genome.fa.s186.2.7.7.80.10.50.1000.7.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: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152351

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  7  of  17  ( 1977 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)
1233549--1233601	24	2.2	24	83	6	63	26	7	13	52	1.66
1233713--1234184	180	2.6	179	87	3	651	27	16	13	42	1.85
1239993--1240022	12	2.5	12	94	0	51	30	10	10	50	1.69
1244917--1244946	9	3.2	9	95	4	51	86	0	13	0	0.57
1246036--1246065	12	2.5	12	94	0	51	30	10	10	50	1.69
1248271--1248354	22	3.9	22	69	9	66	39	1	1	58	1.14
1248264--1248360	42	2.3	41	79	8	106	42	1	1	55	1.13
1247966--1248328	185	2.0	185	92	1	611	44	8	3	42	1.53
1250321--1250362	22	1.9	22	85	0	57	38	21	9	30	1.85
1250320--1250368	22	2.2	22	77	0	53	42	20	8	28	1.80
1256107--1256161	26	2.1	26	96	0	101	21	21	14	41	1.89
1256668--1256738	23	3.1	23	93	2	117	52	5	16	25	1.66
1256971--1256997	13	2.1	13	100	0	54	29	0	7	62	1.22
1257034--1257081	14	2.9	18	73	23	59	54	0	10	35	1.35
1257491--1257638	60	2.5	60	81	6	165	39	4	25	31	1.76
1266235--1266319	36	2.5	34	90	5	127	31	8	18	41	1.80
1266335--1266435	36	2.9	34	84	5	130	42	16	19	20	1.89
1266346--1266435	34	2.6	35	87	3	119	43	17	18	20	1.88
1266602--1267007	37	12.0	37	61	22	149	41	14	17	26	1.88
1266473--1266855	102	3.8	102	85	2	459	39	13	18	28	1.88
1266758--1266904	65	2.3	65	85	4	199	40	12	18	28	1.86
1266815--1267005	102	1.9	101	85	1	265	43	13	17	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266917--1267072	64	2.4	65	82	2	188	40	12	18	28	1.87
1266631--1267154	167	3.1	167	93	0	863	40	13	17	28	1.87
1267302--1267623	106	3.0	105	88	3	441	21	20	24	34	1.97
1268187--1268274	32	2.8	32	79	10	99	32	22	14	29	1.94
1269339--1269381	13	3.3	13	81	18	54	2	16	4	76	1.05
1269357--1269390	17	1.9	18	94	5	61	2	17	2	76	1.04
1269339--1269394	13	4.1	13	75	18	51	1	16	3	78	0.97
1272437--1272467	4	7.8	4	100	0	62	77	0	0	22	0.77
1272536--1272560	13	1.9	13	100	0	50	80	4	0	16	0.87
1272457--1272579	32	4.0	31	68	19	78	72	3	6	17	1.20
1272583--1272697	2	58.0	2	98	1	223	50	0	0	49	1.00
1280468--1280536	30	2.3	30	82	9	79	40	10	18	30	1.84
1282782--1282830	15	3.3	15	94	0	80	30	30	22	16	1.96
1283357--1283513	64	2.5	63	77	10	167	26	19	19	35	1.95
1289733--1289766	15	2.3	15	89	0	50	32	32	17	17	1.94
1294549--1294639	12	7.6	12	100	0	182	25	24	16	34	1.95
1311256--1311342	35	2.5	34	80	12	97	54	10	8	27	1.62
1311337--1311411	34	2.2	33	80	15	82	62	16	1	20	1.39
1311441--1311471	13	2.5	13	94	5	55	70	6	0	22	1.09
1313674--1313706	16	1.9	17	88	11	50	60	3	0	36	1.12
1313668--1313709	17	2.6	16	78	17	50	64	2	0	33	1.07
1313781--1313878	47	2.1	47	96	0	178	29	0	39	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314567--1314658	14	6.3	14	70	12	51	72	2	7	17	1.17
1314589--1314628	4	9.5	4	84	10	53	67	5	2	25	1.23
1314574--1314637	26	2.4	26	81	5	65	68	3	7	20	1.28
1314906--1314959	20	2.7	20	80	13	65	57	1	1	38	1.20
1315875--1315900	12	2.2	12	100	0	52	34	26	15	23	1.94
1317069--1317245	95	1.9	95	86	4	259	20	20	24	33	1.97
1318391--1318441	6	7.8	6	83	16	50	0	15	1	82	0.76
1318397--1318443	8	6.7	7	84	15	62	0	17	2	80	0.80
1318397--1318442	14	3.2	14	87	6	74	0	15	2	82	0.76
1328938--1328985	4	11.5	4	82	8	60	66	4	4	25	1.27
1329127--1329176	2	25.0	2	100	0	100	50	0	0	50	1.00
1329275--1329319	2	23.5	2	91	8	76	53	0	0	46	1.00
1329275--1329327	10	5.6	9	89	10	63	52	1	0	45	1.11
1329275--1329337	12	5.2	12	78	14	67	53	1	1	42	1.19
