genome.fa.s6550.2.7.7.80.10.50.1000.5.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: VEPZ01006550.1 Hibiscus syriacus cultivar Beakdansim tig00016004_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1576944

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 954 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)
760415--760489	3	24.3	3	76	10	71	37	0	2	60	1.11
761186--761240	28	2.0	29	82	13	71	70	5	16	7	1.28
772304--772335	16	2.0	16	93	0	55	15	12	28	43	1.83
774071--774177	36	3.0	36	88	2	162	30	21	23	24	1.99
774452--774497	2	23.5	2	95	4	85	52	0	0	47	1.00
775033--775079	20	2.3	20	85	0	58	17	21	27	34	1.95
781897--782061	85	1.9	85	80	4	190	32	20	16	30	1.94
782061--782105	2	23.0	2	86	4	65	44	0	0	55	0.99
805263--805455	45	4.3	45	87	2	237	40	11	19	28	1.86
805415--805632	47	4.6	47	83	2	240	46	12	19	21	1.83
805425--805632	94	2.2	95	85	0	265	47	12	20	20	1.82
809967--810036	20	3.5	19	88	7	95	34	11	34	20	1.88
810526--810660	45	3.0	45	90	0	216	37	11	22	28	1.88
810649--810821	47	3.7	46	82	3	186	46	10	18	23	1.81
810649--810821	94	1.8	94	81	4	215	46	10	18	23	1.81
817000--817052	14	3.7	14	84	2	61	24	16	28	30	1.97
817671--817702	2	16.0	2	100	0	64	50	0	0	50	1.00
820837--820891	30	1.9	27	89	10	83	38	12	1	47	1.52
820779--820882	53	2.0	51	86	3	145	34	11	7	46	1.69
820791--820891	28	3.7	28	70	17	86	37	8	4	48	1.56
829859--829900	22	1.9	23	85	9	61	42	19	19	19	1.89
836613--836715	5	20.6	5	69	20	56	75	0	20	2	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
836625--836723	7	13.7	7	71	17	51	73	1	22	3	1.03
836611--836718	42	2.7	38	80	17	121	75	0	21	2	0.99
836614--836718	38	2.7	38	78	12	117	75	0	20	2	0.99
836613--836713	24	4.2	24	71	14	84	75	0	20	2	1.00
836618--836707	47	1.9	47	84	8	121	74	1	21	3	1.03
839966--840013	20	2.4	20	89	0	69	31	25	20	22	1.98
840498--841073	134	4.3	134	80	3	622	32	20	15	30	1.94
841269--841305	7	5.4	7	87	6	58	2	10	0	86	0.67
841263--841313	13	3.7	13	86	7	66	9	7	0	82	0.85
849238--849272	3	11.0	3	88	11	52	62	0	0	37	0.95
849499--849790	51	5.6	51	86	6	372	29	27	14	29	1.95
849779--849962	54	3.4	54	90	3	271	23	26	18	30	1.98
851107--851170	27	2.3	26	82	10	67	3	12	1	82	0.85
851110--851172	9	6.8	9	78	5	54	3	12	1	82	0.86
863442--863479	3	12.0	3	89	10	58	63	0	0	36	0.95
865055--865143	23	3.8	24	78	11	96	15	16	28	39	1.90
865054--865143	46	2.0	46	82	12	114	15	17	27	38	1.90
865134--865192	24	2.5	23	80	2	73	20	23	23	32	1.98
868104--868168	3	21.7	3	90	6	105	36	0	0	63	0.95
868477--868785	145	2.1	145	87	1	449	30	24	24	20	1.99
868477--869005	145	3.6	145	80	4	413	30	22	24	21	1.99
869558--869601	2	22.0	2	100	0	88	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)
876574--876684	43	2.6	43	82	0	132	28	32	17	21	1.96
876908--877032	43	2.9	43	84	0	160	30	28	19	21	1.97
876459--877621	335	3.5	335	91	1	1819	33	24	18	23	1.97
877244--877352	43	2.5	43	83	0	137	31	29	17	22	1.96
877710--877852	36	4.0	36	86	2	198	27	17	12	41	1.86
877710--877852	71	2.0	73	88	2	218	27	17	12	41	1.86
878178--878236	3	18.7	3	79	10	55	42	1	0	55	1.09
878178--878236	22	2.7	22	86	0	82	42	1	0	55	1.09
878178--878236	25	2.3	25	80	13	75	42	1	0	55	1.09
879599--879640	2	22.0	2	90	9	70	50	0	0	50	1.00
882553--882808	45	5.7	45	88	2	327	28	20	10	39	1.86
882553--882887	90	3.8	91	82	8	315	29	21	10	38	1.87
882746--882896	79	1.9	79	93	0	257	29	24	9	35	1.88
887257--887474	45	4.8	45	87	0	301	29	20	9	40	1.83
