genome.fa.s2844.2.7.7.80.10.50.1000.2.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: VEPZ01002844.1 Hibiscus syriacus cultivar Beakdansim tig00005856_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1090609

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 551 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)
265166--265577	54	7.5	54	68	20	264	34	0	12	53	1.38
265774--265822	20	2.5	20	96	0	89	18	28	34	18	1.94
266482--266538	28	2.0	28	96	0	105	40	8	7	43	1.63
266489--266560	28	2.5	28	81	4	72	50	6	8	34	1.60
266982--267046	2	32.5	2	100	0	130	50	0	0	49	1.00
270513--270743	102	2.3	102	82	7	258	38	11	17	32	1.86
270577--270679	36	2.8	36	82	4	107	39	11	15	33	1.84
270638--270802	66	2.5	67	78	11	178	41	13	16	29	1.86
270655--270802	64	2.2	65	81	9	167	41	12	16	29	1.85
274306--274495	32	5.9	32	86	0	263	28	17	19	34	1.95
274306--274495	96	2.0	96	89	0	290	28	17	19	34	1.95
276334--276389	24	2.4	24	87	3	78	44	0	8	46	1.34
276354--276703	38	9.3	38	84	8	432	42	1	7	48	1.41
276393--276703	112	2.7	111	86	6	410	43	1	7	48	1.40
276703--276759	4	14.0	4	85	10	80	24	3	0	71	1.01
276698--276763	29	2.2	29	92	7	107	24	3	0	72	0.98
276699--276763	8	7.2	9	80	16	64	24	3	0	72	0.99
278027--278161	22	6.3	21	71	23	77	20	2	2	74	1.05
278052--278093	21	2.1	19	91	8	66	21	4	0	73	1.01
278013--278143	12	11.5	12	69	18	50	17	3	2	76	1.04
281324--281939	6	102.5	6	94	2	691	43	32	6	17	1.74
281972--282116	6	24.2	6	93	0	245	35	31	16	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
284065--284118	2	27.0	2	100	0	108	50	0	0	50	1.00
289351--289405	3	18.3	3	100	0	110	32	0	0	67	0.91
291968--291997	2	15.0	2	100	0	60	50	0	50	0	1.00
298149--298188	2	19.0	2	90	10	62	47	5	0	47	1.24
305284--305330	20	2.3	21	79	17	55	44	4	2	48	1.34
305360--305384	2	12.5	2	100	0	50	52	0	0	48	1.00
305364--305465	42	2.5	40	80	10	125	50	7	1	39	1.42
310506--310561	19	2.9	18	80	17	60	48	3	0	48	1.19
310512--310561	20	2.5	20	77	9	57	54	4	0	42	1.19
322271--322425	43	3.6	43	86	0	202	23	16	24	36	1.94
322525--322642	44	2.7	44	81	3	132	31	16	21	30	1.96
322960--323064	21	5.0	21	84	2	104	3	36	15	44	1.64
328258--328301	18	2.4	18	96	0	79	20	29	15	34	1.94
332204--332316	42	2.7	41	75	10	113	30	21	19	29	1.97
332245--332546	42	7.3	42	68	9	190	29	24	14	31	1.95
332260--332544	41	6.9	41	69	11	172	29	25	14	30	1.94
332204--332544	83	4.1	83	88	0	468	29	24	15	30	1.95
332575--332668	42	2.3	42	84	1	118	27	17	25	29	1.97
332591--332670	42	1.9	42	89	0	124	28	17	26	27	1.98
333641--333682	22	1.9	22	95	0	75	28	11	7	52	1.64
334209--334261	6	9.0	6	88	12	83	83	0	0	16	0.66
334212--334259	22	2.1	23	96	3	89	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334195--334261	29	2.3	29	89	5	100	79	0	1	19	0.82
335887--337575	106	16.0	106	94	1	2883	22	18	25	33	1.97
341728--341887	6	26.7	6	74	8	67	71	0	5	22	1.09
341762--341805	3	15.0	3	95	4	81	65	0	0	34	0.93
341842--341889	13	3.8	13	88	5	71	83	0	4	12	0.79
343210--343252	22	2.0	22	85	0	59	67	2	2	27	1.15
343605--343730	42	3.0	40	72	6	108	28	23	15	32	1.95
347481--347537	24	2.4	24	96	0	105	28	8	50	12	1.69
347578--347622	18	2.4	19	85	14	67	55	0	6	37	1.26
349640--350000	186	2.0	184	91	2	580	46	9	3	41	1.52
362242--362280	4	9.8	4	94	0	69	25	2	0	71	0.98
363019--363073	3	18.0	3	82	17	69	32	0	0	67	0.91
363018--363069	13	4.1	13	85	11	72	30	0	0	69	0.89
363019--363073	16	3.6	16	92	4	87	32	0	0	67	0.91
