genome.fa.s7999.2.7.7.80.10.50.1000.17.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  17  of  50  ( 5918 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)
4422149--4422193	19	2.3	19	85	11	56	55	6	2	35	1.38
4424539--4424577	21	1.9	21	89	5	62	46	12	23	17	1.83
4431946--4432020	2	37.5	2	97	0	141	49	1	0	49	1.09
4441821--4441874	22	2.4	23	81	9	67	77	1	12	7	1.05
4441816--4441872	11	5.4	10	76	15	53	77	1	12	8	1.07
4452514--4452553	20	1.9	21	85	10	55	37	5	32	25	1.77
4454251--4454288	15	2.6	15	87	4	51	81	0	13	5	0.85
4460358--4460419	20	3.3	18	73	17	56	30	14	24	30	1.95
4460753--4460811	19	3.0	18	79	13	64	52	8	13	25	1.68
4463985--4464055	20	3.8	18	73	17	56	28	16	30	23	1.97
4466496--4466538	20	2.1	20	83	12	52	37	6	30	25	1.82
4468517--4468582	14	4.6	14	70	9	53	75	1	18	4	1.04
4471074--4471144	36	1.9	37	94	2	126	29	21	26	22	1.99
4471073--4471165	20	4.8	20	79	11	104	30	19	26	23	1.98
4472650--4472687	15	2.6	15	87	4	51	26	7	5	60	1.46
4478637--4479152	46	11.3	46	84	1	588	23	20	10	44	1.83
4479667--4479716	18	2.8	18	93	0	91	34	20	10	36	1.86
4488893--4489026	67	2.0	67	88	0	196	20	20	20	39	1.93
4490515--4490574	3	20.0	3	100	0	120	33	0	0	66	0.92
4496738--4496768	16	1.9	16	93	0	53	45	16	9	29	1.79
4499166--4499200	17	2.1	17	89	10	54	68	0	0	31	0.90
4499567--4499600	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4501321--4501690	55	6.8	54	81	6	390	30	18	16	33	1.94
4501321--4501690	110	3.4	110	85	3	469	30	18	16	33	1.94
4501321--4501690	165	2.3	164	84	5	455	30	18	16	33	1.94
4502117--4502167	21	2.5	20	83	3	57	29	21	15	33	1.94
4502056--4502243	94	2.0	94	85	2	252	23	24	18	34	1.96
4503831--4503855	12	2.1	12	100	0	50	24	24	24	28	2.00
4508262--4508493	55	4.2	55	87	0	320	29	18	18	34	1.95
4508864--4509039	95	1.9	95	80	4	212	26	22	14	35	1.93
4509858--4509975	60	2.0	60	81	0	137	42	14	6	36	1.72
4510740--4510772	12	2.8	12	86	4	50	54	0	0	45	0.99
4511549--4511587	12	3.3	12	80	20	55	58	0	5	35	1.20
4514510--4514557	25	2.0	23	88	8	69	35	4	8	52	1.51
4514744--4514772	13	2.1	14	93	6	51	13	10	0	75	1.04
4515385--4515419	17	2.0	18	88	5	54	25	2	0	71	1.00
4518269--4518321	11	5.0	10	77	11	52	11	1	7	79	1.01
4520008--4520060	20	2.5	22	75	12	56	32	24	16	26	1.97
4523202--4523241	19	2.2	19	90	4	64	47	10	10	32	1.70
4525427--4525530	32	3.2	32	86	5	147	28	18	21	31	1.96
4528377--4528426	26	2.0	25	84	4	64	38	2	22	38	1.65
4534018--4534061	22	2.0	22	86	0	61	27	15	18	38	1.91
4536742--4536812	24	3.0	24	67	22	58	21	12	18	47	1.81
4536716--4536812	48	2.0	48	88	2	142	21	11	18	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4536857--4536982	54	2.4	53	80	1	135	31	15	15	37	1.89
4540057--4540163	31	3.4	33	79	8	107	36	17	15	29	1.92
4541505--4541552	20	2.4	20	96	0	87	25	20	20	33	1.97
4543081--4543118	15	2.5	15	95	0	67	23	7	31	36	1.84
4548331--4548383	24	2.2	24	86	6	72	24	18	22	33	1.97
4549489--4549527	13	3.0	13	80	0	51	25	20	20	33	1.97
4549431--4549612	98	1.8	99	82	1	231	32	18	18	30	1.95
4558506--4558556	2	25.0	2	88	4	75	52	1	0	45	1.12
4559052--4559088	19	1.9	19	88	0	56	56	2	8	32	1.43
4567853--4567897	23	2.0	23	86	0	63	26	26	26	20	1.99
4568613--4568696	41	2.1	42	84	6	111	35	16	16	30	1.92
4568825--4568857	17	1.9	17	100	0	66	33	24	18	24	1.97
4572327--4572373	8	5.6	8	79	16	51	21	4	0	74	0.99
4572327--4572373	17	2.8	16	84	12	51	21	4	0	74	0.99
4573089--4573170	29	2.8	29	96	0	146	17	15	21	45	1.85
4575359--4575404	2	23.0	2	100	0	92	50	0	0	50	1.00
