genome.fa.s9592.2.7.7.80.10.50.1000.5.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  5  of  39  ( 4673 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)
887116--887148	2	16.5	2	100	0	66	51	0	48	0	1.00
893260--893322	19	3.1	19	73	17	56	15	30	30	23	1.96
899401--899458	21	2.8	20	79	5	71	15	27	34	22	1.94
901154--901361	115	1.8	116	82	3	276	23	15	17	43	1.87
907869--908269	184	2.2	183	77	8	409	25	7	23	43	1.80
911499--912277	210	3.7	210	95	1	1303	21	19	22	36	1.95
913549--913677	60	2.2	60	84	0	168	35	18	3	42	1.66
913750--913916	60	2.8	60	81	5	185	41	2	21	34	1.68
914371--914471	30	3.4	29	78	10	105	29	13	26	29	1.94
919363--919459	43	2.3	43	94	0	176	23	17	32	25	1.96
919222--919599	181	2.1	181	90	3	584	25	18	29	26	1.98
919403--919663	138	1.9	138	86	0	378	27	17	28	26	1.97
919664--919804	68	2.1	67	91	1	228	36	11	17	34	1.86
921403--921450	13	3.6	13	80	5	60	2	16	6	75	1.11
921397--921450	27	2.0	26	89	3	81	1	14	5	77	1.03
922776--922821	12	3.5	13	85	11	51	52	8	21	17	1.71
922788--922821	12	2.8	12	95	0	59	50	8	23	17	1.74
932164--932219	21	2.7	21	100	0	112	19	23	42	14	1.88
936036--936062	3	9.0	3	100	0	54	66	0	0	33	0.92
949877--950195	159	2.0	160	93	1	552	30	16	14	38	1.88
954689--954735	23	2.0	25	83	8	62	59	6	4	29	1.41
954902--954945	21	2.1	21	86	0	61	15	38	15	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954899--954951	27	2.0	27	88	0	79	15	37	16	30	1.90
954915--954948	15	2.3	15	89	0	50	11	35	20	32	1.89
955281--955331	18	2.8	18	82	5	59	25	15	25	33	1.95
956792--957013	111	2.0	111	93	0	381	45	10	7	36	1.67
957294--957402	49	2.2	49	81	4	121	23	29	32	14	1.94
959993--960037	21	2.0	22	83	8	56	55	6	4	33	1.46
960096--960325	10	24.4	9	67	18	55	73	3	4	18	1.14
960093--960188	14	6.5	14	71	19	54	77	4	3	15	1.06
960141--960379	27	9.0	25	67	19	101	73	2	5	19	1.14
960087--960175	39	2.4	37	78	12	92	76	4	4	14	1.10
960111--960191	19	4.3	19	73	14	69	79	2	3	14	0.98
960210--960274	18	3.5	18	74	14	60	78	4	6	10	1.07
960130--960300	29	6.3	26	71	17	86	76	2	5	16	1.08
960259--960322	22	3.0	20	82	13	67	68	0	1	29	0.99
960364--960414	22	2.3	23	79	6	59	60	1	19	17	1.45
962077--962507	170	2.5	171	81	4	485	28	21	17	33	1.96
962454--962670	83	2.6	81	83	8	251	25	18	19	36	1.95
964186--964387	99	2.0	99	90	0	314	31	18	16	33	1.93
968569--968628	18	3.1	19	77	11	68	31	13	8	46	1.72
968839--968910	20	3.8	20	71	17	73	27	29	18	25	1.98
968840--968909	36	1.9	36	94	0	122	27	28	18	25	1.98
971174--971216	12	3.5	12	87	3	50	72	2	2	23	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
971230--971279	17	2.9	17	77	11	57	82	2	4	12	0.90
971229--971301	5	14.8	5	72	17	55	79	1	5	13	0.97
971229--971312	43	2.0	43	81	9	100	78	1	7	13	1.01
971343--971377	11	3.2	11	95	0	61	80	0	17	2	0.84
971343--971393	16	3.2	16	73	18	52	78	0	17	3	0.90
971444--971499	25	2.3	23	82	11	67	73	5	7	14	1.23
975025--975135	58	1.9	59	85	8	158	29	22	8	39	1.83
975761--975808	19	2.5	19	100	0	96	18	20	18	41	1.90
975722--975851	60	2.1	61	87	7	183	19	17	21	41	1.90
975780--975888	43	2.6	41	87	5	173	20	16	22	41	1.90
975987--976021	12	2.9	12	86	0	52	37	37	25	0	1.57
976993--977087	41	2.3	41	90	5	147	37	23	17	21	1.94
976993--977067	21	3.6	21	71	10	82	40	22	17	20	1.92
976993--977087	21	4.6	19	72	14	73	37	23	17	21	1.94
977860--977892	16	2.1	16	94	0	57	57	0	0	42	0.98
982563--982606	22	2.0	22	82	8	54	43	9	0	47	1.35
