genome.fa.s8241.2.7.7.80.10.50.1000.6.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: VEPZ01008241.1 Hibiscus syriacus cultivar Beakdansim tig00110889_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1355325

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 875 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)
912340--912418	33	2.4	33	84	0	95	12	17	20	49	1.79
912398--912473	20	3.8	20	75	8	82	11	15	17	55	1.69
913033--913243	20	10.4	20	75	9	194	19	17	24	38	1.92
913033--913243	41	5.2	41	89	1	300	19	17	24	38	1.92
913033--913243	61	3.5	60	74	11	205	19	17	24	38	1.92
913252--913305	21	2.6	21	85	2	74	12	14	24	48	1.79
913293--913387	20	4.6	21	68	13	63	21	18	27	32	1.97
913490--913517	14	2.0	14	100	0	56	64	7	0	28	1.20
917945--917971	14	1.9	14	100	0	54	55	22	7	14	1.64
920080--920136	13	4.2	13	78	12	60	47	15	3	33	1.63
921058--921187	41	3.2	41	69	8	120	36	18	20	25	1.95
921058--921227	82	2.1	83	87	1	243	34	18	21	25	1.96
921088--921227	41	3.4	40	72	14	124	35	20	21	22	1.96
921946--921985	21	1.9	21	100	0	80	32	15	15	37	1.88
923206--923231	12	2.2	12	100	0	52	26	42	0	30	1.56
927317--927452	42	3.3	43	77	10	122	27	25	18	28	1.98
927301--927452	42	3.7	42	70	20	106	26	23	20	29	1.99
928766--928837	38	1.9	36	86	5	99	52	23	2	20	1.59
928767--928827	18	3.3	18	68	6	50	52	22	3	21	1.61
928776--928853	18	4.0	20	72	13	56	55	20	2	21	1.56
928817--929036	73	3.0	73	68	18	195	55	25	0	17	1.48
929019--929080	20	3.0	19	80	17	70	53	24	0	22	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
929020--929066	22	2.1	23	96	4	87	59	21	0	19	1.38
928872--929309	173	2.6	167	90	8	676	52	26	1	20	1.54
929201--929250	20	2.6	19	84	6	64	44	28	2	26	1.65
934064--934468	203	2.0	201	97	1	767	30	19	18	32	1.95
938339--938402	2	32.5	2	96	3	121	51	0	0	48	1.00
938526--938597	20	3.6	20	73	12	67	31	29	16	22	1.96
938566--938611	20	2.3	20	92	0	74	36	23	19	19	1.95
938871--938925	20	2.8	20	82	0	74	20	23	21	34	1.97
941771--941799	2	14.5	2	100	0	58	48	0	0	51	1.00
948114--948189	38	2.0	38	100	0	152	31	15	21	31	1.94
948244--948282	17	2.3	17	81	0	51	41	2	0	56	1.13
948366--948455	37	2.4	37	84	0	108	42	16	10	31	1.81
948982--949024	17	2.8	14	78	21	50	18	9	4	67	1.36
949165--949204	9	4.6	9	84	3	55	25	2	0	72	0.97
949126--949205	22	3.7	23	73	15	71	27	3	0	68	1.06
949159--949204	18	2.6	17	83	6	56	26	2	0	71	0.97
949083--949202	13	10.1	12	66	21	58	28	4	1	65	1.20
952876--952951	8	9.7	7	76	19	55	80	7	10	1	0.97
952875--952951	16	4.8	16	76	19	72	79	9	10	1	1.00
952876--952926	8	6.2	8	80	11	59	82	5	11	0	0.83
952876--952951	32	2.4	32	81	14	86	80	7	10	1	0.97
953720--953796	22	3.5	22	92	0	127	36	27	15	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
954597--956396	106	17.0	106	90	1	2758	34	25	17	23	1.96
957482--957558	29	2.8	28	78	9	77	32	5	1	61	1.26
973272--973304	2	16.5	2	100	0	66	48	0	0	51	1.00
976099--976188	33	2.7	33	96	0	171	14	16	6	62	1.52
976108--976159	26	2.0	26	82	14	63	15	17	7	59	1.58
980431--980475	21	2.2	21	84	4	56	35	13	20	31	1.91
982146--982190	16	2.9	16	78	18	51	2	31	2	64	1.18
983945--983983	11	3.6	11	82	3	53	56	0	43	0	0.99
984295--984328	16	2.1	17	88	5	52	64	0	0	35	0.94
992320--992361	20	2.2	19	87	12	59	42	4	0	52	1.22
992398--992435	19	2.0	19	100	0	76	47	15	5	31	1.68
995182--995400	109	2.0	110	96	2	406	30	20	16	31	1.95
995786--995936	73	2.1	73	97	2	286	54	6	6	31	1.52
997198--997222	13	1.9	13	100	0	50	36	16	16	32	1.90
