genome.fa.s9014.2.7.7.80.10.50.1000.3.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

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

This is table  3  of  13  ( 1552 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)
490154--490202	25	2.0	25	95	0	89	67	8	20	4	1.34
490183--490241	21	2.8	21	80	12	68	74	5	20	0	1.00
490188--490284	22	4.4	21	71	21	74	76	7	15	1	1.06
490203--490245	18	2.5	17	88	7	61	76	4	18	0	0.95
490199--490276	40	1.9	40	82	12	97	75	8	14	1	1.10
490179--490278	16	6.5	15	69	18	55	76	8	15	1	1.07
491486--491625	30	4.6	29	77	7	118	27	15	12	44	1.83
491520--491625	29	3.6	29	80	10	124	27	15	13	44	1.83
491631--492244	134	4.6	133	79	5	636	25	31	17	25	1.97
491633--492238	264	2.3	266	84	4	760	25	32	16	25	1.97
492443--492514	3	24.0	3	100	0	144	33	0	0	66	0.92
496288--496317	10	3.0	10	95	0	51	0	26	20	53	1.46
500637--500705	23	3.0	23	80	0	84	30	26	26	17	1.97
502201--502258	20	2.7	20	86	10	71	27	22	18	31	1.97
509712--509750	18	2.2	18	85	0	51	46	35	5	12	1.65
517864--517942	15	5.3	15	92	0	122	10	25	18	45	1.81
519964--520021	24	2.5	24	91	8	95	39	3	12	44	1.58
519968--520021	23	2.4	23	90	9	85	38	3	12	44	1.61
520011--520070	23	2.8	21	76	18	59	56	0	1	41	1.09
520022--520071	12	4.2	12	75	14	50	54	0	0	46	1.00
520026--520070	23	1.9	23	90	4	72	55	0	0	44	0.99
523037--523077	8	5.2	8	82	5	57	34	0	29	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523630--523717	28	3.2	28	76	9	99	36	3	4	55	1.37
524227--524319	21	4.5	21	90	6	120	20	26	34	18	1.96
526068--526152	33	2.7	31	77	13	93	60	2	0	37	1.10
529567--529627	31	1.9	32	90	9	99	72	0	6	21	1.07
529666--529773	44	2.5	42	73	13	103	67	2	2	26	1.18
530318--530425	37	2.9	37	95	0	189	31	12	14	41	1.83
530998--532446	84	17.4	84	77	4	1330	24	19	24	30	1.98
530998--532446	250	5.8	248	87	1	2010	24	19	24	30	1.98
530998--532446	249	5.8	248	87	1	1990	24	19	24	30	1.98
536270--536353	22	4.0	21	80	9	100	16	27	38	17	1.92
537010--537047	20	1.9	20	94	0	67	39	5	10	44	1.61
537823--537870	19	2.5	20	82	3	62	29	12	6	52	1.63
539145--539203	21	2.8	21	94	0	100	15	30	38	15	1.88
540285--540442	85	1.8	86	81	9	198	66	1	2	29	1.15
540404--540461	25	2.3	25	80	16	66	63	6	1	27	1.29
540971--541041	37	1.9	37	94	0	124	30	12	15	40	1.85
543164--543213	15	3.3	15	82	0	55	46	8	26	20	1.78
543176--543222	18	2.8	18	81	9	55	40	10	27	21	1.86
548663--548704	17	2.4	18	88	4	68	16	42	23	16	1.88
548714--548897	28	6.3	29	76	8	124	27	5	22	44	1.76
548743--548897	28	5.4	28	76	6	130	27	5	22	43	1.76
549835--550126	42	7.0	41	88	4	431	18	23	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549835--550126	84	3.5	84	94	0	505	18	23	25	32	1.97
549835--550165	42	7.8	42	87	4	328	19	23	24	32	1.97
556273--556331	13	4.1	14	76	23	61	20	42	23	13	1.88
556272--556331	31	1.9	31	93	0	102	20	43	23	13	1.86
556286--556327	18	2.3	18	95	0	75	19	47	23	9	1.78
556371--556525	29	5.3	29	74	4	141	30	5	23	41	1.76
557460--557790	42	7.8	41	89	5	475	18	24	25	32	1.97
557460--557790	84	3.9	84	94	2	549	18	24	25	32	1.97
561184--561273	12	7.6	12	71	10	69	54	17	11	16	1.70
561182--561290	24	4.5	24	85	0	119	53	17	11	17	1.73
566245--566286	3	14.0	3	80	9	50	38	0	0	61	0.96
571606--571654	25	2.0	25	95	0	89	65	8	22	4	1.37
571631--571741	10	11.2	10	74	11	86	76	6	17	0	0.98
571660--571757	6	15.7	6	69	19	58	77	6	15	1	1.01
571631--571743	20	5.9	19	76	12	97	76	6	16	0	0.97
