genome.fa.s260.2.7.7.80.10.50.1000.20.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  20  of  26  ( 3102 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)
4050387--4050439	10	5.1	10	74	17	54	9	9	20	60	1.55
4050391--4050449	16	3.7	16	90	0	100	8	10	22	59	1.56
4050688--4050723	19	1.9	19	88	5	56	66	5	0	27	1.13
4050668--4050730	21	3.0	21	77	13	58	68	3	1	26	1.14
4050691--4050749	28	2.1	27	81	9	66	61	5	1	32	1.28
4050726--4050773	21	2.2	22	81	7	53	58	2	4	35	1.29
4053026--4053068	19	2.4	18	84	7	52	4	20	13	60	1.51
4055472--4055509	19	2.0	19	100	0	76	47	15	5	31	1.68
4055473--4055517	19	2.4	19	92	0	72	48	15	2	33	1.57
4056763--4056823	26	2.3	26	86	5	79	32	19	6	40	1.77
4062198--4062241	14	3.1	14	90	6	63	25	0	29	45	1.54
4064934--4064995	24	2.8	22	77	15	65	53	11	17	17	1.72
4065129--4065206	38	2.1	38	86	9	108	47	3	7	41	1.50
4065129--4065207	36	2.2	36	86	8	108	46	3	7	41	1.50
4065355--4065383	14	2.1	14	100	0	58	51	0	6	41	1.28
4065187--4065454	38	7.1	37	79	9	233	43	2	8	45	1.50
4066854--4066933	36	2.2	36	80	10	85	20	6	2	71	1.20
4070918--4071274	85	4.2	85	83	2	423	33	21	16	28	1.95
4070918--4071274	170	2.1	169	84	4	466	33	21	16	28	1.95
4071901--4072059	37	4.3	35	78	14	131	40	4	12	42	1.63
4071959--4072156	110	1.8	109	82	8	260	43	3	10	42	1.54
4071852--4072210	38	9.6	37	74	15	240	43	4	10	41	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4073073--4073111	17	2.3	16	83	12	51	5	0	30	64	1.15
4073625--4073667	18	2.4	18	84	7	52	13	4	4	76	1.10
4074583--4074626	22	2.1	20	83	8	52	27	6	9	56	1.55
4075097--4075616	201	2.6	201	83	3	627	32	15	19	33	1.93
4075919--4075965	21	2.2	21	84	0	58	19	27	29	23	1.98
4077895--4077935	14	3.2	13	86	10	57	21	0	4	73	1.02
4082989--4083018	14	2.1	14	100	0	60	30	30	20	20	1.97
4091448--4091950	201	2.5	199	81	5	573	35	19	13	31	1.91
4097609--4097645	15	2.4	16	86	13	51	75	0	0	24	0.80
4098362--4098400	2	19.5	2	94	0	69	48	2	0	48	1.15
4098441--4098501	11	5.5	12	72	14	51	40	1	4	52	1.33
4098441--4098501	2	33.0	2	75	15	51	40	1	4	52	1.33
4098877--4099062	65	2.9	64	80	7	207	30	22	19	27	1.98
4104343--4104403	22	2.9	21	79	11	63	31	26	18	24	1.97
4104362--4104442	23	3.7	23	70	8	78	28	24	23	23	2.00
4106784--4106818	18	1.9	18	88	11	54	31	5	2	60	1.35
4107168--4107324	65	2.4	64	87	5	210	32	20	17	29	1.96
4107321--4107385	19	3.4	19	91	0	112	23	29	20	27	1.98
4108239--4108347	37	2.9	37	98	0	209	41	13	11	33	1.81
4109009--4109035	10	2.7	10	100	0	54	11	7	0	81	0.87
4109031--4109077	3	15.7	3	86	0	67	29	4	0	65	1.11
4109282--4109339	26	2.2	25	81	6	62	12	15	3	68	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112378--4112444	14	4.8	13	73	21	55	77	5	14	1	1.03
4112397--4112438	12	3.2	13	83	6	50	76	4	16	2	1.07
4113530--4113601	32	2.2	32	80	0	81	29	15	23	31	1.95
4114133--4114528	110	3.6	110	93	2	663	35	22	16	25	1.95
4115668--4115739	37	1.9	37	94	0	126	40	16	12	30	1.86
4116096--4116172	3	25.3	3	87	12	113	33	2	0	63	1.08
4116297--4116347	17	2.9	17	88	2	66	41	1	1	54	1.22
4116308--4116352	2	23.0	2	90	4	74	46	0	2	51	1.13
4116474--4116498	12	2.1	12	100	0	50	24	0	8	68	1.16
4116705--4116762	26	2.2	26	84	6	73	10	13	5	70	1.31
4117741--4117770	2	15.0	2	92	0	51	50	3	0	46	1.18
4117744--4117778	14	2.4	14	95	4	61	48	5	2	42	1.41
4119346--4119372	13	2.1	13	100	0	54	22	25	14	37	1.93
4121676--4121765	20	4.5	20	88	0	126	41	17	20	21	1.91
4122035--4122072	16	2.5	15	84	12	51	31	2	0	65	1.06
4122657--4122690	12	2.8	12	90	0	50	55	29	0	14	1.40
