genome.fa.s3744.2.7.7.80.10.50.1000.2.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: VEPZ01003744.1 Hibiscus syriacus cultivar Beakdansim tig00008013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2457414

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  2  of  11  ( 1317 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)
165735--165897	81	2.0	79	88	4	238	32	23	17	25	1.97
166216--166284	3	22.3	3	83	16	88	31	0	0	68	0.90
166947--166976	12	2.5	12	88	0	51	50	6	23	20	1.71
168005--168111	9	11.3	9	68	16	56	16	4	1	76	1.04
168041--168106	30	2.2	28	77	15	69	18	3	3	75	1.06
168054--168097	23	2.0	22	86	4	61	20	2	2	75	1.03
168061--168109	15	3.3	15	83	8	64	18	0	0	81	0.69
168066--168124	24	2.4	24	83	8	66	18	1	0	79	0.81
168061--168109	22	2.2	23	88	3	73	18	0	0	81	0.69
171652--171977	161	2.0	163	93	3	559	40	11	13	33	1.82
172728--173015	145	2.0	145	95	0	513	37	10	18	33	1.85
178771--178801	15	2.1	15	100	0	62	6	19	12	61	1.53
185829--185866	20	1.9	20	100	0	76	31	21	23	23	1.98
187836--187878	22	2.0	20	86	8	59	48	4	0	46	1.22
189373--189437	27	2.4	26	82	7	76	44	3	1	50	1.26
189394--189446	26	2.0	26	82	10	63	47	3	1	47	1.31
191108--191146	18	2.2	18	95	4	71	64	2	0	33	1.08
198934--198963	15	2.0	15	93	0	51	33	16	13	36	1.88
207110--207178	19	3.8	19	78	16	83	50	31	14	2	1.57
207125--207165	17	2.7	14	80	20	55	46	34	14	4	1.66
213910--214034	66	1.9	66	86	0	178	11	28	25	35	1.90
215286--215316	5	6.2	5	100	0	62	22	58	19	0	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
221728--221782	23	2.4	23	78	0	65	29	12	18	40	1.87
222579--222652	34	2.2	34	85	7	98	35	4	6	54	1.46
223092--223244	43	3.7	41	79	8	166	21	16	23	37	1.93
223115--223244	43	3.2	40	82	11	172	20	16	22	40	1.92
224164--224344	41	4.5	41	84	5	217	38	24	20	16	1.92
224164--224316	80	1.9	82	93	2	265	39	24	20	15	1.91
224163--224344	80	2.2	81	87	6	262	39	24	20	16	1.92
225912--225953	14	2.7	16	82	14	52	50	2	0	47	1.14
233429--233568	70	2.0	70	100	0	280	37	14	17	31	1.89
233446--233554	34	3.1	34	62	14	87	40	13	17	28	1.88
235252--235297	24	2.0	21	84	12	56	47	4	0	47	1.21
235331--235381	21	2.5	21	81	9	61	50	0	0	49	1.00
235311--235382	19	3.6	20	75	9	67	50	0	1	48	1.09
235347--235389	21	2.0	22	82	13	54	53	0	2	44	1.13
235989--236057	19	3.6	19	80	9	68	52	0	1	46	1.09
236024--236065	19	2.2	19	83	8	50	54	0	2	42	1.13
240464--240584	50	2.4	50	98	0	233	49	15	1	33	1.55
244947--245102	50	3.3	47	88	9	171	51	13	1	33	1.52
244982--245102	50	2.4	50	98	0	233	50	14	1	33	1.52
247151--247191	22	1.9	22	90	5	66	53	7	7	31	1.56
251007--251077	23	3.2	22	84	5	81	22	32	25	19	1.98
250995--251080	23	3.9	22	73	13	77	24	30	25	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
252658--252698	18	2.3	18	87	8	57	43	19	34	2	1.64
253225--253263	2	19.5	2	100	0	78	51	0	0	48	1.00
253520--253544	13	1.9	13	100	0	50	44	8	8	40	1.63
254530--254595	31	2.1	32	83	5	82	34	33	19	12	1.89
261596--261684	41	2.1	41	97	2	169	21	12	12	53	1.70
262092--262139	16	2.9	16	79	14	53	33	2	2	62	1.18
267699--267727	14	2.0	15	93	6	51	75	0	0	24	0.80
270118--270151	17	2.0	17	88	0	50	29	0	0	70	0.87
271850--271891	17	2.3	19	88	8	61	61	4	4	28	1.36
272327--272354	14	2.0	14	100	0	56	78	0	0	21	0.75
272594--272635	17	2.6	16	85	11	50	80	4	0	14	0.86
274458--274555	25	3.9	25	97	0	187	27	15	20	36	1.93
274689--274729	10	4.2	10	90	6	66	65	0	0	34	0.93
