genome.fa.s9604.2.7.7.80.10.50.1000.7.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

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

This is table  7  of  17  ( 1985 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)
1214205--1214279	26	3.0	26	86	9	104	45	4	0	50	1.20
1214442--1214508	31	2.2	31	89	2	100	49	8	7	34	1.62
1221023--1221538	54	9.6	54	87	3	693	27	19	21	31	1.97
1221025--1221538	161	3.2	162	87	2	757	27	19	21	31	1.97
1227535--1227583	20	2.5	19	87	9	71	30	14	36	18	1.90
1227629--1227671	22	2.0	22	86	9	61	30	13	25	30	1.94
1228008--1228340	54	6.2	54	86	2	481	28	18	19	33	1.96
1228009--1228340	161	2.1	162	88	1	488	28	18	19	33	1.96
1229236--1229289	22	2.6	21	77	8	65	35	14	22	27	1.93
1229743--1229896	79	1.9	79	90	0	245	35	9	23	31	1.86
1229832--1230584	45	18.5	43	72	20	527	34	11	24	28	1.91
1229753--1230257	124	4.2	123	74	12	479	35	10	24	29	1.89
1229877--1230415	79	6.8	79	93	0	889	35	11	24	28	1.90
1229730--1230099	203	1.8	203	92	0	623	34	10	24	30	1.89
1230159--1230291	34	3.6	34	72	20	131	39	11	21	28	1.87
1230272--1230598	124	2.6	124	88	2	480	34	12	25	27	1.92
1230892--1230952	29	2.1	29	90	0	95	45	6	22	24	1.76
1231873--1232113	54	4.5	54	85	6	321	30	18	19	31	1.96
1231877--1232144	108	2.5	108	83	4	242	31	16	19	32	1.94
1234275--1234303	12	2.3	13	94	5	51	68	0	0	31	0.89
1234541--1234599	5	11.8	5	74	13	50	76	1	5	16	1.05
1234587--1234617	11	2.8	11	95	0	53	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234714--1234740	11	2.5	11	100	0	54	77	0	0	22	0.76
1236718--1236790	29	2.4	30	88	6	112	32	8	16	42	1.78
1236792--1236970	73	2.6	67	84	11	202	37	13	21	26	1.91
1236861--1236970	36	3.0	37	94	2	204	40	15	20	24	1.91
1236896--1237070	88	2.0	88	87	2	253	40	13	18	28	1.88
1236878--1237107	125	1.8	125	89	5	367	42	14	17	25	1.87
1236984--1237517	36	15.2	37	76	12	394	41	14	18	26	1.88
1236793--1237517	172	4.2	173	78	10	715	40	13	19	26	1.89
1237232--1237489	136	1.9	134	87	3	374	39	13	18	27	1.89
1237269--1237451	101	1.8	100	86	3	269	38	13	18	29	1.89
1239263--1239352	18	5.0	18	74	17	80	2	15	2	80	0.92
1239290--1239353	33	1.9	33	90	0	101	0	14	4	81	0.85
1239268--1239341	9	8.0	9	73	23	57	2	13	2	81	0.92
1242228--1242255	6	4.7	6	100	0	56	71	0	0	28	0.86
1242389--1242439	13	3.7	13	73	21	50	80	1	9	7	0.98
1242359--1242447	32	2.7	32	80	13	99	77	2	7	12	1.07
1242389--1242444	14	3.9	14	77	11	60	80	1	8	8	0.98
1242476--1242568	41	2.3	40	80	12	100	75	2	10	11	1.14
1242671--1242698	12	2.3	12	100	0	56	78	0	0	21	0.75
1246334--1246435	51	2.0	51	86	3	143	18	32	30	18	1.95
1248982--1249067	38	2.3	38	83	13	110	26	6	8	58	1.53
1253384--1253413	2	15.5	2	93	6	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253426--1253486	25	2.4	25	94	0	104	45	0	8	45	1.33
1253452--1253639	38	5.1	37	77	9	154	40	3	7	47	1.49
1253637--1253681	5	8.8	5	88	7	56	24	2	0	73	0.95
1253824--1253859	15	2.3	16	85	4	56	19	38	27	13	1.90
1254810--1254834	2	12.5	2	100	0	50	48	0	0	52	1.00
1254873--1254991	12	10.5	11	67	21	59	21	5	1	71	1.14
1254965--1254990	3	8.7	3	100	0	52	30	0	0	69	0.89
1257387--1257631	95	2.5	95	88	5	332	34	13	17	34	1.89
1258634--1259456	239	3.5	239	87	4	1132	33	22	18	26	1.96
1259133--1259274	34	4.2	34	72	13	123	35	25	16	23	1.95
1259199--1259284	34	2.5	34	90	0	127	37	22	16	24	1.93
1259536--1260326	84	9.4	84	85	1	922	32	23	18	24	1.97
1259536--1260326	252	3.1	251	87	1	1091	32	23	18	24	1.97
1259770--1260419	84	7.7	83	82	4	302	34	22	18	24	1.96
1260965--1260998	4	8.5	4	93	0	59	23	50	2	23	1.63
