genome.fa.s9630.2.7.7.80.10.50.1000.4.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: VEPZ01009630.1 Hibiscus syriacus cultivar Beakdansim tig00117026_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1249403

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 671 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)
555180--555218	4	9.5	4	83	5	51	51	20	2	25	1.60
555023--555333	124	2.5	124	84	4	421	29	18	13	38	1.89
561541--561708	84	2.0	84	90	0	264	34	24	16	24	1.95
563216--563249	2	17.0	2	93	0	59	47	2	0	50	1.16
568708--568738	13	2.4	13	94	0	53	0	32	0	67	0.91
573658--573690	12	2.8	12	95	0	57	27	33	27	12	1.92
580139--580174	2	18.0	2	100	0	72	50	0	0	50	1.00
585302--586047	55	13.8	55	86	3	1061	27	28	14	29	1.95
585350--586045	108	6.5	108	94	0	1250	27	28	14	28	1.95
585357--586151	108	7.4	107	89	6	976	27	28	15	29	1.96
586019--586562	51	10.5	51	84	4	646	24	24	18	33	1.97
586045--586562	208	2.5	206	85	5	687	23	24	18	33	1.97
586932--587197	36	7.4	36	85	2	311	20	19	23	36	1.95
596050--596116	2	33.5	2	100	0	134	50	0	0	49	1.00
597007--597053	22	2.2	21	78	10	51	42	6	8	42	1.60
600514--600615	37	2.8	37	83	3	125	43	15	11	29	1.82
603096--603144	3	17.0	3	83	8	66	63	0	2	34	1.06
603096--603144	17	2.8	18	87	6	66	63	0	2	34	1.06
603096--603144	20	2.5	20	90	6	73	63	0	2	34	1.06
611255--611294	15	2.7	15	85	11	55	70	0	0	30	0.88
611881--611925	24	2.0	23	86	8	65	33	0	4	62	1.15
612873--612904	3	10.7	3	100	0	64	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
614140--614174	2	17.5	2	100	0	70	51	0	0	48	1.00
614174--614205	2	16.0	2	100	0	64	50	0	50	0	1.00
619093--619197	31	3.4	31	76	7	90	41	7	2	47	1.47
626774--626813	21	1.9	21	85	10	55	35	10	2	52	1.48
628809--628866	22	2.6	23	94	2	100	17	22	43	17	1.88
629158--629232	22	3.4	22	89	5	107	42	0	0	57	0.98
629180--629236	11	5.0	12	75	18	59	43	0	0	56	0.99
629277--629328	26	2.0	26	84	0	68	34	21	7	36	1.82
629755--629903	61	2.4	59	88	4	217	40	12	17	29	1.86
630367--630406	2	20.5	2	94	5	73	47	0	0	52	1.00
630365--630404	19	2.1	19	100	0	80	47	0	0	52	1.00
631146--631242	36	2.7	36	87	4	126	42	24	1	31	1.62
631726--632018	148	2.0	148	94	0	514	48	9	6	34	1.62
632196--632275	35	2.3	35	89	4	117	33	0	22	43	1.53
639182--639241	18	3.6	17	70	25	56	26	10	20	43	1.83
639193--639275	32	2.6	32	90	1	132	31	9	19	39	1.84
639509--639796	79	3.6	79	84	2	380	35	14	21	28	1.93
639552--639757	40	5.2	40	72	4	148	34	13	22	29	1.92
639592--639741	39	3.8	39	73	7	115	36	14	20	29	1.92
639817--640109	40	7.4	40	68	6	137	35	16	21	25	1.95
639814--640193	79	4.8	80	86	2	514	35	15	22	26	1.94
639874--640187	40	7.9	39	68	10	109	36	14	20	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
642278--642774	199	2.5	200	92	2	795	39	9	17	33	1.83
649111--649230	24	5.0	25	73	20	96	63	1	1	33	1.14
649127--649224	7	12.6	8	70	18	55	63	2	1	33	1.13
649138--649222	15	5.5	15	77	16	68	67	2	1	29	1.11
653806--653876	31	2.3	31	95	0	124	26	9	14	49	1.74
654755--654801	20	2.4	19	80	16	51	48	0	0	51	1.00
655330--655405	31	2.5	31	93	0	134	48	10	10	30	1.71
663666--663773	42	2.6	41	80	2	117	26	24	20	28	1.99
663876--663996	42	2.9	42	83	4	163	24	19	23	32	1.98
664041--664126	42	2.1	40	87	6	120	26	15	24	33	1.95
664494--664747	53	4.8	53	89	1	386	31	20	27	20	1.98
666509--666534	7	3.7	7	100	0	52	30	0	0	69	0.89
670653--670753	41	2.5	41	80	4	116	22	19	23	33	1.97
