genome.fa.s8356.2.7.7.80.10.50.1000.42.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  42  of  56  ( 6656 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)
9793296--9793356	15	3.9	15	86	4	77	80	1	9	8	0.98
9794025--9794105	19	4.4	17	71	15	54	72	2	18	6	1.16
9794107--9794197	41	2.2	41	94	0	155	43	14	25	16	1.85
9794641--9794888	127	2.0	126	80	8	281	30	14	17	37	1.90
9803112--9803162	18	2.9	18	91	2	77	35	17	15	31	1.92
9805177--9805203	13	2.1	13	100	0	54	40	7	37	14	1.74
9805419--9805496	31	2.5	31	80	12	97	48	11	14	25	1.77
9806123--9806159	17	2.1	18	90	5	58	54	0	2	43	1.14
9806256--9806329	28	2.5	31	75	12	77	51	2	2	43	1.30
9807606--9807657	21	2.5	21	80	0	68	11	30	36	21	1.89
9810195--9810264	29	2.4	29	79	11	88	64	4	11	20	1.43
9810322--9810396	30	2.5	29	80	6	87	54	8	17	20	1.67
9812035--9812100	30	2.2	30	83	5	80	12	22	27	37	1.90
9812152--9812206	3	19.3	3	85	10	80	63	1	0	34	1.05
9812152--9812207	11	4.7	11	89	10	76	62	1	0	35	1.06
9812153--9812206	14	3.9	14	88	9	83	62	1	0	35	1.06
9812431--9812822	130	3.0	131	85	2	500	25	17	32	24	1.97
9812433--9812839	131	3.1	131	85	1	528	25	17	32	25	1.97
9812914--9812986	30	2.4	31	84	8	89	39	13	17	28	1.88
9812940--9813219	66	4.3	66	71	13	204	38	15	17	29	1.90
9812843--9813021	96	1.9	97	81	5	220	38	14	20	26	1.91
9812979--9813208	64	3.6	63	76	14	220	37	14	18	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9812981--9813218	130	1.8	132	85	5	342	38	15	17	28	1.90
9813309--9813407	33	3.0	33	93	0	162	28	23	18	30	1.97
9814504--9814530	14	1.9	14	100	0	54	33	0	22	44	1.53
9814544--9814764	95	2.3	95	80	3	239	32	18	25	24	1.97
9815110--9815258	59	2.5	59	96	0	280	33	12	18	35	1.88
9815262--9815294	2	16.5	2	100	0	66	51	0	0	48	1.00
9815618--9816008	68	5.8	68	91	0	631	30	15	24	29	1.96
9816028--9816483	79	5.8	79	92	0	743	37	9	23	29	1.87
9816451--9816550	45	2.2	46	81	3	121	48	8	17	27	1.74
9820201--9820327	53	2.5	52	92	5	215	30	10	22	37	1.87
9820665--9820994	68	4.9	68	90	0	545	31	15	24	29	1.95
9820665--9820994	135	2.4	136	92	0	563	31	15	24	29	1.95
9820277--9821711	717	2.0	717	98	0	2753	36	11	21	30	1.89
9821382--9821771	68	5.8	68	88	0	557	32	15	22	29	1.95
9821791--9822247	79	5.8	79	93	0	752	37	9	24	29	1.86
9822215--9822312	45	2.2	44	85	9	135	48	8	16	26	1.73
9826078--9826136	32	1.9	30	89	7	75	61	3	15	20	1.48
9827983--9828167	29	6.3	29	74	9	151	57	8	14	19	1.62
9827958--9828167	88	2.4	89	80	11	236	58	7	14	19	1.60
9827983--9828175	59	3.3	60	77	8	175	56	7	15	20	1.64
9827958--9828175	30	7.4	30	74	9	171	57	7	15	20	1.61
9837130--9837169	3	13.3	3	100	0	80	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9837617--9837669	28	1.9	27	84	3	70	43	15	11	30	1.81
9837851--9837936	31	2.8	31	98	0	163	44	5	18	31	1.74
9839365--9839438	36	2.0	38	92	5	125	44	2	8	44	1.47
9839402--9839457	24	2.3	24	100	0	112	44	3	8	42	1.53
9839365--9839483	60	2.0	60	90	6	188	46	2	7	43	1.45
9839469--9839512	2	22.0	2	100	0	88	50	0	0	50	1.00
9839499--9839583	35	2.5	35	78	16	97	42	3	11	42	1.58
9839497--9839581	36	2.4	36	79	15	97	43	3	11	41	1.58
9839626--9839689	17	3.5	17	69	26	51	17	6	0	76	0.98
9839653--9839688	12	3.1	12	92	4	56	16	0	0	83	0.65
9839631--9839689	11	5.0	11	71	28	50	16	6	0	76	1.00
9840320--9840349	9	3.3	9	95	0	51	0	13	0	86	0.57
9840316--9840360	17	2.8	16	80	6	56	8	13	0	77	0.98
9841157--9841198	18	2.3	19	84	12	61	61	4	9	23	1.45
9842901--9842947	22	2.2	21	82	10	60	6	14	2	76	1.08
