genome.fa.s8488.2.7.7.80.10.50.1000.38.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  38  of  54  ( 6450 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)
9165343--9165393	16	3.0	18	70	24	56	11	23	17	47	1.81
9165878--9165944	21	3.2	21	66	6	55	23	35	20	19	1.95
9165826--9165944	42	2.8	42	81	5	107	22	36	18	22	1.95
9167297--9167332	14	2.6	14	95	0	63	33	0	22	44	1.53
9167443--9167537	33	2.9	33	83	0	109	48	21	16	13	1.81
9167487--9167513	14	1.9	14	100	0	54	48	22	14	14	1.81
9167501--9167547	19	2.5	19	89	0	76	44	27	12	14	1.82
9167543--9167694	19	8.7	19	63	21	82	13	21	19	45	1.85
9167547--9167640	33	2.8	33	91	0	161	12	22	19	45	1.83
9167653--9167679	14	1.9	14	100	0	54	18	14	22	44	1.86
9170016--9170051	14	2.7	13	83	8	54	8	16	22	52	1.70
9170251--9170305	24	2.3	24	83	0	65	34	20	18	27	1.95
9171104--9171336	20	11.6	19	71	13	114	21	18	22	37	1.94
9171112--9171321	40	5.2	40	89	4	255	21	18	21	38	1.94
9171110--9171321	60	3.5	60	80	7	241	21	18	22	37	1.94
9181109--9181149	21	1.9	22	90	5	66	43	26	4	24	1.74
9183187--9183272	28	3.0	28	72	14	68	33	15	5	45	1.70
9197527--9197638	56	2.0	56	100	0	224	41	19	7	32	1.79
9203909--9203946	9	4.2	9	100	0	76	10	31	10	47	1.72
9204807--9204832	13	2.0	13	100	0	52	38	38	7	15	1.76
9205889--9206396	253	2.0	255	99	0	1002	26	31	20	22	1.98
9211878--9211962	40	2.2	39	86	2	116	20	14	25	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9215104--9215146	19	2.4	17	82	14	59	53	0	0	46	1.00
9215109--9215146	19	2.0	20	94	5	69	57	0	0	42	0.98
9214786--9215251	228	2.0	228	90	4	738	35	10	15	38	1.83
9222117--9222467	175	2.0	176	98	0	686	20	23	10	45	1.82
9226527--9226650	62	2.0	61	98	1	239	24	27	21	26	1.99
9227464--9227562	42	2.4	41	78	11	112	32	22	16	29	1.95
9229405--9229733	161	2.0	165	95	4	596	42	13	12	30	1.82
9231006--9231057	22	2.4	22	100	0	104	44	0	3	51	1.19
9231966--9232016	26	1.9	27	84	11	70	21	1	15	60	1.44
9231986--9232034	20	2.4	20	83	12	64	22	2	14	61	1.43
9242382--9242510	30	4.4	30	79	9	140	35	3	20	40	1.69
9243088--9243139	21	2.5	21	81	3	61	38	19	25	17	1.93
9243128--9243241	20	5.7	20	81	6	122	31	24	18	25	1.97
9243125--9243241	61	1.9	61	87	0	171	33	23	17	24	1.97
9243797--9243838	19	2.2	19	91	0	66	52	26	16	4	1.63
9243834--9244037	19	11.1	19	75	13	185	12	21	20	45	1.83
9243834--9244037	33	5.6	38	78	11	155	12	21	20	45	1.83
9243980--9244037	20	2.9	19	82	7	62	13	24	18	43	1.87
9246039--9246160	42	2.9	42	80	2	120	22	36	17	22	1.94
9246095--9246160	21	3.1	21	67	4	53	24	36	19	19	1.95
9246757--9246809	24	2.2	24	86	0	70	37	18	18	24	1.94
9247867--9247904	20	1.9	20	94	0	67	39	23	21	15	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9247923--9248009	19	4.8	19	90	9	139	13	21	17	47	1.82
9247923--9248038	33	3.4	33	84	11	151	13	22	19	43	1.86
9248126--9248162	14	2.6	14	86	0	56	48	21	0	29	1.50
9250031--9250097	19	3.5	19	81	4	80	38	23	22	14	1.92
9250086--9250143	14	3.9	14	79	16	71	48	25	17	8	1.75
9250070--9250148	32	2.4	33	95	2	142	46	24	18	10	1.80
9250177--9250234	14	3.9	14	75	16	62	12	15	24	48	1.79
9250160--9250250	32	2.8	33	89	3	148	14	17	20	47	1.82
9250235--9250278	20	2.3	19	84	11	54	20	25	15	38	1.92
9250771--9250815	18	2.5	18	88	0	72	13	15	44	26	1.83
9252135--9252177	20	2.2	20	95	0	77	53	18	18	9	1.70
9252456--9252499	22	2.0	22	95	0	79	18	15	45	20	1.85
9252667--9252762	20	4.7	21	70	12	65	23	16	21	37	1.93
9252666--9252764	41	2.4	41	81	0	126	24	16	21	38	1.93
9252730--9252823	41	2.3	41	85	3	118	21	24	18	36	1.95
