genome.fa.s7850.2.7.7.80.10.50.1000.6.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1055 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)
959128--959153	13	2.0	13	100	0	52	30	38	7	23	1.83
959214--959274	28	2.3	26	81	18	72	37	0	3	59	1.14
959213--959286	27	2.6	30	76	23	88	39	0	2	58	1.13
959626--959674	2	27.0	2	80	19	63	48	0	0	51	1.00
959626--959674	15	3.5	15	89	10	70	48	0	0	51	1.00
959634--959674	17	2.5	17	92	4	66	48	0	0	51	1.00
960870--960898	15	2.0	15	93	6	51	34	0	0	65	0.93
961101--961125	2	12.5	2	100	0	50	48	0	0	52	1.00
961112--961171	17	3.4	17	77	15	52	53	1	0	45	1.10
966646--966694	2	25.0	2	95	4	91	51	0	0	48	1.00
969760--969865	52	2.0	53	98	1	205	11	16	32	39	1.85
971805--971897	3	30.7	3	76	10	82	58	0	1	40	1.05
974154--974191	15	2.5	15	83	8	51	60	2	10	26	1.43
975302--975425	18	6.9	18	88	0	185	26	31	21	20	1.98
978317--978369	3	17.7	3	100	0	106	67	0	0	32	0.91
980983--981047	31	2.1	31	88	0	94	38	15	3	43	1.62
991369--991436	7	9.7	7	73	12	59	27	1	22	48	1.59
991369--991436	21	3.2	21	85	4	84	27	1	22	48	1.59
991959--992015	11	5.4	11	72	16	57	38	1	0	59	1.08
994847--994890	2	22.0	2	100	0	88	50	0	50	0	1.00
996972--997019	25	1.9	25	91	0	78	45	0	0	54	0.99
997261--997318	31	1.9	31	96	3	109	51	10	8	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
998505--998552	13	3.7	13	88	0	78	16	47	16	18	1.82
998504--998559	26	2.2	26	93	0	94	17	44	17	19	1.87
1002171--1002311	37	3.8	37	87	0	183	44	14	9	31	1.76
1002872--1002903	2	16.0	2	100	0	64	50	0	0	50	1.00
1002881--1003032	51	2.9	50	73	14	121	30	1	2	65	1.15
1002959--1003019	3	19.7	3	83	12	63	32	1	0	65	1.02
1002905--1003019	13	8.6	13	73	16	85	29	1	1	66	1.11
1002891--1003039	32	4.3	33	77	15	117	30	1	2	65	1.14
1002957--1003077	32	3.9	31	74	23	96	24	3	0	71	1.07
1002905--1003023	19	5.9	19	72	15	89	29	1	1	67	1.10
1002977--1003075	13	7.6	13	73	20	59	22	3	1	73	1.03
1006137--1006194	31	1.9	29	83	13	73	74	5	17	3	1.15
1007894--1008123	116	2.0	116	86	1	318	32	24	19	24	1.98
1008212--1008255	21	2.0	22	91	4	72	31	18	9	40	1.81
1008227--1008490	37	7.3	36	75	16	253	27	18	13	40	1.88
1008543--1008625	35	2.3	36	89	2	123	44	14	8	32	1.75
1009223--1009324	37	2.8	37	92	0	168	41	16	11	30	1.84
1009923--1010005	40	2.1	40	86	10	118	32	2	1	63	1.15
1014491--1014720	116	2.0	116	92	1	381	31	24	20	23	1.98
1014809--1014888	21	4.0	21	72	20	82	28	20	11	40	1.86
1014827--1015123	36	8.2	36	78	13	299	26	19	13	40	1.88
1014931--1015123	37	5.1	37	84	9	248	25	19	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1015177--1015289	34	3.3	34	96	2	201	39	16	8	34	1.80
1015887--1015998	37	3.0	37	90	0	170	42	13	13	30	1.82
1016471--1016531	31	1.9	33	83	9	83	21	8	1	68	1.24
1016466--1016535	31	2.3	29	77	15	70	18	8	1	71	1.19
1016570--1016703	4	33.8	4	73	16	57	27	1	1	69	1.06
1016547--1016652	45	2.5	42	86	9	135	33	0	2	62	1.16
1016526--1016676	43	3.3	45	77	13	148	29	1	2	65	1.17
1016649--1016715	21	2.8	22	75	20	64	16	4	1	77	1.00
1016645--1016721	25	3.1	22	72	22	57	18	5	1	75	1.06
1016615--1016732	28	4.3	27	76	17	100	20	3	1	74	1.05
1017455--1017496	20	2.1	20	100	0	84	28	14	4	52	1.62
1018994--1019068	34	2.2	34	87	0	105	14	8	21	56	1.64
1019004--1019080	34	2.3	34	84	4	93	14	10	19	55	1.67
1019262--1019310	23	2.1	23	84	0	62	14	10	18	57	1.65
1019327--1019411	37	2.3	38	83	6	102	10	14	17	57	1.64
1023327--1023428	34	2.9	35	91	5	161	33	16	13	36	1.88
