genome.fa.s1840.2.7.7.80.10.50.1000.4.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: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2412736

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

This is table  4  of  12  ( 1360 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)
623061--623108	24	2.0	24	88	8	71	2	16	0	81	0.79
623134--623167	14	2.4	14	85	0	50	14	20	0	64	1.28
628428--628988	279	2.0	279	95	0	998	54	10	9	25	1.65
629371--629418	21	2.2	21	81	3	51	27	33	20	18	1.96
629879--629965	46	1.9	46	83	4	115	41	10	4	43	1.59
630596--631647	139	7.7	137	79	8	1051	34	20	19	25	1.96
630811--631583	399	1.9	397	89	2	1183	34	19	20	25	1.96
633410--633469	28	2.2	27	77	19	63	28	10	8	53	1.63
639802--639874	35	2.1	35	82	14	89	53	5	9	31	1.56
640426--640461	18	2.0	18	88	0	54	25	19	27	27	1.99
642140--642180	18	2.3	18	91	4	66	65	0	4	29	1.13
647262--647304	19	2.3	19	84	8	61	25	20	2	51	1.60
656700--656784	41	2.1	41	95	0	152	35	18	16	29	1.93
666599--666651	26	2.0	27	85	3	72	37	11	7	43	1.69
669994--670044	21	2.4	21	96	0	93	13	9	43	33	1.77
675486--675526	21	2.1	19	86	9	55	24	19	24	31	1.98
679567--679602	18	1.9	19	94	5	65	61	0	0	38	0.96
680627--680705	2	40.0	2	93	2	133	50	0	0	49	1.00
684731--684790	27	2.2	27	87	0	84	20	16	18	45	1.86
684742--684798	27	2.1	27	83	0	69	28	14	14	43	1.83
688593--688707	35	3.3	35	92	3	187	45	20	5	29	1.72
688641--688701	21	3.2	21	65	29	64	42	21	4	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693202--693306	35	3.0	35	93	5	169	46	19	4	29	1.70
698519--698566	22	2.2	22	100	0	96	39	8	16	35	1.79
699194--699241	7	6.9	7	100	0	96	0	27	0	72	0.84
700088--700136	16	3.1	16	84	0	71	53	22	14	10	1.71
700323--700434	23	4.8	23	92	1	161	25	25	22	26	2.00
700348--700434	11	7.6	11	81	7	102	24	25	21	28	1.99
700949--701010	10	5.4	10	73	26	52	54	24	12	8	1.64
700956--701011	14	4.3	14	80	17	75	53	25	14	7	1.66
700949--701010	24	2.6	24	100	0	124	54	24	12	8	1.64
710182--710673	40	12.4	40	91	0	718	30	16	11	41	1.83
710240--710307	23	3.2	23	62	30	60	32	14	11	41	1.82
710479--710594	23	5.5	22	62	27	65	31	13	10	43	1.78
710183--710673	199	2.5	199	91	0	784	30	16	11	41	1.83
710183--710735	40	13.9	39	89	2	586	30	16	11	41	1.84
710675--710844	36	4.7	35	76	9	137	29	19	13	37	1.90
710627--710844	39	6.0	36	81	6	169	29	19	13	37	1.90
710857--711054	37	5.4	36	67	4	119	27	19	13	39	1.89
710880--711054	73	2.4	73	87	0	242	27	20	13	38	1.90
714211--714322	17	6.5	17	76	19	81	70	1	5	22	1.17
714195--714306	52	2.2	52	95	0	197	71	2	8	17	1.22
714276--714349	32	2.3	30	78	17	78	66	1	2	29	1.14
714775--714817	17	2.5	17	88	0	59	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
715522--715846	85	3.8	83	79	9	325	27	18	19	35	1.95
715912--716145	124	1.9	124	83	3	301	26	14	24	34	1.93
716787--716864	32	2.4	32	78	0	75	33	24	12	29	1.92
719302--719348	23	2.0	23	100	0	94	34	8	23	34	1.85
719304--719356	23	2.3	23	93	0	88	41	7	18	32	1.79
720909--720941	18	1.9	17	88	11	50	24	12	15	48	1.78
721291--721351	18	3.4	17	80	8	68	70	0	4	24	1.07
721295--721390	36	2.7	36	78	13	101	67	0	5	27	1.11
721258--721395	40	3.5	41	76	16	123	67	0	5	26	1.18
721297--721356	9	7.0	8	74	20	50	68	0	5	26	1.10
721297--721356	4	14.0	4	74	19	50	68	0	5	26	1.10
721250--721414	21	8.4	20	68	15	62	67	0	5	26	1.17
726284--726368	32	2.7	31	82	10	102	12	28	28	30	1.93
726816--727719	453	2.0	451	95	0	1628	33	16	18	30	1.94