371928--372150	114	2.0	113	92	0	374	34	15	20	30	1.93
373209--373384	76	2.3	75	82	4	210	29	14	22	33	1.93
375480--375666	37	5.1	36	71	3	167	29	17	13	39	1.88
375471--375637	36	4.6	37	72	3	149	30	18	13	37	1.90
375471--375679	73	2.8	73	95	0	373	30	16	13	39	1.88
375849--376142	76	3.9	76	94	0	516	24	18	22	35	1.96
376144--377134	113	8.8	113	94	0	1684	38	15	19	27	1.91
376144--377134	225	4.4	226	94	1	1684	38	15	19	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376144--377134	338	2.9	338	95	0	1725	38	15	19	27	1.91
377075--377172	40	2.5	40	96	0	178	50	9	22	18	1.75
376961--377287	153	2.1	153	92	0	537	41	13	19	25	1.88
376730--377412	380	1.8	378	91	1	1134	38	14	19	27	1.90
377110--377658	123	4.7	112	86	6	506	38	14	20	26	1.91
377340--377868	123	4.3	123	92	2	843	40	15	19	24	1.90
376623--377549	492	1.9	488	86	6	1237	38	14	19	27	1.91
378101--378158	3	19.0	3	80	16	66	34	0	0	65	0.93
378101--378158	19	3.2	18	81	13	66	34	0	0	65	0.93
378101--378158	28	2.1	27	90	9	91	34	0	0	65	0.93
380993--381028	19	1.9	18	94	5	63	25	8	5	61	1.46
385024--385282	87	3.0	87	91	0	410	43	11	12	32	1.78
385139--385186	23	2.1	23	88	0	69	39	10	16	33	1.83
385229--385273	23	2.0	23	81	0	54	42	11	15	31	1.82
385510--385872	113	3.2	113	93	1	606	44	12	11	32	1.77
393330--393374	22	2.0	23	82	4	56	62	20	8	8	1.51
404338--404390	18	2.9	18	91	0	79	24	18	28	28	1.98
405982--406033	15	3.5	15	94	0	77	9	65	15	9	1.47
408106--408179	34	2.1	36	82	12	91	48	1	2	47	1.24
410821--410865	18	2.5	18	88	0	72	26	17	28	26	1.98
411410--411441	16	1.9	17	93	6	57	50	3	12	34	1.56
416458--416562	45	2.3	46	83	8	135	33	20	15	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418566--418605	21	1.9	21	89	0	62	55	7	7	30	1.56
424773--424812	19	2.0	20	85	9	55	37	0	37	25	1.56
430204--430246	21	2.0	22	86	4	61	16	2	9	72	1.21
430654--430691	19	2.0	19	94	0	67	42	7	10	39	1.69
432651--433295	36	18.1	35	75	8	421	37	15	13	33	1.86
432677--433295	72	8.7	72	75	7	485	37	15	13	33	1.87
432749--433294	144	3.8	142	81	4	588	37	14	13	34	1.85
435420--435511	32	2.9	32	85	0	121	36	15	17	30	1.91
436709--436939	39	5.9	38	80	7	175	32	25	8	32	1.86
436735--436918	20	9.4	20	81	5	155	32	26	9	32	1.88
436712--436945	19	12.1	19	79	9	156	32	25	8	32	1.87
436835--436939	20	5.3	20	89	1	113	33	24	7	34	1.84
440744--440872	53	2.4	52	80	5	152	50	11	13	24	1.74
444797--445348	156	3.5	156	78	10	497	29	16	6	46	1.72
446624--446653	2	14.5	2	93	6	51	46	3	0	50	1.18
447800--447841	21	2.0	21	85	4	57	30	16	33	19	1.94
447828--448003	95	1.9	95	86	2	255	33	14	24	27	1.94
447830--448029	95	2.1	95	82	5	235	33	14	24	28	1.94
448373--448523	59	2.6	58	89	4	225	32	13	19	35	1.90
448892--449215	68	4.8	68	89	0	459	33	14	23	29	1.94
449185--449459	81	3.4	81	91	0	417	37	12	24	25	1.91
450018--450581	283	2.0	283	99	0	1119	31	12	19	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451779--451830	15	3.5	15	89	0	77	9	15	65	9	1.47
462949--463015	31	2.2	30	91	2	107	52	8	7	31	1.61
463998--464141	3	48.0	3	100	0	288	33	0	0	66	0.92
464619--464773	20	7.7	20	82	6	125	32	24	18	24	1.97
464616--464732	61	1.9	61	83	0	153	34	23	18	23	1.96
464639--464773	41	3.3	40	76	6	137	32	25	17	24	1.97
464941--464984	22	2.0	22	95	0	79	20	45	15	18	1.85
465250--465298	20	2.5	20	86	0	62	20	16	26	36	1.93
465445--465499	25	2.2	24	78	15	58	20	9	18	52	1.71
466632--466672	18	2.3	18	86	0	64	26	46	12	14	1.80

Tables:   1   2   3   4   5