genome.fa.s1129.2.7.7.80.10.50.1000.22.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  22  of  89  ( 10573 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)
4577872--4577955	20	4.2	20	80	11	93	33	17	13	35	1.89
4577858--4577955	40	2.5	40	85	6	119	32	19	13	34	1.90
4579329--4579368	20	2.0	20	85	0	53	35	22	20	22	1.96
4579407--4579444	20	1.9	20	100	0	76	34	21	26	18	1.96
4580761--4581209	54	8.4	54	83	3	471	32	21	17	28	1.96
4580921--4581005	27	3.1	27	62	18	68	31	21	21	25	1.98
4580828--4581209	108	3.6	107	87	3	561	33	20	18	27	1.96
4580805--4581209	161	2.5	161	87	0	569	32	20	18	28	1.96
4581629--4581700	22	3.5	20	73	14	67	27	33	12	26	1.92
4581569--4581757	95	2.0	95	86	0	261	26	25	16	31	1.96
4581763--4581813	21	2.4	21	93	0	93	29	11	23	35	1.90
4587795--4588119	54	6.0	54	85	1	425	34	19	17	28	1.95
4588533--4588608	22	3.8	20	78	13	84	25	32	15	26	1.95
4588477--4588665	95	2.0	95	88	4	283	25	25	17	31	1.97
4591277--4591346	23	3.1	22	78	8	68	48	20	7	24	1.74
4597388--4598056	57	11.7	57	92	1	1034	32	17	11	37	1.87
4598367--4598420	22	2.5	23	85	8	69	25	20	18	35	1.95
4605534--4605595	23	2.9	21	85	7	81	20	35	25	17	1.95
4607853--4607943	35	2.6	35	92	1	146	39	0	28	31	1.57
4614667--4614691	13	1.9	13	100	0	50	44	0	0	56	0.99
4621170--4621233	29	2.2	29	100	0	128	23	3	17	56	1.55
4625045--4625148	44	2.4	43	91	4	172	25	24	9	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4631552--4631609	23	2.5	23	94	0	98	13	10	22	53	1.70
4632105--4632138	4	8.8	4	93	6	61	76	0	0	23	0.79
4632107--4632160	16	3.4	16	82	7	65	72	0	3	24	1.01
4638915--4639231	158	2.0	158	100	0	634	29	17	17	36	1.92
4660012--4660089	22	3.5	22	76	13	97	47	2	3	46	1.34
4660062--4660122	29	2.1	28	90	3	95	49	0	3	47	1.18
4661305--4661348	21	2.0	21	82	4	52	25	2	2	70	1.10
4682160--4682201	18	2.3	18	91	0	66	57	4	28	9	1.51
4687140--4687285	37	4.0	37	95	2	251	45	17	18	18	1.86
4687554--4687604	24	2.1	25	85	3	68	39	37	15	7	1.77
4691546--4691688	2	72.5	2	93	5	247	48	0	0	50	1.11
4695259--4695309	25	2.0	25	92	0	84	23	21	23	31	1.98
4697582--4697678	20	4.6	22	90	2	130	28	22	13	35	1.92
4697582--4697665	42	2.0	40	88	4	123	27	23	14	34	1.94
4698655--4698976	162	2.0	161	93	2	549	30	20	15	33	1.94
4704608--4704669	17	3.9	17	74	19	62	69	0	0	30	0.89
4704887--4704972	31	2.8	30	80	16	88	44	15	4	36	1.67
4710418--4710501	18	4.8	18	68	24	63	54	0	38	7	1.28
4710418--4710509	26	3.5	26	98	1	175	54	0	38	7	1.29
4710907--4710944	17	2.3	17	86	4	51	47	15	5	31	1.68
4716125--4716452	37	8.8	36	82	8	340	44	3	6	45	1.47
4720907--4721052	76	1.9	76	87	2	213	33	19	15	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4722460--4723092	86	7.4	86	85	1	795	36	22	17	23	1.94
4723824--4723853	2	15.5	2	93	6	53	50	0	0	50	1.00
4723836--4723969	36	3.5	37	83	8	162	44	3	7	44	1.50
4725049--4725118	32	2.1	34	84	10	92	21	2	4	71	1.16
4725062--4725191	53	2.4	53	76	8	129	26	2	2	68	1.13
4725102--4725143	17	2.4	18	84	7	52	23	2	4	69	1.20
4725273--4725330	23	2.7	21	81	5	62	18	6	3	70	1.24
4725292--4725330	21	1.9	20	89	5	60	12	10	5	71	1.28
4725380--4725435	19	2.9	18	76	10	58	25	5	0	69	1.09
4727223--4727277	20	2.7	20	74	20	51	47	1	0	50	1.11
4727283--4727330	23	2.1	23	96	0	87	43	0	4	52	1.20
4727286--4727372	29	2.9	28	77	14	77	44	0	1	54	1.07
4727388--4727437	24	2.1	24	85	3	66	48	0	0	52	1.00
4727785--4727852	24	2.9	24	82	8	77	48	0	1	50	1.10
4730825--4730927	46	2.2	46	98	0	197	32	18	6	42	1.76