987124--987472	147	2.4	144	81	11	369	42	17	15	24	1.88
987201--987472	147	1.9	144	85	8	379	41	18	14	25	1.88
990098--990148	22	2.3	22	89	3	75	39	19	19	21	1.93
990418--990474	2	28.5	2	100	0	114	49	0	0	50	1.00
997851--997896	23	1.9	25	82	8	60	69	6	0	23	1.11
998180--998210	11	2.8	11	100	0	62	64	9	0	25	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998514--998581	17	4.3	16	71	14	52	20	27	30	20	1.98
998514--998581	32	2.2	32	86	2	93	20	27	30	20	1.98
999945--999989	20	2.3	20	85	11	58	2	6	42	48	1.41
1000286--1000404	41	2.9	41	79	2	114	33	14	15	36	1.87
1003650--1004145	203	2.4	203	86	0	679	26	19	17	36	1.94
1005827--1005950	64	1.9	64	82	9	155	36	20	16	25	1.94
1006522--1006592	18	3.8	18	74	7	70	21	19	30	28	1.97
1006706--1006730	13	1.9	13	100	0	50	44	0	0	56	0.99
1007705--1007767	31	2.0	31	93	0	108	34	17	28	19	1.94
1011951--1012278	163	2.0	164	99	0	649	39	12	18	29	1.88
1013504--1013576	18	3.9	18	75	7	74	23	20	28	27	1.99
1013566--1013699	67	2.0	67	100	0	268	28	19	25	26	1.99
1013896--1013925	6	5.0	6	95	0	51	36	0	0	63	0.95
1014467--1014492	8	3.2	8	100	0	52	0	11	0	88	0.52
1014468--1014513	13	3.5	13	77	11	58	2	17	0	80	0.81
1015844--1015892	19	2.7	17	84	9	53	26	20	28	24	1.99
1015864--1016008	64	2.2	65	84	6	179	26	20	24	28	1.99
1018554--1018633	24	3.5	24	73	20	82	31	21	23	23	1.98
1022449--1022490	21	2.1	19	83	16	50	40	11	2	45	1.54
1024410--1024554	64	2.3	63	83	10	170	26	19	25	28	1.99
1029083--1029145	23	2.8	23	83	13	87	23	9	23	42	1.83
1037495--1037524	7	4.3	7	91	0	51	66	0	13	20	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044791--1044956	90	1.8	90	94	0	296	35	9	7	48	1.63
1051543--1051720	90	2.0	90	95	0	320	37	11	6	44	1.67
1055529--1055749	121	1.8	121	99	0	433	43	5	11	39	1.63
1056474--1056546	29	2.5	29	82	4	76	47	17	1	32	1.56
1057119--1057257	32	4.3	32	82	7	147	27	24	31	16	1.96
1057145--1057267	64	1.9	64	84	0	165	28	22	31	17	1.96
1057304--1057384	30	2.6	30	78	3	99	18	28	22	30	1.97
1059678--1059712	18	1.9	18	94	0	61	42	0	2	54	1.15
1059694--1059746	21	2.5	22	82	11	67	41	1	0	56	1.10
1059991--1060048	29	2.0	29	86	6	82	31	17	6	44	1.75
1060065--1060191	58	2.2	59	81	9	161	35	5	22	37	1.77
1060362--1060553	60	3.2	59	79	9	219	38	24	17	19	1.93
1060357--1060628	140	1.9	140	91	1	447	39	23	16	20	1.92
1060357--1060628	20	13.6	20	76	11	197	39	23	16	20	1.92
1060616--1060685	19	3.7	19	77	11	72	35	22	11	30	1.90
1060659--1060705	18	2.5	19	82	6	60	29	23	14	31	1.95
1060841--1060877	16	2.4	16	86	8	51	29	5	0	64	1.15
1061237--1061329	41	2.3	40	81	1	105	22	11	22	43	1.86
1061236--1061328	20	4.6	20	76	7	80	21	12	22	43	1.87
1064267--1064353	30	2.9	30	92	0	147	42	22	25	9	1.83
1065229--1065291	33	1.9	33	90	0	99	42	3	9	44	1.52
1070009--1070038	3	9.7	3	92	7	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070305--1070574	139	2.0	136	85	2	360	24	15	28	31	1.96
1071442--1071493	20	2.6	20	90	0	86	28	25	21	25	1.99
1072457--1072501	23	2.0	23	86	4	65	46	0	20	33	1.51
1072828--1073257	214	2.0	215	99	0	844	31	21	17	28	1.96
1073872--1074362	140	3.5	139	86	3	652	26	15	28	30	1.96
1074836--1075151	167	1.9	169	81	9	387	40	12	16	30	1.85
1077484--1077553	15	4.7	15	77	12	81	2	18	1	77	0.97
1080482--1080535	26	2.1	26	82	3	65	51	5	3	38	1.43
1081240--1081323	20	4.2	20	100	0	168	40	19	20	20	1.92
1081310--1081415	20	5.3	20	91	2	169	28	26	20	24	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39