genome.fa.s8620.2.7.7.80.10.50.1000.57.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  57  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)
11494990--11495166	18	9.8	18	91	1	266	41	25	0	33	1.56
11495167--11495998	6	144.2	6	86	11	1210	66	17	0	16	1.25
11495160--11495209	8	6.8	8	80	19	56	70	14	0	16	1.18
11496161--11496802	135	4.8	135	85	4	856	31	19	20	28	1.97
11500343--11500367	13	1.9	13	100	0	50	40	12	0	48	1.40
11500756--11500806	19	2.5	22	78	12	63	27	29	15	27	1.96
11514185--11514252	3	24.7	3	83	16	94	66	0	0	33	0.92
11517121--11517387	119	2.3	117	85	3	351	24	22	15	37	1.93
11521797--11521837	3	14.3	3	85	10	59	65	0	0	34	0.93
11526950--11526999	24	2.1	24	88	7	75	26	2	14	58	1.47
11530245--11530288	23	1.9	23	90	0	70	11	2	9	77	1.08
11530256--11530311	23	2.4	24	82	5	62	17	5	1	75	1.09
11536678--11536762	37	2.2	38	83	6	109	38	9	17	34	1.82
11538784--11538808	5	5.0	5	100	0	50	0	20	0	80	0.72
11538785--11538881	6	16.7	6	80	9	53	3	20	1	75	1.00
11538839--11538891	19	2.8	18	77	11	61	3	9	3	83	0.90
11544486--11544565	30	2.6	30	94	2	133	28	2	18	50	1.60
11545138--11545211	22	3.4	22	90	1	114	24	27	24	24	2.00
11552002--11552064	21	3.0	21	79	4	72	26	30	19	23	1.98
11552009--11552064	22	2.6	21	75	5	58	26	32	17	23	1.97
11553225--11553282	21	2.7	22	91	2	91	20	17	41	20	1.90
11553584--11553627	20	2.2	20	95	0	79	36	2	9	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11554697--11554735	18	2.2	18	95	0	69	38	15	0	46	1.46
11556922--11556961	21	1.9	21	85	10	55	50	7	10	32	1.64
11556999--11557044	19	2.3	20	85	3	67	34	4	6	54	1.46
11560098--11560218	21	5.7	21	79	8	138	23	19	35	21	1.96
11561465--11561495	2	15.5	2	100	0	62	51	0	0	48	1.00
11561495--11561522	2	14.0	2	100	0	56	50	0	50	0	1.00
11562704--11562755	20	3.1	16	82	17	61	28	25	5	40	1.78
11572647--11573092	225	2.0	224	87	0	640	39	9	17	32	1.82
11574286--11574512	43	5.3	43	72	13	150	27	19	22	30	1.98
11574809--11574870	21	3.0	21	85	4	72	0	37	19	43	1.51
11574830--11574915	21	4.1	21	76	5	68	2	37	17	43	1.62
11582176--11582201	12	2.2	12	100	0	52	30	0	42	26	1.56
11583316--11583431	42	2.8	39	75	12	97	34	21	18	25	1.96
11583316--11583429	41	2.7	40	77	11	104	34	21	17	26	1.96
11583418--11583507	41	2.2	41	82	9	103	34	21	14	30	1.93
11583827--11583916	41	2.2	41	84	4	119	31	21	16	31	1.95
11583839--11583918	40	2.0	41	90	2	126	32	20	16	31	1.94
11587669--11587711	19	2.3	19	84	8	52	55	0	6	37	1.27
11602683--11602732	24	2.1	24	85	7	66	20	2	18	60	1.46
11603208--11603238	16	1.9	16	100	0	62	12	16	0	70	1.16
11613586--11614063	182	2.6	182	87	2	665	43	12	16	28	1.83
11616351--11616381	15	2.1	15	93	0	53	22	6	58	12	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11628661--11628685	13	1.9	13	100	0	50	40	0	16	44	1.47
11629954--11630772	199	4.1	199	85	4	1080	41	12	14	31	1.84
11629954--11630799	396	2.1	398	88	3	1247	40	12	14	32	1.84
11633724--11633760	18	2.1	18	89	0	56	32	5	10	51	1.60
11633705--11633768	24	2.7	24	78	4	76	35	4	10	48	1.59
11635054--11635103	19	2.6	20	78	15	61	52	8	12	28	1.66
11635184--11635213	15	2.0	15	93	0	51	46	20	3	30	1.66
11635324--11636280	200	4.8	199	89	1	1400	38	14	15	31	1.87
11636250--11636293	21	2.0	23	86	8	65	27	6	11	54	1.61
11638574--11638624	23	2.2	23	89	0	75	31	21	9	37	1.86
11638584--11638633	23	2.2	23	92	0	82	30	18	14	38	1.89
11638429--11638821	158	2.5	158	92	0	651	31	15	12	39	1.85
11638732--11638782	23	2.2	23	85	0	66	31	21	7	39	1.82
11638742--11638791	23	2.2	23	88	0	73	32	18	10	40	1.83
11638819--11638869	23	2.2	23	93	6	86	35	21	7	35	1.83
11638726--11638890	87	1.9	86	93	1	285	32	15	9	42	1.79
