genome.fa.s8179.2.7.7.80.10.50.1000.2.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: VEPZ01008179.1 Hibiscus syriacus cultivar Beakdansim tig00110776_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  726026

Tables:   1   2   3   

This is table  2  of  3  ( 339 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)
248868--248973	34	3.2	33	82	8	133	54	4	2	37	1.36
249350--249830	126	3.8	126	97	0	908	31	19	25	22	1.98
249898--249938	8	5.2	8	82	5	57	36	29	0	34	1.58
252930--252967	13	3.0	13	88	3	60	44	0	0	55	0.99
255239--255300	28	2.2	28	86	8	83	58	11	1	29	1.42
263815--263854	18	2.3	17	86	4	53	65	0	0	35	0.93
263812--263865	28	2.0	27	82	10	65	64	0	1	33	1.04
264413--264599	100	1.9	96	85	6	259	35	11	14	38	1.83
267771--267795	2	12.5	2	100	0	50	52	0	0	48	1.00
267780--267962	100	1.8	100	98	0	357	39	5	10	44	1.62
271947--272018	31	2.3	31	97	0	135	18	48	22	11	1.79
271987--272046	8	8.5	8	73	26	64	15	40	25	20	1.90
271947--272005	18	3.6	18	78	21	83	18	49	22	10	1.77
272016--272047	7	4.4	7	92	7	55	12	34	28	25	1.92
271951--272039	13	6.3	13	81	14	97	16	43	23	15	1.87
272965--273087	63	2.0	63	100	0	246	34	9	28	27	1.89
272993--273092	31	3.2	31	64	30	77	36	10	27	27	1.88
274639--274733	24	4.0	24	84	0	118	18	14	17	48	1.81
274662--274731	12	5.8	12	81	6	79	14	15	18	51	1.77
274625--274733	48	2.3	48	85	3	139	18	16	17	47	1.83
276796--276867	31	2.3	31	97	0	135	18	48	22	11	1.79
276836--276895	8	8.5	8	73	26	64	15	40	25	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276796--276854	18	3.6	18	78	21	83	18	49	22	10	1.77
276865--276896	7	4.4	7	92	7	55	12	34	28	25	1.92
276800--276888	13	6.3	13	81	14	97	16	43	23	15	1.87
277813--277935	63	2.0	63	100	0	246	34	9	28	27	1.89
277841--277940	31	3.2	31	64	30	77	36	10	27	27	1.88
279489--279583	24	4.0	24	84	0	118	18	14	17	48	1.81
279512--279581	12	5.8	12	81	6	79	14	15	18	51	1.77
279475--279583	48	2.3	48	85	3	139	18	16	17	47	1.83
283203--283294	22	4.2	22	83	5	87	22	34	23	18	1.96
283247--283297	22	2.3	22	96	0	93	19	39	25	15	1.91
284864--284902	18	2.2	18	85	0	51	35	30	25	7	1.84
285158--285223	16	4.1	16	75	14	64	22	1	24	51	1.57
285475--285559	42	2.0	42	97	0	161	34	0	38	27	1.57
285493--285560	21	3.2	21	67	29	63	32	0	45	22	1.52
294223--294259	19	1.9	19	88	0	56	35	29	13	21	1.92
294304--294357	21	2.6	21	78	0	63	27	20	20	31	1.97
294366--294452	20	4.4	20	89	1	140	26	27	19	26	1.99
295256--295297	22	1.9	22	95	0	75	21	16	38	23	1.93
295514--295559	19	2.4	19	85	3	56	23	15	30	30	1.95
295525--295561	19	1.9	19	94	0	65	21	16	29	32	1.95
296648--296704	28	2.0	28	96	0	105	31	15	7	45	1.73
296897--296926	15	2.0	15	93	0	51	43	20	10	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
300019--300076	22	2.9	19	80	14	71	20	37	15	25	1.92
300475--300574	23	4.3	23	93	0	173	22	12	52	14	1.74
300607--300668	21	3.0	21	88	2	99	8	27	35	29	1.85
300707--300796	3	30.0	3	83	0	108	60	0	1	38	1.04
301047--301581	45	11.7	45	94	1	827	32	20	22	24	1.97
302250--302328	22	3.6	22	85	0	113	37	12	16	32	1.86
310015--310099	43	2.0	43	85	0	116	35	20	11	32	1.89
311472--311504	17	1.9	17	88	11	50	72	0	0	27	0.85
311466--311579	29	4.0	29	76	13	89	64	0	5	28	1.21
311464--311552	28	3.2	27	80	10	83	65	1	4	29	1.20
313637--313702	3	22.0	3	84	0	78	62	1	0	36	1.05
319941--319981	18	2.3	18	91	4	66	63	2	4	29	1.28
320028--320052	10	2.5	10	100	0	50	36	0	28	36	1.58
