genome.fa.s8823.2.7.7.80.10.50.1000.5.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: VEPZ01008823.1 Hibiscus syriacus cultivar Beakdansim tig00111993_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1111368

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 638 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)
858509--858546	8	4.5	8	87	12	58	76	0	13	10	1.02
859420--859981	240	2.3	240	93	0	955	37	17	19	25	1.94
859899--860073	91	1.9	92	91	3	291	39	16	20	24	1.92
859659--860313	332	2.0	330	89	3	994	37	17	19	25	1.93
860441--860489	3	16.7	3	91	4	82	36	0	0	63	0.95
863154--863236	30	2.8	30	80	10	98	13	7	15	63	1.49
863932--864082	75	2.0	75	100	0	302	29	22	19	27	1.98
866535--866638	30	3.5	30	71	10	88	23	9	9	57	1.60
868751--869127	36	10.5	36	81	2	328	39	16	12	31	1.86
868751--869015	107	2.5	108	88	2	390	41	16	10	32	1.82
869945--870007	21	3.1	21	71	13	51	39	20	9	30	1.84
869945--870026	40	2.0	40	85	0	110	37	21	10	29	1.88
869916--870033	19	6.1	19	78	5	121	33	22	11	33	1.89
871260--871327	35	1.9	35	85	11	95	30	16	25	27	1.96
871311--871348	20	1.9	20	88	0	58	26	21	26	26	1.99
873954--874044	45	2.0	44	81	10	105	31	20	18	28	1.97
877856--877895	21	1.9	21	85	10	55	35	7	2	55	1.42
879341--879381	20	2.0	20	100	0	82	29	36	9	24	1.87
879822--879870	19	2.6	19	87	9	66	32	18	24	24	1.97
879824--879998	64	2.7	63	79	6	174	32	17	20	29	1.95
879955--880017	18	3.6	18	73	18	69	26	15	26	30	1.96
883091--883168	3	27.0	3	82	7	90	37	0	1	61	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
883098--883146	25	1.9	26	87	4	73	42	0	0	57	0.99
884129--884168	17	2.2	18	86	8	55	27	2	5	65	1.27
884728--884755	2	14.0	2	100	0	56	50	0	0	50	1.00
885989--886176	29	6.5	28	80	7	157	49	12	1	36	1.51
885989--886149	29	5.6	29	81	7	168	49	11	0	38	1.44
887360--887387	13	2.2	13	100	0	56	17	25	28	28	1.98
887967--887994	3	9.3	3	100	0	56	32	0	0	67	0.91
888090--888122	11	2.8	12	86	13	50	69	0	6	24	1.10
888183--888212	15	2.0	15	93	0	51	66	3	0	30	1.07
888368--888402	16	2.1	17	89	5	54	31	0	0	68	0.90
888612--888671	30	2.0	30	83	6	77	43	0	6	50	1.28
901947--902732	122	6.4	122	92	0	1329	39	16	19	24	1.92
902897--902988	15	6.3	15	74	22	58	31	1	0	67	0.98
902909--902995	3	30.0	3	88	6	135	33	1	0	65	1.00
902895--902993	43	2.3	43	86	13	143	31	1	0	67	0.97
904283--904311	8	3.6	8	100	0	58	48	0	0	51	1.00
904364--904634	145	1.9	145	82	4	341	38	6	7	47	1.57
904587--904656	28	2.4	29	79	9	72	58	4	0	37	1.18
905758--905961	36	5.7	36	76	3	151	39	15	11	33	1.83
905752--905961	72	2.9	71	79	6	208	40	15	11	32	1.83
911551--911965	205	2.0	206	99	0	823	20	16	35	28	1.94
912928--913369	220	2.0	220	100	0	884	33	18	15	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
914423--914554	66	2.0	66	100	0	264	22	13	21	42	1.88
917462--917560	30	3.3	30	87	1	128	31	25	20	23	1.98
917483--917596	30	3.8	30	81	6	88	31	22	20	25	1.98
917516--917610	31	3.1	32	82	7	90	34	22	20	23	1.96
922558--922656	30	3.3	30	90	1	137	33	26	17	23	1.96
922642--922706	31	2.1	31	82	5	78	36	23	16	23	1.94
927148--927187	21	2.0	20	85	5	53	27	15	20	37	1.92
932420--932448	14	2.1	14	100	0	58	48	6	13	31	1.69
934573--934649	38	2.0	38	97	0	145	33	18	22	25	1.96
945396--945441	21	2.2	21	92	7	76	30	21	21	26	1.99
946211--946277	23	3.0	23	85	12	95	41	23	8	25	1.83
949190--949240	20	2.5	21	81	6	61	27	9	3	58	1.47
950890--951255	143	2.6	140	86	6	510	36	17	9	36	1.83
958082--958124	19	2.3	19	84	8	52	51	4	2	41	1.35