4589250--4589298	18	2.7	18	96	0	89	40	16	20	22	1.91
4590618--4590680	33	1.9	33	96	0	117	46	1	12	39	1.52
4594544--4594600	21	2.7	21	97	0	105	21	10	22	45	1.82
4601860--4602010	30	4.9	30	78	6	124	29	25	14	30	1.95
4606119--4606351	78	3.1	73	80	13	251	45	3	7	43	1.51
4606116--4606351	36	6.2	36	79	13	235	45	3	7	43	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4606353--4606397	12	3.7	12	79	5	54	42	2	6	48	1.41
4606353--4606387	13	2.8	13	91	4	54	42	0	8	48	1.33
4607506--4607552	2	23.5	2	100	0	94	48	0	0	51	1.00
4607638--4607772	6	22.7	6	69	17	52	14	3	2	78	1.01
4607635--4607772	11	12.2	11	68	24	65	15	3	2	78	1.01
4607635--4607739	5	20.4	5	68	16	54	18	2	1	77	0.99
4607638--4607770	55	2.3	54	74	15	126	15	3	3	78	1.02
4608965--4609018	18	3.0	18	97	0	99	29	27	20	22	1.98
4610431--4610673	95	2.5	95	86	4	310	34	16	16	32	1.91
4611598--4613242	84	19.6	84	85	1	2060	32	24	19	23	1.97
4612778--4613429	84	7.7	85	79	6	238	33	22	18	25	1.96
4615208--4616555	84	16.1	84	86	0	1655	34	25	17	23	1.96
4616895--4617891	6	166.7	6	90	3	414	33	0	16	49	1.48
4616915--4617883	18	56.6	18	88	11	1483	33	0	17	49	1.46
4616915--4617883	12	84.9	12	88	11	1483	33	0	17	49	1.46
4617905--4618049	37	3.9	37	80	10	172	48	4	4	42	1.41
4617917--4618049	35	3.7	35	80	11	160	49	3	3	42	1.38
4617905--4618053	36	4.0	37	81	7	153	48	4	4	42	1.42
4618017--4618075	25	2.4	25	97	0	109	50	3	3	42	1.35
4618058--4618151	30	3.2	29	82	8	109	45	3	5	45	1.42
4618208--4618267	12	4.8	12	76	15	52	15	1	3	80	0.93
4618208--4618265	22	2.6	23	84	13	77	15	1	3	79	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4618212--4618269	27	2.2	25	87	6	80	13	1	3	81	0.91
4618208--4618270	18	3.5	17	76	23	67	14	1	3	80	0.90
4619332--4619363	2	16.0	2	100	0	64	50	0	0	50	1.00
4619357--4619403	22	2.0	22	84	8	58	25	6	0	68	1.13
4627719--4627835	42	2.8	42	93	0	198	25	22	10	41	1.85
4627739--4627811	22	3.4	22	73	7	87	23	19	12	45	1.84
4629890--4629935	16	2.8	16	86	6	56	50	2	2	45	1.26
4631297--4631344	15	3.2	14	77	13	51	45	2	2	50	1.25
4631569--4631873	155	2.0	153	98	1	592	32	15	8	43	1.76
4633732--4633802	35	2.0	35	97	0	133	49	16	9	23	1.76
4633909--4633997	29	3.1	29	91	0	151	40	23	17	17	1.91
4638799--4638871	31	2.4	31	79	6	76	35	10	5	47	1.62
4641230--4641296	23	2.9	23	95	0	116	38	0	2	58	1.14
4641326--4641366	20	2.0	20	90	9	66	36	2	0	60	1.10
4641384--4641408	12	2.1	12	100	0	50	68	8	0	24	1.16
4641449--4641528	2	40.5	2	94	2	144	47	1	0	51	1.08
4641528--4641556	2	14.5	2	100	0	58	0	0	48	51	1.00
4643213--4643436	121	1.9	120	94	0	394	50	4	2	41	1.38
4648109--4648274	46	3.7	46	91	2	266	39	7	21	31	1.81
4649745--4649791	22	2.1	22	100	0	94	19	14	21	44	1.86
4652770--4652824	23	2.4	23	75	9	67	18	21	29	30	1.97
4662718--4662757	20	2.0	21	90	5	64	25	20	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4665311--4665341	15	2.1	15	100	0	62	32	6	22	38	1.80
4667034--4667088	12	4.8	11	74	22	51	58	3	5	32	1.38
4670018--4670086	20	3.5	20	78	4	77	36	28	13	21	1.91
4670017--4670108	40	2.3	40	86	3	132	32	28	16	22	1.96
4670038--4670134	20	4.8	20	76	0	95	30	25	20	22	1.98
4670091--4670153	20	3.1	20	83	2	63	33	20	22	23	1.97
4671968--4672008	20	2.1	20	86	4	57	46	7	9	36	1.65
4671972--4672021	20	2.5	20	72	15	50	50	6	12	32	1.64
4677542--4677666	31	4.0	31	71	12	103	28	28	24	18	1.98
4677592--4677677	31	2.7	30	71	15	75	29	29	23	18	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