genome.fa.s8105.2.7.7.80.10.50.1000.6.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  6  of  30  ( 3521 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)
935965--936042	33	2.4	33	91	0	120	42	21	23	12	1.87
936061--936118	20	2.9	20	94	0	98	17	22	22	37	1.93
937002--937055	24	2.2	24	86	0	72	24	16	18	40	1.90
939545--939642	19	5.7	19	67	22	81	44	19	23	12	1.84
939549--939638	33	2.7	33	96	0	162	45	18	23	12	1.83
939654--939731	19	4.3	19	76	18	94	11	21	20	46	1.82
939837--939873	14	2.6	14	91	0	65	45	24	0	29	1.53
941228--941294	21	3.2	21	68	4	55	19	20	35	23	1.95
941228--941350	42	2.9	41	79	7	113	22	17	36	23	1.94
943344--943548	20	11.1	19	78	13	178	42	21	22	12	1.87
943393--943487	33	2.8	33	85	1	127	38	26	22	12	1.90
943459--943548	19	4.7	19	93	2	153	46	22	20	11	1.81
943459--943548	39	2.3	38	94	1	153	46	22	20	11	1.81
943544--943609	19	3.5	18	85	8	87	10	16	25	46	1.79
943555--943606	18	2.8	18	91	5	77	11	19	25	44	1.84
944128--944261	20	6.7	20	84	5	144	24	17	25	32	1.97
944128--944282	81	1.9	81	81	2	186	23	19	24	32	1.97
944332--944385	21	2.6	21	96	0	99	31	33	14	20	1.93
944332--944393	21	3.0	21	90	0	70	33	32	14	19	1.92
945373--945823	116	3.9	115	80	6	423	37	9	19	33	1.84
949821--949908	29	2.9	30	67	11	81	38	3	22	35	1.71
949821--949985	60	2.7	59	83	5	206	38	4	24	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
951546--951701	59	2.6	60	81	11	169	31	26	5	35	1.80
951546--951729	60	3.1	58	80	12	167	31	25	5	37	1.79
951745--951832	29	2.9	30	67	11	81	38	3	22	35	1.71
951745--951909	60	2.7	59	83	5	206	38	4	24	32	1.76
955258--955305	25	2.0	24	87	4	69	54	16	4	25	1.60
957400--957980	55	10.7	55	90	2	863	27	27	15	29	1.96
958981--959030	8	6.9	8	76	21	56	14	10	0	76	1.03
958983--959058	33	2.2	34	84	9	93	11	14	0	73	1.09
967828--968136	31	10.0	31	96	0	539	20	19	22	38	1.94
972454--972716	31	8.5	31	98	0	499	19	19	22	39	1.93
989232--989288	30	1.9	30	100	0	114	15	14	21	49	1.80
989861--989891	2	15.5	2	100	0	62	51	0	0	48	1.00
991455--991583	64	2.0	64	89	3	197	37	20	10	31	1.87
991781--991935	43	3.6	43	83	3	195	30	27	18	23	1.97
992098--992316	120	1.8	120	87	0	330	31	25	19	24	1.98
992162--992480	164	2.0	163	82	3	399	32	25	18	24	1.97
992483--993145	84	8.0	83	84	3	733	32	23	19	24	1.97
996824--996851	2	14.0	2	100	0	56	50	0	0	50	1.00
998526--998563	16	2.3	16	95	4	67	26	7	28	36	1.84
1008492--1008528	15	2.3	16	90	9	58	78	0	13	8	0.96
1009552--1010268	55	13.3	55	87	5	955	31	14	26	27	1.95
1009552--1010268	269	2.7	268	86	5	1018	31	14	26	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010262--1010414	55	2.9	52	83	7	186	30	21	24	23	1.99
1017279--1017382	45	2.3	45	86	8	140	42	9	13	34	1.77
1020665--1020778	60	1.9	60	82	7	142	31	14	16	37	1.88
1021837--1021996	53	3.0	53	94	2	279	38	11	17	32	1.85
1028558--1028584	14	1.9	14	100	0	54	7	14	18	59	1.58
1028634--1028682	17	3.0	15	76	21	53	40	20	2	36	1.64
1029704--1029826	63	2.0	63	82	6	151	25	28	28	17	1.98
1032625--1032663	7	5.3	7	88	11	60	25	25	35	12	1.92
1032624--1032663	15	2.7	15	100	0	80	25	25	37	12	1.91
1032666--1032714	13	3.8	13	91	0	80	16	18	46	18	1.84
1032653--1032688	18	2.0	18	94	0	63	11	22	47	19	1.80
1032624--1032666	8	5.6	8	89	10	72	23	25	37	13	1.92
1037143--1037168	2	13.0	2	100	0	52	50	0	0	50	1.00
1048733--1048793	29	2.1	29	96	0	113	14	13	34	37	1.85
1052884--1053467	289	2.0	289	93	0	1008	20	9	25	44	1.82
