genome.fa.s7386.2.7.7.80.10.50.1000.1.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: VEPZ01007386.1 Hibiscus syriacus cultivar Beakdansim tig00019862_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  903698

Tables:   1   2   3   

This is table  1  of  3  ( 336 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)
5486--5596	32	3.5	32	87	0	159	23	27	23	25	2.00
10212--10274	32	2.0	32	87	0	90	38	19	12	30	1.89
14799--14855	15	3.9	15	93	2	89	56	17	12	14	1.68
28453--28483	9	3.4	9	95	0	53	0	61	22	16	1.34
29797--30006	92	2.3	93	92	1	341	38	15	8	37	1.78
29968--30126	65	2.7	57	76	16	178	41	11	6	40	1.67
30007--30179	65	2.6	66	82	8	210	37	15	6	41	1.72
30023--30324	161	1.9	161	88	4	457	39	13	7	38	1.75
31608--31854	55	4.5	53	83	7	300	29	24	13	31	1.94
31591--32329	54	13.6	54	81	4	618	25	25	17	32	1.97
31813--32329	108	4.8	107	89	1	721	23	25	18	31	1.97
32679--32858	37	4.9	37	82	4	202	25	17	21	36	1.94
39946--39996	22	2.2	25	86	10	72	45	3	1	49	1.32
39946--39999	25	2.2	25	83	6	65	46	3	1	48	1.30
43780--43820	20	2.0	20	85	0	55	17	19	34	29	1.94
44691--45783	546	2.0	545	95	0	1972	33	12	15	38	1.85
59621--59676	21	2.7	22	81	10	64	32	5	8	53	1.55
62366--62418	2	26.0	2	96	3	97	49	0	1	49	1.12
68313--68485	90	1.9	89	91	3	285	45	6	9	38	1.64
71031--71082	26	2.0	26	100	0	104	7	11	53	26	1.63
71031--71091	26	2.6	22	87	12	79	9	13	49	27	1.73
71832--71877	24	1.9	24	95	0	83	41	13	13	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
84444--84530	21	4.2	21	88	2	124	32	19	13	34	1.91
89543--89818	116	2.4	116	78	3	275	22	20	12	44	1.85
89960--90355	116	3.5	113	79	3	355	23	19	15	40	1.91
94992--95021	13	2.2	14	94	5	53	40	13	26	20	1.89
118649--118680	2	16.0	2	100	0	64	50	0	0	50	1.00
123783--123861	40	2.0	39	85	2	104	29	20	26	24	1.99
133557--133605	20	2.5	20	93	3	82	36	24	4	34	1.75
143081--143182	26	3.9	26	74	5	80	33	21	11	33	1.90
144449--144497	20	2.5	20	93	3	82	36	24	4	34	1.75
146700--146739	21	1.9	21	85	10	55	32	25	7	35	1.84
148474--148528	12	4.6	12	86	0	56	18	20	14	47	1.83
151996--152057	19	3.1	20	74	4	54	30	0	14	54	1.40
166100--166143	23	1.9	23	85	0	61	2	20	4	72	1.13
171953--171979	11	2.5	11	100	0	54	81	0	0	18	0.69
171940--171978	6	6.7	6	91	5	53	84	5	0	10	0.76
172669--172724	1	56.0	1	81	0	67	91	0	8	0	0.43
172669--172724	13	4.2	13	88	11	87	91	0	8	0	0.43
173468--173578	43	2.5	44	80	1	125	29	16	21	32	1.95
174244--174287	12	3.7	12	87	0	52	20	15	13	50	1.78
177174--177266	26	3.6	26	83	2	116	32	25	11	30	1.92
178874--178955	32	2.6	32	80	3	103	24	23	31	20	1.98
181631--181675	22	2.0	23	86	4	65	11	4	40	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182421--182465	20	2.3	19	80	3	54	35	24	2	37	1.68
187260--187309	3	16.7	3	87	0	55	30	10	0	60	1.30
191244--191288	22	2.0	22	91	0	72	17	8	33	40	1.81
198277--198333	28	2.0	28	93	0	96	17	24	35	22	1.95
200733--200769	15	2.4	15	90	4	56	35	2	0	62	1.10
215682--215737	21	2.7	22	81	10	64	32	5	8	53	1.55
215718--215753	16	2.2	17	90	5	56	33	5	11	50	1.61
230960--231134	90	2.0	89	91	1	287	44	6	9	40	1.63
259798--259829	16	2.0	16	93	0	55	21	15	6	56	1.62
263999--264274	116	2.4	115	79	3	273	23	21	13	42	1.87
264248--264290	22	2.0	22	90	0	68	9	18	18	53	1.70
264420--264811	116	3.4	115	78	5	344	23	20	14	41	1.89
268168--268209	21	2.0	21	100	0	84	14	9	28	47	1.75
282273--282306	18	1.9	18	94	5	61	41	17	0	41	1.50
