genome.fa.s6270.2.7.7.80.10.50.1000.3.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: VEPZ01006270.1 Hibiscus syriacus cultivar Beakdansim tig00014949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  949592

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 546 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)
555514--555630	21	5.6	21	92	0	180	29	27	19	23	1.98
555639--555824	21	8.9	21	80	9	175	24	20	23	31	1.98
555684--555824	62	2.3	61	83	10	178	23	21	21	32	1.98
555639--555831	104	1.9	103	83	6	255	24	21	22	31	1.98
555914--555956	6	7.5	6	92	7	72	32	51	16	0	1.45
556418--556458	6	6.8	6	97	0	55	0	17	58	24	1.38
556419--556463	6	7.5	6	94	0	54	2	15	55	26	1.52
556553--556717	21	7.9	21	75	10	115	33	21	19	24	1.97
556578--556693	41	2.8	41	79	8	119	34	22	18	24	1.96
556699--556760	20	3.1	19	75	20	72	22	22	19	35	1.96
556545--556765	104	2.1	103	77	8	234	30	20	19	28	1.97
556905--557033	21	6.2	21	80	7	147	31	24	20	24	1.98
556902--557021	41	2.9	41	81	8	127	33	22	20	23	1.97
557035--557103	20	3.4	20	74	18	79	24	18	18	37	1.94
557024--557165	41	3.4	41	84	6	155	24	21	21	33	1.97
556946--557165	21	10.6	21	76	13	77	26	22	20	29	1.99
559558--559583	13	2.0	13	100	0	52	23	0	7	69	1.14
561876--561938	23	2.7	23	87	5	90	33	20	19	26	1.96
562313--562408	24	4.0	23	83	5	120	37	19	15	27	1.92
562313--562408	47	2.0	48	85	2	131	37	19	15	27	1.92
561877--562786	470	1.9	470	95	0	1649	37	16	15	30	1.90
564680--564728	19	2.5	19	93	3	80	20	30	36	12	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564680--564726	10	4.8	10	81	5	51	21	31	34	12	1.91
568943--569394	224	2.0	226	91	1	728	26	31	8	32	1.87
572633--572679	14	3.4	14	85	5	60	38	0	23	38	1.55
575147--575180	11	3.2	11	91	4	52	79	0	0	20	0.73
575153--575243	18	5.3	18	66	19	52	73	3	4	18	1.14
575221--575294	16	4.8	16	68	25	52	66	2	1	29	1.14
575919--576019	37	2.7	37	87	3	141	28	14	14	41	1.86
576738--577165	106	4.0	106	92	1	691	23	17	23	35	1.95
576738--577165	211	2.0	212	91	1	698	23	17	23	35	1.95
579058--579108	16	3.2	17	81	8	54	0	17	7	74	1.05
579059--579117	22	2.5	25	81	10	70	0	16	8	74	1.05
579089--579125	10	3.5	11	89	10	60	0	13	8	78	0.96
581343--581416	21	3.5	21	88	3	114	24	22	16	36	1.94
581314--581539	41	5.5	41	71	11	142	30	20	17	31	1.96
581403--581613	61	3.4	61	73	12	182	36	18	19	25	1.95
581406--581613	20	10.2	20	73	10	136	36	18	20	25	1.95
581613--581683	21	3.4	21	70	18	76	15	21	26	36	1.93
581607--581713	41	2.6	41	95	0	133	18	21	23	36	1.95
581634--581700	20	3.3	20	69	19	66	11	23	23	40	1.88
582428--582547	41	3.0	41	90	3	190	40	25	20	15	1.90
582519--582571	22	2.5	22	90	6	83	41	24	26	7	1.81
583829--583891	30	2.1	30	81	0	72	66	1	11	20	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584000--584038	18	2.1	18	85	4	51	74	0	5	20	1.01
584110--584146	2	18.5	2	100	0	74	51	0	0	48	1.00
584731--584829	37	2.7	37	80	1	137	30	10	18	41	1.83
586226--586653	55	7.8	54	90	3	610	37	10	16	35	1.84
587388--587434	17	2.8	17	100	0	94	25	23	17	34	1.96
595042--595081	21	2.0	20	85	5	53	15	22	15	47	1.82
595518--595714	109	1.8	108	83	5	263	27	13	20	38	1.90
596595--596677	18	4.8	17	73	16	64	78	4	15	1	0.98
596629--596678	9	5.7	9	77	11	50	84	2	14	0	0.72
596629--596678	22	2.3	22	93	6	84	84	2	14	0	0.72
596631--596679	13	3.8	12	79	15	53	83	2	14	0	0.73
597271--597320	25	2.0	25	100	0	100	40	8	20	32	1.81
597696--598044	81	4.4	81	87	4	476	38	12	21	26	1.90
