genome.fa.s8747.2.7.7.80.10.50.1000.24.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  24  of  51  ( 6054 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)
6393203--6394030	413	2.0	414	98	0	1604	35	16	23	24	1.95
6401350--6401425	35	2.1	37	85	4	102	28	36	3	30	1.75
6401872--6401918	14	3.1	15	75	12	51	72	6	19	2	1.17
6413274--6413416	36	4.0	36	92	0	250	28	2	36	32	1.72
6413298--6413391	13	7.7	13	70	17	51	27	2	37	32	1.69
6413254--6413306	22	2.4	22	93	3	88	28	3	35	32	1.75
6413755--6413804	19	2.6	19	90	0	73	46	6	14	34	1.69
6416956--6417022	32	2.1	33	86	8	93	22	25	20	31	1.98
6417339--6417391	22	2.3	23	90	3	90	30	3	33	32	1.76
6417359--6417502	36	4.0	36	94	0	252	28	4	36	31	1.76
6417357--6417501	11	12.2	12	70	23	62	28	3	36	31	1.74
6417396--6417499	23	4.4	23	66	23	72	27	2	37	31	1.72
6417838--6417888	19	2.6	20	87	3	68	45	5	15	33	1.71
6418069--6418119	19	2.6	20	87	3	68	45	5	15	33	1.71
6421257--6421324	32	2.1	33	91	2	111	23	25	23	27	2.00
6421640--6421692	22	2.3	23	90	3	90	30	3	33	32	1.76
6421660--6421803	36	4.0	36	90	0	234	29	3	35	31	1.74
6421658--6421802	11	12.2	12	70	23	62	30	2	35	31	1.72
6426931--6426976	11	4.0	12	77	8	51	71	4	10	13	1.27
6426931--6426973	23	1.9	22	90	4	68	69	4	11	13	1.33
6431136--6431181	11	4.0	12	80	8	51	71	2	10	15	1.23
6434648--6434707	30	2.0	31	86	3	86	28	8	10	53	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6435552--6435594	20	2.2	20	87	4	61	34	9	6	48	1.62
6437609--6437683	24	3.1	24	78	3	80	32	16	18	33	1.93
6437624--6437693	24	2.9	24	80	4	79	37	14	18	30	1.90
6438779--6438838	30	2.0	31	86	3	86	28	8	10	53	1.63
6439736--6439778	20	2.2	20	87	4	61	34	9	6	48	1.62
6444752--6444855	36	2.9	36	91	4	167	30	37	4	26	1.77
6444810--6444855	22	2.0	22	84	12	58	34	36	2	26	1.69
6450720--6450805	13	7.2	12	72	22	58	30	3	36	30	1.74
6450702--6450806	36	2.9	36	92	1	167	28	4	36	30	1.78
6451149--6451199	19	2.6	20	87	3	77	43	5	13	37	1.69
6455492--6455530	8	4.9	8	84	12	53	0	5	10	84	0.76
6456438--6456522	11	7.2	11	72	22	66	31	36	3	28	1.74
6456435--6456539	36	2.9	36	94	1	176	30	37	4	27	1.77
6457447--6457498	21	2.6	21	90	6	81	32	13	7	46	1.72
6457912--6457960	19	2.5	20	78	21	59	24	8	0	67	1.18
6462677--6462728	21	2.6	21	90	6	81	32	13	7	46	1.72
6463142--6463190	19	2.5	20	78	21	59	24	8	0	67	1.18
6484269--6484304	15	2.4	15	90	0	54	19	25	0	55	1.43
6495468--6495497	13	2.4	13	94	5	53	43	0	30	26	1.55
6499964--6500015	21	2.6	21	90	6	81	32	13	7	46	1.72
6500729--6500788	25	2.3	27	81	13	74	73	5	15	6	1.22
6503901--6503952	21	2.6	21	90	6	81	32	13	7	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6517450--6517500	18	2.8	17	80	19	59	74	3	17	3	1.12
6517711--6517757	20	2.3	20	96	0	85	19	27	0	53	1.45
6532449--6532515	30	2.2	30	97	2	125	38	5	20	34	1.77
6533163--6533218	17	3.1	17	75	12	58	73	1	3	21	1.08
6535505--6535529	5	5.0	5	100	0	50	80	0	0	20	0.72
6539656--6539703	21	2.3	21	88	0	69	18	22	18	39	1.92
6540109--6540149	20	2.0	20	95	0	73	17	14	36	31	1.90
6541210--6541252	19	2.2	20	91	4	70	37	13	6	41	1.72
6541210--6541260	20	2.6	19	90	3	75	35	15	5	43	1.71
6545289--6545340	26	2.1	25	82	7	61	67	3	3	25	1.25
6545811--6545855	20	2.3	19	81	7	54	46	6	0	46	1.29
6549702--6549768	20	3.3	20	77	8	82	22	16	16	44	1.86
6550433--6550565	58	2.3	58	82	10	148	17	18	18	45	1.85
6554026--6554068	23	1.9	23	85	4	61	67	6	13	11	1.41
6559523--6559556	18	1.9	17	88	5	50	79	0	5	14	0.91
6560407--6560463	1	57.0	1	80	0	51	0	5	7	87	0.66