4734535--4734598	24	2.6	25	85	2	76	32	23	20	23	1.98
4740404--4740444	22	1.9	21	85	5	55	39	39	2	19	1.65
4743618--4743671	24	2.3	23	81	15	58	40	3	1	53	1.29
4744933--4744973	22	1.9	21	90	5	64	41	36	2	19	1.65
4752496--4752540	15	2.9	16	72	21	51	40	20	6	33	1.78
4754658--4755059	55	7.3	55	88	2	567	34	11	17	36	1.86
4754605--4755059	110	4.1	110	86	3	603	34	11	17	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4761495--4761819	55	5.9	55	93	0	544	33	13	19	34	1.90
4762591--4762625	10	3.5	10	100	0	70	40	20	0	40	1.52
4773562--4773611	20	2.5	21	80	9	68	34	16	24	26	1.95
4779904--4779943	20	2.0	20	95	0	71	20	17	25	37	1.94
4779910--4779955	20	2.3	20	88	0	65	23	21	19	34	1.96
4787929--4788012	39	2.2	39	100	0	168	35	7	7	50	1.57
4797561--4797608	23	2.1	23	84	0	60	39	39	0	20	1.53
4797590--4797634	23	2.0	22	86	4	63	35	42	2	20	1.64
4803326--4803452	3	42.0	3	84	4	157	34	1	0	62	1.10
4803581--4803613	16	2.1	16	100	0	66	36	30	0	33	1.58
4803752--4805315	795	2.0	774	93	3	2657	32	15	19	31	1.94
4807837--4807889	27	1.9	28	92	3	90	13	11	13	62	1.55
4812100--4812441	75	4.5	75	81	8	275	30	16	14	39	1.88
4812410--4812968	39	14.3	39	92	0	868	29	17	17	35	1.93
4813428--4813492	3	21.3	3	83	9	78	35	1	0	63	1.04
4819009--4819046	20	1.9	20	88	0	58	21	26	10	42	1.85
4819141--4819257	2	63.5	2	75	16	101	48	0	0	50	1.06
4819136--4819257	18	7.0	18	77	10	112	49	0	0	50	1.06
4820690--4820721	5	6.4	5	100	0	64	37	0	40	21	1.54
4824145--4824217	2	37.0	2	97	2	139	50	0	0	49	1.00
4825832--4825878	3	15.7	3	91	8	78	68	0	0	31	0.90
4826309--4826415	28	3.7	28	88	9	153	49	14	12	23	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4826571--4826708	64	2.2	62	80	6	143	40	13	13	33	1.82
4826730--4827088	66	5.5	64	72	12	179	40	13	17	29	1.87
4827252--4827421	64	2.6	64	80	6	164	45	13	11	29	1.79
4827366--4827438	30	2.4	30	86	8	105	39	15	9	35	1.80
4827518--4827664	29	5.2	29	91	3	219	47	13	8	29	1.73
4827969--4828072	36	3.0	35	81	4	129	35	12	19	32	1.89
4827970--4828088	36	3.4	34	78	9	114	36	13	20	30	1.91
4828040--4828272	105	2.3	101	85	8	292	37	12	19	30	1.89
4829939--4829972	13	2.8	12	86	4	50	5	8	11	73	1.24
4829955--4830004	21	2.5	20	87	6	73	2	14	8	76	1.10
4829961--4830004	21	2.1	21	95	0	79	0	13	6	79	0.92
4830603--4830684	26	3.4	26	69	19	86	40	9	25	24	1.86
4830591--4830684	46	2.1	45	89	2	143	37	9	26	26	1.87
4832083--4832144	32	1.9	32	87	6	90	59	12	11	16	1.61
4834037--4834077	2	20.5	2	100	0	82	48	0	0	51	1.00
4835697--4835743	3	14.7	3	87	12	67	68	0	0	31	0.90
4840315--4840355	20	2.0	20	85	4	55	78	9	7	4	1.10
4850703--4850740	16	2.3	17	86	9	60	73	0	21	5	1.02
4855214--4855262	17	2.6	19	84	15	75	79	2	14	4	0.97
4855214--4855261	18	2.6	18	87	12	71	79	2	14	4	0.98
4857259--4857570	54	5.8	54	82	4	335	29	10	21	39	1.86
4857259--4857572	108	2.9	107	82	3	382	29	10	21	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4857580--4857689	57	1.9	57	84	0	148	37	8	16	38	1.78
4858529--4858824	80	3.7	79	82	6	339	38	15	16	29	1.90
4865349--4865829	238	2.0	238	99	0	953	40	4	6	48	1.51
4868490--4868557	31	2.2	31	81	5	84	44	11	7	36	1.69
4869488--4869532	22	2.0	23	82	4	56	46	6	2	44	1.42
4875060--4875126	24	2.9	23	86	6	82	44	0	1	53	1.09
4875637--4875709	36	2.0	36	86	0	101	26	15	12	46	1.80
4879271--4879315	22	2.0	22	87	12	65	44	17	8	28	1.79
4880248--4880307	31	1.9	31	96	0	111	28	26	10	35	1.89
4881671--4881700	14	2.1	14	93	0	51	23	33	6	36	1.81

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89