genome.fa.s8425.2.7.7.80.10.50.1000.5.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: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2340112

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

This is table  5  of  12  ( 1340 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)
896833--896908	6	13.0	6	94	5	138	50	0	50	0	1.00
898056--898115	30	2.0	31	83	3	77	40	8	18	33	1.80
900278--900369	18	5.2	18	93	1	159	17	20	34	27	1.95
904302--904351	20	2.5	20	77	3	57	58	10	8	24	1.57
907707--907759	21	2.5	21	87	0	79	32	26	15	26	1.95
908377--908516	29	4.8	29	73	8	122	54	2	6	37	1.38
908377--908516	59	2.4	58	78	7	158	54	2	6	37	1.38
915180--915232	2	26.5	2	92	0	88	54	0	0	45	0.99
915762--915803	19	2.2	19	83	8	50	57	4	7	30	1.47
929661--929732	32	2.2	32	85	4	92	54	6	5	33	1.51
933005--933041	20	1.9	19	89	10	58	21	21	10	45	1.82
934324--934355	12	2.7	12	100	0	64	40	0	18	40	1.51
937337--937384	2	24.0	2	100	0	96	50	0	0	50	1.00
938620--938666	24	2.1	24	84	11	64	0	42	36	21	1.53
939471--939528	28	2.1	27	90	3	89	39	12	10	37	1.77
948357--948394	5	7.8	5	88	5	51	21	52	21	5	1.66
955447--955515	9	7.3	9	82	9	84	14	28	30	26	1.95
955447--955513	19	3.5	19	88	11	93	14	26	31	26	1.95
955446--955515	29	2.4	29	86	6	90	15	28	30	25	1.96
957036--957091	25	2.2	26	83	6	78	37	19	19	23	1.94
957036--957108	25	2.7	25	81	10	74	34	20	19	26	1.96
959020--959092	31	2.4	30	81	6	83	15	12	35	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
959071--959197	46	2.8	46	87	2	175	17	14	25	42	1.87
959502--959555	3	18.3	3	81	11	67	33	0	1	64	1.04
961774--961812	16	2.4	16	82	0	51	2	23	35	38	1.68
965388--965766	187	2.0	185	90	2	607	42	3	8	45	1.51
968434--968514	30	2.7	30	78	14	87	34	17	2	45	1.62
968438--968515	29	2.7	27	78	13	75	34	16	2	46	1.61
977110--977391	138	2.1	136	86	3	386	29	11	17	41	1.84
977679--977719	21	2.0	21	95	0	73	43	34	0	21	1.53
977776--977821	21	2.1	22	92	4	76	43	34	0	21	1.53
980602--980643	16	2.4	18	81	18	54	64	2	0	33	1.07
982269--982309	16	2.6	16	88	3	57	36	12	21	29	1.90
983566--983609	21	2.0	21	86	4	61	25	31	25	18	1.97
983601--983635	11	3.2	11	83	0	52	25	25	20	28	1.99
984372--984449	21	3.7	21	89	0	129	24	25	23	26	2.00
998560--998603	18	2.4	18	96	0	79	34	25	11	29	1.91
1001742--1001968	98	2.3	98	82	0	276	43	9	14	33	1.78
1002869--1003066	101	2.0	100	94	1	351	37	4	21	37	1.72
1003131--1003209	23	3.4	23	85	0	95	39	15	17	27	1.90
1015648--1015837	92	2.1	93	96	1	355	34	15	31	18	1.92
1022711--1022758	24	2.0	24	84	8	62	39	0	2	58	1.10
1023263--1023290	2	14.0	2	100	0	56	50	0	0	50	1.00
1023445--1023486	22	1.9	22	90	9	68	28	0	30	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025959--1025995	12	2.9	14	80	19	53	37	0	2	59	1.12
1026190--1026234	21	2.1	21	87	0	63	37	11	2	48	1.51
1028476--1028522	20	2.3	20	78	10	51	36	10	12	40	1.78
1031385--1031470	44	1.9	44	86	6	120	41	11	10	36	1.76
1032351--1032395	12	3.8	12	85	2	56	55	2	4	37	1.32
1035458--1035509	21	2.5	21	100	0	104	42	5	13	38	1.68
1035563--1035699	42	3.5	41	84	14	168	22	22	27	27	1.99
1035580--1035698	21	6.0	21	89	4	160	23	23	26	26	2.00
1035563--1035695	21	6.9	19	86	5	139	21	23	28	27	1.99
1036088--1036128	22	1.9	22	85	5	57	53	0	19	26	1.45
1040174--1040226	20	2.7	20	96	0	97	22	16	30	30	1.96
1040940--1041013	18	3.9	18	77	16	78	21	18	31	28	1.97
1040940--1041016	39	2.0	39	89	5	120	23	18	29	28	1.97
1045755--1045883	13	9.8	13	67	20	56	60	0	3	35	1.18
1045779--1045856	16	5.1	14	74	18	66	60	0	3	35	1.15