4122816--4122869	24	2.2	24	86	0	72	20	16	20	42	1.89
4125502--4125552	20	2.5	20	96	0	93	45	23	21	9	1.82
4125989--4126157	61	2.8	61	91	1	268	24	17	21	37	1.94
4126025--4126136	20	5.6	20	76	2	116	21	19	20	38	1.94
4126065--4126186	21	5.9	21	80	1	104	24	16	24	34	1.95
4128571--4128610	21	1.9	21	100	0	80	25	25	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4128712--4128865	45	3.4	45	86	4	204	40	5	22	31	1.77
4129475--4129575	37	2.7	37	89	0	148	32	20	17	28	1.96
4136375--4136565	75	2.5	75	87	1	247	20	24	31	22	1.98
4139181--4139220	21	1.9	21	89	0	62	10	25	40	25	1.86
4139201--4139263	20	2.9	21	79	9	65	15	25	34	23	1.95
4145017--4145206	74	2.5	75	87	2	247	20	24	32	22	1.98
4145936--4145975	20	2.0	20	90	0	62	20	25	35	20	1.96
4154158--4154208	19	2.7	19	93	0	84	25	17	39	17	1.92
4161899--4161956	22	2.6	22	97	2	107	22	17	13	46	1.83
4164871--4164916	21	2.2	21	88	0	65	32	30	23	13	1.93
4167450--4167503	19	2.7	19	80	8	63	38	14	14	31	1.87
4167855--4168246	55	7.1	55	88	2	520	34	19	18	27	1.95
4174797--4175191	55	7.2	55	84	6	500	32	18	18	29	1.96
4174797--4175191	109	3.6	110	88	5	529	32	18	18	29	1.96
4174797--4175191	164	2.4	163	86	5	519	32	18	18	29	1.96
4196354--4196391	19	2.0	19	89	0	58	47	2	18	31	1.62
4203032--4203076	16	3.0	15	81	18	58	66	0	0	33	0.92
4203424--4203452	3	9.7	3	100	0	58	31	0	0	68	0.89
4203737--4203778	15	2.6	16	82	17	52	61	0	4	33	1.17
4205817--4205872	24	2.5	24	85	8	73	19	8	44	26	1.80
4206289--4206726	133	3.3	134	85	3	580	29	16	23	31	1.96
4207006--4207546	232	2.3	232	86	3	707	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4210770--4210872	8	12.6	8	70	14	59	3	17	0	77	0.97
4210776--4210861	17	5.1	17	73	14	61	4	17	1	76	1.01
4210821--4210869	25	1.9	25	91	4	80	2	20	0	77	0.87
4210853--4210936	26	3.2	27	74	11	77	13	15	0	71	1.15
4210784--4210922	65	2.1	68	80	9	153	7	17	0	73	1.11
4210867--4210933	25	2.6	26	76	9	66	14	14	0	70	1.18
4214655--4214700	3	14.7	3	86	8	65	34	0	0	65	0.93
4215993--4216581	292	2.0	294	94	1	1040	21	12	15	51	1.75
4216938--4216979	15	2.6	16	82	17	52	33	4	0	61	1.17
4222190--4222273	25	3.4	25	94	0	150	21	32	17	28	1.96
4222787--4222817	2	16.0	2	93	6	55	51	0	0	48	1.00
4224441--4224513	20	3.5	20	73	14	67	24	17	20	36	1.94
4224449--4224535	42	2.1	41	86	2	120	25	18	20	35	1.95
4224943--4225766	257	3.2	255	78	8	832	33	15	16	34	1.91
4226637--4227062	212	2.0	214	99	0	838	21	18	29	30	1.97
4227413--4227640	114	2.0	114	100	0	456	35	8	17	38	1.81
4229918--4229974	18	3.3	18	65	30	52	59	15	5	19	1.55
4230197--4230236	16	2.6	16	96	4	73	65	17	0	17	1.28
4233840--4233946	24	4.5	24	81	4	99	56	14	11	17	1.67
4233854--4233949	12	8.0	12	73	13	81	53	15	12	18	1.73
4233840--4233946	48	2.2	48	86	0	142	56	14	11	17	1.67
4233855--4233948	24	3.9	24	84	0	116	54	14	12	18	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4237631--4238148	256	2.0	261	97	2	992	35	18	8	37	1.82
4240156--4240216	24	2.5	24	86	0	68	16	14	13	55	1.69
4240177--4240241	12	5.4	12	82	14	80	13	13	15	56	1.67
4240175--4240241	24	2.8	24	88	0	98	16	13	14	55	1.70
4240384--4240459	32	2.4	31	89	4	116	10	22	31	35	1.88
4241806--4241849	22	2.0	22	86	0	61	15	29	25	29	1.96
4244366--4244447	12	6.8	12	75	0	83	12	18	14	54	1.70
4244366--4244447	24	3.4	24	86	0	119	12	18	14	54	1.70
4244591--4244666	32	2.4	31	89	4	116	11	22	32	32	1.90
4246095--4246148	17	3.4	16	70	19	51	25	22	25	25	2.00

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