genome.fa.s190.2.7.7.80.10.50.1000.21.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  21  of  62  ( 7381 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)
4920527--4920609	10	7.7	11	75	15	68	71	1	6	21	1.15
4920568--4920611	5	8.4	5	90	9	70	77	0	2	20	0.88
4921872--4922262	37	10.8	36	77	14	303	46	7	1	44	1.40
4921967--4922039	14	5.5	13	69	21	53	46	8	0	45	1.33
4921983--4922089	25	4.3	26	64	19	66	43	6	0	48	1.35
4923745--4923811	31	2.1	33	86	8	95	23	5	13	56	1.59
4930720--4930771	16	3.2	17	72	22	58	42	0	19	38	1.51
4931258--4931311	2	27.0	2	100	0	108	50	0	0	50	1.00
4933408--4933470	31	2.1	30	84	3	81	65	11	7	15	1.47
4933402--4933472	30	2.4	29	79	9	81	63	11	8	16	1.51
4939545--4939578	17	2.0	17	88	11	52	41	2	0	55	1.15
4940880--4941092	117	1.8	119	79	8	256	49	7	6	37	1.56
4945936--4946012	26	3.0	26	94	1	129	29	24	9	36	1.86
4950628--4950678	26	2.0	26	88	3	77	29	23	9	37	1.87
4950868--4950913	15	3.1	15	87	0	56	6	26	23	43	1.78
4950873--4950941	30	2.3	30	82	5	77	5	28	23	42	1.77
4951480--4951517	20	2.0	19	90	10	60	47	10	23	18	1.79
4953265--4953306	18	2.3	18	84	8	50	2	30	21	45	1.65
4960010--4960052	14	3.1	14	76	6	52	39	2	6	51	1.42
4961679--4961737	31	1.9	31	82	0	73	40	0	16	42	1.49
4962381--4962435	20	2.8	20	94	0	92	23	23	21	30	1.99
4963575--4963622	24	2.0	23	84	4	60	25	6	4	64	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4980225--4980272	22	2.2	22	82	10	55	62	2	0	35	1.07
4980270--4980300	2	15.5	2	100	0	62	51	0	0	48	1.00
4981570--4981664	42	2.3	42	86	0	136	24	12	14	48	1.79
4983366--4983406	22	1.9	21	90	5	64	70	4	0	24	1.06
5014893--5014994	32	3.2	32	92	0	168	29	45	16	8	1.78
5014995--5015070	20	3.8	20	91	5	118	34	31	26	7	1.85
5023417--5023700	36	7.9	36	77	12	264	34	17	21	26	1.95
5023401--5023699	72	4.2	71	79	11	299	35	17	21	25	1.95
5023414--5023731	107	3.0	103	79	10	327	35	18	21	25	1.95
5023499--5023731	72	3.3	70	77	9	222	36	18	21	23	1.95
5023426--5023731	36	8.6	36	75	9	173	35	17	21	24	1.95
5023903--5023951	24	2.0	24	84	7	64	40	2	2	55	1.23
5023950--5023990	21	1.9	21	90	5	64	39	31	17	12	1.86
5025009--5025127	57	2.1	59	95	3	215	31	5	8	54	1.54
5025841--5026103	135	2.0	134	96	2	494	33	10	19	37	1.86
5031700--5031830	18	6.9	18	81	13	165	28	31	20	19	1.97
5031700--5031830	56	2.3	55	87	10	176	28	31	20	19	1.97
5032028--5032085	24	2.5	21	75	25	55	32	22	5	39	1.76
5032571--5032622	19	2.7	19	96	0	95	21	32	17	28	1.96
5039942--5040017	22	3.8	21	78	15	90	27	30	21	21	1.98
5039942--5040017	40	2.0	37	87	7	107	27	30	21	21	1.98
5040745--5040815	19	3.7	19	96	0	124	22	30	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5047939--5048005	34	2.0	34	91	2	109	37	19	10	32	1.86
5050523--5050614	45	2.2	44	81	15	113	48	15	2	33	1.57
5054526--5054556	13	2.4	13	94	0	53	12	19	48	19	1.81
5060531--5060557	11	2.5	11	100	0	54	40	7	25	25	1.82
5061371--5061415	21	2.1	21	83	0	54	22	17	44	15	1.86
5061421--5061464	10	4.6	10	80	8	56	36	29	20	13	1.91
5061421--5061465	19	2.4	19	92	0	72	35	28	20	15	1.93
5070180--5070230	24	2.1	24	81	0	57	39	15	15	29	1.89
5070194--5070240	24	2.0	24	86	0	67	34	17	19	29	1.94
5070220--5070267	24	2.0	24	87	0	69	29	18	22	29	1.98
5070226--5070273	24	2.0	24	83	0	60	33	18	20	27	1.96
5072042--5072071	7	4.3	7	91	0	51	33	13	0	53	1.40
5073797--5073829	16	1.9	18	88	11	52	48	3	9	39	1.50
5082466--5082738	81	3.4	80	85	2	368	32	24	21	20	1.97
5087695--5087965	81	3.4	81	86	4	336	31	27	19	21	1.97
5091444--5091648	110	1.9	110	85	3	286	37	22	4	35	1.74
