genome.fa.s7879.2.7.7.80.10.50.1000.4.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: VEPZ01007879.1 Hibiscus syriacus cultivar Beakdansim tig00110257_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1117421

Tables:   1   2   3   4   

This is table  4  of  4  ( 467 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)
850702--850833	42	3.2	41	90	3	194	25	5	17	52	1.65
851792--851817	4	6.5	4	100	0	52	76	0	23	0	0.78
853313--853352	2	20.0	2	94	0	71	47	0	2	50	1.14
859249--859281	16	2.1	16	100	0	66	57	24	12	6	1.57
859651--859702	24	2.1	26	89	7	81	53	17	13	15	1.72
868625--868654	6	5.0	6	95	0	51	30	33	16	20	1.94
871840--871886	24	2.0	24	87	8	69	48	6	0	44	1.28
871976--872057	14	5.6	14	69	16	51	54	1	0	43	1.07
872987--873131	64	2.3	63	83	11	179	29	16	26	27	1.97
873303--873336	12	2.8	12	95	0	59	38	8	11	41	1.73
883462--883506	23	2.0	23	90	0	72	24	26	26	22	2.00
883474--883790	151	2.1	149	94	2	546	34	20	17	28	1.95
885094--885138	21	2.1	21	87	0	63	15	24	28	31	1.96
888677--888985	151	2.1	149	96	1	564	34	20	16	28	1.94
890284--890328	21	2.1	21	87	0	63	15	24	28	31	1.96
894499--894555	2	29.0	2	96	3	107	50	0	0	49	1.00
898944--899008	27	2.3	28	89	5	96	58	9	15	16	1.62
898944--899010	28	2.4	29	87	7	102	58	10	14	16	1.63
919792--919949	21	7.8	20	72	7	86	38	25	17	18	1.92
919916--920104	20	9.5	20	81	5	195	35	25	19	19	1.95
920785--920831	24	2.0	24	87	8	69	25	14	21	38	1.92
921006--921030	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
923290--923438	33	4.5	33	88	5	219	44	19	21	14	1.85
923323--923416	14	5.4	19	69	25	91	46	19	20	13	1.83
923376--923430	14	3.6	14	73	21	56	45	20	23	10	1.82
923290--923438	67	2.2	67	90	3	230	44	19	21	14	1.85
923445--923560	53	2.2	53	96	1	216	14	23	18	43	1.86
923463--923560	19	5.4	19	82	13	134	15	21	17	45	1.84
923658--923703	14	3.4	14	84	3	58	47	21	0	30	1.51
925620--925734	19	6.6	19	75	18	106	46	23	20	10	1.81
925656--925712	14	3.7	14	77	20	60	45	22	21	10	1.82
925637--925729	33	2.8	33	95	0	168	47	21	20	10	1.80
925730--925858	19	7.3	19	75	17	125	8	17	28	45	1.77
925730--925821	33	2.8	33	93	3	150	7	18	28	45	1.76
925906--926188	93	3.1	93	99	0	559	45	19	12	21	1.83
927894--927983	14	5.7	14	72	23	72	43	23	24	8	1.82
927886--928000	33	3.5	33	97	0	221	46	20	23	9	1.80
927908--928005	19	5.7	19	71	22	90	43	22	23	10	1.83
928017--928073	14	3.7	14	75	20	60	8	24	22	43	1.81
928001--928081	33	2.5	33	95	0	144	8	22	22	46	1.78
928058--928133	21	3.7	21	83	3	109	11	25	17	46	1.82
928057--928134	41	1.9	41	97	0	147	12	25	16	44	1.83
928213--928283	33	2.2	33	92	0	115	47	16	22	12	1.80
928465--928519	22	2.5	22	81	0	74	20	16	40	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
928666--928859	20	9.6	20	82	5	221	19	19	25	35	1.95
928666--928859	60	3.2	60	83	0	253	19	19	25	35	1.95
928846--928928	21	4.0	21	73	6	78	26	15	24	33	1.95
928826--928924	42	2.4	43	77	11	100	22	17	23	37	1.94
937549--937599	24	2.1	24	92	7	86	49	11	0	39	1.40
937762--937834	37	2.0	37	86	0	101	20	17	16	45	1.86
937972--938070	47	2.1	47	90	7	157	21	23	4	51	1.64
