genome.fa.s9625.2.7.7.80.10.50.1000.13.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  13  of  25  ( 2922 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)
4037002--4037048	19	2.5	19	82	0	58	25	12	29	31	1.93
4040610--4040644	18	1.9	18	100	0	70	22	34	22	20	1.97
4043566--4043623	29	2.0	29	93	0	98	17	5	17	60	1.54
4045788--4045838	25	2.0	25	88	0	75	19	9	45	25	1.81
4046420--4046952	267	2.0	267	98	0	1041	26	23	22	27	1.99
4049987--4050063	32	2.5	31	79	8	84	12	23	28	35	1.92
4061086--4061339	68	3.7	68	87	1	355	28	14	24	32	1.94
4061297--4061691	81	4.9	81	82	2	454	35	10	22	30	1.88
4064631--4064706	22	3.6	21	86	8	93	34	15	18	31	1.92
4064649--4064706	22	2.6	22	97	0	107	36	15	15	32	1.89
4065053--4065212	55	2.9	55	85	4	207	33	11	20	34	1.89
4065421--4065744	68	4.8	68	92	0	531	28	15	25	30	1.96
4065694--4066091	81	4.9	81	83	3	439	35	11	23	29	1.90
4065701--4066039	161	2.1	161	86	4	470	33	11	24	30	1.91
4065701--4066091	161	2.4	160	84	5	441	35	11	23	29	1.90
4066150--4066224	2	37.5	2	100	0	150	49	0	0	50	1.00
4066620--4068039	710	2.0	709	92	1	2362	34	11	18	35	1.87
4068099--4068358	58	4.1	63	65	18	155	38	6	9	45	1.63
4068024--4068372	189	1.8	191	90	2	560	37	6	10	45	1.64
4077873--4077947	32	2.3	32	81	0	96	24	29	29	17	1.97
4079968--4080143	90	2.0	90	93	0	298	44	6	9	39	1.63
4088062--4088121	26	2.3	26	79	2	75	46	18	13	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4092177--4092213	19	1.9	19	88	0	56	32	29	13	24	1.93
4092266--4092411	42	3.5	42	85	4	172	39	20	20	19	1.93
4092276--4092393	21	5.7	21	96	1	186	39	20	22	17	1.92
4093243--4093296	24	2.2	24	90	0	81	22	18	18	40	1.91
4093489--4093521	14	2.5	13	86	13	50	48	24	21	6	1.72
4093496--4093522	14	1.9	14	100	0	54	44	29	18	7	1.77
4095547--4095581	18	1.9	18	94	0	61	54	25	2	17	1.57
4095639--4095921	140	2.0	140	97	0	539	28	13	15	42	1.85
4095892--4096042	20	7.8	20	84	8	197	31	22	19	26	1.97
4095900--4096091	74	2.6	74	89	2	271	32	23	19	24	1.97
4096085--4096123	20	2.0	20	89	0	60	10	20	23	46	1.81
4096242--4096296	29	1.9	28	85	3	74	47	18	0	34	1.49
4096237--4096298	14	4.3	14	79	6	70	46	16	0	37	1.47
4097417--4097508	42	2.2	42	86	3	123	20	17	38	23	1.93
4097417--4097531	21	5.5	21	68	4	70	21	17	37	23	1.94
4097447--4097539	42	2.2	42	80	0	105	23	16	39	20	1.91
4098015--4098057	19	2.2	20	91	4	70	48	23	13	13	1.79
4098042--4098070	14	2.1	14	100	0	58	44	27	20	6	1.77
4098091--4098129	19	2.0	20	85	5	53	53	20	12	12	1.71
4098223--4098269	20	2.3	20	96	0	85	14	21	25	38	1.92
4100181--4100247	20	3.4	19	83	4	89	43	25	16	14	1.86
4100631--4100681	22	2.3	22	93	0	84	19	11	45	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4100634--4100688	22	2.5	22	90	0	83	16	14	45	23	1.84
4100826--4100941	21	5.6	21	70	11	96	20	16	25	37	1.93
4100847--4101000	20	7.6	20	74	11	143	24	18	25	32	1.97
4100825--4101000	41	4.3	41	91	2	257	23	17	24	34	1.96
4101015--4101060	19	2.4	19	85	3	56	21	17	30	30	1.96
4101026--4101062	19	1.9	19	94	0	65	21	16	29	32	1.95
4101632--4101675	21	2.0	22	86	4	63	45	4	0	50	1.22
4101875--4101993	53	2.2	52	89	4	159	32	9	5	52	1.58
4111413--4111459	18	2.7	18	93	3	78	31	8	31	27	1.87
4112031--4112068	15	2.4	16	86	8	60	31	52	15	0	1.43
4112047--4112134	38	2.4	37	90	7	142	38	40	10	10	1.73
4113105--4113171	20	3.3	20	97	0	125	26	20	8	43	1.82
4122863--4122917	24	2.3	24	100	0	110	23	20	36	20	1.95
4122953--4122986	17	2.0	17	88	11	52	23	0	38	38	1.55
4123037--4123072	3	11.7	3	94	5	63	63	0	0	36	0.94
