genome.fa.s9458.2.7.7.80.10.50.1000.4.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: VEPZ01009458.1 Hibiscus syriacus cultivar Beakdansim tig00113719_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1407308

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 671 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)
863507--863556	23	2.2	23	92	0	82	44	10	16	30	1.80
868123--868697	187	3.1	187	95	1	1030	29	18	12	39	1.87
873616--873667	23	2.3	23	96	0	95	21	25	15	38	1.92
876693--876825	61	2.2	60	80	6	153	33	15	14	36	1.88
877129--877206	31	2.5	31	87	6	104	37	5	10	47	1.60
877186--877220	17	2.1	17	89	10	54	31	11	5	51	1.61
879676--879720	19	2.5	19	80	16	51	57	2	0	40	1.11
881951--882024	27	2.8	27	88	8	100	43	2	0	54	1.14
882728--882760	2	16.5	2	100	0	66	48	0	0	51	1.00
884366--884479	57	2.0	57	94	0	201	41	12	3	42	1.59
884368--884465	30	3.4	30	71	13	96	40	10	3	45	1.53
884386--884505	57	2.1	57	80	6	127	44	15	4	35	1.66
892878--893182	152	2.0	152	100	0	610	39	13	15	32	1.85
893268--893323	15	3.7	15	86	11	78	42	0	0	57	0.99
893270--893334	28	2.3	28	86	7	87	44	0	0	55	0.99
893288--893334	10	4.8	10	76	12	53	44	0	0	55	0.99
893263--893323	3	20.0	3	80	9	70	40	0	0	59	0.98
895360--895419	3	19.3	3	80	16	61	28	1	0	70	0.97
895360--895419	13	4.8	12	78	17	61	28	1	0	70	0.97
895357--895421	19	3.5	19	78	18	66	27	1	0	70	0.96
895355--895419	26	2.5	26	80	12	80	27	1	0	70	0.96
896996--897038	14	3.1	14	82	0	59	27	16	2	53	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
902540--902880	114	3.0	114	92	0	556	33	15	19	31	1.93
905338--905392	22	2.5	22	84	0	74	36	12	14	36	1.84
905816--906273	116	4.0	116	98	0	868	37	11	20	30	1.88
905816--906349	232	2.3	229	92	6	888	37	11	20	29	1.89
906617--906687	15	4.6	15	84	10	90	40	0	0	59	0.98
906605--906687	31	2.8	30	79	15	93	38	0	0	61	0.96
906617--906687	3	23.0	3	80	11	81	40	0	0	59	0.98
907079--907115	19	1.9	19	89	10	58	59	10	24	5	1.52
913760--913789	15	2.1	14	93	6	51	16	0	6	76	0.99
914827--914868	19	2.3	18	87	4	57	16	0	0	83	0.65
918927--919988	165	6.4	165	89	2	1524	29	24	20	25	1.99
918927--919994	330	3.2	330	93	1	1739	29	24	20	25	1.99
921789--921818	15	2.1	14	93	6	51	16	0	6	76	0.99
922810--922989	60	3.0	60	78	10	158	33	18	5	42	1.73
923105--923256	60	2.5	60	83	6	182	40	3	23	32	1.71
923168--923290	60	2.0	60	80	6	133	45	3	21	30	1.67
929338--929369	2	16.0	2	100	0	64	50	0	0	50	1.00
938546--938591	18	2.7	16	81	15	56	54	6	0	39	1.26
938645--938686	19	2.3	19	91	4	68	61	0	0	38	0.96
940657--940702	24	2.0	23	91	8	76	63	13	8	15	1.52
940666--940715	24	2.1	24	88	0	73	60	14	12	14	1.60
941005--941056	10	4.8	10	73	17	50	55	21	13	9	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942078--942116	21	1.9	21	89	5	62	41	2	0	56	1.13
942827--942864	20	1.9	20	84	10	51	31	13	2	52	1.54
945223--945331	23	4.7	23	81	0	137	25	24	26	22	2.00
945223--945331	46	2.4	46	98	0	209	25	24	26	22	2.00
945343--945560	103	2.1	103	98	0	418	37	22	13	25	1.92
946995--947037	21	2.1	21	91	4	70	16	25	25	32	1.96
948052--948301	32	7.9	32	90	1	380	33	21	16	28	1.95
954230--954289	32	1.9	31	83	10	77	38	8	18	35	1.81
954462--954519	27	2.1	28	81	9	66	39	5	1	53	1.33
954739--954816	31	2.5	31	91	2	122	23	11	14	51	1.74
979287--979370	41	2.0	41	97	0	159	47	11	10	29	1.74
991036--991074	20	2.0	20	89	0	60	58	0	5	35	1.20
991171--991378	20	10.2	20	73	13	158	41	22	19	16	1.90
991247--991378	42	3.2	42	94	2	232	40	22	19	17	1.92
