genome.fa.s7968.2.7.7.80.10.50.1000.4.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: VEPZ01007968.1 Hibiscus syriacus cultivar Beakdansim tig00110403_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1361854

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 589 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)
791525--791636	29	3.8	29	82	6	127	41	3	8	46	1.50
794462--794501	2	20.0	2	94	0	71	47	0	2	50	1.14
799361--799479	51	2.3	51	82	5	159	26	13	14	45	1.82
800367--800437	35	2.0	35	97	0	133	53	14	8	23	1.68
801049--801073	2	12.5	2	100	0	50	52	0	0	48	1.00
801079--801222	77	1.9	77	86	0	207	36	7	22	33	1.82
804724--804750	13	2.1	13	100	0	54	70	0	0	29	0.88
806261--806297	2	18.5	2	94	0	65	0	0	45	54	1.00
812790--812837	21	2.3	21	82	7	62	10	39	12	37	1.77
812805--812851	24	2.0	24	86	0	67	6	40	14	38	1.72
814638--814679	22	2.0	22	85	4	59	30	14	9	45	1.77
822928--822978	22	2.3	22	96	0	93	27	9	23	39	1.86
826143--826189	22	2.1	22	84	7	60	44	2	0	53	1.12
831859--831904	24	2.0	23	86	4	65	69	4	10	15	1.32
831878--831919	15	2.8	15	85	7	50	69	4	11	14	1.34
832635--832688	27	2.0	26	82	3	63	38	1	1	57	1.20
832796--832851	26	2.2	26	83	0	67	60	3	5	30	1.36
834183--834229	24	2.0	24	86	0	67	57	21	14	6	1.60
834308--834347	18	2.3	16	87	12	53	32	0	20	47	1.50
834329--834372	23	1.9	23	81	9	54	40	0	15	43	1.47
836399--836434	13	2.8	13	95	0	63	27	13	50	8	1.71
838811--838860	21	2.4	21	100	0	100	6	38	8	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
840435--840465	15	2.1	15	100	0	62	29	0	51	19	1.47
848851--848887	2	18.5	2	100	0	74	51	0	0	48	1.00
848345--849427	543	2.0	543	98	0	2087	33	15	13	37	1.87
849394--849427	2	17.0	2	100	0	68	50	0	0	50	1.00
855456--855480	6	4.2	6	100	0	50	20	16	64	0	1.30
855617--855669	27	2.0	27	84	0	70	52	0	0	47	1.00
855687--855721	12	2.9	12	100	0	70	31	51	8	8	1.63
860743--860858	57	2.0	57	88	0	169	26	21	16	35	1.94
864021--864166	60	2.4	58	79	9	161	34	19	15	30	1.93
869022--869132	58	1.9	58	83	3	143	27	19	27	26	1.99
871563--871640	31	2.5	30	72	17	77	52	2	7	37	1.44
875649--875702	24	2.3	24	87	3	74	70	0	0	29	0.88
876462--876497	2	18.0	2	100	0	72	50	0	0	50	1.00
881543--881755	110	1.9	109	98	0	408	36	20	13	30	1.91
887524--887584	31	1.9	32	90	3	97	34	8	24	32	1.85
890990--891097	55	2.0	55	90	0	171	25	25	8	40	1.83
896788--896844	22	2.6	22	94	0	96	45	15	21	17	1.85
904195--904227	8	4.2	8	84	7	50	36	0	27	36	1.57
904308--905040	128	5.7	128	91	0	1193	21	23	20	34	1.97
905298--905327	14	2.1	14	93	0	51	30	0	10	60	1.30
905397--905463	34	2.0	34	93	0	116	34	2	4	58	1.34
905986--906100	21	5.5	21	83	4	151	23	23	32	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
906104--906151	21	2.3	21	88	0	69	20	12	41	25	1.87
908558--908605	21	2.3	21	88	0	69	25	41	12	20	1.87
908609--908678	21	3.3	21	86	7	97	18	34	27	20	1.96
909173--909230	28	2.1	28	90	0	89	55	3	0	41	1.17
909557--910251	128	5.5	128	92	2	1168	33	21	23	21	1.97
915454--915775	161	2.0	160	98	1	619	33	20	29	15	1.94
916238--916267	10	3.0	10	95	0	51	46	10	3	40	1.54
917315--917523	45	4.4	47	80	7	203	43	19	14	22	1.87
927298--927358	21	3.0	20	77	17	72	39	1	0	59	1.08
927297--927386	41	2.1	41	82	10	101	42	4	0	53	1.21
927850--927902	26	2.0	26	82	7	63	43	0	0	56	0.99
927848--927915	35	2.0	34	82	8	84	45	0	0	54	0.99
927952--928022	21	3.6	20	73	14	60	23	4	2	69	1.20
927951--928012	21	3.0	20	83	9	70	24	4	3	67	1.25
