genome.fa.s8745.2.7.7.80.10.50.1000.4.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: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1915556

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 927 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)
843855--843888	17	2.0	17	94	0	59	26	11	26	35	1.91
845451--845509	19	3.1	19	74	13	59	52	0	0	47	1.00
845459--845517	19	3.1	19	72	18	59	50	0	0	49	1.00
845936--846065	60	2.2	60	80	6	138	36	12	15	35	1.85
849894--849952	31	1.9	31	92	0	100	40	6	10	42	1.65
849976--850018	22	2.0	22	100	0	86	51	13	0	34	1.42
849970--850738	54	14.3	54	68	21	221	51	13	0	35	1.43
849998--850117	32	3.7	32	76	15	129	50	17	0	31	1.46
850010--850140	67	2.0	64	94	4	226	50	19	0	29	1.48
850061--850165	40	2.4	44	83	10	128	51	18	0	30	1.46
850146--850203	18	3.4	18	75	18	70	56	10	0	32	1.33
850142--850563	32	12.5	32	67	25	150	52	12	0	35	1.39
850077--850297	109	2.1	103	86	6	309	51	14	0	34	1.42
850206--850266	21	2.9	21	90	4	97	49	13	0	37	1.42
850248--850491	30	8.6	30	72	20	142	51	13	0	34	1.41
850280--850328	22	2.2	21	82	10	62	53	14	0	32	1.41
850401--850452	14	3.6	14	75	10	59	57	5	0	36	1.23
850472--850535	22	3.0	22	95	2	112	51	12	0	35	1.40
850480--850589	22	5.6	20	73	20	74	51	13	0	34	1.41
850547--850589	22	2.0	22	100	0	86	51	13	0	34	1.42
850441--850589	76	2.0	74	96	2	271	51	12	0	35	1.40
850549--850597	22	2.2	22	88	3	71	55	14	0	30	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
850142--850773	267	2.4	263	88	8	917	51	12	0	36	1.41
850632--850762	50	2.7	50	83	9	164	48	11	0	38	1.45
850722--850865	15	9.2	15	81	10	173	50	2	0	46	1.21
850668--850820	67	2.3	67	82	11	185	48	5	0	45	1.31
858649--858704	20	2.8	20	75	8	51	46	0	1	51	1.11
863933--863985	27	2.0	27	85	3	72	47	1	9	41	1.47
864839--864863	7	3.6	7	100	0	50	32	0	0	68	0.90
866793--866900	19	5.6	19	72	12	78	34	26	12	25	1.93
870455--870492	20	1.9	20	88	0	58	47	23	15	13	1.81
870501--870557	20	2.8	20	83	0	69	24	19	19	36	1.94
870647--870696	25	2.0	25	92	0	82	26	6	22	46	1.74
871075--871127	24	2.2	24	86	0	70	33	3	13	49	1.60
871430--871516	39	2.2	39	89	0	138	47	20	14	17	1.83
871674--871713	20	2.0	20	90	0	62	42	22	17	17	1.89
871780--871818	19	2.0	20	95	5	71	15	15	25	43	1.86
875841--875898	22	2.6	22	91	0	89	20	13	43	22	1.87
876067--876120	20	2.7	21	80	8	76	27	14	29	27	1.95
880456--880563	54	2.0	54	98	0	207	32	14	13	38	1.86
882212--882267	19	3.1	18	80	15	53	48	0	5	46	1.25
882909--882935	9	3.0	9	100	0	54	33	0	0	66	0.92
882916--882989	23	3.1	23	77	13	62	32	2	0	64	1.07
882947--882996	25	2.0	25	84	11	66	32	6	0	62	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
886509--886548	20	2.0	20	100	0	80	25	10	10	55	1.64
889443--889532	20	4.3	20	64	20	58	56	3	1	38	1.23
889433--889628	64	3.1	64	96	0	365	54	2	1	41	1.23
891305--891344	2	21.0	2	90	10	66	47	0	0	52	1.00
891305--891344	15	2.7	15	96	3	73	47	0	0	52	1.00
898895--899055	64	2.5	63	83	7	173	35	16	20	27	1.94
899320--899375	25	2.2	25	100	0	112	39	8	10	41	1.71
899541--899758	103	2.1	103	95	1	402	25	12	24	37	1.91
899775--899837	23	2.7	22	85	9	81	22	23	26	26	2.00
899765--899842	23	3.3	23	78	5	77	25	19	23	32	1.98
905294--905326	2	17.0	2	87	6	50	45	0	0	54	0.99
907623--907673	15	3.3	15	75	21	52	47	0	19	33	1.50
921465--921505	16	2.6	16	100	0	82	46	17	17	19	1.85
922288--922325	20	1.9	20	88	0	58	18	10	21	50	1.76
922752--922784	14	2.3	15	89	5	50	36	12	21	30	1.90
