genome.fa.s9639.2.7.7.80.10.50.1000.38.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  38  of  62  ( 7398 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)
8207308--8207357	2	25.0	2	100	0	100	50	0	0	50	1.00
8207544--8207637	24	3.9	24	70	5	73	50	15	12	21	1.78
8207959--8208019	27	2.3	27	97	0	113	39	21	9	29	1.85
8211607--8211664	21	2.8	21	69	10	55	13	29	32	24	1.94
8214052--8214103	21	2.5	21	90	0	77	17	28	19	34	1.94
8214427--8214487	22	2.6	24	82	10	81	44	6	3	45	1.46
8214485--8214635	33	4.4	37	84	12	173	40	13	5	40	1.68
8214549--8214678	38	3.5	38	82	7	126	37	16	6	40	1.73
8217555--8217642	45	1.9	46	88	2	133	27	22	19	30	1.98
8219630--8219669	21	1.9	21	90	10	64	55	0	7	37	1.29
8223494--8223574	24	3.5	24	70	20	75	23	24	22	29	1.99
8225109--8225152	21	2.1	21	82	0	52	9	43	15	31	1.79
8231438--8231483	19	2.4	19	92	7	76	23	47	10	17	1.79
8236254--8236310	25	2.3	25	90	0	87	38	5	7	49	1.53
8236253--8236331	25	3.2	24	82	7	70	40	6	5	48	1.51
8237447--8237473	2	13.5	2	100	0	54	51	0	0	48	1.00
8237641--8237670	9	3.3	9	100	0	60	30	0	0	70	0.88
8237711--8237740	14	2.1	14	93	0	51	23	0	0	76	0.78
8238753--8238787	13	2.7	13	100	0	70	14	8	0	77	0.99
8238760--8238802	16	2.7	15	82	10	50	13	11	0	74	1.07
8243534--8243613	24	3.3	24	82	0	88	47	18	12	21	1.81
8243568--8243625	24	2.4	24	79	0	71	46	17	12	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8246094--8246144	18	2.5	21	75	24	63	19	17	43	19	1.89
8248029--8248055	2	13.5	2	100	0	54	51	0	0	48	1.00
8248227--8248286	12	5.0	12	80	8	77	50	18	16	15	1.79
8248222--8248309	24	3.7	24	85	0	113	50	18	13	18	1.79
8248220--8248323	48	2.2	48	84	3	129	50	16	14	18	1.77
8248241--8248323	24	3.5	24	80	3	78	48	16	15	19	1.82
8254370--8254680	155	2.0	155	100	0	622	32	21	21	25	1.98
8258537--8258576	2	20.0	2	100	0	80	50	0	0	50	1.00
8260966--8261013	19	2.5	20	82	3	62	54	6	10	29	1.59
8261602--8261648	18	2.6	18	100	0	94	34	21	6	38	1.79
8262252--8262311	29	2.0	31	90	6	97	35	6	16	41	1.75
8262374--8262425	19	2.7	19	84	0	68	46	5	11	36	1.64
8262389--8262441	19	2.8	19	85	0	70	43	11	13	32	1.79
8262527--8262568	21	2.0	21	95	0	75	23	21	28	26	1.99
8263723--8263802	21	3.9	21	73	12	60	25	33	26	15	1.95
8263742--8263799	21	2.8	20	84	5	62	24	36	25	13	1.92
8266698--8266722	11	2.3	11	100	0	50	24	8	20	48	1.76
8267620--8267698	23	3.3	24	78	13	67	22	2	3	70	1.15
8267643--8267727	5	17.2	5	77	16	72	23	2	1	72	1.03
8267609--8267727	38	3.0	39	82	9	134	22	2	3	71	1.13
8267662--8267721	28	2.1	28	84	6	77	23	3	0	73	0.98
8267674--8267725	18	2.8	19	75	21	56	23	1	0	75	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8267659--8267725	23	3.0	22	80	10	82	22	2	0	74	0.95
8267660--8267760	23	4.6	23	74	15	81	21	4	0	73	1.02
8267658--8267765	12	8.6	12	67	24	55	21	4	0	74	1.00
8271553--8271607	20	2.8	20	91	0	83	29	23	25	21	1.99
8273749--8273788	20	2.1	19	85	4	53	55	0	20	25	1.44
8275978--8276017	21	1.9	21	89	0	62	27	32	17	22	1.96
8281563--8281617	20	2.8	20	85	0	74	27	21	29	21	1.99
8283211--8283247	2	18.5	2	100	0	74	51	0	0	48	1.00
8283281--8283340	22	2.6	24	78	10	70	45	8	1	45	1.43
8283348--8283411	32	2.0	33	87	3	94	43	15	3	37	1.63
8283436--8283533	38	2.6	38	77	4	99	36	12	5	45	1.64
8284314--8284390	37	2.1	37	85	4	102	48	1	3	46	1.28
8284536--8284573	20	1.9	20	88	0	58	21	26	10	42	1.85
8285040--8285075	2	18.0	2	100	0	72	50	0	0	50	1.00
8288743--8288780	2	19.5	2	94	5	69	52	0	0	47	1.00
8288837--8288884	3	15.3	3	78	8	51	41	0	0	58	0.98
