genome.fa.s1547.2.7.7.80.10.50.1000.26.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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  26  of  51  ( 6083 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)
5181388--5181645	42	6.0	42	82	8	306	25	20	24	28	1.99
5181387--5181635	86	2.9	86	93	2	421	24	21	24	28	1.99
5181685--5181809	45	2.8	45	95	0	214	31	20	21	27	1.98
5181724--5181799	25	3.2	25	63	24	65	32	17	23	26	1.96
5182483--5182535	22	2.4	23	78	18	67	39	11	11	37	1.77
5182497--5182540	22	2.0	22	90	0	70	36	11	11	40	1.77
5183826--5183966	75	1.9	75	86	2	203	31	20	14	33	1.93
5185387--5185435	19	2.7	17	84	9	53	26	20	28	24	1.99
5185406--5185616	65	3.3	65	78	10	200	27	18	23	31	1.97
5187701--5187739	13	3.1	13	88	3	53	48	2	7	41	1.45
5194075--5194110	18	2.1	18	89	5	56	27	16	22	33	1.95
5194076--5194285	65	3.3	63	79	9	203	26	18	25	30	1.98
5197989--5198041	13	4.1	13	80	9	63	64	3	11	20	1.42
5197989--5198026	12	3.1	12	88	3	58	65	0	10	23	1.23
5200319--5200381	31	2.0	31	85	11	85	63	11	1	23	1.36
5201235--5201269	17	2.1	17	88	0	52	62	2	2	31	1.24
5204462--5204486	2	12.5	2	100	0	50	52	0	48	0	1.00
5215180--5215261	29	2.8	29	94	1	137	31	15	13	39	1.87
5217585--5217632	3	16.0	3	95	0	87	35	0	0	64	0.94
5219017--5219046	15	2.0	15	93	0	51	63	0	0	36	0.95
5223074--5223105	15	2.1	15	94	0	55	25	18	9	46	1.79
5230430--5230500	23	3.1	22	88	6	106	81	0	18	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5230435--5230499	15	4.1	16	83	11	73	84	0	15	0	0.62
5231652--5231966	115	2.7	115	95	0	560	32	12	21	33	1.91
5232681--5233556	113	7.8	113	95	1	1479	39	14	18	27	1.90
5233899--5233943	3	15.0	3	100	0	90	33	0	0	66	0.92
5235330--5235370	19	2.1	20	86	4	57	56	0	0	43	0.99
5238311--5238392	29	2.8	29	96	1	146	31	14	13	40	1.85
5240078--5240120	2	21.0	2	90	4	68	46	2	2	48	1.27
5240826--5240866	17	2.4	17	91	0	64	46	36	2	14	1.58
5240860--5240896	11	3.5	11	79	20	51	24	45	0	29	1.53
5244660--5244699	21	1.9	21	84	0	53	37	2	17	42	1.63
5245529--5245574	24	2.0	23	82	4	56	36	8	0	54	1.32
5249094--5249154	30	2.0	30	83	0	77	37	3	19	39	1.68
5249579--5249640	20	3.1	20	100	0	124	38	9	14	37	1.79
5249832--5249901	33	2.3	30	85	9	88	48	0	2	48	1.16
5249843--5249973	31	4.3	29	68	17	79	45	0	3	50	1.19
5249856--5249919	33	1.9	33	81	12	78	51	0	3	45	1.17
5249943--5249993	23	2.2	23	82	0	57	45	1	0	52	1.12
5249981--5250051	19	3.7	20	74	10	67	47	1	1	49	1.18
5250006--5250086	27	3.0	25	74	16	65	49	3	1	45	1.27
5250128--5250176	18	2.7	19	84	9	66	44	0	2	53	1.12
5250126--5250176	23	2.2	23	86	6	68	47	0	1	50	1.12
5250161--5250209	22	2.2	22	88	0	71	46	0	2	51	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5253523--5253564	17	2.4	18	76	4	50	38	0	2	59	1.10
5255742--5255783	21	2.0	21	100	0	84	38	9	0	52	1.34
5257287--5257399	35	3.3	35	67	14	108	26	11	6	55	1.59
5258191--5258287	38	2.6	37	83	4	124	42	8	15	34	1.77
5259737--5259774	2	19.0	2	100	0	76	50	0	0	50	1.00
5267490--5267558	24	2.9	24	82	0	84	18	11	14	55	1.69
5267717--5267772	2	28.5	2	89	3	87	48	0	3	48	1.19
5268164--5268230	29	2.3	30	94	5	127	28	5	11	53	1.61
5272243--5272314	24	3.0	24	79	0	81	16	12	18	52	1.74
5273329--5273428	50	2.0	50	100	0	200	26	20	24	30	1.98
5274754--5274891	31	4.5	31	92	3	219	38	23	19	18	1.93
5274754--5274891	61	2.3	60	91	3	215	38	23	19	18	1.93
5275507--5275551	21	2.1	21	87	0	63	15	24	28	31	1.96
5279229--5279301	24	3.0	24	79	0	83	20	8	17	53	1.69
5279185--5279301	48	2.4	47	80	9	121	22	9	15	52	1.70
