genome.fa.s8746.2.7.7.80.10.50.1000.7.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: VEPZ01008746.1 Hibiscus syriacus cultivar Beakdansim tig00111835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2013901

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

This is table  7  of  10  ( 1164 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)
1164804--1165390	288	2.0	293	97	2	1121	33	18	16	31	1.93
1167172--1167202	14	2.3	13	94	5	53	67	0	3	29	1.06
1167214--1167564	38	9.3	39	74	16	190	45	5	3	45	1.44
1167206--1167313	42	2.7	40	85	8	139	50	2	1	44	1.27
1167352--1167412	12	4.9	12	70	21	54	44	8	6	40	1.60
1167308--1167536	38	6.2	37	84	10	281	45	6	4	44	1.48
1167308--1167536	74	3.1	74	85	10	283	45	6	4	44	1.48
1171711--1171741	2	15.5	2	100	0	62	51	0	0	48	1.00
1177095--1177193	33	3.0	33	95	1	171	36	24	14	25	1.93
1183014--1183143	2	69.0	2	67	19	66	50	2	1	46	1.23
1183014--1183142	15	8.3	15	74	20	90	50	2	1	45	1.23
1183067--1183143	18	4.3	18	74	11	77	48	2	1	48	1.23
1183019--1183142	13	9.7	13	72	17	82	50	2	1	45	1.24
1183238--1183282	13	3.3	13	87	6	63	48	6	6	37	1.56
1183797--1183841	15	3.1	15	81	15	58	42	0	0	57	0.98
1183802--1183839	13	2.8	13	92	8	58	44	0	0	55	0.99
1183863--1183914	2	26.0	2	80	7	61	50	5	0	44	1.26
1183998--1184068	28	2.6	28	81	2	81	46	25	1	26	1.61
1184461--1184509	16	3.1	16	97	2	91	34	14	30	20	1.92
1184464--1184511	15	3.1	15	96	3	87	33	12	35	18	1.89
1192072--1192430	179	2.0	179	100	0	718	33	24	11	31	1.90
1202270--1202594	162	2.0	162	100	0	650	36	22	14	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224753--1224808	28	2.0	28	82	6	69	32	1	5	60	1.29
1227948--1228008	31	1.9	32	83	3	79	37	4	4	52	1.45
1229605--1229733	10	13.0	10	71	14	81	57	3	1	37	1.27
1229612--1229706	16	5.9	16	81	4	111	60	5	1	33	1.26
1229612--1229697	13	6.8	12	73	15	66	60	4	1	33	1.25
1231412--1231679	134	2.0	134	98	1	520	36	5	24	33	1.78
1235555--1235615	20	2.9	21	85	7	70	16	26	32	24	1.96
1246479--1246606	23	5.7	23	86	3	136	23	18	25	32	1.97
1247805--1248013	104	2.0	104	100	0	418	27	18	12	41	1.86
1251862--1252667	404	2.0	404	87	0	1171	29	21	14	34	1.93
1255810--1255938	64	2.0	65	98	1	251	37	12	12	37	1.81
1255966--1256057	44	2.1	44	93	0	157	33	30	18	17	1.94
1260254--1260283	13	2.3	13	94	0	51	63	3	0	33	1.11
1260253--1260321	19	3.6	19	80	7	68	57	4	2	34	1.33
1260253--1260335	16	5.2	16	76	2	78	57	4	2	34	1.33
1262440--1262499	19	3.3	19	70	13	54	28	1	1	68	1.09
1263365--1263517	77	2.0	76	98	1	297	33	24	22	18	1.97
1266306--1266375	31	2.3	31	94	0	131	30	7	12	50	1.67
1266526--1266556	16	1.9	16	93	0	53	12	29	29	29	1.94
1267411--1267488	31	2.5	31	95	0	138	20	11	15	52	1.73
1268851--1268929	31	2.5	31	85	0	113	55	13	10	20	1.67
1270792--1270821	13	2.3	13	100	0	60	30	6	16	46	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1272380--1272566	96	2.0	95	91	1	302	32	16	21	29	1.95
1272493--1272564	22	3.6	19	75	12	72	33	15	23	27	1.95
1272963--1273140	79	2.3	79	86	0	257	37	10	22	29	1.87
1276697--1276756	31	2.1	27	78	21	70	30	6	11	51	1.64
1276704--1276769	31	2.1	31	100	0	132	30	6	12	51	1.63
1276924--1276958	16	2.2	16	89	0	52	17	31	25	25	1.97
1277802--1277879	31	2.5	31	91	0	129	20	11	16	51	1.75
1283555--1283624	24	3.2	24	65	23	71	28	17	18	35	1.93
1283555--1283648	42	2.2	42	96	0	170	25	19	20	35	1.96
1285136--1285170	16	2.2	16	94	0	61	14	31	28	25	1.95
1286023--1286100	31	2.5	31	89	4	113	25	10	12	51	1.71
1287340--1287418	31	2.5	31	83	0	104	55	12	10	21	1.66
1290984--1291159	96	1.8	96	87	0	262	32	13	21	32	1.92
