genome.fa.s9344.2.7.7.80.10.50.1000.22.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  22  of  24  ( 2784 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)
3985889--3986035	33	4.3	33	85	10	195	13	22	19	44	1.86
3985976--3986101	20	6.6	20	66	21	56	19	17	23	39	1.92
3989480--3989759	20	13.9	19	76	10	132	22	18	21	37	1.94
3989483--3989797	40	7.8	40	82	4	303	21	18	21	38	1.93
3989488--3989659	60	2.9	60	85	3	238	22	19	19	38	1.93
3989484--3989778	60	4.9	60	78	7	231	21	18	21	38	1.94
3989486--3989736	20	12.4	20	81	3	198	21	18	21	38	1.94
3989749--3989797	20	2.5	20	90	6	73	18	14	22	44	1.85
3989611--3989797	81	2.3	81	81	9	204	20	17	24	37	1.93
3989770--3989862	21	4.5	21	70	16	68	21	20	20	37	1.94
3989852--3989900	20	2.5	18	78	18	53	18	14	30	36	1.90
3991216--3991260	22	2.0	22	100	0	90	44	0	33	22	1.53
3992130--3992259	20	6.4	20	86	1	179	19	20	20	40	1.92
3992261--3992305	21	2.1	21	91	0	72	40	17	24	17	1.91
3996255--3996299	12	3.5	13	80	20	58	71	0	6	22	1.09
3996368--3996419	23	2.3	21	81	12	59	75	5	0	19	1.01
3997615--3998005	37	10.9	35	71	20	125	45	5	3	45	1.42
3997739--3997821	42	1.9	42	85	9	114	43	6	6	44	1.53
3997781--3998087	37	8.4	36	75	19	262	44	5	3	46	1.44
3997780--3998085	74	4.2	74	84	8	348	44	5	3	46	1.44
3998569--3999769	84	14.5	84	80	5	1223	25	19	23	31	1.98
3998569--3999769	249	4.8	248	81	4	1244	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3998580--3999747	333	3.5	330	87	2	1560	25	19	24	31	1.98
4004525--4004628	15	6.9	14	69	16	57	68	2	4	24	1.23
4004696--4004751	25	2.3	23	76	8	58	78	5	0	16	0.92
4004698--4004757	24	2.6	24	84	10	72	76	5	0	18	0.96
4005971--4006014	23	1.9	22	82	17	54	45	9	0	45	1.35
4005988--4006147	34	4.6	35	70	18	95	45	5	3	46	1.43
4005995--4006072	38	2.0	40	90	5	124	47	1	1	50	1.17
4006064--4006142	34	2.3	35	82	12	108	44	6	6	43	1.55
4006143--4006208	29	2.2	30	86	5	89	42	6	3	48	1.43
4006067--4006226	75	2.1	77	84	12	206	43	5	4	46	1.47
4006203--4006234	2	16.5	2	93	6	57	50	0	0	50	1.00
4005993--4006215	107	2.1	102	79	9	245	44	4	3	47	1.42
4006074--4006385	163	1.9	168	83	11	412	44	5	3	46	1.42
4006222--4006460	37	6.3	36	79	13	227	43	6	3	46	1.46
4006067--4006468	78	5.1	78	78	10	356	44	6	3	46	1.46
4006246--4006466	37	5.8	39	79	9	233	43	6	3	45	1.47
4006241--4006476	39	6.1	38	75	14	137	46	6	3	43	1.47
4008987--4009035	3	17.0	3	84	16	68	32	2	0	65	1.04
4008993--4009049	12	4.8	12	82	6	55	33	5	0	61	1.18
4009126--4009162	17	2.2	17	85	0	56	40	27	16	16	1.89
4014077--4014142	2	33.0	2	93	6	116	50	1	0	48	1.10
4019975--4020030	18	3.1	18	84	0	76	17	12	25	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4020296--4020356	2	31.5	2	90	6	99	47	0	0	52	1.00
4020847--4020958	56	2.0	56	100	0	224	25	5	23	46	1.73
4021420--4021456	18	2.1	18	89	0	56	48	24	13	13	1.78
4026153--4026230	22	3.6	21	70	13	59	29	20	23	26	1.99
4034361--4034403	21	2.0	21	86	8	61	58	0	4	37	1.19
4041737--4041893	20	7.8	20	73	6	93	38	24	17	19	1.92
4041796--4041893	41	2.4	41	77	6	110	37	22	18	21	1.94
4041880--4042053	20	8.6	20	79	5	118	34	25	20	20	1.96
4041736--4041912	61	2.9	61	76	6	182	39	24	16	18	1.91
4041860--4042054	40	4.9	39	80	3	183	35	24	20	19	1.95
4041860--4042053	60	3.2	60	83	0	244	35	24	20	19	1.95
4042436--4042506	33	2.2	33	94	0	124	11	23	16	47	1.79
4042586--4042660	20	3.7	21	83	5	100	45	17	25	12	1.82
4042585--4042661	41	1.9	40	94	2	136	44	16	25	12	1.84
4042645--4042701	14	3.7	14	75	20	60	43	21	24	10	1.83