1054918--1054946	8	3.8	8	95	4	51	75	0	0	24	0.80
1055361--1055926	41	13.6	41	82	3	605	28	19	18	33	1.95
1055360--1055926	166	3.4	163	83	5	555	28	19	18	33	1.95
1055377--1055924	207	2.6	207	85	0	736	28	19	17	33	1.95
1056594--1056644	25	2.0	25	88	0	75	43	7	9	39	1.67
1056644--1056792	74	2.0	75	98	1	291	51	6	17	24	1.69
1063554--1063579	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063922--1064008	31	2.8	31	91	5	115	36	25	19	18	1.94
1063935--1064031	31	3.1	31	92	2	151	35	23	19	21	1.96
1067613--1067656	2	22.0	2	100	0	88	50	0	0	50	1.00
1068006--1068101	31	3.1	31	90	3	149	34	22	20	21	1.97
1070349--1070430	36	2.3	37	91	4	123	45	7	17	30	1.75
1070352--1070430	37	2.2	35	91	6	131	44	6	17	31	1.74
1070445--1070513	23	3.0	23	82	2	86	26	24	20	28	1.99
1070577--1070642	34	1.9	34	96	0	123	68	3	4	24	1.23
1070804--1070871	26	2.5	27	90	9	111	23	0	29	47	1.52
1070790--1070858	34	2.0	34	88	5	104	26	0	27	46	1.53
1070937--1070983	15	3.1	15	87	0	76	36	6	21	36	1.79
1070931--1071003	30	2.5	29	93	2	119	38	6	20	34	1.79
1071150--1071211	13	5.0	13	75	13	51	46	0	0	53	1.00
1071333--1071394	26	2.5	26	82	12	76	53	1	0	45	1.10
1071347--1071400	26	2.0	26	86	10	74	53	1	0	44	1.11
1071337--1071496	29	5.6	28	72	16	98	50	1	0	48	1.13
1071448--1071497	22	2.3	22	82	6	57	50	0	0	50	1.00
1071394--1071498	27	4.0	26	70	16	83	47	0	0	50	1.14
1071389--1071520	29	4.5	30	73	17	84	47	0	0	50	1.11
1071450--1071507	20	2.8	21	80	10	66	50	0	0	50	1.00
1071696--1071814	42	2.8	42	96	0	211	46	18	18	16	1.85
1074261--1074287	3	9.0	3	100	0	54	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075631--1075954	149	2.2	150	97	0	605	20	14	20	44	1.86
1080777--1080817	20	2.0	22	90	9	68	39	2	4	53	1.35
1080928--1080982	24	2.2	24	83	6	65	38	3	5	52	1.42
1080917--1081258	152	2.2	153	94	2	587	37	9	6	46	1.63
1086386--1086412	2	13.5	2	100	0	54	51	0	48	0	1.00
1087456--1087491	13	2.8	13	100	0	72	16	8	5	69	1.33
1088119--1088180	20	3.1	20	95	0	115	4	8	24	62	1.42
1088768--1088813	14	3.1	14	85	11	65	10	15	23	50	1.75
1089718--1089749	2	16.0	2	100	0	64	50	0	0	50	1.00
1094694--1094745	2	26.0	2	100	0	104	50	0	0	50	1.00
1109209--1109237	2	14.5	2	100	0	58	0	48	0	51	1.00
1109311--1109335	12	2.1	12	100	0	50	24	0	0	76	0.80
1114413--1114841	214	2.0	214	100	0	858	38	18	22	20	1.93
1115362--1115393	16	2.0	17	88	11	50	15	31	37	15	1.89
1115695--1115725	16	1.9	16	93	0	53	54	22	9	12	1.67
1115745--1115820	35	2.2	36	79	11	86	26	22	19	31	1.98
1117478--1117520	21	2.0	21	91	8	70	20	0	32	46	1.51
1117655--1117717	11	5.9	11	69	14	51	38	1	3	57	1.24
1123531--1123716	98	1.9	98	84	4	250	26	10	25	36	1.89
1123842--1124117	109	2.5	110	86	5	382	36	13	9	40	1.77
1126016--1126128	60	1.9	58	89	3	172	31	18	19	30	1.96
1130026--1130317	117	2.5	118	94	3	527	22	5	12	58	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130243--1130280	17	2.4	17	86	8	53	15	7	0	76	1.01
1130035--1130350	117	2.7	114	89	5	350	24	5	12	57	1.55
1137734--1137855	61	2.0	61	83	1	156	33	16	5	44	1.71
1141301--1141339	18	2.2	18	100	0	78	33	5	41	20	1.74
1141421--1141461	18	2.5	15	85	14	55	39	0	0	60	0.96
1141890--1141931	16	2.8	15	75	10	50	40	4	9	45	1.58
1142573--1142597	13	1.9	13	100	0	50	40	0	0	60	0.97
1143095--1143133	18	2.1	18	85	4	51	35	5	2	56	1.35
1147731--1147820	45	2.0	45	100	0	180	24	13	15	46	1.82
1149879--1149948	32	2.2	32	92	0	113	32	21	21	24	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30