genome.fa.s8094.2.7.7.80.10.50.1000.22.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  22  of  43  ( 5090 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)
4370751--4370791	20	2.0	20	86	13	57	39	2	0	58	1.11
4372222--4372367	41	3.5	41	70	9	116	32	15	20	31	1.94
4372217--4372503	83	3.5	82	79	3	274	31	14	22	31	1.94
4372956--4373000	22	2.0	22	91	0	72	40	8	17	33	1.81
4374022--4374388	83	4.4	83	80	2	328	29	15	20	33	1.94
4374022--4374386	165	2.2	166	81	2	396	29	15	20	33	1.94
4374269--4374408	41	3.3	42	73	10	142	30	13	25	31	1.94
4374095--4374449	83	4.3	83	82	4	315	30	15	21	31	1.95
4374266--4374614	83	4.2	83	73	12	304	31	16	22	29	1.96
4374311--4374638	41	7.9	41	71	13	197	32	16	22	28	1.95
4374374--4374673	165	1.8	167	91	1	496	32	18	21	28	1.96
4378724--4378774	21	2.4	21	83	0	66	39	19	39	1	1.63
4379146--4379341	44	4.4	44	84	4	225	29	24	16	29	1.96
4379146--4379357	93	2.4	87	79	7	246	32	24	16	27	1.96
4379346--4379489	43	3.3	43	87	0	189	35	23	16	24	1.95
4379357--4379529	86	2.0	86	80	4	197	32	22	17	27	1.97
4379578--4379616	15	2.6	15	100	0	78	17	20	23	38	1.93
4380589--4380646	29	2.0	29	100	0	116	20	27	13	37	1.91
4380909--4380978	32	2.4	28	73	17	68	68	1	12	17	1.28
4380918--4380982	32	2.0	32	90	0	103	69	1	13	15	1.27
4385008--4385133	66	1.9	65	88	3	191	25	19	26	27	1.99
4395339--4395384	17	2.6	17	93	3	74	26	4	19	50	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4397259--4397294	15	2.4	15	100	0	72	33	8	27	30	1.86
4402129--4402200	23	3.2	23	63	21	62	34	16	4	44	1.67
4402116--4402222	44	2.4	44	95	0	196	32	18	8	40	1.81
4406840--4406936	6	16.3	6	71	16	60	4	18	2	75	1.06
4406834--4406932	34	2.8	33	81	14	110	5	18	2	74	1.09
4406848--4406901	22	2.4	23	84	12	76	5	18	1	74	1.11
4406871--4406939	18	3.8	18	81	7	86	2	17	2	76	1.03
4407887--4407929	6	7.2	6	94	0	77	30	34	18	16	1.93
4421627--4421653	2	13.5	2	100	0	54	51	0	0	48	1.00
4421676--4421850	85	2.1	85	90	2	271	33	18	18	29	1.95
4421974--4422169	44	4.4	44	84	1	214	33	18	6	40	1.77
4421999--4422170	44	3.9	44	86	0	236	33	18	6	41	1.77
4422321--4422991	59	11.3	60	82	8	648	30	23	11	34	1.90
4426784--4426808	12	2.1	12	100	0	50	36	24	16	24	1.94
4427198--4427445	89	2.7	89	82	8	259	35	18	5	40	1.73
4427219--4427447	44	5.0	44	80	12	246	34	17	5	41	1.73
4427335--4427447	52	2.2	53	95	1	201	34	15	5	45	1.68
4427584--4427712	60	2.2	59	80	9	147	27	23	13	36	1.92
4427600--4427713	60	1.9	60	85	3	158	28	21	14	35	1.92
4427742--4427868	59	2.2	59	81	8	143	29	24	11	34	1.90
4427560--4427868	118	2.6	117	74	14	294	27	23	11	36	1.90
4433168--4433238	35	2.0	35	91	0	115	25	29	7	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4433351--4433408	29	2.0	30	86	3	82	13	39	17	29	1.88
4433755--4433816	22	2.9	22	90	2	90	19	1	20	58	1.48
4434894--4435052	57	2.8	57	94	0	282	27	4	20	47	1.69
4434882--4435052	30	5.9	30	78	13	205	28	4	20	46	1.70
4436365--4436423	31	1.9	31	92	0	100	44	8	5	42	1.57
4437130--4437158	11	2.5	12	94	5	51	41	6	0	51	1.28
4438760--4438794	12	2.8	13	86	8	54	2	17	0	80	0.84
4447310--4447498	21	8.8	21	70	3	99	35	25	16	22	1.95
4448227--4448280	20	2.7	20	91	2	81	25	18	18	37	1.94
4453671--4453707	20	1.9	20	94	5	58	27	8	5	59	1.48
4454836--4454865	11	2.7	11	94	0	51	10	6	46	36	1.64
4464893--4464939	21	2.1	22	84	7	60	31	2	6	59	1.34
4466458--4466512	25	2.2	25	96	0	101	58	12	5	23	1.55
4466994--4467029	14	2.6	14	87	12	56	52	0	2	44	1.15
4470851--4470914	31	2.1	31	100	0	128	43	12	12	31	1.80
