genome.fa.s7883.2.7.7.80.10.50.1000.8.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: VEPZ01007883.1 Hibiscus syriacus cultivar Beakdansim tig00110263_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1590433

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 970 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)
1365221--1365541	103	3.1	103	95	0	588	37	23	13	25	1.92
1366021--1366058	20	1.9	20	88	0	58	10	31	34	23	1.89
1370372--1370480	1	109.0	1	68	0	65	84	0	10	5	0.77
1370372--1370475	12	9.5	11	79	12	81	84	0	9	5	0.77
1370374--1370480	22	5.2	19	84	12	124	84	0	10	5	0.78
1370373--1370480	31	3.5	31	79	16	125	84	0	10	5	0.78
1371991--1372171	64	2.8	63	80	3	200	27	16	26	30	1.96
1372119--1372169	19	2.7	19	85	8	70	25	15	35	23	1.94
1372012--1372171	65	2.5	65	83	3	198	27	15	26	31	1.95
1373978--1374002	12	2.1	12	100	0	50	56	8	0	36	1.29
1380089--1380269	64	2.8	63	80	3	200	27	16	26	30	1.96
1380217--1380267	19	2.7	19	85	8	70	25	15	35	23	1.94
1380110--1380269	65	2.5	65	83	3	198	27	15	26	31	1.95
1381275--1381317	17	2.4	18	80	7	52	51	2	23	23	1.60
1385635--1385692	19	3.2	19	73	24	61	55	15	13	15	1.70
1385679--1385735	24	2.4	25	79	8	73	43	15	19	21	1.87
1387485--1387557	36	2.0	36	94	0	128	30	19	9	41	1.83
1390334--1390397	24	2.7	24	85	0	74	46	15	12	25	1.81
1396606--1396630	13	1.9	13	100	0	50	80	0	4	16	0.87
1397184--1397250	26	2.6	26	97	0	125	23	25	31	19	1.98
1398913--1399327	55	7.6	55	81	4	432	27	27	15	29	1.96
1398913--1399246	108	3.1	109	82	3	413	27	28	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398913--1399246	163	2.0	165	85	2	449	27	28	14	29	1.95
1399230--1399482	51	4.9	50	78	9	222	22	25	19	32	1.97
1399276--1399516	104	2.3	102	80	11	258	21	25	19	34	1.96
1399534--1399641	53	2.0	55	83	7	141	27	27	14	29	1.95
1400639--1400691	8	6.5	8	79	18	56	11	9	0	79	0.94
1412334--1412358	13	1.9	13	100	0	50	80	0	4	16	0.87
1412904--1412970	26	2.6	26	97	0	125	23	25	31	19	1.98
1420717--1420775	24	2.5	26	81	15	74	50	35	5	8	1.55
1420717--1420782	23	2.8	23	80	15	73	50	36	4	9	1.55
1423709--1423737	14	2.0	15	93	6	51	58	0	0	41	0.98
1424274--1424332	29	2.0	29	90	0	91	23	10	11	54	1.67
1428921--1428979	29	2.0	29	96	0	109	23	13	11	50	1.74
1430410--1430458	2	24.0	2	95	4	89	48	2	0	48	1.12
1431939--1432011	35	2.1	35	92	0	119	20	17	16	45	1.86
1440240--1440276	14	2.6	14	91	0	56	51	24	5	18	1.67
1445203--1445596	186	2.1	188	90	3	618	46	7	3	42	1.49
1448042--1448091	25	2.0	26	84	4	66	60	4	0	36	1.16
1448342--1448381	2	20.0	2	100	0	80	50	0	0	50	1.00
1449253--1449305	26	2.0	26	100	0	106	18	13	37	30	1.89
1449896--1449926	4	7.8	4	100	0	62	51	0	0	48	1.00
1450057--1450086	15	2.0	15	93	0	51	20	10	40	30	1.85
1450236--1450340	33	3.1	35	60	15	85	35	8	12	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450217--1450340	66	1.9	66	96	0	230	38	8	11	41	1.72
1453580--1453638	29	2.0	29	93	0	100	25	15	13	45	1.82
1457614--1457642	14	2.0	15	93	6	51	58	0	0	41	0.98
1458195--1458253	29	2.0	29	90	0	91	23	10	11	54	1.67
1464254--1464283	14	2.1	14	93	0	51	50	6	0	43	1.28
1464402--1464501	7	14.3	7	75	0	74	19	3	35	43	1.66
1464402--1464493	14	6.6	14	76	0	85	19	3	33	43	1.67
1464398--1464493	28	3.4	28	81	5	97	18	4	34	42	1.70
1471982--1472025	20	2.2	20	83	0	52	40	27	22	9	1.84
1472229--1472265	16	2.3	16	95	0	65	37	24	21	16	1.93
1476500--1476559	23	2.7	23	82	7	70	51	0	0	48	1.00
1476516--1476553	12	3.2	12	81	3	51	47	0	0	52	1.00
1477946--1477985	21	1.9	21	89	0	62	52	5	2	40	1.37
1479618--1479659	2	21.5	2	85	4	59	50	2	2	45	1.27
