genome.fa.s7418.2.7.7.80.10.50.1000.5.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: VEPZ01007418.1 Hibiscus syriacus cultivar Beakdansim tig00020063_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1198774

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 645 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)
912114--912313	96	2.1	96	78	5	208	27	12	17	43	1.84
915644--915676	17	2.0	16	94	5	57	66	12	0	21	1.23
916373--918461	524	4.0	524	98	0	4050	34	10	12	42	1.77
934934--935034	38	2.5	41	90	7	154	45	9	23	20	1.81
934973--935350	113	3.3	116	91	4	590	36	14	18	29	1.91
935141--935650	205	2.5	205	95	0	914	35	15	17	31	1.91
935253--935633	92	3.9	92	70	14	260	34	15	17	32	1.91
935903--935994	3	30.7	3	89	8	143	35	0	1	63	1.02
936381--936413	14	2.3	15	89	5	50	72	12	15	0	1.12
937365--937411	15	3.3	15	74	17	55	38	2	0	59	1.09
941736--941821	27	3.2	27	81	1	102	45	22	11	20	1.83
943627--943960	44	7.7	43	89	2	443	33	23	25	17	1.97
946856--946896	15	2.8	14	85	10	55	36	2	0	60	1.10
948753--948840	24	3.7	24	87	6	133	37	21	18	22	1.94
948753--948835	12	6.8	13	67	14	61	38	22	16	21	1.93
949982--950016	18	1.9	18	88	0	52	28	17	0	54	1.43
951283--951333	18	2.8	18	74	11	50	17	21	45	15	1.86
953415--953519	24	4.5	24	70	7	81	40	19	13	26	1.88
953423--953510	45	2.0	45	93	0	149	37	20	15	26	1.93
953445--953510	21	3.0	20	78	19	78	36	21	16	25	1.94
954650--954707	18	3.2	18	82	0	71	24	17	3	55	1.57
963291--963339	22	2.2	22	85	0	71	40	10	10	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963840--964479	125	5.1	125	87	2	867	34	12	22	30	1.91
965934--965982	23	2.2	22	81	3	53	14	6	8	71	1.29
970744--970804	22	2.7	24	80	10	74	21	22	34	21	1.97
977581--977624	22	2.0	23	90	4	72	20	20	18	40	1.91
977590--977631	22	1.9	22	90	0	66	21	23	14	40	1.90
980352--980556	42	4.8	41	88	4	268	33	23	24	18	1.97
981497--981659	29	5.7	28	90	6	238	39	23	6	30	1.81
981497--981659	86	1.9	86	92	0	272	39	23	6	30	1.81
987792--987996	42	4.8	41	87	4	268	33	23	24	18	1.97
988940--989106	29	5.8	29	83	5	142	41	21	4	32	1.74
988929--989030	29	3.5	30	81	9	93	42	20	3	33	1.71
988950--989111	57	2.8	57	91	0	243	40	24	5	29	1.77
988975--989112	29	4.8	29	89	2	217	39	26	6	27	1.80
989120--989148	13	2.3	13	94	5	51	17	24	41	17	1.90
989982--990075	16	5.9	16	74	6	75	81	4	12	1	0.88
990012--990072	5	11.8	5	80	16	63	80	1	16	1	0.88
989959--990075	40	2.9	38	80	15	121	78	5	15	0	0.97
989973--990073	42	2.4	42	86	3	130	80	3	14	0	0.91
993976--994101	47	2.8	45	85	5	164	39	7	22	30	1.81
995242--995283	2	21.0	2	100	0	84	50	0	0	50	1.00
999269--999339	31	2.3	31	85	0	88	45	4	8	42	1.54
999904--1000134	118	1.9	119	91	0	374	38	14	16	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1000508--1000546	2	19.5	2	100	0	78	48	0	0	51	1.00
1002922--1002993	31	2.4	31	83	2	101	52	11	5	30	1.59
1006523--1006907	194	2.0	193	86	2	531	31	12	13	42	1.81
1008348--1008381	15	2.2	16	89	5	52	26	0	5	67	1.13
1008347--1008384	14	2.5	15	83	8	51	28	0	7	63	1.23
1009115--1009180	30	2.2	30	78	5	71	18	10	9	62	1.53
1011833--1011875	13	3.2	13	78	18	52	13	16	9	60	1.58
1011834--1011873	21	2.0	20	95	5	71	15	17	10	57	1.64
1012844--1012935	2	46.0	2	93	0	157	46	0	3	50	1.17
1013119--1013159	9	4.8	9	85	5	50	80	0	0	19	0.71
1014190--1014292	32	3.2	32	87	5	136	31	14	23	31	1.94
1014400--1014590	34	5.6	34	86	0	256	33	17	10	37	1.85
1014401--1014590	102	1.9	102	89	0	299	33	17	11	37	1.85
1014756--1015058	76	3.9	76	77	9	301	30	17	13	39	1.87
