genome.fa.s8356.2.7.7.80.10.50.1000.30.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  30  of  56  ( 6656 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)
6302998--6303129	67	2.0	67	92	0	219	33	21	12	33	1.90
6302878--6303175	126	2.4	126	81	7	321	30	23	11	35	1.89
6306332--6306386	19	2.9	18	84	13	58	32	5	0	61	1.19
6306337--6306390	14	3.9	14	72	18	51	37	5	0	57	1.22
6306331--6306395	23	2.9	22	78	17	62	33	4	1	60	1.27
6306344--6306390	23	2.0	23	87	8	67	36	6	0	57	1.24
6306429--6306494	18	3.5	18	70	11	60	30	6	1	62	1.29
6306498--6306557	31	2.0	30	83	3	75	23	3	0	73	0.98
6306497--6306553	18	3.2	18	78	7	55	22	3	0	73	0.98
6306657--6306701	18	2.6	17	83	13	56	15	13	0	71	1.15
6306655--6306701	17	2.7	17	81	12	60	14	12	0	72	1.13
6309936--6309973	7	5.6	7	81	6	51	78	0	18	2	0.86
6309933--6309974	13	3.2	13	86	6	66	80	0	16	2	0.81
6309935--6309985	13	4.0	13	82	12	61	76	1	17	3	1.03
6310057--6310194	69	2.0	69	95	0	249	37	23	14	23	1.92
6311745--6311970	36	6.4	36	78	10	207	27	18	13	40	1.88
6311765--6312024	138	1.9	138	87	3	380	27	18	13	40	1.87
6311658--6311936	101	2.8	101	81	3	301	29	17	12	39	1.87
6311928--6312102	65	2.6	65	84	6	217	33	20	9	37	1.84
6314390--6314491	19	5.5	18	71	18	59	31	5	0	62	1.19
6314436--6314483	25	2.0	23	84	11	62	29	6	0	64	1.18
6314582--6314660	31	2.5	32	81	4	81	22	3	1	72	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6314600--6314656	18	3.2	18	78	7	55	22	3	0	73	0.98
6314758--6314802	18	2.6	17	86	13	65	17	13	0	68	1.20
6314854--6314887	9	3.8	9	88	0	50	14	0	2	82	0.79
6314846--6314886	18	2.2	19	91	4	66	14	2	2	80	0.92
6317363--6317542	45	4.0	45	89	4	249	34	21	6	37	1.79
6317359--6317538	89	2.0	90	89	3	274	33	20	6	39	1.78
6317515--6317571	29	2.0	29	92	0	96	28	19	12	40	1.87
6317473--6317614	72	1.9	73	90	2	223	30	18	9	41	1.81
6317544--6317632	43	2.1	43	89	0	133	31	17	6	43	1.75
6317929--6318274	59	5.9	59	87	4	475	30	22	10	36	1.88
6317814--6318263	118	3.8	118	83	6	468	29	22	11	37	1.88
6317889--6318274	177	2.2	177	85	5	503	28	22	10	38	1.88
6321263--6321382	61	2.0	61	81	3	143	27	17	25	29	1.98
6329865--6329897	9	3.5	10	88	12	52	69	12	0	18	1.18
6329864--6329898	10	3.7	9	88	11	52	71	11	0	17	1.14
6330086--6330125	15	2.7	15	100	0	80	47	10	7	35	1.65
6330617--6330652	3	12.3	3	94	5	65	30	0	0	69	0.89
6335430--6335745	54	5.8	53	83	5	348	37	15	13	32	1.87
6335430--6335745	108	2.9	107	83	4	393	37	15	13	32	1.87
6342370--6342758	54	7.2	54	87	4	534	38	17	12	31	1.87
6343157--6343205	20	2.5	20	93	0	80	18	28	18	34	1.94
6346136--6346167	16	2.0	16	100	0	64	50	18	6	25	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6350765--6350819	24	2.3	24	81	9	69	7	9	1	81	0.93
6352375--6352477	31	3.3	31	97	0	188	44	1	15	37	1.58
6353191--6353291	50	2.0	50	96	0	184	33	20	15	29	1.94
6353492--6353533	22	1.9	22	90	0	66	50	19	21	9	1.75
6372232--6372297	29	2.3	29	100	0	132	36	13	16	33	1.88
6379224--6379274	26	2.0	26	92	0	84	47	15	7	29	1.74
6379746--6379809	27	2.4	27	97	2	121	48	7	0	43	1.32
6382339--6382376	20	1.9	20	89	10	60	60	0	0	39	0.97
6382338--6382387	20	2.3	21	77	22	59	56	0	0	44	0.99
6382431--6382467	2	18.5	2	100	0	74	51	0	0	48	1.00
6382755--6382792	5	7.6	5	90	0	58	2	42	34	21	1.67
6388680--6388704	6	4.2	6	100	0	50	0	16	48	36	1.46
6398937--6399031	47	2.0	47	93	0	163	48	8	18	24	1.76
6407000--6407027	10	2.8	10	100	0	56	60	32	7	0	1.24
6415615--6415661	20	2.3	20	85	0	58	27	14	21	36	1.93
