genome.fa.s8209.2.7.7.80.10.50.1000.21.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  21  of  30  ( 3569 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)
4896992--4897211	113	2.0	111	96	3	406	34	17	15	31	1.92
4897268--4897306	20	2.0	19	95	5	69	25	7	30	35	1.84
4898894--4898989	12	8.2	12	79	6	63	22	34	7	35	1.82
4898894--4898977	6	14.0	6	80	0	78	23	34	5	35	1.80
4898895--4898977	15	5.7	15	81	8	91	22	34	6	36	1.79
4898898--4898981	27	3.1	27	84	0	114	22	34	7	35	1.82
4898898--4898992	6	15.3	6	75	6	55	21	34	7	36	1.81
4900443--4901846	196	7.1	198	92	4	2352	32	15	14	37	1.88
4901931--4901969	19	2.1	19	90	0	60	51	12	2	33	1.54
4905842--4905894	24	2.2	24	83	6	63	26	7	13	52	1.66
4906037--4906083	20	2.4	19	79	10	58	19	17	8	55	1.67
4906202--4906243	18	2.3	19	91	8	77	19	14	9	57	1.64
4906203--4906256	18	2.8	20	86	10	60	18	16	11	53	1.72
4909079--4909110	16	2.0	16	100	0	64	37	6	31	25	1.81
4913146--4913220	23	3.4	22	67	25	59	46	1	2	49	1.24
4913158--4913232	23	3.4	22	68	15	64	48	1	2	48	1.24
4913204--4913279	23	3.4	23	74	17	70	43	1	1	53	1.17
4914823--4916916	182	11.6	182	92	2	3447	42	13	17	27	1.86
4914823--4916916	898	2.3	896	92	2	3482	42	13	17	27	1.86
4917052--4917213	87	1.9	87	90	0	261	34	14	9	41	1.79
4917136--4917180	23	2.0	23	86	0	63	40	13	8	37	1.76
4917685--4917724	16	2.5	16	91	0	62	65	7	5	22	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4917744--4917803	31	1.9	31	93	0	102	40	6	10	43	1.64
4917828--4917870	22	2.0	22	100	0	86	51	13	0	34	1.42
4917830--4917878	22	2.2	22	88	3	71	55	14	0	30	1.40
4917818--4918429	54	11.5	54	70	19	348	52	13	0	33	1.41
4917850--4918457	32	22.4	31	69	25	226	52	12	0	34	1.41
4917833--4918192	80	4.5	80	88	6	541	53	13	0	33	1.41
4917994--4918038	22	2.0	22	100	0	90	48	13	0	37	1.42
4917992--4918044	22	2.4	22	90	6	81	52	11	0	35	1.37
4918128--4918214	22	4.0	22	96	0	165	51	13	0	34	1.42
4918128--4918286	44	3.4	44	82	16	210	51	12	0	35	1.40
4918079--4918485	98	4.0	98	86	8	457	52	12	0	35	1.41
4917962--4918321	76	4.7	76	76	15	398	52	12	0	34	1.40
4918226--4918286	22	2.8	22	94	0	113	50	11	0	37	1.39
4918194--4918457	112	2.4	108	91	2	411	52	11	0	35	1.41
4918365--4918410	22	2.0	22	87	4	65	54	15	0	30	1.41
4918293--4918554	80	3.3	79	82	11	270	51	8	0	39	1.38
4918405--4918569	30	5.2	29	79	13	150	50	3	0	45	1.21
4918483--4918569	15	5.8	14	90	8	111	48	0	1	50	1.08
4918762--4918798	12	3.0	12	92	4	56	18	54	16	10	1.71
4918841--4918880	19	2.1	19	85	0	53	55	0	0	45	0.99
4918885--4918934	12	4.3	12	80	7	59	28	50	8	14	1.70
4918881--4918933	23	2.2	24	86	3	72	30	49	5	15	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4918889--4918933	24	1.9	23	90	4	72	31	48	4	15	1.65
4919917--4919973	30	1.9	30	96	0	105	54	10	3	31	1.51
4920787--4920864	31	2.5	31	91	0	129	38	15	23	23	1.92
4927606--4927657	20	2.6	20	96	0	95	38	26	13	21	1.90
4927568--4927723	20	7.8	20	72	7	68	36	26	17	19	1.94
4927710--4927759	19	2.7	19	93	3	84	42	26	20	12	1.86
4927710--4927897	20	9.6	20	80	9	192	35	25	20	19	1.96
4927710--4927898	77	2.4	78	81	5	222	35	24	20	19	1.96
4928301--4928371	33	2.2	33	92	0	115	11	22	18	47	1.80
4928492--4928546	14	3.6	14	73	21	56	40	23	27	9	1.85
4928492--4928562	33	2.2	33	92	0	115	42	25	23	8	1.82
4928558--4928654	19	5.7	18	73	20	84	10	24	22	42	1.85
4928580--4928668	14	5.7	14	76	21	88	8	25	23	41	1.83
4928563--4928676	33	3.5	33	92	2	203	9	24	21	44	1.82
4930364--4930741	184	2.0	186	98	1	735	22	12	19	46	1.83
