genome.fa.s8242.2.7.7.80.10.50.1000.46.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  46  of  73  ( 8740 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)
11001072--11001126	28	1.9	29	92	3	94	50	1	3	43	1.30
11001070--11001143	28	2.5	29	82	12	89	52	1	8	37	1.40
11009328--11009420	42	2.2	42	100	0	186	27	11	6	53	1.61
11009461--11009508	20	2.5	19	83	10	53	35	14	4	45	1.64
11013817--11013873	30	1.9	30	85	0	78	26	22	5	45	1.73
11018739--11018767	2	14.5	2	100	0	58	51	0	0	48	1.00
11019850--11020107	133	1.9	132	91	2	401	36	18	14	31	1.91
11020469--11020523	3	17.7	3	77	7	56	63	1	0	34	1.05
11023788--11023830	17	2.4	18	78	17	54	62	0	2	34	1.08
11042431--11042584	60	2.5	60	76	9	161	32	21	4	41	1.73
11042737--11042872	61	2.2	61	81	1	157	39	3	22	34	1.72
11043627--11043666	20	2.0	20	90	0	62	60	15	15	10	1.60
11043826--11043850	10	2.5	10	100	0	50	20	0	0	80	0.72
11050819--11050871	20	2.5	20	74	17	54	37	7	0	54	1.29
11051058--11051096	21	1.9	20	89	5	60	71	2	0	25	0.98
11054467--11054522	24	2.4	23	81	3	67	50	17	17	14	1.79
11059371--11059419	19	2.6	19	81	12	66	73	0	6	20	1.04
11059504--11059563	22	2.8	20	78	14	57	65	3	8	23	1.36
11059527--11059581	20	2.7	19	81	15	58	67	1	9	21	1.28
11059527--11059906	187	2.0	190	98	1	739	58	5	12	23	1.55
11059712--11059768	20	2.8	19	80	17	62	68	1	8	21	1.26
11059621--11059906	94	3.0	94	61	14	219	57	6	14	22	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11066678--11066850	87	2.0	88	94	1	303	37	11	6	44	1.66
11071791--11072114	85	3.8	84	85	2	400	35	19	18	27	1.95
11074430--11074463	14	2.5	14	90	4	52	23	0	0	76	0.79
11078287--11078332	19	2.4	19	96	0	83	30	36	13	19	1.90
11083346--11083436	44	2.1	44	85	0	119	23	20	26	29	1.99
11089552--11089607	26	2.2	26	83	0	67	41	21	14	23	1.89
11090620--11090687	24	2.8	24	75	0	64	25	17	14	42	1.87
11094848--11094928	24	3.4	24	77	0	81	24	13	18	43	1.86
11097865--11098151	82	3.5	82	79	8	291	33	15	20	30	1.94
11097868--11098012	41	3.5	40	75	15	152	32	16	20	30	1.95
11097919--11098044	41	3.1	40	77	16	134	30	15	20	32	1.94
11097919--11098140	80	2.8	79	76	12	220	33	15	20	30	1.94
11100151--11100186	18	2.0	18	100	0	72	11	38	11	38	1.76
11103953--11104095	44	3.2	44	83	0	178	29	24	17	28	1.97
11103907--11104095	88	2.2	86	78	1	207	28	24	17	29	1.97
11104059--11104227	43	4.0	42	77	4	160	32	21	17	27	1.96
11104849--11104941	46	2.0	46	93	0	159	34	8	12	44	1.74
11107248--11107286	18	2.2	18	100	0	78	28	28	10	33	1.90
11107548--11107589	21	2.0	21	100	0	84	19	19	14	47	1.82
11107696--11107725	3	10.0	3	92	0	51	33	3	0	63	1.11
11108202--11108252	27	1.9	26	88	4	75	50	11	25	11	1.72
11109315--11109348	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11109385--11109434	23	2.1	24	88	3	75	16	10	0	74	1.08
11109426--11109491	30	2.3	28	80	14	73	21	9	0	69	1.15
11111518--11111561	21	2.1	21	95	0	79	56	13	15	13	1.67
11113482--11113676	99	2.0	99	90	2	311	32	16	18	32	1.94
11115283--11115446	83	2.0	82	84	1	211	35	17	17	29	1.93
11118462--11118738	149	1.9	151	96	3	517	32	25	10	31	1.89
11121628--11121668	21	2.0	21	90	0	64	26	19	9	43	1.82
11129055--11129090	14	2.6	14	100	0	72	33	13	13	38	1.85
11135113--11135153	22	1.9	21	85	5	55	60	9	9	19	1.55
11135023--11135243	109	2.0	111	97	2	419	57	8	7	27	1.55
11136524--11136569	22	2.1	22	83	0	56	67	0	2	30	1.03
11138691--11139693	507	2.0	509	81	7	1178	37	11	12	38	1.79
11144222--11144408	92	2.0	92	100	0	374	32	10	19	38	1.85
11146625--11146666	10	4.1	10	93	3	66	7	19	2	71	1.20
11147414--11147469	14	3.8	14	73	19	51	53	1	1	42	1.21
