genome.fa.s8292.2.7.7.80.10.50.1000.7.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: VEPZ01008292.1 Hibiscus syriacus cultivar Beakdansim tig00110956_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1591938

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 906 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)
1265766--1265823	16	3.9	14	91	6	55	46	0	0	53	1.00
1265782--1265830	2	24.5	2	100	0	98	51	0	0	48	1.00
1266991--1267024	10	3.4	10	87	0	50	20	5	0	73	1.04
1276325--1276376	1	52.0	1	80	0	59	90	9	0	0	0.46
1276325--1276377	7	7.9	7	82	14	67	88	11	0	0	0.51
1276325--1276369	18	2.5	17	89	10	72	91	8	0	0	0.43
1276326--1276377	22	2.3	23	90	3	79	88	11	0	0	0.52
1277156--1278055	105	8.7	105	95	1	1446	33	25	18	22	1.96
1278571--1278600	15	1.9	16	93	6	53	16	0	0	83	0.65
1279935--1279976	16	2.9	14	86	10	50	45	0	0	54	0.99
1279951--1279989	2	19.5	2	94	0	69	48	0	2	48	1.15
1284285--1285147	128	6.7	128	97	0	1609	20	24	22	33	1.97
1285550--1285619	34	2.1	34	88	0	104	38	2	2	55	1.29
1285550--1285644	28	3.0	34	74	17	112	40	2	3	54	1.28
1286164--1286295	63	2.1	63	88	2	194	22	25	32	18	1.97
1286164--1286297	21	6.4	21	86	6	166	22	26	32	18	1.97
1286303--1286344	21	2.0	21	90	0	66	21	11	40	26	1.88
1288118--1288155	15	2.5	15	83	12	51	60	0	0	39	0.97
1288107--1288174	36	1.9	34	82	5	82	63	1	0	35	1.04
1291719--1291788	36	2.0	35	88	5	106	45	17	5	31	1.71
1296313--1296408	35	2.7	35	91	1	156	47	15	5	31	1.67
1296342--1296402	21	3.2	21	65	29	55	45	16	3	34	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300836--1300876	8	5.2	8	82	5	57	34	0	29	36	1.58
1300947--1301560	124	4.9	127	89	6	945	23	24	18	32	1.97
1301950--1302054	33	3.2	31	80	11	111	36	1	4	57	1.31
1302564--1302657	21	4.5	21	92	5	129	20	26	35	18	1.95
1307353--1307488	47	2.9	48	93	2	238	23	15	32	28	1.95
1318239--1318271	17	2.1	16	88	11	50	60	0	0	39	0.97
1319376--1319414	17	2.2	18	86	4	53	69	2	7	20	1.26
1321262--1321371	35	3.1	35	86	0	130	38	0	19	41	1.57
1327784--1327831	23	2.1	22	81	14	53	68	0	0	31	0.90
1327784--1327833	18	2.7	19	79	14	52	68	0	0	32	0.90
1329397--1329478	39	2.1	39	100	0	164	34	24	12	29	1.91
1333264--1333323	2	30.0	2	96	0	111	48	1	0	50	1.11
1334091--1334221	59	2.2	60	78	6	142	34	10	16	38	1.83
1336293--1336337	18	2.4	18	96	3	81	20	6	15	57	1.60
1337372--1337402	16	1.9	16	93	0	53	51	16	3	29	1.59
1341867--1342577	36	19.4	37	63	7	225	31	17	10	39	1.85
1341866--1342888	73	14.0	73	89	1	1494	31	16	10	40	1.83
1341945--1342871	37	25.3	36	64	13	259	31	17	10	40	1.84
1342885--1343202	125	2.6	123	83	7	382	38	15	21	25	1.92
1345205--1345695	243	2.0	243	96	0	901	40	20	16	22	1.91
1345832--1345858	12	2.2	12	100	0	54	85	0	0	14	0.61
1350543--1350584	22	2.0	22	85	4	59	19	16	28	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1352726--1352781	29	1.9	29	96	0	103	26	14	12	46	1.80
1353670--1353716	20	2.4	19	79	10	58	53	8	17	21	1.70
1353850--1353896	20	2.4	19	79	10	58	53	8	17	21	1.70
1353458--1353929	180	2.6	182	89	0	696	42	13	16	27	1.86
1353962--1354642	200	3.4	200	93	0	1166	34	13	19	32	1.90
1356077--1356141	12	5.4	12	89	7	78	38	6	32	23	1.79
1356077--1356145	3	23.0	3	76	5	68	37	5	31	24	1.79
1357355--1357939	183	3.2	183	95	1	1030	34	14	16	34	1.89
1357821--1358059	120	2.0	120	94	0	415	31	13	15	38	1.87
1357638--1358228	303	2.0	303	96	0	1083	34	14	16	35	1.89
1360238--1360276	18	2.3	16	84	16	60	38	20	10	30	1.86
1360318--1360362	23	2.0	23	86	0	63	37	15	8	37	1.79
1364690--1364724	18	1.9	18	88	0	52	28	17	0	54	1.43
1369916--1369950	18	1.9	18	88	0	52	28	17	0	54	1.43
