genome.fa.s9344.2.7.7.80.10.50.1000.15.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  15  of  24  ( 2784 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)
2540123--2540179	30	1.9	30	82	7	71	3	40	17	38	1.67
2557657--2557721	26	2.5	26	74	20	64	72	1	10	15	1.19
2558017--2558058	17	2.5	17	80	7	50	73	0	4	21	1.01
2558073--2558126	6	9.0	6	74	22	51	79	3	1	14	0.95
2558074--2558126	12	4.4	12	81	9	63	79	3	1	15	0.96
2558073--2558126	18	3.0	18	81	10	74	79	3	1	14	0.95
2559189--2559225	13	2.8	13	92	8	58	67	0	2	29	1.04
2559229--2559304	38	2.0	38	84	0	98	48	7	2	40	1.46
2559281--2559373	33	2.8	32	88	6	132	37	7	4	50	1.50
2559377--2559615	37	6.4	37	83	9	270	43	5	4	46	1.47
2559348--2559615	73	3.6	71	83	10	304	42	5	4	47	1.47
2559650--2560205	4	139.0	4	100	0	1112	25	0	50	25	1.50
2566979--2567207	95	2.4	96	80	10	220	48	8	8	34	1.64
2568587--2568774	45	4.2	45	93	0	313	35	19	20	23	1.96
2568669--2569114	121	3.7	121	91	3	693	32	18	21	27	1.97
2568788--2568895	45	2.4	45	90	3	162	29	18	22	29	1.97
2568475--2569022	166	3.3	162	75	11	547	33	18	21	27	1.96
2568919--2569022	45	2.3	45	91	0	163	31	17	20	30	1.95
2569767--2569821	22	2.5	22	87	0	83	34	12	16	36	1.87
2570949--2571003	22	2.5	22	90	0	92	34	14	16	34	1.89
2575867--2575903	19	2.0	18	89	5	56	32	21	0	45	1.52
2576880--2576943	21	3.2	20	86	8	78	60	7	10	20	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2580032--2580071	18	2.1	20	86	9	57	52	2	0	45	1.14
2580450--2580495	2	23.0	2	100	0	92	50	0	0	50	1.00
2581589--2581644	22	2.5	22	97	0	103	25	25	28	21	1.99
2582189--2582221	14	2.4	14	90	10	50	54	0	3	42	1.15
2583159--2583265	12	8.5	12	71	19	58	41	2	2	53	1.30
2599569--2599615	16	3.1	15	76	8	51	21	2	8	68	1.27
2602888--2602974	35	2.5	34	80	12	97	56	10	6	26	1.58
2603001--2603072	26	3.0	24	68	27	62	62	4	6	26	1.39
2603497--2603540	18	2.4	18	92	0	70	20	20	34	25	1.97
2604379--2604726	173	2.0	173	100	0	696	29	27	24	19	1.98
2605728--2605780	29	1.9	27	81	11	63	37	5	22	33	1.78
2606632--2606657	13	2.0	13	100	0	52	30	23	7	38	1.83
2608803--2608866	27	2.4	27	86	0	83	54	1	3	40	1.25
2608824--2608895	25	2.8	25	78	18	67	51	0	6	41	1.29
2612043--2612420	192	1.9	197	86	6	538	29	21	22	26	1.99
2615147--2615192	16	2.9	16	80	0	56	52	0	6	41	1.27
2615162--2615226	30	2.2	30	80	17	75	49	0	7	43	1.31
2617142--2617217	19	4.3	18	71	24	54	36	0	2	60	1.11
2617174--2617217	19	2.4	19	81	7	56	43	0	2	54	1.12
2617158--2617235	32	2.4	31	78	16	79	38	0	1	60	1.05
2617371--2617424	17	3.2	17	72	0	54	31	0	3	64	1.11
2618109--2618296	94	2.0	94	96	2	351	33	9	14	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2619067--2619160	21	4.5	21	89	0	143	19	29	29	21	1.97
2619705--2619772	32	2.1	32	86	5	91	57	2	2	36	1.29
2620172--2621310	128	8.9	128	96	0	2073	32	19	25	22	1.98
2621383--2621423	8	5.2	8	82	5	57	36	29	0	34	1.58
2631940--2632084	21	6.9	21	75	7	80	35	25	13	24	1.93
2631954--2632084	42	3.1	42	80	11	153	35	24	14	25	1.93
2631940--2632084	63	2.3	63	83	2	175	35	25	13	24	1.93
2637270--2637315	24	2.0	24	86	4	67	56	0	0	43	0.99
2641644--2641725	41	2.0	41	100	0	164	31	26	21	19	1.97
2646411--2646453	21	2.0	21	81	0	50	30	30	25	13	1.94
2646433--2646581	68	2.2	65	82	6	174	28	26	26	18	1.98
2646880--2646951	29	2.5	29	93	0	117	38	9	12	38	1.76
2646966--2647025	30	2.0	31	90	3	95	36	6	23	33	1.81
2647245--2647311	22	3.0	22	95	4	118	19	26	28	25	1.99
2651102--2651205	52	2.0	51	98	1	199	35	17	25	21	1.95
2653196--2653238	21	2.0	21	81	0	50	30	30	25	13	1.94