4042640--4042704	33	2.0	33	96	0	121	44	20	24	10	1.83
4042643--4042717	33	2.3	33	90	0	114	46	22	21	9	1.79
4042713--4042810	19	5.7	19	71	22	99	10	23	21	44	1.82
4042735--4042824	14	5.7	14	72	23	72	8	24	22	44	1.81
4042718--4042832	33	3.5	33	100	0	230	9	23	20	46	1.79
4044518--4044891	93	4.1	93	98	1	718	22	12	19	45	1.84
4044939--4045067	19	7.3	19	75	17	125	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4044975--4045067	33	2.8	32	91	4	150	46	27	18	7	1.76
4044939--4045067	52	2.5	52	74	14	140	45	28	17	8	1.77
4047000--4047036	14	2.6	14	95	0	65	35	0	21	43	1.53
4047135--4047193	16	3.6	17	76	19	63	42	20	23	13	1.88
4047194--4047369	19	10.0	19	78	18	211	13	23	17	46	1.83
4047200--4047364	33	4.8	33	75	16	174	13	23	17	46	1.83
4047194--4047369	52	3.4	52	99	0	343	13	23	17	46	1.83
4048008--4048217	20	10.5	20	84	2	206	19	18	24	37	1.94
4048184--4048281	20	4.8	20	77	3	79	21	18	23	36	1.95
4048184--4048281	41	2.4	41	77	6	110	21	18	23	36	1.95
4049432--4049495	29	2.2	30	94	2	112	35	14	4	45	1.65
4050189--4050423	117	2.0	117	98	0	452	23	28	22	25	1.99
4050574--4050612	17	2.2	18	86	4	53	28	2	0	69	1.02
4050572--4050620	21	2.3	21	86	6	64	28	2	0	69	1.00
4050643--4050702	2	30.0	2	100	0	120	50	0	0	50	1.00
4050762--4050812	16	3.3	15	78	10	50	21	7	1	68	1.25
4050775--4050856	37	2.2	37	80	10	87	20	7	7	64	1.43
4055705--4055760	21	2.7	21	100	0	112	33	25	14	26	1.94
4058826--4058881	23	2.4	22	80	16	60	39	3	17	39	1.67
4059283--4059323	21	1.9	21	85	5	55	29	34	17	19	1.94
4060382--4060411	2	14.5	2	93	6	51	46	3	0	50	1.18
4061685--4061719	17	2.1	17	88	0	52	34	0	22	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4064216--4064275	21	3.0	21	80	11	81	21	21	28	28	1.99
4067563--4067597	14	2.5	14	95	0	61	40	0	8	51	1.33
4068702--4068751	24	2.0	25	92	3	84	26	26	26	22	2.00
4068940--4069010	31	2.3	31	85	2	90	33	25	2	38	1.71
4069139--4069181	21	2.0	21	81	0	50	16	23	27	32	1.96
4070829--4070871	12	3.8	12	81	12	63	18	23	18	39	1.92
4070828--4070894	22	3.0	22	93	0	107	20	20	14	43	1.88
4074233--4074286	27	2.0	27	96	0	99	35	20	22	22	1.96
4077469--4077510	21	2.0	21	90	0	66	26	26	21	26	1.99
4077903--4078180	44	6.3	44	91	2	405	33	20	6	39	1.78
4078317--4078763	59	7.6	58	74	13	253	29	21	11	36	1.89
4078341--4078510	60	2.8	60	81	7	204	32	20	12	34	1.91
4078429--4078765	118	2.8	118	82	6	373	29	22	10	36	1.89
4078461--4078774	59	5.3	57	78	7	299	29	21	11	36	1.89
4080135--4080333	37	5.4	37	75	5	168	31	18	10	39	1.85
4080192--4080333	38	3.8	37	81	5	153	30	19	11	38	1.86
4080191--4080333	75	1.9	74	81	4	171	30	18	11	39	1.86
4087387--4087426	21	1.9	21	84	0	53	30	2	0	67	1.04
4089384--4089442	24	2.7	21	79	10	57	28	20	18	32	1.96
4092705--4092775	18	3.9	18	87	7	108	28	29	21	21	1.98
4092705--4092775	36	2.0	36	94	0	124	28	29	21	21	1.98
4095577--4095602	13	2.0	13	100	0	52	30	23	7	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4100697--4100763	15	4.9	13	82	12	73	61	1	0	37	1.05
4100709--4100763	3	18.0	3	92	3	74	60	0	0	40	0.97
4100697--4100763	28	2.4	28	87	2	91	61	1	0	37	1.05
4100712--4100761	25	2.0	25	88	0	73	58	0	0	42	0.98
4100958--4101283	135	2.4	135	85	3	415	24	16	30	27	1.97
4101326--4101388	28	2.2	28	88	0	90	39	15	15	28	1.89
4101326--4101403	28	2.9	28	83	7	72	46	14	15	24	1.83
4101538--4101635	38	2.8	33	76	13	90	37	11	17	33	1.85
4101538--4101673	74	1.9	70	82	8	166	38	11	14	34	1.83
4101953--4102012	31	1.9	31	86	10	86	43	10	13	33	1.77

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