genome.fa.s7746.2.7.7.80.10.50.1000.3.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

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

This is table  3  of  15  ( 1700 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)
809396--809438	22	2.0	22	95	0	77	37	0	13	48	1.43
809450--809494	22	2.1	22	95	4	83	33	0	13	53	1.40
809517--809575	31	1.9	31	89	0	91	42	8	6	42	1.61
811865--811911	13	3.5	13	88	2	67	72	0	17	10	1.12
814015--814632	102	6.1	100	86	3	688	30	18	11	39	1.86
815300--815339	15	2.6	14	85	14	53	77	0	15	7	0.98
815300--815382	7	11.0	7	69	19	51	75	0	14	9	1.03
815303--815340	16	2.4	16	91	8	60	78	0	13	7	0.94
815304--815360	21	2.6	21	86	5	69	77	0	12	10	1.00
815319--815373	28	1.9	29	85	3	76	74	0	12	12	1.07
815302--815387	45	1.9	45	83	4	111	74	0	13	11	1.07
815964--816002	18	2.1	18	85	4	51	35	25	2	35	1.70
826123--826177	25	2.2	25	93	0	92	38	10	18	32	1.85
826431--826462	13	2.4	14	94	5	57	37	0	0	62	0.95
826379--826682	160	1.9	160	100	0	608	34	12	17	35	1.87
826591--826622	13	2.4	14	94	5	57	37	0	0	62	0.95
827136--827208	15	4.7	15	80	14	85	75	0	2	21	0.93
827134--827207	10	7.9	9	74	16	62	75	0	2	21	0.92
827138--827212	8	9.2	8	72	23	52	74	0	2	22	0.94
827203--827251	20	2.3	21	76	16	57	71	0	12	16	1.14
827199--827245	19	2.4	20	89	10	71	70	0	12	17	1.17
827199--827245	18	2.4	21	82	13	64	70	0	12	17	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
830509--830556	11	4.4	11	78	0	51	4	10	2	83	0.87
841503--841567	26	2.5	26	80	12	62	63	13	13	9	1.53
844327--844356	13	2.4	13	94	5	53	43	0	30	26	1.55
853962--854011	5	10.2	5	86	4	75	76	0	4	20	0.95
854876--854930	22	2.5	21	85	8	83	14	18	38	29	1.90
857466--857591	42	3.0	42	79	6	148	39	16	16	26	1.90
863765--863809	22	2.1	21	83	4	54	26	6	4	62	1.39
865328--865406	40	2.0	40	89	0	122	53	10	17	18	1.72
865378--865444	31	2.2	31	88	0	98	47	7	25	19	1.75
869971--870094	23	5.3	23	80	1	122	18	25	21	34	1.96
878903--879189	45	6.4	45	89	1	423	22	20	16	40	1.91
878933--879054	26	5.2	26	62	28	76	22	19	14	42	1.88
889327--889391	13	5.0	13	80	0	67	30	15	24	29	1.96
889325--889391	26	2.6	26	80	0	80	29	16	23	29	1.96
889823--890040	60	3.7	59	87	1	276	29	25	15	29	1.96
891155--891645	139	3.6	139	86	5	651	36	16	21	25	1.94
891450--891513	17	3.3	19	67	20	51	40	12	23	23	1.88
891698--891806	42	2.6	42	98	0	209	30	22	19	27	1.98
894403--894489	23	3.8	23	90	6	124	35	26	20	17	1.95
904147--904198	25	2.1	24	82	10	61	76	5	1	15	1.05
905410--906122	91	7.9	90	90	1	1025	25	22	15	37	1.93
906602--906793	36	5.6	36	63	19	97	39	18	18	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906638--906815	31	5.4	31	67	17	117	38	16	18	25	1.92
906600--906916	134	2.3	136	83	5	403	39	15	17	27	1.90
906574--906851	67	4.2	67	91	2	400	41	16	18	24	1.90
906870--906966	36	2.7	36	79	6	115	40	17	14	27	1.89
907040--907125	34	2.4	34	81	12	102	43	12	17	26	1.85
906867--907172	166	1.8	166	80	8	370	39	15	17	27	1.90
907260--907475	90	2.4	90	88	0	324	36	19	17	27	1.94
909377--909411	18	1.9	19	88	11	56	2	22	0	74	0.95
909373--909422	10	5.1	10	75	22	52	2	22	0	76	0.89
909407--909449	21	2.0	21	90	4	68	2	9	4	83	0.87
909378--909445	11	6.3	11	75	13	61	2	16	1	79	0.93
909407--909462	24	2.3	26	84	9	73	1	8	8	80	0.98
910440--910481	19	2.2	19	95	0	75	16	23	9	50	1.75
919641--919715	28	2.7	29	69	24	70	22	2	8	66	1.31
920204--920532	130	2.6	130	79	7	329	31	7	17	43	1.77
