genome.fa.s8495.2.7.7.80.10.50.1000.5.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2505 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)
944149--944320	81	2.1	81	79	6	188	31	23	11	33	1.91
944128--944320	40	4.8	40	76	5	156	31	24	11	32	1.91
944212--944340	20	6.5	20	72	15	90	29	21	12	36	1.90
945239--945285	24	2.0	24	95	0	85	27	21	17	34	1.95
947527--947556	6	5.0	6	91	0	51	63	20	0	16	1.31
947527--947563	18	2.1	18	94	0	65	59	24	0	16	1.37
947811--947872	20	3.1	20	76	0	70	27	20	17	33	1.96
947979--948018	14	2.9	14	96	0	71	42	22	0	35	1.54
947936--948081	65	2.3	64	89	2	213	50	18	0	30	1.52
948060--948092	13	2.4	14	95	5	59	48	21	0	30	1.50
949449--949489	21	2.0	21	95	0	73	24	19	36	19	1.95
949869--949918	21	2.4	21	82	0	64	34	30	14	22	1.93
951442--951484	20	2.2	20	82	0	50	13	16	20	48	1.80
951810--951867	22	2.6	22	86	0	89	20	18	41	18	1.91
952012--952060	20	2.5	20	100	0	98	16	14	24	44	1.84
952051--952120	20	3.5	20	86	0	77	22	17	24	35	1.95
952087--952203	20	5.8	21	72	6	80	24	13	28	33	1.93
956202--956301	34	3.0	32	78	16	96	71	7	2	20	1.20
957847--957885	3	13.0	3	84	10	53	61	0	0	38	0.96
957846--957891	14	3.3	14	87	9	67	58	0	0	41	0.98
960847--961755	256	3.6	253	86	4	1122	32	15	16	35	1.91
961890--961937	3	15.7	3	79	12	53	33	2	0	64	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961893--961934	10	4.1	10	82	14	50	33	2	0	64	1.07
963051--963102	22	2.5	22	90	6	81	36	13	19	30	1.90
962976--963173	94	2.1	95	84	4	258	38	15	20	24	1.92
962978--963198	94	2.4	94	82	4	250	38	15	20	25	1.91
963519--963686	55	3.0	55	81	4	160	33	11	23	31	1.90
963519--963642	55	2.2	56	82	5	162	34	12	23	29	1.91
963898--964150	68	3.7	68	90	1	382	31	15	24	29	1.95
964101--964588	81	6.0	81	86	0	627	36	12	21	28	1.91
964120--964647	244	2.2	243	82	2	585	38	11	21	28	1.88
964720--964772	2	26.5	2	100	0	106	50	0	0	49	1.00
969021--969180	55	2.9	54	84	4	187	33	10	23	32	1.88
969392--969645	68	3.7	68	88	0	346	33	14	22	29	1.94
969599--970044	81	5.5	81	89	1	608	36	12	22	28	1.90
971067--971111	23	2.0	23	100	0	90	31	22	13	33	1.92
977592--977633	22	1.9	22	90	0	66	42	7	23	26	1.80
978363--978459	31	3.1	31	92	0	167	35	22	15	26	1.94
978638--978791	31	5.0	31	92	0	227	38	23	16	21	1.93
998586--998619	6	5.7	6	90	10	52	11	2	0	85	0.71
998586--998619	13	2.8	12	91	8	52	11	2	0	85	0.71
1003493--1003551	21	2.8	21	92	0	91	40	25	10	23	1.86
1024454--1024511	28	2.1	28	96	0	107	41	6	15	36	1.74
1033067--1033099	13	2.3	15	90	10	52	18	3	0	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034393--1034534	68	2.1	68	81	10	161	53	1	0	44	1.14
1034555--1034599	22	2.0	23	83	16	58	48	0	2	48	1.13
1034974--1035058	42	2.0	42	100	0	170	30	20	23	25	1.98
1034979--1035070	42	2.2	42	90	3	143	32	19	22	25	1.97
1036039--1036077	20	2.0	20	90	10	62	69	0	0	30	0.89
1036130--1036169	3	13.3	3	84	10	55	32	5	30	32	1.79
1037847--1037887	20	2.0	20	100	0	82	36	9	19	34	1.85
1042723--1042802	35	2.2	36	91	6	128	30	37	3	28	1.75
1042943--1042976	15	2.3	15	89	0	50	20	26	0	52	1.46
1046768--1046847	35	2.2	37	88	4	119	31	38	3	26	1.74
1066143--1067635	133	11.2	133	81	3	1532	32	16	20	31	1.94
1067524--1067727	92	2.2	92	84	1	266	30	18	19	31	1.96
1067391--1067860	225	2.1	225	85	3	615	31	17	21	30	1.96
1067258--1067993	358	2.1	358	82	4	905	31	16	21	30	1.96
1067616--1068139	133	3.9	133	83	2	638	31	17	21	29	1.96
1076199--1076273	29	2.5	30	77	16	84	57	8	9	25	1.57