320194--320228	17	2.1	17	94	0	61	20	34	28	17	1.95
321598--321630	2	17.0	2	87	6	50	51	0	0	48	1.00
321704--321775	37	1.9	37	94	0	126	25	11	12	51	1.72
325536--325585	23	2.4	19	74	22	55	40	12	4	44	1.60
325543--325588	23	2.0	23	95	0	83	34	10	4	50	1.57
332979--333022	3	14.3	3	95	4	79	63	0	2	34	1.07
333196--333422	113	2.0	113	88	1	339	37	20	11	30	1.89
334845--334893	21	2.3	21	80	16	57	4	48	2	44	1.33
337296--337333	19	1.9	20	89	10	60	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352466--352510	21	2.1	21	95	0	81	17	28	15	37	1.91
355261--355303	17	2.5	17	96	0	77	13	18	25	41	1.88
357665--357725	23	2.7	23	89	0	95	26	27	26	19	1.99
357836--357871	18	2.0	18	100	0	72	33	33	22	11	1.89
357732--358095	121	3.0	121	97	0	694	36	24	14	24	1.93
357957--357992	18	2.0	18	94	0	63	36	33	19	11	1.87
359271--359314	21	2.1	21	91	0	70	18	27	25	29	1.98
360026--360093	23	3.0	23	75	0	82	33	22	23	20	1.97
362451--362514	23	2.8	22	80	4	65	29	26	25	18	1.98
362530--362747	103	2.1	103	96	0	400	36	24	13	25	1.92
363235--363273	20	2.0	20	89	0	60	10	33	33	23	1.88
363299--363339	21	2.0	21	85	0	55	21	19	26	31	1.97
369383--369446	23	2.8	22	85	4	83	26	26	26	20	1.99
369465--369679	103	2.1	103	97	0	403	37	25	12	25	1.91
370171--370209	19	2.1	19	90	0	60	10	30	33	25	1.89
370234--370274	21	2.0	21	90	0	64	19	19	29	31	1.96
376030--376062	15	2.2	15	89	10	50	54	15	6	24	1.63
377233--377366	60	2.2	60	85	6	173	37	17	8	35	1.82
381085--381150	26	2.7	25	78	15	68	50	1	3	45	1.26
382548--382591	2	22.0	2	100	0	88	50	0	0	50	1.00
383664--383695	2	16.0	2	100	0	64	50	0	0	50	1.00
384161--384261	34	3.0	34	97	0	184	20	11	16	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389487--389598	36	3.1	36	97	0	206	25	10	21	41	1.85
390868--390911	21	2.2	19	84	8	52	36	4	2	56	1.32
394978--395029	24	2.2	24	82	0	59	48	21	11	19	1.80
394994--395076	12	6.8	13	63	15	52	36	24	18	21	1.95
394994--395082	24	3.7	24	86	3	117	34	22	19	23	1.96
399568--399606	15	2.6	16	84	12	55	0	41	0	58	0.98
400277--400328	26	1.9	28	88	7	81	61	5	1	30	1.30
416667--416805	59	2.3	60	84	6	176	42	17	15	24	1.88
428194--428327	54	2.5	55	88	4	200	25	21	27	25	1.99
428194--428324	27	4.8	27	67	17	92	25	21	28	25	1.99
428442--428598	81	1.9	81	89	0	242	31	22	29	16	1.96
441853--441878	3	8.7	3	100	0	52	65	0	34	0	0.93
442465--442503	18	2.2	18	86	4	53	33	2	0	64	1.08
442858--446794	913	4.3	914	91	2	6158	37	14	16	31	1.89
446939--446992	20	2.8	19	82	2	63	22	29	22	25	1.99
449882--450318	51	8.2	55	84	7	303	27	28	15	28	1.96
449928--450349	51	8.1	51	84	8	433	28	27	15	28	1.96
449940--450349	156	2.6	156	82	7	478	29	27	15	28	1.96
449940--450344	105	3.9	102	84	8	435	28	27	15	28	1.96
451664--451731	10	6.0	11	73	20	52	5	17	0	76	0.98
451670--451727	22	2.6	22	80	19	68	5	17	0	77	0.94
451681--451723	15	2.8	15	86	10	52	6	16	0	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451676--451794	28	4.8	25	73	20	76	5	20	0	73	1.09
451698--451840	54	2.7	54	77	14	131	7	18	0	73	1.11
451681--451742	16	4.0	15	79	10	54	4	16	1	77	1.02
451676--451836	9	18.5	8	68	20	67	7	18	0	73	1.09
489469--489515	24	1.9	24	86	4	67	38	12	19	29	1.89
499049--499187	36	3.9	36	90	0	224	41	15	16	25	1.88
501278--501348	30	2.4	29	79	9	72	39	11	7	42	1.68
511527--511577	18	2.8	18	90	0	84	31	35	17	15	1.92
518072--518219	36	4.1	36	91	1	233	43	15	14	25	1.85
518072--518219	72	2.0	74	96	2	273	43	15	14	25	1.85

Tables:   1   2   3