genome.fa.s1991.2.7.7.80.10.50.1000.7.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: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373627

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  7  of  13  ( 1445 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)
1177078--1177187	33	3.3	34	77	9	111	43	8	5	42	1.57
1177209--1177287	41	2.0	39	82	5	95	46	7	5	40	1.54
1178548--1178595	24	2.0	24	95	0	87	29	6	8	56	1.53
1178551--1178604	24	2.2	24	86	0	72	27	9	9	53	1.63
1178786--1178829	23	1.9	23	90	0	70	43	15	13	27	1.85
1182253--1182304	20	2.5	20	81	3	59	28	17	21	32	1.96
1188228--1188304	18	4.2	19	77	8	70	42	10	15	31	1.81
1188428--1188494	33	1.9	36	91	8	113	25	2	17	53	1.58
1188908--1188941	2	17.0	2	100	0	68	50	0	0	50	1.00
1189507--1189540	11	2.9	12	86	8	52	44	0	0	55	0.99
1191502--1191582	34	2.4	34	83	10	94	38	1	2	58	1.20
1191502--1191598	34	2.9	34	81	9	92	38	1	2	58	1.16
1191883--1191938	18	2.9	19	79	12	62	51	14	5	28	1.64
1196684--1196778	31	3.1	31	80	3	84	32	21	20	26	1.97
1196721--1196790	32	2.2	31	85	7	88	35	17	20	27	1.94
1197161--1197217	2	29.5	2	84	7	73	50	3	0	45	1.18
1198110--1198161	2	26.0	2	100	0	104	50	0	0	50	1.00
1201725--1201819	32	3.0	31	81	7	104	33	21	18	26	1.96
1201878--1201938	22	2.8	22	87	2	88	24	26	1	47	1.61
1202160--1202206	2	24.0	2	95	4	87	48	0	0	51	1.00
1204158--1204187	9	3.2	9	90	9	51	66	0	0	33	0.92
1204261--1204295	15	2.3	15	90	0	52	62	5	0	31	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213186--1213237	24	2.2	24	85	0	68	30	13	7	48	1.71
1214387--1214510	61	2.0	63	95	3	225	23	8	9	58	1.58
1215151--1215198	24	2.0	25	83	4	62	37	6	2	54	1.38
1217970--1218015	18	2.3	20	78	10	51	4	21	0	73	1.00
1225507--1225541	18	1.9	18	88	0	52	22	0	5	71	1.07
1228429--1228482	26	2.1	26	100	0	108	29	14	18	37	1.91
1237630--1237689	3	19.7	3	90	10	95	68	0	0	31	0.90
1237961--1237986	3	8.7	3	100	0	52	34	0	0	65	0.93
1238099--1238209	24	4.6	24	90	1	177	34	22	20	22	1.97
1241692--1241733	12	3.6	12	87	6	68	69	0	0	30	0.89
1241687--1241748	29	2.1	29	82	11	74	64	0	0	35	0.94
1241708--1241745	17	2.2	18	86	13	53	63	0	0	36	0.95
1243537--1243585	24	2.1	23	84	3	62	51	0	4	44	1.20
1244039--1244091	21	2.5	21	84	0	61	66	0	1	32	1.03
1244049--1244106	13	4.2	14	77	16	59	68	0	1	29	0.99
1244041--1244107	8	9.4	8	75	18	51	67	0	1	31	1.00
1244041--1244143	28	3.7	27	79	10	93	68	1	1	27	1.10
1244481--1244533	27	2.0	27	81	7	63	58	3	3	33	1.34
1245021--1245392	184	2.0	185	90	2	588	41	4	7	46	1.52
1245492--1245563	27	2.5	30	82	8	87	43	16	8	31	1.78
1253438--1253555	40	2.9	40	71	10	98	27	22	12	36	1.91
1253715--1253753	16	2.5	15	84	8	51	30	2	0	66	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254346--1254379	12	2.8	12	90	0	50	55	29	0	14	1.40
1256811--1256846	18	2.0	18	94	0	63	55	25	2	16	1.55
1257025--1257064	20	2.0	20	95	0	71	30	15	22	32	1.94
1257028--1257074	20	2.3	20	81	0	58	38	14	21	25	1.92
1258631--1258743	21	5.4	21	71	10	79	23	17	37	22	1.94
1258631--1258749	42	2.8	42	88	2	168	23	16	36	22	1.94
1258893--1258934	12	3.5	12	83	6	50	69	7	0	23	1.13
1261141--1261186	22	2.1	22	87	0	65	19	13	45	21	1.84
1261328--1261376	20	2.5	20	100	0	98	16	14	24	44	1.84
1261365--1261416	20	2.6	20	87	0	77	25	13	23	38	1.91
1263110--1263146	18	2.1	18	94	0	65	40	0	0	59	0.97
1264536--1264574	19	2.0	19	85	5	51	56	2	0	41	1.13
1266035--1266109	8	9.4	8	77	12	66	24	1	4	70	1.12
1266375--1266420	21	2.2	21	100	0	92	56	0	0	43	0.99
1266375--1266431	21	2.7	21	91	2	78	54	0	0	45	0.99