991171--991378	42	5.1	40	81	9	219	41	22	19	16	1.90
991415--991479	22	3.0	22	74	17	82	20	16	27	35	1.94
992380--992444	2	32.5	2	100	0	130	49	0	0	50	1.00
996460--996491	13	2.4	14	94	5	57	46	0	0	53	1.00
1000873--1000912	8	5.1	8	84	3	55	27	0	0	72	0.85
1001169--1001204	16	2.3	16	90	4	56	63	8	0	27	1.23
1001214--1001290	15	5.3	13	79	17	57	67	2	2	27	1.17
1001214--1001300	43	2.1	41	91	6	140	68	2	2	26	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001202--1001300	40	2.4	41	84	11	141	67	2	3	27	1.16
1001923--1001997	19	3.8	19	81	11	98	22	41	17	18	1.90
1001923--1002008	21	4.3	20	79	10	95	22	40	18	18	1.91
1001980--1002029	26	2.0	25	96	4	91	16	46	18	20	1.85
1001982--1002039	26	2.2	25	84	6	71	20	46	15	17	1.84
1002062--1002139	28	2.8	28	82	3	104	12	24	33	29	1.92
1007100--1007141	20	2.1	21	82	8	52	52	2	14	30	1.54
1018788--1023328	4	1151.2	4	88	4	6171	45	24	4	25	1.71
1018795--1018835	2	20.5	2	84	0	55	51	41	0	7	1.30
1018791--1018835	14	3.1	14	93	6	72	51	40	0	8	1.33
1022167--1022204	6	6.2	6	87	6	58	50	18	0	31	1.47
1025220--1025366	60	2.5	60	81	2	170	33	17	17	31	1.94
1029285--1029309	10	2.5	10	100	0	50	60	0	0	40	0.97
1036070--1036105	19	1.9	19	88	5	56	41	0	0	58	0.98
1036375--1036418	19	2.3	19	80	7	54	56	0	0	43	0.99
1038376--1038626	20	12.9	20	79	6	264	32	21	18	27	1.97
1038438--1038675	20	12.2	20	75	12	102	31	22	20	26	1.98
1038665--1038722	20	2.9	20	84	0	80	12	17	25	44	1.83
1038821--1038882	14	4.3	14	77	6	61	46	14	0	38	1.45
1040301--1040391	42	2.2	42	80	4	103	23	16	38	21	1.93
1040879--1040987	20	5.4	20	95	2	184	38	25	15	20	1.92
1041030--1041075	20	2.3	20	96	0	83	13	19	26	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041623--1041658	15	2.3	16	95	4	65	5	16	47	30	1.70
1042974--1043079	19	5.4	20	82	4	101	45	23	16	15	1.84
1043659--1043757	20	4.9	20	91	0	162	25	22	27	25	2.00
1043659--1043796	20	6.9	20	84	3	143	25	22	23	28	1.99
1043659--1043796	60	2.3	60	81	2	161	25	22	23	28	1.99
1059645--1059685	21	2.0	21	85	0	55	43	14	7	34	1.73
1061658--1061748	29	3.1	29	95	0	155	16	30	34	18	1.93
1062354--1062397	21	2.1	21	91	0	70	29	0	15	54	1.42
1062374--1062436	28	2.2	30	91	5	103	31	0	11	57	1.34
1062939--1062983	21	2.2	21	84	4	56	35	0	8	55	1.31
1063244--1063302	26	2.3	25	75	18	66	49	8	1	40	1.43
1066186--1066488	26	12.2	26	78	13	264	42	2	10	44	1.51
1066241--1066477	72	3.6	71	66	26	201	42	2	10	44	1.50
1066131--1066524	124	3.2	124	93	2	652	42	2	9	45	1.49
1066470--1066556	38	2.4	37	81	9	99	41	2	4	51	1.35
1066189--1066540	14	26.1	14	70	18	119	42	2	9	45	1.49
1066493--1066566	38	1.9	38	83	5	96	45	4	5	44	1.45
1066748--1066780	17	1.9	17	93	0	57	36	6	12	45	1.66
1066694--1066773	24	3.3	23	71	21	67	38	3	8	48	1.52
1068920--1068950	15	2.1	14	94	5	53	54	6	0	38	1.26
1068980--1069062	34	2.5	34	84	11	102	48	12	0	39	1.40
1069103--1069194	46	2.0	48	87	8	136	46	11	0	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069103--1069207	47	2.2	48	85	10	135	47	12	0	40	1.41
1069175--1069263	41	2.2	40	78	8	90	46	10	1	42	1.45
1069573--1069755	92	2.0	90	96	2	339	22	20	40	15	1.91
1069742--1069826	29	2.9	29	94	0	143	22	31	31	14	1.93
1069919--1069965	21	2.2	21	100	0	94	14	29	25	29	1.95
1069969--1070025	29	2.0	29	96	0	105	19	28	28	24	1.98
1073255--1073288	14	2.4	14	90	0	50	41	17	11	29	1.85
1075407--1075500	31	3.0	30	74	10	82	23	12	27	36	1.91
1075407--1075502	32	3.0	31	73	11	88	22	12	28	36	1.91
1076095--1076147	18	2.9	18	72	11	54	43	5	0	50	1.25

Tables:   1   2   3   4   5   6