genome.fa.s7923.2.7.7.80.10.50.1000.29.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  29  of  40  ( 4704 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)
6021013--6021137	31	4.0	31	85	6	164	21	19	19	40	1.92
6023355--6023436	30	2.8	30	84	1	103	35	31	18	14	1.91
6023415--6023473	31	1.9	31	82	6	75	32	20	22	25	1.98
6023906--6023934	15	2.0	15	93	6	51	41	24	0	34	1.55
6024678--6024715	20	1.9	20	100	0	76	23	23	21	31	1.98
6024680--6024735	20	2.6	20	86	11	67	26	23	17	32	1.97
6024723--6024845	64	1.9	65	80	6	142	26	20	16	37	1.93
6027385--6027456	21	3.3	21	77	7	81	20	15	27	36	1.93
6038108--6038175	29	2.3	29	80	7	75	33	22	7	36	1.82
6039283--6039361	31	2.5	31	93	0	131	24	17	10	48	1.78
6040905--6040975	10	7.6	9	80	13	72	0	15	1	83	0.73
6040908--6040966	5	11.8	5	79	13	68	0	18	0	81	0.69
6040903--6040966	19	3.6	17	84	15	78	0	18	0	81	0.70
6040915--6040983	14	5.2	13	76	15	61	0	13	2	84	0.74
6041918--6041965	24	2.0	24	100	0	96	37	33	12	16	1.86
6045241--6045312	30	2.4	30	84	11	94	36	22	5	36	1.78
6046405--6046502	31	3.2	31	94	0	169	23	17	9	50	1.75
6046417--6046523	31	3.5	30	87	6	126	23	14	12	49	1.77
6047605--6047652	22	2.1	22	84	3	60	47	22	18	10	1.79
6049255--6049321	23	2.9	23	76	8	73	31	22	23	22	1.98
6052210--6052240	16	2.0	15	93	6	53	19	12	0	67	1.22
6054373--6054441	23	3.0	23	80	0	93	31	24	24	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6060781--6060808	14	2.0	14	100	0	56	28	0	50	21	1.49
6060940--6060969	15	2.1	14	93	6	51	40	13	0	46	1.43
6061373--6061417	15	2.9	16	87	12	67	24	11	28	35	1.90
6062621--6062664	23	1.9	23	95	0	79	36	36	0	27	1.57
6061709--6062634	460	2.0	458	91	1	1336	27	20	15	36	1.92
6064681--6064728	19	2.5	20	96	3	89	43	4	10	41	1.58
6066253--6066292	20	2.0	20	85	14	55	45	2	10	42	1.51
6066970--6067172	108	1.9	108	90	0	325	20	27	19	32	1.97
6069970--6070009	20	2.0	20	90	0	62	20	0	5	75	0.99
6069953--6070015	20	3.4	18	75	12	56	26	0	3	69	1.03
6070016--6070163	50	2.9	51	89	5	228	36	3	9	50	1.51
6085340--6085380	18	2.3	18	87	4	57	29	7	2	60	1.36
6091795--6091869	21	3.4	21	76	10	78	50	22	0	26	1.49
6091795--6091874	10	7.1	12	75	13	64	50	23	0	26	1.50
6095239--6095300	13	4.6	13	84	6	70	45	30	0	24	1.54
6095239--6095291	7	8.2	6	80	12	52	45	32	0	22	1.53
6096622--6097686	268	4.0	268	95	0	1839	40	17	18	23	1.91
6101687--6101727	21	2.0	21	100	0	82	29	26	24	19	1.98
6110997--6111033	18	2.1	18	100	0	74	16	16	27	40	1.89
6118798--6118863	18	3.6	18	73	17	55	27	7	0	65	1.20
6118800--6118924	49	2.6	47	79	12	114	25	6	0	68	1.14
6118855--6118922	19	3.5	19	75	18	68	23	4	0	72	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6118985--6119043	31	1.9	31	83	13	77	33	1	1	62	1.15
6119009--6119092	43	1.9	45	83	9	111	23	8	1	66	1.26
6119072--6119139	28	2.4	28	90	7	102	14	8	2	73	1.19
6119072--6119149	28	2.7	28	86	7	86	12	10	2	74	1.17
6124575--6124740	72	2.2	73	86	6	219	28	17	14	39	1.89
6124575--6124707	36	3.7	36	75	3	133	26	16	15	42	1.87
6124604--6124773	73	2.3	72	81	10	186	31	17	14	37	1.90
6124598--6124773	72	2.4	71	82	10	180	30	17	14	38	1.89
6125143--6125182	21	1.9	21	94	0	71	30	32	25	12	1.92
6126656--6126695	19	2.0	20	85	4	55	50	2	15	32	1.57
6129103--6129144	22	2.0	22	95	4	77	50	14	0	35	1.43
6129105--6129152	22	2.2	22	85	7	62	54	14	0	31	1.41
6129125--6129990	32	31.4	31	69	25	436	52	12	0	34	1.41
6129272--6129314	22	2.0	22	100	0	86	51	13	0	34	1.42
6129274--6129322	22	2.2	22	88	3	71	57	12	0	30	1.36
