	0	586	37	17	18	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
781796--781862	34	2.0	34	100	0	134	35	8	2	52	1.48
784621--784680	28	2.1	28	87	6	86	33	26	20	20	1.97
785374--785414	2	21.0	2	90	5	66	48	0	0	51	1.00
788267--788343	31	2.5	31	85	2	102	22	10	11	55	1.65
794822--794871	2	25.5	2	91	4	84	50	0	2	48	1.12
795245--795278	2	17.5	2	87	6	52	50	0	2	47	1.16
796739--796795	21	2.7	21	72	2	51	10	15	5	68	1.36
796913--796948	18	2.0	18	88	0	54	55	13	19	11	1.68
799187--799229	21	2.0	21	100	0	86	37	4	23	34	1.76
800975--801002	14	2.0	14	100	0	56	50	7	21	21	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13