genome.fa.s8654.2.7.7.80.10.50.1000.5.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  5  of  18  ( 2052 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)
802648--802688	14	2.9	15	73	26	52	56	24	0	19	1.42
802645--802749	21	5.3	21	70	17	73	51	27	0	20	1.48
802827--802856	14	2.1	14	93	0	51	43	0	6	50	1.28
804253--804302	25	2.0	25	84	7	66	40	0	4	56	1.18
805723--805768	23	2.0	24	87	12	69	43	0	4	52	1.21
806600--806640	22	2.0	22	85	9	59	48	0	4	46	1.23
813314--813351	17	2.3	17	86	4	51	55	5	0	39	1.23
814218--814270	25	2.2	25	89	3	81	60	0	11	28	1.31
816776--816800	6	4.2	6	100	0	50	20	16	0	64	1.30
818659--818877	14	15.9	14	81	3	275	13	14	14	57	1.65
818657--818874	28	7.9	28	98	1	399	13	14	14	58	1.64
821923--821995	29	2.6	27	81	18	78	21	8	9	60	1.54
822593--822961	131	2.8	131	87	0	504	31	11	16	40	1.84
825287--825331	17	2.6	17	100	0	90	24	15	20	40	1.91
842678--842715	15	2.5	15	87	8	51	71	0	13	15	1.16
862947--863583	237	2.7	237	85	4	831	32	14	17	35	1.91
863615--863837	37	6.0	37	92	0	338	38	17	20	23	1.93
863840--863959	56	2.1	55	80	10	136	27	20	19	32	1.97
865515--865553	2	19.5	2	94	0	69	48	0	0	51	1.00
879532--879668	59	2.3	59	78	2	159	27	18	25	28	1.98
885909--886200	128	2.3	128	81	3	316	34	9	15	41	1.79
889422--889473	26	1.9	26	85	14	70	15	23	5	55	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
890349--890398	25	2.0	26	84	11	68	72	4	10	14	1.26
890360--890411	20	2.7	18	77	16	50	76	3	7	11	1.12
897051--897087	2	19.5	2	83	10	51	48	0	0	51	1.00
906205--906252	16	3.0	16	96	0	87	52	6	16	25	1.67
910902--910949	17	2.9	17	77	20	57	52	0	0	47	1.00
910908--910949	16	2.6	16	78	10	50	52	0	0	47	1.00
910906--910979	32	2.4	30	84	10	89	47	1	2	48	1.24
929747--929899	19	8.4	19	76	15	119	75	0	19	5	0.99
929741--929886	26	5.5	25	76	18	127	74	0	19	5	1.01
929739--929903	6	26.3	6	82	12	156	75	0	19	4	0.97
929766--929885	33	3.8	30	79	14	68	75	0	19	5	1.01
929739--929912	31	5.6	29	79	13	143	75	0	18	5	1.00
929739--929903	25	6.6	24	76	14	111	75	0	19	4	0.97
931599--931672	23	3.2	23	81	7	87	43	41	10	4	1.58
936278--936333	12	4.5	12	80	14	51	41	1	1	55	1.21
939065--939093	13	2.2	13	100	0	58	55	0	0	44	0.99
950747--950930	41	4.4	42	71	8	133	32	21	17	28	1.96
950821--950903	42	2.0	42	82	2	103	31	20	18	30	1.96
950831--950930	42	2.4	41	81	1	110	30	22	19	29	1.97
950639--951009	128	2.9	129	78	8	316	34	20	16	28	1.94
951727--951760	17	1.9	18	94	5	61	73	2	17	5	1.16
951724--951794	24	3.3	22	75	17	53	77	2	14	5	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951744--951794	24	2.2	23	83	13	61	78	1	13	5	1.02
951744--951812	21	3.2	22	76	12	63	73	1	17	7	1.12
953453--953480	13	2.2	13	100	0	56	78	0	0	21	0.75
954727--954752	13	2.0	13	100	0	52	69	7	7	15	1.35
956066--956118	25	2.1	25	85	0	70	13	5	37	43	1.67
956159--956198	3	13.7	3	84	5	55	67	0	2	30	1.04
957883--958038	80	1.9	82	89	5	246	30	16	14	38	1.88
957732--958038	121	2.5	122	82	6	352	30	17	15	36	1.91
957732--958049	41	7.8	41	77	6	234	31	18	15	35	1.91
958044--958161	42	2.8	42	80	2	121	27	11	17	43	1.83
958544--958582	18	2.2	18	85	0	51	12	17	12	56	1.67
959461--959847	194	2.0	194	95	2	706	28	12	21	37	1.90
960830--960878	24	2.1	24	88	3	73	32	22	20	24	1.98
961077--961151	37	2.1	36	84	2	96	54	12	8	25	1.64
961239--961334	33	3.0	32	80	8	97	43	14	14	27	1.84
967656--967688	15	2.3	15	89	5	50	33	6	27	33	1.81
