genome.fa.s8094.2.7.7.80.10.50.1000.42.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  42  of  43  ( 5090 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)
9377433--9377524	30	3.1	30	85	0	121	34	11	26	27	1.91
9378277--9378302	10	2.6	10	100	0	52	76	0	11	11	1.01
9381178--9381231	23	2.3	24	83	3	74	62	9	16	11	1.52
9381178--9381237	24	2.6	23	78	7	68	63	8	18	10	1.50
9382505--9382556	24	2.2	24	85	0	68	30	23	17	28	1.97
9389651--9389742	30	3.1	30	88	0	130	35	11	27	25	1.91
9391366--9391391	11	2.4	11	100	0	52	38	7	38	15	1.76
9391408--9391451	23	2.0	23	90	4	72	56	15	15	11	1.66
9392472--9392533	22	2.9	23	85	7	78	32	16	4	46	1.68
9392482--9392533	22	2.4	22	90	0	86	26	17	5	50	1.69
9392851--9392930	33	2.5	33	85	2	108	42	3	8	45	1.53
9393111--9393143	16	2.0	17	88	5	50	33	0	0	66	0.92
9393102--9393148	19	2.4	19	85	7	58	42	0	0	57	0.98
9394362--9394402	3	13.7	3	100	0	82	68	0	0	31	0.90
9397110--9397162	22	2.4	22	84	6	63	22	0	5	71	1.06
9397115--9397166	21	2.3	22	80	12	61	23	0	5	71	1.07
9405310--9405360	20	2.6	20	90	3	77	35	15	5	43	1.71
9410088--9410126	17	2.3	17	90	0	60	64	0	23	12	1.28
9413655--9413701	19	2.5	19	100	0	94	27	34	23	14	1.94
9413794--9413840	19	2.5	19	96	0	85	21	34	14	29	1.93
9415191--9415237	22	2.1	22	100	0	94	21	36	12	29	1.91
9416272--9416313	18	2.3	18	84	8	50	42	11	9	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9416373--9416414	17	2.5	17	88	0	66	45	11	11	30	1.77
9420322--9420367	18	2.6	18	89	0	74	43	13	6	36	1.69
9421705--9421745	16	2.6	16	96	0	73	65	7	21	4	1.37
9421869--9421905	16	2.3	16	95	0	65	18	16	0	64	1.29
9429249--9429350	34	3.0	33	73	13	107	38	18	13	29	1.89
9442692--9442732	14	2.9	14	88	3	55	78	2	17	2	0.98
9462026--9462099	3	24.7	3	94	0	130	32	1	1	64	1.10
9462507--9462571	19	3.4	19	76	2	67	69	9	20	1	1.24
9475221--9475265	18	2.6	18	89	6	67	31	6	6	55	1.52
9476016--9476594	83	6.9	83	96	1	1059	27	13	21	37	1.90
9476016--9476594	167	3.5	166	98	0	1095	27	13	21	37	1.90
9476016--9476594	250	2.3	250	96	0	1077	27	13	21	37	1.90
9477323--9477998	113	6.0	113	91	0	1030	37	13	18	29	1.90
9478316--9478404	3	29.7	3	95	0	160	32	1	1	65	1.08
9478812--9478876	19	3.4	19	76	2	67	69	9	20	1	1.24
9479760--9479798	20	1.9	21	84	5	53	43	2	2	51	1.29
9490736--9490791	23	2.3	25	81	9	80	64	12	14	8	1.50
9490778--9490816	10	4.0	9	87	12	51	82	0	15	2	0.79
9498346--9498651	155	2.0	156	80	7	345	37	27	11	23	1.89
9498678--9498741	24	2.7	24	82	4	76	45	18	10	25	1.82
9502971--9503275	154	2.0	156	84	5	404	36	29	12	22	1.90
9503307--9503389	24	3.5	24	80	3	96	44	16	13	25	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9503307--9503401	48	2.0	48	81	8	113	45	17	12	24	1.83
9507286--9507372	24	3.6	25	80	9	83	44	16	10	28	1.80
9509678--9509720	17	2.6	16	85	7	59	30	25	27	16	1.97
9510724--9511021	154	1.9	155	84	3	395	37	28	12	21	1.90
9512603--9512907	154	2.0	156	84	2	400	36	29	11	21	1.89
9514326--9514737	200	2.0	202	88	4	616	29	19	10	40	1.85
9516674--9516977	154	2.0	155	86	1	423	37	29	12	21	1.90
9517004--9517066	24	2.6	24	80	9	67	49	17	12	20	1.79
9521312--9521616	154	2.0	156	81	6	370	35	29	13	21	1.92
9521637--9521744	24	4.5	24	80	0	99	49	19	4	26	1.68
9525889--9526193	154	2.0	156	83	3	393	37	28	11	22	1.89
9526220--9526283	24	2.7	24	85	0	74	45	20	9	25	1.80
9526241--9526300	24	2.5	24	83	5	77	43	21	10	25	1.83
9531121--9531151	3	10.3	3	92	0	53	35	29	0	35	1.58
9535132--9535160	15	1.9	15	100	0	58	41	13	10	34	1.79
