genome.fa.s8488.2.7.7.80.10.50.1000.47.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  47  of  54  ( 6450 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)
11185756--11185829	31	2.4	31	84	4	96	56	9	12	21	1.63
11187010--11187084	2	38.0	2	94	2	134	48	0	1	50	1.09
11192935--11192977	21	2.0	21	81	0	50	30	30	25	13	1.94
11192957--11193107	67	2.2	68	94	2	261	29	28	25	15	1.96
11193587--11193890	149	2.0	149	99	0	599	27	16	20	35	1.94
11193869--11193913	23	2.0	23	86	0	63	20	24	28	26	1.99
11199945--11199987	21	2.0	21	81	0	50	30	30	25	13	1.94
11199967--11200116	66	2.3	66	92	3	248	30	28	25	16	1.96
11200596--11200899	149	2.0	149	98	0	581	27	16	19	35	1.93
11200878--11200922	23	2.0	23	86	0	63	20	24	28	26	1.99
11207763--11207810	23	2.1	23	100	0	96	33	8	4	54	1.50
11214428--11214485	26	2.2	25	80	14	64	17	5	25	51	1.65
11218064--11218112	2	24.5	2	100	0	98	48	0	0	51	1.00
11218569--11218615	7	6.7	7	97	0	85	14	40	27	17	1.89
11219386--11219573	82	2.4	79	82	8	213	39	8	15	36	1.79
11219421--11219578	82	1.9	82	88	5	239	39	8	15	35	1.79
11219641--11219682	22	2.0	22	85	4	59	42	9	2	45	1.49
11219812--11219848	19	1.9	19	88	0	56	40	10	13	35	1.80
11219950--11219989	20	2.1	19	85	4	53	50	12	7	30	1.68
11222200--11222248	19	2.6	19	93	6	82	34	12	30	22	1.91
11223499--11223661	65	2.5	64	83	3	211	26	15	26	30	1.96
11223609--11223659	19	2.7	19	85	8	70	25	15	35	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11231017--11231179	65	2.5	64	82	3	211	27	14	26	30	1.95
11231127--11231165	19	2.1	19	90	0	60	28	15	38	17	1.91
11231478--11231864	46	8.4	46	91	0	614	44	11	23	21	1.84
11231503--11231922	72	6.0	71	71	20	339	44	12	22	20	1.85
11238688--11238743	26	2.2	26	96	0	103	42	16	19	21	1.89
11238702--11238756	13	4.2	13	73	17	60	49	16	12	21	1.79
11239086--11239726	327	2.0	320	93	2	1086	37	12	16	33	1.87
11241498--11241529	12	2.5	13	90	10	57	43	0	0	56	0.99
11244094--11244216	31	3.9	32	83	9	164	26	17	19	36	1.94
11244094--11244217	63	2.0	62	87	7	180	25	17	20	36	1.94
11247510--11247552	19	2.3	19	84	11	54	23	6	4	65	1.37
11248266--11248291	7	3.7	7	100	0	52	30	11	0	57	1.34
11248838--11248913	21	3.8	20	72	11	66	50	10	21	18	1.76
11248921--11248958	13	3.0	13	84	3	51	50	13	13	23	1.76
11262381--11262537	66	2.5	63	83	9	187	27	17	21	33	1.96
11262548--11262585	20	1.9	20	88	0	58	21	13	31	34	1.91
11270558--11270599	2	21.5	2	95	4	77	50	0	0	50	1.00
11276672--11276721	25	2.0	25	100	0	100	28	20	24	28	1.99
11278931--11278969	10	3.9	10	89	0	51	56	7	12	23	1.62
11278964--11279007	20	2.3	19	81	14	54	54	11	15	18	1.70
11281680--11282949	182	7.0	181	85	2	1663	44	11	15	28	1.82
11281677--11282949	363	3.5	363	90	0	1958	44	11	15	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11281680--11282955	544	2.3	543	86	3	1731	44	11	15	28	1.82
11283332--11283498	87	1.9	86	91	1	271	34	15	11	38	1.83
11283416--11283466	23	2.2	23	85	0	66	37	21	7	33	1.82
11284063--11284094	17	1.9	17	93	6	57	65	0	0	34	0.93
11284685--11284897	13	16.8	13	68	19	71	56	5	1	35	1.34
11284707--11284844	3	44.0	3	68	13	73	57	6	1	34	1.34
11299521--11299589	31	2.3	31	80	12	81	40	0	1	57	1.07
11299732--11299783	17	3.1	17	72	5	52	30	0	3	65	1.10
11299721--11299801	33	2.5	32	72	23	78	34	0	6	59	1.23
11301270--11301317	21	2.3	21	85	0	60	25	39	12	22	1.89
11301321--11301406	21	4.1	21	93	3	129	18	36	25	19	1.95
11301931--11302009	28	2.8	28	86	5	97	54	3	1	40	1.26
11301934--11302025	28	2.9	33	75	18	95	54	4	3	38	1.37
11301931--11302034	28	3.5	28	75	15	93	51	4	2	40	1.38
11301932--11302032	34	3.2	32	77	17	111	53	4	2	38	1.38