1048221--1048249	3	9.7	3	100	0	58	65	0	0	34	0.93
1049015--1049039	12	2.1	12	100	0	50	44	16	8	32	1.76
1051854--1051882	14	2.1	14	100	0	58	13	48	6	31	1.69
1053863--1053953	4	22.0	4	72	18	53	34	1	0	64	1.01
1053856--1053961	16	6.8	16	77	15	96	34	1	0	63	1.06
1053861--1053955	13	7.2	13	67	23	65	34	1	0	64	1.01
1064040--1064145	21	5.0	21	91	2	169	47	18	17	16	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064045--1064157	21	5.4	21	89	4	142	46	19	17	15	1.84
1064404--1064445	6	7.0	6	86	0	57	16	16	11	54	1.70
1064414--1064459	18	2.4	20	85	7	60	17	13	8	60	1.56
1064431--1064468	20	2.0	20	89	5	60	21	10	10	57	1.61
1070318--1070402	36	2.3	37	88	9	122	34	24	17	23	1.96
1070990--1071076	42	2.1	41	80	6	95	24	19	22	33	1.97
1070388--1071738	214	6.3	214	91	1	2124	32	15	19	32	1.93
1070388--1071738	427	3.2	426	91	1	2138	32	15	19	32	1.93
1074840--1074901	18	3.2	20	78	19	62	61	0	1	37	1.06
1074917--1074965	14	3.8	14	69	20	52	57	0	0	42	0.99
1074897--1074961	24	2.5	24	85	12	76	55	1	0	43	1.09
1076321--1076481	81	2.0	81	90	0	250	22	26	20	30	1.98
1078676--1078700	13	1.9	13	100	0	50	44	16	16	24	1.86
1080084--1080163	2	40.0	2	100	0	160	50	0	0	50	1.00
1080589--1080618	15	2.0	15	93	0	51	36	13	16	33	1.88
1081779--1081862	39	2.2	40	86	6	127	36	15	1	46	1.54
1082941--1083105	60	2.8	59	78	5	154	37	5	24	32	1.78
1083645--1083705	23	2.7	22	80	7	77	68	1	3	26	1.14
1083681--1083714	16	2.2	16	89	5	52	67	0	0	32	0.91
1086259--1086572	80	3.9	80	81	10	342	22	8	18	49	1.75
1086249--1086574	156	2.1	158	84	7	421	23	8	18	50	1.74
1094037--1094094	23	2.5	23	91	0	98	50	3	10	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1094508--1094558	19	2.7	19	100	0	102	50	17	15	15	1.78
1094590--1094642	20	2.7	20	88	5	72	43	22	18	15	1.87
1094651--1094744	20	4.5	21	80	10	113	36	27	20	15	1.93
1094651--1094742	41	2.2	42	90	1	141	36	27	19	16	1.93
1095253--1095308	20	2.8	20	88	2	76	46	21	21	10	1.81
1097136--1097262	64	2.0	64	92	1	211	22	11	16	50	1.76
1097314--1097450	19	7.7	19	76	16	123	48	24	18	9	1.77
1097351--1097377	14	1.9	14	100	0	54	44	22	25	7	1.79
1097382--1097445	33	1.9	33	93	0	110	48	26	17	7	1.74
1097314--1097450	52	2.6	52	87	1	193	48	24	18	9	1.77
1097474--1097541	21	3.4	20	72	6	57	16	17	23	42	1.88
1099475--1099510	14	2.6	14	95	0	63	33	0	22	44	1.53
1099646--1099732	14	5.5	14	71	24	66	11	24	19	44	1.83
1099646--1099751	33	3.2	33	100	0	212	12	23	18	45	1.83
1099692--1099822	52	2.5	52	97	1	244	12	22	18	45	1.83
1102295--1102348	24	2.2	24	93	0	90	40	20	18	20	1.91
1102295--1102362	24	2.8	24	84	0	64	38	20	17	23	1.93
1102474--1102507	12	2.8	12	90	0	50	14	0	29	55	1.40
1103175--1103446	20	13.4	20	78	9	221	19	18	23	38	1.93
1103175--1103446	41	6.7	40	83	1	267	19	18	23	38	1.93
1103234--1103427	61	3.2	60	74	10	187	19	19	24	37	1.94
1104801--1104867	32	2.1	32	100	0	134	43	20	8	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105667--1106060	189	2.1	186	88	5	607	43	3	8	44	1.50
1109272--1109363	48	1.9	48	91	4	150	40	3	14	42	1.61
1109933--1109971	13	3.1	13	88	3	53	48	0	0	51	1.00
1109931--1109971	15	2.9	15	79	20	52	48	0	0	51	1.00
1110083--1110118	15	2.4	16	82	17	51	58	0	0	41	0.98
1110575--1110624	17	2.7	19	78	12	59	44	4	0	52	1.20
1113945--1113992	24	2.0	24	83	0	60	72	0	10	16	1.10
1114462--1114673	76	2.9	75	87	4	272	58	12	1	28	1.43
1114601--1114642	19	2.2	19	86	0	57	54	14	0	30	1.40
1120159--1120275	25	4.7	24	69	11	83	59	12	0	26	1.39

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