genome.fa.s9624.2.7.7.80.10.50.1000.32.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  32  of  38  ( 4514 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)
6335623--6335660	2	19.0	2	100	0	76	50	0	0	50	1.00
6337962--6337998	17	2.2	17	90	0	56	43	16	2	37	1.62
6340728--6340760	2	16.5	2	100	0	66	51	0	0	48	1.00
6341284--6341333	5	10.8	5	79	16	63	16	20	2	62	1.43
6341283--6341333	23	2.5	20	82	17	61	15	19	1	62	1.41
6341284--6341349	28	2.4	28	81	0	69	16	24	1	57	1.48
6344768--6344880	57	2.0	57	94	0	199	10	30	25	33	1.90
6356319--6356495	90	2.0	89	94	1	309	37	11	5	44	1.65
6356457--6356526	20	3.3	21	70	16	63	51	4	1	42	1.30
6359324--6359369	20	2.3	20	96	0	83	28	23	17	30	1.97
6373740--6373782	19	2.3	19	100	0	86	37	25	9	27	1.87
6374308--6374362	22	2.7	20	80	5	65	16	18	23	41	1.89
6383997--6384034	20	1.9	20	88	0	58	21	26	18	34	1.96
6387544--6387759	45	4.8	45	91	1	310	41	6	21	30	1.79
6387687--6387759	24	3.2	24	63	21	66	43	2	21	31	1.67
6410182--6410242	30	2.0	30	96	0	113	40	14	16	27	1.88
6413043--6413068	12	2.2	12	100	0	52	38	23	0	38	1.55
6417788--6417833	24	1.9	24	82	8	58	28	19	0	52	1.47
6418274--6418326	18	3.2	17	70	25	51	18	18	0	62	1.33
6418256--6418326	31	2.3	31	83	13	92	18	18	1	61	1.41
6422595--6422809	54	4.0	54	90	0	322	33	18	19	28	1.95
6428381--6428609	99	2.3	98	89	3	343	27	15	35	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6429413--6429640	54	4.2	54	83	6	273	33	17	17	30	1.94
6429428--6429640	108	2.0	108	88	1	320	34	16	17	30	1.93
6429983--6430036	19	2.6	21	77	8	58	31	18	16	33	1.93
6434606--6434650	24	2.0	21	83	16	54	53	4	0	42	1.21
6435032--6435085	26	2.1	26	92	0	90	35	3	1	59	1.26
6439089--6439129	2	20.5	2	100	0	82	51	0	0	48	1.00
6439381--6439456	31	2.4	31	86	6	100	30	1	13	55	1.46
6439349--6439471	31	3.9	31	75	10	90	35	2	13	47	1.56
6440060--6440087	13	2.2	13	100	0	56	39	0	0	60	0.97
6440780--6440909	38	3.5	37	84	4	179	48	3	5	43	1.41
6440780--6440921	37	3.8	36	77	9	140	48	4	4	42	1.44
6442049--6442079	16	1.9	16	93	0	53	51	0	6	41	1.27
6456145--6456303	55	2.9	55	89	1	239	33	10	22	33	1.88
6456515--6456906	68	5.8	68	90	0	597	30	14	24	30	1.95
6456866--6457172	81	3.8	81	86	0	398	33	11	24	30	1.91
6464151--6464205	27	2.0	27	82	6	67	29	30	20	20	1.97
6469000--6469051	9	5.8	9	80	8	52	3	11	0	84	0.74
6469000--6469051	17	3.0	18	75	8	54	3	11	0	84	0.74
6469000--6469044	11	3.8	11	81	16	54	2	13	0	84	0.72
6484040--6484081	23	1.9	22	85	9	59	71	2	4	21	1.16
6484931--6484977	16	2.7	18	80	9	53	40	2	8	48	1.45
6507420--6507495	22	3.8	20	78	13	66	80	1	15	2	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6507420--6507495	21	3.8	19	78	13	64	80	1	15	2	0.90
6507446--6507495	21	2.5	20	87	6	66	86	2	10	2	0.75
6508340--6508446	43	2.5	43	81	3	108	29	13	21	35	1.91
6510650--6510707	20	2.9	20	94	0	89	31	20	24	24	1.98
6511605--6511649	18	2.5	18	88	0	63	17	22	31	28	1.97
6537624--6537726	36	2.9	36	86	2	136	25	16	17	40	1.90
6537678--6537862	67	2.8	68	84	3	241	29	19	14	37	1.91
6537763--6538025	146	1.8	143	81	11	329	30	16	12	40	1.85
6537900--6538041	65	2.2	63	80	10	160	36	16	10	35	1.84
6546896--6546941	19	2.4	19	100	0	92	28	21	21	28	1.99
6550880--6550914	13	2.7	13	95	0	61	28	0	37	34	1.58
6551878--6551912	17	2.1	17	94	0	61	51	5	17	25	1.67
6555777--6555816	21	1.9	21	94	0	71	27	22	25	25	2.00
6555845--6555885	12	3.4	12	82	0	55	21	17	17	43	1.87
6558922--6558960	21	1.9	21	89	5	62	7	15	7	69	1.35
