genome.fa.s5250.2.7.7.80.10.50.1000.1.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: VEPZ01005250.1 Hibiscus syriacus cultivar Beakdansim tig00011874_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  190534

Tables:   1   2   

This is table  1  of  2  ( 171 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)
3099--3140	17	2.5	17	88	0	66	52	2	28	16	1.56
3279--3522	39	6.3	38	75	12	151	31	20	18	30	1.96
3197--3556	40	9.2	40	73	13	216	31	20	18	29	1.96
3196--3544	80	4.5	79	77	12	280	31	20	18	29	1.96
4057--4160	36	2.8	37	85	2	147	39	14	15	30	1.87
4829--4858	12	2.6	11	94	5	51	23	6	6	63	1.43
4875--4905	2	15.5	2	100	0	62	48	0	0	51	1.00
5092--5120	2	14.5	2	100	0	58	48	0	0	51	1.00
5372--5402	2	15.5	2	100	0	62	48	0	0	51	1.00
5416--5493	22	3.5	21	81	8	84	15	5	1	78	0.99
5416--5493	21	3.5	22	77	7	77	15	5	1	78	0.99
5471--5519	18	2.7	18	80	0	62	18	14	0	67	1.23
7275--7305	12	2.5	12	94	5	53	38	3	0	58	1.15
10205--10261	16	3.7	15	76	21	55	77	7	15	0	0.98
10204--10268	25	2.8	24	75	15	64	75	7	16	0	1.03
11776--11844	36	1.9	36	90	0	111	23	20	15	40	1.91
12181--12706	106	5.0	106	85	2	677	35	24	18	21	1.95
13124--13158	18	2.0	18	94	5	63	54	17	22	5	1.64
14482--14513	5	6.4	5	100	0	64	18	0	0	81	0.70
14482--14617	56	2.4	57	76	11	131	19	7	1	71	1.18
14688--14718	12	2.5	12	94	5	53	38	3	0	58	1.15
19816--20145	165	2.0	165	89	1	500	30	20	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20423--20462	21	1.9	21	84	0	53	50	2	10	37	1.50
21015--21054	12	3.6	12	80	12	50	45	2	0	52	1.14
21041--21362	22	14.6	22	84	3	423	40	0	10	47	1.42
21386--21444	31	1.9	31	92	0	100	44	8	5	42	1.57
23179--23203	5	5.0	5	100	0	50	80	0	20	0	0.72
30642--30704	3	20.7	3	84	9	83	34	0	0	65	0.93
30635--30700	12	5.4	12	76	16	64	33	0	0	66	0.92
32065--32136	23	3.0	24	82	13	78	47	0	1	51	1.09
32088--32151	28	2.2	29	78	15	71	46	0	0	53	1.00
34425--34466	7	6.0	7	81	8	50	14	16	14	54	1.71
34425--34466	15	3.0	14	83	10	50	14	16	14	54	1.71
34526--34585	27	2.3	27	85	2	86	21	13	6	58	1.58
34525--34552	12	2.3	12	100	0	56	25	14	7	53	1.66
36200--36229	2	15.0	2	100	0	60	50	0	0	50	1.00
36540--36632	1	93.0	1	78	0	87	88	0	10	1	0.58
36525--36638	24	4.7	24	83	15	146	84	0	14	0	0.68
36540--36632	46	2.0	46	89	8	145	88	0	10	1	0.58
36525--36631	8	13.4	8	82	14	132	85	0	14	0	0.66
41054--41208	54	2.9	53	82	9	192	34	14	24	25	1.94
41054--41204	50	2.9	50	86	5	178	34	14	24	26	1.94
41559--41657	44	2.2	44	92	0	171	33	13	11	42	1.79
41561--41657	22	4.4	22	88	0	149	34	12	11	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42174--42499	165	2.0	166	90	3	512	36	13	12	37	1.82
42503--42734	76	3.1	76	94	1	403	25	20	19	34	1.96
42788--43105	103	3.0	103	86	7	447	36	15	18	29	1.91
42887--43148	111	2.4	111	92	0	425	37	14	19	29	1.91
43477--43536	3	19.7	3	83	10	77	35	0	0	65	0.93
44926--44979	2	29.0	2	76	14	53	50	0	0	50	1.00
44957--45043	44	2.0	43	82	10	108	37	2	0	59	1.10
50703--50785	29	2.9	29	96	0	148	16	43	24	15	1.87
50835--51207	185	2.0	185	98	0	728	18	36	21	23	1.95
51213--51271	29	2.0	29	90	0	91	8	35	33	22	1.84
51227--51301	29	2.6	29	82	4	89	14	28	38	18	1.90
54591--54620	15	1.9	16	93	6	53	53	20	6	20	1.67
58068--58132	32	2.0	32	96	0	121	23	27	9	40	1.85
61469--61561	21	4.5	21	78	4	100	39	18	24	17	1.91