11302423--11303049	128	4.9	128	93	2	1048	33	19	24	22	1.97
11303121--11303161	8	5.2	8	82	5	57	36	29	0	34	1.58
11307196--11307294	31	3.2	31	81	2	110	42	9	4	44	1.55
11307219--11307296	31	2.5	31	89	2	122	44	10	3	41	1.56
11309297--11309323	13	2.1	13	100	0	54	70	14	7	7	1.32
11316384--11316433	22	2.3	22	100	0	100	10	32	42	16	1.81
11318938--11318988	23	2.2	23	89	0	75	27	27	29	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11320271--11320355	31	2.8	31	80	5	93	34	9	21	35	1.85
11320344--11320455	37	3.1	37	82	1	127	39	14	20	25	1.90
11320462--11320525	30	2.2	30	83	8	78	37	10	15	35	1.83
11320469--11320527	30	2.0	30	90	6	93	32	10	18	38	1.84
11320510--11320695	36	5.4	36	69	14	140	40	12	19	27	1.87
11320527--11320594	35	1.9	35	87	0	100	44	11	20	23	1.84
11320482--11320734	100	2.5	101	93	1	438	37	12	19	30	1.88
11320684--11320792	57	1.9	58	96	1	202	32	11	20	36	1.87
11320684--11320781	29	3.4	29	68	13	94	33	10	19	36	1.85
11320844--11321055	72	2.9	72	92	1	336	40	13	17	28	1.88
11320818--11321047	36	6.4	36	69	10	137	40	13	16	28	1.88
11326359--11326419	32	1.9	31	84	15	81	68	1	8	21	1.24
11337324--11337483	64	2.5	63	82	9	164	35	18	20	26	1.95
11337944--11338141	97	2.0	98	91	5	321	26	13	24	35	1.93
11338165--11338249	23	3.7	22	87	7	109	18	28	27	25	1.98
11340959--11341026	36	1.9	35	96	3	127	19	27	19	33	1.96
11343854--11344010	64	2.5	63	87	7	214	34	17	21	26	1.96
11344568--11344608	21	2.0	20	85	4	55	21	12	24	41	1.87
11344466--11344683	103	2.1	103	95	0	400	25	12	24	37	1.91
11344700--11344762	23	2.7	23	87	4	92	20	26	26	25	1.99
11345471--11345504	2	17.5	2	93	6	61	50	0	0	50	1.00
11348321--11348655	167	2.0	167	100	0	670	24	34	14	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11350142--11350174	7	4.7	7	96	0	57	42	15	9	33	1.78
11352044--11352124	25	3.2	25	68	16	76	43	8	14	33	1.76
11352069--11352148	26	3.1	26	67	22	78	41	7	13	37	1.73
11352044--11352148	51	2.1	51	98	0	201	42	7	14	35	1.74
11352056--11352135	25	3.2	24	67	22	65	42	7	16	33	1.76
11355845--11355906	3	21.0	3	96	3	117	33	0	0	66	0.92
11355898--11355995	49	2.0	49	100	0	196	34	12	14	38	1.83
11356843--11356872	2	15.0	2	92	0	51	46	0	3	50	1.18
11357399--11357552	38	3.8	42	65	26	100	30	6	5	57	1.48
11360937--11360981	10	4.6	10	77	5	56	13	20	40	26	1.89
11365685--11365742	25	2.3	26	90	3	91	27	18	12	41	1.86
11372496--11372548	14	3.8	14	79	0	52	22	15	11	50	1.75
11375503--11375566	2	33.0	2	93	6	114	50	0	0	50	1.00
11375503--11375564	25	2.5	25	94	0	115	50	0	0	50	1.00
11375744--11375797	26	2.0	27	92	3	92	68	9	16	5	1.35
11375786--11375856	9	7.3	9	76	17	63	81	0	16	1	0.76
11375787--11375855	15	4.9	14	72	18	54	81	0	17	1	0.77
11375796--11375856	24	2.6	24	84	2	79	80	0	18	1	0.80
11376463--11376524	32	1.9	32	87	6	90	45	17	14	22	1.85
11380330--11380409	40	2.0	40	92	0	133	33	16	20	30	1.94
11380791--11380870	22	3.6	22	89	0	115	32	17	13	36	1.89
11381451--11381508	17	3.4	17	73	17	66	50	8	22	18	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11381421--11381510	34	2.6	36	94	3	157	47	11	20	21	1.80
11381341--11381620	143	1.9	145	86	2	402	40	12	18	28	1.88
11381456--11382208	113	6.6	114	83	5	883	38	14	19	27	1.91
11381451--11382088	225	2.9	224	93	2	1070	37	14	19	28	1.91
11381456--11382221	225	3.4	225	89	5	1068	37	15	19	27	1.91
11390002--11390048	2	23.5	2	100	0	94	51	0	0	48	1.00
11390872--11390901	14	2.1	14	93	0	51	50	0	0	50	1.00
11397025--11397218	94	2.1	94	99	0	379	28	6	24	40	1.79
11399937--11400032	43	2.2	44	83	5	124	33	20	19	26	1.97
11400061--11400316	116	2.2	116	96	0	467	27	20	23	28	1.99

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