genome.fa.s7984.2.7.7.80.10.50.1000.31.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  31  of  65  ( 7696 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)
6223962--6224193	124	1.9	122	81	7	279	41	17	17	23	1.90
6224335--6224383	3	16.0	3	80	19	57	36	0	0	63	0.95
6224335--6224380	12	3.8	12	88	11	67	36	0	0	63	0.95
6225973--6226022	23	2.0	26	85	11	70	46	2	0	52	1.12
6233045--6233124	39	2.1	39	80	0	88	46	3	10	40	1.55
6239037--6239082	23	2.0	23	86	4	65	34	0	0	65	0.93
6239816--6239904	16	5.1	16	75	17	79	42	0	1	56	1.06
6240717--6240763	22	2.1	23	88	4	69	38	17	2	42	1.61
6240759--6240822	27	2.4	27	100	0	128	39	14	6	40	1.71
6243607--6243704	42	2.4	41	77	5	108	32	20	23	23	1.98
6243851--6243966	42	2.8	42	81	1	126	30	23	19	26	1.98
6243451--6244330	259	3.5	254	86	6	1185	33	16	16	33	1.91
6244142--6244215	20	3.6	20	70	13	60	36	22	18	21	1.95
6245452--6245509	24	2.4	25	82	8	66	60	3	3	32	1.30
6246433--6246502	14	5.2	14	74	20	53	2	20	1	75	1.00
6246440--6246489	12	4.1	12	76	19	50	4	22	2	72	1.12
6248711--6248768	21	2.9	18	75	20	62	17	24	34	24	1.96
6248807--6248846	20	2.0	20	95	0	71	12	25	32	30	1.92
6275831--6275875	23	2.0	23	86	0	63	20	26	26	26	1.99
6279088--6279124	18	2.1	18	95	5	67	21	16	48	13	1.80
6281208--6281268	30	2.2	28	80	13	72	22	21	16	39	1.92
6282429--6282470	11	3.8	11	100	0	84	9	0	0	90	0.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6282429--6282485	8	6.7	9	81	4	57	12	1	0	85	0.66
6283336--6283631	153	1.9	153	85	1	405	27	12	19	40	1.88
6285484--6286196	355	2.0	356	99	0	1410	36	15	18	29	1.92
6287101--6287136	17	2.2	16	90	9	63	38	11	11	38	1.76
6287065--6287160	39	2.4	41	86	5	135	40	13	13	32	1.84
6287118--6287178	24	2.5	24	82	10	88	40	16	14	27	1.88
6304996--6305269	133	2.1	133	95	0	505	25	15	26	32	1.95
6329798--6329829	1	32.0	1	100	0	64	100	0	0	0	0.00
6333482--6333521	20	2.0	20	90	5	62	60	12	0	27	1.33
6335599--6335656	20	2.9	20	80	10	66	60	1	0	37	1.07
6339526--6339639	20	5.8	20	74	9	81	35	28	14	21	1.93
6339583--6339648	20	3.3	20	86	0	87	42	24	15	18	1.88
6339526--6339648	40	3.1	39	71	3	102	38	26	14	20	1.91
6340279--6340350	20	3.6	20	88	3	92	12	13	20	52	1.73
6342036--6342085	21	2.4	21	75	0	55	22	14	28	36	1.92
6342495--6342555	21	2.9	21	75	20	56	27	36	11	24	1.90
6344101--6344138	20	1.9	20	94	0	67	13	15	23	47	1.81
6344107--6344146	20	2.0	20	90	0	62	15	20	22	42	1.88
6344121--6344208	34	2.6	34	90	3	142	18	21	21	38	1.93
6346772--6346825	24	2.2	24	93	0	90	40	20	18	20	1.91
6347525--6347563	15	2.5	15	83	4	51	66	0	5	28	1.12
6347561--6347604	22	2.0	23	82	8	56	34	6	34	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6347700--6347852	20	7.8	20	81	7	136	24	13	22	39	1.90
6347702--6347776	38	2.0	38	84	5	98	32	12	20	36	1.89
6347725--6347792	19	3.5	19	93	4	109	29	13	22	35	1.92
6347740--6347866	60	2.1	59	82	8	150	21	13	24	40	1.89
6347780--6347866	20	4.3	20	87	8	115	18	12	25	43	1.85
6347861--6347906	20	2.3	20	92	0	74	23	19	21	34	1.96
6347801--6347886	40	2.2	40	81	8	95	22	15	22	40	1.90
6358473--6358522	21	2.3	22	87	12	77	34	16	26	24	1.95
6361546--6361708	66	2.5	64	80	8	154	33	19	22	24	1.97
6362257--6362334	22	3.5	22	92	0	120	16	24	30	28	1.97
6366503--6366558	22	2.5	22	82	0	76	16	25	28	30	1.96
6366543--6366577	18	1.9	18	94	0	61	20	20	34	25	1.96
6369154--6369205	21	2.5	21	83	0	59	36	17	17	28	1.92
6371361--6371414	19	2.8	19	88	2	81	24	35	18	22	1.96
6371401--6371430	15	2.0	15	93	0	51	20	30	23	26	1.98
