genome.fa.s8709.2.7.7.80.10.50.1000.5.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: VEPZ01008709.1 Hibiscus syriacus cultivar Beakdansim tig00111758_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030657

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

This is table  5  of  15  ( 1745 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)
970499--970620	9	13.2	9	68	19	56	18	7	1	72	1.17
970501--970687	24	7.8	24	64	23	65	17	9	1	71	1.20
970510--970614	15	7.0	15	66	22	51	17	8	1	72	1.19
971631--971660	14	2.1	14	93	0	51	13	16	0	70	1.18
975836--975863	14	2.0	14	100	0	56	28	14	7	50	1.69
978251--978288	20	1.9	20	88	0	58	13	26	39	21	1.89
982102--982150	20	2.4	21	83	10	57	36	12	2	48	1.52
984547--984590	23	1.9	23	85	0	61	29	15	15	38	1.89
988289--988414	47	2.8	45	82	7	139	42	7	19	30	1.80
988855--988901	21	2.2	21	88	0	76	23	25	17	34	1.96
988892--989002	20	5.6	20	83	1	134	38	22	16	22	1.92
988892--988983	40	2.3	40	92	0	148	39	22	17	20	1.93
989748--989781	12	2.8	12	90	0	50	55	29	0	14	1.40
989906--989959	24	2.2	24	90	0	81	22	18	18	40	1.91
992166--992201	18	2.0	18	94	0	63	55	25	2	16	1.55
992527--992580	20	2.7	20	91	0	90	22	20	22	35	1.96
992593--992670	20	3.9	20	89	0	120	19	21	16	42	1.89
992593--992670	40	2.0	40	94	0	138	19	21	16	42	1.89
993064--993100	18	2.1	18	89	0	56	32	5	10	51	1.60
993056--993108	24	2.2	24	86	0	70	35	3	13	47	1.61
993732--993871	61	2.2	62	83	7	167	50	17	2	30	1.58
995659--995779	63	1.9	63	80	6	138	33	35	12	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
997954--998038	20	4.2	20	86	3	118	20	15	23	41	1.90
997954--998038	40	2.1	40	91	0	134	20	15	23	41	1.90
998030--998075	21	2.2	21	96	0	83	32	17	26	23	1.97
998113--998155	19	2.2	20	80	16	54	30	16	25	27	1.97
1000852--1000937	11	7.4	11	79	16	93	83	1	13	1	0.76
1000848--1000939	32	2.9	32	79	10	109	82	1	14	2	0.82
1005045--1005156	47	2.5	46	85	5	140	41	8	16	33	1.78
1007095--1007185	33	2.7	34	77	6	105	35	26	16	21	1.95
1007032--1008117	249	4.4	248	91	1	1721	32	24	16	26	1.96
1007032--1008117	124	8.8	124	91	1	1712	32	24	16	26	1.96
1007445--1008007	58	9.2	59	63	21	174	32	24	16	27	1.96
1007032--1008117	373	2.9	373	93	1	1795	32	24	16	26	1.96
1007032--1008289	496	2.5	494	87	5	1648	32	24	16	26	1.96
1008581--1008637	2	30.0	2	82	10	75	45	0	3	50	1.18
1009809--1009872	29	2.4	27	80	19	73	25	3	1	70	1.11
1009835--1009891	23	2.5	22	83	11	62	21	3	0	75	0.95
1010194--1010385	11	17.3	11	69	20	64	20	7	1	70	1.17
1010201--1010296	13	6.5	14	77	20	74	21	5	0	72	1.03
1010201--1010465	4	63.5	4	67	24	99	21	6	1	71	1.15
1010192--1010428	15	16.9	14	71	18	99	20	6	0	72	1.12
1010194--1010307	26	4.7	25	74	19	91	21	6	0	72	1.05
1010212--1010453	53	4.6	53	70	18	134	21	6	1	71	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010367--1010424	6	10.2	6	77	7	50	20	3	0	75	0.94
1010325--1010406	41	2.0	41	83	11	105	21	8	0	69	1.15
1010391--1010453	31	2.0	31	82	11	76	22	4	1	71	1.13
1010244--1010474	17	13.1	17	68	23	97	20	6	1	71	1.16
1010455--1010518	28	2.3	28	86	10	87	10	12	3	73	1.21
1010891--1010932	21	2.0	21	86	4	59	30	26	14	28	1.95
1012119--1012157	17	2.3	17	86	0	51	35	0	2	61	1.10
1017850--1017918	3	23.0	3	91	5	113	33	0	1	65	1.02
1020122--1020152	16	1.9	16	93	0	53	58	0	3	38	1.15
1024905--1024947	12	3.4	13	81	12	54	51	25	2	20	1.60
1025360--1025547	104	1.8	105	86	6	276	30	16	11	41	1.84
1025653--1025711	31	1.9	31	96	3	111	32	13	11	42	1.81
1025776--1026010	64	3.6	65	76	11	221	33	11	12	42	1.78
1025981--1026043	33	1.9	33	90	6	101	30	17	11	41	1.84
