genome.fa.s9462.2.7.7.80.10.50.1000.45.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  45  of  91  ( 10815 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)
9457596--9457683	33	2.7	33	94	0	158	46	20	21	11	1.82
9457547--9457683	19	7.6	19	70	18	114	46	18	22	12	1.82
9457614--9457670	14	3.7	14	70	20	51	43	21	24	10	1.83
9457699--9457780	33	2.5	33	91	2	128	10	21	20	46	1.81
9458333--9458570	20	11.6	20	75	10	160	26	19	18	35	1.94
9458333--9458447	20	5.6	21	90	4	164	20	21	17	40	1.92
9458315--9458570	41	6.3	41	76	10	202	26	19	18	35	1.95
9458437--9458509	21	3.5	21	83	3	85	38	16	20	24	1.93
9460196--9460223	2	14.0	2	100	0	56	50	0	0	50	1.00
9460382--9460438	2	29.0	2	96	3	107	49	0	0	50	1.00
9468087--9468328	5	48.0	5	65	21	55	71	2	7	19	1.20
9468109--9468147	11	3.5	11	80	13	53	74	0	7	17	1.05
9468097--9468151	22	2.5	22	96	0	101	72	0	9	18	1.10
9468019--9468328	9	33.0	9	69	17	107	71	2	8	17	1.21
9468024--9468176	31	5.0	31	68	20	81	73	1	8	16	1.17
9468087--9468266	22	8.1	22	70	20	74	70	1	6	21	1.19
9468193--9468312	29	4.0	28	70	23	82	73	1	9	15	1.16
9468358--9468392	3	11.7	3	87	0	52	68	0	0	31	0.90
9468388--9468433	16	2.7	18	76	10	60	69	0	17	13	1.19
9468438--9468512	18	4.4	18	69	16	70	66	2	1	29	1.13
9470119--9470701	124	4.7	124	84	1	722	25	16	24	33	1.95
9470130--9470685	248	2.2	247	89	2	821	25	16	23	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9471577--9471614	17	2.2	17	86	9	51	0	15	2	81	0.80
9481800--9481953	4	36.8	4	71	17	75	74	1	5	19	1.08
9481799--9482081	18	16.1	17	71	17	154	74	1	6	17	1.11
9481794--9481994	9	22.6	9	74	14	136	74	1	5	18	1.08
9481862--9482089	12	18.5	12	66	20	71	73	0	6	18	1.10
9482031--9482089	23	2.5	23	78	13	66	79	0	5	15	0.89
9482174--9482224	19	2.6	21	76	20	56	68	0	9	21	1.18
9482230--9482256	2	13.5	2	100	0	54	51	0	0	48	1.00
9487127--9487163	18	2.1	17	90	5	56	59	0	0	40	0.97
9487232--9487264	17	1.9	17	88	11	50	33	3	0	63	1.10
9489112--9489168	21	2.7	21	71	10	53	36	26	14	22	1.92
9495376--9495420	15	3.0	15	96	0	81	60	0	17	22	1.37
9495519--9495570	21	2.5	21	81	6	61	78	1	7	11	1.02
9495508--9495620	25	4.5	24	71	19	72	76	0	4	18	1.01
9495504--9495638	39	3.4	39	71	20	93	73	0	5	20	1.07
9495509--9495628	49	2.4	50	80	8	136	75	0	5	18	1.03
9495551--9495634	30	2.7	31	80	10	93	73	1	2	22	1.01
9495507--9495628	9	12.4	9	69	20	50	75	0	4	18	1.03
9495691--9495766	23	3.6	21	74	20	61	72	3	3	19	1.17
9496031--9496130	35	2.8	36	86	6	130	31	16	15	38	1.89
9496596--9497219	109	5.9	108	84	6	654	22	20	24	32	1.98
9497791--9497956	67	2.5	67	88	4	237	36	11	21	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9497831--9498307	36	13.9	36	66	17	264	36	12	21	28	1.91
9497999--9498307	37	8.9	37	69	17	232	37	13	21	27	1.90
9497898--9498289	102	3.9	102	94	0	669	37	12	20	29	1.90
9499168--9499218	22	2.3	22	96	0	93	25	11	27	35	1.91
9499826--9499887	20	3.0	21	79	9	65	1	16	6	75	1.08
9499844--9499896	23	2.4	22	84	6	72	0	15	5	79	0.91
9502895--9502924	15	2.0	15	100	0	60	60	0	20	20	1.37
9502898--9502932	15	2.3	15	90	0	52	65	0	17	17	1.27
9503023--9503074	21	2.5	21	81	6	61	78	1	7	11	1.02
9503064--9503122	22	2.6	22	78	19	68	72	0	3	23	0.99
9503013--9503131	49	2.4	50	80	6	134	74	0	5	18	1.06
9503064--9503185	41	3.1	38	76	21	108	66	0	3	29	1.13
9503090--9503197	39	3.0	34	74	20	103	64	1	1	31	1.14
9503178--9503244	22	3.2	21	79	6	64	68	4	2	23	1.22
9503191--9503259	23	3.2	20	75	20	61	72	4	4	18	1.18