6560407--6560463	10	5.3	10	82	14	69	0	5	7	87	0.66
6560407--6560463	11	5.2	11	85	8	80	0	5	7	87	0.66
6560413--6560445	12	2.8	12	95	0	57	0	9	3	87	0.63
6562041--6562077	16	2.3	16	95	0	65	21	29	13	35	1.92
6570118--6570160	23	1.9	23	85	4	61	67	6	13	11	1.41
6573504--6573613	58	1.9	58	83	7	143	45	16	18	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6575358--6575419	20	3.2	20	86	2	90	48	19	14	17	1.81
6580279--6580365	29	3.0	29	87	0	129	17	39	27	16	1.90
6580374--6580466	10	9.3	10	72	17	77	22	48	18	10	1.79
6580344--6580466	40	3.1	40	87	4	169	21	47	17	12	1.80
6580370--6580486	30	3.6	30	79	20	144	23	48	17	11	1.78
6580384--6580456	20	3.7	20	75	14	87	23	47	17	10	1.79
6581232--6581432	100	2.0	102	97	2	379	44	12	15	26	1.83
6584093--6584788	11	58.5	11	67	22	147	42	1	9	46	1.46
6584157--6584791	14	47.2	13	70	23	205	41	1	9	47	1.46
6584151--6584207	25	2.3	25	82	11	80	40	1	8	49	1.44
6584244--6584303	19	3.6	17	74	19	63	40	1	11	46	1.50
6584230--6584322	33	2.9	33	95	3	163	41	3	9	45	1.53
6584232--6584347	58	1.9	63	89	10	188	42	3	9	44	1.53
6584379--6584726	26	13.7	25	73	16	175	41	1	8	47	1.43
6584436--6584737	133	2.3	133	93	4	520	41	1	8	49	1.42
6584710--6584769	32	1.9	31	93	3	102	41	5	8	45	1.56
6584458--6584781	133	2.4	133	90	5	424	41	1	8	48	1.42
6587039--6587112	29	2.5	29	80	12	80	47	12	0	40	1.41
6587150--6587250	45	2.2	46	80	16	111	50	11	0	37	1.39
6587342--6587381	17	2.3	18	86	4	55	57	5	0	37	1.21
6587701--6587791	29	3.1	29	91	0	146	25	32	27	14	1.94
6587778--6587859	32	2.6	32	96	0	155	9	36	25	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6587946--6588003	29	2.0	29	96	0	107	18	27	29	24	1.98
6590564--6590598	17	2.1	17	89	5	54	37	20	5	37	1.76
6591399--6591442	21	2.2	21	92	8	74	34	11	6	47	1.66
6592164--6592199	8	4.4	8	89	6	54	75	0	25	0	0.81
6592152--6592203	17	3.1	17	83	8	63	71	1	25	1	1.07
6592586--6592649	32	2.0	32	100	0	128	31	12	37	18	1.88
6595674--6595715	22	1.9	22	95	0	75	38	9	7	45	1.64
6595764--6595815	26	2.1	25	82	7	61	65	3	3	26	1.27
6598051--6598088	20	1.9	20	88	0	58	21	26	10	42	1.85
6612855--6612928	26	2.8	26	89	4	105	32	17	24	25	1.97
6612929--6612979	21	2.4	22	87	9	79	29	13	33	23	1.93
6613659--6613817	40	4.0	40	94	0	264	35	27	14	22	1.93
6618469--6618513	17	2.8	16	86	10	56	31	17	17	33	1.94
6627961--6628050	33	2.7	33	84	3	119	28	27	14	28	1.95
6634752--6634839	21	4.2	21	82	5	79	29	25	9	36	1.86
6636424--6636538	59	1.9	59	85	3	160	39	16	16	27	1.90
6638661--6638690	9	3.2	9	95	4	51	0	10	0	90	0.47
6638661--6638690	10	3.1	10	90	9	53	0	10	0	90	0.47
6640571--6640802	60	3.9	60	91	0	365	30	21	14	33	1.93
6640562--6641305	120	6.0	120	71	15	508	30	20	13	34	1.92
6640718--6640887	85	2.0	85	90	0	268	32	19	14	34	1.91
6640803--6641305	60	8.4	60	89	0	718	30	20	13	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6640658--6640947	145	2.0	145	88	0	436	32	20	12	34	1.91
6640598--6641007	205	2.0	205	89	0	622	31	20	13	33	1.92
6647004--6647040	14	2.6	14	91	0	56	51	21	10	16	1.74
6650716--6651049	173	1.9	177	88	9	508	45	13	7	33	1.72
6654580--6654613	14	2.4	14	90	0	59	0	14	5	79	0.91
6661441--6661486	20	2.3	19	85	14	58	26	15	8	50	1.73
6663730--6664382	60	10.9	60	85	3	825	31	21	12	34	1.90
6673704--6673812	57	1.9	57	84	3	148	28	19	25	26	1.99
6673783--6673849	33	2.0	33	97	0	125	26	17	26	28	1.98
6674917--6675033	59	2.0	59	86	0	162	37	18	15	28	1.91

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