1266927--1266984	25	2.3	26	85	8	75	41	3	1	53	1.28
1272122--1272189	23	3.0	23	84	0	91	16	26	26	30	1.96
1277080--1277142	23	2.7	23	82	0	90	15	25	26	31	1.96
1278807--1278837	15	2.1	15	93	0	53	22	0	0	77	0.77
1278807--1278835	8	3.8	8	90	9	51	20	0	0	79	0.74
1283949--1284015	20	3.3	20	87	0	98	25	26	20	26	1.99
1283938--1284014	40	1.9	40	83	0	100	27	28	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1284711--1284757	19	2.5	19	100	0	94	29	25	17	27	1.97
1288179--1288274	20	4.9	20	92	2	151	25	27	22	25	2.00
1291668--1291712	18	2.4	18	85	3	54	51	6	2	40	1.41
1291682--1291727	18	2.6	18	96	0	83	45	6	0	47	1.28
1292255--1292648	138	2.9	138	90	0	610	42	14	12	30	1.82
1292628--1292669	13	2.9	14	82	10	50	50	9	14	26	1.73
1292863--1292935	29	2.5	30	82	10	89	52	6	16	24	1.68
1292998--1293031	10	3.3	10	84	8	50	73	0	0	26	0.83
1295342--1295423	34	2.4	34	100	0	164	23	29	15	31	1.95
1295769--1295842	20	3.7	20	83	3	94	31	24	25	18	1.98
1296020--1296077	30	2.0	29	90	10	91	44	17	5	32	1.70
1296020--1296079	29	2.0	30	93	6	104	43	16	6	33	1.74
1298696--1298769	20	3.7	20	85	3	103	31	24	27	17	1.97
1298804--1298846	22	1.9	23	90	4	70	20	20	32	25	1.97
1298790--1298888	21	4.8	20	84	13	128	21	20	36	22	1.95
1299091--1299188	21	4.7	21	79	13	112	21	20	34	23	1.96
1299091--1299158	13	4.9	14	73	18	54	22	20	32	25	1.98
1299268--1299325	30	2.0	29	90	10	91	44	17	5	32	1.70
1299268--1299326	29	2.0	30	93	6	102	44	16	5	33	1.70
1300254--1300307	22	2.5	22	93	0	90	61	7	12	18	1.54
1300452--1300560	51	2.2	50	83	1	128	19	33	27	19	1.96
1300445--1300571	51	2.5	50	76	11	123	18	33	28	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300693--1300733	10	4.1	10	84	12	57	31	29	0	39	1.57
1302579--1302618	18	2.2	18	95	0	71	27	32	20	20	1.97
1304222--1304330	51	2.2	49	88	9	161	26	22	25	24	2.00
1304366--1304479	51	2.3	50	83	7	142	18	33	32	15	1.93
1307246--1307284	15	2.6	14	88	8	51	23	0	2	74	0.94
1307283--1307394	54	2.1	53	80	9	120	31	8	2	58	1.41
1312538--1312794	125	2.1	125	95	1	462	30	17	12	38	1.87
1312698--1312816	36	3.3	36	70	9	107	28	15	13	42	1.85
1312750--1312867	36	3.3	35	70	9	105	32	13	11	43	1.79
1312699--1312896	72	2.8	72	85	4	256	29	16	12	40	1.86
1312953--1313037	36	2.4	36	83	0	107	22	23	15	38	1.92
1312864--1313200	101	3.3	101	89	1	521	29	19	13	37	1.89
1313049--1313139	36	2.6	36	85	1	130	29	20	10	38	1.87
1313314--1313422	35	2.9	36	76	14	112	23	20	12	43	1.86
1313382--1313587	65	3.1	66	79	8	195	32	18	11	36	1.87
1313542--1313616	33	2.3	33	90	0	114	33	17	10	38	1.84
1313595--1313646	26	2.0	26	92	7	88	34	19	7	38	1.80
1315344--1315376	15	2.1	16	94	5	59	24	0	3	72	0.98
1320813--1320860	14	3.4	14	79	0	60	20	0	31	47	1.50
1320813--1320861	21	2.3	22	79	10	57	20	0	30	48	1.50
1320911--1320935	12	2.1	12	100	0	50	28	0	24	48	1.52
1320913--1320962	7	7.4	7	75	8	50	20	0	30	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320814--1321054	110	2.2	112	97	1	459	28	4	24	42	1.75
1320912--1320962	21	2.5	21	84	6	70	21	0	29	49	1.50
1321023--1321093	7	10.3	7	70	3	54	21	1	30	46	1.60
1321023--1321093	21	3.4	21	90	3	117	21	1	30	46	1.60
1321479--1321805	162	2.0	165	98	1	633	35	11	8	43	1.72
1326348--1326468	21	5.7	21	75	2	107	22	14	23	38	1.92
1326348--1326450	42	2.5	43	87	6	149	24	13	24	37	1.91
1326454--1326532	23	3.5	22	76	13	79	24	22	25	27	2.00
1326445--1326543	23	4.3	23	75	10	67	25	20	26	28	1.99
1332647--1332718	15	4.8	15	81	5	92	45	1	51	1	1.18

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13