genome.fa.s8105.2.7.7.80.10.50.1000.21.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  21  of  30  ( 3521 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)
3945423--3945461	21	1.9	20	84	5	51	69	2	5	23	1.21
3945480--3945531	13	4.2	13	82	9	54	76	0	9	13	1.01
3945477--3945572	9	10.2	9	70	15	61	77	1	8	13	1.05
3945663--3945695	17	1.9	17	88	11	50	81	0	3	15	0.80
3945685--3945721	20	2.0	20	89	10	60	78	0	13	8	0.96
3946634--3946672	12	3.3	12	92	3	62	10	7	17	64	1.48
3946801--3946894	47	2.0	47	97	0	179	36	22	14	26	1.93
3947659--3947848	104	1.8	105	84	1	265	34	12	14	39	1.83
3954391--3954518	30	4.3	30	80	8	136	58	8	14	18	1.61
3956438--3956509	30	2.4	29	88	2	108	40	16	13	29	1.87
3956521--3956648	65	2.0	65	87	4	188	42	14	17	25	1.88
3956573--3956781	89	2.3	89	83	6	253	39	12	17	30	1.86
3957009--3957072	32	2.0	32	90	3	103	29	28	15	26	1.96
3960336--3960396	31	2.0	30	84	9	79	62	9	11	16	1.54
3963293--3963328	14	2.6	14	90	0	63	58	11	11	19	1.62
3967438--3967499	17	3.6	17	93	0	106	24	20	25	29	1.99
3971512--3971543	15	2.2	15	94	5	57	50	0	0	50	1.00
3971598--3971637	21	1.9	21	90	10	64	55	2	0	42	1.13
3973757--3973794	18	2.0	20	85	10	53	28	0	0	71	0.87
3976964--3977025	13	5.0	13	71	23	53	32	0	1	66	1.02
3976990--3977023	5	6.4	5	87	12	50	38	0	0	61	0.96
3976964--3977023	16	3.8	16	77	16	54	31	0	1	66	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3976964--3977046	21	3.7	24	80	9	79	37	0	1	61	1.04
3976968--3977025	3	21.0	3	80	16	63	32	0	1	65	1.03
3978671--3978712	20	2.2	19	86	4	57	33	0	2	64	1.07
3978565--3978804	120	2.0	119	83	4	297	37	7	8	45	1.64
3980954--3981007	14	3.8	14	80	4	54	24	12	9	53	1.68
3980969--3981007	15	2.7	15	88	4	53	20	15	12	51	1.76
3986646--3986862	114	1.9	114	92	0	362	33	15	21	30	1.94
3990428--3990970	113	4.8	113	89	1	718	38	15	19	27	1.91
3991019--3991382	113	3.3	113	85	6	512	36	15	20	27	1.93
3991730--3991783	19	2.8	19	83	10	74	27	1	1	68	1.10
3991731--3991783	3	19.0	3	78	21	53	28	1	1	67	1.11
3993408--3993449	20	2.2	19	86	4	57	33	0	2	64	1.07
3995960--3996486	113	4.7	113	91	1	749	37	14	20	27	1.92
3996535--3996771	113	2.1	113	89	1	368	36	15	19	28	1.92
3996686--3996858	87	2.0	87	82	4	215	40	14	20	24	1.90
3997215--3997290	19	3.8	20	84	6	75	36	0	1	61	1.04
3997206--3997271	22	3.0	22	86	2	87	28	0	3	68	1.05
3997216--3997271	3	20.0	3	82	14	66	32	0	1	66	1.03
3998712--3998775	29	2.2	29	100	0	128	43	6	3	46	1.44
3998928--3998969	20	2.2	19	86	4	57	33	0	2	64	1.07
4003156--4003274	55	2.2	54	86	6	159	35	18	18	27	1.94
4008526--4008577	20	2.6	20	96	0	95	21	11	25	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4016216--4016254	21	1.9	20	84	5	51	35	23	12	28	1.91
4025353--4025487	65	2.1	65	97	0	252	40	10	13	35	1.78
4031310--4032357	215	4.9	215	92	0	1679	31	18	15	33	1.93
4031708--4031808	42	2.4	41	77	3	112	31	23	21	22	1.98
4032357--4032475	37	3.2	37	81	9	136	18	20	21	39	1.92
4034211--4034251	2	21.0	2	95	5	75	48	0	0	51	1.00
4043066--4043096	15	2.1	15	93	0	53	35	19	3	41	1.67
4046651--4046677	14	1.9	14	100	0	54	37	3	0	59	1.15
4048193--4048231	20	2.0	20	90	10	62	56	10	2	30	1.46
4051799--4051828	4	7.8	4	92	7	53	53	0	0	46	1.00
4052155--4052207	21	2.5	21	78	0	61	20	24	18	35	1.95
4052197--4052327	20	6.6	20	80	9	151	39	19	19	22	1.92
4052197--4052327	60	2.2	59	85	8	167	39	19	19	22	1.92
4052503--4052564	18	3.0	21	72	18	58	27	37	16	19	1.93
4052932--4052981	20	2.5	20	90	0	73	18	18	28	36	1.94