9503524--9503623	35	2.8	36	86	6	130	31	16	15	38	1.89
9510080--9510208	35	3.7	35	84	6	179	30	16	21	31	1.95
9510078--9510219	71	2.0	71	95	0	257	29	17	21	30	1.96
9511781--9511821	14	2.9	14	85	0	55	39	19	21	19	1.93
9523363--9523387	6	4.2	6	100	0	50	68	0	0	32	0.90
9525748--9525891	35	4.1	35	80	10	150	33	15	18	31	1.93
9525748--9525886	71	2.0	71	89	0	215	32	16	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9531352--9531403	20	2.6	19	81	6	59	32	11	32	23	1.90
9531928--9532162	59	4.0	59	94	1	382	32	10	20	36	1.87
9538834--9539006	59	2.9	59	84	3	224	32	10	17	38	1.85
9538846--9539029	59	3.1	60	76	11	175	34	9	17	38	1.83
9540726--9540750	13	1.9	13	100	0	50	40	20	24	16	1.91
9541723--9541841	61	2.0	61	86	1	168	36	13	1	48	1.52
9542954--9543140	64	2.9	64	82	4	182	30	22	17	29	1.97
9542982--9543161	64	2.8	63	82	9	220	28	24	17	28	1.97
9553076--9553262	64	2.9	64	81	4	164	31	22	17	29	1.96
9553104--9553283	64	2.8	63	81	9	211	29	23	17	28	1.97
9554280--9554344	20	3.0	20	77	8	67	46	0	3	50	1.17
9558557--9558682	32	4.0	32	86	1	137	19	28	26	25	1.99
9562156--9562231	31	2.6	29	79	8	98	38	9	11	40	1.74
9565262--9565318	22	2.6	22	78	10	62	42	19	17	21	1.90
9565294--9565347	16	3.6	16	76	21	62	44	22	12	20	1.85
9565286--9565347	28	2.2	29	85	8	83	45	20	14	19	1.85
9568018--9568063	2	23.0	2	100	0	92	50	0	0	50	1.00
9571853--9571894	22	2.0	22	90	4	68	21	16	9	52	1.72
9573305--9573376	34	2.1	34	84	0	90	25	26	16	31	1.96
9573797--9573872	20	3.7	19	78	16	80	22	21	34	22	1.97
9577613--9577637	2	12.5	2	100	0	50	48	0	0	52	1.00
9577896--9577966	6	11.8	6	72	20	51	78	1	16	2	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9577896--9577994	8	11.2	8	71	16	63	77	4	14	4	1.06
9577931--9578031	18	5.4	18	71	13	71	77	4	15	1	1.04
9577896--9578031	43	3.2	42	75	15	116	76	3	16	2	1.05
9577896--9577996	53	1.9	53	82	8	125	77	4	13	3	1.08
9577949--9578031	15	5.8	15	72	19	54	75	4	16	2	1.08
9577989--9578018	13	2.2	14	94	5	53	73	3	23	0	0.98
9577989--9578031	17	2.6	17	82	14	54	74	2	23	0	0.93
9579053--9579084	3	11.3	3	87	12	50	34	0	0	65	0.93
9579748--9579787	20	2.0	20	95	0	71	27	27	15	30	1.96
9586563--9586593	3	10.0	3	93	6	53	64	0	32	3	1.09
9587702--9587747	9	5.3	9	89	10	78	78	0	10	10	0.97
9587702--9587772	16	4.4	16	79	13	83	77	0	11	11	1.00
9587702--9587803	9	12.5	8	75	17	61	79	0	9	10	0.94
9587702--9587803	8	12.5	8	77	18	61	79	0	9	10	0.94
9589081--9589304	55	4.1	55	93	1	382	28	15	29	27	1.96
9589300--9589797	51	9.7	52	89	3	724	30	16	25	28	1.96
9589300--9589797	103	4.8	104	90	3	760	30	16	25	28	1.96
9589556--9589639	26	3.2	27	62	17	68	27	14	26	32	1.95
9589300--9589797	155	3.2	156	91	3	787	30	16	25	28	1.96
9590689--9590743	20	2.8	20	91	5	76	25	30	12	30	1.93
9591079--9591353	146	1.9	146	82	1	345	32	20	26	21	1.98
9593819--9594101	55	5.2	55	83	5	351	34	16	27	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9595293--9595322	9	3.2	9	95	4	51	10	3	0	86	0.67
9598355--9598394	14	2.9	15	85	10	50	47	12	2	37	1.55
9598996--9599084	46	1.9	46	95	0	160	47	16	5	30	1.70
9600195--9600252	21	2.6	23	75	10	57	48	6	3	41	1.47
9605755--9606222	59	7.9	59	93	0	760	32	19	14	33	1.92
9606635--9606689	20	2.6	22	77	5	60	27	20	14	38	1.91
9606729--9606769	20	2.0	20	90	0	64	21	26	17	34	1.95
9608284--9608321	19	2.0	20	94	5	69	15	21	31	31	1.94
9608351--9608389	19	2.1	19	95	0	69	25	15	38	20	1.92
9608244--9608452	65	3.2	65	82	9	191	26	17	25	30	1.97

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91