291664--291741	39	2.0	39	82	5	95	29	23	26	20	1.99
300010--300111	26	3.9	26	69	5	71	32	21	11	34	1.90
301381--301437	20	2.9	20	92	2	89	38	22	3	35	1.72
305553--305607	12	4.6	12	86	0	56	18	20	14	47	1.83
309011--309074	33	1.9	33	84	12	87	21	1	10	65	1.32
325667--325715	17	2.8	17	80	14	55	16	12	0	71	1.14
329242--329282	1	41.0	1	85	0	55	92	4	0	2	0.44
329950--330007	13	4.7	13	75	14	52	79	0	17	3	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329983--330007	7	3.6	7	100	0	50	88	0	12	0	0.53
329955--330007	14	3.6	14	75	7	52	79	0	18	1	0.83
331696--331733	19	2.0	20	89	5	60	21	13	13	52	1.73
334472--334628	26	6.1	26	76	1	127	32	23	13	30	1.93
336181--336241	32	1.9	32	89	0	95	26	22	32	18	1.97
340079--340123	20	2.3	19	80	3	54	35	22	4	37	1.74
349933--349967	3	11.7	3	87	0	52	5	25	0	68	1.11
349932--350006	6	12.5	6	86	0	69	20	12	1	66	1.30
349932--349970	12	3.2	12	100	0	78	10	23	0	66	1.22
349966--350015	3	16.7	3	91	0	82	30	2	2	66	1.14
361045--361101	28	2.0	28	89	0	87	14	22	38	24	1.91
363506--363565	7	8.4	7	81	15	52	25	3	0	71	1.01
363527--363566	21	1.9	21	89	0	62	20	2	0	77	0.88
363526--363566	7	5.9	7	91	0	55	19	2	0	78	0.87
374369--374415	18	2.6	18	77	9	51	17	14	0	68	1.22
377107--377144	19	2.0	20	89	5	60	5	13	5	76	1.13
383506--383924	233	1.8	232	82	4	540	41	7	16	34	1.76
390173--390258	3	28.7	3	87	0	127	2	27	1	68	1.09
390257--390333	3	26.0	3	97	2	147	33	0	0	66	0.92
394750--395016	54	4.9	54	87	2	385	26	17	22	33	1.96
394750--395022	108	2.5	107	89	3	431	26	17	22	33	1.96
401468--402217	54	13.9	54	84	3	913	26	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403721--403770	18	2.7	19	80	14	52	24	0	6	70	1.10
408615--408792	65	2.6	68	82	9	213	29	0	14	55	1.44
411389--411431	21	2.0	23	90	9	72	20	11	0	67	1.22
414023--414064	16	2.6	16	88	0	57	14	4	2	78	1.01
415650--415817	65	2.5	68	85	9	211	27	0	16	54	1.46
421544--421593	20	2.4	21	90	6	75	24	4	6	66	1.32
427152--427203	22	2.4	22	90	3	79	53	0	17	28	1.44
431938--432042	37	2.8	37	83	0	129	40	15	12	31	1.84
432610--432686	38	2.0	39	82	7	95	22	7	2	67	1.29
432660--432766	21	5.1	21	67	20	64	18	9	1	70	1.24
432496--432702	105	1.9	108	95	4	377	24	9	2	63	1.38
436965--436997	14	2.4	14	94	0	57	42	18	6	33	1.75
437312--437382	21	3.3	20	74	20	56	78	4	14	2	1.01
437309--437372	8	8.2	8	73	13	53	81	3	14	1	0.89
437307--437367	18	3.3	18	78	13	54	80	3	14	1	0.92
437317--437382	20	3.2	21	78	16	68	78	4	15	1	0.98
437999--438075	22	3.5	22	94	0	136	37	27	14	20	1.91
438899--440061	106	11.0	106	87	2	1565	33	24	18	23	1.96
440784--440884	37	2.7	37	87	0	130	41	13	13	30	1.84
440937--440980	21	2.0	22	82	4	54	56	22	18	2	1.52
441372--441442	21	3.5	20	72	9	56	22	9	1	66	1.29
457422--457875	134	3.4	132	78	5	455	33	18	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458417--458516	51	2.0	51	87	0	146	40	16	18	26	1.90
459534--459713	90	2.0	90	90	2	281	45	6	11	36	1.67
466394--466571	89	2.0	89	86	4	252	43	6	12	37	1.69
466695--466922	44	5.1	42	77	12	149	44	17	13	25	1.85
466793--466929	44	3.1	43	87	4	193	45	18	13	23	1.84
466759--466929	88	1.9	89	83	8	224	45	18	13	22	1.85
467093--467727	258	2.5	256	83	6	741	36	15	15	33	1.88
472192--472296	53	2.0	53	88	0	156	35	20	17	26	1.95
475128--475167	13	3.2	13	89	7	64	17	40	25	17	1.91
475106--475150	18	2.6	18	89	3	65	20	44	20	15	1.87

Tables:   1   2   3