genome.fa.s4096.2.7.7.80.10.50.1000.2.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: VEPZ01004096.1 Hibiscus syriacus cultivar Beakdansim tig00008957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961865

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 546 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)
178512--179839	190	6.9	196	90	6	2083	31	17	15	34	1.92
178512--179839	376	3.4	392	90	6	2119	31	17	15	34	1.92
179958--180001	19	2.4	19	92	3	72	56	11	2	29	1.46
181767--181826	30	1.9	31	86	6	86	21	50	0	28	1.49
181864--181904	20	2.0	21	90	4	66	14	34	12	39	1.84
184348--184909	214	2.6	212	90	8	860	37	8	7	46	1.63
186489--186571	31	2.7	31	90	0	139	43	24	20	12	1.85
190319--190350	17	1.9	16	93	6	55	68	12	12	6	1.37
191809--191856	22	2.1	23	81	11	55	39	2	0	58	1.10
191853--191890	17	2.4	16	86	8	51	47	5	0	47	1.24
193224--193464	120	2.0	117	84	5	306	36	16	17	29	1.92
194080--194120	20	2.0	20	86	9	57	75	0	0	24	0.80
195526--195576	24	2.0	24	81	11	57	43	1	1	52	1.23
197030--197086	29	2.0	28	89	3	87	24	8	12	54	1.65
200366--200414	2	24.5	2	100	0	98	48	0	0	51	1.00
207071--207109	15	2.6	15	100	0	78	5	20	33	41	1.74
216584--217358	148	5.2	147	87	1	1077	33	12	13	40	1.83
216584--217358	221	3.5	222	87	2	1092	33	12	13	40	1.83
218016--218042	2	13.5	2	100	0	54	51	0	0	48	1.00
218420--218487	33	2.1	33	94	0	118	27	13	19	39	1.89
218542--218582	3	13.7	3	90	10	66	68	0	0	31	0.90
218534--218599	9	6.2	12	81	16	60	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
218941--220102	84	14.0	82	79	5	948	24	18	24	31	1.97
218941--220098	165	7.0	165	80	4	1012	24	18	24	31	1.97
218978--220124	249	4.6	248	83	2	1291	24	18	25	31	1.97
220231--220664	110	4.0	110	89	2	655	24	17	22	34	1.96
220580--220731	67	2.3	67	92	0	259	26	18	23	32	1.97
220472--220835	177	2.1	171	89	3	548	25	18	22	33	1.97
220365--220945	281	2.0	284	91	2	943	25	18	22	33	1.96
220649--221057	110	3.8	110	88	3	605	24	17	22	34	1.96
220281--221055	391	2.0	394	90	2	1234	25	17	22	34	1.96
226960--227009	17	2.9	17	96	0	91	14	24	44	18	1.86
234069--234121	5	9.8	5	76	15	52	7	22	50	18	1.72
234062--234122	17	3.3	17	79	20	77	11	22	47	18	1.80
234069--234121	22	2.4	22	100	0	106	7	22	50	18	1.72
236785--237874	162	6.7	162	82	4	1182	20	31	9	39	1.84
243709--243774	31	2.2	31	83	8	82	53	1	1	43	1.19
243727--243794	11	6.2	11	77	5	75	50	0	1	48	1.10
243723--243794	32	2.3	32	90	2	110	48	0	1	50	1.09
243725--243806	22	3.9	21	78	12	87	46	1	1	51	1.16
245062--245782	156	4.6	156	93	0	1219	22	28	13	35	1.92
245823--246076	117	2.2	117	92	0	427	21	25	20	32	1.98
245823--246133	117	2.7	117	87	2	410	20	25	19	35	1.96
249627--249671	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
251328--251398	32	2.2	32	87	2	99	43	2	5	47	1.41
251534--251559	2	13.0	2	100	0	52	50	0	0	50	1.00
252156--252260	27	3.9	27	91	5	160	26	17	1	54	1.53
254330--254440	31	3.6	31	93	0	177	20	17	22	39	1.92
254330--254454	31	4.0	30	82	12	128	22	16	22	38	1.93
254330--254454	62	2.0	62	87	3	180	22	16	22	38	1.93
255160--255206	21	2.2	21	85	11	60	27	25	27	19	1.99
257328--257427	24	4.2	24	74	5	94	47	17	14	22	1.82
257326--257429	48	2.2	48	80	0	118	48	16	14	21	1.81
259919--259952	15	2.3	15	94	0	59	26	26	32	14	1.95
259945--259995	18	2.8	18	96	0	93	13	19	50	15	1.77
262049--262127	31	2.5	31	91	2	131	35	15	25	24	1.94
262857--262901	16	2.8	16	75	0	54	44	22	20	13	1.85