572797--572865	32	2.2	32	83	0	84	34	13	21	30	1.91
572995--573082	29	3.0	29	86	3	122	26	14	14	44	1.84
573092--573694	134	4.5	134	78	4	632	25	31	16	26	1.97
573092--573694	264	2.3	265	82	5	704	25	31	16	26	1.97
573899--573963	3	22.0	3	96	3	123	33	0	0	66	0.92
589044--589083	4	10.5	4	89	10	66	22	0	77	0	0.77
589976--590008	17	1.9	17	93	0	57	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
590743--590786	21	2.1	21	86	0	61	38	9	0	52	1.33
593728--593803	33	2.4	31	82	4	80	53	5	7	32	1.52
595024--595139	30	3.9	30	94	0	205	28	12	14	44	1.81
597691--597773	3	27.7	3	100	0	166	67	0	0	32	0.91
598736--598849	34	3.4	34	74	3	95	50	19	13	17	1.78
598857--598897	12	3.4	12	80	12	57	41	14	12	31	1.83
598845--598936	24	3.8	24	79	7	96	47	16	10	25	1.78
598845--598924	23	3.4	23	84	5	97	47	16	10	26	1.77
600965--601040	31	2.5	31	89	4	109	55	13	10	21	1.67
604707--604765	3	19.7	3	87	6	84	35	0	1	62	1.05
604722--604777	27	2.2	27	87	9	82	44	0	0	55	0.99
604719--604775	30	1.9	30	85	7	80	43	0	0	56	0.99
604704--604777	21	3.4	24	82	14	72	41	0	1	56	1.07
604707--604773	24	2.8	24	84	2	82	40	0	1	58	1.07
605240--605278	19	2.1	19	95	0	69	38	28	33	0	1.57
606108--606137	15	2.0	15	93	0	51	36	3	6	53	1.44
606313--606337	2	12.5	2	100	0	50	48	0	0	52	1.00
606425--606462	19	2.0	19	85	10	51	39	0	2	57	1.12
609140--609169	8	3.8	8	90	0	51	23	16	0	60	1.36
609233--609261	12	2.3	13	94	5	51	27	13	6	51	1.66
614620--615239	268	2.3	267	91	2	989	32	16	20	30	1.95
616543--616619	22	3.5	22	87	7	120	37	7	12	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617297--618848	76	20.4	76	93	1	2621	24	18	21	35	1.96
617297--618848	153	10.2	153	94	1	2631	24	18	21	35	1.96
617297--618848	457	3.4	457	93	1	2634	24	18	21	35	1.96
618978--619019	3	13.7	3	90	5	66	38	0	0	61	0.96
620714--620762	25	2.0	25	84	4	64	40	0	6	53	1.26
621955--622380	213	2.0	213	95	0	762	34	17	22	25	1.96
623939--624068	36	3.7	34	71	21	99	69	3	3	23	1.20
624002--624057	17	3.2	18	77	5	53	69	0	3	26	1.04
624182--624228	16	3.1	16	84	9	62	61	0	4	34	1.15
625585--625783	110	1.8	110	84	2	274	23	17	21	37	1.94
626508--626670	67	2.5	66	84	7	206	36	10	22	31	1.88
626585--626847	137	1.9	138	82	5	336	40	12	19	27	1.87
626774--626863	36	2.5	36	94	0	153	41	10	18	30	1.83
626679--626950	101	2.7	101	80	5	264	40	12	18	29	1.86
628411--628548	69	2.0	69	91	0	222	23	13	24	38	1.91
628621--628690	21	3.3	21	90	6	97	0	15	4	80	0.87
628624--628690	11	6.1	11	87	10	93	0	16	4	79	0.90
628609--628690	32	2.5	31	84	13	103	2	14	3	79	0.98
631739--631779	21	2.0	22	90	9	68	75	0	2	21	0.92
632164--632223	14	4.4	14	76	18	63	68	0	0	31	0.90
632137--632208	25	3.0	25	82	8	69	63	0	2	33	1.08
632153--632213	25	2.5	25	84	7	72	67	0	1	31	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
640638--640785	78	1.9	77	82	9	185	41	7	6	44	1.57
647570--647717	77	1.9	78	80	6	176	40	10	5	43	1.61
652489--652586	50	2.0	50	89	0	151	25	18	19	36	1.94
669146--669316	21	8.0	21	70	11	96	23	16	22	36	1.95
669146--669316	44	4.0	44	73	4	143	23	16	22	36	1.95
669254--669325	23	3.3	23	86	5	87	18	19	27	34	1.95
670306--670988	138	4.9	138	77	7	517	44	14	12	29	1.81
675190--675354	90	1.8	90	93	0	285	35	11	6	47	1.65
680355--680417	27	2.4	27	86	2	83	26	6	11	55	1.59
686493--686529	19	2.1	18	90	10	58	37	10	5	45	1.62

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