genome.fa.s8747.2.7.7.80.10.50.1000.32.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  32  of  51  ( 6054 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)
8204953--8205012	17	3.4	16	78	19	50	25	3	0	71	1.01
8204941--8205012	13	5.9	12	75	16	53	25	4	0	70	1.04
8204957--8205013	27	2.0	30	80	16	68	24	3	0	71	1.01
8206304--8206328	11	2.3	11	100	0	50	0	8	0	92	0.40
8206365--8206414	10	5.3	10	74	13	52	10	12	0	78	0.98
8209688--8209713	2	13.0	2	100	0	52	0	50	0	50	1.00
8209665--8209762	49	2.0	49	97	0	187	15	44	4	35	1.65
8209737--8209769	2	16.5	2	93	0	57	0	48	0	51	1.00
8211484--8211600	60	2.0	60	84	3	155	27	20	23	29	1.99
8213120--8213203	39	2.2	39	82	0	96	36	16	28	17	1.92
8216727--8216763	15	2.5	15	90	0	56	16	29	21	32	1.95
8216994--8217082	39	2.3	39	82	3	99	37	22	22	17	1.94
8220117--8220186	16	4.2	16	74	13	54	32	2	0	64	1.08
8220117--8220186	34	2.1	34	87	10	101	32	2	0	64	1.08
8220143--8220191	17	3.0	17	74	20	50	34	2	0	63	1.06
8220270--8220314	21	2.1	21	83	0	54	35	6	13	44	1.70
8221391--8221443	22	2.4	22	90	0	79	30	13	41	15	1.85
8222716--8222771	22	2.5	22	100	0	112	51	19	5	23	1.67
8222946--8222980	15	2.3	15	90	0	52	65	2	8	22	1.34
8224161--8224190	14	2.1	14	100	0	60	33	13	30	23	1.93
8228592--8228641	3	16.0	3	80	15	57	62	2	0	36	1.07
8229240--8229299	31	1.9	32	86	10	88	38	13	18	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8229240--8229309	31	2.3	31	83	14	83	32	12	18	35	1.89
8229340--8229396	30	1.9	30	85	7	80	38	14	21	26	1.91
8229633--8229701	35	2.0	35	88	11	106	34	13	13	39	1.83
8230018--8230059	16	2.6	16	92	0	66	19	0	26	54	1.44
8232757--8232810	16	3.4	16	75	14	58	66	7	3	22	1.33
8233944--8233969	5	5.2	5	100	0	52	80	0	0	19	0.71
8233973--8234035	27	2.3	27	74	15	67	57	11	9	22	1.62
8236396--8236458	15	4.2	15	87	4	83	30	4	34	30	1.78
8236315--8236444	3	43.3	3	95	0	125	42	2	24	30	1.67
8236457--8236542	33	2.6	33	86	0	109	61	3	4	30	1.33
8236487--8236554	3	22.7	3	100	0	136	66	0	0	33	0.92
8237222--8237358	69	2.0	69	100	0	274	30	16	13	39	1.87
8245487--8245528	17	2.4	18	80	8	50	69	2	7	21	1.25
8249241--8249399	81	2.0	81	88	0	237	28	24	9	37	1.87
8251086--8251188	6	17.2	6	100	0	206	50	0	16	33	1.45
8251327--8251392	29	2.3	29	97	0	123	50	0	12	37	1.40
8251572--8251618	22	2.1	23	88	11	71	46	2	0	51	1.13
8251879--8251923	21	2.1	21	100	0	90	28	13	26	31	1.94
8252381--8252425	13	3.4	13	80	17	56	44	8	0	46	1.34
8252381--8252592	100	2.1	100	98	1	408	44	6	2	46	1.44
8255334--8255384	21	2.4	21	93	0	84	35	23	17	23	1.95
8255734--8255796	30	2.1	30	93	0	108	26	31	15	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8258485--8258509	12	2.1	12	100	0	50	36	8	8	48	1.62
8258547--8258671	12	10.2	12	77	14	75	44	5	3	47	1.42
8258593--8258671	2	39.0	2	87	7	115	46	3	1	48	1.28
8258756--8259276	290	1.8	284	81	7	647	32	13	6	47	1.69
8263156--8263186	2	15.5	2	100	0	62	51	0	0	48	1.00
8274231--8274273	18	2.4	18	92	0	77	32	30	11	25	1.91
8275092--8275128	10	3.7	10	92	0	65	29	16	0	54	1.43
8284805--8284843	20	1.9	21	89	5	62	33	20	17	28	1.96
8284969--8285082	42	2.7	41	78	6	113	31	21	20	26	1.98
8285136--8285921	55	14.8	52	77	11	435	40	18	10	30	1.84
8285136--8285879	109	7.0	106	76	12	460	40	19	10	30	1.84
8285388--8285480	46	2.0	46	85	6	127	37	22	11	27	1.89
8285553--8286096	55	9.9	55	85	2	657	38	15	11	34	1.85
8288170--8288230	12	5.3	11	74	16	52	4	13	1	80	0.95
8288169--8288230	23	2.7	23	82	10	72	4	12	1	80	0.94
8288168--8288216	20	2.5	20	90	6	73	6	14	0	79	0.91