6561092--6561123	14	2.3	14	94	0	55	46	28	9	15	1.77
6562148--6562183	7	5.3	7	90	6	56	27	30	25	16	1.97
6562148--6562183	13	2.6	14	86	8	56	27	30	25	16	1.97
6562173--6562207	17	2.1	17	94	0	61	8	22	51	17	1.72
6563150--6563190	16	2.4	16	88	8	55	41	0	26	31	1.56
6569507--6569550	16	2.6	17	78	3	54	15	15	22	45	1.85
6573200--6573283	29	2.9	29	96	0	150	42	15	16	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6574055--6574094	20	2.0	20	85	0	53	62	20	10	7	1.50
6574077--6574106	14	2.1	14	93	0	51	63	20	13	3	1.43
6574372--6574433	10	6.4	10	75	14	67	58	11	14	16	1.64
6574372--6574449	24	3.2	24	75	3	84	56	12	14	16	1.68
6574372--6574450	14	5.1	14	74	19	68	55	12	15	16	1.69
6575951--6575986	17	2.1	17	90	10	56	38	0	2	58	1.13
6580925--6580987	24	2.7	24	80	2	65	30	19	22	28	1.98
6581128--6581237	57	1.9	57	87	3	159	40	17	3	39	1.67
6582734--6582866	36	3.6	35	69	15	99	40	15	16	27	1.88
6582803--6582981	66	2.7	64	81	6	198	37	11	17	32	1.86
6582804--6582981	67	2.7	66	80	7	193	37	11	17	33	1.86
6582931--6583005	36	2.0	39	87	7	111	41	10	17	30	1.83
6587043--6587121	24	3.3	24	92	3	124	18	20	25	35	1.95
6589597--6589629	16	2.0	17	88	5	50	39	21	9	30	1.84
6590557--6590591	16	2.1	18	89	10	56	40	2	20	37	1.67
6596172--6596204	16	2.1	16	94	0	57	39	27	0	33	1.57
6598393--6598436	18	2.4	18	100	0	88	36	13	25	25	1.92
6598786--6598831	24	1.9	24	82	8	58	52	0	19	28	1.47
6603038--6603064	12	2.2	12	100	0	54	77	0	7	14	0.97
6604508--6605143	136	4.7	136	87	1	864	26	22	16	35	1.95
6608925--6608962	19	2.0	19	89	0	58	39	13	13	34	1.83
6615485--6615603	40	3.0	40	97	0	220	34	26	16	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6618963--6619414	224	2.0	225	98	1	870	31	20	11	35	1.89
6619478--6619588	17	6.4	17	71	17	77	1	18	3	75	1.04
6619487--6619545	21	2.7	22	77	15	68	1	20	3	74	1.05
6619478--6619571	6	15.0	6	70	16	66	2	18	3	76	1.02
6619533--6619587	14	3.9	14	90	4	76	1	16	3	78	0.98
6619513--6619582	12	5.9	11	73	14	50	1	15	4	78	0.98
6620678--6620702	6	4.2	6	100	0	50	32	36	16	16	1.90
6622336--6622461	47	2.8	45	84	8	157	30	22	7	39	1.82
6622566--6622687	40	3.0	40	98	0	235	33	27	16	22	1.95
6625778--6626030	136	1.9	136	85	5	359	40	17	14	28	1.88
6626526--6626577	22	2.5	22	87	6	72	26	21	15	36	1.93
6636378--6636526	77	1.9	79	85	8	207	41	8	4	46	1.52
6638064--6638131	20	3.4	20	100	0	136	23	20	8	47	1.78
6643470--6643566	29	3.3	30	77	8	94	19	25	13	41	1.88
6650213--6650351	58	2.4	58	91	0	215	20	20	17	41	1.90
6650195--6650376	29	6.3	28	72	9	116	18	20	18	43	1.88
6654362--6654418	22	2.6	22	80	2	62	40	3	1	54	1.28
6654377--6654415	15	2.5	16	91	4	62	38	2	0	58	1.12
6656740--6656797	22	2.5	22	86	10	73	36	3	0	60	1.14
6656750--6656799	16	3.2	16	73	23	52	36	4	0	60	1.16
6660893--6660927	17	2.1	17	100	0	70	28	11	11	48	1.74
6665711--6665740	16	1.9	15	93	6	51	26	13	13	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6665961--6666111	37	4.1	37	92	0	230	40	19	18	21	1.92
6665961--6666128	74	2.3	74	86	4	214	38	20	18	22	1.93
6666115--6667168	233	4.5	233	90	1	1558	32	16	18	32	1.93
6666800--6666875	20	3.7	20	72	16	57	23	21	18	36	1.95
6667165--6667981	112	7.3	111	83	5	852	30	24	15	30	1.95
6667918--6668025	48	2.2	48	85	3	137	30	22	14	32	1.94
6668273--6668327	15	3.7	15	82	4	67	38	3	0	58	1.16
6668282--6668327	6	7.7	6	87	0	56	39	2	0	58	1.10
6668285--6668316	9	3.6	9	91	0	55	40	0	0	59	0.97
6668281--6668327	18	2.6	18	89	0	76	38	4	0	57	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