61469--61561	41	2.3	41	100	0	186	39	18	24	17	1.91
61488--61622	41	3.3	41	84	4	148	37	21	20	20	1.94
61550--61643	20	4.7	20	80	7	91	32	25	17	24	1.96
61827--61870	22	2.0	22	95	0	79	20	45	15	18	1.85
62132--62169	20	1.9	20	88	0	58	13	15	21	50	1.78
63488--63532	18	2.5	18	85	0	63	26	46	15	11	1.79
64002--64056	20	2.8	19	78	5	65	36	21	23	18	1.95
64040--64129	32	2.8	32	91	5	146	47	23	17	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64002--64134	19	7.6	19	68	20	65	42	23	20	13	1.87
64146--64203	14	3.9	14	79	16	71	8	17	25	48	1.75
64141--64211	32	2.2	33	97	2	135	8	19	23	47	1.77
66247--66381	19	7.6	19	80	14	164	47	17	21	13	1.82
66281--66343	33	1.9	33	96	0	117	52	15	19	12	1.74
66264--66381	52	2.3	52	96	0	218	49	16	20	13	1.80
66264--66381	33	3.4	33	69	21	98	49	16	20	13	1.80
66400--66457	20	2.9	20	94	0	98	17	22	22	37	1.93
67501--67554	24	2.2	24	90	0	81	24	16	20	38	1.92
67729--67753	12	2.1	12	100	0	50	72	0	28	0	0.86
70031--70089	19	3.4	19	73	22	74	45	18	22	13	1.84
70011--70156	33	4.3	35	77	15	139	41	21	21	15	1.90
70031--70154	33	3.8	33	84	8	175	42	20	21	15	1.88
70032--70161	65	2.0	65	92	4	219	41	20	21	16	1.90
70312--70347	14	2.6	14	86	4	56	47	25	0	27	1.52
71737--71819	42	2.0	42	85	2	114	22	16	38	21	1.93
73767--73865	33	3.0	33	89	1	144	39	26	23	11	1.88
73742--73906	19	9.1	19	74	17	136	43	22	22	12	1.86
73902--73968	19	3.5	19	85	2	89	10	16	25	47	1.78
74486--74534	20	2.5	20	86	6	64	26	16	28	28	1.97
74545--74657	41	2.8	41	87	2	129	20	21	18	39	1.92
74565--74657	21	4.6	20	77	4	96	17	22	18	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
81339--81463	61	2.0	63	96	3	236	32	16	27	24	1.96
82269--82312	2	23.0	2	90	9	74	50	0	0	50	1.00
82799--82856	24	2.4	24	77	11	57	31	5	1	62	1.27
82831--82890	19	3.4	18	76	14	54	23	5	3	68	1.24
82850--82891	18	2.2	20	87	8	61	19	4	4	71	1.22
87592--87625	9	3.7	9	92	4	50	82	0	17	0	0.67
87592--87626	10	3.6	10	92	3	54	82	0	17	0	0.66
92205--92259	22	2.5	22	90	0	92	36	10	12	40	1.79
92934--93078	75	1.9	75	91	5	240	24	20	20	34	1.96
92945--93104	75	2.1	75	87	4	225	25	22	20	31	1.98
93122--93541	112	3.8	112	85	3	521	38	14	18	29	1.90
93761--93808	18	2.8	17	78	6	51	31	0	2	66	1.03
93853--93886	14	2.4	14	95	5	59	38	38	17	5	1.74
94078--94272	98	2.0	97	98	1	381	23	32	22	21	1.98
95140--95182	15	3.0	14	83	12	52	27	4	0	67	1.10
95323--95513	104	1.8	106	87	3	287	39	9	7	42	1.67
95523--95577	2	28.0	2	96	3	103	49	0	0	50	1.00
105221--105262	19	2.1	21	86	8	61	50	0	0	50	1.00
112635--112724	45	2.0	44	97	2	171	37	15	13	33	1.86
114927--114974	14	3.4	14	80	13	53	37	2	2	58	1.22
115229--115265	11	3.2	11	85	14	56	48	0	0	51	1.00
115225--115271	21	2.2	21	85	7	60	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)
115225--115257	16	2.1	16	94	0	57	54	0	0	45	0.99
115226--115271	13	3.8	12	80	13	58	50	0	0	50	1.00
115643--115685	16	2.8	15	83	13	52	13	4	4	76	1.10
116708--116915	41	4.9	41	81	10	247	21	21	22	34	1.97
116712--116776	20	3.2	20	65	10	51	20	20	24	35	1.96
116797--116926	21	6.3	21	78	3	147	23	17	23	36	1.95
116822--116894	20	3.6	20	81	3	101	13	21	24	39	1.90
116950--117015	19	3.3	19	76	12	78	43	21	16	18	1.87
116965--117036	22	3.4	22	77	11	96	38	25	18	18	1.92
116950--117036	41	2.1	41	100	0	174	41	22	17	18	1.90

Tables:   1   2