930654--931083	78	5.6	78	66	10	238	33	18	23	24	1.97
930666--931195	75	6.9	74	68	6	265	32	19	22	25	1.97
930666--931222	153	3.6	152	91	0	855	32	19	23	25	1.97
930729--931144	75	5.4	77	69	7	310	33	18	22	25	1.97
940558--940591	16	2.1	16	89	10	52	26	20	0	52	1.46
940591--940624	2	17.0	2	100	0	68	50	0	0	50	1.00
943369--943410	18	2.3	18	80	8	50	66	9	0	23	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954859--954936	27	2.9	27	96	0	147	34	23	14	28	1.93
957039--957133	41	2.4	39	81	14	115	54	1	1	43	1.14
959659--959747	42	2.1	42	85	0	115	14	5	52	26	1.64
959743--959789	3	15.7	3	93	0	58	23	2	68	6	1.24
959740--959789	21	2.4	21	82	0	64	22	2	68	8	1.26
959727--959822	27	3.6	27	92	0	138	15	5	66	12	1.41
960268--960312	21	2.1	21	87	0	63	28	15	6	48	1.70
965101--965234	60	2.2	60	81	3	164	36	16	3	43	1.66
965551--965677	60	2.1	59	89	1	191	37	5	22	33	1.78
975541--975646	31	3.5	31	85	2	151	43	13	27	16	1.84
975541--975646	30	3.5	30	86	2	140	43	13	27	16	1.84
979423--979459	18	2.1	18	94	0	65	27	37	29	5	1.79
983890--983988	52	1.9	52	87	0	144	24	12	24	39	1.89
989105--989166	32	1.9	32	96	0	115	38	8	11	41	1.70
991454--991478	2	12.5	2	100	0	50	52	0	0	48	1.00
994610--994948	115	2.9	114	93	2	570	28	10	19	41	1.84
996425--996452	14	2.0	14	100	0	56	50	7	14	28	1.69
998354--998398	18	2.5	18	92	0	72	24	28	11	35	1.90
999514--999558	21	2.1	21	87	0	63	35	2	2	60	1.22
999747--999820	31	2.4	31	77	11	78	52	10	12	24	1.70
1001849--1001879	11	2.7	11	95	5	53	74	3	6	16	1.16
1003444--1003488	20	2.2	20	92	0	72	26	22	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1003588--1003628	19	2.1	20	86	4	57	36	19	14	29	1.92
1009217--1009442	44	5.1	44	79	4	231	41	24	11	22	1.87
1020720--1020777	27	2.1	28	81	9	66	44	17	0	37	1.49
1023405--1023433	2	14.5	2	100	0	58	51	0	0	48	1.00
1026606--1026647	15	2.7	16	85	7	68	33	33	19	14	1.91
1027730--1027788	31	1.9	32	86	6	86	54	6	3	35	1.44
1028381--1028433	15	3.5	15	73	14	54	30	0	5	64	1.17
1028387--1028455	31	2.2	31	85	10	88	34	2	5	56	1.38
1033112--1033161	2	25.0	2	100	0	100	50	0	0	50	1.00
1033146--1033228	28	2.8	31	78	15	95	31	0	16	51	1.45
1033183--1033240	30	1.9	31	86	6	84	31	0	18	50	1.48
1035883--1035925	15	2.9	15	78	0	50	58	2	4	34	1.32
1036109--1036149	17	2.4	17	91	0	64	43	9	0	46	1.36
1046317--1046372	27	2.0	29	86	10	80	41	0	7	51	1.29
1046895--1046934	21	1.9	21	94	0	71	22	25	27	25	2.00
1047015--1047415	188	2.1	188	91	2	653	45	7	3	43	1.48
1047323--1047419	22	4.4	21	70	10	61	41	1	2	55	1.18
1051269--1051399	67	2.0	67	96	0	244	28	15	9	46	1.77
1061360--1061459	22	4.4	22	68	12	76	38	0	10	52	1.35
1061105--1061417	15	20.5	15	91	4	484	47	0	0	51	1.07
1061397--1062017	80	7.8	79	76	16	586	33	0	12	52	1.41
1061467--1061606	32	4.7	32	78	18	167	35	0	12	52	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061500--1061542	22	2.0	22	95	0	77	37	0	11	51	1.39
1061468--1062032	54	10.6	54	72	15	435	34	0	12	52	1.41
1061270--1061923	261	2.5	257	83	9	845	37	0	10	52	1.38
1061526--1061605	14	5.0	16	66	22	60	33	0	11	55	1.36
1061590--1061718	22	5.5	22	67	12	78	36	0	10	52	1.37
1061583--1061749	48	3.5	48	78	15	202	34	0	12	52	1.39
1061643--1061678	14	2.5	15	95	4	65	41	0	0	58	0.98
1061563--1061758	95	2.1	94	93	2	331	35	0	10	54	1.36
1061520--1061701	32	5.7	32	72	15	119	36	0	10	52	1.37
1061728--1061835	32	3.7	32	72	23	128	33	0	14	50	1.49

Tables:   1   2   3   4   5   6   7   8