genome.fa.s9583.2.7.7.80.10.50.1000.5.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: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1341443

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 696 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)
927204--928291	542	2.0	542	95	0	1960	30	15	17	37	1.90
930757--930855	10	10.3	9	77	12	81	16	27	27	29	1.97
930758--930855	19	5.1	19	78	14	78	15	27	27	29	1.96
930757--930855	29	3.4	28	84	5	117	16	27	27	29	1.97
930852--930894	22	2.0	22	100	0	86	18	48	23	9	1.76
933097--933130	9	3.8	9	96	0	59	14	35	17	32	1.91
934730--934898	81	2.1	78	79	5	187	31	9	15	42	1.80
935404--935428	13	1.9	13	100	0	50	20	0	8	72	1.10
935908--935941	18	1.9	18	94	5	61	35	0	2	61	1.11
936000--936039	21	1.9	21	100	0	80	27	0	15	57	1.38
936049--936161	44	2.7	42	83	12	146	39	0	11	48	1.39
936079--936202	44	2.6	48	85	9	150	39	0	12	48	1.40
936049--936231	80	2.3	80	80	9	185	40	0	11	48	1.39
936169--936231	30	2.0	32	87	6	94	39	0	11	49	1.38
937800--937852	26	2.2	24	83	10	63	41	3	3	50	1.38
938000--938041	21	2.0	21	86	4	59	45	9	4	40	1.58
938670--938732	28	2.2	30	94	5	112	57	12	0	30	1.36
938674--938739	28	2.4	28	87	10	107	56	12	0	31	1.36
938709--938757	21	2.3	21	85	3	71	53	16	0	30	1.43
939081--939154	36	2.1	36	97	0	139	35	21	35	8	1.83
939200--939264	29	2.3	29	83	2	87	15	21	43	20	1.88
939258--939350	41	2.3	41	83	3	116	22	35	26	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
939450--939681	118	2.0	118	92	1	385	36	12	19	31	1.89
948237--948346	53	2.1	53	94	0	193	43	14	8	33	1.75
950637--950697	30	2.0	30	90	0	95	54	8	3	34	1.47
957429--957454	2	13.0	2	100	0	52	50	0	0	50	1.00
969447--969669	58	3.9	58	78	10	239	31	8	18	40	1.81
969723--969828	41	2.6	41	80	3	115	25	21	21	31	1.98
969554--970376	293	2.8	291	86	3	1109	31	14	19	34	1.92
970504--970673	92	1.9	91	80	6	200	33	21	16	28	1.95
971920--971973	22	2.6	20	80	11	72	22	5	9	62	1.45
972084--972138	12	4.7	13	72	19	50	12	0	7	80	0.91
972080--972140	17	3.6	17	74	12	63	13	0	6	80	0.90
981007--981041	18	1.9	18	100	0	70	40	40	5	14	1.69
983963--984007	21	2.1	21	83	0	54	31	31	24	13	1.93
984941--985158	30	7.3	30	96	1	386	22	22	24	29	1.99
985428--985473	2	23.5	2	95	4	85	50	0	0	50	1.00
987426--987630	107	1.9	107	100	0	410	40	9	23	27	1.85
990453--990624	54	3.2	54	89	1	274	27	16	22	33	1.96
996678--996716	20	2.0	20	89	0	60	28	5	15	51	1.64
998461--998506	22	2.1	22	100	0	92	36	17	15	30	1.91
998587--998658	3	24.3	3	97	2	137	33	0	0	66	0.92
1004515--1004614	30	3.3	30	76	4	85	21	10	9	60	1.56
1004725--1004750	4	6.5	4	100	0	52	26	0	23	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1009558--1010164	4	151.5	4	87	0	755	43	22	6	27	1.76
1010486--1010570	36	2.3	37	83	6	100	40	18	8	32	1.81
1010481--1010588	38	2.9	37	81	6	119	36	19	9	35	1.84
1010952--1011004	28	2.0	27	85	7	72	32	15	9	43	1.78
1011101--1011257	65	2.4	63	80	10	156	21	21	15	41	1.90
1011315--1011544	43	5.5	42	71	11	150	25	33	17	23	1.96
1011313--1011549	83	2.9	81	82	3	285	26	33	17	22	1.96
1011843--1011880	3	13.0	3	94	5	69	34	0	0	65	0.93
1013328--1013403	30	2.5	30	91	0	116	21	10	3	64	1.41
1013328--1013415	30	2.9	30	87	0	104	19	10	7	62	1.51
1013555--1013584	4	7.5	4	92	0	51	26	0	20	53	1.46
1014414--1014700	6	47.8	6	99	0	529	16	14	33	35	1.90
1015958--1016177	95	2.3	95	80	9	232	35	16	21	26	1.94
1016109--1016239	61	2.1	61	94	0	226	35	13	25	24	1.93
1016608--1016740	34	3.6	34	71	20	122	36	11	22	29	1.89
