genome.fa.s9634.2.7.7.80.10.50.1000.48.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  48  of  78  ( 9351 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)
9575202--9575230	15	1.9	15	100	0	58	17	6	0	75	1.01
9575400--9575458	20	3.0	20	82	0	55	20	18	18	42	1.90
9575595--9575649	25	2.2	24	81	9	65	20	7	18	54	1.66
9576778--9576822	18	2.5	18	85	0	63	26	42	15	15	1.87
9577309--9577364	20	2.8	20	81	2	69	41	21	21	16	1.90
9577353--9577410	14	3.9	14	75	16	62	48	22	17	12	1.80
9577337--9577427	32	2.8	33	91	3	157	47	20	18	13	1.82
9577337--9577432	19	5.6	19	67	25	79	45	20	19	13	1.84
9577446--9577520	14	4.7	15	81	15	55	12	17	21	49	1.78
9577460--9577578	19	6.5	18	77	15	102	14	21	21	43	1.87
9577422--9577536	51	2.2	52	90	4	180	13	19	21	46	1.83
9577521--9577576	20	2.8	19	86	7	76	16	25	23	35	1.94
9577942--9578030	42	2.1	42	85	0	124	21	43	14	20	1.87
9579447--9579482	14	2.6	14	90	0	54	30	0	22	47	1.52
9579609--9579662	14	3.5	14	77	22	63	48	20	20	11	1.80
9579686--9579781	20	4.8	20	77	10	97	17	19	20	41	1.90
9579686--9579781	40	2.4	41	80	5	115	17	19	20	41	1.90
9580004--9580061	20	2.9	20	89	0	80	25	20	24	29	1.99
9580298--9580331	12	2.9	12	86	4	52	17	41	5	35	1.74
9580886--9580939	24	2.2	24	86	0	72	24	16	18	40	1.90
9581114--9581150	12	3.1	12	100	0	74	72	0	27	0	0.84
9583442--9583565	19	7.3	19	63	25	80	43	18	22	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9583442--9583565	33	3.8	33	87	4	187	43	18	22	15	1.87
9583443--9583575	66	2.0	66	94	0	230	41	18	22	17	1.90
9583577--9583643	19	3.8	19	75	18	81	11	22	20	44	1.84
9583750--9583786	14	2.6	14	91	0	65	45	24	0	29	1.53
9585149--9585264	21	5.5	21	66	8	56	22	21	33	22	1.97
9585168--9585331	42	3.9	42	81	0	202	22	17	38	21	1.93
9585159--9585334	84	2.1	84	100	0	352	23	17	38	21	1.93
9585171--9585279	21	5.2	21	61	12	53	21	18	38	22	1.93
9585554--9585736	91	2.0	88	89	8	278	46	18	12	21	1.82
9587415--9587470	14	3.6	14	74	21	58	39	25	25	10	1.87
9587391--9587489	33	3.0	33	98	1	189	38	24	25	12	1.90
9587428--9587544	52	2.2	52	90	0	189	41	23	23	11	1.87
9587366--9587544	19	10.1	19	71	19	136	42	21	24	12	1.87
9587540--9587606	19	3.5	19	85	2	89	10	14	25	49	1.76
9588118--9588167	20	2.5	20	93	0	82	26	20	28	26	1.99
9588179--9588228	20	2.5	20	90	0	73	28	18	20	34	1.95
9588119--9588235	61	1.9	61	82	3	146	24	16	23	35	1.94
9588119--9588253	61	2.2	61	78	5	139	23	18	22	34	1.96
9588303--9588343	21	2.0	21	85	0	55	36	31	14	17	1.90
9591041--9591161	21	5.8	21	67	13	72	46	33	1	18	1.59
9591104--9591232	42	3.1	40	80	6	123	46	27	1	24	1.62
9591135--9591246	41	2.7	41	81	10	120	48	23	1	26	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9591167--9591238	21	3.5	21	73	3	58	48	25	1	25	1.59
9604732--9605011	117	2.4	116	89	2	400	20	13	28	37	1.90
9608524--9608565	19	2.2	19	83	8	50	45	19	7	28	1.76
9608479--9608590	57	2.0	56	82	8	138	42	16	9	31	1.80
9608594--9608669	19	3.9	20	69	17	61	47	22	0	30	1.52
9609140--9609180	3	13.3	3	84	5	55	36	2	0	60	1.10
9610481--9610851	148	2.6	143	74	13	327	39	7	8	45	1.62
9612210--9612279	36	1.9	36	88	0	104	38	18	11	31	1.86
9618988--9619146	75	2.1	75	86	0	219	30	17	18	32	1.95
9619936--9620153	54	4.0	53	78	10	244	38	12	21	27	1.90
9619936--9620153	108	2.0	108	84	5	289	38	12	21	27	1.90
9620514--9620597	22	3.8	22	90	0	96	34	15	13	36	1.86
9621261--9621462	45	4.5	45	94	0	359	23	23	19	33	1.97
9621261--9621517	90	2.9	90	88	2	360	25	23	19	31	1.98
9621780--9621817	3	12.3	3	94	5	67	34	0	0	65	0.93