887257--887511	90	2.8	90	82	1	323	29	21	9	39	1.85
887245--887511	135	2.0	134	83	2	338	30	21	9	38	1.85
887454--887599	79	1.8	79	91	2	240	29	24	8	36	1.86
888071--888143	19	3.5	20	83	10	94	30	24	13	31	1.94
890593--890661	23	3.0	22	79	8	75	14	20	27	37	1.91
890645--890712	24	2.9	23	78	8	75	22	19	22	36	1.95
891336--891509	25	7.3	23	68	14	77	74	0	21	4	0.98
891351--891518	20	8.3	19	74	21	105	75	0	21	2	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
891360--891518	12	13.4	11	72	22	78	76	0	20	3	0.93
891357--891518	13	12.5	13	73	18	92	75	0	20	3	0.93
891392--891517	4	32.5	4	75	19	108	76	0	21	2	0.90
897356--897833	134	3.6	134	81	2	566	31	22	16	29	1.96
898013--898065	6	8.7	6	89	4	70	20	3	0	75	0.96
901276--901343	31	2.2	31	91	0	109	23	27	13	35	1.92
903252--903344	31	3.0	31	90	0	132	36	11	23	27	1.90
909379--909404	2	13.0	2	100	0	52	50	0	0	50	1.00
911877--911925	23	2.1	23	85	7	64	18	26	24	30	1.98
916248--916370	23	5.3	22	78	15	99	20	20	21	37	1.95
916248--916335	46	1.9	46	84	9	117	18	21	23	36	1.95
917105--917144	21	1.9	21	85	10	55	67	0	25	7	1.16
925212--925297	31	2.8	32	75	12	97	33	30	23	12	1.92
925209--925316	31	3.5	31	72	11	85	34	31	23	11	1.90
927336--927380	23	1.9	24	86	4	65	26	17	26	28	1.98
927372--927413	13	3.2	13	80	6	57	26	19	28	26	1.98
929621--929728	31	3.5	31	76	1	99	30	27	25	15	1.96
932792--933186	199	2.0	199	91	2	650	24	13	7	54	1.65
938632--938676	23	2.0	22	83	12	56	31	0	4	64	1.13
938646--938684	18	2.2	18	95	4	71	33	0	2	64	1.08
941022--941106	35	2.5	33	78	14	91	27	5	10	56	1.56
942104--942188	10	8.8	9	76	14	62	16	27	27	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
942104--942162	20	2.9	21	85	7	86	18	27	23	30	1.98
942105--942169	30	2.2	29	86	13	89	16	27	26	29	1.97
942125--942194	19	3.7	19	83	14	83	14	30	28	27	1.95
942155--942194	9	4.3	9	84	6	53	12	30	30	27	1.93
942191--942248	5	10.8	5	78	14	62	18	51	22	6	1.70
942191--942255	22	3.0	22	100	0	130	18	49	23	9	1.76
942245--942282	7	5.4	7	100	0	76	15	28	28	26	1.96
949444--949542	10	10.3	9	79	12	90	15	28	27	29	1.96
949445--949542	19	5.1	19	79	16	87	14	28	27	29	1.95
949443--949517	29	2.5	30	89	8	118	17	26	26	29	1.97
949444--949542	29	3.4	28	84	8	101	15	28	27	29	1.96
949539--949596	5	10.8	5	78	14	62	18	51	22	6	1.70
949539--949603	22	3.0	22	100	0	130	18	49	23	9	1.76
949593--949623	7	4.4	7	100	0	62	16	29	29	25	1.96
953794--953824	12	2.6	12	100	0	62	25	32	6	35	1.82
954947--955004	20	2.9	20	78	0	62	44	1	0	53	1.10
954924--955016	40	2.3	41	78	9	100	41	1	0	56	1.06
959259--959355	39	2.4	40	78	11	110	28	11	13	46	1.78
959279--959357	39	2.1	39	88	4	117	30	10	11	48	1.72
959374--959462	39	2.3	39	86	1	117	43	4	7	43	1.53
961361--961455	21	4.6	21	67	8	52	32	27	17	22	1.96
961443--961757	20	15.6	20	75	9	228	38	24	17	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
961443--961754	40	7.8	40	82	4	351	38	24	17	19	1.93
961443--961754	121	2.6	121	82	6	303	38	24	17	19	1.93
961503--961754	40	6.2	41	88	0	357	38	24	17	20	1.93
961462--961754	161	1.8	161	85	5	414	38	24	17	20	1.93
962314--962391	20	3.9	21	81	9	92	51	19	17	11	1.76
962314--962402	40	2.2	40	78	7	101	50	21	16	11	1.76
962415--962473	19	3.4	18	73	22	63	11	18	22	47	1.81
962431--962486	14	3.6	14	76	21	58	8	23	23	44	1.81
962415--962535	33	3.5	33	83	8	143	12	22	20	44	1.85
962471--962526	20	2.8	20	84	10	87	14	25	21	39	1.91

Tables:   1   2   3   4   5   6   7   8