genome.fa.s8243.2.7.7.80.10.50.1000.30.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  30  of  49  ( 5786 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)
6277200--6277244	7	6.4	7	94	0	81	28	28	26	15	1.96
6277241--6277303	5	11.8	5	80	12	72	6	22	52	19	1.68
6277227--6277303	39	2.0	38	85	10	102	10	23	48	18	1.78
6277234--6277304	17	4.3	17	89	7	119	9	22	49	18	1.77
6277302--6277369	19	3.5	19	80	11	68	29	27	25	17	1.97
6277332--6277390	20	2.9	20	82	9	75	32	25	25	16	1.97
6283533--6283609	31	2.5	31	80	2	91	27	31	27	14	1.95
6284468--6284498	7	4.4	7	100	0	62	25	29	29	16	1.96
6284488--6284530	22	2.0	22	100	0	86	9	23	48	18	1.76
6284527--6284644	9	12.3	9	75	12	101	31	27	25	15	1.95
6284533--6284642	19	5.7	18	79	10	94	32	29	23	14	1.94
6284533--6284644	48	2.3	49	87	7	158	32	28	24	15	1.95
6284527--6284644	29	4.1	27	76	10	101	31	27	25	15	1.95
6291755--6291786	15	2.1	15	94	0	55	43	28	12	15	1.83
6293475--6294209	366	2.0	366	94	0	1299	23	17	23	34	1.96
6294650--6294686	2	18.5	2	100	0	74	48	0	0	51	1.00
6304399--6304485	45	1.9	45	90	4	140	40	12	13	33	1.83
6315692--6315808	57	2.1	57	98	0	225	21	17	29	31	1.96
6315958--6316001	21	2.1	21	100	0	88	40	27	4	27	1.75
6319340--6319401	31	2.0	31	84	6	81	20	17	25	35	1.95
6326139--6326289	75	2.0	75	94	0	266	26	14	12	46	1.80
6327146--6327183	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6329528--6329655	60	2.1	60	85	2	168	32	17	18	31	1.94
6335042--6335076	14	2.5	14	95	0	61	54	0	45	0	0.99
6345395--6345554	61	2.6	61	93	0	275	31	24	17	26	1.97
6349199--6349255	22	2.8	21	84	7	73	14	26	35	24	1.93
6359340--6359416	36	2.1	36	83	6	102	35	12	0	51	1.40
6359427--6359477	18	2.7	20	78	9	61	37	1	1	58	1.20
6359534--6359567	16	2.1	16	89	10	52	61	0	2	35	1.11
6360310--6360357	24	2.0	24	92	8	80	31	2	4	62	1.26
6368237--6368743	128	3.8	128	85	6	694	31	21	24	22	1.98
6368577--6368610	16	2.1	16	100	0	68	11	50	38	0	1.39
6368442--6368736	144	2.0	144	95	0	527	30	21	26	21	1.98
6368824--6368864	8	5.2	8	82	5	57	36	29	0	34	1.58
6374003--6374068	33	2.0	32	85	2	87	42	19	10	27	1.84
6383288--6383565	45	6.2	45	84	3	310	28	22	10	38	1.87
6383503--6383652	79	1.9	79	88	0	228	27	25	10	36	1.89
6384037--6384073	19	2.0	19	89	5	58	24	32	13	29	1.93
6384063--6384203	75	1.9	74	82	7	178	25	21	20	32	1.97
6385037--6385134	30	3.2	30	86	1	124	35	23	17	23	1.95
6385092--6385187	31	3.1	30	77	7	95	33	20	17	28	1.96
6389473--6389570	30	3.2	30	85	1	124	33	24	18	23	1.97
6391302--6391540	119	2.0	119	100	0	478	24	22	12	40	1.89
6391940--6391966	9	3.0	9	100	0	54	55	0	44	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6396813--6397197	215	1.8	206	84	5	527	38	7	15	39	1.75
6397349--6397396	24	2.0	25	91	4	80	56	2	8	33	1.41
6398844--6398871	14	2.0	14	100	0	56	42	0	7	50	1.30
6399062--6399158	46	2.1	46	96	0	176	41	18	12	27	1.86
6403231--6403256	10	2.6	10	100	0	52	0	26	0	73	0.84
6405896--6405949	28	2.0	27	88	3	81	40	3	0	55	1.17
6406217--6406243	3	9.0	3	100	0	54	66	0	0	33	0.92
6407235--6407267	17	2.0	16	94	5	57	48	0	0	51	1.00
6408206--6408266	28	2.2	29	85	8	90	42	6	4	45	1.51
6408199--6408266	28	2.4	28	83	11	86	42	5	5	45	1.52
6409482--6409515	17	2.0	17	100	0	68	58	11	11	17	1.62
6413171--6413212	16	2.6	16	100	0	84	40	4	11	42	1.63
6414058--6414125	34	2.0	34	97	0	127	45	20	16	17	1.85
6415333--6415391	23	2.6	23	81	5	66	28	25	27	18	1.98
6419425--6419479	19	2.8	20	86	5	76	47	10	12	29	1.76
