genome.fa.s9605.2.7.7.80.10.50.1000.12.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   31   32   
          33   34   35   

This is table  12  of  35  ( 4090 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)
2502164--2502283	54	2.2	53	88	1	177	30	20	15	32	1.94
2502687--2503094	59	6.9	59	91	0	645	34	12	21	31	1.90
2508414--2508460	19	2.5	19	96	0	85	38	10	10	40	1.75
2512950--2513017	2	34.0	2	94	5	120	48	0	1	50	1.10
2513483--2513536	21	2.5	22	80	11	67	27	16	16	38	1.90
2527109--2527147	21	1.9	21	94	5	71	30	28	12	28	1.93
2526683--2527286	302	2.0	302	92	0	992	37	18	13	30	1.89
2543482--2543758	40	7.1	40	82	6	354	24	19	25	30	1.98
2543478--2543758	80	3.6	79	88	3	407	24	19	24	30	1.98
2545189--2545237	22	2.3	22	78	3	55	36	22	18	22	1.95
2545495--2545551	20	2.9	19	79	7	60	31	28	7	33	1.84
2545816--2545855	20	2.0	20	90	0	62	20	27	17	35	1.95
2548986--2549059	37	2.0	37	97	0	139	35	21	28	14	1.93
2557182--2557226	20	2.2	20	84	7	56	64	0	22	13	1.28
2570575--2570607	15	2.1	17	88	11	52	12	6	6	75	1.16
2577525--2577591	29	2.4	28	80	12	66	49	14	10	25	1.76
2578738--2578794	30	1.9	30	85	3	80	35	10	7	47	1.65
2579473--2579514	18	2.4	17	84	11	50	69	2	28	0	1.01
2579480--2579513	15	2.4	14	90	5	50	70	0	29	0	0.87
2579480--2579514	18	1.9	18	88	11	54	71	0	28	0	0.86
2581581--2581633	20	2.7	20	93	0	88	18	28	15	37	1.91
2581926--2581992	31	2.2	31	83	5	82	35	10	20	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2585652--2585688	13	2.8	13	91	4	56	24	2	2	70	1.14
2586819--2586872	22	2.6	21	82	8	67	35	12	18	33	1.89
2587227--2587828	54	11.1	54	88	0	823	33	22	19	24	1.97
2590631--2590667	20	1.9	19	89	10	58	45	10	24	18	1.81
2605763--2605808	21	2.1	22	84	11	60	28	13	4	54	1.57
2615847--2615890	20	2.2	20	80	4	54	54	4	15	25	1.60
2619982--2620029	20	2.5	19	76	13	53	33	0	16	50	1.46
2626452--2626515	18	3.6	18	86	0	92	32	28	12	26	1.93
2628974--2629075	29	3.4	29	82	9	116	23	14	6	54	1.64
2634530--2634623	29	3.3	28	81	11	104	37	11	8	42	1.72
2635389--2635429	3	14.0	3	94	5	75	31	0	0	68	0.90
2636826--2636924	29	3.4	28	76	16	76	20	14	8	57	1.62
2644809--2644834	13	2.0	13	100	0	52	53	15	15	15	1.73
2645506--2645578	30	2.6	29	84	6	87	38	10	5	45	1.63
2647529--2647571	22	2.0	21	82	13	52	51	18	6	23	1.70
2650746--2650894	2	77.0	2	72	18	111	49	5	2	42	1.39
2651370--2651402	2	17.0	2	93	6	59	51	0	0	48	1.00
2652508--2652535	2	14.0	2	100	0	56	50	0	0	50	1.00
2652764--2652796	2	16.5	2	100	0	66	48	0	0	51	1.00
2654285--2654326	13	3.5	13	81	12	54	61	2	0	35	1.09
2654529--2655180	111	5.9	111	91	1	948	28	15	24	30	1.96
2655181--2655349	79	2.1	79	82	2	205	27	18	24	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2655309--2655411	34	3.0	34	94	0	170	29	17	23	30	1.97
2659384--2659432	21	2.3	21	100	0	98	4	24	8	63	1.40
2664404--2664431	2	14.0	2	100	0	56	50	0	0	50	1.00
2664487--2664611	2	63.5	2	75	15	109	49	4	3	42	1.40
2665965--2666006	13	3.5	13	81	12	54	61	0	0	38	0.96
2665966--2665996	16	1.9	16	100	0	62	58	0	0	41	0.98
2669102--2669168	29	2.3	29	87	5	91	41	8	14	34	1.78
2669407--2669471	29	2.2	29	77	0	76	41	10	13	33	1.80
2669925--2670038	28	4.1	28	78	1	131	46	14	9	29	1.76
2669935--2670054	28	4.3	27	76	7	89	48	11	10	30	1.72
2670841--2670874	17	2.0	17	100	0	68	41	5	11	41	1.66
2671769--2671815	22	2.1	22	92	0	76	42	2	23	31	1.66
2672744--2672804	29	2.1	29	100	0	122	22	21	9	45	1.81
2672701--2672995	110	2.7	110	87	1	412	26	21	10	41	1.85
2672854--2672914	29	2.1	29	87	6	88	26	21	6	45	1.76