1261016--1261271	76	3.5	72	84	7	293	44	3	6	45	1.46
1261016--1261271	36	6.9	36	86	7	327	44	3	6	45	1.46
1261027--1261315	37	7.8	34	80	13	188	44	3	6	46	1.45
1261313--1261361	18	2.8	17	84	9	62	22	2	0	75	0.90
1261507--1261536	16	1.9	15	93	6	51	20	40	26	13	1.89
1262486--1262512	2	13.5	2	100	0	54	48	0	0	51	1.00
1264031--1264058	12	2.3	12	100	0	56	25	21	7	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1270914--1270974	31	1.9	32	93	3	106	47	8	14	29	1.73
1279162--1279191	15	2.1	15	93	6	53	50	10	0	40	1.36
1280635--1280687	21	2.5	22	78	6	65	22	22	18	35	1.95
1280673--1280729	20	2.8	20	97	0	105	40	21	19	19	1.92
1280925--1280990	22	3.0	22	84	0	78	24	34	15	25	1.94
1281326--1281429	20	5.6	19	78	14	83	13	18	23	45	1.84
1281393--1281436	20	2.2	20	87	0	61	11	13	18	56	1.66
1283152--1283337	20	9.9	20	76	13	92	42	21	18	17	1.89
1283230--1283336	40	2.7	39	91	5	169	38	20	19	21	1.94
1283140--1283374	60	4.3	54	74	16	182	42	20	19	18	1.90
1283381--1283469	20	4.4	20	94	0	133	20	20	24	34	1.96
1283909--1284013	21	5.0	20	68	12	68	20	36	19	23	1.95
1283905--1284016	42	2.7	42	78	8	113	20	37	18	23	1.94
1285394--1285429	14	2.6	14	90	0	54	30	0	22	47	1.52
1285576--1285638	20	3.2	20	86	4	92	17	22	25	34	1.95
1288043--1288096	24	2.2	24	93	0	90	40	20	18	20	1.91
1288043--1288110	24	2.8	24	84	0	64	38	20	17	23	1.93
1288938--1288984	20	2.3	20	92	0	76	21	19	27	31	1.97
1288971--1289027	20	2.8	20	97	0	105	19	19	21	40	1.92
1291255--1291286	12	2.7	12	90	0	55	25	12	0	62	1.30
1295568--1295599	12	2.7	12	90	0	55	25	12	0	62	1.30
1299931--1299965	14	2.5	14	90	0	52	20	20	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302876--1302902	14	1.9	14	100	0	54	29	22	11	37	1.89
1302985--1303051	29	2.3	29	86	0	89	49	2	20	26	1.64
1304929--1304988	30	2.0	30	93	0	102	18	11	51	18	1.75
1306017--1306056	2	20.5	2	87	5	55	52	0	0	47	1.00
1306254--1306297	22	2.0	22	100	0	88	13	36	22	27	1.92
1314398--1314431	15	2.3	15	95	5	61	44	11	17	26	1.83
1315686--1315842	64	2.5	64	82	6	176	33	20	17	28	1.96
1316675--1316836	65	2.5	64	89	4	236	34	17	21	26	1.95
1317328--1317362	18	1.9	18	88	11	54	54	5	17	22	1.64
1318254--1318564	147	2.1	146	91	4	502	26	17	21	34	1.95
1318532--1318576	23	2.0	23	90	0	72	22	26	26	24	2.00
1321867--1321990	64	1.9	65	95	1	223	36	16	20	26	1.94
1323320--1323436	34	3.6	34	72	21	122	42	11	14	31	1.81
1323706--1323758	21	2.7	20	77	13	56	24	5	5	64	1.38
1323842--1323948	6	17.5	6	71	18	62	19	3	0	75	1.01
1323817--1323897	35	2.2	39	89	8	125	28	2	0	69	1.02
1323805--1323899	31	3.3	28	76	16	79	29	2	0	68	1.01
1323803--1323949	4	37.0	4	71	13	54	24	3	0	71	1.06
1323972--1324016	21	2.1	21	100	0	90	13	8	4	73	1.23
1324035--1324064	15	2.0	15	100	0	60	20	20	0	60	1.37
1327848--1327881	16	2.1	16	89	10	52	76	8	14	0	1.01
1327854--1327920	8	8.9	7	76	16	55	77	7	14	0	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1328577--1328647	22	3.2	22	95	0	124	33	23	14	28	1.94
1329428--1329695	100	2.7	99	87	6	373	32	19	11	37	1.87
1329578--1329671	36	2.6	36	83	5	100	26	18	12	42	1.86
1329646--1329702	29	2.0	29	86	6	80	38	17	10	33	1.84
1329716--1329828	36	3.1	36	83	5	156	30	18	11	39	1.86
1329870--1329982	32	3.5	32	87	7	149	36	19	11	32	1.88
1329938--1330130	69	2.8	66	79	7	208	27	20	11	39	1.88
1330685--1330874	104	1.8	104	92	3	321	32	25	20	22	1.97
1330711--1331107	104	4.0	102	75	14	327	33	25	20	20	1.97
1330885--1331050	91	1.8	90	84	3	226	34	27	21	16	1.95

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