671788--671865	33	2.3	35	75	14	83	7	15	1	75	1.09
674925--674957	14	2.4	14	94	0	57	24	0	30	45	1.53
675447--675485	20	1.9	20	89	5	60	43	2	15	38	1.60
677036--677066	14	2.2	14	94	0	53	12	12	19	54	1.70
677033--677086	24	2.2	24	83	6	65	12	12	16	57	1.65
677300--677347	10	4.8	10	84	0	60	18	16	10	54	1.70
677300--677348	20	2.5	20	93	0	80	18	16	10	55	1.69
677324--677393	33	2.1	33	86	5	97	14	11	15	58	1.63
680931--680988	26	2.2	26	93	0	98	48	0	13	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681051--681100	15	3.5	15	76	13	52	66	2	0	32	1.03
694811--694844	13	2.5	13	85	4	50	41	2	14	41	1.61
699773--699824	16	3.2	16	68	10	52	48	9	7	34	1.65
699768--699829	32	1.9	32	100	0	124	45	9	9	35	1.70
699768--699843	32	2.5	30	87	6	82	47	11	10	30	1.74
702292--702332	20	2.0	20	86	9	57	31	2	0	65	1.05
702683--702779	30	3.3	30	82	2	115	28	17	9	44	1.80
702682--702779	29	3.3	28	81	9	106	29	17	9	43	1.80
705796--705821	2	13.0	2	100	0	52	50	0	0	50	1.00
706220--706274	14	4.3	14	78	21	66	7	14	25	52	1.67
706221--706293	23	3.1	24	90	3	105	10	12	21	54	1.68
707011--707085	10	7.7	10	69	21	61	9	12	21	57	1.62
707017--707081	16	4.1	16	95	0	121	7	12	23	56	1.61
707148--707179	15	2.1	16	94	5	57	6	12	25	56	1.59
707249--707454	102	2.0	102	98	0	394	29	8	24	37	1.85
708652--708793	36	4.0	36	90	0	223	21	23	21	34	1.97
714142--714235	3	31.3	3	95	0	170	67	0	2	30	1.03
714304--714342	4	9.8	4	89	10	62	48	0	0	51	1.00
715475--715501	3	9.0	3	100	0	54	0	33	0	66	0.92
719036--719067	2	16.0	2	100	0	64	50	0	0	50	1.00
720991--721034	23	1.9	23	95	0	79	52	2	0	45	1.13
741669--741693	10	2.5	10	100	0	50	8	44	8	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742468--742497	4	7.5	4	100	0	60	26	0	46	26	1.53
759126--759167	14	3.1	14	79	3	50	64	23	7	4	1.38
761445--761478	12	2.8	12	95	4	59	73	0	11	14	1.10
762105--762129	13	1.9	13	100	0	50	0	16	0	84	0.63
762917--763061	72	2.0	72	98	0	281	40	12	8	38	1.73
772115--772395	139	2.0	139	96	0	517	38	16	14	30	1.88
772817--772875	30	2.0	30	93	0	100	32	33	6	27	1.83
781592--781674	29	2.8	29	92	1	139	43	9	14	32	1.78
786354--786436	29	2.8	29	92	1	139	43	9	14	32	1.78
787268--787303	13	2.8	13	100	0	72	61	16	0	22	1.35
788203--788274	10	7.4	10	68	22	55	56	22	12	8	1.62
788204--788268	16	4.1	16	95	0	121	56	23	12	7	1.61
789021--789076	14	4.3	14	76	17	66	53	23	12	10	1.69
789001--789075	24	3.1	24	86	3	98	56	20	10	13	1.66
792018--792175	68	2.2	68	91	5	244	40	12	15	31	1.84
793305--793340	14	2.7	13	86	4	54	2	8	27	61	1.39
793300--793364	34	1.9	33	87	9	96	6	9	23	61	1.48
793327--793366	20	2.0	20	85	0	53	10	12	20	57	1.63
793374--793455	31	2.6	31	92	0	128	48	15	10	24	1.77
794362--794591	76	3.1	71	76	13	223	32	0	10	56	1.40
794398--794591	71	2.6	75	82	8	238	31	0	12	56	1.37
794554--794596	19	2.1	21	87	8	63	30	0	13	55	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
799104--799192	40	2.3	39	88	2	124	37	24	16	21	1.94
802944--802969	2	13.0	2	100	0	52	50	0	0	50	1.00
810458--810497	21	1.9	21	90	10	64	62	2	32	2	1.22
818134--818224	23	4.0	23	88	0	137	17	27	26	28	1.98
819314--819364	18	2.9	17	80	8	57	25	31	7	35	1.85
822978--823030	16	3.1	18	81	10	56	47	18	3	30	1.67
822991--823034	16	2.8	16	96	0	79	45	22	4	27	1.72
826202--826239	15	2.5	15	83	8	51	55	5	7	31	1.51
837486--837536	22	2.3	22	86	10	68	50	3	0	45	1.20
845094--845142	25	2.0	23	92	7	80	34	2	6	57	1.35

Tables:   1   2   3   4   5   6