958191--958228	13	3.0	13	85	14	53	78	0	5	15	0.91
959395--959453	24	2.5	24	97	0	109	23	0	40	35	1.55
959395--959463	24	3.0	23	91	6	88	26	0	39	34	1.57
959472--959527	4	14.5	4	78	17	57	71	0	1	26	0.96
959803--960005	43	4.7	44	70	14	136	23	17	33	25	1.96
959723--960045	40	7.6	41	68	18	144	25	17	32	24	1.96
959719--960075	129	2.8	129	88	3	513	25	17	32	24	1.97
959757--959965	46	4.8	45	71	11	164	24	16	33	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
960515--960623	36	3.0	35	87	9	157	37	12	21	28	1.90
962937--962970	12	2.8	12	100	0	68	0	23	5	70	1.09
969543--969592	3	16.3	3	87	4	73	40	0	0	60	0.97
969538--969593	9	6.4	9	81	8	62	42	0	0	57	0.99
970594--970635	20	2.1	20	86	0	57	40	7	2	50	1.43
970947--970988	2	21.0	2	100	0	84	50	0	0	50	1.00
972354--972396	16	2.8	14	80	19	50	18	6	0	74	1.04
978435--978585	78	1.9	78	84	6	198	32	16	23	27	1.96
978470--978588	37	3.1	38	75	9	107	33	15	21	29	1.94
979380--979541	54	3.0	54	88	1	227	37	14	20	28	1.91
980656--980761	47	2.3	47	91	0	167	29	18	22	29	1.98
980769--980882	45	2.5	45	88	2	156	28	21	18	30	1.97
980603--981121	121	4.3	122	90	2	791	27	20	20	32	1.97
980814--980956	76	1.9	74	89	2	223	25	20	20	32	1.98
980890--981003	45	2.5	45	87	5	149	28	21	20	30	1.98
980935--981078	76	1.9	75	88	4	218	27	20	20	32	1.97
981011--981210	42	4.5	45	80	11	232	28	22	20	29	1.98
981129--981191	20	3.0	22	68	17	60	36	22	22	19	1.95
981012--981210	89	2.2	88	81	10	228	28	22	20	28	1.98
980890--981265	207	1.8	207	87	5	562	28	21	20	30	1.98
981439--981501	3	21.3	3	88	3	92	39	0	0	60	0.97
984146--984235	27	3.3	27	95	0	162	50	7	15	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
986174--986526	59	6.0	59	92	1	584	35	19	11	33	1.88
986946--986995	20	2.5	21	80	9	59	24	24	14	38	1.92
988769--988800	11	2.6	13	80	19	50	50	25	0	25	1.50
991238--991290	26	2.0	26	85	0	70	33	18	15	32	1.92
994582--994614	15	2.2	15	100	0	66	33	33	18	15	1.92
994726--994778	23	2.2	26	90	10	85	30	24	5	39	1.78
995130--995251	64	1.9	64	81	9	151	27	22	17	32	1.96
1000203--1000282	30	2.7	30	80	3	90	23	35	17	23	1.96
1003108--1003194	23	3.8	23	85	0	111	29	24	24	21	1.99
1003210--1003427	103	2.1	103	95	0	391	36	23	13	26	1.92
1004279--1004330	19	2.7	19	100	0	104	23	25	21	30	1.99
1008854--1008920	23	2.9	23	88	0	107	28	25	25	20	1.99
1008939--1009153	103	2.1	103	93	0	367	37	23	12	26	1.90
1009945--1010097	64	2.4	64	77	6	157	27	18	20	32	1.97
1016097--1016460	182	2.0	182	100	0	728	35	20	11	32	1.88
1022903--1022943	21	2.1	19	86	9	55	24	19	24	31	1.98
1027345--1027403	24	2.5	24	77	2	66	20	22	22	35	1.96
1036164--1036764	51	11.3	55	88	4	540	27	26	15	29	1.96
1036271--1036764	51	9.5	51	90	3	711	26	27	15	29	1.96
1036214--1036725	161	3.2	160	90	3	779	27	26	16	30	1.96
1038109--1038215	16	6.5	15	70	22	65	7	18	0	72	1.13
1038126--1038182	20	2.8	20	77	15	64	8	17	1	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038166--1038221	18	3.2	16	83	16	60	5	19	1	73	1.12
1038185--1038231	18	2.6	18	90	6	69	4	19	0	76	0.95
1050357--1050449	23	4.0	24	75	12	77	18	23	22	35	1.96
1069078--1069125	9	5.7	9	80	14	66	25	33	8	33	1.86
1069075--1069125	24	2.1	24	92	0	84	25	33	7	33	1.85
1071141--1071182	19	2.2	19	83	8	50	59	2	0	38	1.10
1073047--1073077	16	1.9	16	93	0	53	29	6	3	61	1.37
1077765--1077845	42	2.0	42	85	4	112	20	9	23	45	1.81
1077779--1077873	42	2.3	42	84	0	118	23	12	17	46	1.82
1079506--1079555	19	2.6	19	87	0	73	38	8	22	32	1.83

Tables:   1   2   3   4   5   6