269915--269968	3	17.3	3	80	3	54	37	0	1	61	1.07
271233--271284	11	4.7	11	82	0	68	23	1	1	73	1.04
271233--271291	22	2.8	21	82	12	77	25	3	1	69	1.13
271233--271291	11	5.4	10	82	15	55	25	3	1	69	1.13
271396--271441	22	2.1	22	83	0	56	50	0	0	50	1.00
273642--273700	28	2.1	29	87	3	84	49	1	3	45	1.28
276713--276793	41	2.0	41	85	4	110	30	9	28	30	1.89
277652--277694	22	2.0	21	81	4	50	39	27	9	23	1.85
279537--279614	29	2.7	29	81	13	90	23	12	6	57	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284277--284306	15	1.9	16	93	6	53	53	0	10	36	1.35
285486--285544	2	29.5	2	100	0	118	50	0	0	49	1.00
287033--287089	22	2.6	22	76	13	64	35	0	5	59	1.20
293925--293966	20	2.1	20	90	0	66	7	47	35	9	1.64
295092--295760	105	6.5	105	89	4	943	22	18	24	34	1.96
295161--295761	98	5.9	98	89	6	844	21	18	25	34	1.96
295161--295761	203	3.0	200	88	7	877	21	18	25	34	1.96
305943--305986	20	2.2	20	88	8	63	75	2	4	18	1.09
307733--307774	20	2.1	20	90	0	66	7	47	35	9	1.64
317222--317247	12	2.2	12	100	0	52	42	7	7	42	1.62
321438--321473	18	1.9	19	88	5	56	36	2	0	61	1.11
321693--322268	8	72.0	8	90	0	684	43	23	5	27	1.75
327154--327183	2	15.0	2	100	0	60	50	0	0	50	1.00
330032--330062	15	2.1	15	93	0	53	45	12	22	19	1.84
350815--350897	43	1.9	43	87	4	123	19	12	25	43	1.85
366347--366397	25	1.9	27	84	11	70	52	1	9	35	1.46
366831--366863	14	2.3	15	89	5	50	48	3	0	48	1.17
374249--374283	2	17.5	2	93	0	61	48	0	48	2	1.16
375046--375077	2	16.0	2	100	0	64	50	0	0	50	1.00
376684--376742	31	1.9	31	92	0	100	33	13	0	52	1.41
378019--378126	37	2.9	37	91	0	162	41	14	12	31	1.83
378583--378663	3	26.7	3	75	16	69	29	2	0	67	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378578--378746	12	14.4	12	67	24	51	33	4	0	60	1.22
378578--378751	16	10.6	16	71	23	80	33	4	0	61	1.21
378578--378619	14	2.9	14	86	10	50	35	0	0	64	0.94
378682--378738	2	29.0	2	81	16	66	43	3	0	52	1.18
380534--380628	32	2.9	32	88	1	127	30	10	22	36	1.88
380539--380642	32	3.2	32	86	2	102	30	11	22	35	1.89
386232--386266	13	2.8	13	91	4	54	57	0	0	42	0.99
386747--386835	34	2.7	31	79	6	88	58	2	0	39	1.11
388120--388162	10	4.0	10	80	16	50	67	2	0	30	1.03
391784--391863	41	2.0	41	94	0	142	45	11	13	30	1.79
393913--394083	85	2.0	88	88	5	258	43	7	1	47	1.42
394089--394180	29	3.2	28	76	10	87	45	4	0	50	1.21
394058--394184	57	2.1	57	80	15	134	44	3	0	51	1.17
394172--394215	23	1.9	23	90	0	70	56	2	4	36	1.32
398286--398566	138	2.0	138	96	0	519	25	22	14	37	1.92
402942--402988	20	2.3	20	85	7	60	55	0	2	42	1.12
403556--403601	23	2.0	23	86	0	65	45	2	6	45	1.41
413108--413147	13	3.0	13	85	7	53	40	0	0	60	0.97
413121--413252	24	5.6	24	76	12	112	46	0	3	48	1.25
413126--413191	21	3.1	21	73	14	64	45	1	3	50	1.26
413177--413205	14	2.0	15	93	6	51	55	0	0	44	0.99
413161--413209	21	2.3	21	85	0	62	53	0	2	44	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413305--413346	22	1.9	22	85	9	59	42	7	7	42	1.59
414125--414181	17	3.6	16	75	22	57	73	0	1	24	0.92
414134--414189	13	4.4	13	78	13	62	75	0	0	25	0.81
414125--414188	30	2.1	29	86	11	85	73	0	1	25	0.92
414132--414253	21	5.9	21	67	19	76	68	1	2	27	1.11
414316--414350	2	17.5	2	93	0	61	48	2	0	48	1.16
414410--414436	2	13.5	2	100	0	54	51	0	0	48	1.00
414469--414516	23	2.0	24	84	11	64	70	0	2	27	0.98
414953--415033	37	2.2	37	81	0	90	34	11	13	40	1.80
415798--417073	106	12.0	106	92	0	2023	22	18	24	33	1.97

Tables:   1   2   3   4   5