genome.fa.s9611.2.7.7.80.10.50.1000.4.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  4  of  27  ( 3214 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)
861863--862021	21	7.7	21	63	21	86	37	24	21	16	1.94
868187--868302	60	1.9	60	89	0	178	34	5	16	43	1.70
868470--868509	22	1.9	21	90	10	64	42	5	0	52	1.23
868648--868696	18	2.8	17	78	6	62	40	12	16	30	1.85
868646--868709	35	1.9	34	87	12	98	42	12	15	29	1.84
879977--880065	25	3.7	25	76	8	103	56	12	19	12	1.67
879951--880065	47	2.4	48	92	2	187	57	13	17	11	1.65
880389--880498	55	2.0	55	90	0	175	44	13	17	24	1.85
883236--883531	151	2.0	148	88	4	443	46	11	6	36	1.64
883702--883782	35	2.3	36	89	6	121	29	1	24	44	1.62
885759--885817	31	1.9	31	96	0	109	44	5	6	44	1.52
885841--886020	22	8.2	22	89	0	279	47	11	0	41	1.40
898740--899280	48	11.3	48	77	8	485	24	50	4	20	1.68
898740--899278	96	5.6	94	84	4	580	23	50	5	20	1.68
898740--899278	192	2.8	191	83	4	663	23	50	5	20	1.68
906465--906509	21	2.1	21	87	0	63	60	6	2	31	1.35
906814--906873	27	2.2	28	85	8	79	73	5	0	21	1.02
906825--906885	7	8.1	8	75	17	60	73	1	0	24	0.92
915411--915441	16	1.9	16	93	0	53	32	0	6	61	1.21
919230--919286	18	3.2	18	89	0	96	19	47	21	12	1.81
927804--927837	18	1.9	17	88	5	50	67	2	0	29	1.05
927925--927963	21	1.9	21	89	5	62	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
931523--931549	10	2.7	10	100	0	54	62	22	14	0	1.31
941699--941759	26	2.3	26	77	0	68	45	21	3	29	1.67
951789--952020	129	1.8	126	87	6	342	11	19	19	49	1.79
951985--952059	37	2.0	37	100	0	150	18	8	21	52	1.71
974204--974235	2	16.0	2	100	0	64	50	0	50	0	1.00
975193--975243	19	2.7	20	79	11	63	49	0	0	50	1.00
976956--976996	18	2.3	19	83	8	50	19	26	24	29	1.98
983462--983507	22	2.1	22	91	0	74	30	19	34	15	1.93
991202--991238	18	1.9	18	89	10	56	72	5	5	16	1.21
991202--991239	19	2.0	20	89	5	60	73	5	5	15	1.19
998984--999042	22	2.7	22	91	0	100	35	28	10	25	1.89
1001176--1001239	32	2.0	32	100	0	128	15	28	6	50	1.68
1005023--1005061	15	2.6	15	100	0	78	25	25	12	35	1.92
1006137--1006283	73	2.0	74	98	1	287	31	13	16	38	1.87
1006151--1006301	73	2.1	73	87	2	214	35	12	17	35	1.87
1037974--1038015	17	2.4	19	80	15	54	35	0	7	57	1.26
1037974--1038022	18	2.8	18	82	14	59	36	0	6	57	1.24
1038482--1038508	2	13.5	2	100	0	54	0	51	0	48	1.00
1059106--1059144	19	2.0	20	85	5	53	23	30	5	41	1.76
1060297--1060451	79	2.0	79	98	0	301	41	3	12	42	1.60
1062298--1062328	2	15.5	2	100	0	62	0	48	0	51	1.00
1068871--1068904	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1095402--1095448	14	3.8	12	78	21	53	63	17	10	8	1.49
1095382--1095455	23	3.2	23	75	9	69	60	21	10	6	1.52
1098871--1099177	153	2.0	153	98	1	598	45	16	13	25	1.83
1102457--1102485	2	14.5	2	100	0	58	48	0	0	51	1.00
1103975--1104032	8	7.4	8	76	16	59	37	0	1	60	1.07
1103978--1104039	24	2.7	24	85	5	83	40	0	1	58	1.08
1109096--1109130	17	2.1	17	89	10	54	57	0	0	42	0.99
1109095--1109133	16	2.4	16	83	16	53	53	0	0	46	1.00
1109094--1109139	24	1.9	24	82	8	58	54	2	0	43	1.12
1110954--1111125	95	1.8	94	95	3	312	36	4	12	47	1.60
1111866--1111894	12	2.4	12	100	0	58	20	17	6	55	1.65
1114260--1114308	16	2.8	17	84	12	55	0	20	4	75	0.96
1119296--1119328	16	2.1	17	88	11	52	42	12	6	39	1.67
1129815--1129856	20	2.2	19	83	12	50	52	0	2	45	1.13
1142177--1142206	15	2.0	15	93	0	51	3	56	0	40	1.16
1143364--1143420	30	2.0	29	83	10	73	45	10	17	26	1.81