6129093--6129990	54	16.4	54	78	11	718	52	12	0	34	1.41
6129326--6129368	22	2.0	22	100	0	86	51	13	0	34	1.42
6129328--6129376	22	2.2	22	88	3	71	55	14	0	30	1.40
6129091--6129834	224	3.4	224	88	7	1120	52	12	0	34	1.41
6129496--6129605	22	4.5	22	69	20	67	51	10	0	38	1.35
6129550--6129614	22	3.0	22	95	0	112	50	10	0	38	1.37
6129552--6129622	22	3.2	22	89	2	79	53	11	0	35	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6129652--6129703	18	3.1	18	68	21	58	55	11	0	32	1.36
6129628--6129676	22	2.2	22	85	3	62	55	12	0	32	1.37
6129760--6129802	22	2.0	22	90	0	68	48	11	2	37	1.52
6129814--6129856	22	2.0	22	95	0	77	53	11	0	34	1.37
6129816--6129864	22	2.2	22	85	3	62	57	12	0	30	1.36
6129920--6129976	18	3.4	18	69	18	59	54	12	0	33	1.38
6129782--6130058	79	3.5	80	81	14	285	53	9	0	37	1.34
6129970--6130035	15	4.5	15	98	1	125	56	0	0	43	0.99
6129938--6130035	30	3.2	29	88	5	124	55	4	0	40	1.19
6132046--6132125	23	3.7	21	86	6	99	23	30	25	21	1.99
6133082--6133106	13	1.9	13	100	0	50	40	0	16	44	1.47
6134519--6134570	16	2.9	17	70	25	52	30	25	9	34	1.88
6136720--6136785	18	3.6	18	73	17	55	25	7	1	65	1.28
6136748--6136821	27	2.8	27	77	6	62	22	5	1	70	1.16
6136888--6136946	19	3.1	19	72	16	50	37	0	1	61	1.07
6136952--6137009	21	2.7	22	75	19	59	17	10	1	70	1.23
6136994--6137030	11	3.4	11	84	0	56	10	8	2	78	1.06
6137032--6137074	20	2.1	21	86	4	61	11	13	2	72	1.22
6137083--6137149	33	2.0	33	91	0	107	14	22	5	56	1.60
6148010--6148039	11	2.8	11	95	5	53	76	0	16	6	0.99
6148182--6148239	23	2.4	25	86	13	77	43	10	3	43	1.55
6160743--6160774	2	16.0	2	93	0	55	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6162190--6162246	30	1.9	30	92	0	96	42	12	7	38	1.70
6168211--6168252	2	22.0	2	90	9	70	47	0	0	52	1.00
6168826--6168880	17	3.1	17	73	19	58	72	1	5	20	1.13
6168781--6168861	22	3.9	21	68	14	60	70	2	3	23	1.16
6169159--6169197	20	2.0	20	85	14	55	64	5	5	25	1.35
6172224--6172276	20	2.7	20	79	8	63	26	22	20	30	1.98
6173977--6174064	39	2.3	39	95	0	158	19	22	19	38	1.93
6182069--6182116	25	2.0	25	83	4	62	31	2	2	64	1.16
6182128--6182162	16	2.2	16	90	10	54	60	0	0	40	0.97
6189914--6189947	16	2.1	16	94	0	59	41	26	0	32	1.56
6193274--6193301	2	14.0	2	100	0	56	50	0	0	50	1.00
6194448--6194475	5	5.6	5	100	0	56	60	0	39	0	0.97
6195028--6195081	20	2.6	20	75	16	56	42	0	0	57	0.98
6195178--6195227	23	2.2	22	82	3	55	44	2	2	52	1.24
6195216--6195288	30	2.6	29	83	14	98	47	0	0	52	1.00
6195389--6195435	22	2.1	23	88	4	69	53	0	2	44	1.12
6195397--6195440	22	2.0	22	82	8	54	54	0	2	43	1.12
6199883--6199993	39	2.8	39	83	12	147	34	18	0	45	1.56
6200034--6200102	22	3.2	22	75	15	72	31	2	4	60	1.31
6200822--6200856	2	18.5	2	88	11	56	51	0	0	48	1.00
6201694--6201882	21	9.1	20	65	17	82	24	21	17	36	1.94
6201686--6201882	42	4.7	42	92	1	317	23	21	17	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6202628--6202656	6	4.8	6	100	0	58	0	17	48	34	1.47
6202747--6202827	19	4.1	19	73	17	83	33	23	19	23	1.97
6204388--6204432	24	2.0	23	82	8	56	48	4	0	46	1.22
6205906--6205939	2	17.0	2	100	0	68	50	0	0	50	1.00
6207796--6207842	22	2.1	22	96	0	85	36	0	2	61	1.08
6216101--6216134	9	3.7	9	84	7	50	2	2	5	88	0.70
6229554--6229582	14	2.1	14	100	0	58	31	6	0	62	1.22
6231458--6231517	29	2.0	29	83	3	84	38	15	11	35	1.83
6231510--6231561	24	2.2	24	92	0	86	42	13	9	34	1.77
6231549--6231624	38	2.0	38	89	0	116	31	13	9	46	1.74

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