6415710--6415751	19	2.1	21	86	8	61	26	26	19	28	1.98
6418227--6418256	2	15.0	2	100	0	60	50	0	0	50	1.00
6419984--6420461	245	2.0	243	90	2	762	38	8	16	35	1.80
6434679--6434803	46	2.8	45	89	3	189	30	22	7	40	1.81
6434891--6434966	40	1.9	40	86	0	107	21	26	26	26	1.99
6436868--6436940	30	2.4	30	78	17	80	31	20	9	38	1.85
6438587--6438624	2	19.0	2	100	0	76	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)
6438636--6438715	38	2.2	36	84	8	99	3	11	3	81	0.95
6438672--6438720	9	5.6	9	83	11	57	2	6	8	83	0.87
6441402--6441768	179	2.1	179	97	0	700	41	17	9	31	1.82
6441720--6441844	46	2.8	45	87	3	180	30	20	8	40	1.83
6441931--6442007	40	1.9	40	83	0	100	23	25	24	25	2.00
6446367--6446394	2	14.0	2	100	0	56	50	0	0	50	1.00
6446651--6446777	57	2.2	56	81	12	152	25	12	22	38	1.90
6446720--6446761	16	2.6	16	85	7	50	30	9	16	42	1.80
6448973--6449035	33	1.9	33	90	0	99	26	17	15	39	1.90
6460599--6460650	20	2.7	20	93	3	88	30	44	11	13	1.79
6460599--6460658	19	3.1	18	86	9	66	35	40	11	13	1.81
6480508--6480557	19	2.6	19	100	0	100	24	0	6	70	1.10
6486336--6486428	28	3.5	28	70	16	97	43	15	21	20	1.88
6488100--6488269	76	2.2	76	86	4	254	30	2	11	55	1.47
6488222--6488283	19	3.2	19	75	6	54	32	0	14	53	1.41
6490621--6490654	15	2.3	15	94	0	59	44	20	26	8	1.81
6494549--6494594	11	4.3	11	78	15	51	10	4	6	78	1.08
6496350--6496514	76	2.2	75	86	5	235	29	3	10	56	1.49
6496472--6496534	19	3.2	19	75	4	54	31	0	12	55	1.37
6498322--6498354	2	16.5	2	100	0	66	51	48	0	0	1.00
6503659--6503706	11	4.4	11	81	7	62	0	6	8	85	0.74
6503657--6503690	17	2.1	16	88	5	50	0	2	5	91	0.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6504047--6504093	11	4.2	11	84	10	60	70	6	10	12	1.33
6510783--6510807	13	1.9	13	100	0	50	40	0	4	56	1.18
6513336--6513448	56	2.0	56	98	0	217	36	22	18	23	1.95
6516422--6516503	23	3.7	23	85	6	89	34	28	18	19	1.95
6516438--6516503	23	2.9	23	90	0	96	31	27	18	22	1.97
6517044--6517095	19	2.5	20	81	9	61	19	34	15	30	1.93
6523198--6523267	23	3.2	21	86	10	79	32	25	18	22	1.97
6523826--6523877	19	2.5	20	75	15	52	21	32	9	36	1.86
6526415--6526453	2	19.0	2	89	5	60	51	0	2	46	1.14
6526977--6527025	22	2.2	22	96	0	89	44	12	18	24	1.84
6528772--6530485	574	3.0	577	96	0	3173	36	21	13	28	1.91
6531366--6531402	19	2.0	18	89	5	56	56	10	0	32	1.34
6531367--6531408	19	2.2	19	83	8	50	59	11	0	28	1.33
6540397--6540899	81	6.2	81	84	3	575	38	10	20	29	1.87
6540397--6540905	163	3.1	163	84	3	591	38	11	20	30	1.87
6540437--6540882	244	1.8	244	85	3	630	37	10	20	30	1.87
6547468--6548128	81	8.2	81	91	0	1036	36	11	21	29	1.89
6551382--6551428	2	23.5	2	100	0	94	51	0	0	48	1.00
6551611--6551635	12	2.1	12	100	0	50	24	8	8	60	1.52
6558615--6558652	20	2.0	20	89	5	60	10	26	34	28	1.90
6558838--6558876	2	19.5	2	100	0	78	51	0	0	48	1.00
6558876--6558913	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6564063--6564112	16	3.1	16	75	18	50	22	2	8	68	1.26
6564413--6564480	33	2.1	33	85	0	91	44	11	2	41	1.56
6573282--6573323	18	2.5	16	82	17	50	19	4	7	69	1.31
6574901--6574956	27	2.0	27	82	3	67	25	8	23	42	1.82
6577434--6577467	17	1.9	18	88	5	52	64	5	0	29	1.17
6584994--6585054	23	2.9	19	81	11	59	21	36	26	16	1.94
6587685--6587729	23	2.0	23	87	8	67	24	37	22	15	1.93
6588860--6588905	19	2.4	19	85	7	58	30	23	26	19	1.98
6590350--6590388	8	4.8	8	90	3	60	41	0	10	48	1.37
6590474--6590534	25	2.4	26	81	15	74	42	3	0	54	1.17

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