genome.fa.s7849.2.7.7.80.10.50.1000.5.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

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

This is table  5  of  12  ( 1357 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)
1102911--1102944	17	2.1	16	89	10	52	47	11	0	41	1.40
1112245--1112300	21	2.4	24	75	19	57	35	3	0	60	1.14
1112573--1112607	18	1.9	18	88	0	52	45	25	11	17	1.81
1115553--1115633	31	2.6	31	88	0	117	23	17	20	38	1.93
1116310--1116374	21	3.1	21	90	0	103	27	24	24	23	2.00
1119705--1119839	67	2.0	66	92	1	225	26	14	15	42	1.86
1127851--1127881	16	1.9	16	93	0	53	61	3	6	29	1.37
1129854--1129902	18	2.7	18	74	0	53	40	4	46	8	1.52
1130899--1130955	29	2.0	29	92	0	96	40	14	28	17	1.88
1144335--1144519	98	1.9	100	86	2	266	42	15	21	20	1.89
1147329--1147395	7	9.6	7	80	0	80	13	25	52	8	1.69
1147329--1147395	21	3.2	21	100	0	134	13	25	52	8	1.69
1154478--1154506	2	14.5	2	100	0	58	48	0	0	51	1.00
1154857--1154927	29	2.4	29	92	2	115	36	23	21	18	1.95
1156132--1156200	35	2.0	34	85	2	93	17	10	13	59	1.60
1163573--1163765	3	64.3	3	100	0	386	66	0	0	33	0.92
1172717--1172819	54	1.9	54	91	0	170	17	33	18	30	1.94
1176277--1176321	23	2.0	23	86	0	63	55	6	13	24	1.62
1178028--1178058	16	1.9	16	93	0	53	41	0	6	51	1.27
1187527--1187582	24	2.3	24	87	0	76	21	21	17	39	1.93
1192827--1192873	18	2.7	18	80	3	51	42	2	0	55	1.12
1198296--1198340	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1200027--1200093	22	3.1	22	97	2	127	19	26	26	26	1.99
1203190--1203234	21	2.1	21	87	0	63	31	28	24	15	1.96
1204926--1204993	22	3.1	22	100	0	136	19	27	26	26	1.99
1209467--1209493	13	2.1	13	100	0	54	85	0	0	14	0.61
1211047--1211099	24	2.2	25	80	10	65	52	13	13	20	1.73
1211489--1211516	2	14.0	2	100	0	56	50	0	0	50	1.00
1217315--1217366	15	3.2	17	72	22	58	36	21	0	42	1.53
1221489--1221548	30	2.0	31	83	9	79	46	3	8	41	1.50
1221498--1221565	31	2.2	32	78	10	77	44	4	7	44	1.52
1230535--1230759	35	6.8	33	75	16	173	45	3	7	43	1.49
1230535--1230698	34	4.9	33	80	11	135	46	3	7	42	1.49
1230516--1230728	68	3.2	62	73	19	166	43	4	8	43	1.55
1231855--1231922	22	3.0	22	91	6	109	26	27	26	19	1.99
1233611--1233655	21	2.1	21	87	0	63	15	24	28	31	1.96
1235244--1235276	10	3.4	10	91	4	50	15	12	6	66	1.42
1241137--1241531	186	2.1	186	91	1	641	42	3	7	45	1.51
1243417--1243467	25	2.0	26	88	3	77	25	11	13	49	1.76
1246714--1246738	2	12.5	2	100	0	50	52	0	0	48	1.00
1247212--1247246	9	4.0	9	88	7	54	42	0	0	57	0.99
1258957--1259167	73	2.9	72	93	4	347	24	9	44	21	1.83
1262694--1262733	14	2.5	17	76	19	50	32	2	0	65	1.06
1276026--1276086	21	2.9	23	88	11	87	59	0	0	40	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1277353--1277391	20	2.1	19	90	9	62	53	7	0	38	1.30
1284740--1284787	22	2.1	23	85	11	64	35	8	4	52	1.51
1284799--1284829	16	1.9	16	93	0	53	25	16	16	41	1.88
1285109--1285140	3	10.7	3	100	0	64	65	0	0	34	0.93
1291800--1291841	19	2.3	19	79	4	50	40	2	2	54	1.26
1294508--1294655	78	1.9	78	90	0	233	37	11	17	33	1.86
1297681--1297753	30	2.4	30	97	0	137	23	23	21	31	1.98
1306052--1306083	15	2.1	16	94	5	57	6	25	18	50	1.70
1306834--1306867	16	2.1	16	94	0	59	32	26	8	32	1.87