6371537--6371587	21	2.4	21	100	0	102	23	27	23	25	2.00
6372941--6372980	19	2.1	19	86	9	55	22	0	22	55	1.44
6373946--6373989	2	22.0	2	100	0	88	50	0	0	50	1.00
6382876--6382904	14	2.1	14	100	0	58	44	6	20	27	1.77
6385214--6385251	2	19.0	2	100	0	76	50	0	0	50	1.00
6385248--6385291	23	1.9	23	95	0	79	43	0	4	52	1.22
6385607--6385638	3	10.7	3	93	0	55	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6386887--6386945	3	19.0	3	86	6	82	62	0	3	33	1.12
6387205--6387534	73	4.5	73	93	0	543	31	21	20	26	1.98
6387205--6387534	147	2.3	146	92	0	552	31	21	20	26	1.98
6387487--6387757	45	6.0	45	92	0	425	32	20	23	23	1.98
6388417--6388493	22	3.5	22	90	0	127	37	11	15	35	1.84
6392197--6392258	32	1.9	32	86	0	88	20	14	19	45	1.85
6392713--6392751	20	2.0	20	90	10	62	5	15	0	79	0.90
6395498--6395550	8	6.9	8	77	16	58	60	11	15	13	1.59
6395510--6395544	17	2.0	18	94	5	63	68	8	11	11	1.39
6395712--6395794	43	1.9	43	85	0	112	34	22	9	32	1.87
6397695--6397789	26	3.8	25	75	11	81	63	1	5	30	1.23
6398640--6398668	3	9.7	3	100	0	58	65	0	0	34	0.93
6399998--6400072	3	24.0	3	81	8	87	66	0	1	32	1.00
6399997--6400062	19	3.6	18	83	6	87	63	0	1	34	1.04
6399999--6400073	25	3.0	25	80	7	98	68	0	1	30	0.98
6400002--6400072	22	3.2	21	80	4	79	67	0	1	30	0.99
6402351--6402436	42	2.0	44	86	8	124	44	0	1	54	1.07
6402351--6402436	43	2.0	43	86	8	122	44	0	1	54	1.07
6402351--6402456	42	2.5	43	82	10	114	47	0	1	50	1.12
6403761--6403789	6	4.8	6	100	0	58	17	68	0	13	1.20
6403755--6403789	18	1.9	18	88	0	52	22	65	0	11	1.24
6405613--6405969	178	2.0	178	98	0	687	29	20	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6406230--6406296	2	33.5	2	100	0	134	50	0	0	49	1.00
6411937--6411985	25	2.0	25	100	0	98	36	20	16	26	1.93
6414509--6414542	15	2.3	15	89	0	50	35	29	14	20	1.93
6415055--6415211	64	2.5	64	81	8	194	28	17	18	35	1.93
6418690--6418733	16	2.8	16	92	0	70	31	22	11	34	1.90
6421556--6421658	29	3.5	29	92	6	172	16	21	18	43	1.88
6422038--6422191	64	2.4	64	79	8	179	29	18	17	34	1.94
6423565--6423697	68	2.0	68	98	0	257	28	25	18	27	1.98
6426217--6426254	18	2.2	17	90	4	58	57	0	5	36	1.21
6426217--6426255	14	2.7	14	96	4	69	56	0	5	38	1.22
6426259--6426859	337	1.8	329	94	2	1058	42	8	5	43	1.58
6428836--6428899	21	3.4	20	66	29	59	31	4	18	45	1.70
6428828--6428949	35	3.4	36	86	6	167	33	4	18	43	1.71
6433445--6433508	21	3.4	20	66	29	59	31	4	18	45	1.70
6433444--6433514	35	2.0	35	97	0	133	30	5	18	45	1.72
6436201--6436267	35	1.9	35	96	0	125	49	5	10	34	1.62
6438333--6438385	3	17.7	3	88	0	70	58	0	3	37	1.16
6439206--6439247	17	2.6	16	81	7	50	57	2	9	30	1.44
6443693--6443749	23	2.5	23	88	0	69	50	7	8	33	1.60
6443848--6443886	19	2.1	19	90	9	62	64	0	0	35	0.94
6445511--6445557	20	2.3	20	85	10	60	29	0	4	65	1.11
6451036--6451087	18	2.9	18	94	0	95	32	40	9	17	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6453802--6453842	20	2.0	20	85	0	55	26	26	4	41	1.76
6453904--6453940	19	1.9	19	88	0	56	67	10	8	13	1.41
6454779--6454877	50	2.0	50	100	0	198	52	4	4	39	1.39
6454779--6454850	18	4.2	18	65	13	53	52	4	4	38	1.40
6454836--6454927	37	2.5	37	84	8	98	51	5	1	42	1.32
6456945--6457033	32	2.8	32	77	0	106	33	19	19	28	1.96
6458625--6458786	38	4.4	38	78	9	158	43	3	5	48	1.42
6458654--6458794	72	1.9	72	84	7	187	43	2	6	46	1.43
6458647--6458797	36	4.1	34	72	19	101	44	3	5	46	1.44
6461798--6461843	12	3.9	11	81	15	56	82	2	4	10	0.89

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   57   58   59   60   61   62   63   64   
          65