9621780--9621816	19	1.9	19	100	0	74	32	0	0	67	0.91
9628054--9628128	38	2.0	38	83	0	96	21	8	16	54	1.67
9634111--9634180	3	22.7	3	85	5	95	65	1	0	32	1.01
9635220--9635366	59	2.5	59	96	1	267	33	11	16	38	1.85
9638452--9638514	21	2.9	21	83	4	63	33	26	22	17	1.96
9638474--9638514	21	2.0	21	90	0	64	34	26	19	19	1.96
9639550--9639589	21	2.0	19	85	9	53	32	30	12	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9642710--9642773	21	2.9	23	79	9	78	35	26	17	20	1.94
9643974--9644016	22	1.9	23	81	13	54	41	4	27	25	1.75
9645374--9645404	15	2.1	15	100	0	62	51	0	12	35	1.40
9646837--9646899	31	2.0	31	81	9	74	31	4	6	57	1.45
9647756--9647832	31	2.5	29	76	15	75	41	9	0	49	1.34
9647792--9647829	19	2.0	20	89	5	60	44	13	0	42	1.43
9649183--9649225	17	2.5	17	88	3	59	39	0	6	53	1.28
9651327--9651384	29	2.0	29	80	9	66	50	1	3	44	1.29
9655330--9655417	45	1.9	46	84	6	117	36	9	21	32	1.85
9655503--9655552	23	2.2	23	88	0	73	24	18	26	32	1.97
9655503--9655573	23	3.1	23	83	0	70	21	21	25	32	1.98
9655564--9655617	23	2.3	23	80	0	63	16	20	25	37	1.93
9661796--9661860	3	21.0	3	81	6	76	60	0	0	40	0.97
9661998--9662039	21	2.0	21	100	0	84	28	14	9	47	1.75
9662028--9662104	33	2.4	32	86	4	118	29	9	15	45	1.77
9664499--9664586	46	1.9	45	90	2	140	28	19	23	28	1.98
9667177--9667228	20	2.6	20	96	0	95	23	30	25	21	1.99
9667216--9667274	23	2.6	23	91	0	100	27	23	25	23	2.00
9673024--9673148	64	2.0	64	87	6	182	31	14	24	29	1.95
9677405--9677445	18	2.3	18	100	0	82	34	31	7	26	1.84
9679255--9679318	31	2.1	31	96	0	119	53	12	7	26	1.66
9681010--9681052	21	2.0	21	86	8	61	32	16	13	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9681223--9681270	16	3.0	17	79	14	57	31	8	18	41	1.80
9681353--9681477	23	5.4	23	78	2	99	18	20	24	37	1.94
9681353--9681454	46	2.2	46	80	0	114	18	19	23	38	1.93
9681628--9681697	2	35.0	2	100	0	140	50	0	0	50	1.00
9683778--9683850	21	3.6	21	70	15	64	31	0	1	67	1.00
9683778--9683850	10	7.3	10	72	14	53	31	0	1	67	1.00
9683815--9683848	14	2.5	14	90	4	52	23	0	0	76	0.79
9684980--9685015	5	7.0	5	87	6	54	16	0	2	80	0.83
9684981--9685016	16	2.2	16	95	0	63	13	0	2	83	0.76
9689571--9689604	15	2.3	15	94	0	59	38	23	5	32	1.79
9694770--9694852	32	2.6	31	74	7	87	28	28	27	14	1.95
9696014--9696091	21	3.6	22	76	11	81	32	15	26	25	1.95
9700581--9700663	12	6.7	12	74	17	80	42	0	1	56	1.07
9700579--9700672	20	4.6	20	70	17	75	41	0	1	57	1.06
9700589--9700659	26	2.8	25	83	12	85	46	0	1	52	1.09
9700585--9700667	13	6.4	14	70	20	65	42	0	1	56	1.07
9700673--9700732	19	3.2	19	77	15	54	36	1	0	61	1.06
9705251--9705308	28	2.1	28	100	0	116	24	31	24	20	1.98
9707146--9707423	138	2.0	138	95	0	493	28	19	15	37	1.91
9710922--9710966	19	2.4	19	77	3	56	53	2	0	44	1.13
9711434--9711474	22	1.9	21	90	5	64	73	2	0	24	0.96
9712955--9712989	14	2.6	13	86	8	52	45	2	2	48	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9713702--9713793	17	5.2	17	76	14	73	50	4	0	45	1.21
9713702--9713766	13	4.7	14	72	14	55	49	3	0	47	1.17
9713702--9713810	28	4.1	26	80	10	112	51	5	0	43	1.25
9713743--9713817	9	8.4	9	81	8	91	52	9	0	38	1.34
9713743--9713817	17	4.2	18	81	8	91	52	9	0	38	1.34
9713752--9713816	34	1.9	34	93	0	112	52	7	0	40	1.30
9713740--9713844	43	2.4	45	82	9	126	48	8	0	41	1.40
9713807--9713866	27	2.2	27	96	0	111	40	6	3	50	1.45
9713702--9713866	2	82.0	2	66	20	69	47	6	1	45	1.35
9714330--9714531	102	2.0	100	82	8	248	36	28	6	28	1.82

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78