1144424--1144475	17	3.2	17	75	10	54	50	13	3	32	1.60
1149572--1149682	55	2.0	55	96	0	204	31	22	21	24	1.98
1150973--1151012	2	20.0	2	100	0	80	50	0	0	50	1.00
1155032--1155114	43	1.9	43	92	0	139	42	14	12	31	1.82
1159353--1159439	42	2.1	42	91	0	138	54	3	33	9	1.49
1159644--1159851	106	2.0	104	94	5	368	46	10	5	37	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163482--1163568	35	2.5	34	80	12	97	56	9	8	26	1.58
1164165--1164199	18	1.9	18	100	0	70	25	22	22	28	1.99
1165169--1165195	11	2.5	11	100	0	54	22	22	29	25	1.99
1165720--1165940	111	2.0	111	92	0	370	44	10	8	35	1.70
1166533--1166576	18	2.4	18	84	3	61	40	0	0	59	0.98
1166734--1166768	15	2.3	15	100	0	70	54	8	5	31	1.54
1169904--1169930	12	2.2	12	100	0	54	59	14	11	14	1.62
1170232--1170376	72	2.0	72	95	0	263	29	13	26	30	1.94
1171405--1171439	12	2.9	12	87	12	54	68	0	0	31	0.90
1186252--1186277	6	4.3	6	100	0	52	53	0	0	46	1.00
1187061--1187472	204	2.0	204	87	0	590	37	14	13	34	1.85
1187527--1187585	31	1.9	31	92	0	100	49	10	8	32	1.67
1197717--1197760	20	2.3	19	81	11	54	45	2	22	29	1.65
1197910--1197982	36	2.0	36	84	10	96	47	2	2	46	1.31
1198763--1198789	6	4.5	6	100	0	54	55	0	0	44	0.99
1198910--1198960	26	1.9	27	88	4	77	74	1	5	17	1.11
1199354--1199402	24	2.0	24	100	0	98	59	4	12	24	1.50
1200702--1202960	106	21.3	106	94	1	3771	22	18	25	33	1.97
1200702--1202966	527	4.3	529	94	1	3797	22	18	24	33	1.97
1206541--1206567	6	4.5	6	100	0	54	55	0	0	44	0.99
1206698--1206740	20	2.2	19	84	16	52	72	2	9	16	1.21
1211618--1211684	33	2.0	33	100	0	134	43	17	14	23	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214080--1214155	16	4.8	16	93	0	107	28	15	11	43	1.83
1214074--1214155	32	2.6	32	90	0	119	29	17	12	41	1.85
1214398--1214444	14	3.7	14	71	26	50	44	0	4	51	1.21
1214397--1214446	23	2.1	24	96	3	93	48	0	4	48	1.20
1214636--1214667	7	4.6	7	100	0	64	12	0	40	46	1.42
1214616--1214667	21	2.5	21	83	0	59	19	0	30	50	1.48
1214740--1214773	9	3.9	9	84	7	52	38	0	5	55	1.24
1214742--1214780	17	2.2	18	95	4	71	41	2	5	51	1.38
1214804--1214830	13	2.1	13	100	0	54	55	0	0	44	0.99
1215280--1215347	7	9.9	7	75	9	50	22	1	25	51	1.56
1215807--1215851	14	3.2	14	81	12	56	15	0	33	51	1.44
1215811--1215881	21	3.4	21	75	5	63	21	0	30	47	1.51
1218467--1218510	15	3.1	15	77	12	56	59	0	0	40	0.98
1218748--1218787	18	2.2	18	86	0	53	45	20	7	27	1.78
1236920--1236994	21	3.4	21	72	13	69	33	17	6	42	1.75
1244223--1244266	13	3.4	13	80	0	61	31	0	20	47	1.50
1245017--1245048	2	16.0	2	100	0	64	50	0	0	50	1.00
1249622--1249666	21	2.1	21	87	0	63	31	28	24	15	1.96
1250239--1250273	18	1.9	18	88	11	54	54	5	17	22	1.64
1250999--1251443	149	3.0	148	96	2	821	27	17	20	34	1.95
1251422--1251466	23	2.0	23	86	0	63	20	24	28	26	1.99
1252591--1252640	20	2.5	19	84	12	64	14	6	2	78	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255320--1255354	18	1.9	18	100	0	70	25	17	28	28	1.97
1256826--1257556	8	95.5	8	76	16	631	40	2	7	49	1.43
1256826--1256956	23	5.5	23	73	17	108	40	3	6	48	1.48
1256826--1257509	31	21.8	30	73	17	285	40	2	7	49	1.44
1256817--1257567	39	19.5	39	84	10	797	40	2	7	49	1.43
1256883--1256995	23	4.6	23	70	18	93	40	1	6	51	1.37
1256826--1257567	249	2.9	250	89	6	1042	40	2	7	49	1.43
1260602--1260645	23	1.9	23	100	0	88	25	40	25	9	1.84
1260662--1260715	22	2.5	22	87	0	90	16	35	18	29	1.93
1261363--1261418	28	2.0	28	86	6	78	57	1	1	39	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27