genome.fa.s5397.2.7.7.80.10.50.1000.4.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: VEPZ01005397.1 Hibiscus syriacus cultivar Beakdansim tig00012370_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218879

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 577 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)
834324--834517	40	4.8	39	82	3	199	35	25	19	19	1.95
834324--834516	60	3.2	60	83	0	251	35	25	19	19	1.95
834897--834967	33	2.2	33	92	0	115	11	22	18	47	1.80
835088--835142	14	3.6	14	73	21	56	41	23	25	9	1.83
835088--835158	33	2.2	33	94	0	124	43	25	22	8	1.81
835154--835218	19	3.7	19	74	19	77	10	23	21	44	1.83
835176--835265	14	5.7	14	72	23	72	7	25	24	42	1.81
835159--835273	33	3.5	33	92	0	203	8	24	21	45	1.80
836972--837350	92	4.1	93	98	0	735	22	12	18	46	1.83
836972--837352	185	2.1	185	97	1	737	22	12	18	46	1.82
837394--837522	19	7.3	19	75	17	125	45	28	17	8	1.77
837430--837522	33	2.8	32	91	4	150	46	27	18	7	1.76
837394--837522	52	2.5	52	74	14	140	45	28	17	8	1.77
837518--837652	19	7.6	19	75	16	128	11	19	23	45	1.82
837540--837596	14	3.7	14	77	20	60	10	21	22	45	1.82
837523--837615	33	2.8	33	95	0	168	10	20	21	47	1.80
839550--839585	14	2.6	14	95	0	63	33	0	22	44	1.53
839692--839774	19	4.6	19	80	17	113	43	18	24	14	1.87
839803--840056	19	14.4	19	80	16	307	13	21	18	46	1.83
839803--840056	33	7.2	33	88	9	296	13	21	18	46	1.83
839781--839989	52	3.9	52	91	6	339	14	22	17	45	1.84
842338--842362	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
842537--842583	24	2.0	24	87	8	69	38	21	14	25	1.92
843260--843649	20	19.5	20	84	5	457	20	18	25	35	1.95
847300--847340	3	13.3	3	94	5	73	65	0	0	34	0.93
847339--847380	3	14.0	3	100	0	84	33	0	0	66	0.92
848968--848996	12	2.3	13	94	5	51	31	3	6	58	1.41
852861--852952	30	3.4	30	69	27	105	61	0	27	10	1.29
852861--852957	50	1.9	50	100	0	194	61	0	25	12	1.31
853606--853644	21	1.9	20	84	5	51	43	20	0	35	1.52
853686--853743	20	2.9	19	80	12	71	34	25	15	24	1.95
853686--853743	21	2.8	20	82	10	73	34	25	15	24	1.95
867596--867717	51	2.4	51	90	0	190	29	31	13	26	1.93
868683--868773	45	2.0	46	83	12	116	41	6	18	32	1.76
869377--869693	106	3.0	107	91	2	489	40	8	14	36	1.77
871393--871547	59	2.6	59	77	6	161	31	21	5	41	1.75
876418--876606	20	9.6	20	83	6	226	33	27	19	19	1.96
876986--877056	33	2.2	33	92	0	115	9	23	18	47	1.78
877136--877209	21	3.5	20	76	8	85	47	16	20	16	1.83
877253--877309	14	3.7	14	75	20	60	8	24	22	43	1.81
877236--877358	33	3.5	33	88	10	165	10	24	18	46	1.81
877294--877358	21	3.1	21	82	4	96	10	26	15	47	1.78
879034--879347	92	3.4	92	98	0	601	21	14	19	44	1.85
879476--879566	14	5.4	18	69	23	72	47	27	16	8	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
879444--879566	33	3.7	33	87	2	167	46	26	17	9	1.79
879583--879639	14	3.7	14	75	20	51	10	22	22	43	1.84
879567--879696	33	3.8	33	83	10	172	10	21	22	46	1.81
879562--879714	19	8.6	19	74	13	130	11	20	22	45	1.83
881205--881229	12	2.1	12	100	0	50	0	28	0	72	0.86
881403--881449	24	2.0	24	87	8	69	38	21	14	25	1.92
882136--882384	20	12.4	20	88	1	259	18	17	25	37	1.93
882378--882448	21	3.4	20	75	13	54	25	18	22	33	1.96
882810--882898	43	2.1	43	100	0	178	43	23	8	23	1.82
884619--884645	2	13.5	2	100	0	54	51	0	0	48	1.00
888878--888933	2	28.0	2	100	0	112	50	0	0	50	1.00
893260--893307	25	2.0	24	88	8	71	47	0	6	45	1.27
911824--911887	23	2.7	24	78	9	78	45	3	0	51	1.17
911837--911908	33	2.2	32	82	4	92	47	2	0	50	1.15
