genome.fa.s8027.2.7.7.80.10.50.1000.37.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  37  of  38  ( 4505 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)
7338367--7338430	28	2.3	27	80	17	69	60	6	9	23	1.50
7343740--7343773	2	17.0	2	88	11	52	50	0	2	47	1.16
7343824--7343856	2	16.5	2	100	0	66	51	0	0	48	1.00
7346756--7346794	16	2.4	16	91	0	60	38	0	0	61	0.96
7352637--7352856	123	1.8	122	79	7	259	33	15	20	31	1.93
7366979--7367017	4	9.5	4	97	2	69	2	23	0	74	0.94
7374514--7374730	43	5.1	43	85	1	267	34	17	20	28	1.95
7374514--7374730	86	2.5	86	89	2	314	34	17	20	28	1.95
7374741--7374945	41	5.0	41	71	10	152	33	20	17	28	1.95
7374741--7374958	81	2.7	81	84	5	271	33	21	16	28	1.95
7376829--7376884	20	2.8	20	100	0	112	37	8	21	32	1.84
7382070--7382110	20	2.0	20	95	0	73	39	9	17	34	1.82
7384833--7385757	306	3.0	306	98	0	1787	36	19	12	32	1.89
7386739--7386811	22	3.2	22	76	3	56	57	2	1	38	1.22
7390684--7390725	22	1.9	22	85	0	57	45	14	4	35	1.66
7392042--7392131	45	2.0	45	95	0	162	26	8	38	25	1.85
7399803--7399908	29	3.7	29	84	2	124	45	21	7	25	1.78
7399926--7399962	13	2.8	13	100	0	74	10	24	48	16	1.77
7399939--7399981	18	2.4	18	92	0	68	13	20	48	16	1.80
7399916--7399980	31	2.1	30	88	2	94	16	21	44	16	1.86
7402531--7402577	19	2.6	17	78	12	58	40	29	10	19	1.85
7403226--7403293	3	21.7	3	85	8	91	33	1	1	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7403227--7403294	22	3.0	22	91	2	109	35	1	1	61	1.14
7403204--7403290	19	4.4	19	78	9	84	37	3	1	57	1.23
7404015--7404096	40	2.0	40	83	0	101	28	28	20	23	1.99
7405095--7405119	11	2.3	11	100	0	50	24	20	0	56	1.43
7410990--7411023	16	2.1	16	89	10	52	35	0	32	32	1.58
7411759--7412037	64	4.3	63	77	11	230	35	19	17	26	1.95
7411765--7412037	128	2.1	128	80	6	304	35	20	17	26	1.95
7412711--7412774	30	2.1	30	85	0	83	18	18	28	34	1.95
7416076--7416349	64	4.3	64	76	10	231	34	19	17	27	1.95
7418127--7418164	20	1.9	20	88	0	58	71	18	0	10	1.14
7420804--7420846	18	2.4	18	100	0	86	41	0	4	53	1.21
7423051--7423089	21	1.9	21	89	5	62	17	25	23	33	1.96
7423052--7423137	10	8.9	9	78	13	73	16	26	26	30	1.97
7423051--7423148	19	5.1	19	79	13	83	19	26	25	28	1.99
7423051--7423136	29	2.9	30	78	13	97	17	26	26	29	1.98
7423158--7423223	21	3.0	21	84	8	89	18	45	24	12	1.83
7426235--7426283	18	2.7	18	93	0	80	28	26	22	22	1.99
7432539--7432579	18	2.3	18	80	16	50	19	0	9	70	1.14
7432604--7432640	12	3.0	12	92	4	56	32	10	8	48	1.67
7434471--7434536	19	3.6	19	86	12	102	39	3	4	53	1.37
7434461--7434531	35	2.0	35	91	0	115	39	1	4	54	1.28
7434480--7434531	16	3.0	17	86	13	79	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7437229--7437310	18	4.6	18	87	0	110	29	14	14	41	1.86
7451177--7451460	147	1.9	147	82	2	356	34	18	14	32	1.91
7452551--7452681	64	2.1	62	85	2	172	54	8	8	28	1.59
7452753--7452831	29	2.7	30	77	11	76	50	10	11	27	1.70
7455668--7455693	12	2.2	12	100	0	52	23	0	0	76	0.78
7459122--7459184	16	3.8	16	78	17	74	77	7	14	0	0.97
7459130--7459177	20	2.3	21	86	13	73	79	6	14	0	0.92
7460248--7460283	18	2.0	18	94	0	63	16	8	33	41	1.78
7461020--7461091	37	1.9	37	82	0	90	26	19	13	40	1.89
7461710--7462135	106	4.0	106	93	0	699	34	24	18	22	1.96
7463545--7463629	18	4.9	16	92	2	71	43	0	1	55	1.07
7463562--7463629	2	34.5	2	97	2	129	48	0	0	51	1.00
7465084--7465154	28	2.6	27	80	12	74	42	2	2	52	1.31
7466820--7466871	20	2.6	20	96	0	95	38	26	13	21	1.90
7466927--7467295	20	18.5	20	84	4	449	34	26	18	20	1.96
7467977--7468023	24	2.0	24	87	8	69	25	14	21	38	1.92