1025973--1026187	29	7.2	29	86	6	198	31	11	13	42	1.81
1026014--1026182	87	1.9	88	84	3	225	28	8	15	46	1.75
1026560--1026942	134	2.9	134	88	1	552	25	32	17	24	1.97
1026842--1026962	43	3.0	40	70	12	111	25	33	16	24	1.96
1027122--1027165	3	15.0	3	90	4	72	31	2	0	65	1.05
1029556--1029873	160	2.0	159	82	7	387	39	6	17	36	1.76
1035829--1035863	17	2.1	17	94	0	61	54	25	8	11	1.64
1037956--1038238	136	2.1	136	89	1	433	25	14	18	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038669--1038696	2	14.0	2	100	0	56	50	0	0	50	1.00
1041583--1041624	21	2.0	22	85	4	59	57	0	9	33	1.31
1042518--1042561	23	1.9	23	85	0	61	18	27	25	29	1.98
1042675--1042743	24	3.0	23	78	4	75	18	23	26	31	1.97
1047492--1047762	137	2.0	136	91	2	445	25	14	18	41	1.88
1048205--1048242	2	19.0	2	100	0	76	50	0	0	50	1.00
1048570--1048710	70	2.0	70	85	0	192	35	22	23	18	1.96
1053662--1053695	18	2.0	17	88	11	52	50	11	0	38	1.39
1054299--1054446	21	7.0	21	71	3	116	35	23	16	25	1.95
1054276--1054379	23	4.7	23	73	11	74	34	25	19	21	1.96
1054276--1054425	44	3.5	44	76	9	128	35	22	17	24	1.95
1058107--1058152	21	2.2	20	84	3	56	13	17	26	43	1.85
1056781--1059270	847	2.9	843	90	2	3736	34	15	17	33	1.91
1059232--1059293	24	2.5	24	94	5	106	24	22	17	35	1.95
1061815--1061854	21	1.9	21	85	10	55	32	12	25	30	1.92
1062579--1062614	2	18.0	2	100	0	72	50	0	0	50	1.00
1063709--1063757	20	2.5	20	86	6	64	28	14	26	30	1.95
1067366--1067967	73	8.3	73	92	1	953	39	5	10	44	1.63
1067366--1067967	147	4.1	145	92	2	967	39	5	10	44	1.63
1067366--1067959	220	2.7	216	92	2	967	39	5	10	44	1.63
1072215--1072284	18	3.9	18	81	7	88	28	14	15	41	1.86
1086766--1087418	324	2.0	324	96	0	1216	30	16	20	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092360--1092394	15	2.3	15	95	0	61	17	2	0	80	0.84
1097629--1097672	18	2.4	18	88	0	70	27	11	13	47	1.77
1098257--1098294	16	2.4	16	95	0	67	13	13	26	47	1.79
1100604--1101258	81	8.1	81	88	1	927	37	10	21	31	1.87
1101321--1101367	2	23.5	2	100	0	94	48	0	0	51	1.00
1103714--1103769	20	2.9	19	75	19	62	66	1	8	23	1.30
1104095--1104150	26	2.2	26	83	6	69	64	1	3	30	1.21
1104116--1104166	11	4.5	11	73	22	52	62	0	3	33	1.13
1104110--1104169	29	2.1	28	84	6	77	65	0	3	31	1.09
1104118--1104169	23	2.2	23	83	10	61	63	0	3	32	1.12
1104179--1104243	23	2.8	24	79	13	64	67	3	1	27	1.14
1104643--1104727	37	2.3	37	83	0	98	32	9	14	43	1.77
1105768--1106328	106	5.3	106	88	3	729	23	18	24	34	1.96
1106267--1106371	43	2.4	43	95	0	183	20	20	24	35	1.96
1106161--1106436	149	1.9	149	94	0	489	22	18	24	34	1.96
1107842--1107895	11	5.3	10	78	8	56	0	11	5	83	0.80
1107832--1107892	32	1.9	31	87	9	88	0	13	6	80	0.90
1107850--1107900	27	1.9	26	84	11	68	0	11	7	80	0.90
1109040--1109068	8	3.8	8	90	9	51	58	13	13	13	1.63
1109037--1109075	15	2.5	15	83	4	51	53	12	20	12	1.71
1112412--1112466	19	2.9	19	74	15	60	67	1	9	21	1.28
1112573--1112610	10	3.7	10	86	6	58	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112573--1112607	12	3.0	12	87	8	54	71	0	0	28	0.86
1112578--1112621	21	2.1	21	86	0	61	65	0	4	29	1.12
1112548--1112633	19	4.3	20	72	12	63	65	0	4	30	1.13
1112749--1112774	13	2.0	13	100	0	52	69	0	7	23	1.14
1112795--1112843	21	2.2	21	82	10	53	61	0	4	34	1.15
1113327--1113422	37	2.6	37	89	0	138	32	10	14	42	1.80
1114477--1115050	81	7.1	81	86	0	783	35	10	21	32	1.88
1114477--1115054	242	2.4	242	89	1	854	35	10	21	32	1.88
1125716--1125778	18	3.5	18	80	4	65	31	11	12	44	1.78
1140971--1141161	61	3.1	61	92	0	310	26	14	29	29	1.95

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