genome.fa.s7940.2.7.7.80.10.50.1000.4.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: VEPZ01007940.1 Hibiscus syriacus cultivar Beakdansim tig00110356_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1348078

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 521 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)
888468--888533	20	3.2	21	77	12	57	48	4	1	45	1.32
889956--889997	13	3.0	14	79	6	50	52	0	0	47	1.00
916183--916222	15	2.7	15	100	0	80	40	15	12	32	1.84
918070--918127	25	2.2	25	82	11	64	17	6	3	72	1.21
922339--922678	168	2.0	170	95	2	623	25	33	12	28	1.93
929560--929784	115	2.0	109	84	5	288	24	23	21	31	1.99
931002--931062	24	2.6	24	87	7	81	36	0	0	63	0.94
934847--934892	19	2.4	19	100	0	92	45	10	4	39	1.59
937216--937259	3	14.7	3	100	0	88	65	0	0	34	0.93
938087--938130	12	3.8	12	90	3	63	11	9	47	31	1.71
938085--938130	24	2.0	24	91	4	76	10	10	47	30	1.73
938148--938234	24	3.5	25	74	17	74	45	0	0	54	1.00
938204--938254	2	26.5	2	92	7	88	50	0	0	49	1.00
940031--940064	17	2.0	17	94	0	59	38	8	17	35	1.81
949955--950010	24	2.3	24	96	0	103	28	28	17	25	1.98
954289--954325	2	18.5	2	100	0	74	51	0	48	0	1.00
955100--955133	2	17.0	2	100	0	68	50	0	0	50	1.00
959543--959615	35	2.1	35	82	5	85	30	0	24	45	1.54
961316--961402	26	3.3	26	91	1	138	0	19	26	54	1.45
961774--961810	17	2.2	17	95	0	65	24	16	29	29	1.96
963039--963174	44	3.1	44	84	5	159	28	15	25	30	1.96
967717--967936	30	7.3	30	94	0	368	2	30	3	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
967719--968079	60	6.2	60	86	7	499	3	29	3	63	1.26
967719--968079	90	4.1	90	84	9	492	3	29	3	63	1.26
967913--967957	21	2.1	21	91	0	72	4	31	4	60	1.37
967883--967987	51	2.1	51	92	0	174	3	30	3	61	1.31
968042--968113	21	3.4	21	83	7	101	1	30	2	65	1.15
967714--968108	30	13.1	30	77	14	257	3	30	2	63	1.24
968097--968162	21	2.9	24	80	17	86	4	37	6	51	1.47
968042--968134	42	2.2	42	86	3	125	2	32	4	61	1.27
968103--968182	24	3.5	24	90	8	105	3	36	6	53	1.44
975267--975327	21	3.2	21	65	29	64	31	3	21	44	1.68
975259--975367	35	3.0	36	90	5	175	29	4	20	45	1.70
979791--979851	21	3.2	21	65	29	64	31	4	21	42	1.74
979783--979891	35	3.0	36	93	5	184	29	5	20	44	1.73
983009--983082	37	2.0	37	97	0	139	32	8	22	36	1.84
989229--989275	22	2.1	22	100	0	94	53	4	27	14	1.60
991903--991934	13	2.5	13	89	0	55	53	0	0	46	1.00
993846--994247	200	2.0	200	89	3	623	38	10	14	36	1.81
998020--998070	21	2.4	21	96	0	93	29	27	21	21	1.99
1001461--1001492	14	2.3	14	94	0	55	40	0	59	0	0.97
1002676--1002788	20	5.5	20	82	6	136	38	17	26	17	1.92
1002877--1002922	10	4.3	11	75	13	51	28	50	19	2	1.60
1002898--1002928	15	2.1	15	100	0	62	25	48	25	0	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1002931--1002960	9	3.2	9	95	4	51	13	33	53	0	1.40
1003598--1003664	15	4.1	16	84	9	75	2	17	53	25	1.58
1003598--1003660	5	11.8	5	88	8	65	3	19	53	23	1.59
1003798--1003851	20	2.7	20	88	0	81	11	16	18	53	1.72
1006429--1006464	18	2.1	18	89	5	56	36	13	8	41	1.75
1006524--1006555	16	2.0	16	93	0	55	25	12	9	53	1.68
1020305--1020353	20	2.3	20	86	6	62	30	10	4	55	1.52
1020386--1020434	24	2.2	24	85	10	68	46	2	14	36	1.56
1020447--1020477	15	2.1	15	100	0	62	38	0	0	61	0.96
1020450--1020481	7	4.2	8	88	11	50	40	0	0	59	0.97
1022396--1022446	2	25.5	2	100	0	102	50	0	0	49	1.00
1028734--1028777	3	14.7	3	100	0	88	65	0	0	34	0.93
1029598--1029636	13	2.9	14	84	7	62	38	12	0	48	1.42
1031412--1031483	35	2.0	36	86	7	103	48	2	0	48	1.16
