genome.fa.s9624.2.7.7.80.10.50.1000.25.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  25  of  38  ( 4514 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)
4777900--4777927	14	2.0	14	100	0	56	85	0	14	0	0.59
4785975--4786011	8	4.5	8	93	6	65	78	0	10	10	0.97
4785974--4786011	17	2.2	17	100	0	76	78	0	10	10	0.95
4786886--4787444	240	2.3	240	92	1	910	36	16	20	25	1.94
4787125--4787777	329	2.0	329	89	3	1010	38	16	19	25	1.93
4787904--4787999	3	32.7	3	93	4	169	34	0	0	65	0.93
4791171--4791209	19	2.1	19	90	0	60	33	7	2	56	1.41
4791913--4791981	24	2.9	24	75	0	75	37	0	14	47	1.44
4791907--4791941	15	2.3	15	90	0	52	31	0	20	48	1.50
4793563--4793685	17	7.1	17	74	10	88	38	13	8	39	1.77
4798845--4798898	19	2.6	21	80	17	67	37	0	0	62	0.95
4800859--4800898	11	3.8	11	87	12	66	30	15	10	45	1.78
4800859--4800900	20	2.1	20	100	0	84	30	14	9	45	1.77
4801822--4801865	21	2.2	20	88	12	63	15	6	2	75	1.12
4801810--4801860	11	4.9	10	80	7	57	21	5	3	68	1.27
4803657--4804081	212	2.0	210	95	4	775	42	18	22	16	1.89
4807884--4807962	20	3.9	21	80	8	74	24	35	25	15	1.94
4810086--4810212	59	2.2	59	98	0	245	42	1	29	25	1.64
4812942--4812982	21	2.0	20	90	4	64	39	4	26	29	1.77
4819688--4819729	21	2.0	21	85	0	57	45	23	4	26	1.73
4822738--4822788	18	2.8	18	93	0	93	15	49	23	11	1.78
4828467--4828497	16	1.9	16	93	0	53	38	29	19	12	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4828651--4828743	24	3.9	24	88	5	109	18	15	12	53	1.72
4831971--4832007	9	4.1	9	100	0	74	45	0	43	10	1.39
4844953--4845013	23	2.7	24	71	16	58	77	6	16	0	0.98
4845601--4845644	22	2.0	22	91	8	72	38	22	11	27	1.88
4846609--4846732	36	3.4	35	82	6	149	25	20	13	40	1.89
4846708--4846864	68	2.4	68	84	5	205	31	22	8	36	1.85
4847508--4848443	105	9.0	105	92	1	1436	33	26	17	22	1.96
4847508--4848443	207	4.5	207	92	2	1433	33	26	17	22	1.96
4847508--4848443	312	3.0	312	91	2	1441	33	26	17	22	1.96
4849440--4849479	18	2.3	18	83	8	57	25	5	2	67	1.23
4853877--4853913	19	1.9	19	88	0	56	10	18	8	62	1.52
4870875--4870918	11	3.7	12	90	6	63	81	0	15	2	0.78
4872413--4873281	113	7.7	113	91	2	1243	37	15	19	27	1.92
4873200--4873492	124	2.4	124	84	5	348	41	15	18	24	1.89
4873630--4873698	3	22.7	3	85	8	95	36	0	0	63	0.94
4880636--4880708	35	2.1	35	84	0	92	32	16	23	27	1.96
4884572--4884619	22	2.2	22	81	7	53	66	4	8	20	1.35
4884561--4884612	18	3.1	17	71	15	54	63	5	5	25	1.39
4887586--4887625	18	2.2	18	86	0	53	37	7	20	35	1.81
4889045--4889092	24	2.0	24	95	0	87	29	14	16	39	1.88
4889900--4889944	5	9.0	5	85	0	63	75	2	4	17	1.07
4896658--4896725	35	1.9	35	87	0	100	32	13	20	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4896853--4896926	39	1.9	39	86	5	107	31	17	21	29	1.96
4904052--4904136	39	2.2	39	95	0	152	18	24	11	44	1.83
4905301--4905386	35	2.5	35	82	0	100	27	15	23	33	1.94
4905381--4905539	35	4.6	33	80	9	131	30	14	23	31	1.94
4917463--4917508	24	1.9	24	81	0	56	21	2	6	69	1.22
4919669--4919730	30	2.0	31	87	3	90	30	8	27	33	1.86
4920908--4921117	45	4.7	45	88	1	298	39	7	20	32	1.81
4920908--4921117	89	2.4	90	86	1	307	39	7	20	32	1.81
4922949--4922986	18	2.1	18	100	0	76	34	0	26	39	1.57
4928348--4928497	75	2.0	75	100	0	300	46	21	10	21	1.81
4929891--4929997	51	2.1	51	85	0	142	24	14	16	44	1.84
4930801--4930942	72	2.0	73	90	1	223	30	17	16	35	1.92
4931176--4931218	22	2.0	22	95	0	77	25	18	13	41	1.88
4932377--4932415	11	3.5	11	86	6	53	69	0	2	28	1.02
4933694--4933756	3	21.0	3	75	12	58	63	0	0	36	0.95
