genome.fa.s9175.2.7.7.80.10.50.1000.21.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  21  of  51  ( 6037 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)
4134159--4134214	20	2.8	20	91	0	85	50	23	16	10	1.76
4134632--4134673	22	1.9	22	95	0	75	19	14	42	23	1.87
4134849--4134966	20	5.9	20	83	4	112	25	21	22	31	1.98
4142645--4142741	3	32.0	3	69	17	51	59	2	5	32	1.31
4142706--4142739	17	1.9	17	88	5	50	64	0	5	29	1.17
4142658--4142742	38	2.2	37	78	13	93	58	3	5	31	1.39
4145482--4145523	20	2.0	21	86	9	59	33	2	35	28	1.70
4155931--4156034	37	2.8	37	85	0	136	41	13	13	31	1.83
4156520--4156578	2	29.5	2	100	0	118	49	0	0	50	1.00
4156576--4156607	3	11.0	3	93	6	57	31	0	0	68	0.90
4156621--4156645	12	2.1	12	100	0	50	24	8	0	68	1.16
4156658--4156748	29	3.0	29	70	19	71	28	4	3	63	1.29
4156719--4156841	24	5.0	24	70	17	74	30	2	1	65	1.15
4156517--4156604	14	5.8	16	84	14	64	43	0	0	56	0.99
4157806--4157849	20	2.2	20	95	0	79	29	34	36	0	1.58
4160364--4160405	16	2.8	14	83	16	57	80	7	11	0	0.88
4162021--4163079	106	10.0	106	91	0	1625	34	25	17	22	1.96
4163829--4163925	37	2.6	37	85	0	131	40	16	11	31	1.84
4164508--4164534	2	13.5	2	100	0	54	48	0	0	51	1.00
4164645--4164703	13	4.1	14	78	20	59	25	3	0	71	1.02
4164782--4164837	19	2.9	19	75	19	62	23	8	1	66	1.30
4168373--4168414	19	2.3	19	87	4	59	14	33	30	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4189902--4189963	23	2.7	23	92	0	97	38	16	6	38	1.74
4193431--4193487	29	2.0	29	100	0	114	45	14	14	26	1.82
4198121--4198177	29	2.0	29	100	0	114	45	14	14	26	1.82
4199821--4199902	40	2.0	40	100	0	164	30	31	17	20	1.95
4206757--4206832	36	2.1	36	95	0	134	43	14	9	32	1.77
4208878--4208930	23	2.3	23	96	0	97	45	15	3	35	1.64
4209895--4209965	21	3.4	21	94	0	115	28	15	11	45	1.80
4212760--4212799	2	21.5	2	85	14	59	50	0	0	50	1.00
4213967--4214054	37	2.4	37	82	3	97	23	2	2	71	1.09
4213982--4214075	14	6.9	14	73	13	63	28	2	2	67	1.14
4214615--4214657	22	1.9	23	90	4	70	16	4	0	79	0.90
4214617--4214665	22	2.3	22	82	10	57	16	4	2	77	1.01
4218724--4218983	95	2.7	95	84	7	305	34	15	17	32	1.91
4219933--4220534	147	4.1	147	92	0	972	36	23	14	25	1.93
4220936--4221125	85	2.2	85	90	0	299	33	23	17	25	1.96
4221751--4221804	2	27.5	2	96	3	101	50	0	0	50	1.00
4222174--4222226	21	2.4	22	87	6	72	45	0	3	50	1.19
4222186--4222227	2	22.5	2	86	13	63	47	0	0	52	1.00
4223375--4223441	2	33.5	2	90	0	107	44	0	4	50	1.22
4223659--4223696	18	2.1	18	85	9	51	7	10	0	81	0.87
4223734--4223768	2	17.5	2	100	0	70	48	0	0	51	1.00
4223938--4224006	34	2.1	34	86	2	95	17	7	5	69	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4224437--4224529	31	3.0	30	86	7	118	31	5	20	43	1.74
4230693--4230773	19	4.3	19	91	0	126	16	29	25	28	1.96
4235511--4235630	43	2.8	43	85	0	159	33	23	18	25	1.97
4239144--4239610	41	11.4	41	73	5	266	34	18	18	28	1.95
4239236--4239610	82	4.6	82	85	2	441	35	18	17	28	1.94
4239172--4239593	164	2.6	164	83	3	499	33	18	18	29	1.95
4240761--4240812	27	1.9	27	84	0	68	61	7	11	19	1.53
4241231--4241277	2	24.5	2	78	8	53	51	2	2	44	1.25
4242417--4242489	9	8.2	9	71	14	53	71	1	1	26	1.02
4242406--4242489	31	2.7	30	77	15	91	71	2	1	25	1.05
4242412--4242494	25	3.3	25	80	12	91	72	1	1	25	0.99
4242414--4242470	3	19.7	3	79	13	66	70	0	0	29	0.88
4243032--4243479	188	2.4	188	88	0	662	28	14	22	34	1.94
4244235--4244268	18	1.9	17	100	0	59	58	0	5	35	1.22
4245568--4245620	21	2.5	21	100	0	106	18	22	28	30	1.98
4247314--4247351	19	1.9	20	84	10	51	39	21	0	39	1.53
