genome.fa.s9623.2.7.7.80.10.50.1000.16.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

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

This is table  16  of  18  ( 2083 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)
2817743--2817783	15	2.8	14	85	10	55	0	12	4	82	0.81
2817744--2817784	21	2.0	21	90	4	66	0	14	4	80	0.87
2833472--2833527	29	1.9	29	100	0	112	25	14	12	48	1.78
2833803--2833869	24	2.7	24	95	4	116	23	28	13	34	1.93
2834476--2834508	2	17.0	2	87	6	50	51	0	0	48	1.00
2840116--2840440	162	2.0	162	96	2	609	42	9	12	34	1.76
2842052--2842081	8	3.8	8	95	0	51	50	0	26	23	1.50
2843709--2843774	24	2.8	24	70	19	66	24	25	24	25	2.00
2848069--2848101	13	2.5	13	86	13	50	63	3	0	33	1.10
2848066--2848105	10	3.9	10	83	3	53	65	2	0	32	1.06
2851060--2851091	16	2.0	16	93	0	55	40	12	21	25	1.88
2852372--2852429	26	2.2	27	85	11	77	44	1	0	53	1.10
2852409--2852494	28	2.9	28	80	14	95	32	1	1	65	1.08
2852416--2852492	31	2.5	31	81	10	93	33	1	1	63	1.11
2852434--2852490	15	3.5	17	76	16	66	33	0	1	64	1.04
2852416--2852510	16	6.0	16	74	14	72	32	2	2	63	1.18
2855964--2856026	21	3.0	21	95	0	108	20	26	22	30	1.98
2856057--2856110	18	2.9	18	88	2	81	24	16	37	22	1.94
2856408--2856447	21	1.9	21	89	0	62	50	10	10	30	1.69
2856771--2856808	20	1.9	20	88	0	58	36	10	13	39	1.79
2857151--2857232	26	3.3	26	64	19	75	53	19	7	19	1.68
2857128--2857233	48	2.2	48	100	0	212	52	19	7	19	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2858147--2858205	3	20.0	3	81	16	70	0	30	3	66	1.08
2859592--2859648	18	3.3	17	80	9	71	26	19	31	22	1.98
2861314--2861348	3	11.7	3	100	0	70	68	0	0	31	0.90
2867685--2867718	12	2.8	12	90	0	50	2	26	23	47	1.66
2868904--2868958	20	2.8	20	75	10	58	56	1	0	41	1.10
2871674--2871743	36	2.0	36	91	5	117	17	30	30	22	1.97
2878421--2878491	36	2.0	36	94	5	126	18	29	30	21	1.97
2885105--2885168	20	3.5	20	66	27	59	14	32	28	25	1.94
2885101--2885167	35	1.9	35	96	0	125	17	31	26	23	1.97
2891323--2891486	83	2.0	81	95	2	292	40	15	20	23	1.91
2891528--2891576	3	16.7	3	87	4	73	36	0	2	61	1.08
2893973--2894076	52	2.0	52	96	0	190	22	15	7	54	1.66
2904809--2904892	15	5.1	16	71	24	68	78	0	13	8	0.96
2904829--2904892	23	2.8	23	82	15	80	79	0	14	6	0.91
2904824--2904878	13	4.5	12	78	17	60	81	0	10	7	0.86
2904813--2904884	31	2.3	30	83	9	83	79	0	12	8	0.94
2904813--2904892	38	2.1	38	84	9	101	78	0	13	7	0.95
2904798--2904884	7	11.5	8	71	22	64	78	1	12	8	1.02
2904837--2904893	13	4.5	13	78	8	55	78	0	15	5	0.91
2905741--2906088	136	2.6	133	87	5	481	33	18	22	25	1.96
2905893--2906532	331	1.9	331	91	1	1034	37	16	20	24	1.93
2906660--2906699	3	13.7	3	89	5	64	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2907412--2907437	2	13.0	2	100	0	52	50	0	0	50	1.00
2920230--2920285	25	2.3	25	81	3	60	35	0	7	57	1.26
2933362--2933431	31	2.3	31	85	5	88	41	10	18	30	1.83
2936104--2936156	22	2.4	22	83	0	70	22	20	16	39	1.92
2937603--2937876	44	6.4	42	78	5	192	29	22	15	32	1.95
2937594--2937876	129	2.2	129	81	7	324	29	22	15	32	1.95
2940212--2940358	24	6.0	24	72	19	110	42	0	1	55	1.13
2940202--2940317	43	2.6	43	76	16	119	39	0	0	59	1.03
2940180--2940330	67	2.3	67	97	1	286	39	0	1	59	1.06
2940354--2940406	19	2.8	20	75	16	58	35	0	0	64	0.94
2940587--2940622	19	1.9	19	88	5	56	58	0	0	41	0.98
2940586--2940628	19	2.3	19	80	8	52	55	2	0	41	1.12
2940849--2940908	31	1.9	31	89	0	93	45	10	6	38	1.64
2951381--2951421	21	2.0	21	85	9	57	41	2	21	34	1.67
2952905--2952984	41	2.0	41	84	0	106	26	13	16	43	1.85
