genome.fa.s887.2.7.7.80.10.50.1000.2.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: VEPZ01000887.1 Hibiscus syriacus cultivar Beakdansim tig00001732_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  662576

Tables:   1   2   3   4   

This is table  2  of  4  ( 432 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)
212665--212719	22	2.5	22	90	0	92	40	12	10	36	1.79
217279--217326	20	2.4	20	89	6	71	0	16	2	81	0.79
217278--217328	21	2.5	20	93	6	84	0	15	1	82	0.76
217290--217333	12	3.6	12	80	17	54	0	15	2	81	0.78
222635--222676	2	21.0	2	100	0	84	50	0	0	50	1.00
222686--222892	114	1.8	115	88	1	317	44	7	8	39	1.64
224356--224405	14	3.6	14	71	17	50	66	0	0	34	0.92
224364--224403	3	14.3	3	80	15	50	67	0	0	32	0.91
224356--224402	11	4.5	11	80	15	55	65	0	0	34	0.93
224359--224402	22	2.0	23	90	4	72	65	0	0	34	0.93
224356--224404	19	2.5	19	83	3	62	67	0	0	32	0.91
226903--226979	29	2.7	29	89	0	127	15	33	25	24	1.95
253003--253027	5	5.0	5	100	0	50	0	20	0	80	0.72
254770--254828	31	1.9	31	92	0	100	42	5	8	44	1.57
254852--255193	22	15.6	22	88	1	490	48	11	0	40	1.41
255180--255219	12	3.6	12	77	16	50	52	0	2	45	1.14
255773--255812	21	1.9	21	84	0	53	37	10	2	50	1.50
256098--256427	165	2.0	165	87	1	482	30	19	19	30	1.96
261700--261741	8	5.0	8	86	11	57	73	0	2	23	0.94
261651--261741	16	5.6	16	71	11	60	70	2	5	21	1.19
261708--261741	13	2.6	13	82	17	52	76	0	0	23	0.79
263073--263107	18	2.0	18	94	5	63	5	22	17	54	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
263525--264050	106	5.0	105	85	4	659	22	18	24	34	1.96
264387--264455	36	1.9	36	90	0	111	40	15	20	23	1.91
265959--266019	22	2.7	22	81	18	65	0	18	4	77	0.95
265959--266026	7	9.4	7	73	17	59	0	17	4	77	0.92
265985--266032	15	3.3	15	83	13	64	0	16	4	79	0.89
269058--269158	8	11.8	8	72	15	51	68	1	5	23	1.22
269125--269158	13	2.6	13	82	17	52	76	0	0	23	0.79
271400--271428	2	14.5	2	100	0	58	51	0	0	48	1.00
271437--271477	11	3.6	11	87	6	55	65	4	4	24	1.32
271560--271604	12	3.7	12	81	3	54	66	0	4	28	1.11
272161--272265	37	2.8	37	88	0	156	30	15	14	40	1.87
272776--273156	41	9.2	42	78	6	366	29	17	19	32	1.95
272776--273156	82	4.6	83	84	3	403	29	17	19	32	1.95
273215--273256	18	2.3	18	91	0	66	19	30	0	50	1.48
276538--276786	42	5.9	42	81	3	257	25	22	19	32	1.97
288147--288825	340	2.0	338	96	3	1260	37	12	11	38	1.80
289412--289444	2	16.5	2	100	0	66	0	48	0	51	1.00
291115--291207	41	2.3	41	92	7	156	31	13	4	50	1.61
303181--303567	96	4.0	96	97	0	729	25	17	21	35	1.95
305637--305694	29	2.0	29	86	6	82	32	3	12	51	1.56
313875--313927	26	2.0	26	82	13	65	71	7	9	11	1.30
315350--315379	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315645--315674	5	6.0	5	92	0	51	60	16	20	3	1.50
315848--316201	20	17.2	20	77	14	305	38	26	18	16	1.92
315931--316193	42	6.4	40	91	6	345	36	27	19	17	1.94
315931--316201	62	4.4	60	88	8	343	37	26	18	16	1.93
316297--316406	6	18.5	6	97	0	204	32	50	16	0	1.52
316986--317034	6	8.7	6	97	2	77	0	18	53	28	1.45
317137--317296	20	7.7	20	79	16	166	18	18	27	36	1.94
317137--317296	42	3.9	42	86	4	227	18	18	27	36	1.94
317129--317356	62	3.7	60	79	10	237	16	18	25	39	1.91
317129--317358	20	11.2	20	75	8	160	16	18	24	40	1.91
319063--319127	25	2.5	26	76	18	73	44	0	0	55	0.99
319165--319228	26	2.4	26	94	2	110	35	15	15	32	1.90
319467--320894	99	14.3	99	86	4	1872	35	11	14	38	1.82
319467--320894	306	4.8	299	86	5	1900	35	11	14	38	1.82