1329275--1329327	6	7.7	7	84	16	51	52	1	0	45	1.11
1329482--1329512	2	15.5	2	100	0	62	51	0	0	48	1.00
1341196--1341294	35	2.8	35	79	1	99	39	17	21	22	1.92
1353774--1353892	36	3.3	35	83	3	148	24	23	20	31	1.98
1353774--1353916	72	2.0	72	84	4	191	21	23	18	36	1.95
1356523--1356624	50	2.0	50	100	0	204	25	1	15	56	1.50
1357620--1357685	24	2.8	24	83	0	69	10	13	16	59	1.61
1358737--1358901	54	3.0	54	94	0	285	46	9	15	27	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362066--1362185	41	2.9	41	77	4	125	36	17	15	30	1.91
1362768--1362835	36	1.9	34	82	11	84	45	1	7	45	1.40
1367474--1367518	19	2.4	19	84	0	63	44	0	0	55	0.99
1367485--1367529	24	1.9	22	82	13	54	51	0	0	48	1.00
1368320--1368372	25	2.1	25	100	0	106	18	13	22	45	1.84
1371086--1371122	17	2.2	17	95	0	65	32	10	24	32	1.90
1372488--1372597	21	5.2	21	60	16	57	39	2	5	52	1.39
1372487--1372605	42	2.8	42	98	0	229	40	2	5	52	1.37
1372502--1372574	15	5.1	15	66	15	55	41	1	2	54	1.23
1375308--1375383	2	40.5	2	86	12	108	44	0	0	55	0.99
1375320--1375392	19	4.1	17	85	7	67	39	0	0	60	0.97
1379072--1379727	110	6.0	110	90	0	987	34	22	18	24	1.96
1379834--1380928	84	13.2	83	78	5	1054	31	24	19	25	1.98
1379829--1380950	248	4.5	248	89	2	1619	31	24	19	25	1.98
1381273--1381321	14	3.9	14	77	20	54	32	0	0	67	0.91
1381272--1381325	11	4.7	11	78	14	56	33	0	0	66	0.92
1381272--1381325	22	2.7	20	82	8	65	33	0	0	66	0.92
1381379--1381445	33	2.0	33	97	0	125	40	22	10	26	1.86
1381976--1382002	12	2.2	12	100	0	54	37	0	0	62	0.95
1386775--1386799	11	2.3	11	100	0	50	28	0	0	72	0.86
1387362--1387485	29	4.3	28	74	10	97	40	8	17	33	1.79
1387561--1387613	3	17.7	3	100	0	106	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1392665--1392724	24	2.5	25	78	8	70	31	3	3	61	1.28
1392834--1392902	21	3.3	20	78	9	68	36	13	14	36	1.85
1394169--1394227	31	1.9	31	89	3	93	45	8	13	32	1.74
1394711--1394738	2	14.0	2	100	0	56	50	0	0	50	1.00
1394877--1394936	30	2.0	30	93	6	104	35	11	13	40	1.81
1397024--1397080	20	2.8	20	76	12	62	24	26	14	35	1.93
1397736--1397774	20	2.0	20	84	0	51	33	30	2	33	1.72
1398011--1398067	20	2.8	21	76	12	57	24	28	14	33	1.94
1396381--1398359	987	2.0	989	98	0	3838	29	19	16	34	1.94
1399922--1400143	29	7.6	29	88	0	273	47	15	2	35	1.58
1400146--1400188	18	2.4	18	92	0	68	13	23	44	18	1.86
1407487--1407673	29	6.5	28	88	4	225	48	13	1	36	1.52
1407504--1407675	87	2.0	86	91	1	281	47	14	1	36	1.52
1407487--1407673	58	3.3	56	86	5	250	48	13	1	36	1.52
1408374--1408400	10	2.7	10	100	0	54	40	33	0	25	1.56
1413375--1413436	30	2.0	31	87	3	90	20	27	8	43	1.80
1416515--1416581	31	2.2	31	86	5	91	23	28	4	43	1.73
1417693--1417809	48	2.4	48	95	0	207	25	17	10	46	1.80
1430323--1430364	20	2.1	20	95	0	75	23	0	30	45	1.53
1434918--1434997	29	2.8	29	88	3	117	48	16	12	22	1.79
1438910--1438948	2	19.5	2	100	0	78	48	0	0	51	1.00
1442251--1442287	16	2.3	16	100	0	74	29	13	18	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442897--1444704	106	17.2	106	91	1	2797	33	24	18	23	1.96
1442897--1444704	210	8.6	211	92	1	2895	33	24	18	23	1.96
1442897--1444704	631	2.9	632	95	1	3141	33	24	18	23	1.96
1444904--1445412	84	6.2	84	76	6	396	28	24	21	25	1.99
1446534--1446573	4	9.8	4	89	5	53	30	0	0	70	0.88
1447200--1447252	22	2.4	23	84	6	56	28	7	3	60	1.41
1447209--1447253	23	2.0	23	91	4	74	28	6	4	60	1.42
1448139--1448174	16	2.2	16	90	0	54	61	0	2	36	1.11
1448841--1448924	41	2.0	42	90	2	134	46	21	7	25	1.76
1449208--1449375	30	5.6	30	71	10	119	50	0	8	41	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17