1291568--1291753	79	2.4	79	89	1	302	36	12	21	29	1.90
1291700--1291766	34	2.0	32	85	5	89	38	13	19	28	1.89
1294006--1294100	43	2.2	43	94	1	165	26	18	18	35	1.95
1295398--1295467	31	2.3	31	92	0	113	30	4	12	52	1.58
1295619--1295649	16	1.9	16	100	0	62	12	25	32	29	1.93
1296504--1296581	31	2.5	31	95	0	138	20	11	15	52	1.73
1297941--1298019	31	2.5	31	85	0	113	55	13	10	20	1.67
1302072--1302257	79	2.4	79	91	0	309	37	12	21	28	1.90
1302204--1302270	34	2.0	32	85	5	89	38	13	19	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304508--1304583	24	3.4	23	67	20	63	27	18	19	34	1.95
1304508--1304601	42	2.2	42	96	0	170	25	20	19	35	1.96
1309626--1309669	14	3.0	14	86	6	52	70	0	0	29	0.88
1310016--1310066	26	2.0	26	88	0	75	17	5	13	62	1.50
1315658--1315736	31	2.5	30	82	8	95	55	12	8	22	1.64
1321949--1322148	76	2.6	76	92	2	323	19	25	28	28	1.98
1322098--1322138	21	2.0	20	95	4	73	12	24	34	29	1.91
1324837--1324909	23	3.4	22	81	10	80	28	23	28	19	1.98
1330645--1330684	21	1.9	21	94	0	71	15	22	32	30	1.94
1331118--1331237	53	2.3	53	92	1	206	35	24	9	30	1.87
1340394--1340777	125	3.1	125	92	0	644	30	16	27	26	1.96
1341744--1341775	6	5.3	6	100	0	64	15	15	15	53	1.74
1342282--1343042	55	13.8	55	87	2	1012	33	18	25	23	1.96
1342282--1343042	166	4.6	165	87	2	1030	33	18	25	23	1.96
1343345--1343370	2	13.0	2	100	0	52	50	0	0	50	1.00
1349046--1349070	1	25.0	1	100	0	50	0	0	0	100	0.00
1358754--1358794	22	1.9	22	90	5	66	36	4	12	46	1.63
1363059--1363143	34	2.6	32	84	3	98	24	15	23	36	1.93
1363018--1363187	32	5.2	32	75	8	128	18	13	27	40	1.89
1363767--1363832	17	3.9	17	76	18	57	39	0	1	59	1.07
1363767--1363819	17	2.8	19	81	16	58	39	0	1	58	1.09
1363906--1363941	16	2.2	16	95	0	63	0	16	36	47	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363953--1364000	21	2.2	22	85	3	62	18	10	18	52	1.74
1364659--1364691	16	2.1	16	94	0	57	6	9	33	51	1.58
1366673--1366823	73	2.1	73	96	0	275	42	9	9	38	1.70
1369139--1369847	355	2.0	347	87	4	1030	39	12	16	32	1.85
1370049--1370114	29	2.2	29	84	10	80	56	0	4	39	1.20
1372332--1372367	4	8.8	4	93	6	63	22	0	0	77	0.76
1372421--1372472	16	3.5	15	78	21	56	21	1	0	76	0.87
1372434--1372472	8	4.8	8	83	3	51	17	2	0	79	0.84
1372988--1373028	6	6.8	6	100	0	82	34	0	0	65	0.93
1373570--1373615	16	2.9	16	86	0	65	26	8	41	23	1.83
1375637--1375679	15	3.0	14	78	15	52	81	2	13	2	0.89
1375763--1375893	69	1.9	69	95	0	235	35	23	16	24	1.94
1376789--1376904	32	3.6	32	82	6	121	28	12	24	34	1.92
1378369--1378837	36	13.2	36	83	6	580	26	20	13	39	1.90
1378752--1378816	21	3.4	21	64	24	61	24	21	13	40	1.90
1378413--1378889	173	2.7	172	88	4	661	25	19	13	41	1.88
1378866--1378914	20	2.5	19	80	6	53	12	20	14	53	1.73
1378877--1378914	19	2.0	20	84	5	51	13	18	15	52	1.74
1378802--1378966	85	1.9	87	87	2	244	24	20	10	44	1.83
1391085--1391925	216	3.9	216	83	3	999	24	25	17	33	1.97
1394992--1395041	18	2.8	18	90	0	82	16	20	36	28	1.93
1396126--1396168	18	2.5	17	85	7	61	25	4	2	67	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396166--1396195	2	15.0	2	92	0	51	50	3	0	46	1.18
1396441--1396499	19	2.7	22	72	22	61	27	3	0	69	1.04
1396569--1396645	41	1.9	39	86	5	109	16	28	6	48	1.71
1396661--1396739	40	2.0	40	85	9	110	31	3	7	56	1.45
1396661--1396762	40	2.6	39	77	10	102	29	4	5	59	1.42
1405079--1406045	216	4.5	214	91	1	1424	34	23	17	23	1.96
1405048--1406045	106	9.3	106	86	4	1322	34	23	18	23	1.96
1407334--1407376	18	2.5	17	85	7	61	25	4	2	67	1.22
1407640--1407664	2	12.5	2	100	0	50	48	0	0	52	1.00
1409397--1409431	15	2.3	15	90	9	54	54	0	2	42	1.15

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