7468198--7468222	12	2.1	12	100	0	50	72	0	28	0	0.86
7470503--7470733	33	6.8	33	80	12	236	47	19	20	13	1.82
7470531--7470752	52	4.2	52	90	6	319	47	17	21	13	1.82
7470503--7470774	85	3.2	84	87	8	358	46	18	20	13	1.83
7470570--7470774	52	3.9	52	90	6	214	46	18	20	14	1.83
7470781--7470882	19	5.6	19	85	12	151	14	23	17	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7470989--7471025	14	2.6	14	91	0	65	45	21	0	32	1.52
7473004--7473060	14	3.7	14	77	20	60	45	22	21	10	1.82
7472985--7473077	33	2.8	33	95	0	168	47	21	20	10	1.80
7472948--7473082	19	7.6	19	76	16	128	45	23	19	11	1.82
7473078--7473206	19	7.3	19	75	17	125	8	17	28	45	1.77
7473078--7473169	33	2.8	33	93	3	150	7	18	28	45	1.76
7473238--7473796	93	6.0	93	98	0	1086	46	19	12	22	1.83
7473238--7473796	185	3.0	186	98	0	1086	46	19	12	22	1.83
7473238--7473796	278	2.0	278	98	0	1084	46	19	12	22	1.83
7475500--7475587	14	5.6	14	73	23	77	43	22	25	9	1.82
7475492--7475606	33	3.5	33	93	0	203	45	20	24	10	1.82
7475499--7475611	19	6.8	18	73	23	79	43	21	24	10	1.84
7475623--7475677	14	3.6	14	73	21	56	9	25	23	41	1.83
7475607--7475677	33	2.2	33	94	0	124	8	22	25	43	1.81
7475618--7475699	33	2.5	33	89	2	119	9	25	21	42	1.84
7475630--7475718	20	4.8	20	72	19	75	12	24	19	43	1.85
7475798--7475868	33	2.2	33	92	0	115	47	18	22	11	1.80
7476049--7476103	22	2.5	22	81	0	74	20	16	40	23	1.91
7476249--7476441	20	9.6	20	82	5	219	19	19	25	35	1.95
7476249--7476441	60	3.2	60	83	0	251	19	19	25	35	1.95
7476497--7476548	20	2.6	20	96	0	95	21	13	26	38	1.90
7482653--7482704	20	2.7	20	87	3	70	19	26	28	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7482698--7482770	17	4.3	17	94	0	119	17	41	26	15	1.89
7482762--7482824	7	9.4	7	83	10	87	17	26	30	25	1.97
7482762--7482820	13	4.5	13	91	2	91	16	27	30	25	1.97
7489384--7489435	9	5.4	9	78	13	59	17	26	28	26	1.97
7489383--7489453	19	3.7	19	90	1	97	19	26	28	25	1.99
7489450--7489492	22	2.0	22	85	0	59	18	44	27	9	1.80
7489482--7489524	7	6.4	7	89	10	72	16	30	30	23	1.96
7489482--7489520	13	3.0	13	100	0	78	15	30	30	23	1.95
7489482--7489524	20	2.2	20	91	8	70	16	30	30	23	1.96
7491478--7491536	20	2.9	21	89	5	102	22	37	18	22	1.94
7503754--7503866	59	1.9	58	83	5	147	47	11	27	13	1.77
7503849--7503892	22	2.1	21	83	8	54	77	2	20	0	0.88
7504621--7505277	105	6.4	105	92	3	1029	34	24	18	22	1.96
7507314--7507347	3	11.7	3	87	6	52	29	0	0	70	0.87
7509475--7509508	13	2.5	14	85	9	52	82	0	2	14	0.79
7510087--7510139	3	17.3	3	88	3	79	33	0	1	64	1.05
7510168--7510216	21	2.3	21	100	0	98	8	44	28	18	1.78
7510902--7510936	17	2.1	17	100	0	70	65	5	11	17	1.43
7514490--7514576	6	13.7	6	71	23	54	78	0	17	4	0.92
7514488--7514564	13	6.1	12	80	7	73	80	0	16	2	0.82
7514488--7514576	32	2.9	30	80	9	99	78	0	16	4	0.91
7514489--7514576	25	3.5	24	80	10	70	78	0	17	4	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7515448--7515562	44	2.7	42	79	12	128	34	23	16	25	1.95
7516301--7516358	24	2.4	24	94	0	98	53	8	6	31	1.58
7517432--7517476	19	2.4	19	80	0	54	37	2	8	51	1.46
7518688--7518754	16	3.7	19	69	20	54	38	13	5	41	1.69
7523204--7523323	64	1.9	63	84	1	159	37	20	17	25	1.94
7524007--7524067	23	2.7	23	78	0	77	19	24	26	29	1.99
7524007--7524075	23	3.0	23	78	0	66	20	23	24	31	1.98
7527986--7528076	47	2.0	47	84	2	121	54	10	4	29	1.54
7528362--7528410	3	16.3	3	91	0	80	30	34	2	32	1.69
7533864--7533908	19	2.3	19	84	3	54	46	8	11	33	1.70

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