939383--939409	2	13.5	2	100	0	54	51	0	0	48	1.00
953510--953572	31	2.0	31	100	0	126	34	15	19	30	1.93
953514--953584	31	2.3	31	92	0	115	38	15	16	29	1.90
954455--954495	2	20.5	2	89	0	64	48	4	0	46	1.23
964040--964110	28	2.5	28	100	0	142	32	26	2	38	1.71
966069--966145	4	19.2	4	83	0	100	46	28	3	20	1.68
967575--967655	40	2.0	40	100	0	162	14	48	19	17	1.82
967583--967648	22	3.2	22	64	24	61	12	48	19	19	1.80
968548--968572	13	1.9	13	100	0	50	36	0	8	56	1.29
968663--968948	133	2.1	131	87	5	362	26	11	4	58	1.52
968706--968947	133	1.8	133	93	1	421	26	11	4	57	1.52
969227--969265	20	1.9	21	89	5	62	23	7	0	69	1.14
969623--969667	19	2.4	19	85	14	58	46	0	0	53	1.00
969671--969697	2	13.5	2	100	0	54	48	0	0	51	1.00
975252--975285	15	2.3	15	89	0	50	8	17	64	8	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
980259--980306	17	2.6	19	87	9	64	45	0	2	52	1.12
980273--980325	17	3.2	17	79	12	58	52	0	0	47	1.00
980622--980682	29	2.0	31	84	12	83	32	8	8	50	1.62
983107--983157	2	25.5	2	100	0	102	49	0	0	50	1.00
983312--983346	6	5.8	6	100	0	70	51	0	0	48	1.00
985363--985388	13	2.0	13	100	0	52	30	15	23	30	1.95
986896--987003	49	2.2	50	84	3	137	30	17	12	38	1.88
987952--987996	24	1.9	23	86	13	65	24	28	0	46	1.53
988524--988567	22	2.0	22	95	0	79	9	36	11	43	1.72
988836--988944	49	2.2	49	83	3	137	36	16	17	29	1.92
990075--990101	10	2.7	10	100	0	54	29	22	7	40	1.81
1005588--1005627	17	2.4	17	95	0	71	25	17	22	35	1.95
1008415--1008549	61	2.2	61	89	1	209	30	17	3	48	1.65
1019532--1019556	2	12.5	2	100	0	50	48	0	0	52	1.00
1021118--1021220	51	2.0	51	88	0	152	26	15	30	28	1.96
1035539--1035569	12	2.6	12	100	0	62	51	0	0	48	1.00
1036016--1036041	2	13.0	2	100	0	52	50	0	0	50	1.00
1039884--1039942	30	2.0	30	96	0	109	15	15	35	33	1.89
1042647--1042815	84	2.0	84	97	0	320	40	15	11	31	1.84
1043957--1044025	35	1.9	37	85	5	97	47	0	0	52	1.00
1044604--1044659	30	2.0	30	86	10	82	44	1	3	50	1.29
1044876--1044980	43	2.4	45	81	9	119	45	3	1	48	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044874--1044942	20	3.3	20	68	18	50	46	2	1	49	1.25
1044876--1044977	42	2.4	43	83	1	116	45	3	1	49	1.32
1049175--1049212	2	19.0	2	100	0	76	50	0	0	50	1.00
1052442--1052487	21	2.3	19	85	7	56	67	4	4	23	1.27
1054048--1054082	11	3.2	11	87	0	52	40	2	0	57	1.14
1054041--1054082	22	1.9	22	90	0	66	40	2	0	57	1.12
1059021--1059047	2	13.5	2	100	0	54	48	0	0	51	1.00
1059580--1059619	20	2.1	19	85	4	53	45	2	0	52	1.14
1061697--1061721	2	12.5	2	100	0	50	52	0	0	48	1.00
1064054--1064093	15	2.6	16	88	4	55	47	27	15	10	1.77
1065835--1065861	2	13.5	2	100	0	54	48	0	0	51	1.00
1074080--1074154	29	2.6	29	86	0	123	37	16	9	37	1.80
1080920--1081164	120	2.0	120	96	1	447	30	8	9	51	1.64
1082682--1082724	18	2.4	19	88	7	63	18	9	4	67	1.36
1084240--1084293	19	2.9	19	72	10	58	5	11	27	55	1.57
1084242--1084295	18	2.9	19	74	17	60	5	11	29	53	1.59
1088682--1088738	5	12.6	5	87	7	54	17	0	3	78	0.88
1090909--1090976	18	3.8	18	98	0	127	51	16	2	29	1.59
1091382--1091429	18	2.6	19	77	9	55	20	10	0	68	1.18

Tables:   1   2   3   4

The End!