8294300--8294332	11	3.0	11	95	0	57	30	15	0	54	1.41
8301130--8301187	21	2.7	21	86	2	80	27	20	15	36	1.93
8301270--8301350	21	3.9	21	93	0	126	23	27	23	25	2.00
8306270--8306315	22	2.1	23	84	8	60	41	13	6	39	1.70
8306481--8306529	24	2.0	24	100	0	98	44	30	0	24	1.54
8306489--8306542	14	4.1	14	70	20	53	46	24	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8307098--8307216	39	3.0	40	79	4	134	28	22	20	28	1.98
8307462--8307509	24	2.0	24	95	0	87	43	10	12	33	1.77
8308805--8308929	31	4.0	31	98	0	241	36	37	3	22	1.70
8310221--8310615	197	2.0	197	100	0	790	29	21	15	33	1.95
8313318--8313382	31	2.1	31	85	5	87	23	18	21	36	1.95
8322206--8322257	21	2.5	21	81	3	61	38	19	25	17	1.93
8322246--8322360	20	5.7	20	76	5	97	35	22	17	24	1.95
8322243--8322320	41	1.9	41	89	0	120	39	20	16	23	1.92
8322528--8322571	22	2.0	22	95	0	79	20	45	15	18	1.85
8322824--8322861	20	1.9	20	88	0	58	13	15	21	50	1.78
8324129--8324173	18	2.5	18	88	0	72	26	44	15	13	1.83
8324652--8324697	20	2.3	20	92	0	74	39	26	19	15	1.91
8324707--8324764	14	3.9	14	79	16	71	48	24	17	10	1.78
8324691--8324781	32	2.8	33	94	3	166	47	21	18	12	1.81
8324798--8324855	14	3.9	14	79	16	71	8	17	25	48	1.75
8324793--8324871	32	2.4	33	95	2	142	10	18	24	46	1.80
8324793--8324871	14	4.8	17	71	22	62	10	18	24	46	1.80
8324856--8324910	20	2.8	19	81	5	65	16	21	23	38	1.93
8326776--8326811	14	2.6	14	90	0	54	30	0	22	47	1.52
8326928--8326995	19	3.8	19	85	14	101	47	17	22	13	1.82
8327014--8327091	20	3.9	20	94	0	138	16	23	23	37	1.94
8328153--8328206	24	2.2	24	90	0	81	24	16	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8328381--8328405	12	2.1	12	100	0	50	72	0	28	0	0.86
8330695--8330792	19	5.7	19	65	22	72	42	19	21	16	1.89
8330696--8330795	33	3.0	33	88	2	148	41	19	21	19	1.91
8330788--8330830	20	2.2	20	87	4	61	16	18	23	41	1.89
8330816--8330849	14	2.4	14	85	0	50	8	23	20	47	1.78
8330971--8331007	14	2.6	14	91	0	65	45	24	0	29	1.53
8332361--8332427	21	3.2	21	68	4	55	19	19	35	25	1.95
8332400--8332483	42	2.0	42	85	0	114	22	16	39	21	1.92
8334488--8334548	20	3.1	19	77	9	59	44	16	24	14	1.85
8334513--8334612	33	3.0	33	82	1	119	41	24	22	13	1.88
8334583--8334663	19	4.2	19	90	3	135	49	22	17	11	1.77
8334583--8334663	39	2.1	38	93	2	135	49	22	17	11	1.77
8334679--8334731	19	2.7	19	85	2	70	13	18	22	45	1.84
8335254--8335306	20	2.7	20	93	0	88	26	20	28	24	1.99
8335315--8335368	20	2.7	20	97	0	99	25	18	24	31	1.97
8335255--8335371	61	1.9	61	85	0	162	23	17	24	33	1.97
8335255--8335389	61	2.2	61	81	2	155	22	20	24	32	1.98
8336492--8336597	32	3.3	32	81	2	115	18	26	29	25	1.98
8336654--8336696	22	2.0	21	86	8	61	11	0	41	46	1.40
8339851--8340500	83	7.9	82	83	4	736	34	16	19	29	1.94
8339855--8340415	165	3.4	164	85	4	756	33	17	20	29	1.95
8340977--8341044	33	2.1	33	100	0	136	30	20	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8341364--8341415	26	2.0	27	88	3	79	57	21	1	19	1.50
8342369--8342436	6	11.3	6	76	6	57	14	44	4	36	1.66
8342375--8342438	21	3.0	21	79	4	76	14	45	3	37	1.60
8344040--8344072	17	1.9	17	100	0	66	6	12	18	63	1.48
8346430--8346468	20	2.0	20	84	0	51	23	7	23	46	1.78
8346645--8346705	20	2.9	21	87	7	79	18	26	34	21	1.96
8356997--8357075	30	2.6	31	83	4	106	43	2	1	53	1.22
8357080--8357116	18	2.1	18	89	0	56	43	8	2	45	1.47
8357095--8357140	23	2.0	23	87	8	67	52	2	4	41	1.33
8357174--8357243	30	2.4	30	81	9	83	58	0	4	37	1.18

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51