319467--320872	503	2.8	496	88	4	1961	35	12	13	38	1.82
325750--325819	34	2.1	32	84	5	86	22	28	15	32	1.95
326033--326072	21	1.9	22	90	10	66	12	10	40	37	1.77
326100--326142	21	2.0	21	90	0	68	27	25	20	25	1.99
326178--326220	21	2.0	21	100	0	86	13	27	44	13	1.83
326254--326331	21	4.1	20	77	19	85	12	26	37	23	1.91
326276--326305	15	2.0	15	100	0	60	13	26	33	26	1.93
326255--326325	35	2.0	36	91	2	117	14	26	35	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
326421--326479	29	2.0	31	90	6	95	44	15	3	37	1.63
329066--329135	34	2.1	32	86	5	95	22	30	15	31	1.95
329404--329446	21	2.0	21	86	0	59	27	23	20	27	1.99
329482--329521	21	1.9	21	100	0	80	15	25	45	15	1.84
329559--329636	21	4.1	20	77	19	85	12	26	37	23	1.91
329581--329610	15	2.0	15	100	0	60	13	26	33	26	1.93
329560--329630	35	2.0	36	91	2	117	14	26	35	23	1.93
329713--329783	29	2.4	30	83	9	83	46	14	4	35	1.64
329726--329784	29	2.0	30	90	6	93	44	15	3	37	1.63
329726--329784	30	2.0	28	87	9	82	44	15	3	37	1.63
335944--335981	10	3.8	10	89	0	58	55	18	23	2	1.55
337377--337605	20	11.4	20	76	7	178	39	25	17	17	1.91
337377--337605	40	5.7	39	87	2	215	39	25	17	17	1.91
338293--338339	24	2.0	24	87	8	69	25	14	21	38	1.92
339976--340038	32	2.0	32	96	3	119	38	6	12	42	1.68
340842--341102	19	14.7	19	76	19	278	45	17	22	14	1.84
340842--340992	72	2.1	71	92	3	250	47	17	20	14	1.83
340830--341096	52	5.1	53	87	10	376	46	17	22	13	1.84
340895--341096	105	1.9	104	95	3	370	46	16	23	13	1.83
340811--341102	124	2.4	123	81	9	344	45	18	22	14	1.85
341073--341187	52	2.2	52	84	4	151	19	23	19	38	1.93
341092--341207	52	2.2	52	96	3	216	13	24	18	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341111--341207	19	5.4	19	83	14	134	14	22	17	45	1.85
341314--341349	14	2.6	14	95	4	65	47	22	0	30	1.52
341342--341378	12	3.2	12	84	7	58	62	18	0	18	1.34
343186--343357	19	9.6	19	73	13	123	45	23	19	10	1.81
343261--343346	33	2.6	33	90	0	136	47	22	20	9	1.78
343369--343426	14	3.9	14	75	16	62	6	17	29	46	1.74
343353--343425	32	2.2	32	95	2	128	6	16	30	46	1.73
343353--343410	18	3.4	18	75	20	70	6	15	31	46	1.72
343364--343440	32	2.4	32	86	4	102	7	16	28	46	1.75
343539--343754	92	2.4	92	96	1	400	45	18	13	21	1.85
343856--343985	42	3.2	42	66	14	126	31	29	13	25	1.94
343823--343943	39	3.0	39	64	15	102	31	25	14	28	1.95
343823--343985	81	2.0	81	100	0	326	31	26	14	26	1.95
345371--345434	20	3.2	20	82	4	92	46	15	25	12	1.81
345369--345433	21	3.1	21	82	4	96	47	15	26	10	1.78
345469--345535	33	2.1	33	94	5	120	8	22	20	47	1.78
345516--345587	21	3.5	21	74	12	78	12	20	18	48	1.80
345666--345732	30	2.2	31	86	5	91	46	16	23	13	1.82
346112--346284	20	8.6	20	81	6	188	17	18	27	35	1.94
346112--346284	60	2.9	60	80	4	215	17	18	27	35	1.94
346633--346687	18	2.9	18	83	5	65	18	20	10	50	1.76
346657--346694	20	1.9	20	88	0	58	21	26	10	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350137--350421	140	2.0	143	95	3	524	25	21	19	33	1.97
351774--352464	342	2.0	342	97	0	1310	36	19	21	22	1.95
352977--353325	175	2.0	174	99	0	689	39	10	14	34	1.82
355869--355935	33	2.0	33	97	0	125	26	17	25	29	1.98
356037--356109	33	2.2	33	90	0	110	39	9	24	26	1.86
359225--359256	2	16.5	2	93	6	57	50	0	0	50	1.00
363808--363841	7	4.7	7	88	3	50	38	2	0	58	1.13
381126--381166	19	2.2	19	100	0	82	29	0	17	53	1.44
382073--382330	129	2.0	129	93	0	444	32	27	10	30	1.89
382711--383107	71	5.6	71	75	8	317	28	20	17	32	1.95

Tables:   1   2   3   4