genome.fa.s9623.2.7.7.80.10.50.1000.3.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: VEPZ01009623.1 Hibiscus syriacus cultivar Beakdansim tig00117012_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3488723

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2083 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)
343084--343155	21	3.5	21	75	17	87	31	27	19	20	1.97
343170--343368	21	9.6	21	77	8	192	23	22	23	31	1.98
343151--343368	41	5.3	42	75	13	202	23	22	22	32	1.98
343130--343257	62	2.1	62	91	2	204	24	24	21	30	1.99
343170--343368	83	2.4	83	93	0	281	23	22	23	31	1.98
343144--343286	62	2.3	62	92	2	234	23	22	22	32	1.98
345918--345952	18	1.9	18	94	0	61	48	2	0	48	1.16
346277--346308	6	5.3	6	92	0	55	68	0	0	31	0.90
346360--346515	60	2.7	58	80	6	172	32	19	4	43	1.71
346682--346812	60	2.2	60	80	0	145	41	3	22	32	1.71
348629--348698	35	2.0	35	83	5	88	40	11	12	35	1.80
349840--349876	9	3.9	10	89	10	60	32	8	18	40	1.80
351794--351824	2	15.5	2	100	0	62	51	0	0	48	1.00
353133--353177	21	2.1	21	84	8	56	35	2	0	62	1.08
353133--353242	51	2.1	51	83	12	136	32	6	0	60	1.28
353133--353248	53	2.2	53	82	13	127	32	6	0	59	1.30
363828--363963	46	2.9	47	90	2	211	44	15	23	16	1.85
364757--365112	43	7.4	43	63	23	133	34	22	19	23	1.96
364746--365808	98	10.4	98	89	5	1442	34	23	18	23	1.96
365232--365808	106	5.4	106	95	0	1019	34	24	18	22	1.96
367627--367683	29	1.9	30	82	10	73	21	7	1	70	1.20
372775--373153	126	3.0	125	79	5	386	27	18	26	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373290--373418	68	2.0	67	86	7	185	38	11	17	32	1.85
373545--373608	33	1.9	33	87	0	92	34	14	18	32	1.91
373931--374085	34	4.6	34	92	0	247	35	9	20	34	1.85
373931--374103	68	2.5	68	86	7	244	36	8	19	35	1.83
375281--375425	7	19.1	7	70	19	71	4	17	2	75	1.09
375322--375389	31	2.2	31	84	10	86	4	19	0	76	0.95
375283--375427	15	10.1	14	73	19	79	4	18	2	74	1.10
376626--376655	8	3.9	8	95	4	53	53	13	20	13	1.72
376626--376655	15	1.9	15	93	6	51	53	13	20	13	1.72
378855--378907	23	2.3	22	75	15	54	56	0	3	39	1.17
389357--389406	22	2.3	22	92	0	82	18	42	22	18	1.90
389807--389860	20	2.7	19	80	8	63	18	12	22	46	1.83
391513--391562	21	2.4	21	89	0	82	20	14	32	34	1.92
391637--391695	21	2.8	21	92	0	91	23	16	25	33	1.96
391995--392112	21	5.7	21	85	5	150	22	35	18	23	1.96
391995--392112	41	2.8	41	89	2	164	22	35	18	23	1.96
393581--393641	20	3.0	20	92	0	104	40	24	18	16	1.90
393654--393703	20	2.5	20	73	0	55	30	24	26	20	1.98
393843--393893	20	2.5	20	93	0	84	33	23	15	27	1.95
393818--393893	40	1.9	40	86	5	109	31	22	17	28	1.96
394183--394217	12	2.9	12	86	0	52	17	5	28	48	1.69
396283--396308	12	2.2	12	100	0	52	0	26	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396495--396560	24	2.8	24	100	0	132	36	19	22	21	1.95
396684--396717	12	2.8	12	90	0	50	14	0	29	55	1.40
397491--397597	20	5.5	19	70	15	67	38	11	21	28	1.88
397521--397636	20	5.8	20	71	4	90	37	12	23	27	1.90
397520--397598	40	2.0	40	89	0	122	37	11	21	29	1.88
397516--397714	20	10.1	19	69	12	71	35	12	23	29	1.91
397734--397778	20	2.1	21	84	8	56	33	11	22	33	1.89
397740--397778	20	1.9	20	89	5	60	33	10	25	30	1.89
399271--399345	31	2.4	31	90	0	114	52	17	12	18	1.75
399919--399954	15	2.4	15	90	0	54	52	2	0	44	1.15
404400--404569	90	1.9	90	90	0	268	34	21	17	27	1.96
413335--413420	3	28.0	3	88	6	120	30	2	0	67	1.03
414654--414747	40	2.3	41	80	7	102	29	2	3	64	1.20