6423893--6424087	92	2.1	92	92	1	320	47	12	15	24	1.80
6423822--6424200	204	1.9	204	92	1	634	47	12	14	25	1.80
6423985--6424264	112	2.5	113	92	2	458	44	13	16	25	1.84
6424134--6424591	183	2.5	183	90	2	706	44	12	14	27	1.82
6425023--6425070	23	2.1	23	88	0	69	41	16	4	37	1.68
6425368--6425396	2	14.5	2	100	0	58	51	0	0	48	1.00
6425510--6425539	13	2.3	13	94	0	51	66	10	0	23	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6439833--6439911	12	6.1	13	75	22	60	55	1	0	43	1.07
6439845--6439892	12	4.0	12	84	10	62	58	0	0	41	0.98
6439845--6439887	3	14.3	3	85	9	61	60	0	0	39	0.97
6440028--6440442	76	5.5	76	95	0	713	34	21	19	24	1.96
6440445--6440767	165	2.0	165	92	0	538	38	13	13	33	1.85
6441282--6441341	22	2.7	22	86	0	93	41	11	11	35	1.78
6446241--6446279	19	2.1	19	90	9	62	0	20	0	79	0.73
6446239--6446330	7	12.7	7	76	17	55	4	23	0	71	1.03
6446241--6446330	16	6.1	14	70	14	56	4	22	0	73	1.01
6451915--6451973	11	5.4	10	80	15	55	67	1	3	27	1.16
6451915--6451973	22	2.7	22	84	5	75	67	1	3	27	1.16
6453212--6453268	3	19.3	3	81	3	71	61	0	0	38	0.96
6453207--6453251	20	2.2	20	92	0	72	60	0	0	40	0.97
6454305--6454334	3	9.7	3	92	7	51	66	0	0	33	0.92
6454377--6454422	16	3.0	16	78	6	51	30	4	0	65	1.12
6459393--6459781	185	2.1	183	90	3	613	45	7	3	43	1.48
6467082--6467121	20	2.0	20	90	0	62	22	27	10	40	1.86
6476136--6476190	9	5.6	10	74	18	53	32	27	25	14	1.95
6476136--6476191	20	2.8	19	84	12	69	32	26	25	16	1.96
6477400--6477499	50	2.0	50	100	0	200	36	14	6	44	1.69
6479247--6479292	24	2.0	23	91	4	74	60	0	0	39	0.97
6479247--6479292	23	2.0	24	91	4	76	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6479252--6479304	23	2.3	23	80	6	63	58	1	1	37	1.20
6483095--6483144	14	3.6	14	78	10	50	66	8	0	26	1.19
6483114--6483148	13	2.6	14	90	4	54	68	11	0	20	1.20
6483172--6483292	44	2.8	44	88	5	183	68	5	4	21	1.28
6483214--6483292	25	3.4	24	68	20	69	70	6	3	18	1.24
6483392--6483421	3	10.0	3	92	0	51	36	33	0	30	1.58
6483885--6483967	28	2.9	28	81	10	105	43	7	16	32	1.76
6483885--6483971	30	3.0	29	83	8	115	42	6	17	33	1.76
6484090--6484116	13	2.1	13	100	0	54	40	14	22	22	1.90
6485990--6486071	40	2.0	40	85	0	110	28	21	23	26	1.99
6488099--6488136	18	2.2	18	85	4	51	65	7	0	26	1.19
6489835--6489878	17	2.6	17	96	0	79	43	22	15	18	1.88
6491735--6491853	60	2.0	60	83	0	148	33	15	5	45	1.69
6494950--6495034	37	2.3	38	85	6	120	51	11	11	24	1.72
6495276--6495382	31	3.5	31	75	10	94	38	6	7	47	1.58
6496254--6496280	9	3.0	9	100	0	54	88	0	0	11	0.50
6496513--6496570	28	2.0	29	87	9	84	50	5	1	43	1.35
6499966--6500010	20	2.3	19	81	11	56	44	0	0	55	0.99
6503310--6503357	25	2.0	24	84	12	62	56	8	4	31	1.48
6507529--6507568	20	2.0	20	95	0	71	42	0	0	57	0.98
6507525--6507634	31	3.7	31	76	17	92	48	0	0	50	1.07
6507824--6507896	23	3.1	23	78	11	76	46	1	1	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6507864--6507912	22	2.2	22	85	0	62	44	2	2	51	1.24
6517694--6517870	63	2.8	64	80	4	214	14	34	12	38	1.84
6520076--6520120	16	2.9	16	96	3	83	40	26	15	17	1.90
6520595--6520722	50	2.5	51	82	6	172	14	36	28	21	1.92
6524312--6524398	35	2.5	34	80	12	97	55	10	8	26	1.61
6524620--6524648	12	2.4	12	100	0	58	13	41	17	27	1.87
6525005--6525058	18	3.0	18	91	0	90	22	18	27	31	1.97
6526569--6526790	111	2.0	111	92	1	374	45	10	7	36	1.68
6526603--6526775	56	3.1	55	62	20	124	46	11	6	35	1.66
6526846--6526895	22	2.2	24	89	7	77	58	0	6	36	1.23

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