4473428--4473468	19	2.2	20	86	8	59	70	9	0	19	1.14
4474379--4474412	15	2.3	15	89	0	50	38	11	14	35	1.83
4480735--4480778	3	14.7	3	95	0	79	36	0	31	31	1.58
4484650--4484683	16	2.1	16	89	10	52	58	0	0	41	0.98
4485344--4485390	18	2.7	18	80	12	53	51	14	0	34	1.43
4486507--4486577	31	2.2	33	85	9	94	45	7	4	43	1.50
4499287--4499317	6	5.2	6	96	0	53	35	45	16	3	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4507678--4507856	44	4.1	44	88	0	277	26	17	26	29	1.97
4508566--4508649	41	2.0	43	88	4	127	44	7	5	42	1.56
4512115--4512169	6	8.5	6	78	13	56	1	14	1	81	0.85
4512121--4512192	7	10.0	7	80	19	69	1	16	2	79	0.93
4512115--4512169	13	4.2	13	81	9	67	1	14	1	81	0.85
4514285--4514350	22	2.8	24	79	13	82	16	12	22	48	1.79
4520232--4520300	22	3.1	22	64	22	54	31	21	17	28	1.96
4520348--4521202	225	3.8	225	89	3	1286	32	18	14	33	1.92
4522506--4522766	125	2.1	124	85	5	348	24	25	17	32	1.97
4526676--4526737	25	2.5	25	97	2	117	29	27	11	32	1.91
4530996--4531057	22	2.7	23	76	16	65	17	14	24	43	1.86
4531405--4531468	22	2.7	23	77	18	69	15	12	25	46	1.81
4530825--4531646	409	2.0	412	94	1	1434	32	14	19	32	1.93
4534974--4535067	6	16.5	6	98	1	153	29	53	17	0	1.44
4535559--4535618	5	11.6	5	94	1	93	0	20	55	25	1.44
4535722--4535792	21	3.4	21	67	18	67	36	26	18	18	1.94
4535781--4535878	21	4.7	21	71	7	83	33	25	18	22	1.96
4535740--4535882	62	2.3	62	90	0	223	35	23	18	21	1.96
4540647--4540755	36	3.0	36	93	0	182	43	15	15	25	1.86
4542976--4543029	28	1.9	28	84	0	72	33	18	5	42	1.73
4544404--4544566	65	2.5	64	84	3	220	26	15	26	30	1.96
4544514--4544564	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)
4544408--4544615	65	3.2	65	81	12	207	26	17	25	29	1.97
4544783--4544822	20	2.0	21	85	5	55	42	10	5	42	1.60
4549434--4549480	20	2.2	21	78	17	53	44	6	12	36	1.68
4551520--4551697	64	2.8	62	80	10	187	26	16	26	29	1.97
4551645--4551683	19	2.1	19	95	0	69	25	15	38	20	1.92
4551538--4551697	65	2.5	65	85	3	207	27	16	26	30	1.97
4551914--4551953	20	2.0	21	85	5	55	42	10	5	42	1.60
4557102--4557204	36	2.9	36	92	0	161	44	16	15	23	1.86
4559414--4559474	29	2.1	30	84	3	79	37	14	4	42	1.68
4561452--4561519	32	2.1	32	100	0	136	42	20	8	27	1.82
4562008--4562205	21	9.4	20	77	13	159	21	19	21	37	1.94
4562090--4562212	42	2.9	42	91	2	192	21	20	20	37	1.95
4562298--4562331	12	3.1	11	91	8	52	29	52	17	0	1.45
4562828--4562861	12	3.1	11	91	8	52	0	17	52	29	1.45
4562944--4563011	21	3.2	21	81	4	84	26	20	25	27	1.99
4563021--4563177	21	7.5	21	82	7	176	23	21	25	29	1.99
4563041--4563157	62	1.9	62	90	0	189	23	23	22	31	1.98
4563021--4563177	42	3.8	42	80	8	194	23	21	25	29	1.99
4563534--4563607	38	2.0	37	82	10	89	43	2	0	54	1.14
4564597--4564654	23	2.5	23	78	10	64	24	18	17	39	1.92
4565961--4565995	14	2.5	14	90	0	52	31	0	0	68	0.90
4566650--4566712	28	2.3	28	83	2	83	49	0	1	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4572222--4572267	19	2.4	19	85	0	56	39	4	15	41	1.67
4572234--4572283	19	2.6	19	80	3	55	38	10	16	36	1.82
4581502--4581548	18	2.6	18	83	6	60	21	21	14	42	1.88
4590838--4590869	15	2.0	17	88	11	50	31	15	6	46	1.71
4590965--4591008	22	2.0	23	90	4	72	79	4	9	6	1.04
4591406--4591437	2	16.0	2	100	0	64	50	0	0	50	1.00
4593518--4593589	30	2.4	30	95	0	126	31	25	19	23	1.98
4593576--4593700	31	4.0	30	79	13	128	31	20	19	29	1.97
4598757--4598828	30	2.4	30	92	0	117	33	25	18	23	1.97
4598820--4598939	31	3.8	31	75	15	104	29	19	20	31	1.96

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