genome.fa.s8620.2.7.7.80.10.50.1000.54.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  54  of  64  ( 7674 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)
10931256--10931728	181	2.6	182	90	1	716	43	14	16	25	1.86
10931635--10931695	20	3.1	19	79	9	68	55	11	14	18	1.68
10931658--10931700	20	2.3	19	88	11	63	51	11	16	20	1.75
10933887--10933951	21	3.1	21	93	0	103	41	10	30	16	1.83
10933985--10934050	33	2.0	33	87	0	96	30	0	46	22	1.52
10935844--10935892	19	2.6	19	93	0	80	30	2	10	57	1.43
10936011--10936989	200	4.9	200	96	0	1823	36	14	16	31	1.90
10938432--10938519	6	14.7	6	81	0	68	37	7	32	21	1.83
10938449--10938520	3	24.0	3	76	0	72	36	6	33	23	1.82
10938432--10938513	36	2.3	36	91	0	128	37	8	32	20	1.83
10938432--10938519	12	7.3	12	85	0	95	37	7	32	21	1.83
10940367--10940859	183	2.7	184	92	1	814	35	14	17	33	1.90
10943705--10943761	20	2.6	21	78	13	53	36	5	19	38	1.74
10943730--10943774	23	2.0	23	86	8	65	33	2	22	42	1.66
10944129--10944201	23	3.2	23	88	0	101	35	1	21	41	1.62
10943501--10944489	427	2.3	424	97	1	1847	41	6	11	40	1.69
10944497--10944552	23	2.4	23	90	0	94	35	5	21	37	1.76
10944497--10944559	23	2.7	23	83	9	83	33	4	22	39	1.75
10946078--10946164	27	3.2	27	80	9	106	41	33	3	21	1.70
10949065--10949122	3	19.7	3	84	10	75	67	0	1	31	1.01
10949586--10949716	2	66.0	2	98	1	255	49	0	0	50	1.00
10954130--10954503	21	17.6	21	79	13	175	33	23	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10954252--10954378	23	5.5	23	99	0	245	39	18	21	20	1.93
10954366--10954564	62	3.2	61	75	16	178	31	23	21	24	1.98
10954512--10954606	21	4.6	21	76	17	99	23	21	25	30	1.99
10954366--10954564	104	1.9	104	88	4	303	31	23	21	24	1.98
10954532--10954609	41	1.9	41	89	5	122	21	20	23	34	1.97
10954740--10954840	21	4.8	21	92	0	157	28	27	20	22	1.99
10954830--10954881	20	2.6	20	100	0	104	23	21	17	38	1.93
10954869--10955006	21	6.6	21	86	3	197	23	21	25	29	1.99
10954869--10955006	42	3.3	42	89	4	224	23	21	25	29	1.99
10958124--10958207	32	2.5	34	84	7	127	39	0	1	59	1.05
10960741--10960774	2	17.5	2	93	6	61	50	0	0	50	1.00
10970049--10970188	75	1.9	74	92	1	235	52	12	11	23	1.72
10971334--10971373	19	2.1	19	100	0	80	25	30	20	25	1.99
10972146--10972186	18	2.3	18	91	4	66	29	4	2	63	1.28
10980755--10980808	11	5.2	10	80	14	65	72	3	1	22	1.10
10980755--10980808	20	2.6	21	88	8	83	72	3	1	22	1.10
10980755--10980825	31	2.2	33	74	16	78	71	2	2	22	1.12
10982068--10982125	10	5.6	10	84	8	71	24	5	1	68	1.19
10982062--10982125	21	3.0	21	82	8	76	25	4	1	68	1.17
10987077--10987130	26	2.1	26	100	0	108	37	3	31	27	1.75
10994244--10994395	60	2.6	59	78	9	175	28	23	5	41	1.78
10994522--10994634	60	1.9	59	81	5	138	37	5	23	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10994564--10994681	60	2.0	61	80	11	136	44	3	17	34	1.66
10994755--10994784	13	2.3	13	100	0	60	63	16	13	6	1.50
10996457--10996496	21	1.9	21	89	0	62	32	12	2	52	1.52
10996385--10996557	82	2.1	80	81	4	195	34	10	1	53	1.43
10996384--10996571	30	6.7	29	69	19	107	36	10	1	52	1.42
10996566--10996660	36	2.7	36	83	4	113	37	1	2	58	1.17
10997724--10997769	20	2.3	20	85	7	58	45	2	6	45	1.41
10999981--11000217	117	2.0	116	85	4	316	47	7	15	29	1.72
11000674--11000730	22	2.6	20	76	17	60	71	1	12	14	1.21
11000718--11000755	14	2.6	14	91	4	58	73	5	2	18	1.14
11000864--11000902	2	19.5	2	100	0	78	51	0	0	48	1.00
11000992--11001033	18	2.4	18	92	4	68	76	0	2	21	0.90
11002293--11002329	19	1.9	19	94	0	65	45	0	2	51	1.15
11002709--11003303	251	2.4	249	86	0	812	26	15	22	36	1.93
11009932--11009962	12	2.6	12	94	0	53	9	41	22	25	1.84