2957038--2957091	21	2.6	21	76	2	65	27	20	20	31	1.97
2956978--2957847	233	3.7	232	86	3	1117	32	17	17	32	1.93
2957650--2958034	187	2.1	186	86	1	529	30	19	18	31	1.96
2957836--2958281	232	1.9	229	83	4	565	32	19	17	31	1.94
2958133--2958221	41	2.1	42	83	2	108	26	23	20	29	1.99
2958596--2959084	134	3.7	134	81	3	563	30	24	15	29	1.96
2961723--2961757	17	2.0	18	88	5	54	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2961921--2962034	56	2.0	56	100	0	228	28	8	17	44	1.79
2961943--2962031	27	3.2	27	62	22	67	28	6	17	47	1.73
2961977--2962133	82	1.9	82	94	0	278	30	10	15	43	1.79
2962599--2962746	73	2.0	73	97	0	278	47	6	8	36	1.61
2965360--2965427	34	2.0	34	94	0	118	38	14	8	38	1.78
2969632--2969730	3	32.0	3	75	6	81	56	0	2	41	1.11
2969632--2969730	19	5.3	18	82	8	94	56	0	2	41	1.11
2969692--2969741	15	3.5	14	78	10	57	64	0	0	36	0.94
2969631--2969742	56	2.0	56	84	6	147	56	0	1	41	1.10
2969989--2970848	113	7.8	113	92	4	1325	26	19	15	38	1.91
2969992--2970857	440	2.0	443	89	5	1360	26	19	15	38	1.91
2971584--2971809	83	2.7	83	91	1	366	38	22	12	25	1.90
2972467--2972512	16	2.6	17	83	13	58	52	6	8	32	1.58
2972485--2972521	16	2.3	16	90	0	56	54	5	8	32	1.53
2972841--2972873	10	3.3	10	91	8	50	0	9	0	90	0.44
2985688--2985792	3	34.0	3	80	5	111	58	0	1	39	1.16
2993213--2993245	13	2.5	13	100	0	66	21	24	12	42	1.86
2994914--2994941	3	9.3	3	100	0	56	35	0	0	64	0.94
2995185--2995227	18	2.4	18	84	0	59	11	53	16	18	1.72
2997234--2997258	12	2.1	12	100	0	50	16	0	0	84	0.63
3001205--3001248	18	2.4	19	92	7	74	11	34	11	43	1.77
3002074--3002121	18	2.7	18	96	0	87	27	0	41	31	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3002276--3002475	100	2.0	100	100	0	400	37	12	20	31	1.89
3005652--3005968	160	2.0	159	95	4	577	36	10	11	41	1.76
3006350--3006867	137	3.8	137	86	1	689	35	25	14	25	1.94
3007023--3007050	3	9.3	3	100	0	56	35	0	0	64	0.94
3011052--3011093	2	21.0	2	100	0	84	50	0	0	50	1.00
3012677--3012719	22	2.0	22	85	0	59	23	2	2	72	1.08
3014907--3014931	13	1.9	13	100	0	50	48	8	0	44	1.32
3016778--3016903	63	2.0	63	100	0	252	30	12	17	39	1.87
3037838--3037885	23	2.1	23	88	7	71	37	8	4	50	1.52
3042325--3042677	189	1.9	188	80	7	412	30	17	11	40	1.86
3042909--3042973	3	21.0	3	90	6	103	33	0	0	66	0.92
3042915--3043018	12	7.8	13	78	16	90	38	1	0	59	1.08
3043985--3044026	22	2.0	22	82	13	54	26	16	9	47	1.77
3053753--3053833	10	9.1	9	70	25	57	39	3	1	55	1.25
3053783--3053830	25	2.0	24	91	4	78	43	0	0	56	0.99
3053743--3053833	20	4.4	20	69	25	66	39	3	1	56	1.23
3057379--3057414	18	1.9	19	88	5	56	38	0	0	61	0.96
3057987--3058017	2	16.0	2	93	6	55	51	0	0	48	1.00
3060162--3060236	38	2.0	38	89	0	114	32	22	10	34	1.89
3064927--3065068	45	3.2	42	75	14	126	40	6	13	39	1.70
3065359--3065489	39	3.4	39	88	3	167	36	3	9	49	1.54
3065522--3065643	39	3.2	37	74	12	95	41	3	12	42	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3065671--3065813	40	3.5	39	68	16	117	39	8	6	44	1.62
3065648--3065819	85	2.0	85	100	0	344	36	9	8	45	1.66
3067350--3067387	19	2.0	20	84	5	51	36	0	23	39	1.55
3075153--3075205	18	2.9	18	97	0	97	16	20	33	28	1.95
3084934--3084976	20	2.0	23	86	13	65	48	4	16	30	1.66
3085053--3085294	83	3.0	81	86	7	332	43	11	4	40	1.60
3090584--3090907	83	4.0	82	86	4	401	41	12	5	39	1.67
3092400--3092455	25	2.3	25	96	3	105	37	0	0	62	0.95
3093026--3093105	33	2.5	33	97	2	153	30	13	22	33	1.93
3095214--3095356	75	1.9	75	89	2	207	27	1	13	57	1.45

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