927951--928012	11	5.9	10	83	9	70	24	4	3	67	1.25
930142--930209	30	2.3	29	85	5	84	14	7	20	57	1.61
933030--933082	2	26.5	2	100	0	106	50	0	0	49	1.00
937218--937264	2	23.5	2	95	0	85	48	2	0	48	1.13
942017--942052	2	18.0	2	100	0	72	50	0	0	50	1.00
944311--944378	33	2.1	33	100	0	136	29	30	19	20	1.97
952313--952453	71	2.0	71	88	1	212	39	20	5	34	1.76
954012--954044	16	2.1	16	88	5	50	24	24	6	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962180--962296	20	5.8	20	93	0	198	39	16	19	24	1.92
962179--962326	20	7.4	19	87	3	125	37	18	18	25	1.94
962176--962311	60	2.3	60	85	5	202	38	18	19	23	1.93
962280--962393	20	5.7	20	87	0	147	25	25	23	25	2.00
962567--962614	22	2.2	22	92	0	78	20	43	16	18	1.88
962570--962620	22	2.4	21	87	6	68	21	45	13	19	1.85
962995--963101	20	5.4	20	84	3	119	14	14	22	48	1.80
964990--965061	22	3.3	22	86	5	101	27	20	23	27	1.99
964998--965060	21	3.0	21	90	2	90	23	23	25	26	2.00
966456--966597	65	2.2	65	87	1	196	26	19	18	35	1.95
969979--970050	22	3.3	22	86	5	101	29	20	23	26	1.99
969987--970049	21	3.0	21	90	2	90	25	23	25	25	2.00
971794--971855	14	4.3	14	77	6	61	38	0	14	46	1.45
971969--972007	20	2.0	20	89	0	60	48	25	20	5	1.70
972001--972043	20	2.2	20	83	4	52	25	20	25	27	1.99
972072--972280	20	10.8	20	76	10	191	27	19	20	33	1.96
972010--972232	94	2.4	94	83	3	279	26	19	20	33	1.96
972255--972520	140	1.9	140	94	0	469	42	15	12	29	1.83
972580--972614	18	1.9	18	94	0	61	17	2	25	54	1.57
974652--974678	14	1.9	14	100	0	54	7	18	29	44	1.77
974869--974919	24	2.1	24	92	0	84	37	21	19	21	1.95
975743--975808	20	3.3	20	86	0	78	28	19	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
975778--975889	20	5.6	20	91	5	174	25	19	16	39	1.91
976303--976386	31	2.7	31	85	7	98	47	4	2	45	1.36
976303--976395	32	2.9	32	84	7	118	46	5	2	46	1.37
989592--989617	12	2.2	12	100	0	52	50	30	11	7	1.67
992676--992820	68	2.1	68	92	1	238	38	17	21	22	1.93
993862--993918	23	2.5	23	83	11	64	33	5	0	61	1.18
995828--995852	12	2.1	12	100	0	50	20	16	24	40	1.91
1000896--1000924	6	4.8	6	100	0	58	17	0	48	34	1.47
1000896--1000933	18	2.1	18	90	0	58	21	0	42	36	1.53
1005593--1005675	37	2.2	37	95	0	148	26	24	16	32	1.96
1013760--1013841	37	2.2	37	91	4	130	64	7	3	24	1.35
1022386--1022453	20	3.4	19	68	20	57	22	20	22	35	1.96
1022367--1022608	41	5.9	41	93	0	385	21	21	25	31	1.98
1022446--1022556	21	5.4	20	66	20	68	18	19	28	32	1.96
1025281--1025362	44	1.9	41	87	7	119	31	6	29	32	1.82
1025283--1025373	19	4.4	20	76	17	105	35	5	28	30	1.80
1025733--1025868	20	6.6	21	76	9	86	19	17	24	38	1.93
1025732--1025827	41	2.3	41	98	0	183	20	17	23	37	1.94
1025754--1025883	61	2.1	61	98	0	251	20	18	25	35	1.95
1025815--1025974	41	3.8	41	83	11	214	22	19	25	32	1.97
1025857--1025906	26	1.9	26	91	0	82	20	24	26	30	1.98
1025796--1025970	87	2.0	87	94	0	305	22	19	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1026000--1026036	19	1.9	19	94	0	65	21	16	29	32	1.95
1028397--1028472	35	2.2	35	92	0	125	39	23	1	35	1.63
1028860--1029107	130	1.9	130	92	0	415	36	14	12	35	1.85
1028874--1029138	130	2.0	129	81	4	300	39	13	13	33	1.83
1029574--1029607	16	2.0	18	88	11	54	64	5	2	26	1.30
1054633--1054657	13	1.9	13	100	0	50	64	12	0	24	1.27
1055215--1055270	21	2.7	21	82	0	76	28	21	21	28	1.99
1056045--1056093	22	2.5	20	78	18	57	57	10	0	32	1.32
1066789--1066821	15	2.2	15	94	0	57	15	6	54	24	1.63
1073021--1073717	348	2.0	348	98	1	1346	31	24	16	27	1.96

Tables:   1   2   3   4   5