genome.fa.s9140.2.7.7.80.10.50.1000.2.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: VEPZ01009140.1 Hibiscus syriacus cultivar Beakdansim tig00112647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  511116

Tables:   1   2   3   

This is table  2  of  3  ( 292 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)
209870--209997	36	3.5	37	77	10	104	21	0	28	49	1.55
209868--209980	43	2.6	43	82	8	133	21	0	28	50	1.49
224322--224363	21	2.0	20	86	4	57	40	7	14	38	1.73
224344--224425	34	2.4	34	100	0	164	36	10	19	32	1.87
230343--230383	19	2.2	19	100	0	82	43	14	26	14	1.84
232481--232528	3	16.3	3	87	12	73	62	0	0	37	0.95
232468--232528	22	2.8	22	87	9	81	59	1	0	39	1.08
232483--232528	19	2.4	20	92	7	78	63	0	0	36	0.95
239168--239209	14	3.1	13	83	16	50	52	9	2	35	1.47
242013--242102	3	30.3	3	93	6	157	65	0	0	34	0.93
245661--245704	23	1.9	23	90	0	70	11	6	29	52	1.63
246342--246384	21	2.0	22	90	4	70	23	16	18	41	1.89
247090--247192	52	2.0	52	98	0	197	41	13	23	21	1.88
251684--251786	52	2.0	52	98	0	197	41	13	23	21	1.88
251953--252105	77	2.0	80	90	3	249	48	2	5	43	1.39
254941--255020	42	1.9	42	97	0	151	45	3	5	46	1.43
261024--261074	23	2.3	22	84	15	70	25	23	25	25	2.00
266047--266077	7	4.6	7	96	4	55	61	12	0	25	1.32
266054--266119	20	3.2	20	77	14	55	62	9	0	28	1.26
266803--266853	27	1.9	26	84	4	66	33	0	3	62	1.13
266914--266950	16	2.3	17	90	9	60	32	0	5	62	1.18
277216--277247	16	1.9	17	93	6	57	31	31	0	37	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279565--279590	12	2.2	12	100	0	52	0	38	34	26	1.57
281213--281270	20	2.8	22	76	10	68	12	24	37	25	1.90
285054--285093	21	1.9	21	85	10	55	35	10	2	52	1.48
288526--288576	25	2.0	25	84	3	66	62	3	21	11	1.45
288780--288813	16	2.1	17	94	5	61	32	29	0	38	1.58
290969--291009	15	2.6	16	82	17	59	29	7	4	58	1.46
306696--306745	21	2.3	22	80	13	59	64	0	0	36	0.94
308616--309387	396	1.9	394	87	9	1138	32	9	24	33	1.87
313183--313240	21	2.8	21	86	0	80	22	20	27	29	1.99
318759--318816	24	2.4	24	97	0	107	44	27	18	8	1.79
325745--325776	2	16.5	2	93	6	57	50	0	0	50	1.00
326991--327032	17	2.5	17	77	11	50	30	7	2	59	1.37
327089--327162	18	4.2	17	80	13	69	17	5	0	77	0.96
327244--327293	6	8.2	6	77	18	50	18	4	0	78	0.91
327244--327293	22	2.3	20	86	10	64	18	4	0	78	0.91
327322--327369	24	2.0	24	83	4	60	12	10	2	75	1.14
337387--337870	41	11.6	41	82	4	400	28	19	18	34	1.95
337427--337829	84	4.9	84	84	3	336	28	19	17	34	1.94
337404--337870	82	5.6	82	82	4	483	28	19	17	33	1.95
337387--337829	125	3.6	122	82	5	528	29	18	18	33	1.95
339339--339397	23	2.6	23	97	2	111	33	30	6	28	1.83
341735--341986	130	1.9	130	82	3	310	23	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341709--342029	173	1.9	172	84	4	441	24	20	20	33	1.97
341709--342029	43	7.5	42	82	4	320	24	20	20	33	1.97
341709--342062	86	4.1	84	80	6	361	24	20	20	34	1.96
349906--350025	42	2.9	42	88	0	177	16	15	17	50	1.78
350226--350268	19	2.3	18	76	11	50	41	0	0	58	0.98
350214--350300	21	4.2	20	74	10	68	49	0	0	50	1.00
350206--350300	29	3.1	32	76	16	101	49	0	0	50	1.00
350266--350311	18	2.6	19	83	10	53	54	0	2	43	1.12
350237--350330	27	3.5	26	70	26	81	47	0	1	51	1.07
350285--350382	28	3.5	28	78	14	89	45	1	2	51	1.19
350706--350745	20	2.0	20	85	0	53	30	17	12	40	1.86
350719--350800	30	2.8	29	90	1	119	35	19	8	36	1.82
350729--350800	15	4.9	15	87	1	110	37	20	6	34	1.80