8288839--8288914	16	4.8	16	76	15	70	44	0	0	55	0.99
8288829--8288874	22	2.1	22	88	8	67	47	0	0	52	1.00
8288886--8288915	2	15.5	2	93	6	53	50	0	0	50	1.00
8290325--8290352	13	2.2	13	100	0	56	28	0	7	64	1.20
8290375--8290410	18	1.9	18	88	5	54	50	0	0	50	1.00
8290436--8290669	117	2.0	116	82	7	287	37	7	8	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8290634--8290690	29	2.0	29	89	0	87	47	0	0	52	1.00
8290662--8290752	47	1.9	47	82	4	112	45	1	5	48	1.33
8295967--8296360	182	2.2	182	90	0	617	40	13	15	29	1.86
8298129--8298183	24	2.5	22	81	18	62	49	0	3	47	1.19
8298551--8298594	21	2.1	21	86	0	61	43	11	29	15	1.82
8298628--8298693	33	2.0	33	90	0	105	30	0	48	21	1.50
8300480--8300528	19	2.6	19	93	0	80	36	0	8	55	1.30
8300815--8301530	200	3.6	200	91	2	1109	36	14	16	32	1.89
8307409--8308117	200	3.5	199	80	7	706	39	13	15	30	1.87
8308135--8308297	87	1.9	87	90	0	263	33	12	11	42	1.80
8308211--8308260	23	2.2	23	88	0	73	32	20	8	40	1.81
8308806--8308886	5	16.2	5	97	0	153	20	18	19	40	1.91
8309894--8309925	16	2.1	15	94	5	55	62	0	12	25	1.30
8310409--8310514	29	3.7	29	79	5	99	46	7	5	40	1.56
8310467--8310560	28	3.3	28	82	7	109	43	13	1	41	1.51
8339252--8339298	22	2.2	22	85	7	62	25	17	23	34	1.96
8343181--8343219	15	2.6	15	83	0	51	56	2	15	25	1.52
8351673--8352594	55	16.9	55	87	4	1269	35	17	12	35	1.87
8351673--8352594	166	5.6	164	86	6	1246	35	17	12	35	1.87
8351673--8352594	221	4.2	220	87	4	1319	35	17	12	35	1.87
8352942--8353019	22	3.6	22	69	19	65	26	24	14	34	1.93
8353092--8353369	138	2.0	138	100	0	556	25	26	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8354917--8354955	15	2.6	15	87	0	60	64	2	12	20	1.40
8366716--8366878	90	1.8	88	93	2	281	38	10	6	44	1.64
8369123--8369192	31	2.4	31	79	15	85	35	12	14	37	1.84
8372317--8372814	49	10.2	49	87	3	673	30	23	12	33	1.91
8375394--8375564	89	1.9	89	93	2	299	36	11	6	45	1.67
8382222--8382391	90	1.9	88	90	2	268	38	11	6	44	1.66
8386713--8386741	13	2.2	13	100	0	58	13	6	44	34	1.71
8387463--8387788	49	6.6	49	89	3	442	31	21	12	34	1.91
8387463--8387788	99	3.3	98	88	4	435	31	21	12	34	1.91
8390211--8390253	19	2.3	19	95	0	77	44	6	23	25	1.78
8390369--8390429	22	3.0	20	81	11	79	32	14	26	26	1.95
8390294--8390479	95	2.0	95	88	2	275	34	16	23	25	1.95
8390927--8391126	34	5.0	40	69	24	145	35	10	25	29	1.89
8390919--8391126	79	2.6	79	93	0	344	37	10	24	28	1.88
8391109--8391213	46	2.3	46	88	5	158	44	9	23	21	1.81
8391181--8391267	20	4.1	20	76	21	95	42	10	27	19	1.84
8391138--8391315	66	2.6	66	82	12	218	47	9	21	21	1.79
8391201--8391346	46	3.2	46	92	0	229	49	9	19	21	1.77
8391109--8391365	26	11.0	25	68	25	115	48	9	19	22	1.77
8391115--8391326	112	1.9	112	87	0	307	46	9	21	22	1.79
8391298--8391335	20	1.9	20	89	10	60	55	7	15	21	1.66
8391781--8391852	2	36.0	2	97	0	135	48	0	1	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8397868--8397921	22	2.6	21	80	8	56	33	14	24	27	1.94
8398318--8398815	81	6.1	81	91	1	759	35	10	20	33	1.87
8398754--8398883	68	1.9	68	83	0	170	40	10	21	27	1.87
8404990--8405163	95	1.8	95	87	2	260	35	12	25	27	1.91
8404994--8405189	95	2.1	95	83	3	243	34	13	25	26	1.93
8405590--8405845	81	3.2	81	89	0	368	36	12	18	32	1.88
8409889--8409941	20	2.7	20	93	0	88	18	18	13	49	1.80
8413041--8413102	23	2.7	23	89	0	88	30	20	20	27	1.98
8413347--8413375	15	1.9	15	100	0	58	13	13	3	68	1.33
8420372--8420428	30	1.9	29	86	10	80	29	5	21	43	1.74

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   52   53   54   55   56   57   58   59   60   61   62