genome.fa.s9592.2.7.7.80.10.50.1000.22.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  22  of  39  ( 4673 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)
4335711--4336043	36	9.6	35	82	10	302	46	3	6	43	1.46
4335663--4336069	37	11.9	34	76	16	246	46	3	6	43	1.46
4335643--4336098	72	6.7	71	79	13	378	47	3	5	43	1.45
4336099--4336158	14	4.0	15	80	10	61	20	6	1	71	1.17
4337547--4337592	5	9.4	5	79	11	51	19	4	0	76	0.96
4342791--4343616	84	10.0	83	76	7	639	30	23	19	25	1.98
4342796--4343617	249	3.3	249	90	1	1192	30	23	19	26	1.98
4342796--4343616	165	5.0	166	78	8	752	30	23	19	26	1.98
4344247--4344621	36	10.4	37	77	13	173	45	2	6	45	1.44
4344274--4344375	27	3.5	28	73	21	93	43	2	5	48	1.42
4344274--4344411	62	2.2	63	87	5	192	42	3	6	47	1.47
4344335--4344602	36	7.2	37	87	6	346	45	3	6	44	1.46
4344335--4344602	73	3.6	73	85	8	362	45	3	6	44	1.46
4344335--4344632	36	8.1	36	84	8	237	44	3	6	46	1.43
4344618--4344659	15	2.8	15	89	7	59	26	2	0	71	0.98
4345870--4345915	2	23.0	2	100	0	92	50	0	0	50	1.00
4345930--4345966	15	2.3	17	86	9	51	8	18	2	70	1.25
4346046--4346072	2	13.5	2	100	0	54	48	0	0	51	1.00
4347779--4348237	112	4.1	112	93	0	767	45	13	15	25	1.83
4348503--4348552	20	2.5	20	96	0	91	32	14	10	44	1.78
4348518--4348860	184	1.9	183	90	4	557	44	11	15	27	1.81
4349429--4349476	23	2.1	23	92	0	78	37	18	8	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4349745--4349784	21	2.0	21	90	5	64	42	0	2	55	1.13
4351856--4351913	21	2.8	20	71	5	53	34	20	17	27	1.95
4351908--4352015	20	5.3	20	86	1	144	43	25	12	18	1.85
4351883--4352014	60	2.2	61	87	6	189	43	23	13	19	1.87
4351908--4352074	20	8.4	20	78	8	117	40	22	12	23	1.88
4351922--4352073	40	3.8	41	82	4	132	39	22	12	25	1.89
4351883--4352030	60	2.5	60	83	8	178	41	22	13	21	1.88
4351982--4352073	19	4.7	19	80	8	87	35	21	11	30	1.90
4352861--4352894	12	2.8	12	90	0	50	55	29	0	14	1.40
4353006--4353061	24	2.3	24	84	0	67	28	19	16	35	1.93
4353020--4353073	24	2.2	24	93	0	90	20	18	20	40	1.91
4355675--4355713	14	2.9	14	82	17	55	41	30	20	7	1.80
4355753--4355816	20	3.1	21	82	8	78	15	20	20	43	1.87
4355879--4355989	51	2.2	51	93	3	188	54	18	1	26	1.54
4357370--4357445	21	3.6	21	80	7	100	19	22	35	22	1.96
4357350--4357443	42	2.2	42	84	3	118	18	23	37	21	1.94
4359942--4359999	22	2.6	22	83	0	71	24	17	39	18	1.92
4360104--4360391	40	7.2	40	86	3	391	17	13	26	43	1.85
4360104--4360391	20	14.4	20	85	0	342	17	13	26	43	1.85
4360104--4360391	60	4.8	60	85	0	378	17	13	26	43	1.85
4369784--4369851	31	2.2	31	89	0	100	23	23	8	44	1.81
4371958--4372052	28	3.4	26	76	15	75	52	18	2	26	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4371980--4372052	29	2.6	28	81	12	87	53	17	1	27	1.52
4372273--4372346	29	2.5	30	82	10	82	25	1	20	52	1.54
4372271--4372346	28	2.6	30	80	16	79	25	1	21	52	1.54
4372450--4372566	20	5.8	20	77	9	103	32	27	13	26	1.94
4372450--4372561	40	2.8	40	84	4	127	33	27	12	26	1.92
4373422--4373474	23	2.3	23	87	9	81	20	18	20	39	1.92
4373612--4373665	24	2.3	23	90	6	90	22	18	20	38	1.93
4373344--4373721	191	2.0	185	92	7	636	30	16	19	33	1.94
4377709--4377827	21	5.7	21	83	4	114	24	18	34	22	1.96
4377709--4377830	42	2.9	42	86	0	154	24	18	34	22	1.96
4378239--4378279	21	2.0	21	90	0	64	31	34	17	17	1.93
4379815--4379868	20	2.7	19	80	8	63	48	22	14	14	1.81
4380227--4380277	22	2.3	22	83	6	59	21	15	39	23	1.92
4383745--4383769	13	1.9	13	100	0	50	64	0	0	36	0.94
4385087--4385128	18	2.3	18	88	8	59	45	2	2	50	1.27