414637--414739	46	2.2	46	79	16	106	28	2	2	66	1.21
415005--415034	15	2.0	15	93	0	51	30	0	0	70	0.88
415654--415695	13	3.1	13	83	12	57	21	0	0	78	0.75
416500--416569	36	1.9	36	88	0	104	41	18	11	28	1.85
417035--417121	43	2.0	44	84	2	113	31	10	22	35	1.88
417295--417326	15	2.2	14	94	5	55	12	12	12	62	1.55
417295--417326	7	4.4	7	92	7	55	12	12	12	62	1.55
420577--420613	8	4.6	8	86	0	56	72	0	27	0	0.84
424775--425146	54	6.9	54	85	3	475	38	13	20	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424773--425146	162	2.3	161	91	0	595	38	13	21	26	1.91
425907--426460	112	4.9	111	83	8	610	37	15	21	25	1.93
426798--426858	3	20.0	3	83	12	72	31	1	0	67	1.01
426793--426853	31	2.0	31	93	6	106	29	1	0	68	0.99
428247--428327	41	2.0	41	80	9	94	28	3	6	61	1.37
433209--433262	22	2.5	22	93	0	90	40	24	14	20	1.90
450930--450986	29	2.0	29	100	0	114	45	14	15	24	1.83
456461--456860	200	2.0	197	98	1	773	29	22	18	30	1.97
459252--459289	18	2.2	18	85	4	51	60	15	0	23	1.35
460994--461025	17	1.9	16	93	6	55	75	0	3	21	0.95
460996--461053	14	4.2	15	68	18	54	70	0	8	20	1.13
461368--461407	16	2.5	16	91	0	71	30	17	12	40	1.86
464405--464471	18	4.0	17	85	14	95	29	22	17	29	1.97
464405--464461	15	3.5	15	84	15	78	29	21	19	29	1.97
464405--464471	33	2.0	34	94	2	118	29	22	17	29	1.97
464845--464980	68	2.0	68	100	0	272	19	17	25	38	1.93
466316--466350	17	2.0	18	88	5	54	77	0	0	22	0.78
466884--466913	12	2.5	12	88	0	51	66	0	26	6	1.16
467011--467132	64	1.9	63	88	5	183	54	13	0	31	1.44
467113--467174	32	1.9	32	84	12	83	62	11	0	25	1.28
468624--468653	12	2.5	12	88	0	51	66	0	26	6	1.16
468750--468871	64	1.9	63	86	8	176	54	13	0	31	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468852--468913	32	1.9	32	84	12	83	62	11	0	25	1.28
469078--469136	5	12.0	5	81	13	52	83	0	3	13	0.78
469096--469128	8	4.2	8	96	3	59	90	0	0	9	0.44
469081--469133	13	4.0	13	80	9	54	84	0	3	11	0.73
469099--469138	13	3.1	13	85	0	53	85	0	0	15	0.61
469098--469138	21	2.1	19	86	9	55	85	0	0	14	0.60
471240--471314	35	2.1	35	87	0	114	42	1	14	41	1.54
471846--471886	19	2.2	19	86	0	55	36	2	4	56	1.34
474819--474852	3	11.3	3	87	12	52	70	0	0	29	0.87
474817--474852	19	1.9	18	94	5	63	69	0	0	30	0.89
474818--474852	16	2.3	15	86	13	54	71	0	0	28	0.86
476707--477592	106	8.5	106	88	4	1264	23	17	24	34	1.96
477384--477577	94	2.1	94	94	1	336	23	17	25	34	1.96
477626--477693	35	1.9	35	87	0	100	26	17	25	30	1.97
481778--481811	16	2.1	16	94	0	59	55	5	8	29	1.54
482968--483029	2	31.0	2	100	0	124	50	0	0	50	1.00
484823--484863	12	3.4	12	96	0	73	58	9	0	31	1.31
484824--484882	18	3.2	18	85	4	64	54	8	5	32	1.53
484824--484863	6	6.7	6	88	0	62	57	10	0	32	1.32
486546--486591	22	2.1	22	100	0	92	26	10	26	36	1.89
487353--487519	24	7.4	23	73	16	143	46	4	1	47	1.29
487352--487519	45	3.8	45	80	7	200	47	4	1	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487352--487499	22	6.7	22	72	15	126	46	3	1	48	1.27
491063--491115	19	2.8	19	97	0	97	35	5	20	37	1.77
491497--491548	22	2.4	22	100	0	104	9	17	17	55	1.67
492175--492459	142	2.0	142	94	0	498	28	18	22	30	1.97
494003--494120	41	2.8	43	76	10	127	32	16	21	29	1.95
494012--494141	42	3.1	40	78	11	129	32	20	20	27	1.97
494127--494263	41	3.3	41	83	2	175	35	16	18	30	1.92
494320--494621	137	2.2	133	81	6	340	30	16	16	35	1.92
494591--494736	41	3.6	40	73	18	115	25	17	17	40	1.90
494616--494695	38	2.1	39	88	2	117	23	18	16	41	1.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18