11015405--11015525	57	2.2	55	86	5	163	70	4	9	14	1.31
11015442--11015536	14	6.6	14	74	12	68	69	6	7	16	1.33
11015586--11015650	25	2.7	23	73	17	60	63	1	4	30	1.24
11015640--11015666	2	13.5	2	100	0	54	51	0	0	48	1.00
11015759--11015804	19	2.3	19	85	11	56	71	0	2	26	0.97
11016204--11016253	23	2.2	23	96	0	91	26	22	28	24	1.99
11017086--11017122	19	1.9	19	94	0	65	45	0	2	51	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11021082--11021133	22	2.4	21	81	12	61	26	17	19	36	1.94
11025054--11025232	87	2.1	87	95	0	322	30	2	9	57	1.43
11032303--11032340	20	1.9	20	94	0	67	31	34	15	18	1.92
11039933--11040112	65	2.8	64	82	2	218	31	22	15	30	1.95
11040091--11040217	54	2.4	54	90	2	211	29	20	17	32	1.95
11045483--11045558	35	2.2	35	100	0	152	35	21	15	27	1.94
11047100--11047203	52	2.0	52	92	0	172	38	17	17	26	1.92
11047913--11047977	3	22.0	3	76	14	64	29	1	6	63	1.28
11047979--11048018	11	3.6	11	86	0	53	82	0	0	17	0.67
11048221--11048492	136	2.0	135	89	2	411	27	18	21	31	1.97
11048614--11048642	14	2.1	14	100	0	58	44	6	27	20	1.77
11049896--11049922	14	1.9	14	100	0	54	77	0	0	22	0.76
11053252--11053276	13	1.9	13	100	0	50	72	0	0	28	0.86
11065800--11065833	1	34.0	1	87	0	50	94	5	0	0	0.32
11066909--11067276	131	2.9	124	87	9	539	33	25	19	20	1.96
11066908--11067276	63	5.8	64	86	10	524	34	25	19	20	1.96
11066915--11067319	63	6.4	63	83	10	330	33	26	19	20	1.97
11067227--11067442	104	2.1	105	89	2	328	33	25	20	20	1.97
11068600--11068647	23	2.1	23	100	0	96	16	20	41	20	1.90
11068631--11068684	27	2.0	27	100	0	108	25	25	29	18	1.98
11069233--11069265	2	16.5	2	100	0	66	48	0	0	51	1.00
11069592--11069629	13	3.0	13	84	3	51	7	10	2	78	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11072070--11072118	21	2.3	21	92	0	89	20	20	24	34	1.96
11077840--11077898	21	2.7	22	78	5	66	27	22	23	27	1.99
11077829--11077901	23	3.3	22	76	7	85	26	24	23	26	2.00
11078284--11078330	23	2.0	23	88	8	69	57	4	8	29	1.48
11079789--11079855	27	2.5	27	97	2	127	23	5	23	46	1.74
11079863--11079911	22	2.2	23	88	3	73	18	0	28	53	1.45
11080564--11080720	66	2.4	64	82	4	190	27	21	19	31	1.97
11083253--11083286	3	11.3	3	87	0	50	35	26	32	5	1.81
11083253--11083289	12	3.1	12	100	0	74	35	24	32	8	1.85
11084737--11084767	16	1.9	16	93	0	53	48	25	12	12	1.77
11084795--11084894	11	9.0	11	73	10	78	32	22	17	29	1.96
11084829--11084887	22	2.7	22	100	0	118	35	22	15	27	1.94
11087127--11087165	7	5.6	7	84	0	51	20	0	30	48	1.50
11087623--11087709	19	4.5	18	74	17	77	40	0	2	57	1.11
11087624--11087743	11	11.7	11	66	21	55	38	1	2	57	1.22
11087623--11087708	29	2.9	29	89	3	136	39	0	2	58	1.11
11088854--11089026	85	2.0	85	98	0	337	39	15	15	29	1.89
11090765--11090817	27	2.0	27	84	0	70	39	9	1	49	1.46
11092050--11092134	44	1.9	44	82	0	107	30	18	17	32	1.95
11094466--11094590	40	3.1	40	81	6	128	33	14	20	31	1.93
11094658--11094778	38	3.1	38	81	8	91	33	16	18	32	1.93
11094701--11094778	38	2.1	38	92	4	131	33	15	17	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11096740--11096779	12	3.3	12	89	0	62	52	15	25	7	1.68
11100399--11100554	41	3.7	43	81	6	149	25	17	21	35	1.95
11100572--11100669	44	2.2	43	80	8	117	24	20	23	31	1.98
11100583--11100668	44	2.0	44	86	4	120	27	22	19	30	1.98
11100803--11100861	21	2.8	21	84	0	73	52	20	3	23	1.61
11102144--11102205	22	2.9	21	81	11	72	48	20	8	22	1.76
11105261--11105680	41	10.2	41	79	5	328	32	18	19	29	1.96
11105261--11105556	82	3.6	82	86	1	378	32	18	19	29	1.96
11108388--11108442	21	2.6	21	85	0	74	20	25	18	36	1.94
11108430--11108482	20	2.7	20	93	0	88	35	18	20	24	1.95

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