genome.fa.s8620.2.7.7.80.10.50.1000.2.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   63   64   

This is table  2  of  64  ( 7674 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)
282905--282940	12	3.1	12	96	4	65	58	8	25	8	1.55
288119--288161	23	1.9	21	81	13	50	34	13	18	32	1.90
292965--292991	2	13.5	2	100	0	54	0	48	0	51	1.00
294371--294417	2	23.5	2	100	0	94	48	0	0	51	1.00
305707--305800	37	2.5	39	80	11	101	68	3	5	23	1.25
305921--305960	21	1.9	21	85	10	55	57	0	5	37	1.21
305925--305970	14	3.1	15	81	15	51	60	0	4	34	1.16
307342--307713	106	3.5	105	83	9	498	22	18	25	33	1.97
308380--308551	64	2.6	65	83	5	195	36	8	20	33	1.84
308512--308612	36	2.8	37	80	5	116	37	16	22	22	1.94
308521--308612	37	2.5	36	80	5	105	39	17	21	21	1.93
314106--314203	39	2.6	36	83	12	110	69	4	5	21	1.25
314225--314308	39	2.1	39	84	6	107	67	1	4	26	1.17
314252--314311	17	3.2	17	70	20	57	63	1	5	30	1.25
314353--314398	2	23.5	2	93	4	76	52	0	2	45	1.13
314353--314421	14	4.6	15	84	10	79	57	0	1	40	1.07
314383--314429	25	1.9	25	86	4	69	68	0	2	29	1.02
314436--314476	16	2.5	17	80	15	50	68	0	2	29	1.03
323603--323638	18	1.9	19	88	5	56	41	0	2	55	1.14
325237--325324	19	4.6	19	91	0	131	18	26	35	20	1.95
327823--327917	24	4.0	24	73	10	86	22	13	16	47	1.82
329936--330000	14	4.3	14	76	17	67	18	27	33	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329958--330045	19	4.6	19	92	0	140	18	27	35	19	1.95
329944--330045	38	2.8	37	84	7	122	17	27	35	19	1.94
332532--332625	24	4.0	23	68	15	66	22	13	15	47	1.81
334716--334780	14	4.3	14	76	17	67	18	27	33	20	1.96
334738--334825	19	4.6	19	92	0	140	18	27	35	19	1.95
334724--334825	38	2.8	37	84	7	122	17	27	35	19	1.94
342589--342779	101	1.9	101	85	0	265	38	22	14	25	1.91
345078--345396	46	6.9	46	89	0	449	42	12	21	24	1.87
345619--345683	32	2.0	32	100	0	130	33	9	18	38	1.83
351246--351493	46	5.4	46	90	2	374	41	13	22	22	1.88
353067--353204	70	2.0	70	92	0	231	28	2	13	55	1.52
353086--353231	70	2.1	68	81	7	159	27	3	13	55	1.54
353972--354005	17	2.0	17	88	0	50	23	0	2	73	0.97
360084--360183	21	4.7	21	76	10	96	21	20	36	23	1.96
360765--360863	47	2.1	46	87	5	137	57	12	15	15	1.65
361731--361867	70	2.0	69	88	1	202	29	2	10	56	1.49
362636--362678	9	5.1	8	81	15	52	27	2	0	69	1.00
362636--362678	4	10.2	4	81	18	52	27	2	0	69	1.00
362635--362679	23	2.1	20	88	12	63	31	2	0	66	1.04
366405--366434	15	2.0	15	100	0	60	33	20	6	40	1.78
368850--369013	85	1.9	85	83	4	215	30	1	12	55	1.47
375285--375392	5	20.8	5	72	10	74	22	4	0	72	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375279--375335	10	5.4	10	76	12	51	15	5	1	77	1.03
375279--375337	22	2.7	22	86	2	75	15	5	1	77	1.01
379202--379383	84	2.2	81	85	4	231	30	2	13	53	1.52
380781--380851	29	2.4	30	85	2	99	45	7	18	29	1.76
387424--387524	22	4.4	24	86	5	120	28	6	13	50	1.68
387424--387539	22	5.0	23	80	11	96	27	6	14	50	1.68
406505--406628	46	2.7	47	83	3	153	21	20	12	44	1.85
406609--406714	20	5.0	20	71	18	72	20	22	15	41	1.89
406521--406740	112	2.0	112	92	0	368	20	21	14	42	1.88
406565--406832	66	4.0	66	72	16	215	21	20	13	44	1.86
406629--406833	46	4.5	46	89	0	320	21	21	13	42	1.87
406629--406833	92	2.2	92	94	0	356	21	21	13	42	1.87
406484--406784	158	1.9	158	87	1	442	21	21	13	43	1.87
409832--409867	16	2.2	16	100	0	72	27	36	8	27	1.86
413081--413454	46	8.1	47	81	4	386	23	20	10	45	1.83