9554860--9554897	8	4.6	8	93	3	58	2	39	0	57	1.12
9563706--9563762	21	2.7	21	94	0	96	31	28	17	22	1.97
9563769--9563863	21	4.6	21	77	2	84	41	18	13	26	1.88
9564248--9564332	42	2.0	42	100	0	170	37	25	4	31	1.77
9568013--9568087	21	3.6	21	92	0	123	33	30	20	16	1.94
9574212--9574342	31	4.4	29	72	9	95	44	29	8	18	1.79
9575756--9575794	18	2.1	19	85	4	53	30	7	23	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9577527--9577562	9	4.0	9	92	0	63	25	0	52	22	1.47
9581514--9581562	10	4.7	10	82	12	55	2	8	8	81	0.94
9581514--9581550	19	1.9	19	88	0	56	0	5	8	86	0.70
9583801--9583846	7	6.9	7	85	9	69	28	30	26	15	1.96
9583808--9583850	13	3.2	13	90	3	68	27	30	25	16	1.97
9583800--9583846	20	2.3	20	89	7	69	29	29	25	14	1.95
9583840--9583897	17	3.4	17	100	0	116	18	24	39	17	1.92
9583891--9583943	19	2.8	19	97	0	97	24	32	26	16	1.97
9583891--9583960	9	7.3	9	73	12	59	28	30	24	17	1.97
9583893--9583945	10	5.5	10	80	8	65	28	32	22	16	1.96
9583892--9583961	19	3.6	19	90	1	77	28	30	22	18	1.98
9591114--9591163	7	7.4	7	91	8	86	24	30	30	16	1.96
9591118--9591163	13	3.5	13	96	3	83	23	30	30	15	1.95
9591114--9591163	20	2.5	20	93	6	84	24	30	30	16	1.96
9591153--9591193	17	2.4	17	91	0	64	17	24	39	19	1.92
9591187--9591257	19	3.7	19	92	1	106	26	29	25	18	1.98
9591189--9591257	9	7.1	10	76	12	72	27	30	23	18	1.98
9593166--9593216	26	2.0	26	88	0	75	41	11	1	45	1.52
9599696--9599752	26	2.2	25	93	3	96	43	8	0	47	1.34
9603500--9603546	24	2.0	24	84	12	62	65	4	6	23	1.33
9605358--9605416	29	2.0	29	90	0	91	45	11	16	25	1.82
9617878--9617997	63	1.9	63	81	6	145	27	29	25	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9625173--9625243	22	3.2	22	81	0	79	33	18	18	29	1.95
9625173--9625254	22	3.7	22	81	0	74	32	18	19	29	1.95
9627726--9627768	20	2.2	20	100	0	86	9	9	32	48	1.67
9627971--9628108	70	2.0	70	82	2	170	39	23	12	23	1.89
9629467--9629531	3	21.3	3	90	9	105	67	1	0	30	1.00
9632224--9632309	41	2.2	39	80	17	99	27	9	12	50	1.71
9637836--9637877	21	1.9	23	85	9	61	0	11	23	64	1.27
9638255--9638297	19	2.3	19	91	0	68	11	16	39	32	1.84
9638379--9638414	3	12.0	3	93	0	63	69	0	0	30	0.89
9638731--9639081	138	2.6	138	84	1	418	26	16	24	31	1.96
9639260--9639367	57	1.9	57	88	3	164	28	28	11	31	1.91
9648585--9648664	3	27.0	3	92	2	135	65	0	2	32	1.06
9649328--9649364	19	2.0	19	89	5	58	51	2	10	35	1.51
9662949--9662997	22	2.2	22	96	0	89	16	22	34	26	1.95
9666677--9666734	29	2.0	29	86	6	82	43	1	0	55	1.10
9666826--9666925	39	2.6	39	85	3	121	49	1	2	48	1.19
9669019--9669063	18	2.5	18	85	0	63	60	17	8	13	1.58
9671791--9671857	10	6.6	10	77	16	66	62	2	7	26	1.36
9671828--9671856	9	3.0	10	90	10	51	68	0	0	31	0.89
9679863--9680170	45	6.8	45	83	2	332	40	10	19	29	1.85
9679864--9680170	135	2.3	135	83	3	384	40	10	19	29	1.85
9679870--9680204	135	2.5	134	80	6	365	40	10	19	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9686846--9687147	45	6.7	45	83	3	342	39	10	19	30	1.85
9686846--9687147	135	2.2	134	84	2	392	39	10	19	30	1.85
9698063--9698125	24	2.6	23	78	14	56	25	23	19	31	1.98
9703520--9703624	30	3.5	30	94	2	185	10	9	17	62	1.52
9703522--9703606	15	5.7	14	75	16	82	8	10	16	64	1.47
9707968--9708027	27	2.2	27	87	0	84	31	15	10	43	1.79
9707976--9708028	27	2.0	27	92	0	88	30	16	11	41	1.84
9727183--9727522	49	6.9	49	91	3	522	40	16	19	23	1.91
9727183--9727522	148	2.3	146	91	2	538	40	16	19	23	1.91
9734245--9734584	49	6.9	49	91	0	536	37	15	20	25	1.93

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