598026--598182	45	3.5	45	89	4	237	38	15	22	23	1.92
598026--598190	89	1.8	90	88	3	253	40	14	21	23	1.90
601163--601400	81	3.0	81	86	1	327	40	11	20	27	1.86
601409--601756	44	7.8	44	87	3	459	39	14	22	24	1.91
601402--601756	89	4.0	89	83	5	475	39	14	22	24	1.91
604796--604924	36	3.7	36	70	16	119	25	18	16	39	1.91
604787--604912	66	1.9	66	95	0	225	25	17	17	39	1.91
604835--605002	88	1.9	88	90	0	264	30	19	13	36	1.90
604999--605335	137	2.5	137	85	3	464	31	29	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607770--607801	16	1.9	17	93	6	57	43	12	0	43	1.42
609282--609370	31	2.8	32	81	8	94	26	26	23	22	2.00
609264--609399	32	4.3	32	76	10	118	27	27	25	19	1.99
611702--611740	18	2.2	18	90	0	60	30	25	20	23	1.98
614846--614907	26	2.4	26	89	5	90	40	14	14	30	1.86
619046--619091	25	1.9	23	86	8	65	54	0	6	39	1.26
620401--620510	3	37.0	3	92	5	188	65	0	0	34	0.93
623272--623318	20	2.3	21	77	3	51	23	23	12	40	1.89
624804--624948	39	3.8	39	72	14	122	35	16	11	35	1.85
624817--624976	77	2.1	78	85	5	218	35	15	11	38	1.84
624853--624967	39	3.0	39	70	14	94	35	13	12	38	1.83
626464--626509	22	2.1	22	95	0	83	39	10	8	41	1.71
627779--627811	16	2.1	16	94	0	57	21	30	12	36	1.90
629047--629098	3	16.7	3	88	7	77	65	0	0	34	0.93
630112--630178	3	21.0	3	77	17	64	68	1	1	28	1.07
630097--630177	10	7.5	10	79	17	83	69	1	3	25	1.13
630105--630178	23	3.3	23	90	1	114	68	1	2	27	1.10
630186--630281	41	2.4	38	76	19	95	46	7	1	44	1.38
630242--630323	31	2.5	32	92	7	130	46	6	2	45	1.41
630242--630335	34	2.9	31	82	13	109	46	5	4	43	1.45
630308--630537	36	6.1	36	78	15	211	43	7	3	44	1.51
630272--630537	72	3.6	72	75	13	233	44	7	3	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631123--631943	84	10.0	82	75	7	625	25	19	24	30	1.98
631088--631901	248	3.3	247	82	4	679	24	19	24	30	1.98
631123--631710	164	3.6	164	86	2	761	25	20	24	30	1.99
631235--631943	241	2.9	241	82	5	723	24	19	24	31	1.98
636105--636142	2	19.5	2	94	5	69	50	0	0	50	1.00
636106--636139	17	2.0	17	100	0	68	47	0	0	52	1.00
636172--636215	18	2.5	17	78	10	52	75	0	2	22	0.92
636208--636271	33	1.9	34	90	3	103	62	0	7	29	1.23
636257--636282	3	8.7	3	100	0	52	65	0	0	34	0.93
636204--636287	33	2.5	32	80	14	98	61	0	5	32	1.20
636280--636306	2	13.5	2	100	0	54	51	0	0	48	1.00
637334--637377	3	13.7	3	81	13	52	70	2	0	27	0.99
637319--637386	10	6.3	11	83	13	79	69	1	2	26	1.12
637337--637381	23	2.0	23	100	0	90	71	2	0	26	0.98
637389--637494	44	2.5	40	77	16	124	44	6	2	46	1.44
637506--637650	35	3.9	36	76	17	147	46	4	3	45	1.41
638101--638131	16	1.9	16	93	0	53	35	6	29	29	1.82
638497--638572	31	2.5	31	93	0	134	36	35	13	14	1.85
647159--647208	24	2.1	24	81	3	57	12	28	16	44	1.83
647519--647579	29	2.1	30	81	3	70	42	8	14	34	1.76
648789--648930	39	3.7	39	78	8	130	18	25	22	33	1.96
648789--648941	38	4.0	39	76	9	136	18	24	22	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657885--657919	13	2.7	13	90	0	52	37	20	8	34	1.83
659568--659593	2	13.0	2	100	0	52	50	0	0	50	1.00
667252--667646	55	7.2	55	89	1	596	35	12	18	33	1.89
667256--667623	164	2.2	165	91	0	594	33	12	19	33	1.89
667504--667596	28	3.4	28	63	8	73	37	9	18	34	1.83
667252--667722	110	4.3	110	88	3	414	35	11	19	33	1.88
671269--671758	245	2.0	245	96	3	916	28	22	17	31	1.97
674173--674221	23	2.1	23	85	7	64	57	14	2	26	1.48
679268--679315	24	2.0	24	95	0	87	25	18	12	43	1.85
683750--683774	11	2.3	11	100	0	50	68	8	8	16	1.38

Tables:   1   2   3   4   5