genome.fa.s8027.2.7.7.80.10.50.1000.24.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  24  of  38  ( 4505 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)
5028139--5028208	20	3.5	20	96	0	131	35	14	10	40	1.79
5028139--5028217	40	2.0	40	89	0	122	35	15	8	40	1.78
5028191--5028262	30	2.4	30	95	2	128	31	18	6	43	1.76
5028191--5028262	15	4.9	15	81	3	92	31	18	6	43	1.76
5029103--5029133	11	2.7	11	95	5	53	3	9	0	87	0.66
5030022--5030067	3	15.3	3	86	8	67	63	0	0	36	0.95
5035562--5035655	24	4.0	24	88	4	129	22	19	24	34	1.97
5042061--5042163	24	4.4	24	78	6	113	19	23	25	32	1.98
5042672--5042711	21	1.9	21	85	10	55	45	5	10	40	1.60
5042992--5043033	18	2.3	18	83	0	57	64	0	28	7	1.20
5043825--5044550	388	1.9	390	83	3	962	36	16	12	34	1.87
5050376--5050409	11	3.1	11	86	0	50	29	29	5	35	1.81
5050513--5050552	21	1.9	21	89	0	62	15	12	2	70	1.28
5051939--5051975	18	2.1	17	95	5	65	18	10	27	43	1.83
5058955--5059138	45	4.1	45	90	2	298	31	5	22	39	1.78
5061250--5061347	21	4.8	20	76	10	74	37	21	19	21	1.94
5061315--5061507	20	9.6	20	82	5	228	34	26	19	19	1.96
5061315--5061507	60	3.2	60	85	5	255	34	26	19	19	1.96
5061887--5061957	33	2.2	33	89	0	106	9	22	16	50	1.74
5062037--5062143	21	5.6	20	73	17	102	46	18	21	13	1.83
5062098--5062154	14	3.7	14	75	20	60	43	22	24	8	1.81
5062091--5062170	33	2.4	33	95	0	142	47	22	21	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5062166--5062293	19	7.1	19	70	19	78	10	25	19	44	1.83
5062191--5062244	14	3.5	14	73	22	54	9	24	22	44	1.81
5062171--5062252	33	2.5	33	97	0	155	9	23	20	46	1.80
5062229--5062293	21	3.1	21	82	4	96	10	26	15	47	1.78
5063976--5064444	93	5.1	93	98	0	904	21	12	18	46	1.83
5064524--5064615	19	5.4	17	71	24	70	48	27	16	7	1.72
5064492--5064615	33	3.7	33	88	3	169	47	26	16	8	1.76
5064573--5064599	14	1.9	14	100	0	54	48	29	14	7	1.71
5064611--5064783	19	9.6	19	76	12	159	10	20	23	45	1.81
5064633--5064689	14	3.7	14	75	20	51	10	22	22	43	1.84
5064611--5064783	33	4.8	38	80	8	168	10	20	23	45	1.81
5066706--5066741	14	2.6	14	95	0	63	33	0	22	44	1.53
5066848--5066946	19	5.4	19	78	14	100	46	15	22	16	1.83
5066848--5066965	53	2.2	53	92	3	193	44	16	23	15	1.85
5066955--5067177	19	12.7	19	74	19	216	15	21	17	45	1.85
5066961--5067124	33	4.8	33	74	16	145	15	22	16	45	1.84
5066955--5067177	53	4.2	52	93	1	358	15	21	17	45	1.85
5067012--5067191	86	2.1	84	84	12	224	14	22	17	46	1.84
5066993--5067191	33	5.7	34	73	17	167	14	22	17	46	1.84
5066992--5067210	53	4.2	53	86	5	200	14	21	18	45	1.85
5069476--5069500	12	2.1	12	100	0	50	0	28	0	72	0.86
5069675--5069721	24	2.0	24	87	8	69	38	21	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5070414--5070642	20	11.4	20	87	1	253	19	17	25	36	1.94
5070636--5070685	21	2.4	20	80	9	55	26	18	20	36	1.95
5072789--5072877	46	1.9	47	88	2	135	31	10	21	37	1.87
5075669--5075709	17	2.3	18	87	4	57	19	43	19	17	1.88
5075731--5075898	29	5.9	29	83	5	182	32	2	21	43	1.68
5075754--5075888	28	4.8	27	78	7	108	33	2	20	42	1.67
5076592--5076710	24	5.0	24	74	0	103	26	15	16	40	1.89
5076592--5076710	48	2.5	48	91	0	193	26	15	16	40	1.89
5081434--5081475	21	2.0	21	90	0	66	11	16	2	69	1.29
5082140--5082194	13	4.2	13	81	9	67	29	18	18	34	1.94
5087669--5087728	31	2.0	30	93	3	102	40	0	25	35	1.56
5088560--5088623	11	5.8	11	77	0	56	28	15	20	35	1.93
5094646--5094766	54	2.2	54	94	0	206	33	19	15	31	1.93
5096388--5096425	12	3.0	13	84	7	60	47	5	13	34	1.65
5096452--5096493	18	2.5	17	81	11	59	61	19	0	19	1.34