413081--413454	92	4.1	92	85	2	455	23	20	10	45	1.83
413278--413448	20	7.7	20	67	21	90	23	22	10	43	1.84
413099--413458	138	2.6	138	86	2	474	24	20	10	45	1.82
413157--413454	26	12.9	24	65	22	122	23	19	11	45	1.82
413120--413458	46	7.4	46	84	1	428	24	20	10	45	1.82
413876--414062	95	2.0	95	82	8	229	24	21	13	40	1.90
417117--417197	12	6.8	12	69	16	51	49	16	12	22	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417106--417235	24	5.4	24	83	3	127	53	13	11	20	1.71
421506--421819	153	2.0	155	83	6	388	38	29	10	21	1.87
421840--421918	12	6.6	12	71	5	61	53	16	13	16	1.74
421840--421968	48	2.7	48	87	2	170	55	14	11	17	1.68
421840--421972	24	5.5	24	82	3	151	55	15	12	17	1.69
424309--424348	10	4.0	10	83	0	53	22	30	30	17	1.97
426612--426737	24	5.2	24	82	0	99	54	12	9	23	1.66
426609--426727	48	2.5	48	80	0	130	53	13	9	23	1.68
454693--454880	95	2.0	95	82	2	234	39	13	22	25	1.90
455255--455625	45	8.2	45	88	0	546	42	11	22	23	1.85
455261--455611	179	2.0	179	90	1	560	42	11	22	23	1.86
462298--462579	45	6.2	45	96	0	510	43	12	23	20	1.86
463765--463825	31	2.0	30	84	9	79	36	1	1	60	1.16
469992--470191	35	5.6	35	82	9	226	42	5	11	41	1.62
469990--470191	73	2.8	72	87	4	284	42	4	10	41	1.61
470160--470215	23	2.4	23	82	5	69	41	5	14	39	1.68
470128--470251	58	2.1	60	83	5	155	44	3	11	41	1.56
470285--470360	18	4.2	19	73	20	56	36	6	0	56	1.25
470295--470390	17	5.9	17	74	16	71	33	3	0	63	1.10
470295--470389	14	6.3	14	72	20	59	33	3	0	63	1.10
481939--482033	49	1.9	49	81	8	113	46	12	23	17	1.82
483720--483784	23	2.8	23	83	6	78	44	4	10	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483794--483832	2	19.5	2	100	0	78	51	0	0	48	1.00
483873--483939	9	7.9	9	72	12	52	35	1	0	62	1.04
483892--483959	12	5.4	13	79	13	72	29	0	1	69	0.98
483891--483958	26	2.7	26	81	6	77	30	0	1	67	0.99
483891--483950	14	4.7	12	80	13	57	31	0	1	66	1.01
486691--486745	27	2.1	25	86	6	74	40	9	20	30	1.83
486698--486752	27	2.1	26	83	6	67	40	10	18	30	1.85
488379--488468	24	3.8	24	77	10	87	24	15	21	38	1.92
489598--489691	23	4.1	23	88	0	134	34	24	25	15	1.95
489598--489691	46	2.0	46	91	0	152	34	24	25	15	1.95
491529--491779	135	1.9	135	85	1	351	32	23	14	29	1.94
492547--492601	5	11.0	5	77	14	60	76	1	16	5	1.06
492593--492623	14	2.3	14	94	5	55	77	0	22	0	0.77
493629--493702	2	37.0	2	100	0	148	50	0	0	50	1.00
494208--494563	131	2.7	130	87	0	487	32	8	17	41	1.81
497069--497114	17	2.5	19	72	10	51	50	0	2	47	1.13
502521--502551	2	15.5	2	93	0	53	51	3	0	45	1.17
502603--502670	29	2.3	30	77	5	77	72	7	0	20	1.09
503386--503479	37	2.5	37	89	0	134	29	12	15	41	1.85
504178--505234	106	10.0	106	90	1	1581	22	18	25	33	1.97
504177--505234	529	2.0	524	90	1	1668	22	18	25	33	1.97
506826--506892	8	8.2	8	78	15	75	0	14	2	82	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506826--506890	17	3.9	16	76	23	64	0	15	3	81	0.81
506826--506895	26	2.8	24	79	18	79	0	14	4	81	0.84
506838--506898	23	2.6	24	80	15	65	0	14	4	80	0.87
511308--511338	16	1.9	16	93	0	53	74	0	12	12	1.08
511327--511382	27	2.1	26	80	9	60	76	0	7	16	0.99
511360--511389	4	7.2	4	92	7	51	73	0	3	23	0.98
511387--511426	2	20.0	2	100	0	80	50	0	0	50	1.00
511693--511773	18	4.3	19	72	16	60	62	2	2	32	1.21
512257--512344	37	2.4	37	90	0	131	31	11	15	40	1.83
513844--513962	63	1.9	61	84	6	159	40	30	12	16	1.86

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   63   64