genome.fa.s8620.2.7.7.80.10.50.1000.34.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  34  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)
6827377--6827525	73	2.0	74	89	2	228	53	14	1	30	1.50
6829843--6829897	6	9.0	6	76	11	58	78	3	1	16	0.98
6830891--6830924	2	17.0	2	100	0	68	50	0	0	50	1.00
6831004--6831485	54	8.9	54	89	0	723	32	21	18	27	1.97
6832013--6832050	20	1.9	20	100	0	76	15	36	15	31	1.90
6837699--6837748	23	2.3	22	86	6	66	58	10	0	32	1.31
6838008--6838063	2	28.0	2	100	0	112	50	0	0	50	1.00
6838427--6838508	27	3.1	25	61	19	58	34	19	20	25	1.96
6838179--6838624	54	8.3	54	89	0	649	32	19	19	28	1.96
6840018--6840361	104	3.3	103	81	6	381	36	17	21	24	1.95
6840597--6840685	3	28.7	3	70	13	56	34	6	2	56	1.38
6840605--6840687	36	2.3	36	83	10	98	33	8	2	55	1.43
6840721--6840785	20	3.3	19	74	20	53	35	4	3	56	1.35
6840928--6840961	2	17.0	2	100	0	68	50	0	0	50	1.00
6841447--6841504	2	29.0	2	100	0	116	50	0	0	50	1.00
6843383--6843421	20	2.0	19	85	5	51	28	12	0	58	1.34
6849608--6849663	9	6.7	9	73	22	50	57	0	1	41	1.09
6849594--6849678	32	2.6	33	90	9	138	56	0	1	42	1.07
6852490--6852550	22	2.8	21	72	16	61	59	3	0	37	1.14
6853030--6853440	105	3.9	105	79	10	473	39	13	13	33	1.83
6853007--6853422	211	2.0	203	95	3	751	38	13	13	34	1.84
6861400--6861554	78	2.0	78	100	0	310	37	29	4	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6870979--6871011	17	1.9	17	93	0	57	39	0	30	30	1.57
6871263--6871297	6	5.7	6	93	6	61	0	17	0	82	0.66
6871263--6871297	13	2.8	12	91	8	61	0	17	0	82	0.66
6873785--6873809	10	2.5	10	100	0	50	28	16	0	56	1.41
6881369--6881404	14	2.6	14	100	0	72	30	13	0	55	1.39
6882127--6882168	20	2.1	20	86	0	57	7	16	2	73	1.15
6884454--6884481	2	14.0	2	100	0	56	50	0	0	50	1.00
6884538--6884632	3	31.7	3	81	8	95	60	0	6	33	1.22
6884538--6884641	22	5.0	21	79	8	95	59	0	5	33	1.28
6884729--6884781	20	2.7	19	82	11	63	56	0	0	43	0.99
6884729--6884793	20	3.3	19	83	12	62	56	1	1	40	1.18
6896399--6896489	42	2.2	41	77	11	105	34	15	15	35	1.89
6898457--6898547	41	2.3	39	79	7	94	21	19	20	37	1.95
6898667--6898693	2	13.5	2	100	0	54	48	0	0	51	1.00
6899784--6899843	30	2.0	30	96	0	111	30	5	20	45	1.72
6899924--6899981	21	2.8	21	97	0	107	22	36	17	24	1.95
6900044--6900179	21	6.6	21	93	0	222	19	33	18	28	1.96
6900533--6900595	33	1.9	33	93	0	108	33	15	28	22	1.95
6900597--6900695	20	4.8	21	96	1	166	20	35	17	27	1.94
6900628--6900688	12	5.7	12	70	29	57	19	36	18	26	1.94
6901060--6901130	34	2.1	33	89	2	106	32	15	29	22	1.95
6902593--6902627	4	8.8	4	100	0	70	22	0	0	77	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6903888--6903946	29	2.0	29	93	0	100	50	11	13	23	1.74
6914368--6914428	21	2.9	21	92	0	95	24	19	16	39	1.92
6914421--6914509	19	4.6	20	74	17	80	39	23	13	23	1.90
6914667--6914704	16	2.5	15	84	12	51	28	5	0	65	1.14
6915257--6915290	12	2.8	12	90	0	50	55	29	0	14	1.40
6915412--6915458	24	2.0	24	100	0	94	29	19	17	34	1.94
6918061--6918134	20	3.7	20	96	0	130	12	16	29	41	1.84
6918059--6918142	20	4.2	20	93	0	123	13	19	27	40	1.88
6918602--6918638	18	2.1	18	89	0	56	29	8	10	51	1.65
6918594--6918646	24	2.2	24	89	0	79	33	5	13	47	1.66
6918915--6919001	39	2.2	39	95	0	156	47	19	14	18	1.83
6919177--6919219	20	2.2	20	95	0	77	41	25	16	16	1.88
6919228--6919290	20	3.1	20	86	2	90	15	17	23	42	1.88
6919411--6919459	14	3.5	14	91	0	80	48	16	2	32	1.57
6919392--6919469	28	2.8	28	70	18	72	50	16	1	32	1.54
6920881--6920979	21	4.8	20	73	15	76	23	21	32	23	1.98