2653218--2653368	67	2.3	67	88	2	214	27	28	26	17	1.97
2653670--2653741	29	2.5	29	93	0	117	38	9	12	38	1.76
2653756--2653815	30	2.0	31	90	3	95	36	6	23	33	1.81
2654035--2654102	22	3.0	22	97	2	127	19	26	27	26	1.99
2656079--2656155	39	2.0	39	97	0	145	32	9	10	48	1.69
2656774--2657494	182	4.0	181	85	3	946	43	11	16	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2656774--2657494	365	2.0	364	86	4	1006	43	11	16	28	1.83
2657930--2657981	23	2.3	23	86	0	68	38	17	3	40	1.68
2667131--2667171	16	2.6	16	88	0	55	43	4	17	34	1.70
2669465--2669509	22	2.0	22	87	8	65	37	8	24	28	1.86
2672001--2672038	19	2.0	19	100	0	76	31	36	21	10	1.87
2672053--2672123	32	2.2	32	92	0	115	30	30	29	8	1.87
2672111--2672205	29	3.3	29	95	0	163	13	30	32	23	1.93
2672232--2672347	50	2.4	50	90	7	170	20	37	18	22	1.94
2672474--2672536	16	3.9	16	73	10	65	57	4	34	3	1.36
2672657--2672765	41	2.6	41	77	13	116	41	0	11	46	1.41
2672820--2672893	33	2.3	32	82	13	91	40	0	12	47	1.41
2674343--2674807	26	18.7	25	75	18	275	44	10	2	43	1.51
2674500--2674657	35	4.8	33	69	20	98	45	12	1	41	1.49
2674533--2674576	21	2.2	19	84	8	52	45	4	2	47	1.35
2674451--2674830	96	3.7	97	86	12	455	43	10	2	43	1.51
2674427--2674855	122	3.5	121	81	14	335	43	10	2	43	1.52
2674692--2674855	12	12.5	14	71	17	79	43	10	2	43	1.53
2674635--2674852	26	8.6	25	77	14	139	42	9	2	45	1.50
2674338--2674830	220	2.3	219	95	3	901	43	10	2	43	1.51
2676633--2676782	75	2.0	75	100	0	300	22	20	22	34	1.96
2677761--2677821	26	2.4	24	76	15	59	42	1	6	49	1.38
2678606--2678654	21	2.3	21	82	3	62	51	18	0	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2679083--2679150	35	1.9	35	93	0	118	25	16	30	27	1.96
2679187--2679211	12	2.1	12	100	0	50	24	60	0	16	1.36
2679477--2679533	13	4.1	13	83	16	78	29	47	22	0	1.52
2679480--2679537	30	1.9	30	100	0	116	29	48	22	0	1.51
2679551--2679723	29	6.0	29	96	1	312	19	27	37	15	1.92
2680006--2680155	60	2.5	60	81	2	185	35	21	4	38	1.74
2682761--2682846	3	30.0	3	83	9	108	63	0	2	33	1.07
2682761--2682842	37	2.2	37	86	4	112	63	0	2	34	1.08
2683097--2683636	113	4.8	112	87	5	679	29	18	14	37	1.91
2683095--2683636	222	2.4	222	84	5	722	29	18	14	37	1.91
2684349--2684642	82	3.6	82	88	5	434	38	22	13	25	1.91
2684351--2685077	83	8.5	82	75	14	627	36	22	13	27	1.92
2684576--2684767	105	1.8	105	87	4	282	35	22	13	29	1.92
2684661--2685077	166	2.5	166	92	0	701	35	23	13	27	1.92
2686051--2686122	1	72.0	1	71	0	54	0	13	0	86	0.58
2686050--2686122	9	7.6	9	83	13	76	0	15	0	84	0.61
2686051--2686126	29	2.5	32	85	10	106	0	15	0	84	0.63
2686051--2686125	30	2.5	30	87	10	109	0	14	0	85	0.60
2693438--2693469	15	2.1	15	94	0	55	46	9	18	25	1.79
2697413--2697450	18	2.2	18	86	13	53	0	26	18	55	1.43
2697413--2697450	17	2.2	17	86	13	51	0	26	18	55	1.43
2697822--2697935	3	38.0	3	92	0	192	63	0	1	35	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2699152--2699227	22	3.0	27	80	16	76	51	0	3	44	1.20
2699179--2699241	22	2.9	22	80	4	74	52	0	3	44	1.17
2699225--2699266	2	21.5	2	86	13	61	50	2	0	47	1.14
2699482--2699571	39	2.3	39	78	3	110	42	2	18	36	1.63
2701258--2701323	20	3.3	20	81	6	62	45	12	3	39	1.57
2701975--2702027	21	2.5	20	90	6	79	33	16	13	35	1.88
2711723--2711883	80	2.0	80	97	0	304	21	9	26	42	1.83
2714784--2715162	175	2.2	173	89	3	584	29	16	20	33	1.94
2718638--2719409	252	3.1	252	85	6	928	28	13	18	39	1.88
2718944--2719414	233	2.1	225	90	4	728	28	14	18	37	1.91

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