genome.fa.s7782.2.7.7.80.10.50.1000.7.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: VEPZ01007782.1 Hibiscus syriacus cultivar Beakdansim tig00110065_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3900615

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  7  of  19  ( 2174 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)
1215799--1215970	74	2.3	75	84	4	213	34	16	19	29	1.94
1217259--1217313	22	2.5	22	93	0	101	34	10	14	40	1.81
1217981--1218285	76	4.0	76	96	0	538	21	21	21	34	1.97
1218231--1218314	31	2.8	31	92	3	136	21	19	22	36	1.95
1218155--1218390	107	2.2	107	94	1	413	21	20	22	36	1.95
1218262--1218958	76	9.2	76	99	0	1333	21	20	21	36	1.95
1218003--1218542	259	2.1	259	96	0	985	21	20	21	36	1.95
1217981--1218618	335	1.9	333	96	0	1168	21	21	21	36	1.96
1219085--1219149	3	21.3	3	81	9	78	36	1	0	61	1.05
1219530--1219556	1	27.0	1	100	0	54	100	0	0	0	0.00
1225468--1225528	29	2.1	30	84	9	81	40	3	27	27	1.72
1225604--1225664	15	4.3	15	72	15	58	59	3	6	31	1.39
1225592--1225657	26	2.4	28	85	12	84	60	3	4	31	1.32
1226409--1226461	22	2.4	22	80	0	61	20	24	16	37	1.93
1226661--1226700	18	2.2	18	86	8	55	30	0	2	67	1.04
1226753--1226792	21	1.9	21	100	0	80	27	0	15	57	1.38
1229441--1229482	16	2.6	16	80	0	57	45	4	7	42	1.52
1229512--1229552	10	4.0	10	84	6	55	41	7	2	48	1.44
1229520--1229646	18	6.9	17	69	15	65	48	8	0	42	1.39
1229518--1229701	21	9.4	20	69	18	86	48	8	0	42	1.37
1229515--1229705	59	3.4	57	84	11	213	48	8	0	42	1.37
1230023--1230113	22	4.4	21	64	24	59	46	12	0	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229997--1230141	60	2.4	60	94	0	254	44	11	0	44	1.40
1230167--1230259	11	8.6	11	70	25	65	46	8	1	44	1.41
1229966--1230251	14	20.1	14	65	18	67	45	9	0	44	1.42
1229510--1230831	550	2.4	551	86	8	1784	43	11	4	40	1.60
1230553--1230599	24	1.9	24	91	4	76	40	10	0	48	1.38
1230488--1230596	52	2.0	54	84	5	141	43	7	0	48	1.37
1230536--1230655	38	3.2	37	74	14	113	43	9	0	47	1.35
1230516--1230610	14	7.1	13	78	13	79	42	9	1	47	1.43
1230506--1230622	52	2.2	53	80	4	139	46	7	0	45	1.38
1230632--1230718	21	4.3	21	67	19	58	43	11	0	44	1.40
1230633--1230859	60	3.8	59	91	1	346	46	11	0	41	1.43
1230614--1230859	119	2.1	119	88	1	359	46	10	0	42	1.42
1230741--1230848	14	8.9	11	71	23	58	45	12	0	40	1.49
1230756--1230848	14	7.7	12	75	19	70	46	15	0	38	1.46
1230992--1231033	23	1.9	23	90	9	70	45	9	9	35	1.69
1234058--1234108	26	2.0	25	82	14	61	43	3	5	47	1.46
1234197--1234256	21	3.0	20	80	4	75	48	8	1	41	1.43
1234220--1234291	17	4.3	17	68	28	64	50	8	0	41	1.33
1234325--1234364	19	2.0	20	90	4	64	57	7	0	35	1.27
1234318--1234374	19	3.3	17	74	11	53	52	7	0	40	1.28
1234762--1234852	44	2.1	44	81	8	105	49	8	1	40	1.41
1234836--1234897	27	2.2	30	91	8	103	58	11	0	30	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234874--1234916	21	2.0	21	90	0	68	55	16	0	27	1.41
1235128--1235179	27	1.9	27	96	0	95	26	17	25	30	1.97
1235443--1235505	29	2.2	29	82	5	74	14	38	23	23	1.92
1235920--1235962	2	21.5	2	90	0	68	0	44	0	55	0.99
1235920--1235962	14	3.1	14	96	0	77	0	44	0	55	0.99
1238060--1238119	23	2.6	24	73	7	61	36	1	10	51	1.45
1242991--1243040	23	2.2	23	82	10	59	52	2	0	46	1.12
1243652--1243694	15	2.9	15	86	10	54	41	2	0	55	1.12
1248298--1248370	31	2.4	31	100	0	146	57	6	0	35	1.25
1248298--1248384	31	2.9	29	89	5	104	57	6	0	35	1.26
1251394--1251464	29	2.4	29	90	0	97	29	35	21	14	1.92
1254670--1254804	16	7.8	16	67	17	56	74	4	5	15	1.18
1254626--1254698	26	2.8	26	76	15	62	75	6	4	13	1.15
1254757--1254806	9	5.4	9	83	6	57	78	2	2	18	0.95