9844584--9844773	99	1.9	99	91	0	308	33	16	19	30	1.94
9846328--9846537	65	3.3	63	79	13	223	31	23	19	25	1.98
9852323--9852401	21	3.6	22	77	14	83	26	24	22	26	2.00
9859733--9859776	21	2.1	21	86	0	61	9	40	15	34	1.79
9862496--9862616	36	3.3	36	89	5	190	47	2	7	42	1.44
9866208--9866239	15	2.3	15	89	10	50	46	3	15	34	1.62
9869729--9869792	3	21.3	3	100	0	128	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9873975--9874024	22	2.4	19	81	15	55	26	22	28	24	1.99
9879554--9879606	21	2.5	20	82	11	54	52	1	9	35	1.45
9888632--9888698	10	6.8	10	71	21	52	25	25	28	20	1.99
9888652--9888704	17	2.9	17	88	8	70	26	28	26	18	1.98
9891791--9891820	14	2.1	15	93	6	53	70	10	0	20	1.16
9899740--9899788	2	24.5	2	95	0	89	53	0	0	46	1.00
9906194--9906562	183	2.0	184	93	2	627	41	4	9	44	1.56
9909013--9909041	2	14.5	2	100	0	58	51	0	0	48	1.00
9909308--9909357	24	2.1	24	100	0	100	20	16	24	40	1.91
9914124--9914181	27	2.0	30	87	9	86	58	0	20	20	1.39
9915850--9915891	8	5.5	8	77	11	52	28	0	0	71	0.86
9915852--9915891	15	2.7	15	100	0	80	30	0	0	70	0.88
9916166--9916203	20	1.9	19	94	5	67	42	0	2	55	1.14
9917150--9917237	45	1.9	47	86	4	126	36	12	21	29	1.90
9922366--9922419	22	2.5	22	90	0	81	33	9	14	42	1.78
9923007--9923264	96	2.7	96	86	5	337	39	14	23	22	1.91
9923623--9923661	15	2.6	14	84	11	51	38	2	0	58	1.12
9925040--9925077	20	1.9	19	94	5	67	42	0	2	55	1.14
9934297--9934380	28	3.0	28	100	0	168	28	21	14	35	1.92
9937052--9937114	31	2.0	32	84	9	85	60	7	11	20	1.55
9938065--9938127	31	2.0	32	84	9	85	60	7	11	20	1.55
9939079--9939140	31	2.0	31	84	12	83	59	8	11	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9940092--9940153	31	2.0	31	84	12	83	59	8	11	20	1.57
9941106--9941167	31	2.0	31	84	6	81	58	8	11	22	1.59
9942119--9942180	31	2.0	31	84	12	83	59	8	11	20	1.57
9943133--9943195	31	2.0	32	84	9	85	60	7	11	20	1.55
9944146--9944208	31	2.0	32	84	9	85	60	7	11	20	1.55
9947943--9947989	24	2.0	24	91	0	76	31	6	25	36	1.81
9948281--9948630	83	4.2	83	86	1	434	36	18	17	28	1.94
9949969--9950090	17	7.1	17	70	18	92	37	13	9	39	1.77
9951069--9951127	21	2.8	21	73	21	59	38	3	5	52	1.40
9953792--9953869	2	39.0	2	100	0	156	50	0	0	50	1.00
9956564--9956615	2	26.0	2	100	0	104	50	0	0	50	1.00
9957573--9957622	23	2.1	23	92	3	82	48	18	20	14	1.82
9957579--9957622	23	1.9	23	100	0	88	45	18	22	13	1.84
9957579--9957633	23	2.4	23	90	0	83	43	20	21	14	1.87
9974221--9974249	2	14.5	2	100	0	58	48	0	0	51	1.00
9981868--9981920	8	7.0	7	78	21	54	79	1	16	1	0.92
9982553--9983214	106	6.4	106	86	4	909	34	23	19	22	1.96
9983699--9983770	35	2.1	35	97	0	135	41	11	19	27	1.85
9984145--9984184	18	2.3	18	83	8	57	25	5	2	67	1.23
9984437--9984471	2	17.5	2	100	0	70	48	0	0	51	1.00
9984588--9984664	41	1.9	39	86	5	109	16	28	6	48	1.71
9984746--9984774	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9989264--9989312	20	2.5	20	87	12	66	30	20	16	32	1.94
9990324--9990779	228	2.0	228	98	0	876	33	15	18	33	1.92
9994908--9994941	16	2.1	16	100	0	68	47	17	0	35	1.48
10003081--10003126	2	23.0	2	100	0	92	50	0	0	50	1.00
10007018--10007069	22	2.4	22	93	0	95	36	13	17	32	1.89
10007999--10008062	32	2.0	32	100	0	128	37	3	18	40	1.67
10011207--10011245	20	2.0	20	89	0	60	38	23	5	33	1.77
10022070--10022116	20	2.3	20	88	0	76	27	8	10	53	1.64
10023216--10023306	34	2.6	35	84	5	105	36	16	15	31	1.90
10023220--10023331	35	3.2	34	81	5	91	33	15	15	35	1.89

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