genome.fa.s8140.2.7.7.80.10.50.1000.2.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: VEPZ01008140.1 Hibiscus syriacus cultivar Beakdansim tig00110698_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  511555

Tables:   1   2   3   

This is table  2  of  3  ( 302 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)
203536--203596	26	2.3	27	82	2	79	21	16	14	47	1.82
217854--217994	57	2.5	57	88	4	205	27	19	13	39	1.89
223641--223697	9	5.6	10	76	16	55	73	5	3	17	1.16
223657--223697	19	2.2	19	86	8	57	78	2	2	17	0.98
223927--224011	37	2.3	37	86	10	111	65	2	3	28	1.21
224041--224088	25	1.9	25	83	8	62	58	0	4	37	1.18
234698--234747	20	2.5	20	83	3	55	34	16	22	28	1.95
235070--235534	57	8.3	57	89	2	681	33	12	20	33	1.90
235074--235534	111	4.1	112	87	5	641	33	12	20	33	1.90
235091--235534	168	2.6	168	94	0	771	33	12	20	33	1.90
235091--235598	111	4.6	105	78	13	393	34	12	20	33	1.89
241515--241995	60	8.1	60	87	3	677	27	23	12	36	1.91
245498--245803	153	2.0	153	100	0	612	33	22	8	35	1.84
245774--245869	48	2.0	48	100	0	192	33	25	14	27	1.94
247640--248071	238	1.8	229	85	8	611	29	11	17	41	1.85
248912--249336	60	7.1	60	88	1	566	27	21	13	37	1.91
250990--251066	29	2.6	28	78	10	82	37	0	10	51	1.36
273203--273279	31	2.5	31	100	0	154	22	16	27	33	1.95
277698--277758	23	2.7	23	76	0	68	32	21	26	19	1.97
282718--282769	14	3.2	16	76	15	54	42	23	1	32	1.65
287176--287241	23	2.9	23	83	0	87	30	22	27	19	1.98
291868--291960	46	2.0	46	100	0	186	36	8	12	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291870--291944	25	3.2	25	65	27	72	36	8	12	44	1.71
291875--291949	22	3.3	22	67	26	66	34	6	13	45	1.70
300728--301303	81	7.3	81	90	5	846	32	20	11	35	1.89
300728--301303	239	2.4	236	87	8	843	32	20	11	35	1.89
304113--304200	46	1.9	46	85	0	122	22	18	12	46	1.82
304297--304637	81	4.2	81	91	0	520	32	19	10	36	1.86
305047--305223	94	1.9	94	85	4	250	24	22	13	39	1.90
312719--313097	55	6.9	55	92	2	618	36	11	15	36	1.84
312713--313169	55	8.3	55	88	2	609	35	12	17	35	1.87
314685--314906	105	2.1	104	80	5	239	34	8	18	37	1.82
314867--314926	31	1.9	31	82	0	75	28	10	20	41	1.84
315064--315147	23	3.7	23	73	0	78	20	20	19	40	1.92
315073--315160	46	1.9	46	88	0	131	22	20	18	38	1.93
315314--315370	6	9.5	6	86	0	60	40	0	26	33	1.56
315349--315373	3	8.3	3	100	0	50	32	0	32	36	1.58
316826--316890	33	2.0	33	93	6	114	36	15	24	23	1.93
318123--318570	54	8.3	54	90	1	646	35	16	14	33	1.89
327275--327335	23	2.7	22	84	2	77	18	31	19	31	1.96
327275--327342	22	3.0	23	82	6	86	20	29	20	29	1.98
330180--330223	15	2.8	16	82	3	54	22	20	15	40	1.90
330786--330818	11	3.1	11	86	4	50	51	6	6	36	1.51
333855--333930	3	25.0	3	86	5	100	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335286--335330	19	2.5	18	82	10	56	48	2	2	46	1.26
347892--348089	93	2.1	93	94	1	344	29	15	21	34	1.94
348876--349499	114	5.5	114	97	0	1148	40	15	16	28	1.89
349402--349540	74	1.9	73	86	4	199	35	15	15	34	1.88
349290--349685	186	2.1	186	86	2	537	37	14	17	31	1.89
349402--349573	74	2.3	74	83	3	195	36	15	15	32	1.89
349475--349847	112	3.4	108	82	5	413	37	14	17	29	1.90
349176--349797	298	2.1	301	86	3	884	37	14	17	30	1.90
350075--350124	3	17.0	3	82	12	50	40	0	0	60	0.97
350076--350124	18	2.8	18	82	11	66	40	0	0	59	0.98
350080--350119	15	2.7	15	92	7	64	42	0	0	57	0.98
352478--352556	6	14.3	6	72	19	66	51	1	0	46	1.08
352476--352585	16	7.0	16	72	17	88	49	0	1	48	1.18