5092788--5092869	24	3.4	23	76	14	85	18	14	12	54	1.70
5093334--5093962	314	2.0	314	97	0	1186	28	12	18	39	1.88
5094644--5094683	21	1.9	21	100	0	80	25	30	20	25	1.99
5095193--5095304	59	1.9	59	85	3	154	32	20	13	33	1.91
5095248--5095470	118	1.9	118	83	3	288	30	21	10	36	1.88
5100879--5100923	22	2.0	22	91	0	72	8	17	51	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5100932--5100981	10	5.2	9	81	11	55	26	30	30	14	1.94
5100932--5100981	20	2.6	19	82	17	68	26	30	30	14	1.94
5108080--5108142	22	3.0	22	82	8	80	9	23	47	19	1.78
5108139--5108193	19	2.8	19	89	8	76	29	32	23	14	1.94
5112139--5112169	14	2.1	15	94	5	55	19	38	19	22	1.93
5116024--5116061	20	1.9	20	88	0	58	21	47	23	7	1.77
5119373--5119865	267	1.9	268	92	1	821	34	13	17	34	1.89
5121250--5121314	2	32.5	2	100	0	130	50	0	0	49	1.00
5121508--5121563	24	2.3	24	78	6	60	48	16	12	23	1.80
5131913--5131945	15	2.1	16	88	5	50	48	0	9	42	1.35
5135781--5135985	42	4.8	40	86	9	259	32	23	24	19	1.98
5135781--5135985	84	2.4	84	88	4	288	32	23	24	19	1.98
5136912--5137032	29	4.1	29	79	12	115	42	21	4	32	1.72
5136939--5137031	30	3.1	29	81	7	98	43	22	4	30	1.72
5137045--5137096	17	2.9	18	80	5	70	13	21	44	21	1.86
5143160--5143359	42	4.7	40	80	13	170	35	22	24	18	1.96
5143199--5143364	42	4.0	42	88	3	228	34	23	22	19	1.96
5144312--5144421	29	3.8	29	82	11	127	40	23	5	30	1.77
5144437--5144473	17	2.2	17	90	0	56	13	18	43	24	1.86
5144474--5144520	9	5.0	9	80	10	58	36	29	19	14	1.92
5146348--5146380	15	2.1	16	88	5	50	48	0	9	42	1.35
5151347--5151396	24	2.1	24	84	0	64	50	18	10	22	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5151354--5151438	24	3.5	24	77	3	73	48	15	15	21	1.81
5153722--5153770	26	1.9	25	87	4	71	26	28	30	14	1.95
5155190--5155455	81	3.3	80	91	3	403	33	25	20	21	1.97
5160412--5160681	81	3.3	81	87	1	391	33	27	18	21	1.96
5167601--5167854	59	4.3	59	74	5	187	29	22	11	36	1.90
5170276--5170308	15	2.1	16	88	5	50	48	0	9	42	1.35
5173415--5173560	38	3.8	36	81	15	118	32	7	24	34	1.84
5173482--5173647	45	3.8	45	91	3	241	37	8	22	31	1.84
5178749--5178781	15	2.1	16	88	5	50	48	0	9	42	1.35
5179693--5179737	13	3.5	13	87	0	54	15	46	20	17	1.84
5181431--5181468	20	1.9	20	100	0	76	23	28	10	36	1.88
5182862--5182933	24	3.0	24	81	2	83	20	8	18	52	1.70
5186212--5186297	43	2.0	43	97	0	163	33	8	16	41	1.78
5187341--5187435	24	4.0	24	84	0	91	44	20	12	23	1.85
5187359--5187450	24	3.8	24	86	2	114	43	18	13	25	1.86
5187333--5187450	48	2.5	48	80	2	130	46	16	11	24	1.81
5192075--5192165	24	3.8	24	80	2	103	41	19	13	25	1.88
5194600--5195103	252	2.0	252	96	0	936	33	23	15	27	1.95
5196999--5197089	24	3.8	24	84	5	112	41	19	13	25	1.88
5203402--5203485	24	3.5	24	81	4	98	41	19	11	27	1.86
5216764--5216797	17	2.0	17	94	0	59	17	26	29	26	1.98
5236626--5236659	2	17.0	2	93	0	59	50	2	0	47	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5236721--5236784	3	21.3	3	84	6	76	28	4	0	67	1.11
5236938--5237092	25	6.5	25	71	18	84	17	9	1	72	1.17
5236933--5237044	34	3.2	33	72	20	86	18	8	0	73	1.07
5236983--5237025	23	2.0	21	82	13	52	18	11	0	69	1.17
5243092--5243148	20	2.8	19	76	10	51	68	0	14	17	1.21
5243446--5243476	16	2.0	16	93	6	55	83	0	0	16	0.64
5247608--5247649	21	2.0	21	90	0	66	26	19	23	30	1.98
5262707--5262739	17	1.9	17	93	0	57	15	30	27	27	1.96
5265375--5265449	31	2.4	30	80	10	80	13	28	28	30	1.94
5268335--5268373	19	2.1	19	85	0	51	56	15	0	28	1.40

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