922358--922401	13	3.4	13	90	0	70	34	20	13	31	1.92
922566--922592	2	13.5	2	100	0	54	48	0	0	51	1.00
927144--927223	42	1.9	42	97	0	151	25	16	23	35	1.95
929447--929473	2	13.5	2	100	0	54	51	0	0	48	1.00
930617--930660	22	2.0	22	86	0	61	34	36	4	25	1.76
934983--935063	29	2.8	27	80	12	74	67	4	8	18	1.35
937103--937129	13	2.1	13	100	0	54	48	0	7	44	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
937134--937180	2	23.5	2	100	0	94	51	0	0	48	1.00
938841--938899	29	2.0	29	86	0	82	35	3	38	22	1.71
939063--939320	117	2.3	111	83	9	301	24	19	16	39	1.92
939668--941711	39	52.7	39	90	1	2908	35	16	19	28	1.93
940580--940644	22	3.2	22	62	28	52	29	18	20	32	1.96
941716--941894	76	2.4	76	95	0	324	41	12	12	32	1.81
946737--946788	20	2.5	20	73	14	52	51	9	13	25	1.71
946544--947016	181	2.6	181	85	3	648	43	13	16	26	1.85
949242--949282	21	2.0	21	90	0	64	41	12	26	19	1.87
949319--949384	33	2.0	33	90	0	105	28	0	48	22	1.51
949571--949636	33	2.0	33	93	0	114	48	0	46	4	1.22
951136--951184	19	2.5	20	90	9	84	30	0	10	59	1.31
951419--951806	200	1.9	200	93	0	668	36	14	17	31	1.90
953298--953337	12	3.3	12	85	0	53	40	7	32	20	1.80
953298--953337	18	2.2	18	86	0	53	40	7	32	20	1.80
954624--954971	183	1.9	184	93	1	610	36	14	14	34	1.87
958094--958251	85	1.8	86	89	5	248	33	13	10	41	1.80
959785--959841	29	2.0	29	82	0	69	36	3	35	24	1.73
960327--960473	36	4.0	36	82	4	141	38	15	19	25	1.92
960330--960589	39	6.8	39	85	3	273	38	16	18	26	1.92
960330--960624	78	3.9	78	83	4	311	39	15	18	26	1.91
960624--962134	39	38.8	39	89	0	2123	35	15	19	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961491--961546	17	3.2	17	71	14	60	42	17	17	21	1.89
962137--962296	76	2.1	76	94	0	275	40	11	13	34	1.81
964255--964316	27	2.3	27	85	0	79	50	11	16	22	1.76
966573--966608	2	18.0	2	100	0	72	50	0	0	50	1.00
967144--967617	182	2.6	181	86	2	637	43	13	16	26	1.85
967538--967584	20	2.4	19	79	10	58	55	10	14	19	1.68
969724--969756	15	2.2	15	94	0	57	18	9	63	9	1.49
969839--969879	21	2.0	21	90	0	64	41	12	26	19	1.87
970181--970258	33	2.4	33	84	2	104	51	0	43	5	1.24
971814--971862	19	2.5	20	90	9	84	30	0	10	59	1.31
972097--972684	200	2.9	200	96	0	1095	36	14	18	30	1.91
974179--974242	6	10.7	6	84	0	56	39	4	31	25	1.76
974179--974242	12	5.3	12	86	0	65	39	4	31	25	1.76
974196--974246	3	17.0	3	84	8	68	37	1	31	29	1.69
978556--979396	181	4.6	182	94	1	1429	42	13	16	27	1.85
978556--979396	363	2.3	362	93	2	1427	42	13	16	27	1.85
979532--979694	87	1.9	87	98	0	317	33	14	11	41	1.80
979616--979660	23	2.0	23	86	0	63	37	15	8	37	1.79
982409--982436	14	2.0	14	100	0	56	28	28	0	42	1.56
984256--984300	19	2.3	20	75	21	51	62	13	0	24	1.31
984701--984740	21	1.9	21	89	0	62	10	25	40	25	1.86
992012--992075	29	2.2	29	83	8	85	39	14	26	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997803--997866	31	2.1	31	93	0	110	42	25	17	15	1.88
999560--999633	29	2.6	29	82	0	85	44	17	20	17	1.87
1001744--1001791	20	2.4	20	89	0	69	37	18	14	29	1.91
1002852--1002914	30	2.1	30	88	5	92	42	4	19	33	1.72
1003066--1003122	21	2.8	19	74	12	51	29	14	19	36	1.91
1003143--1003183	21	2.0	21	90	0	64	19	17	26	36	1.94
1005805--1005838	17	1.9	18	88	5	52	47	0	2	50	1.16
1005841--1005884	20	2.2	20	83	4	52	56	0	4	38	1.20
1006141--1006224	35	2.4	35	93	0	141	25	32	2	40	1.68
1009946--1010008	31	2.0	31	93	0	108	41	25	19	14	1.89

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