6920861--6920954	42	2.2	42	83	7	111	19	23	36	21	1.95
6920879--6920979	42	2.4	42	79	9	116	23	20	32	22	1.98
6921123--6921164	4	10.5	4	84	0	57	69	2	2	26	1.13
6923119--6923170	20	2.6	20	79	11	70	48	19	15	17	1.82
6923670--6923852	20	9.2	20	81	9	205	18	15	24	42	1.89
6923724--6923852	39	3.3	39	91	1	195	17	13	25	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6923670--6923867	59	3.3	59	87	5	258	17	15	24	41	1.89
6923864--6923914	21	2.5	20	78	6	66	37	19	19	23	1.94
6935573--6935624	21	2.3	23	77	12	63	19	26	26	26	1.99
6937823--6937899	31	2.5	31	78	2	82	15	24	29	29	1.96
6938381--6938562	90	2.0	90	100	0	364	24	11	20	43	1.85
6938516--6938575	26	2.3	26	100	0	120	23	10	15	51	1.72
6938516--6938597	26	3.1	26	89	5	94	28	9	13	48	1.74
6940911--6941814	200	4.6	200	80	7	1021	38	13	14	33	1.85
6941280--6941648	179	2.1	179	89	1	560	37	14	14	34	1.86
6941080--6941814	379	1.9	379	89	1	1125	37	14	13	34	1.85
6944753--6944822	6	11.7	6	84	6	79	30	11	8	50	1.68
6944754--6944821	24	2.8	24	88	4	93	30	10	8	50	1.67
6944753--6944822	30	2.3	30	97	0	131	30	11	8	50	1.68
6946032--6946604	229	2.5	226	92	1	932	31	17	14	36	1.90
6946231--6946603	118	3.2	118	70	16	362	29	17	15	37	1.90
6948611--6949119	253	2.0	255	97	2	972	37	17	14	30	1.89
6952205--6952940	189	3.9	189	82	5	797	33	15	18	32	1.92
6953706--6953749	7	6.3	7	86	7	63	0	43	0	56	0.99
6961848--6961952	44	2.4	43	79	4	122	32	25	12	29	1.92
6961980--6962078	43	2.3	43	80	0	108	33	25	15	26	1.95
6962156--6962260	37	2.8	37	82	0	129	40	13	14	32	1.84
6967589--6967709	61	2.0	62	96	3	228	47	19	21	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6967705--6967814	20	5.3	20	79	10	123	86	1	10	0	0.70
6967699--6967799	30	3.3	30	87	5	141	87	1	10	0	0.63
6967705--6967813	48	2.3	46	84	9	141	87	1	10	0	0.67
6967711--6967813	28	3.8	26	80	17	102	87	1	9	0	0.67
6967705--6967800	1	96.0	1	76	0	93	88	1	10	0	0.56
6968417--6968493	22	3.5	22	92	0	127	38	25	14	20	1.91
6969306--6970668	106	13.0	106	88	5	1910	33	25	18	22	1.97
6971390--6971494	37	2.8	37	88	0	156	40	15	15	29	1.88
6971889--6971997	19	5.5	19	70	17	60	33	2	1	62	1.20
6971942--6971995	21	2.7	19	78	18	56	35	1	0	62	1.06
6972233--6972266	2	17.0	2	100	0	68	50	0	0	50	1.00
6972281--6972321	15	2.6	16	81	14	50	14	7	0	78	0.96
6972272--6972340	25	2.8	24	73	20	61	15	10	0	73	1.08
6973169--6973249	41	2.0	41	90	0	126	29	18	20	30	1.97
6977504--6977533	15	2.0	15	100	0	60	33	0	0	66	0.92
6977688--6977724	18	2.1	18	89	0	56	37	13	16	32	1.87
6978289--6978332	23	1.9	23	86	9	63	31	9	15	43	1.79
6978356--6978522	87	1.9	86	86	1	217	43	12	9	34	1.75
6978799--6978834	17	2.1	17	94	0	63	38	5	8	47	1.57
6978963--6979006	23	1.9	22	86	9	61	36	11	18	34	1.86
6979038--6979184	76	1.9	75	91	1	240	33	13	10	42	1.79
6979169--6979240	23	3.1	23	93	0	117	34	12	18	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6979235--6979337	53	1.9	53	92	0	170	33	15	6	43	1.73
6981134--6981174	19	2.3	18	84	15	59	82	0	2	14	0.76
6981928--6982109	85	2.1	85	87	0	274	35	19	18	25	1.95
6982239--6982297	9	6.3	10	84	9	63	67	1	0	30	1.00
6982264--6982322	14	4.2	14	75	14	59	57	1	1	38	1.19
6982239--6982297	27	2.1	29	81	12	70	67	1	0	30	1.00
6982261--6982329	7	9.4	7	76	14	52	57	2	1	37	1.22
6982261--6982313	5	10.6	5	80	8	63	58	1	1	37	1.20
6982362--6982465	38	2.7	39	83	7	122	42	3	4	49	1.42
6982446--6982487	21	2.0	22	95	4	77	42	7	2	47	1.43

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