1254989--1255036	2	24.0	2	100	0	96	50	0	0	50	1.00
1255084--1255164	34	2.3	34	79	10	83	58	6	6	29	1.47
1255278--1255366	27	3.3	26	72	19	74	66	0	5	28	1.14
1255291--1255336	9	5.2	9	80	19	53	78	0	0	21	0.76
1255290--1255336	22	2.2	21	88	11	69	76	0	0	23	0.78
1255353--1255379	14	1.9	14	100	0	54	77	0	0	22	0.76
1255457--1255488	12	2.5	13	95	5	57	81	9	0	9	0.88
1257055--1257262	107	1.9	107	94	0	362	27	15	24	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1260194--1260257	25	2.5	25	78	21	62	42	1	3	53	1.26
1260308--1260356	24	2.0	24	88	4	71	30	38	20	10	1.86
1261374--1261402	2	14.5	2	100	0	58	51	0	0	48	1.00
1261425--1261459	17	2.1	17	88	0	52	28	0	0	71	0.86
1263272--1263326	13	4.2	13	85	0	65	30	20	16	32	1.94
1270708--1270895	72	2.6	74	76	12	199	26	15	17	40	1.89
1270747--1270886	73	1.9	72	83	12	180	26	15	17	40	1.89
1270872--1270942	37	1.9	37	85	0	97	26	19	12	40	1.88
1270959--1271043	36	2.4	36	88	4	118	23	21	12	42	1.87
1270872--1271070	101	2.0	101	88	2	301	29	20	12	38	1.88
1271177--1271256	30	2.7	30	90	0	115	32	25	11	31	1.91
1271107--1271291	96	1.9	97	87	1	273	28	23	12	35	1.91
1273255--1273325	30	2.4	30	85	2	90	33	28	15	22	1.95
1274273--1274330	20	2.6	22	89	10	84	25	22	20	31	1.98
1274318--1274458	64	2.2	63	81	9	162	25	23	18	32	1.97
1276545--1276612	22	2.8	23	78	13	75	16	8	0	75	1.05
1277846--1277942	48	2.0	48	95	0	176	35	9	19	36	1.84
1278902--1278932	5	6.2	5	96	0	53	16	3	19	61	1.48
1283259--1283475	76	2.9	76	91	2	339	58	12	0	28	1.39
1283382--1283407	13	2.0	13	100	0	52	69	0	0	30	0.89
1285601--1285709	5	20.8	5	68	15	51	68	3	6	21	1.27
1285643--1285704	11	5.8	11	80	12	76	70	1	6	20	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292379--1292419	20	2.0	20	95	0	73	9	7	39	43	1.65
1292381--1292431	20	2.5	20	83	0	66	9	7	43	39	1.67
1296870--1296923	19	2.8	19	97	0	99	27	33	16	22	1.95
1297015--1297102	31	2.7	32	79	10	99	38	10	6	44	1.65
1297017--1297102	33	2.7	31	79	13	95	39	10	6	43	1.66
1299668--1299718	25	2.1	23	82	13	59	56	0	1	41	1.10
1301813--1301907	35	2.8	33	78	10	113	55	3	14	26	1.54
1302266--1302328	29	2.2	29	85	0	81	50	1	17	30	1.55
1302273--1302335	29	2.2	28	88	2	90	52	1	14	31	1.51
1303613--1303804	61	3.2	60	67	11	147	29	13	22	34	1.92
1303558--1303978	122	3.5	122	87	0	556	26	13	24	35	1.93
1303639--1303948	61	5.1	61	66	13	179	26	13	23	36	1.92
1303814--1304493	220	3.1	221	88	1	990	24	14	26	34	1.94
1304406--1304830	139	3.1	138	82	0	490	23	14	27	34	1.94
1313016--1313113	32	2.9	32	78	12	117	55	3	15	26	1.55
1313129--1313425	113	2.6	115	93	2	492	39	16	18	24	1.91
1313442--1313466	4	6.2	4	100	0	50	76	0	0	24	0.80
1313468--1313525	29	2.0	29	86	6	82	46	6	22	24	1.76
1313480--1313535	29	1.9	29	85	0	76	46	5	19	28	1.72
1313486--1313546	29	2.1	29	81	6	70	49	4	16	29	1.66
1316082--1316119	20	1.9	20	94	0	67	31	34	15	18	1.92
1316139--1316229	45	2.0	46	91	2	148	27	25	19	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316080--1316290	110	1.9	110	83	9	279	29	26	16	27	1.97
1318538--1318567	15	2.0	15	100	0	60	20	26	6	46	1.75
1320143--1320442	138	2.2	137	83	4	354	45	14	12	28	1.81
1320553--1320632	30	2.7	29	75	9	72	63	5	6	25	1.38
1329236--1329289	20	2.6	21	88	8	76	24	16	27	31	1.96
1331330--1331369	18	2.3	18	86	4	55	17	25	15	42	1.88
1333809--1333921	24	4.7	24	86	4	138	40	19	14	25	1.89
1336295--1336473	64	2.8	63	85	9	229	29	25	20	25	1.99
1336247--1336453	64	3.2	64	84	9	230	30	24	19	25	1.98
1336425--1336473	19	2.6	19	84	9	57	24	28	20	26	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19