1486642--1486674	14	2.4	14	94	0	57	36	27	18	18	1.94
1488248--1488315	27	2.5	27	95	0	118	16	33	22	27	1.95
1491476--1491512	19	1.9	19	88	0	56	21	13	16	48	1.80
1498598--1498667	29	2.4	28	81	13	70	57	7	18	17	1.62
1503308--1503366	19	3.1	19	80	7	57	25	6	15	52	1.67
1522526--1522610	34	2.5	34	96	0	152	15	24	24	35	1.94
1522687--1522736	23	2.2	23	88	0	73	14	24	38	24	1.92
1522884--1522961	41	1.9	41	97	0	147	33	14	32	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1523204--1523562	172	2.1	173	92	1	587	39	4	18	37	1.71
1524742--1524800	30	2.0	30	83	6	75	27	0	6	66	1.17
1525294--1525348	6	9.2	6	97	0	101	18	0	63	18	1.31
1525850--1526561	14	51.7	14	69	15	311	50	5	3	40	1.44
1525887--1526570	8	90.2	8	67	21	147	49	5	3	41	1.44
1525828--1526542	82	9.1	76	69	18	318	49	5	4	40	1.45
1525879--1526519	37	17.0	36	81	13	543	49	5	4	40	1.45
1525935--1526549	313	2.0	311	96	0	1140	49	5	4	40	1.45
1526071--1526561	23	18.9	27	70	19	151	50	5	3	40	1.43
1529984--1530087	42	2.4	42	85	6	129	31	29	19	19	1.96
1531085--1531128	23	1.9	23	100	0	88	9	25	40	25	1.84
1531082--1531135	23	2.4	22	84	9	81	11	24	42	22	1.85
1531283--1531360	41	1.9	41	97	0	147	33	14	32	20	1.92
1531603--1531955	172	2.1	172	91	2	575	39	4	18	36	1.72
1533676--1533718	6	7.2	6	91	0	68	20	0	60	18	1.36
1534219--1534894	14	46.4	14	67	14	130	49	5	3	41	1.43
1534245--1534858	8	83.8	8	67	22	230	49	5	3	40	1.45
1534190--1534263	28	2.6	28	91	0	112	52	4	4	39	1.39
1534234--1534842	37	16.0	37	79	15	500	49	5	4	40	1.45
1534259--1534893	23	26.3	23	69	19	250	49	5	3	41	1.44
1534234--1534773	37	14.7	37	82	12	609	49	5	4	40	1.45
1534356--1534842	76	7.2	66	76	18	386	49	5	3	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534356--1534842	36	13.3	37	80	14	274	49	5	3	40	1.45
1534245--1534893	73	8.9	73	79	11	409	49	5	3	41	1.44
1538299--1538402	42	2.4	42	85	6	129	31	29	19	19	1.96
1539402--1539449	23	2.1	23	92	0	78	12	25	39	22	1.89
1539600--1539680	41	2.1	38	80	13	87	35	16	28	19	1.93
1542000--1542042	6	7.2	6	97	0	77	18	0	62	18	1.32
1542541--1543241	14	49.7	14	70	14	330	50	5	3	40	1.43
1542541--1543215	8	91.5	8	68	21	311	50	5	3	40	1.44
1542570--1543199	37	17.0	37	83	12	769	50	5	3	40	1.45
1542668--1543250	23	25.3	23	70	17	195	50	5	3	40	1.43
1547724--1547762	19	2.0	21	85	10	55	56	5	0	38	1.22
1553418--1553464	2	23.5	2	100	0	94	48	0	0	51	1.00
1553998--1554025	13	2.2	13	100	0	56	28	0	28	42	1.56
1554188--1554541	20	17.6	20	72	8	188	32	24	12	31	1.92
1554194--1554409	121	1.8	120	86	4	310	33	25	12	29	1.92
1554189--1554541	121	2.9	121	78	9	301	32	23	12	31	1.91
1555326--1555359	12	2.8	12	90	0	50	55	29	0	14	1.40
1555483--1555536	24	2.2	24	87	6	74	24	18	18	38	1.93
1558076--1558166	20	4.6	20	77	0	83	45	19	13	21	1.85
1558088--1558174	20	4.3	20	77	0	84	47	19	12	20	1.82
1558191--1558290	20	5.0	20	86	0	119	19	11	17	53	1.73
1558193--1558290	40	2.5	40	84	0	133	19	11	17	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1559788--1559829	21	2.0	21	90	0	66	23	14	42	19	1.87
1559816--1559866	21	2.4	21	86	0	75	21	17	39	21	1.93
1559875--1559919	21	2.1	21	92	8	74	35	15	26	22	1.94
1560053--1560086	4	8.5	4	86	0	50	70	0	0	29	0.87
1560321--1560364	21	2.1	21	100	0	88	31	34	13	20	1.92
1560464--1560531	21	3.2	21	65	29	54	19	14	38	27	1.91
1560464--1560606	42	3.4	42	90	1	207	21	14	37	25	1.92
1562012--1562049	20	1.9	20	88	0	58	50	15	15	18	1.79
1562010--1562055	20	2.3	20	80	0	56	50	15	17	17	1.79
1562066--1562104	20	2.0	20	89	0	60	23	12	17	46	1.83

Tables:   1   2   3   4   5   6   7   8   9