4052949--4053003	20	2.8	20	91	0	83	10	16	23	49	1.77
4054911--4054977	20	3.3	20	93	0	107	38	20	17	22	1.93
4054894--4054998	40	2.9	34	76	15	111	41	20	19	19	1.90
4055005--4055157	34	4.4	34	75	14	148	15	20	21	41	1.89
4055024--4055177	20	8.4	20	76	18	120	16	20	22	41	1.90
4055129--4055187	20	3.0	20	89	0	64	15	18	23	42	1.88
4055687--4055768	42	2.0	42	82	4	103	21	35	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4057124--4057159	14	2.6	14	90	0	54	30	0	22	47	1.52
4057296--4057352	16	3.4	16	77	17	71	35	8	12	43	1.73
4057811--4057864	24	2.2	24	93	0	90	40	20	18	20	1.91
4057811--4057878	24	2.8	24	84	0	64	38	20	17	23	1.93
4058716--4058774	20	3.0	20	85	5	75	23	20	20	35	1.96
4058726--4058812	41	2.2	40	87	2	120	21	19	20	37	1.94
4058726--4058812	20	4.3	20	76	5	95	21	19	20	37	1.94
4058802--4058871	21	3.3	21	89	0	104	34	17	25	22	1.96
4070639--4070697	30	2.0	30	86	6	84	22	28	8	40	1.83
4071641--4071703	30	2.1	30	84	0	81	19	30	11	39	1.86
4070325--4072723	999	2.4	1000	89	2	3644	32	22	17	27	1.96
4075027--4075426	197	2.0	198	83	6	508	38	5	8	47	1.59
4075559--4075635	32	2.4	33	78	10	88	38	2	5	53	1.37
4078177--4078299	62	2.0	62	95	0	219	30	17	16	35	1.92
4080230--4080305	35	2.2	35	100	0	152	19	10	14	55	1.68
4080643--4080674	3	10.7	3	100	0	64	34	0	31	34	1.58
4080673--4080709	3	12.3	3	100	0	74	35	0	0	64	0.94
4085705--4085808	46	2.3	46	91	3	165	25	13	24	36	1.92
4085705--4085788	24	3.6	24	83	6	118	26	11	23	38	1.90
4092704--4093214	68	7.5	68	87	0	743	31	23	15	30	1.95
4093160--4093268	54	2.0	54	91	3	175	33	24	11	29	1.91
4093462--4093612	55	2.7	55	89	2	223	35	17	11	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4094774--4094827	28	2.0	28	82	10	67	37	11	7	44	1.68
4095601--4095635	2	17.5	2	100	0	70	48	0	0	51	1.00
4095834--4095878	21	2.1	21	100	0	90	42	22	17	17	1.89
4098066--4098102	2	18.5	2	100	0	74	48	0	0	51	1.00
4098241--4098387	29	5.1	29	82	4	190	24	19	8	47	1.76
4098241--4098387	57	2.5	57	90	5	224	24	19	8	47	1.76
4098356--4098624	81	3.4	80	86	3	382	31	24	9	34	1.88
4098691--4098778	46	1.9	46	90	2	142	31	21	12	34	1.91
4100283--4100334	16	3.1	16	75	8	50	30	1	3	63	1.23
4107395--4107442	26	1.9	25	91	8	80	41	20	4	33	1.72
4107979--4108219	117	2.1	114	85	3	322	46	20	19	13	1.84
4109649--4109742	36	2.6	36	78	11	102	23	10	11	54	1.68
4117456--4117522	28	2.4	28	80	9	75	19	0	34	46	1.50
4118850--4118891	18	2.3	19	79	4	50	21	4	14	59	1.53
4121547--4121608	21	2.9	21	69	13	54	48	3	0	48	1.17
4121546--4121633	27	3.5	25	77	18	78	47	6	0	45	1.29
4123198--4123259	21	2.9	21	69	13	54	48	3	0	48	1.17
4123197--4123284	27	3.5	25	77	18	78	47	6	0	45	1.29
4124032--4124223	42	4.6	42	86	1	233	26	14	18	41	1.88
4127993--4128033	21	2.0	21	95	0	73	48	7	39	4	1.52
4128490--4128592	43	2.4	43	80	0	107	25	21	15	37	1.92
4130483--4130517	18	1.9	18	100	0	70	17	22	34	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138773--4138810	20	1.9	20	100	0	76	21	5	42	31	1.75
4139905--4139943	16	2.4	16	91	0	60	53	0	0	46	1.00
4140064--4140113	2	25.0	2	100	0	100	50	0	0	50	1.00
4144249--4144295	17	2.8	17	87	3	60	68	0	0	31	0.90
4146462--4146565	28	3.7	28	96	0	181	24	15	25	34	1.94
4149225--4149273	6	8.5	6	97	2	84	30	53	16	0	1.43
4149622--4149653	5	6.6	5	96	3	57	0	40	21	37	1.54
4149650--4149674	6	4.2	6	100	0	50	0	16	48	36	1.46
4149739--4149769	6	5.2	6	100	0	62	0	16	48	35	1.46
4149616--4149794	95	1.9	97	94	4	319	6	32	33	27	1.82

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