5096898--5097015	44	2.7	44	88	1	175	29	22	20	27	1.98
5100674--5100713	20	2.0	21	85	5	55	25	17	10	47	1.78
5102758--5102913	65	2.4	65	83	3	199	32	15	22	30	1.95
5105202--5105239	3	12.7	3	100	0	76	68	0	0	31	0.90
5107925--5107969	23	2.0	23	100	0	90	35	24	26	13	1.92
5108911--5109164	103	2.6	98	80	12	302	33	3	8	54	1.48
5112522--5113891	84	16.3	84	86	1	1748	23	18	23	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5118521--5118546	4	6.5	4	100	0	52	53	23	0	23	1.46
5120569--5120878	112	2.9	103	81	9	302	53	12	2	31	1.53
5121740--5121776	17	2.2	17	100	0	74	37	0	10	51	1.37
5121807--5121921	60	1.9	59	80	1	131	31	11	15	41	1.82
5125263--5125342	40	2.0	40	97	0	151	43	7	21	27	1.79
5130363--5130396	10	3.4	10	87	0	50	47	0	5	47	1.26
5130359--5130392	16	2.1	16	94	0	59	47	0	8	44	1.34
5130930--5131063	66	2.0	66	100	0	268	33	8	26	30	1.87
5134629--5134662	18	1.9	18	88	5	52	26	29	26	17	1.98
5137540--5137564	12	2.1	12	100	0	50	48	8	0	44	1.32
5139071--5139183	2	60.5	2	69	13	80	51	0	0	48	1.00
5140777--5140819	10	4.1	10	77	11	50	20	32	30	16	1.95
5143312--5143367	2	27.5	2	96	3	103	50	1	0	48	1.11
5143645--5143676	17	1.9	17	93	6	57	34	6	25	34	1.81
5143706--5143774	23	3.0	23	69	0	66	34	23	21	20	1.96
5148753--5148784	17	1.9	17	93	6	57	34	6	25	34	1.81
5148814--5148880	23	2.9	23	81	0	80	32	23	23	19	1.97
5149112--5149170	30	2.0	29	86	3	82	32	22	6	38	1.80
5150314--5150351	20	1.9	20	100	0	76	23	21	21	34	1.97
5150315--5150392	24	3.4	24	87	6	110	24	21	19	34	1.96
5151657--5152046	194	2.0	194	97	0	744	39	13	15	31	1.86
5155717--5155770	2	27.5	2	96	3	101	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5158507--5158558	20	2.6	20	96	0	95	38	26	13	21	1.90
5158614--5158807	20	9.6	20	76	8	76	35	25	19	19	1.95
5158610--5158807	40	5.0	39	81	4	200	35	26	19	19	1.95
5158614--5158806	60	3.2	60	83	0	251	35	25	19	19	1.95
5159188--5159258	33	2.2	33	92	0	115	11	22	18	47	1.80
5159379--5159433	14	3.6	14	73	21	56	41	23	25	9	1.83
5159379--5159449	33	2.2	33	94	0	124	43	25	22	8	1.81
5159445--5159542	19	5.7	19	70	22	81	10	24	22	42	1.84
5159467--5159556	14	5.7	14	74	23	81	8	25	23	42	1.83
5159450--5159564	33	3.5	33	95	0	212	9	24	20	45	1.81
5161263--5161734	185	2.6	185	99	0	926	22	12	18	46	1.83
5161263--5161734	93	5.1	93	98	1	912	22	12	18	46	1.83
5161778--5161906	19	7.3	19	75	17	125	45	28	17	8	1.77
5161814--5161906	33	2.8	32	91	4	150	46	27	18	7	1.76
5161778--5161906	52	2.5	52	74	14	140	45	28	17	8	1.77
5161902--5162036	19	7.6	19	75	16	128	11	19	23	45	1.82
5161924--5161980	14	3.7	14	77	20	60	10	21	22	45	1.82
5161907--5161999	33	2.8	33	95	0	168	10	20	21	47	1.80
5163938--5163973	14	2.6	14	95	0	63	33	0	22	44	1.53
5164080--5164181	19	5.6	19	84	13	151	44	17	23	14	1.86
5164210--5164474	19	14.7	19	85	11	389	14	21	16	47	1.83
5164188--5164500	52	5.9	51	87	9	306	14	20	18	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5164210--5164471	128	2.1	122	84	12	170	14	20	17	47	1.82
5166975--5167021	24	2.0	24	87	8	69	38	21	14	25	1.92
5167703--5168071	20	18.5	20	86	5	451	20	18	26	34	1.96
5169114--5169219	30	3.6	30	80	12	128	37	7	11	43	1.69
5169121--5169219	29	3.3	29	84	6	119	37	8	11	43	1.70
5169303--5169402	28	3.5	28	76	2	92	46	9	9	36	1.67
5169319--5169398	29	2.8	29	76	1	81	46	8	7	37	1.63
5170481--5170594	56	2.0	56	98	0	219	27	19	21	32	1.97
5178071--5178133	30	2.1	29	85	11	83	26	30	17	25	1.97
5178121--5178984	437	2.0	437	92	1	1428	24	25	16	34	1.95

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