genome.fa.s8428.2.7.7.80.10.50.1000.3.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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  3  of  30  ( 3508 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)
903630--903677	23	2.1	23	100	0	96	31	33	14	20	1.93
904588--904625	11	3.3	12	85	10	53	78	0	18	2	0.86
908619--908804	9	20.1	9	68	13	65	14	5	4	74	1.17
908711--908844	26	5.7	22	73	15	92	17	3	3	74	1.11
908711--908812	23	4.5	23	78	11	86	15	2	4	76	1.08
908615--908787	90	1.9	95	80	7	212	15	6	4	74	1.17
908709--908840	9	12.8	10	69	19	51	17	3	3	75	1.11
908768--908845	11	6.6	11	69	22	52	23	2	2	71	1.10
912537--912610	36	2.0	37	92	2	123	25	20	12	41	1.87
912613--912852	36	6.8	36	74	11	156	26	18	12	42	1.86
912534--912941	138	2.9	138	88	3	597	26	19	12	41	1.87
912766--912880	37	3.1	36	78	3	104	24	17	12	46	1.82
912794--912876	36	2.3	37	85	2	105	20	16	13	49	1.79
914774--914801	8	3.5	8	100	0	56	39	0	0	60	0.97
916681--916714	17	2.0	17	94	0	59	32	32	0	35	1.58
942609--942671	23	2.6	24	78	19	60	47	0	1	50	1.10
961170--961216	21	2.2	22	85	11	71	31	34	4	29	1.77
961178--961217	21	1.9	21	100	0	80	30	37	2	30	1.71
961284--961334	25	2.1	24	85	3	66	15	11	0	72	1.12
966095--966136	21	1.9	23	90	9	70	78	4	11	4	1.06
972276--972327	3	17.7	3	84	11	72	36	1	0	61	1.07
974117--974144	10	2.8	10	100	0	56	17	7	0	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
974087--974146	26	2.3	26	80	11	70	20	5	1	73	1.11
974110--974173	24	2.6	24	81	13	69	15	6	3	75	1.14
974087--974145	15	4.1	15	75	16	54	20	5	1	72	1.12
975289--975321	17	1.9	17	93	0	57	6	12	9	72	1.26
977931--979094	106	11.0	106	94	0	1943	33	25	17	22	1.96
977931--979087	531	2.2	530	94	0	2026	33	25	17	22	1.96
979129--979317	84	2.2	84	86	0	261	29	26	20	22	1.99
979546--979614	3	23.3	3	81	8	79	37	2	0	59	1.12
981361--981455	14	6.9	14	69	14	56	15	7	3	73	1.18
981385--981431	24	1.9	25	82	4	60	14	6	4	74	1.17
981385--981437	25	2.1	25	82	6	63	15	7	3	73	1.20
990846--990887	19	2.0	20	82	13	50	57	4	19	19	1.58
991657--991796	36	3.9	37	77	15	118	43	4	10	41	1.59
991822--991892	34	2.1	34	89	0	106	45	2	8	43	1.49
991906--991999	39	2.3	40	85	7	129	43	6	7	42	1.58
993140--993189	6	7.3	7	86	10	52	48	2	0	50	1.12
993144--993182	2	20.0	2	94	5	71	48	0	0	51	1.00
993264--993312	2	24.5	2	95	0	89	46	0	2	51	1.12
993631--993683	18	2.8	20	77	13	67	32	5	18	43	1.74
993635--993698	20	3.3	20	80	6	78	32	4	21	40	1.74
993695--993745	21	2.4	21	90	0	84	39	15	17	27	1.90
993798--993846	21	2.3	21	89	0	71	36	16	18	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
993884--993942	21	2.8	21	89	2	82	32	16	25	25	1.97
996223--996291	23	3.0	23	85	6	95	14	23	24	37	1.92
1000477--1000527	21	2.4	21	76	0	57	21	19	23	35	1.96
1000604--1000662	23	2.6	23	91	0	91	13	25	27	33	1.93
1001709--1001756	19	2.5	20	86	3	62	47	6	14	31	1.69
1002799--1002863	20	3.3	19	72	18	53	36	10	20	32	1.87
1004007--1004044	19	2.0	19	85	10	51	50	15	0	34	1.45
1009553--1009593	16	2.5	17	80	11	50	51	0	9	39	1.35
1012134--1012198	22	3.1	22	69	13	73	47	10	9	32	1.70
1015698--1015865	91	1.9	91	87	1	248	22	16	33	26	1.95
1015834--1016028	43	4.5	43	74	12	193	23	20	33	23	1.97
1015824--1016151	40	7.7	42	72	14	210	24	19	32	23	1.97
1015746--1016114	129	2.8	129	92	3	598	24	19	32	23	1.97
1015685--1016154	86	5.4	86	73	13	293	24	18	32	24	1.97
1016180--1016242	28	2.2	28	86	5	83	44	12	14	28	1.82
1016200--1016275	28	2.6	28	82	14	93	46	11	15	26	1.81