9252750--9252842	20	4.6	20	78	4	96	19	24	16	39	1.91
9252753--9252842	41	2.2	41	95	0	162	20	24	15	40	1.91
9259514--9259556	17	2.4	18	96	3	79	16	51	23	9	1.73
9259533--9259562	13	2.3	13	100	0	60	16	46	23	13	1.82
9259571--9259698	29	4.4	30	87	3	172	32	5	22	39	1.77
9259580--9259726	59	2.5	58	82	4	170	33	5	20	40	1.75
9259576--9259726	29	5.2	30	81	9	134	33	5	19	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9260472--9260504	15	2.2	15	89	10	50	21	18	12	48	1.80
9264973--9265050	21	3.8	21	78	8	70	34	21	15	28	1.94
9270933--9270971	16	2.4	16	95	0	69	51	10	15	23	1.73
9271212--9271287	34	2.3	34	82	15	88	40	2	5	51	1.38
9277300--9277918	320	1.9	320	87	1	902	26	20	17	35	1.95
9278984--9279041	27	2.1	27	81	12	66	48	17	13	20	1.81
9280062--9280144	24	3.5	24	80	6	87	19	18	18	44	1.87
9286747--9286799	26	2.0	26	85	7	72	43	16	20	18	1.88
9286754--9286799	13	3.5	13	84	3	65	41	17	21	19	1.90
9294755--9294799	22	2.0	22	83	8	56	13	31	6	48	1.68
9295259--9295373	60	1.9	60	85	7	162	38	6	1	53	1.38
9296761--9296791	8	3.9	8	100	0	62	48	0	0	51	1.00
9301392--9301440	19	2.6	18	81	9	62	73	2	2	22	1.04
9301390--9301444	23	2.4	22	81	6	56	72	1	1	23	1.04
9304082--9304128	20	2.4	20	86	10	62	72	0	8	19	1.10
9304136--9304177	12	3.8	11	81	12	59	78	9	2	9	1.05
9305465--9305500	18	1.9	19	88	5	56	80	0	2	16	0.83
9306236--9306410	76	2.3	73	81	7	190	58	10	1	29	1.42
9319735--9319793	31	1.9	31	96	0	109	27	28	10	33	1.89
9327203--9327252	23	2.2	23	92	0	82	34	18	36	12	1.87
9333300--9333358	24	2.5	24	94	0	109	15	44	0	40	1.46
9345358--9345400	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9359076--9359243	90	1.9	90	85	5	232	33	16	14	35	1.89
9361405--9361909	73	6.9	73	93	1	861	31	16	12	40	1.85
9361405--9361907	220	2.3	220	93	1	859	31	16	12	40	1.85
9362783--9362836	28	1.9	28	85	7	74	20	3	3	72	1.16
9369299--9369342	22	2.0	22	95	0	79	27	34	4	34	1.77
9381959--9381990	2	16.0	2	100	0	64	50	0	0	50	1.00
9388144--9388481	169	2.0	169	100	0	676	30	26	14	28	1.95
9392659--9392691	14	2.4	14	94	0	57	15	6	27	51	1.66
9396269--9396316	4	11.8	4	78	12	53	25	0	2	72	0.95
9396281--9396322	13	3.2	13	89	0	66	26	2	0	71	0.98
9396246--9396316	17	4.4	16	73	19	58	23	2	1	71	1.07
9402650--9402693	13	3.3	13	87	9	54	9	18	0	72	1.10
9403607--9403631	13	1.9	13	100	0	50	32	24	16	28	1.96
9406745--9406791	18	2.7	18	90	3	69	29	29	6	34	1.82
9407454--9407485	11	2.9	11	95	0	55	28	12	25	34	1.92
9421818--9421859	13	3.5	13	75	18	54	45	0	9	45	1.36
9421812--9421859	23	2.1	23	100	0	96	45	0	8	45	1.33
9421984--9422036	19	2.8	19	97	0	97	33	15	18	32	1.92
9421880--9422187	170	1.8	168	90	2	501	37	9	17	34	1.83
9422149--9422228	39	2.0	40	85	2	108	40	12	16	31	1.85
9423459--9423518	23	2.6	23	78	5	68	51	3	3	41	1.35
9424457--9424509	22	2.5	22	96	3	99	15	24	43	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9426599--9426701	21	4.7	22	86	3	111	19	26	31	23	1.98
9435437--9435696	55	4.7	55	90	0	378	37	13	16	32	1.88
9435902--9436605	81	8.7	81	90	0	1023	35	11	25	28	1.90
9446126--9446152	12	2.2	12	100	0	54	33	14	7	44	1.73
9446962--9447101	42	3.4	41	71	15	108	27	15	20	36	1.93
9447082--9447331	132	1.9	133	83	7	330	33	16	20	30	1.94
9447203--9447363	82	2.0	82	83	3	207	33	12	20	33	1.90
9448835--9448936	43	2.4	43	88	0	150	28	19	19	32	1.96
9450503--9450588	31	2.8	32	87	7	133	31	24	23	20	1.98
9451485--9451521	11	3.4	11	100	0	74	16	29	16	37	1.90

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