727829--727882	21	2.6	21	94	5	92	20	25	33	20	1.97
727917--727959	21	2.1	21	91	4	70	16	27	39	16	1.90
731348--731411	21	3.1	20	82	6	74	14	23	42	20	1.88
733648--733749	37	2.8	37	84	0	132	42	14	13	29	1.84
734109--734151	18	2.5	17	85	7	61	25	4	2	67	1.22
738187--738723	183	2.9	183	93	0	914	27	20	20	30	1.98
739881--739994	36	3.2	34	73	9	86	26	16	13	43	1.84
739865--740061	72	2.7	75	81	9	219	27	17	13	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
740055--740204	39	3.6	39	70	18	122	28	22	13	35	1.92
740110--740426	106	3.1	103	90	5	491	30	20	12	36	1.89
740326--740401	36	2.1	36	90	0	116	22	19	15	42	1.89
740601--741231	105	6.0	105	90	2	923	34	26	17	21	1.96
741774--741875	37	2.8	37	84	0	132	42	14	13	29	1.84
742235--742274	18	2.3	18	83	8	57	25	5	2	67	1.23
747402--747973	108	5.1	107	67	15	368	37	14	15	32	1.87
747267--747967	225	3.1	225	89	2	1082	38	14	15	31	1.87
748388--748413	2	13.0	2	100	0	52	50	0	0	50	1.00
749686--750266	289	2.0	289	99	0	1153	36	21	9	32	1.86
750724--750778	21	2.6	21	94	0	92	29	16	10	43	1.82
751057--751438	179	2.1	180	89	1	581	32	14	13	39	1.84
751418--751460	21	2.0	22	90	4	70	41	6	13	37	1.72
751239--752104	198	4.4	199	82	8	992	32	13	13	40	1.84
751374--751742	179	2.1	178	92	0	621	32	12	14	40	1.84
750994--751939	378	2.5	375	83	4	1127	32	14	13	39	1.84
753248--753307	17	3.4	17	77	8	75	31	31	16	20	1.95
753246--753326	17	4.5	18	72	10	67	28	29	19	22	1.98
753246--753326	36	2.2	36	95	0	144	28	29	19	22	1.98
754693--754751	30	1.9	31	83	10	77	35	23	8	32	1.85
755695--755761	30	2.2	29	78	5	71	35	17	5	40	1.75
756701--756811	16	7.4	15	71	18	79	12	9	0	76	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
756735--756803	13	5.4	13	79	11	56	11	7	0	81	0.88
756735--756791	18	3.0	19	78	14	55	12	5	0	82	0.82
756740--756803	34	1.9	32	87	12	94	10	7	0	81	0.88
762890--762918	2	14.5	2	100	0	58	51	0	0	48	1.00
763083--763126	13	3.4	13	87	0	70	31	18	20	29	1.96
763075--763126	26	2.0	26	88	0	77	34	17	21	26	1.95
763966--764028	30	2.1	30	84	0	81	33	17	9	39	1.82
764168--764251	21	4.1	21	69	4	55	40	22	10	26	1.86
764584--764643	18	3.5	18	74	19	65	41	13	1	43	1.54
766893--767004	42	2.7	42	94	0	188	17	16	18	47	1.83
767191--767227	14	2.6	14	95	4	65	43	0	0	56	0.99
767202--767289	28	3.1	28	79	14	90	50	1	0	48	1.08
767250--767337	23	3.5	25	75	14	83	45	0	1	53	1.07
767339--767385	21	2.3	20	81	3	58	55	2	2	40	1.24
767486--767538	20	2.9	19	78	16	58	52	0	3	43	1.19
767671--767710	14	2.9	14	88	0	53	37	17	15	30	1.90
767700--767739	20	2.0	20	85	0	53	35	17	7	40	1.78
767712--767785	31	2.5	30	91	4	114	32	18	5	43	1.73
767713--767785	15	4.9	15	73	5	67	32	19	4	43	1.70
774516--775042	194	2.7	193	86	3	673	31	15	12	40	1.85
795154--795304	45	3.3	45	85	6	198	24	26	11	37	1.90
795154--795540	90	4.3	90	80	5	361	24	21	9	44	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
795189--795529	136	2.5	135	84	3	362	23	21	10	44	1.82
795279--795540	45	5.8	45	85	2	355	24	18	8	48	1.76
795279--795534	136	1.9	136	92	0	433	23	18	8	48	1.76
795566--795877	81	3.8	81	90	0	489	28	21	12	37	1.89
795566--795875	163	1.9	162	91	0	503	28	20	12	38	1.89
795832--796354	68	7.7	68	89	1	748	31	24	13	30	1.94
795832--796354	269	1.9	270	89	1	816	31	24	13	30	1.94
796546--796784	57	4.2	57	90	0	352	38	17	9	35	1.81
798334--798366	17	1.9	17	88	11	50	33	18	18	30	1.94
802620--802654	17	1.9	17	88	11	52	2	37	0	60	1.12

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