1016277--1016466	66	2.9	65	71	11	154	37	14	18	29	1.90
1016881--1016960	40	2.0	40	88	9	119	37	11	20	31	1.87
1016942--1017067	65	2.0	64	87	1	180	42	11	14	32	1.81
1017235--1017460	67	3.5	64	84	6	258	45	12	11	30	1.77
1017300--1017426	37	3.6	36	69	16	106	44	11	11	32	1.76
1017575--1017793	27	7.9	28	85	7	261	45	15	11	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1017561--1017793	83	2.8	83	82	3	272	45	15	11	27	1.79
1017575--1017789	56	3.9	55	84	6	274	44	15	11	28	1.81
1018037--1018127	35	2.6	36	79	6	107	36	13	19	30	1.90
1018217--1018334	36	3.3	35	82	9	148	36	12	16	34	1.86
1018881--1018925	4	12.2	4	82	17	62	24	0	26	48	1.51
1018882--1018924	10	4.1	10	88	11	68	20	0	27	51	1.48
1018881--1018920	14	2.9	14	84	0	62	22	0	27	50	1.50
1020121--1020155	17	2.1	16	89	5	52	0	25	5	68	1.11
1026692--1026749	3	18.3	3	86	13	73	67	0	0	32	0.91
1027825--1027856	16	2.0	16	100	0	64	37	18	0	43	1.51
1027829--1027864	16	2.2	16	90	0	54	36	25	5	33	1.79
1028202--1028229	14	2.0	14	100	0	56	50	7	21	21	1.72
1030852--1031404	185	3.0	184	90	2	871	46	7	2	43	1.46
1031358--1031401	21	2.2	20	83	4	52	43	2	2	52	1.26
1031957--1032008	27	1.9	27	84	7	70	48	0	0	51	1.00
1031977--1032015	18	2.2	17	86	9	51	43	0	0	56	0.99
1032031--1032081	27	1.9	27	88	4	77	50	1	3	43	1.31
1032112--1032162	23	2.2	23	82	0	57	45	1	1	50	1.24
1032330--1032376	22	2.1	23	88	4	69	53	0	2	44	1.12
1032338--1032381	22	2.0	22	82	8	54	54	0	2	43	1.12
1039511--1039688	29	6.1	29	74	7	146	23	25	15	35	1.94
1039504--1039701	58	3.4	58	80	4	204	22	24	16	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1039587--1039710	29	4.3	29	84	0	140	25	24	14	35	1.93
1042451--1042716	135	2.0	134	81	3	311	33	15	9	41	1.79
1043455--1043493	17	2.3	17	100	0	78	41	7	0	51	1.31
1043710--1043764	6	9.2	6	100	0	110	65	18	0	16	1.27
1050825--1050933	33	3.3	33	77	7	114	17	27	22	32	1.97
1054677--1054736	28	2.1	28	93	0	102	61	15	15	8	1.55
1054742--1054773	2	16.0	2	100	0	64	50	0	0	50	1.00
1055247--1055275	3	9.7	3	100	0	58	68	0	0	31	0.89
1055177--1055670	249	2.0	249	98	0	961	40	14	16	28	1.88
1059770--1059794	11	2.3	11	100	0	50	16	36	8	40	1.77
1063390--1063434	23	2.0	23	90	0	72	24	26	26	22	2.00
1063402--1063716	149	2.1	149	94	2	553	32	21	18	26	1.97
1064602--1064636	18	1.9	18	88	11	54	22	17	5	54	1.64
1065217--1065261	21	2.1	21	87	0	63	15	24	28	31	1.96
1068514--1068558	23	2.0	23	86	0	63	26	24	26	22	2.00
1069576--1069610	18	1.9	18	88	11	54	22	17	5	54	1.64
1070191--1070235	21	2.1	21	87	0	63	15	24	28	31	1.96
1073790--1073843	8	6.5	8	83	8	63	0	18	1	79	0.82
1073788--1073843	16	3.5	15	88	11	76	0	19	1	78	0.84
1073789--1073843	25	2.2	24	84	12	76	0	20	1	78	0.85
1081653--1081730	22	3.3	22	67	25	59	57	5	6	30	1.45
1089061--1089096	18	2.0	18	88	0	54	44	11	8	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089813--1090327	278	1.9	278	94	0	906	37	12	13	35	1.83
1091256--1091771	278	1.9	279	92	1	865	37	13	13	35	1.84
1089604--1092985	722	4.7	722	96	0	6068	35	15	14	34	1.89
1097705--1097748	17	2.7	15	82	10	52	2	6	9	81	0.94
1128410--1128583	65	2.7	67	82	12	211	35	18	19	27	1.95
1129032--1129249	103	2.1	103	96	0	400	25	13	23	37	1.91
1129266--1129317	23	2.3	23	93	0	86	19	30	26	23	1.98
1129277--1129328	23	2.3	23	86	0	68	21	28	25	25	1.99
1131096--1131138	21	2.0	21	81	0	50	30	30	25	13	1.94
1131167--1131210	22	2.0	22	86	8	63	31	34	27	6	1.83

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