4386712--4386760	24	2.1	23	88	3	71	34	4	0	61	1.15
4388851--4388888	19	2.0	19	89	0	58	34	2	0	63	1.09
4390901--4391166	132	2.0	132	98	0	514	27	13	16	42	1.87
4392688--4393495	105	7.9	104	92	4	1235	33	25	18	23	1.97
4392688--4393495	211	3.9	209	90	6	1248	33	25	18	23	1.97
4392688--4393491	317	2.6	305	90	5	1242	33	25	18	23	1.97
4393108--4393518	94	4.3	94	90	4	599	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4393532--4393701	86	2.0	84	82	6	209	33	22	20	24	1.97
4394227--4394267	2	21.0	2	85	5	57	46	4	0	48	1.23
4394366--4394414	24	2.1	23	88	3	71	34	4	0	61	1.15
4396576--4396613	19	2.0	19	89	0	58	34	2	0	63	1.09
4397550--4397591	22	1.9	22	85	0	57	45	0	2	52	1.13
4398372--4398420	20	2.4	20	86	3	62	42	14	14	28	1.84
4398426--4398463	19	2.0	19	89	0	58	52	10	13	23	1.71
4407049--4407184	55	2.5	56	80	6	152	36	19	13	30	1.90
4407787--4407971	31	6.0	31	97	1	336	38	22	19	19	1.93
4408647--4408691	21	2.1	21	87	0	63	15	24	28	31	1.96
4409385--4409653	55	5.0	54	81	10	295	31	25	15	27	1.95
4409389--4409654	106	2.5	101	78	11	280	31	25	15	28	1.96
4409657--4409763	36	2.9	36	87	2	151	22	21	18	37	1.94
4409658--4409766	37	3.0	36	89	1	146	22	21	19	36	1.95
4411036--4411161	16	7.8	16	72	18	66	7	19	0	73	1.11
4411064--4411142	41	1.9	39	80	19	90	6	20	1	72	1.14
4411045--4411152	25	4.3	26	74	15	102	5	20	0	73	1.09
4420778--4420874	46	2.1	47	88	7	144	42	17	11	28	1.84
4421417--4421481	30	2.2	30	97	0	121	63	16	7	12	1.51
4424896--4425504	226	2.7	226	85	3	769	33	13	11	41	1.80
4425591--4425651	22	2.7	22	89	2	86	50	3	3	42	1.34
4426071--4426126	29	1.9	29	96	0	103	44	16	7	32	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4428849--4428913	30	2.2	30	97	0	121	33	0	20	46	1.51
4428862--4428934	30	2.5	29	86	6	94	38	0	20	41	1.53
4430508--4430533	2	13.0	2	100	0	52	50	0	0	50	1.00
4431534--4431570	18	2.1	18	89	0	56	45	0	8	45	1.32
4431918--4431955	18	2.1	19	95	5	69	55	0	0	44	0.99
4436060--4436100	21	2.0	21	95	0	73	34	29	14	21	1.93
4440519--4440578	21	2.9	21	92	0	93	33	3	20	43	1.68
4440846--4440894	24	2.0	26	84	15	68	40	0	16	42	1.48
4441103--4441150	4	12.0	4	100	0	96	25	0	25	50	1.50
4444966--4445124	64	2.5	64	83	4	178	34	19	17	28	1.95
4445779--4445903	31	4.0	31	92	2	207	19	18	23	39	1.93
4448853--4448920	3	22.7	3	90	0	109	4	32	0	63	1.14
4449458--4449616	64	2.5	64	80	6	153	36	21	15	26	1.93
4450271--4450395	31	4.0	31	91	2	198	20	19	21	39	1.93
4453346--4453380	3	11.7	3	93	0	61	2	34	0	62	1.10
4453918--4454076	64	2.5	64	85	4	196	33	20	18	27	1.96
4454731--4454855	31	4.0	31	94	2	216	18	18	24	39	1.92
4456002--4456061	21	2.9	21	89	0	93	31	3	20	45	1.67
4456313--4456361	2	24.5	2	100	0	98	51	0	0	48	1.00
4456540--4456573	16	2.1	16	89	10	52	55	0	17	26	1.42
4460596--4460670	38	1.9	40	84	10	102	54	2	0	42	1.14
4461120--4461155	16	2.3	15	90	4	54	41	0	5	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4461281--4461332	15	3.3	15	76	10	59	28	23	19	28	1.98
4466258--4466311	27	2.0	27	100	0	108	29	11	11	48	1.73
4470274--4470300	2	13.5	2	100	0	54	48	0	0	51	1.00
4475307--4475332	2	13.0	2	100	0	52	50	50	0	0	1.00
4475737--4475762	3	8.7	3	100	0	52	30	0	0	69	0.89
4478161--4478218	19	3.2	19	72	18	68	55	25	13	5	1.59
4480412--4480480	32	2.1	33	97	2	131	30	17	5	46	1.71
4482678--4482714	17	2.2	17	100	0	74	59	0	21	18	1.38
4482674--4482705	13	2.5	13	94	0	55	62	0	21	15	1.32
4482802--4482903	47	2.2	47	96	0	186	26	11	31	30	1.92

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