11639982--11640030	10	4.7	10	75	9	53	59	20	10	10	1.59
11640779--11640810	14	2.3	14	94	0	55	50	25	15	9	1.74
11641367--11641498	60	2.2	60	83	4	160	37	13	13	35	1.85
11641811--11641849	20	2.0	19	85	14	53	35	0	0	64	0.94
11642416--11642480	25	2.6	25	95	0	112	30	12	21	35	1.90
11642675--11642882	114	1.8	114	82	8	271	31	1	12	53	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11643092--11643511	100	4.0	102	72	15	311	30	2	12	53	1.51
11642964--11643550	321	1.8	317	87	6	812	31	2	12	52	1.54
11645048--11645104	28	2.0	27	86	10	78	56	1	0	42	1.10
11645280--11645365	45	1.9	45	87	0	127	41	24	9	24	1.84
11645372--11645430	25	2.4	25	97	0	109	33	5	3	57	1.37
11652475--11652515	21	2.0	21	90	0	64	17	26	17	39	1.91
11653398--11653451	24	2.2	24	93	0	90	20	18	20	40	1.91
11655846--11655872	2	13.5	2	100	0	54	51	0	0	48	1.00
11656369--11656446	31	2.5	31	85	4	95	21	20	23	34	1.97
11656419--11656518	30	3.3	30	91	2	148	21	22	26	31	1.98
11658675--11658793	19	6.4	19	76	13	104	46	17	19	16	1.85
11658675--11658760	20	4.4	19	84	5	100	44	19	19	16	1.87
11658735--11658827	33	2.8	33	83	3	107	49	17	19	13	1.79
11663664--11663707	2	22.0	2	81	9	54	45	0	6	47	1.29
11665867--11665908	21	2.0	21	90	0	66	33	28	0	38	1.58
11668133--11668193	23	2.7	23	92	2	97	19	24	32	22	1.97
11676752--11677406	140	4.7	139	85	2	837	29	20	14	35	1.92
11686422--11686452	14	2.2	14	94	0	53	61	12	9	16	1.56
11687909--11687938	12	2.6	12	94	5	53	0	6	36	56	1.26
11688113--11688177	26	2.5	26	87	9	89	27	4	9	58	1.49
11690278--11690793	258	2.0	258	100	0	1032	32	18	20	29	1.96
11690852--11690918	35	1.9	35	81	6	82	25	5	1	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11691114--11691163	14	3.6	14	78	10	50	14	8	2	76	1.10
11693153--11693193	17	2.4	17	83	0	55	14	24	31	29	1.95
11695536--11695632	12	8.1	12	72	4	70	17	12	15	54	1.71
11695512--11695618	24	4.5	24	83	0	115	18	14	14	51	1.77
11697146--11697181	18	1.9	19	94	5	65	63	0	0	36	0.94
11701234--11701446	71	3.0	71	86	2	293	45	15	15	23	1.84
11703833--11703871	19	2.0	21	85	14	57	33	0	2	64	1.08
11707110--11707206	47	2.1	46	88	1	140	63	6	11	18	1.47
11708769--11708843	21	3.9	21	69	25	74	20	32	29	18	1.96
11708958--11708999	21	2.0	21	95	0	75	23	21	28	26	1.99
11709119--11709143	12	2.1	12	100	0	50	56	8	28	8	1.57
11709143--11709211	34	2.1	32	89	5	102	31	15	30	21	1.95
11711705--11711744	21	1.9	21	94	0	71	25	15	30	30	1.95
11712030--11712098	34	2.1	33	86	5	95	36	14	27	21	1.93
11713200--11713254	17	3.2	16	78	19	58	63	1	1	32	1.15
11713439--11713475	17	2.1	18	90	5	58	18	5	29	45	1.72
11716481--11717811	681	1.9	683	93	0	2270	31	16	22	29	1.96
11718381--11718458	33	2.3	35	80	12	101	62	15	1	20	1.39
11718394--11718467	33	2.2	32	81	13	80	63	12	2	21	1.40
11718488--11718520	13	2.4	14	85	10	50	69	9	0	21	1.15
11721519--11721564	17	2.9	15	81	12	56	50	13	8	28	1.70
11721517--11721572	15	3.6	15	79	9	67	46	12	10	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11722676--11722768	33	2.9	32	90	6	143	44	16	6	33	1.73
11731717--11731765	19	2.6	19	96	0	89	53	8	12	26	1.66
11739593--11739755	60	2.7	60	81	0	211	30	24	7	38	1.83
11740908--11741066	47	3.4	46	87	3	219	11	12	16	59	1.62
11746415--11746497	41	2.0	41	100	0	166	34	16	28	19	1.94
11751796--11751834	18	2.1	19	95	4	71	38	0	17	43	1.50
11758809--11758854	22	2.0	23	91	4	76	30	19	28	21	1.98
11758809--11758877	22	3.0	23	83	10	72	27	20	26	26	1.99
11764658--11764736	19	4.2	18	87	9	97	55	2	3	37	1.31
11764659--11764736	39	2.0	38	85	7	104	55	2	3	38	1.32

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