1016554--1016795	79	3.1	79	91	1	389	37	11	23	27	1.89
1022890--1022941	22	2.5	22	90	6	81	34	15	21	28	1.94
1022819--1023035	95	2.3	94	84	7	262	35	15	23	26	1.94
1022984--1023035	20	2.5	20	84	6	68	32	15	26	25	1.95
1022857--1023036	94	1.9	95	86	5	258	33	13	24	28	1.94
1023436--1023599	79	2.1	79	88	0	238	37	10	23	28	1.88
1024888--1024919	16	2.0	16	93	0	55	37	15	12	34	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025421--1025466	17	2.8	18	78	15	55	41	0	4	54	1.20
1025503--1025563	28	2.2	28	84	0	77	39	4	3	52	1.39
1029326--1029752	180	2.4	175	78	9	443	38	11	8	40	1.73
1031702--1031765	20	3.2	20	71	4	65	17	20	23	39	1.92
1031702--1031894	41	4.8	40	81	5	176	18	19	22	39	1.92
1031702--1031878	82	2.2	82	86	2	239	17	20	22	39	1.92
1031843--1031901	19	3.0	20	72	7	66	20	20	23	35	1.96
1032462--1032517	6	9.5	6	98	1	105	0	16	51	32	1.44
1032597--1032782	41	4.5	41	97	0	345	37	24	22	15	1.93
1032645--1032807	21	7.9	21	66	19	92	37	25	20	16	1.93
1039912--1039942	15	2.1	15	100	0	62	19	12	25	41	1.87
1040695--1040758	21	3.0	21	81	4	65	23	35	25	15	1.94
1040697--1040778	21	3.8	21	74	17	62	23	37	24	14	1.92
1042714--1042756	17	2.7	16	82	10	52	16	0	25	58	1.38
1050544--1050601	22	2.7	22	78	5	57	75	1	10	12	1.11
1050566--1050621	10	5.3	10	81	12	58	83	0	7	8	0.80
1050565--1050621	22	2.6	22	83	10	73	84	0	7	8	0.79
1052126--1052252	39	3.3	39	68	14	120	31	18	14	34	1.92
1052083--1052538	73	6.2	72	84	4	504	29	21	12	35	1.91
1052083--1052488	36	11.1	36	63	10	133	30	20	13	35	1.91
1052083--1052538	145	3.1	144	84	6	535	29	21	12	35	1.91
1052957--1053315	91	3.9	91	91	0	529	38	15	20	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1053401--1053524	52	2.4	52	91	0	194	33	16	20	29	1.95
1054665--1054709	24	1.9	23	86	4	63	24	8	0	66	1.20
1054851--1054908	29	2.1	29	83	6	75	22	6	8	62	1.48
1054953--1054999	16	2.9	16	84	9	51	17	2	8	72	1.19
1059003--1059044	20	2.1	20	100	0	84	30	26	23	19	1.98
1061475--1061530	29	1.9	29	85	0	76	33	21	21	23	1.97
1067303--1067384	29	2.8	29	92	1	128	32	14	10	41	1.81
1068674--1068703	15	2.0	15	93	0	51	56	30	0	13	1.37
1072075--1072152	29	2.7	29	91	2	120	33	15	8	42	1.78
1077061--1077093	16	2.1	16	94	0	57	36	0	33	30	1.58
1085655--1085770	60	1.9	60	81	6	137	37	12	17	33	1.86
1099823--1099886	8	7.6	8	74	10	56	71	3	0	25	1.00
1099738--1099873	71	1.9	71	80	10	161	61	4	2	30	1.30
1099834--1099886	18	2.9	18	83	8	72	71	3	0	24	1.02
1108317--1108353	16	2.3	16	100	0	74	35	8	27	29	1.85
1110531--1110621	42	2.2	42	83	0	119	49	18	5	26	1.69
1113684--1113745	31	2.0	31	90	3	99	24	3	33	38	1.71
1118698--1119040	170	2.0	173	98	1	665	27	18	16	37	1.92
1122353--1122394	18	2.3	18	84	8	50	40	2	0	57	1.12
1123177--1123216	20	2.0	20	95	0	71	30	15	27	27	1.96
1127973--1128019	14	3.4	14	80	11	60	29	10	10	48	1.71
1128636--1128669	17	2.0	17	94	0	59	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1133602--1133634	16	2.1	16	100	0	66	18	12	33	36	1.88
1138884--1138921	3	13.0	3	94	5	69	65	0	0	34	0.93
1139239--1139286	20	2.4	20	86	6	62	56	10	6	27	1.57
1143159--1143186	8	3.5	8	100	0	56	78	0	21	0	0.75
1143121--1143201	30	2.7	29	81	9	74	74	6	11	8	1.23
1144129--1144183	19	2.8	19	91	2	83	45	1	7	45	1.41
1144230--1144270	20	2.1	20	90	4	66	46	0	7	46	1.30
1147847--1147890	22	2.0	22	100	0	88	40	22	9	27	1.84
1152268--1152350	20	4.1	20	79	4	96	20	36	25	18	1.95
1152272--1152350	40	2.0	41	85	7	108	20	35	25	18	1.95

Tables:   1   2   3   4   5   6