274972--275242	141	1.9	141	86	4	386	24	18	29	27	1.98
276198--276232	15	2.3	15	90	9	54	8	14	0	77	0.99
276196--276233	8	4.9	8	81	18	53	10	13	0	76	1.02
287157--287199	16	2.6	16	85	7	52	58	4	4	32	1.39
287635--287662	14	2.0	14	100	0	56	78	0	0	21	0.75
287914--287943	5	5.8	5	92	7	51	80	3	0	16	0.85
287890--287947	17	3.4	17	75	20	57	77	3	0	18	0.91
287903--287943	21	2.0	21	85	9	57	82	2	0	14	0.76
289402--289426	11	2.3	11	100	0	50	0	8	8	84	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
289773--289895	25	4.9	25	95	0	219	27	14	20	37	1.92
290030--290070	10	4.2	10	90	6	66	65	0	0	34	0.93
294002--294079	31	2.5	31	85	4	104	38	17	24	19	1.93
296358--296419	24	2.6	24	86	0	88	12	11	22	53	1.71
297944--298010	16	4.3	16	88	3	93	10	8	19	61	1.54
297937--298002	32	2.0	33	91	2	107	7	10	22	59	1.56
299705--299756	21	2.4	21	87	3	68	46	25	7	21	1.77
300405--300463	29	2.0	29	93	0	100	22	11	15	50	1.76
305061--305119	29	2.0	29	100	0	118	23	13	13	49	1.78
311004--311080	23	3.3	23	75	7	75	15	15	19	49	1.80
310992--311080	46	1.9	46	86	0	124	15	14	20	49	1.79
311649--311685	16	2.2	17	90	4	58	27	2	0	70	1.01
320158--320204	2	23.5	2	100	0	94	48	0	0	51	1.00
320289--320353	34	1.9	34	93	3	114	38	1	7	52	1.40
326889--326928	18	2.3	18	91	4	64	17	25	17	40	1.91
327226--327265	18	2.2	18	90	0	62	37	0	5	57	1.21
328389--328568	98	1.8	97	96	1	333	46	9	7	36	1.65
329519--329622	51	2.0	51	92	0	172	17	22	15	45	1.85
334780--334811	16	2.0	16	100	0	64	37	18	18	25	1.94
336666--336704	18	2.2	18	90	0	60	48	12	7	30	1.69
336921--336979	2	29.5	2	100	0	118	49	0	0	50	1.00
349657--349697	17	2.3	19	87	8	59	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355122--355146	2	12.5	2	100	0	50	52	0	0	48	1.00
358678--358845	52	3.3	49	77	5	147	42	13	8	35	1.76
359224--359342	54	2.2	52	80	5	123	24	18	22	34	1.96
360459--360523	34	1.9	34	90	0	103	41	10	9	38	1.72
362729--362766	20	1.9	20	88	0	58	39	0	15	44	1.47
363102--363127	3	8.7	3	100	0	52	65	0	0	34	0.93
363129--363170	3	14.0	3	100	0	84	33	0	0	66	0.92
365391--365499	28	3.9	28	86	0	146	40	11	11	37	1.76
367098--367136	20	1.9	21	89	5	62	53	25	0	20	1.45
371078--371260	34	5.5	33	69	18	105	44	8	4	42	1.55
371945--371977	11	3.1	11	86	4	50	69	0	6	24	1.10
371947--371980	10	3.3	10	87	4	50	70	0	2	26	1.01
375344--375379	18	2.1	18	90	10	58	22	5	5	66	1.34
376240--376287	24	2.0	25	84	12	64	33	2	2	62	1.18
376490--376567	29	2.6	31	75	6	79	21	19	6	52	1.68
377809--377879	21	3.3	21	64	21	56	18	19	15	46	1.84
377772--377923	44	3.5	44	97	0	277	21	21	15	42	1.89
392871--393043	85	2.0	85	96	0	319	26	19	18	35	1.95
398013--398040	3	9.3	3	100	0	56	67	32	0	0	0.91
405214--405271	20	2.9	20	92	0	89	29	32	25	12	1.92
416880--417036	43	3.7	42	73	10	122	21	17	25	35	1.95
424892--425005	41	2.7	41	78	4	113	33	17	20	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424952--425056	42	2.5	42	83	7	126	38	22	14	24	1.92
426449--426583	41	3.3	41	77	7	123	35	16	11	36	1.85
426611--426758	42	3.6	42	74	8	126	27	22	17	32	1.96
426660--426776	42	2.8	40	77	7	110	29	24	16	29	1.96
432613--432658	18	2.6	18	78	0	56	36	10	26	26	1.89
435144--435195	14	3.7	14	76	7	52	73	0	1	25	0.94
435151--435206	27	2.1	27	82	0	67	75	0	3	21	0.96
455760--455813	16	3.4	16	79	5	74	61	3	1	33	1.25
458741--458781	18	2.3	18	87	4	57	29	7	2	60	1.36
460431--460465	18	1.9	18	88	0	52	28	22	20	28	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11