1050977--1051072	3	32.0	3	84	0	129	63	0	3	33	1.10
1050979--1051087	12	9.9	11	76	17	61	64	0	4	31	1.14
1051321--1052442	114	9.9	114	93	1	1837	28	19	14	37	1.91
1051321--1052442	341	3.3	341	95	1	1975	28	19	14	37	1.91
1051321--1052443	455	2.5	454	93	1	1919	28	19	14	37	1.91
1053090--1053230	50	2.8	50	98	0	273	39	21	14	25	1.91
1053140--1053510	133	2.8	133	99	0	733	36	21	14	28	1.92
1054620--1054714	1	95.0	1	85	0	127	0	7	0	92	0.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054620--1054714	20	4.8	19	89	5	145	0	7	0	92	0.38
1054621--1054714	33	2.9	32	88	3	143	0	7	0	92	0.38
1067464--1067564	3	34.0	3	83	2	123	64	0	2	32	1.09
1067475--1067577	12	9.4	11	76	18	58	64	0	4	31	1.15
1072707--1073482	227	3.5	227	87	4	1060	37	14	19	28	1.91
1072712--1073486	113	6.9	113	87	4	1006	37	14	19	28	1.91
1075591--1075624	2	17.0	2	100	0	68	50	0	0	50	1.00
1075771--1075817	15	3.1	15	74	17	51	51	0	2	46	1.13
1079455--1079512	6	9.7	6	100	0	116	17	50	0	32	1.46
1080562--1080604	18	2.4	18	88	7	61	25	0	0	74	0.82
1102813--1102843	3	10.3	3	100	0	62	67	0	0	32	0.91
1102997--1103122	62	2.2	59	81	12	145	39	11	5	43	1.64
1103858--1103944	45	2.0	44	88	2	129	42	13	13	29	1.83
1104537--1104613	28	2.6	30	76	19	81	41	3	2	51	1.34
1105278--1105303	10	2.6	10	100	0	52	26	26	11	34	1.91
1106147--1106181	18	2.1	18	89	10	56	45	5	8	40	1.58
1113470--1113534	22	3.0	21	69	8	67	24	7	3	64	1.34
1113447--1113544	44	2.3	43	80	5	128	21	12	3	63	1.42
1113467--1113615	44	3.5	44	79	7	128	24	10	4	61	1.45
1113601--1113927	42	7.7	42	73	10	134	26	16	6	50	1.68
1115516--1115657	36	4.0	36	94	0	241	18	22	24	34	1.96
1121371--1121418	24	2.0	24	87	0	69	18	52	20	8	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1128973--1129006	16	2.1	17	88	5	52	64	0	0	35	0.94
1134790--1134820	2	15.5	2	100	0	62	48	0	0	51	1.00
1136277--1136310	13	2.7	12	86	13	50	58	0	29	11	1.33
1155903--1155941	19	2.1	19	85	4	53	51	0	0	48	1.00
1155904--1155948	23	2.0	22	82	4	54	53	2	0	44	1.13
1158416--1158444	2	14.5	2	100	0	58	48	0	0	51	1.00
1161490--1161600	46	2.4	47	93	3	197	30	22	24	22	1.99
1163675--1163718	23	1.9	23	90	0	70	40	9	18	31	1.81
1163675--1163724	23	2.2	23	85	0	64	42	10	18	30	1.82
1163797--1163899	30	3.3	30	76	7	107	59	13	5	21	1.55
1163780--1163905	63	2.0	63	92	0	207	56	14	7	22	1.62
1165367--1165395	12	2.4	12	100	0	58	6	44	31	17	1.75
1171545--1171610	34	1.9	34	93	0	114	42	12	6	39	1.67
1174391--1174434	21	2.1	21	82	0	52	54	6	9	29	1.58
1177853--1177960	23	3.8	29	70	20	77	31	8	0	59	1.33
1178702--1178778	33	2.5	31	76	19	79	40	0	0	59	0.97
1183791--1183856	25	2.8	24	77	13	73	34	1	6	57	1.33
1185279--1185303	2	12.5	2	100	0	50	52	0	0	48	1.00
1194497--1194547	23	2.2	23	85	0	66	33	13	19	33	1.91
1197376--1197408	15	2.2	15	100	0	66	54	0	0	45	0.99
1197827--1197876	26	1.9	26	84	8	66	58	0	4	38	1.17
1199458--1199555	21	4.9	21	86	2	96	20	21	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1199505--1199551	19	2.5	19	100	0	94	19	21	19	40	1.92
1204833--1204887	25	2.2	25	100	0	110	18	10	25	45	1.82
1208058--1208107	23	2.2	22	82	3	55	60	4	4	32	1.34
1209407--1209549	56	2.9	47	79	18	148	39	11	18	30	1.87
1209451--1209580	56	2.3	56	98	0	251	36	14	19	29	1.91
1217109--1217176	29	2.4	30	80	11	81	39	4	1	54	1.30
1217168--1217242	30	2.6	28	76	13	73	42	0	1	56	1.08
1217370--1217429	28	2.0	30	81	9	70	46	1	1	50	1.21
1217432--1217499	14	5.0	14	75	8	52	48	0	1	50	1.10
1217442--1217535	48	2.0	48	81	6	111	46	1	3	48	1.25

Tables:   1   2   3   4   5