4123893--4124065	42	4.1	42	82	1	195	40	6	11	41	1.68
4128696--4128728	14	2.4	14	95	5	59	36	0	24	39	1.56
4134697--4134759	2	31.5	2	100	0	126	49	0	0	50	1.00
4137711--4137966	138	1.9	138	84	1	352	28	13	17	39	1.88
4138131--4138158	9	3.1	9	100	0	56	35	0	10	53	1.36
4141728--4141874	59	2.5	58	95	3	267	37	10	13	38	1.79
4147810--4147842	16	2.1	16	94	0	57	33	27	6	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4150955--4150992	2	19.0	2	100	0	76	50	0	0	50	1.00
4154381--4154449	30	2.4	29	95	4	122	57	8	10	23	1.59
4155973--4156034	28	2.3	27	86	8	81	24	0	24	51	1.48
4155983--4156049	28	2.4	28	82	7	73	26	2	26	43	1.69
4156435--4156591	82	1.9	82	96	0	287	53	9	12	24	1.68
4156818--4156854	14	2.6	15	91	8	60	62	0	2	35	1.10
4159578--4159625	25	2.0	24	87	4	69	54	16	4	25	1.60
4161719--4162409	55	12.7	55	91	3	1067	28	27	14	29	1.96
4161719--4162409	218	3.2	219	90	3	1074	28	27	14	29	1.96
4161719--4162409	273	2.5	273	95	0	1231	28	27	14	29	1.96
4174823--4174870	25	2.0	24	87	4	69	54	16	4	25	1.60
4177556--4177654	40	2.5	40	80	6	112	23	17	20	39	1.92
4177636--4178073	42	10.5	42	71	12	213	28	20	17	33	1.95
4177708--4178117	40	9.9	39	72	11	173	29	20	16	33	1.94
4177557--4178117	164	3.4	164	85	2	710	28	19	17	34	1.95
4178056--4178134	42	1.9	41	92	7	133	27	15	20	36	1.92
4180819--4180861	21	2.0	21	86	0	59	46	18	30	4	1.69
4180821--4180870	21	2.3	22	75	10	57	46	20	28	6	1.74
4180830--4180876	21	2.2	21	92	0	76	44	21	25	8	1.80
4180830--4180892	21	3.0	21	86	4	65	44	20	23	11	1.83
4181393--4181581	43	4.4	43	74	5	132	36	25	14	23	1.93
4181555--4181657	44	2.3	43	83	6	134	35	23	13	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4182182--4182249	2	34.0	2	96	0	127	48	0	1	50	1.10
4186701--4186738	20	1.9	20	88	0	58	13	26	34	26	1.93
4204913--4205073	89	1.8	87	84	5	216	37	18	18	25	1.93
4205290--4205326	16	2.2	17	90	4	58	45	0	0	54	1.00
4205284--4205329	17	2.6	17	82	6	56	43	0	0	56	0.99
4208283--4208328	22	2.1	22	88	8	67	39	15	23	21	1.92
4210041--4210074	2	17.0	2	100	0	68	50	0	0	50	1.00
4214301--4214357	29	1.9	30	92	3	98	28	10	10	50	1.69
4217438--4217504	17	3.7	18	75	11	57	70	0	7	22	1.12
4218798--4218837	18	2.2	18	100	0	80	50	15	20	15	1.79
4225127--4225187	31	2.0	31	87	6	88	27	22	8	40	1.82
4225944--4226064	8	14.9	8	67	16	52	75	0	18	6	1.02
4225950--4226073	20	6.2	20	69	21	80	72	0	19	7	1.12
4226023--4226062	15	2.7	15	88	0	62	80	0	17	2	0.83
4228409--4228466	10	6.1	9	80	9	62	29	31	27	12	1.92
4228423--4228488	20	3.3	21	80	14	70	31	27	25	15	1.95
4232670--4232714	15	2.8	16	84	15	58	44	0	0	55	0.99
4233672--4233717	24	1.9	24	81	0	56	21	28	39	10	1.87
4239044--4239104	31	2.0	31	87	6	88	27	22	8	40	1.82
4239817--4239859	11	3.5	11	87	12	50	81	0	16	2	0.79
4239904--4239942	15	2.6	15	87	0	60	79	0	17	2	0.84
4239904--4239947	7	6.1	7	82	12	54	81	0	15	2	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4241868--4242061	38	5.1	38	82	0	226	24	20	14	39	1.91
4242076--4242241	45	3.7	44	79	4	165	23	15	19	42	1.89
4242878--4243310	55	7.9	55	84	2	503	31	19	21	28	1.97
4242842--4243310	165	2.8	165	87	2	613	30	19	20	28	1.97
4243362--4243549	55	3.4	55	84	1	207	31	19	21	27	1.97
4243110--4243682	246	2.3	246	83	2	754	33	19	19	27	1.96
4243466--4243839	136	2.8	136	85	1	464	36	21	16	26	1.94
4243736--4243898	56	3.0	55	83	2	211	34	21	14	29	1.92
4243892--4243942	20	2.5	20	96	0	93	37	19	3	39	1.70
4244104--4244157	2	27.5	2	88	3	83	50	0	1	48	1.11

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