1080236--1080479	131	1.9	131	83	3	321	43	13	7	35	1.73
1080251--1080539	131	2.2	131	79	6	300	43	12	8	35	1.73
1082378--1082432	25	2.2	25	83	6	67	9	23	41	25	1.83
1082512--1082557	3	15.0	3	86	4	65	60	0	4	34	1.16
1083300--1083351	25	2.0	26	85	3	70	50	25	7	17	1.72
1084465--1084587	34	3.7	31	84	7	120	18	26	26	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084492--1084584	34	2.7	34	96	0	168	15	26	25	32	1.95
1087288--1087333	24	1.9	24	82	8	58	43	0	6	50	1.28
1087787--1087822	16	2.3	16	90	4	56	13	0	5	80	0.88
1093118--1093287	57	3.0	57	92	1	272	37	7	24	31	1.82
1093352--1093416	22	2.9	22	80	11	78	35	10	10	43	1.75
1094113--1094435	44	7.3	44	68	13	198	42	15	19	22	1.89
1094237--1094391	45	3.5	44	71	18	140	40	16	21	21	1.92
1094106--1094444	176	1.9	177	84	2	457	41	15	19	23	1.90
1094113--1094460	89	3.9	89	85	2	416	41	15	19	23	1.89
1096077--1096122	24	1.9	24	82	8	58	43	0	6	50	1.28
1098821--1098863	18	2.4	18	80	0	50	37	2	2	58	1.24
1099521--1099549	11	2.7	11	94	5	51	37	0	0	62	0.96
1103102--1103268	42	4.3	41	73	21	144	25	22	14	37	1.92
1103133--1103268	42	3.5	41	73	24	150	24	22	16	37	1.93
1103143--1103490	73	4.8	73	84	2	432	26	20	16	37	1.93
1103435--1103531	41	2.4	41	96	0	185	19	22	16	41	1.90
1103606--1104007	136	2.9	136	83	2	486	26	15	27	31	1.96
1104072--1104216	62	2.3	62	81	6	161	31	14	24	29	1.94
1109298--1109346	21	2.4	21	82	3	55	38	20	16	24	1.92
1109449--1109520	31	2.3	31	92	0	117	37	15	6	40	1.74
1113836--1113881	20	2.3	19	85	14	58	50	8	15	26	1.73
1124114--1124159	20	2.3	19	85	14	58	50	8	15	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1126129--1126271	28	5.7	24	70	17	78	46	1	2	49	1.22
1126135--1126199	23	2.9	23	82	11	73	44	1	0	53	1.09
1126371--1126414	22	2.0	22	86	4	61	54	2	2	40	1.25
1126379--1126430	22	2.4	21	81	9	59	51	3	0	44	1.19
1126714--1126740	14	1.9	14	100	0	54	48	22	0	29	1.51
1126748--1126777	14	2.1	14	93	0	51	36	20	6	36	1.79
1126678--1126781	49	2.1	50	83	5	131	40	17	7	34	1.78
1143101--1143139	18	2.2	18	90	0	60	43	35	7	12	1.72
1147012--1147115	47	2.2	47	89	0	163	31	22	4	41	1.74
1151266--1151308	22	1.9	23	90	4	70	23	6	6	62	1.45
1152203--1152245	18	2.4	18	88	0	59	69	0	9	20	1.15
1154993--1155051	30	2.0	30	86	6	84	18	23	15	42	1.88
1162043--1162098	26	2.2	26	90	0	85	16	23	41	19	1.90
1171037--1171067	15	2.1	15	93	0	53	45	0	0	54	0.99
1171223--1171280	20	2.9	20	86	0	80	20	25	12	41	1.87
1171894--1171998	37	2.8	37	82	0	129	39	14	14	32	1.86
1176354--1176420	23	2.9	23	82	6	82	77	7	13	1	1.04
1176355--1176430	23	3.3	22	80	7	80	77	7	13	1	1.04
1177022--1177076	22	2.5	22	96	0	101	36	25	12	25	1.91
1178039--1179314	106	12.0	106	91	0	1978	34	25	17	22	1.96
1180064--1180168	37	2.8	37	85	0	138	39	15	13	32	1.86
1182090--1182127	15	2.6	15	83	4	51	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1182113--1182164	23	2.2	23	86	3	68	48	1	0	50	1.12
1185442--1185503	12	4.8	12	77	16	61	72	1	1	24	1.02
1185436--1185495	22	2.8	22	75	7	61	75	1	1	21	0.99
1185436--1185503	6	10.2	6	77	17	55	73	1	1	23	1.00
1185718--1186158	132	3.3	131	84	5	564	32	18	18	30	1.95
1186151--1186918	45	17.8	45	78	6	528	40	19	18	21	1.91
1186151--1186918	90	8.9	87	80	6	599	40	19	18	21	1.91
1186649--1187069	38	10.7	37	79	9	342	39	17	17	25	1.91
1186525--1186961	80	5.3	79	81	8	391	40	17	17	24	1.91
1186333--1186995	118	5.3	119	80	10	451	40	18	17	23	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21