11147417--11147457	11	3.7	11	86	0	55	58	2	0	39	1.11
11147419--11147458	19	2.1	19	86	9	55	57	2	0	40	1.12
11147659--11147902	114	2.1	116	86	6	336	32	15	20	31	1.94
11147802--11148263	67	6.9	67	91	1	703	29	16	23	30	1.96
11148509--11148871	183	2.0	180	96	2	674	26	15	18	40	1.90
11149613--11149652	6	6.8	6	88	11	57	0	17	0	82	0.67
11149614--11149651	11	3.4	11	82	17	51	0	18	0	81	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11153176--11153245	26	2.7	26	88	6	106	68	2	7	21	1.27
11162961--11162997	17	2.2	17	90	9	58	59	0	0	40	0.97
11162961--11162997	8	4.3	9	80	13	51	59	0	0	40	0.97
11162964--11163005	11	3.8	11	81	12	50	61	2	0	35	1.09
11163847--11163872	6	4.3	6	100	0	52	53	30	15	0	1.42
11163904--11163967	18	3.6	18	73	23	62	4	12	29	53	1.59
11175379--11175948	288	2.0	280	96	3	1043	30	12	27	29	1.92
11179387--11179413	3	9.0	3	100	0	54	0	0	33	66	0.92
11195648--11195702	23	2.4	23	90	3	85	12	29	7	50	1.67
11195888--11196018	6	21.7	6	80	12	99	6	16	0	77	0.98
11195915--11196018	27	3.7	27	80	8	100	5	19	0	75	1.01
11200187--11200224	16	2.4	16	86	8	51	60	2	21	15	1.47
11200463--11200496	17	1.9	18	88	5	52	23	23	11	41	1.87
11208563--11208625	28	2.2	28	100	0	126	17	14	33	34	1.90
11210996--11211036	20	2.0	20	86	9	57	34	12	24	29	1.91
11213930--11214073	60	2.4	60	84	4	184	34	19	4	41	1.73
11214153--11214310	60	2.6	60	84	6	176	41	5	21	32	1.75
11220082--11220139	30	1.9	30	86	6	82	27	5	1	65	1.23
11220359--11220422	27	2.4	27	89	0	101	64	0	0	35	0.94
11220365--11220413	15	3.5	15	70	16	50	61	0	0	38	0.96
11220382--11220418	18	2.1	17	90	5	56	67	0	0	32	0.91
11220859--11220923	31	2.1	31	91	0	103	23	9	10	56	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11222353--11222398	21	2.2	21	92	0	74	56	10	13	19	1.66
11237334--11237381	22	2.3	20	78	7	51	50	4	0	45	1.21
11238458--11238499	20	2.2	19	83	12	50	40	0	2	57	1.12
11241746--11241991	92	2.7	92	88	1	352	25	17	24	32	1.97
11242259--11242782	39	13.5	39	89	0	782	35	15	16	31	1.91
11242408--11242475	20	3.5	20	67	13	61	39	17	17	25	1.91
11242755--11242976	76	2.9	76	86	2	286	38	10	18	31	1.86
11242781--11242897	36	3.1	36	70	9	117	41	8	17	32	1.80
11265410--11265738	164	2.0	165	99	0	651	33	17	21	27	1.96
11267467--11267628	49	3.3	48	89	3	236	30	21	14	33	1.93
11267607--11267643	19	1.9	19	100	0	74	40	27	10	21	1.86
11267549--11267693	67	2.1	68	92	1	238	32	24	12	31	1.92
11267617--11267890	49	5.6	49	89	1	390	32	23	12	31	1.91
11267510--11267744	116	2.0	115	90	3	373	32	22	12	31	1.92
11267467--11267793	165	2.0	165	90	2	523	31	22	13	32	1.92
11270895--11270942	18	2.7	18	83	6	53	29	8	2	60	1.37
11270902--11270942	18	2.2	19	86	4	57	29	9	0	60	1.28
11272002--11272412	49	8.2	49	81	5	416	31	20	13	33	1.92
11274477--11274539	3	21.0	3	83	6	83	36	3	0	60	1.13
11274602--11274714	42	2.7	42	90	0	172	18	15	16	48	1.81
11275025--11275077	20	2.7	19	73	18	54	49	0	1	49	1.12
11275072--11275116	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11275484--11275526	21	2.0	21	90	0	68	27	23	9	39	1.85
11275470--11275538	36	1.9	35	94	2	120	30	21	7	40	1.80
11275460--11275505	15	3.1	15	75	6	58	30	17	8	43	1.79
11276771--11276798	13	2.2	13	100	0	56	28	0	0	71	0.86
11283617--11283705	45	1.9	47	90	4	146	28	10	23	38	1.87
11296647--11296870	42	5.1	42	71	13	164	29	20	20	29	1.98
11296778--11296802	13	1.9	13	100	0	50	32	24	20	24	1.98
11296798--11296872	22	3.5	21	70	15	64	26	20	21	32	1.97
11296790--11296853	20	3.1	20	68	16	58	25	23	23	28	2.00
11296790--11296996	42	5.0	42	69	9	174	28	20	23	27	1.99

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