5281937--5281986	18	2.7	18	93	3	82	50	22	6	22	1.70
5294811--5295025	107	2.0	107	100	0	430	30	29	15	24	1.96
5295108--5295243	42	3.2	42	94	2	229	19	16	16	47	1.82
5295465--5295519	22	2.5	23	82	5	60	50	1	1	45	1.22
5295533--5295674	50	2.9	48	72	17	132	47	0	2	49	1.18
5295623--5295686	32	2.0	31	81	3	74	48	1	1	48	1.20
5295770--5295828	27	2.1	28	84	9	77	50	3	0	45	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5295812--5295872	21	3.0	21	74	13	63	60	0	0	39	0.97
5295819--5295872	20	2.6	21	79	5	65	59	0	0	40	0.98
5299802--5299878	3	26.3	3	74	19	58	28	1	1	68	1.05
5299765--5299893	49	2.6	49	78	12	131	31	2	1	65	1.15
5299808--5299911	14	7.7	15	71	20	54	32	0	1	64	1.11
5300006--5300103	9	10.8	9	71	18	69	16	8	0	75	1.03
5300035--5300094	23	2.6	23	75	15	61	15	10	0	75	1.05
5300022--5300097	18	4.3	18	84	1	109	15	9	0	75	1.05
5300001--5300073	11	6.1	13	71	18	50	16	5	1	76	1.04
5300007--5300119	27	3.9	30	75	14	94	15	7	0	75	1.08
5300174--5300222	14	3.6	14	81	13	50	16	8	2	73	1.16
5306278--5306626	176	2.0	176	100	0	698	31	4	21	41	1.73
5306610--5306640	2	16.0	2	93	6	55	51	0	0	48	1.00
5306612--5306640	15	1.9	15	100	0	58	51	0	0	48	1.00
5311950--5312024	32	2.3	32	95	0	132	33	25	13	28	1.93
5316272--5316368	45	2.2	45	98	0	185	31	11	13	43	1.79
5316289--5316380	45	2.2	42	88	9	134	32	10	14	42	1.80
5324832--5324915	14	5.4	14	71	20	69	16	14	16	52	1.75
5324836--5324902	36	1.9	34	84	6	89	17	14	16	50	1.78
5329734--5329766	15	2.3	14	94	5	57	54	0	3	42	1.15
5335255--5335287	14	2.4	14	94	0	57	30	30	6	33	1.82
5340866--5340899	7	4.6	7	86	13	50	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5340860--5340935	18	4.3	18	74	21	72	40	1	0	57	1.07
5340879--5340943	21	3.3	21	68	22	59	43	1	0	55	1.09
5342825--5342868	23	1.9	23	95	0	79	38	20	4	36	1.73
5348318--5348428	23	5.0	23	68	17	72	50	2	0	45	1.22
5352348--5352388	2	20.5	2	100	0	82	51	0	48	0	1.00
5361427--5361477	11	4.3	12	83	11	70	58	0	5	35	1.22
5361430--5361482	24	2.2	24	93	0	88	54	0	5	39	1.24
5362887--5362912	9	2.9	9	100	0	52	46	23	7	23	1.78
5363027--5363065	17	2.4	17	95	4	71	43	0	5	51	1.24
5364082--5364118	16	2.4	16	90	4	58	54	8	5	32	1.53
5364110--5364223	60	1.9	60	85	3	158	37	7	21	34	1.80
5364463--5364504	21	2.1	19	91	8	66	28	2	0	69	1.01
5364636--5364665	14	2.1	14	93	0	51	46	10	6	36	1.64
5365051--5365080	8	3.6	8	91	8	51	40	0	0	60	0.97
5365649--5365676	13	2.2	13	100	0	56	46	0	0	53	1.00
5367132--5367204	23	3.2	23	94	0	119	39	21	4	34	1.73
5367621--5367693	23	3.2	23	92	0	119	38	21	5	34	1.77
5366733--5368054	489	2.7	490	96	0	2416	40	11	7	40	1.68
5368046--5368157	33	3.3	33	69	14	109	41	20	4	33	1.72
5367995--5368171	35	5.1	35	66	15	132	42	21	3	31	1.71
5367995--5368175	70	2.6	70	100	0	362	43	21	3	31	1.71
5368174--5368393	87	2.5	87	97	0	413	42	9	15	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5371722--5372108	183	2.1	182	90	1	596	34	15	12	36	1.86
5373305--5373349	3	15.0	3	80	0	54	24	33	4	37	1.76
5373309--5373357	12	4.1	12	91	0	71	22	30	6	40	1.78
5374582--5375727	200	5.8	200	91	4	1832	30	18	14	35	1.91
5375949--5376005	17	3.3	17	82	7	71	52	12	1	33	1.49
5375960--5376005	17	2.6	17	93	3	74	54	10	2	32	1.47
5377856--5377908	21	2.5	21	96	0	97	15	32	9	43	1.78
5380104--5380161	19	3.0	19	78	14	64	20	15	8	55	1.67
5380284--5380330	20	2.4	19	82	10	67	19	17	10	53	1.72
5380071--5380542	181	2.6	182	91	1	743	26	16	13	42	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