352582--352649	23	3.0	23	84	0	91	10	19	17	52	1.72
355325--355377	26	2.0	26	82	13	65	43	0	7	49	1.31
356333--356419	29	3.0	29	89	0	129	43	13	4	37	1.65
358384--358446	18	3.3	19	74	12	74	52	1	3	42	1.27
358405--358447	21	2.0	21	86	0	59	53	2	2	41	1.26
358451--358650	22	9.2	22	76	16	147	37	9	1	53	1.40
358445--358599	36	4.3	36	85	11	219	36	8	1	54	1.39
358440--358592	73	2.1	76	83	13	212	36	7	1	54	1.38
358443--358650	109	1.8	113	88	9	325	37	9	0	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358445--358587	14	10.5	13	75	20	91	35	8	1	54	1.39
359253--359299	24	2.0	24	87	8	69	55	2	8	34	1.42
358662--359673	516	2.0	505	90	4	1577	48	5	12	32	1.65
359725--359786	27	2.3	27	83	5	81	54	1	11	32	1.45
359751--359917	29	6.0	29	70	19	106	52	1	6	39	1.38
359830--359913	2	42.0	2	77	17	86	51	0	4	44	1.22
359779--360062	81	3.5	79	77	17	273	50	2	7	39	1.44
360011--360099	2	46.5	2	67	24	50	51	2	4	41	1.34
359940--360099	38	4.1	38	82	10	189	51	2	6	40	1.41
360447--360486	18	2.2	18	95	0	71	35	30	17	17	1.93
360465--360597	65	2.1	64	85	7	180	31	24	13	30	1.93
363335--363372	20	1.9	20	94	0	67	18	15	34	31	1.92
369988--370027	21	1.9	21	89	0	62	37	7	2	52	1.43
372013--372101	45	2.0	46	86	2	126	29	17	24	28	1.98
372121--372158	20	1.9	20	94	0	67	18	15	34	31	1.92
376158--376340	7	26.0	7	68	21	57	34	8	3	53	1.48
376150--376228	41	1.9	41	94	0	140	36	7	3	51	1.48
376197--376253	28	2.0	28	83	12	73	31	8	5	54	1.53
376219--376358	22	6.6	20	68	18	70	35	9	2	52	1.48
376184--376314	35	3.7	34	73	15	81	35	7	3	54	1.45
376260--376358	44	2.3	43	81	13	107	36	9	2	52	1.45
376354--376411	2	30.0	2	80	13	68	51	0	1	46	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376184--376421	106	2.3	107	80	10	269	38	7	2	51	1.45
378023--378664	2	322.0	2	61	22	99	44	5	3	46	1.44
378015--378277	32	8.8	29	70	17	139	42	5	1	49	1.37
378034--378234	30	6.9	29	74	16	141	41	5	1	50	1.36
378225--378277	17	2.9	17	83	8	52	50	3	1	43	1.30
378303--378664	20	18.9	19	68	19	150	45	4	4	45	1.46
378403--378500	35	2.8	33	82	11	101	47	3	3	45	1.33
378405--378552	63	2.3	67	85	5	196	46	4	4	45	1.41
378454--378573	63	1.9	63	83	6	154	47	4	4	44	1.41
378405--378593	33	5.8	32	70	14	102	46	4	4	45	1.42
378403--378664	11	23.5	11	66	17	78	46	4	3	46	1.39
379062--379089	2	14.0	2	100	0	56	50	0	0	50	1.00
379601--379802	96	2.1	96	99	0	395	23	28	18	29	1.98
379598--379854	96	2.7	92	87	8	241	25	28	17	28	1.98
380174--380212	3	13.0	3	100	0	78	66	0	0	33	0.92
382273--382324	14	3.7	14	75	10	52	46	19	15	19	1.85
390993--391050	23	2.5	23	85	2	71	41	17	15	25	1.89
391001--391050	23	2.2	23	92	0	82	42	14	18	26	1.87
392172--392199	14	2.0	14	100	0	56	64	14	0	21	1.29
393997--394036	20	2.0	21	90	5	64	45	12	17	25	1.83
398352--398397	24	1.9	24	86	0	65	13	13	13	60	1.59
398608--398653	3	15.7	3	90	4	76	32	2	0	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399038--399066	14	2.1	14	93	6	51	86	0	13	0	0.58
399883--399954	23	3.3	23	75	18	89	27	4	2	65	1.25
399858--399947	43	2.1	41	83	10	108	26	6	3	63	1.35
399895--399959	11	6.0	11	72	16	55	27	3	1	67	1.14
399896--399962	20	3.2	20	73	19	64	26	2	1	68	1.12
399900--399948	19	2.5	20	84	12	59	26	4	2	67	1.19
399971--400021	2	25.5	2	100	0	102	49	0	0	50	1.00
400403--400444	23	1.9	21	85	9	57	47	4	0	47	1.23
409791--410173	73	5.2	73	94	0	651	27	21	20	30	1.98
410324--410364	3	13.7	3	84	0	55	34	7	0	58	1.26

Tables:   1   2   3