1372193--1372235	16	2.8	16	83	16	63	65	0	4	30	1.13
1373747--1373818	18	4.1	18	90	1	101	27	31	18	22	1.97
1375202--1375271	20	3.7	20	72	14	67	21	21	21	35	1.96
1379373--1379434	18	3.5	18	73	4	72	27	8	24	40	1.83
1379372--1379442	35	2.0	35	100	0	142	25	11	23	39	1.88
1382051--1382083	15	2.1	16	88	5	50	24	18	6	51	1.68
1397639--1397742	34	2.9	33	80	13	102	24	23	24	28	1.99
1398758--1399077	19	18.4	19	76	20	344	46	18	20	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398810--1398887	14	4.8	15	71	22	52	43	19	24	12	1.86
1398786--1399099	52	6.0	52	82	12	387	46	17	21	14	1.83
1398758--1399099	85	4.0	83	83	9	384	46	18	21	14	1.83
1398985--1399039	14	3.6	14	78	21	65	49	20	20	10	1.78
1398758--1399058	33	8.8	33	76	17	262	46	18	20	13	1.83
1399105--1399203	19	5.4	19	84	12	145	15	22	17	45	1.85
1399310--1399346	14	2.6	14	91	0	65	45	21	0	32	1.52
1401168--1401224	14	3.7	14	77	20	60	47	22	19	10	1.80
1401149--1401240	33	2.8	33	90	1	150	47	21	19	10	1.80
1401112--1401240	19	7.3	19	75	16	100	47	24	17	10	1.80
1401241--1401369	19	7.3	19	75	17	125	8	17	28	45	1.77
1401241--1401332	33	2.8	33	93	3	150	7	18	28	45	1.76
1403210--1403307	19	5.7	18	73	22	86	42	22	24	10	1.84
1403198--1403285	14	5.7	14	72	25	63	42	23	25	9	1.83
1403190--1403302	33	3.5	33	92	2	194	45	21	23	9	1.81
1403318--1403372	14	3.6	14	73	21	56	9	25	23	41	1.83
1403313--1403394	33	2.5	33	89	2	119	9	25	21	42	1.84
1403325--1403413	20	4.8	20	72	19	75	12	24	19	43	1.85
1403492--1403562	33	2.2	33	92	0	115	47	18	22	11	1.80
1403744--1403798	22	2.5	22	81	0	74	20	16	40	23	1.91
1403944--1404136	20	9.6	20	82	5	219	19	19	25	35	1.95
1403944--1404136	60	3.2	60	83	0	251	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1404192--1404243	20	2.6	20	96	0	95	21	13	26	38	1.90
1406729--1406872	64	2.2	64	96	0	261	37	22	3	36	1.72
1407118--1407235	36	3.2	35	81	9	128	23	25	22	28	1.99
1410978--1411105	43	3.0	43	94	0	229	28	14	15	41	1.86
1411483--1411521	10	3.9	10	82	0	51	15	15	10	58	1.62
1411487--1411566	10	7.4	10	71	15	52	13	10	16	60	1.59
1411502--1411605	23	4.4	23	80	1	109	11	9	19	59	1.59
1413228--1413265	14	2.7	14	84	11	51	21	10	28	39	1.86
1415030--1415067	18	2.1	18	100	0	76	47	5	5	42	1.48
1419724--1419754	6	5.2	6	100	0	62	32	51	16	0	1.44
1420258--1420293	6	6.0	6	100	0	72	0	16	50	33	1.46
1420383--1420571	42	4.5	42	91	3	310	35	22	20	21	1.96
1420380--1420586	21	10.0	21	73	13	160	34	22	20	22	1.97
1422770--1422986	21	10.4	21	71	18	141	35	23	20	21	1.96
1422747--1422961	42	5.2	42	93	1	362	36	23	19	20	1.95
1422748--1422986	84	2.9	84	90	3	360	35	22	20	21	1.96
1430523--1430566	20	2.2	19	84	15	54	63	4	4	27	1.33
1433472--1433503	15	2.2	15	94	5	57	50	0	0	50	1.00
1435511--1435554	5	8.8	5	92	0	52	6	40	36	15	1.74
1435552--1435630	6	13.2	6	97	0	131	3	16	49	30	1.63
1435906--1435960	22	2.5	22	75	0	56	29	9	23	38	1.85
1441485--1441528	5	8.8	5	92	0	52	6	40	36	15	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1441526--1441598	6	12.2	6	97	0	128	2	16	49	31	1.60
1441872--1441926	22	2.5	22	75	0	56	29	9	23	38	1.85
1446511--1446542	2	16.0	2	100	0	64	50	0	0	50	1.00
1447529--1448609	545	2.0	545	99	0	2135	37	13	16	31	1.88
1455287--1455316	2	15.0	2	100	0	60	50	0	0	50	1.00
1459904--1459980	11	7.0	11	80	0	82	19	6	16	57	1.61
1459906--1459991	33	2.6	33	79	0	100	18	6	16	58	1.60
1459911--1459974	22	2.9	22	92	0	101	20	7	15	56	1.64
1461945--1461995	24	2.1	25	92	3	86	13	27	15	43	1.85
1463362--1463409	22	2.2	22	81	7	53	39	2	6	52	1.39

Tables:   1   2   3   4   5   6   7   8