967795--967854	23	2.7	23	82	14	65	26	20	23	30	1.98
967795--967867	21	3.3	22	81	16	64	27	17	23	31	1.97
971280--971329	24	2.1	24	92	0	82	56	6	14	24	1.60
973038--973607	32	16.1	32	68	19	176	33	15	12	38	1.85
973104--973432	74	4.5	73	78	6	297	33	16	12	37	1.86
973003--973637	36	17.7	36	73	10	333	34	16	11	37	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973243--973353	38	3.1	35	70	13	107	30	15	14	39	1.87
973374--973611	68	3.4	69	84	10	313	33	16	10	39	1.83
973700--973832	59	2.3	59	86	1	178	31	25	11	31	1.91
973735--973863	59	2.2	59	84	2	161	31	27	12	28	1.93
973803--974010	92	2.2	93	83	4	258	33	25	14	26	1.94
973848--974051	93	2.2	92	81	2	239	32	23	15	28	1.95
979836--980151	82	3.9	81	80	6	338	33	18	17	31	1.94
979836--980144	163	1.9	161	84	4	415	33	18	17	31	1.94
983083--983124	3	14.0	3	94	0	66	0	61	0	38	0.96
983110--983170	3	20.7	3	84	3	61	1	42	0	55	1.09
983597--983648	3	17.3	3	100	0	104	0	32	0	67	0.91
983653--983900	124	2.0	124	97	0	469	27	12	18	41	1.86
983777--984236	152	3.0	151	87	3	589	20	17	14	47	1.83
984058--984133	3	24.7	3	94	5	134	0	32	0	67	0.91
991838--991872	17	2.1	17	100	0	70	40	17	11	31	1.85
998151--998219	23	3.0	23	80	0	93	21	24	23	30	1.99
1000999--1001024	2	13.0	2	100	0	52	50	0	0	50	1.00
1001879--1002659	391	2.0	391	95	1	1413	40	9	13	36	1.77
1003673--1003726	24	2.2	24	83	0	63	55	0	3	40	1.17
1005282--1005311	14	2.1	15	93	6	53	13	13	16	56	1.67
1010209--1010261	28	1.9	28	84	3	72	60	7	3	28	1.41
1010811--1010856	3	15.0	3	82	13	58	36	2	0	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010812--1010856	10	4.5	10	86	8	65	37	2	0	60	1.09
1025550--1025820	141	1.9	141	85	4	377	27	28	18	25	1.98
1026053--1026098	3	15.0	3	82	13	58	36	2	0	60	1.09
1026054--1026098	10	4.5	10	86	8	65	37	2	0	60	1.09
1036783--1037062	49	5.7	49	83	2	346	34	13	23	28	1.93
1036783--1037064	99	2.9	98	88	2	422	34	14	23	28	1.93
1037047--1037582	46	11.7	46	85	1	637	41	14	19	24	1.89
1042756--1042978	49	4.6	49	74	3	182	34	14	21	29	1.93
1042798--1042977	96	1.9	98	84	4	249	34	15	20	29	1.94
1042973--1043346	46	8.1	46	85	1	444	40	11	21	26	1.87
1047491--1047740	49	5.1	49	80	1	288	33	15	21	29	1.94
1047474--1047740	98	2.7	97	91	2	412	34	15	20	29	1.94
1047747--1048265	46	11.3	46	89	1	763	41	13	21	23	1.88
1055331--1055438	41	2.7	40	78	17	107	30	19	21	28	1.97
1055366--1055475	41	2.7	42	86	8	138	30	20	19	30	1.97
1055525--1055839	41	7.7	41	81	2	371	30	20	15	33	1.94
1055525--1055805	125	2.3	124	82	1	350	30	19	16	33	1.94
1055485--1055823	166	2.0	165	92	0	561	30	19	16	33	1.94
1058937--1059202	43	6.2	43	83	5	288	20	21	21	35	1.96
1058937--1059202	85	3.1	85	82	6	322	20	21	21	35	1.96
1058937--1059202	128	2.1	129	82	4	315	20	21	21	35	1.96
1059132--1059278	74	2.0	73	81	6	172	22	19	19	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059618--1059684	34	2.0	34	81	0	80	37	10	8	43	1.71
1060575--1060650	31	2.5	31	86	0	98	36	13	13	36	1.83
1062975--1063019	18	2.8	15	78	18	54	33	0	2	64	1.06
1062975--1063040	35	1.9	33	84	6	87	31	0	4	63	1.14
1072511--1072772	82	3.2	82	79	7	225	30	12	21	34	1.91
1072613--1072780	81	2.1	82	85	3	223	30	11	22	35	1.90
1072727--1072831	40	2.6	39	80	7	104	26	16	23	33	1.96
1074089--1074140	13	4.0	13	92	0	86	25	23	19	32	1.97
1076909--1077117	65	3.2	66	79	12	236	30	23	18	27	1.98
1085960--1086152	65	3.0	65	78	7	180	27	17	22	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18