1014798--1015043	81	3.1	81	77	11	283	29	18	12	39	1.87
1015066--1015427	36	9.9	36	89	4	413	24	22	15	37	1.93
1015163--1015232	21	3.6	21	67	21	62	25	24	12	37	1.91
1015105--1015427	36	8.9	36	90	2	441	24	22	15	37	1.92
1015312--1015376	21	3.4	21	66	24	61	24	23	12	40	1.89
1015314--1015409	21	5.2	20	62	26	59	23	22	13	39	1.90
1015402--1015476	15	5.0	15	75	10	73	25	28	17	29	1.97
1015402--1015492	30	3.0	30	91	0	137	28	26	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015438--1015487	15	3.3	15	72	10	57	34	24	14	28	1.93
1015563--1015793	43	5.4	43	82	4	236	26	12	29	30	1.93
1015561--1015782	86	2.6	87	84	5	265	27	12	29	30	1.93
1016183--1016228	9	5.4	9	77	15	53	41	0	0	58	0.98
1016194--1016228	12	2.8	13	87	12	56	40	0	0	60	0.97
1016177--1016237	24	2.6	24	80	10	74	45	0	0	54	1.00
1024008--1024045	19	2.0	19	94	0	67	34	23	10	31	1.89
1030032--1030082	3	17.0	3	100	0	102	33	0	0	66	0.92
1030881--1030938	21	2.8	21	79	12	66	34	0	1	63	1.04
1030881--1030931	22	2.3	22	86	6	68	35	0	1	62	1.06
1030885--1030940	22	2.7	20	78	13	60	33	0	1	64	1.04
1032029--1032062	2	17.0	2	100	0	68	50	0	0	50	1.00
1032216--1032276	31	2.0	31	83	6	79	37	9	11	40	1.75
1038036--1038063	2	14.0	2	100	0	56	50	0	0	50	1.00
1042606--1043109	272	1.9	272	87	1	742	26	18	18	36	1.94
1042570--1043109	136	4.0	136	84	5	662	26	19	18	35	1.95
1044036--1044105	6	10.7	6	74	17	50	2	20	1	75	1.00
1044036--1044092	21	2.8	20	84	10	71	3	21	0	75	0.95
1044055--1044086	15	2.2	14	94	5	55	6	21	0	71	1.07
1044036--1044105	19	3.5	19	81	14	88	2	20	1	75	1.00
1051608--1051654	21	2.2	21	85	7	60	63	10	6	19	1.47
1053474--1053503	15	2.1	14	93	6	51	70	10	0	20	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1056948--1056997	19	2.6	19	81	9	57	34	0	4	62	1.14
1057509--1057560	2	26.0	2	100	0	104	50	0	0	50	1.00
1060525--1060562	3	12.7	3	88	0	58	63	0	0	36	0.95
1065344--1065408	12	5.4	12	69	7	51	16	12	18	52	1.74
1065340--1065412	24	3.0	24	81	0	92	20	10	17	50	1.76
1071446--1071502	27	2.1	27	84	12	73	45	14	17	22	1.84
1072555--1072616	24	2.6	24	86	0	79	29	16	14	40	1.88
1074775--1074827	22	2.4	22	87	6	72	18	30	28	22	1.98
1074775--1074836	22	2.8	21	80	9	70	17	32	25	24	1.97
1074794--1074856	11	5.8	11	73	17	60	19	31	26	22	1.97
1076759--1076841	24	3.5	24	83	6	78	26	12	19	42	1.86
1087184--1087227	22	2.0	22	100	0	88	36	18	27	18	1.94
1091631--1091684	14	3.9	14	75	0	54	25	18	29	25	1.98
1091681--1091713	14	2.3	15	89	5	50	27	21	21	30	1.98
1092214--1092419	103	2.0	103	100	0	412	24	11	36	27	1.90
1094300--1094373	31	2.4	31	97	0	139	39	18	17	24	1.92
1094300--1094388	31	2.9	30	90	6	108	38	20	16	24	1.93
1097498--1097918	208	2.0	206	93	2	720	48	9	7	34	1.63
1099355--1099389	17	2.0	18	88	5	54	20	5	28	45	1.73
1099742--1099885	7	22.3	6	71	12	74	61	5	1	31	1.27
1099742--1099885	3	44.7	3	69	15	74	61	5	1	31	1.27
1099776--1099885	16	6.6	16	76	10	87	63	3	0	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1099776--1099882	29	3.8	26	69	27	69	63	3	0	31	1.18
1099741--1099885	42	3.5	40	75	13	109	62	5	1	31	1.27
1099783--1099882	39	2.6	38	76	16	100	64	3	1	32	1.16
1099787--1099885	10	9.8	10	77	13	80	63	3	1	32	1.16
1099742--1099885	10	14.9	9	73	14	74	61	5	1	31	1.27
1103108--1103144	4	9.8	4	88	5	51	78	2	0	18	0.87
1103103--1103144	14	3.1	14	86	6	61	78	2	0	19	0.86
1103106--1103157	22	2.4	21	84	6	68	76	1	1	19	0.97
1103190--1103250	17	3.7	17	77	16	74	40	13	4	40	1.65
1103263--1103495	37	6.5	36	74	15	164	42	10	5	42	1.62

Tables:   1   2   3   4   5   6