4933696--4933743	10	4.9	10	82	12	64	62	0	0	37	0.95
4933699--4933749	25	2.0	25	85	7	68	60	0	0	39	0.97
4934180--4934706	114	4.9	100	79	13	335	28	17	14	39	1.89
4934137--4934706	228	2.6	219	88	5	789	28	17	14	39	1.89
4934292--4934742	114	4.0	114	92	0	737	28	17	15	39	1.90
4935879--4935927	16	2.8	17	81	12	64	48	6	8	36	1.58
4936273--4936338	18	3.8	17	79	15	73	3	15	0	81	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4936274--4936333	8	7.1	8	81	10	75	1	15	0	83	0.73
4936274--4936338	26	2.5	26	82	12	89	3	13	0	83	0.77
4936274--4936333	25	2.4	25	88	8	86	1	15	0	83	0.73
4936274--4936349	7	10.6	7	68	20	50	3	14	0	81	0.83
4939876--4939905	9	3.4	9	90	9	53	56	0	20	23	1.42
4949119--4949156	10	4.0	10	80	13	53	63	0	0	36	0.95
4949118--4949155	18	2.0	18	90	10	58	65	0	0	34	0.93
4952527--4952630	51	2.0	51	98	0	199	40	13	9	36	1.77
4957026--4957055	3	10.0	3	100	0	60	66	33	0	0	0.92
4957243--4957269	2	13.5	2	100	0	54	51	0	0	48	1.00
4960037--4960194	55	2.9	55	86	0	219	29	18	17	34	1.95
4963888--4963935	20	2.4	20	100	0	96	31	18	14	35	1.91
4965613--4965943	55	6.0	54	83	3	353	27	16	19	36	1.93
4965613--4965943	110	3.0	110	84	3	409	27	16	19	36	1.93
4965622--4965943	165	2.0	164	86	1	457	27	16	19	36	1.93
4967455--4967513	24	2.6	22	82	10	82	35	11	27	25	1.91
4968242--4968275	12	2.8	12	100	0	68	20	0	0	79	0.73
4968580--4968625	22	2.0	23	83	4	58	60	4	0	34	1.16
4971204--4971257	20	2.6	21	82	5	65	24	20	18	37	1.94
4979902--4979948	2	24.0	2	91	4	78	48	0	0	51	1.00
4981606--4981819	55	3.9	55	84	5	272	27	19	18	35	1.95
4984252--4984291	7	5.9	7	85	5	55	30	27	25	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4984315--4984375	29	2.1	28	81	3	68	31	27	22	18	1.97
4991446--4991524	19	4.1	19	79	11	88	27	29	26	16	1.97
4991444--4991523	9	8.3	9	72	13	61	27	28	28	15	1.96
4995451--4995719	54	4.9	55	81	5	301	26	19	19	34	1.96
4995426--4995706	109	2.6	109	81	5	316	26	19	19	34	1.96
5000986--5001333	55	6.4	54	80	4	360	27	18	18	35	1.94
5000986--5001330	165	2.1	162	82	5	417	27	18	18	35	1.94
5003088--5003142	22	2.5	22	94	2	94	16	40	23	20	1.91
5008973--5009010	20	1.9	20	94	0	67	26	31	26	15	1.96
5011667--5011720	21	2.6	21	91	2	92	18	40	24	16	1.90
5012528--5012566	20	2.0	20	94	0	69	41	5	20	33	1.74
5017166--5017341	92	1.9	92	85	0	244	31	17	16	34	1.92
5017166--5017363	92	2.2	92	83	1	236	30	16	16	36	1.91
5034284--5034338	2	29.0	2	89	10	89	49	0	0	50	1.00
5034495--5034546	13	4.0	13	82	0	59	34	21	19	25	1.96
5046526--5046563	20	1.9	20	100	0	76	52	0	26	21	1.47
5058472--5058504	17	1.9	17	93	0	57	27	15	9	48	1.74
5058626--5058774	80	1.9	79	87	4	219	28	17	17	36	1.93
5058489--5058950	198	2.3	198	86	1	640	25	21	16	36	1.94
5060608--5060994	54	7.1	54	80	3	416	39	20	8	30	1.83
5060608--5060994	108	3.5	108	85	2	463	39	20	8	30	1.83
5060607--5060994	162	2.4	166	82	4	475	39	20	8	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5068724--5068756	2	17.0	2	93	6	59	51	0	0	48	1.00
5070479--5071546	257	4.2	247	82	6	1175	32	16	17	34	1.92
5071243--5071344	42	2.5	42	83	1	125	23	23	22	30	1.99
5071708--5071748	3	13.3	3	89	5	64	31	2	0	65	1.05
5074238--5074271	17	2.0	17	88	0	50	2	11	0	85	0.71
5074220--5074289	19	3.7	20	77	12	76	5	18	0	75	0.99
5074297--5074334	20	1.9	20	84	10	51	15	10	0	73	1.09
5075737--5075800	20	3.0	21	75	11	60	50	4	23	21	1.68
5077685--5078305	319	2.0	310	90	4	985	43	14	12	29	1.82
5081327--5081392	20	3.3	20	86	0	87	37	13	22	25	1.91

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