911837--911917	33	2.5	31	80	7	90	48	2	0	49	1.14
911893--912023	67	2.0	67	95	0	235	63	2	0	33	1.12
911893--912005	21	4.9	24	68	17	78	62	2	0	33	1.15
911909--912028	33	3.6	33	76	11	120	63	2	0	33	1.14
922167--922244	37	2.1	37	95	0	138	41	15	6	37	1.73
923797--923868	31	2.4	31	80	15	80	50	4	0	45	1.21
924901--924945	21	2.1	21	91	0	72	26	28	20	24	1.99
925604--925670	29	2.2	30	84	5	82	34	8	16	40	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
933337--933365	10	2.9	10	100	0	58	62	17	20	0	1.33
934453--934499	17	2.5	20	74	22	57	36	2	6	55	1.37
938423--938522	43	2.3	43	86	3	130	13	12	37	38	1.81
939338--939390	27	2.0	27	100	0	106	33	11	22	32	1.90
941612--941637	5	5.2	5	100	0	52	23	38	19	19	1.93
944819--944861	18	2.4	19	80	7	54	62	4	0	32	1.15
945962--946023	30	2.1	30	96	0	115	35	4	12	46	1.64
954683--954737	24	2.4	24	82	8	62	49	0	0	50	1.00
958785--958829	18	2.5	17	86	13	63	64	0	2	33	1.06
958791--958830	18	2.2	19	95	4	73	67	0	2	30	1.04
962770--962819	20	2.5	20	78	12	66	54	6	2	38	1.37
965578--965740	48	3.4	48	93	0	272	50	4	33	11	1.59
965639--965716	24	3.2	24	68	20	72	51	2	32	14	1.55
965663--965740	24	3.3	23	68	13	68	50	6	32	11	1.64
968665--968709	21	2.1	21	91	0	72	31	26	24	17	1.97
969296--969330	18	1.9	18	88	11	54	54	5	17	22	1.64
970222--970536	149	2.1	149	92	3	519	26	18	21	33	1.96
970504--970548	23	2.0	23	90	0	72	22	26	26	24	2.00
980252--980303	25	2.1	24	85	3	68	65	1	0	32	1.04
980447--980476	2	15.0	2	100	0	60	50	0	0	50	1.00
980548--980586	21	1.9	21	84	5	53	33	0	5	61	1.18
980741--980788	21	2.3	21	96	0	87	47	8	8	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980930--980972	21	2.0	22	90	4	70	23	25	18	32	1.97
981768--981928	32	5.1	32	87	2	204	34	21	16	27	1.94
984525--984571	20	2.3	20	88	0	76	36	23	14	25	1.93
984546--984649	40	2.6	41	90	3	133	34	17	18	29	1.94
984585--984654	20	3.5	20	66	21	56	34	15	18	31	1.92
985521--985558	19	1.9	19	89	5	58	50	5	13	31	1.63
991024--991104	30	2.7	30	86	0	117	23	40	8	27	1.83
997395--997419	13	1.9	13	100	0	50	24	24	12	40	1.88
998123--998178	2	28.0	2	100	0	112	50	0	0	50	1.00
1001576--1001622	23	2.0	23	100	0	94	29	12	21	36	1.91
1007187--1007273	31	2.8	31	84	8	97	27	18	6	47	1.74
1011035--1011087	21	2.5	21	81	6	72	20	26	18	33	1.96
1011077--1011144	21	3.3	21	91	2	102	39	16	22	22	1.92
1011138--1011226	20	4.4	20	80	5	81	29	29	15	25	1.96
1011418--1011461	22	2.0	22	95	0	79	20	45	15	18	1.85
1011716--1011774	20	3.0	20	87	0	73	15	18	22	44	1.87
1011911--1011965	25	2.2	24	78	15	58	20	9	18	52	1.71
1012722--1012751	15	1.9	16	93	6	53	20	3	13	63	1.43
1013099--1013140	18	2.3	18	91	0	75	28	47	9	14	1.75
1013677--1013722	20	2.3	20	88	0	65	36	26	21	15	1.93
1013716--1013765	19	2.6	19	90	0	82	46	20	20	14	1.84
1014366--1014550	91	2.0	93	89	8	290	48	18	11	21	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1016237--1016357	19	6.8	19	72	19	109	45	19	23	11	1.83
1016285--1016340	14	3.6	14	74	21	58	42	23	25	8	1.82
1016262--1016357	33	2.9	33	96	0	174	43	21	23	10	1.84
1016358--1016405	20	2.5	19	80	12	62	14	16	22	45	1.84
1016923--1017034	20	5.6	20	81	4	127	22	20	19	37	1.94
1016914--1017172	41	6.3	41	71	11	147	28	18	19	33	1.95
1017031--1017086	20	2.7	21	80	5	69	42	16	21	19	1.89
1016948--1017068	61	2.0	61	80	6	138	25	20	19	34	1.96
1017024--1017096	21	3.5	21	79	3	76	36	17	21	23	1.94
1017151--1017199	21	2.3	22	79	6	66	36	16	26	20	1.93

Tables:   1   2   3   4   5