998760--998881	39	3.1	39	96	0	217	48	16	6	28	1.71
999032--999086	18	3.0	17	81	7	56	30	16	7	45	1.74
1001762--1001828	30	2.3	29	82	5	80	34	8	5	50	1.58
1004014--1004065	26	2.0	26	96	0	95	48	28	7	15	1.73
1008804--1008849	19	2.5	18	86	6	65	30	2	2	65	1.16
1008813--1008878	23	2.9	23	84	6	82	28	6	4	60	1.40
1008741--1008852	4	26.8	4	68	18	59	26	2	4	66	1.24
1010997--1011056	27	2.2	27	90	0	93	21	13	5	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011095--1011180	18	4.9	17	84	5	118	38	1	5	54	1.32
1011095--1011180	35	2.5	35	96	0	154	38	1	5	54	1.32
1022811--1022863	21	2.5	21	93	0	88	24	35	5	33	1.79
1023007--1023041	2	17.5	2	100	0	70	51	0	0	48	1.00
1023494--1023555	21	3.0	21	80	4	72	45	16	3	35	1.63
1023945--1023999	20	2.8	20	91	0	83	40	5	23	30	1.77
1024434--1024486	21	2.5	21	84	0	70	20	22	18	37	1.94
1024476--1024607	20	6.7	20	80	4	151	40	18	18	22	1.92
1024476--1024581	41	2.6	40	83	1	131	40	19	17	21	1.91
1024755--1024816	22	2.8	22	87	0	97	29	35	11	24	1.90
1024995--1025058	20	3.2	20	88	0	92	26	18	23	31	1.98
1025049--1025162	20	5.7	20	84	2	147	22	19	18	39	1.92
1025029--1025162	40	3.3	38	80	9	133	23	19	18	38	1.93
1025049--1025162	41	2.8	40	86	1	147	22	19	18	39	1.92
1025159--1025204	21	2.2	21	92	0	74	39	17	26	17	1.91
1031198--1031323	60	2.1	60	83	2	155	44	3	18	34	1.66
1031626--1031694	14	5.2	14	81	13	92	10	13	26	50	1.72
1031626--1031701	38	2.0	38	94	0	134	10	13	25	51	1.72
1031624--1031680	24	2.4	24	90	0	87	12	12	24	50	1.74
1031664--1031714	24	2.1	24	85	0	66	11	11	21	54	1.68
1031631--1031714	38	2.2	38	89	0	123	13	11	21	53	1.71
1032636--1032699	16	4.0	16	68	22	53	12	10	18	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1032764--1032796	16	2.1	16	94	0	57	9	12	21	57	1.62
1045686--1045749	30	2.1	30	97	0	119	43	18	12	25	1.85
1050063--1050098	2	18.0	2	100	0	72	50	0	0	50	1.00
1051203--1051239	17	2.2	17	100	0	74	45	5	16	32	1.70
1060390--1060440	24	2.0	26	92	7	88	37	11	13	37	1.82
1062015--1062137	61	2.0	62	95	4	223	28	11	24	35	1.90
1063341--1063382	21	1.9	23	85	9	61	35	4	9	50	1.56
1063687--1063763	20	3.9	20	91	3	120	22	35	23	19	1.96
1063686--1063763	39	2.0	39	92	0	129	23	34	23	19	1.96
1066786--1066874	32	2.7	34	77	17	82	51	12	0	35	1.40
1066849--1066931	2	42.0	2	97	2	159	50	0	0	49	1.00
1067862--1067899	20	1.9	20	94	0	67	26	23	18	31	1.97
1067926--1068027	46	2.3	45	81	8	120	28	22	14	34	1.94
1068706--1068752	24	2.0	24	87	8	69	57	12	19	10	1.64
1072148--1072186	20	2.0	20	89	0	60	20	15	33	30	1.94
1081549--1081587	17	2.4	17	87	8	55	51	0	0	48	1.00
1082312--1082413	30	3.5	30	81	9	129	38	10	11	39	1.77
1084542--1084591	25	1.9	27	84	8	68	50	8	0	42	1.32
1085820--1085869	21	2.3	21	96	3	91	42	4	8	46	1.52
1092038--1092079	19	2.2	19	100	0	84	35	23	14	26	1.93
1092038--1092092	19	2.9	19	91	0	65	34	25	14	25	1.94
1092119--1092207	20	4.4	20	76	10	92	28	26	19	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093271--1093307	14	2.6	14	91	4	56	51	21	21	5	1.68
1095785--1095841	20	2.8	21	89	10	84	49	21	15	14	1.80
1096256--1096310	22	2.5	22	90	0	92	16	14	45	23	1.84
1098461--1098502	15	2.8	15	100	0	84	23	28	33	14	1.94
1104749--1104816	33	2.1	33	100	0	136	36	25	14	23	1.93
1107167--1107237	22	3.2	20	82	11	70	39	2	1	56	1.23
1107179--1107239	10	5.9	11	84	11	69	42	3	0	54	1.17
1107203--1107239	2	18.5	2	100	0	74	48	0	0	51	1.00
1107392--1107437	12	3.6	13	80	13	51	17	0	4	78	0.91
1108676--1108708	15	2.3	15	89	5	50	36	0	3	60	1.12

Tables:   1   2   3   4   5   6   7   8