2673388--2673422	12	2.8	13	86	4	54	14	17	0	68	1.21
2673509--2673718	34	5.8	34	69	17	145	28	22	11	37	1.89
2673488--2673710	70	3.1	69	80	10	230	27	21	12	39	1.89
2673556--2673756	79	2.5	79	87	0	276	28	22	12	36	1.91
2673757--2673822	34	1.9	34	93	0	114	27	22	10	39	1.87
2674261--2674470	95	2.2	95	89	0	312	25	24	15	34	1.94
2682737--2682791	24	2.3	24	100	0	110	40	7	9	43	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2682826--2682883	20	2.9	20	92	0	80	32	36	12	18	1.88
2682911--2682964	19	2.8	19	97	0	99	22	33	16	27	1.95
2682930--2683071	64	2.2	64	87	1	194	30	22	16	30	1.96
2684435--2684485	23	2.2	24	79	10	61	45	1	5	47	1.38
2687773--2687799	2	13.5	2	100	0	54	51	0	0	48	1.00
2697416--2697512	3	33.0	3	95	4	180	67	0	0	32	0.91
2702949--2703067	39	3.1	39	85	7	118	30	19	26	24	1.98
2702967--2703080	39	2.9	39	84	7	153	29	19	28	21	1.98
2702976--2703105	39	3.3	39	82	2	127	30	20	27	21	1.98
2708648--2708804	39	4.0	39	80	6	106	30	22	26	20	1.98
2709474--2709507	18	1.9	18	88	5	52	29	29	23	17	1.97
2716610--2716644	13	2.8	12	87	8	52	2	11	2	82	0.88
2718691--2718737	22	2.1	22	92	0	76	44	0	23	31	1.54
2718698--2718745	22	2.2	22	85	7	62	43	2	22	31	1.65
2720748--2720833	16	5.4	16	92	0	145	18	27	12	40	1.87
2721268--2721327	27	2.3	26	83	11	77	31	0	23	45	1.53
2721406--2721443	17	2.2	17	90	9	60	42	2	5	50	1.39
2721823--2721862	21	1.9	21	85	10	55	20	0	32	47	1.50
2721939--2721984	2	22.5	2	86	4	65	43	2	2	52	1.25
2722007--2722033	13	2.1	13	100	0	54	55	0	0	44	0.99
2723272--2723298	13	2.1	13	100	0	54	55	0	0	44	0.99
2723590--2723654	21	3.1	21	80	4	69	20	0	26	53	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2723637--2723746	48	2.2	50	82	7	136	33	4	10	51	1.56
2723729--2723764	18	1.9	19	94	5	65	41	0	5	52	1.24
2723787--2723813	13	2.1	13	100	0	54	55	0	0	44	0.99
2723787--2723829	13	3.1	14	86	6	52	55	0	2	41	1.12
2724029--2724111	36	2.3	38	87	6	118	44	6	6	43	1.53
2724040--2724121	37	2.2	36	85	10	105	47	7	6	39	1.56
2724489--2724544	22	2.4	24	85	8	80	55	0	3	41	1.17
2724832--2725156	161	2.0	163	96	3	604	31	22	18	28	1.97
2726081--2726142	31	2.2	28	83	13	74	27	29	24	19	1.98
2727657--2727698	15	2.7	16	88	3	59	50	2	0	47	1.14
2727674--2727737	23	2.7	23	81	11	69	51	0	0	48	1.00
2727640--2727719	36	2.2	34	80	20	92	51	1	0	47	1.08
2727637--2727736	38	2.5	40	76	10	107	52	1	0	47	1.07
2727674--2727738	24	2.7	24	79	18	64	50	0	0	49	1.00
2727694--2727761	22	3.1	22	81	6	59	47	0	0	52	1.00
2727704--2727784	32	2.5	32	78	13	94	44	2	0	53	1.14
2727728--2727793	23	2.9	22	77	6	78	40	3	0	56	1.15
2727719--2727823	53	2.1	53	82	8	130	42	1	0	54	1.18
2727835--2727915	27	3.0	27	70	22	62	45	2	2	49	1.28
2728130--2728179	23	2.3	22	86	10	75	46	0	0	54	1.00
2728542--2728566	7	3.6	7	100	0	50	28	12	0	60	1.32
2732191--2732236	24	1.9	24	82	8	58	8	41	8	41	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2732495--2732591	51	1.9	51	97	0	185	24	23	7	44	1.78
2737421--2737454	15	2.4	14	90	5	50	38	0	2	58	1.13
2737547--2737682	23	5.9	23	94	1	229	56	27	0	14	1.44
2739597--2739641	18	2.5	18	75	13	56	35	13	40	11	1.80
2741360--2741389	7	4.3	7	100	0	60	0	13	13	73	1.10
2745895--2745921	14	1.9	14	100	0	54	51	7	3	37	1.48
2745894--2745947	14	4.3	13	71	17	51	48	9	1	40	1.46
2747308--2747384	17	4.6	17	74	19	72	3	20	1	74	1.06
2747319--2747382	6	10.3	6	74	15	51	3	20	1	75	1.03
2747307--2747384	33	2.3	34	80	12	99	3	20	1	74	1.05

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   31   32   
          33   34   35