4249377--4249435	19	3.4	16	76	15	55	37	18	16	27	1.93
4256187--4256249	23	2.7	23	87	0	99	22	28	28	20	1.98
4262323--4262374	27	1.9	27	84	7	70	61	3	17	17	1.49
4263802--4263880	3	27.0	3	78	10	83	69	1	2	26	1.09
4263983--4264044	20	3.0	20	79	6	70	30	29	9	30	1.89
4263984--4264067	42	2.0	42	81	4	98	30	28	11	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4264133--4264181	20	2.5	20	86	6	64	24	28	12	34	1.91
4263988--4264170	82	2.2	81	76	9	192	28	25	13	32	1.93
4265177--4265230	24	2.2	24	90	0	81	20	20	20	38	1.93
4267726--4267798	29	2.5	29	93	4	121	28	16	21	32	1.95
4269187--4269282	21	4.6	21	80	2	104	23	17	34	23	1.96
4269567--4269675	42	2.6	41	74	8	103	32	32	13	22	1.93
4271456--4271555	20	5.1	20	93	1	166	51	22	17	10	1.74
4272082--4272127	20	2.3	20	81	7	58	26	10	19	43	1.84
4272119--4272174	27	2.1	27	89	0	85	28	16	17	37	1.91
4278235--4278285	22	2.3	21	80	9	57	62	1	1	33	1.17
4282977--4283009	13	2.5	13	100	0	66	42	9	15	33	1.78
4284838--4284877	21	1.9	21	89	0	62	10	25	40	25	1.86
4288794--4289017	117	1.9	117	81	5	274	28	14	9	48	1.74
4291168--4291215	23	2.1	23	84	7	62	14	14	4	66	1.39
4291191--4291226	14	2.6	13	87	12	54	11	16	0	72	1.12
4300931--4300959	8	3.8	8	95	4	51	79	0	20	0	0.74
4302099--4302578	110	4.5	107	78	7	499	34	22	19	24	1.96
4302092--4302571	215	2.2	216	94	0	836	33	22	18	24	1.97
4303972--4304171	100	2.0	100	97	1	375	33	14	28	24	1.94
4304825--4304859	14	2.5	14	90	9	54	11	14	0	74	1.08
4305087--4305125	16	2.4	16	95	0	69	38	15	30	15	1.88
4306548--4306572	13	1.9	13	100	0	50	16	48	16	20	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309077--4309146	12	5.8	12	78	6	70	15	15	18	50	1.79
4309077--4309148	24	3.0	24	89	0	117	16	15	18	50	1.79
4309044--4309148	48	2.2	49	84	6	135	20	15	16	48	1.81
4310312--4310367	15	3.6	15	79	9	67	42	12	12	32	1.80
4310315--4310365	17	3.1	17	77	11	61	43	11	9	35	1.75
4310538--4310590	21	2.5	21	93	0	88	28	28	22	20	1.99
4310786--4310840	13	4.2	13	75	13	58	49	12	3	34	1.59
4310826--4310924	33	3.0	33	94	1	164	45	15	7	32	1.73
4310919--4310958	21	1.9	21	94	0	71	47	7	15	30	1.72
4313266--4313311	12	3.6	12	81	16	56	17	19	17	45	1.85
4313265--4313304	15	2.9	14	85	14	57	20	17	15	47	1.83
4316339--4316447	39	3.0	34	76	13	119	15	6	30	47	1.70
4318389--4318429	20	2.0	21	85	4	57	39	0	4	56	1.21
4321780--4321832	23	2.3	23	80	0	61	22	18	37	20	1.94
4327375--4327410	11	3.4	11	96	3	65	8	25	8	58	1.55
4331301--4331357	30	1.9	30	92	0	96	38	7	19	35	1.79
4336921--4336975	19	2.7	21	80	8	69	34	14	23	27	1.94
4337766--4337841	23	3.3	23	74	3	82	18	15	25	40	1.90
4337965--4338036	18	4.0	18	76	3	65	41	2	20	34	1.67
4338066--4338103	2	19.0	2	100	0	76	0	0	50	50	1.00
4344528--4344579	12	4.2	12	74	13	52	36	1	1	59	1.19
4344712--4344784	25	3.0	24	77	20	73	41	5	0	53	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4344728--4344803	28	3.1	24	83	14	86	42	5	0	52	1.24
4349649--4349710	3	21.0	3	77	12	58	69	0	1	29	0.98
4349652--4349691	10	4.0	10	86	0	53	62	0	2	35	1.09
4349649--4349710	13	5.2	12	83	13	58	69	0	1	29	0.98
4349663--4349718	17	3.1	17	87	10	67	75	0	0	25	0.81
4349662--4349707	24	2.0	24	86	4	67	73	0	0	26	0.83
4349680--4349718	6	6.7	6	82	5	53	79	0	0	20	0.73
4349919--4350072	40	3.6	40	67	17	110	28	17	29	24	1.97
4349915--4350113	91	2.2	91	99	0	389	27	17	29	25	1.98
4350007--4350306	141	2.2	137	85	6	394	25	18	29	27	1.98

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