4930364--4930741	93	4.1	93	98	1	735	22	12	19	46	1.83
4930785--4930913	19	7.3	19	75	17	125	45	28	17	8	1.77
4930821--4930913	33	2.8	32	91	4	150	46	27	18	7	1.76
4930785--4930913	52	2.5	52	74	14	140	45	28	17	8	1.77
4930909--4931043	19	7.6	19	75	16	128	11	19	23	45	1.82
4930931--4930987	14	3.7	14	77	20	60	10	21	22	45	1.82
4930914--4931006	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4932684--4932756	38	1.9	38	97	0	137	28	1	16	53	1.51
4932679--4932743	19	3.4	19	64	8	51	24	1	15	58	1.46
4932738--4932772	13	2.6	14	90	4	54	31	0	22	45	1.53
4932878--4932979	19	5.6	19	84	13	151	44	17	23	14	1.86
4933008--4933314	19	17.4	19	79	16	358	14	20	18	47	1.83
4933008--4933247	71	3.4	71	83	11	355	15	20	17	47	1.83
4932976--4933314	142	2.4	136	89	6	504	14	20	18	46	1.83
4933008--4933286	52	5.2	52	90	6	354	14	20	17	47	1.83
4935618--4935642	12	2.1	12	100	0	50	0	28	0	72	0.86
4935817--4935863	24	2.0	24	87	8	69	38	21	14	25	1.92
4936537--4936905	20	18.5	20	86	4	458	20	18	26	34	1.96
4937281--4937347	31	2.2	31	94	0	116	20	28	14	35	1.93
4938247--4938642	139	2.9	140	81	3	444	44	11	13	30	1.79
4938941--4938984	16	2.9	14	86	10	52	61	13	6	18	1.54
4942074--4942146	19	3.7	19	82	13	85	28	32	17	20	1.96
4946491--4946556	31	2.1	31	97	0	123	30	7	15	46	1.73
4947742--4947862	21	5.6	22	78	11	101	28	23	18	29	1.98
4947742--4947849	23	4.8	23	76	11	100	27	25	16	29	1.97
4947742--4947847	44	2.4	44	83	10	119	28	25	16	29	1.97
4951453--4951491	20	2.0	20	94	0	69	28	25	15	30	1.96
4952159--4952208	23	2.2	23	100	0	100	40	12	8	40	1.72
4953750--4953780	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4954757--4954873	2	60.5	2	90	9	190	50	0	0	48	1.06
4957576--4957613	3	12.7	3	100	0	76	65	0	34	0	0.93
4957936--4957987	27	1.9	27	92	0	86	38	0	3	57	1.17
4958596--4958656	31	2.0	31	93	0	104	31	16	4	47	1.68
4963024--4963115	3	31.3	3	73	4	71	54	2	1	42	1.19
4968254--4968379	47	2.8	45	84	8	157	32	19	6	41	1.77
4975517--4975642	47	2.8	45	84	5	164	32	22	5	39	1.77
4976752--4976815	29	2.2	30	80	5	76	32	25	6	35	1.81
4998031--4998628	20	29.2	20	83	10	539	38	26	19	16	1.92
4998031--4998628	62	9.8	59	84	8	557	38	26	19	16	1.92
4998088--4998628	40	13.2	40	89	6	693	37	27	19	16	1.92
4998721--4998760	6	7.0	6	97	2	66	30	52	17	0	1.45
4999263--4999310	15	3.1	15	84	6	60	0	18	47	33	1.49
5000585--5000625	16	2.5	17	84	11	59	41	2	0	56	1.13
5001848--5002108	129	2.0	129	98	0	504	53	6	7	32	1.56
5002757--5002803	22	2.1	22	84	4	58	42	2	0	55	1.12
5007214--5007260	2	23.5	2	100	0	94	51	0	0	48	1.00
5007360--5007598	119	2.0	119	99	0	469	34	15	16	32	1.91
5008965--5009016	20	2.6	20	93	0	86	34	19	21	25	1.96
5009205--5009254	20	2.5	20	83	6	57	40	14	14	32	1.85
5012300--5012347	19	2.5	19	86	3	60	50	6	14	29	1.67
5014367--5014439	33	2.2	33	85	7	94	24	4	0	71	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5028841--5028866	5	5.2	5	100	0	52	23	57	19	0	1.40
5037157--5037209	19	2.8	20	77	11	58	35	15	5	43	1.70
5040758--5040812	2	27.5	2	100	0	110	49	0	0	50	1.00
5041267--5041351	10	7.7	10	69	23	55	38	9	2	49	1.48
5041218--5041329	2	56.0	2	68	19	65	41	8	2	47	1.47
5041217--5041363	16	9.3	16	70	17	60	40	8	2	47	1.49
5041280--5041369	20	4.8	20	70	23	70	38	10	2	48	1.49
5041360--5041402	20	2.2	19	83	4	50	48	4	4	41	1.44
5041449--5041473	13	1.9	13	100	0	50	32	8	4	56	1.47
5041447--5041521	32	2.3	32	88	0	114	41	6	5	46	1.53

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