352571--352755	31	5.8	30	73	20	135	50	3	4	41	1.40
352578--352624	24	1.9	25	82	4	60	55	4	2	38	1.31
352634--352695	14	4.4	14	74	11	54	43	1	8	46	1.42
352636--352726	43	2.2	40	88	7	128	46	3	6	43	1.46
352656--352748	29	3.0	29	70	19	78	48	3	5	43	1.42
352529--352791	131	2.0	133	81	8	315	48	3	4	43	1.41
352767--352819	21	2.5	21	87	0	79	47	5	7	39	1.56
352850--352984	57	2.4	55	85	6	175	41	8	7	42	1.62
352866--352957	20	4.8	20	70	22	63	42	7	6	43	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352850--352997	55	2.6	57	80	8	153	41	8	6	43	1.62
353038--353172	7	19.6	7	75	4	60	22	0	28	48	1.55
353039--353125	14	6.3	14	76	6	70	24	0	26	49	1.50
353039--353172	21	6.5	21	76	8	105	22	0	27	49	1.55
353073--353132	28	2.1	28	87	6	86	30	0	18	51	1.46
353248--353302	17	3.0	18	86	7	67	38	7	7	47	1.59
353528--353763	2	118.5	2	65	19	66	42	4	3	49	1.38
353468--353651	68	2.6	71	83	10	229	41	5	3	49	1.42
353537--353732	15	13.4	15	69	21	89	43	4	4	47	1.42
353553--353735	28	6.9	27	68	20	107	43	4	3	48	1.41
353468--353743	68	4.1	68	76	15	222	43	4	3	48	1.40
353537--353766	15	14.7	15	69	15	69	42	4	3	49	1.39
353668--353747	17	4.6	17	79	14	83	46	1	2	50	1.23
357117--357166	23	2.2	22	79	10	55	54	6	22	18	1.65
366189--366339	6	25.7	6	79	14	154	0	43	1	54	1.13
366186--366354	30	5.4	32	80	10	172	1	42	1	55	1.15
366330--366398	15	4.7	15	77	12	54	4	39	0	56	1.19
366186--366407	6	37.2	6	81	6	137	1	41	0	55	1.16
367641--367665	3	8.3	3	100	0	50	0	0	32	68	0.90
368264--368326	31	2.0	31	87	0	90	36	19	23	20	1.95
370972--371023	23	2.3	23	86	0	68	42	17	13	26	1.86
374374--374403	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)
375213--375384	60	2.9	60	83	3	195	37	13	13	34	1.85
381172--381215	23	2.0	22	86	4	61	25	40	20	13	1.89
383202--383241	21	1.9	21	89	0	62	52	7	10	30	1.62
385128--385162	18	1.9	18	100	0	70	28	25	22	22	1.99
385668--385835	82	2.0	82	96	0	309	33	14	16	35	1.88
387150--387210	23	2.7	22	87	7	86	19	34	21	24	1.96
387150--387230	23	3.6	23	83	5	76	22	33	20	23	1.97
398772--398925	43	3.6	43	76	3	148	25	17	20	37	1.94
408633--408708	23	3.3	23	86	1	107	23	15	22	38	1.93
413129--413272	34	3.9	34	70	18	108	36	9	25	29	1.88
413095--413540	79	5.7	79	89	1	662	35	10	23	31	1.88
417856--418072	34	5.7	34	68	21	119	36	10	22	29	1.88
417889--418118	45	5.6	44	64	21	140	35	10	23	30	1.89
417731--418199	79	5.9	79	89	0	668	36	11	21	30	1.88
420234--420264	3	10.7	3	93	6	55	0	35	0	64	0.94
421509--421561	23	2.2	24	90	3	81	20	15	26	37	1.92
423969--423999	14	2.2	14	94	0	53	58	16	6	19	1.59
425815--425931	10	9.8	12	72	25	70	58	20	11	8	1.59
425815--425929	24	4.8	25	87	3	125	59	20	12	8	1.59
425873--425899	13	2.1	13	100	0	54	62	7	7	22	1.46
425842--425929	23	3.8	23	84	4	115	59	19	11	10	1.60
425834--425937	23	4.5	22	82	7	100	59	21	10	8	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426194--426241	10	4.4	10	80	19	60	58	12	12	16	1.63
426193--426268	24	3.1	24	94	3	125	55	14	14	15	1.70
426204--426255	14	4.0	14	78	19	67	57	13	15	13	1.65
429387--429469	36	2.3	36	91	0	130	31	14	39	14	1.86
429538--429615	41	1.9	41	94	0	138	50	0	0	50	1.00
429542--429622	15	5.7	15	67	14	55	50	0	0	49	1.00
429730--429778	25	2.0	25	91	0	80	22	12	38	26	1.89
434178--434216	19	2.1	19	85	0	51	33	2	7	56	1.41
436704--437303	298	2.0	302	98	1	1172	31	17	17	33	1.93
440016--440185	60	2.8	59	76	9	150	33	24	4	37	1.75

Tables:   1   2   3