1024016--1024801	394	2.0	389	93	5	1336	34	11	15	38	1.84
1034714--1034772	17	3.4	17	77	9	73	15	23	42	18	1.88
1034720--1034780	19	3.3	19	77	4	72	13	26	42	18	1.86
1034767--1034827	9	6.3	9	76	14	59	34	27	24	13	1.93
1037355--1037418	22	3.0	21	86	6	83	26	23	23	26	2.00
1040533--1040648	35	3.3	35	91	1	187	33	14	14	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041757--1041814	28	2.1	28	87	6	82	22	8	10	58	1.58
1044535--1044571	17	2.2	18	85	9	51	35	0	13	51	1.41
1044635--1044702	25	2.8	25	82	4	86	61	16	10	11	1.56
1044654--1044700	24	1.9	25	95	4	87	61	12	12	12	1.57
1049854--1049929	21	3.6	21	78	7	91	27	11	22	38	1.89
1049922--1050012	23	4.0	23	83	0	101	18	20	24	36	1.95
1053707--1053737	12	2.6	12	89	0	53	12	16	9	61	1.56
1053726--1053773	17	2.8	17	78	6	53	12	14	10	62	1.54
1053879--1053996	48	2.4	48	81	8	130	28	15	20	35	1.93
1055818--1055844	13	2.1	13	100	0	54	40	14	14	29	1.86
1060345--1060419	31	2.4	31	86	0	96	54	12	10	22	1.67
1060661--1060710	16	3.1	16	94	5	84	36	6	42	16	1.72
1067644--1067705	27	2.2	28	97	2	117	38	43	8	9	1.67
1070412--1070471	29	2.1	29	100	0	120	13	23	6	56	1.60
1075869--1075929	31	2.0	31	90	0	95	34	1	16	47	1.56
1076391--1076438	23	2.1	23	88	0	69	35	12	18	33	1.89
1077162--1077198	18	2.1	18	89	0	56	51	10	5	32	1.60
1077397--1077461	23	2.8	23	90	0	94	38	18	7	35	1.80
1077814--1077885	23	3.2	22	86	4	90	38	20	5	34	1.76
1077399--1078412	427	2.4	427	98	1	1980	37	13	8	40	1.75
1078241--1078292	23	2.3	22	90	6	77	44	19	1	34	1.62
1078251--1078313	23	2.7	23	90	0	90	38	19	6	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1079089--1079732	197	3.2	199	97	1	1231	32	15	15	37	1.89
1079823--1079867	19	2.4	19	92	0	72	57	8	2	31	1.41
1081653--1081718	33	2.0	33	87	0	96	24	45	1	28	1.62
1083820--1083872	24	2.2	24	83	6	63	26	7	13	52	1.66
1084017--1084063	20	2.4	19	79	10	58	19	17	8	55	1.67
1084184--1084229	20	2.3	20	89	10	76	17	17	10	54	1.70
1085649--1085691	18	2.5	17	85	7	61	25	4	2	67	1.22
1085689--1085787	4	26.2	4	78	11	68	38	1	1	59	1.11
1085689--1085787	10	10.5	10	79	14	68	38	1	1	59	1.11
1085757--1085787	6	5.2	6	100	0	62	48	0	0	51	1.00
1087419--1087455	19	1.9	19	89	10	58	8	24	0	67	1.17
1090955--1091483	175	2.9	183	91	5	878	27	20	21	31	1.98
1092641--1092752	36	3.1	34	71	10	82	25	16	13	43	1.85
1092624--1092798	72	2.4	75	83	6	207	27	18	12	42	1.85
1092892--1092966	39	1.9	39	83	5	98	26	22	13	37	1.91
1092869--1093188	106	3.1	105	92	3	515	30	20	12	36	1.89
1093088--1093163	36	2.1	36	90	0	116	22	21	15	40	1.90
1093332--1093993	105	6.3	105	90	2	920	33	26	18	21	1.96
1094540--1094603	21	3.3	21	62	20	57	42	15	14	28	1.86
1094536--1094620	37	2.3	37	85	0	125	40	16	14	29	1.88
1094998--1095040	18	2.5	17	85	7	61	25	4	2	67	1.22
1094981--1095113	54	2.5	53	77	14	128	32	3	2	62	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100662--1100689	12	2.3	12	100	0	56	7	7	10	75	1.20
1101645--1101700	2	28.0	2	100	0	112	50	0	0	50	1.00
1101774--1101803	13	2.3	13	94	0	51	33	10	23	33	1.88
1102602--1102981	185	2.1	181	91	4	602	46	8	3	41	1.52
1122711--1122745	17	2.1	17	88	0	52	51	0	0	48	1.00
1123636--1123685	26	2.0	25	84	4	64	70	0	14	16	1.18
1124228--1124411	85	2.2	82	86	6	246	56	10	2	30	1.45
1124228--1124366	43	3.3	42	70	17	108	56	10	1	30	1.42
1125843--1125904	21	3.0	21	92	4	99	40	19	35	4	1.73
1127893--1127931	20	1.9	21	89	5	62	58	0	0	41	0.98

Tables:   1   2   3   4   5   6   7   8   9