1313037--1313249	105	2.0	104	82	5	259	28	23	14	34	1.93
1319180--1319204	6	4.2	6	100	0	50	16	16	32	36	1.90
1321274--1321343	27	2.6	27	78	12	74	62	2	0	34	1.10
1321292--1321337	24	1.9	24	86	8	67	67	2	0	30	1.03
1321337--1321390	11	4.6	12	77	15	51	64	3	0	31	1.11
1321335--1321390	22	2.4	24	79	8	71	66	3	0	30	1.09
1323372--1323449	3	26.3	3	79	7	79	61	0	0	38	0.96
1323372--1323449	25	3.2	25	85	1	86	61	0	0	38	0.96
1323638--1324222	45	13.0	45	97	1	1084	33	19	23	22	1.97
1325408--1325515	54	2.0	54	90	0	171	23	22	15	38	1.92
1327094--1327444	176	2.0	176	100	0	702	30	15	24	29	1.95
1329894--1329953	30	2.0	30	100	0	120	43	10	6	40	1.64
1331919--1331951	15	2.3	15	89	5	50	57	9	18	15	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334784--1334837	11	4.6	12	77	15	51	64	3	0	31	1.11
1334782--1334837	22	2.4	24	79	8	71	66	3	0	30	1.09
1336253--1336329	3	25.3	3	79	7	75	61	0	0	38	0.96
1336253--1336329	27	2.8	28	82	5	86	61	0	0	38	0.96
1338412--1338444	16	2.1	16	100	0	66	57	18	0	24	1.40
1338486--1338621	34	4.2	33	87	8	190	61	2	0	36	1.09
1341952--1342006	2	28.0	2	92	3	94	50	0	1	47	1.11
1346508--1346545	8	4.9	8	83	6	51	39	0	23	36	1.55
1346631--1347095	128	3.7	126	89	5	698	21	23	21	34	1.97
1347480--1347585	34	3.1	34	87	0	149	36	2	4	55	1.35
1347784--1347883	50	2.0	50	100	0	200	12	22	20	46	1.83
1348159--1348248	21	4.3	20	90	4	117	20	25	35	18	1.95
1348161--1348241	41	2.0	41	87	4	119	22	22	35	19	1.96
1350049--1350086	13	2.9	14	88	11	55	60	0	0	39	0.97
1351430--1351621	101	1.9	101	91	0	312	28	21	12	37	1.90
1354939--1354984	13	3.5	13	93	0	74	15	43	21	19	1.87
1354987--1355025	7	5.4	7	87	6	60	15	33	25	25	1.95
1362615--1362694	33	2.4	33	87	8	126	36	7	8	47	1.63
1366167--1366239	32	2.3	32	100	0	146	53	19	2	24	1.58
1366627--1366676	24	2.1	24	84	0	64	38	6	46	10	1.62
1376783--1376991	105	2.0	105	83	5	262	34	13	22	29	1.92
1387186--1387255	28	2.5	28	93	4	115	18	11	21	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390936--1390972	17	2.2	17	100	0	74	13	24	43	18	1.86
1398101--1398139	17	2.3	17	100	0	78	12	23	46	17	1.83
1398151--1398229	10	8.1	10	77	14	67	26	30	26	16	1.97
1398149--1398199	19	2.6	19	84	9	68	21	29	31	17	1.96
1398148--1398249	29	3.5	29	81	8	118	27	28	28	15	1.96
1398155--1398249	19	4.8	19	80	6	93	28	29	26	15	1.96
1399470--1399547	22	3.5	22	75	14	88	47	2	1	48	1.23
1399541--1399610	22	3.5	19	78	16	70	52	2	1	42	1.24
1399541--1399609	20	3.3	20	78	13	68	52	2	1	43	1.25
1435347--1435399	18	2.8	18	80	8	61	62	0	1	35	1.06
1435347--1435400	19	2.8	19	76	18	58	61	0	1	37	1.07
1437526--1437568	22	2.0	22	100	0	86	51	13	0	34	1.42
1437528--1437576	22	2.2	22	88	3	71	55	14	0	30	1.40
1437516--1437986	54	8.6	54	76	9	495	52	13	0	33	1.43
1437548--1438057	32	18.4	31	69	28	336	52	13	0	33	1.43
1437584--1437657	22	3.2	22	70	16	60	55	17	0	27	1.42
1437548--1437932	112	3.5	111	82	7	548	52	14	0	32	1.44
1437692--1437734	22	2.0	22	100	0	86	51	13	0	34	1.42
1437746--1437788	22	2.0	22	95	0	77	51	16	0	32	1.45
1437748--1437796	22	2.2	22	85	3	62	55	16	0	28	1.42
1437515--1438013	166	3.0	164	85	6	602	52	14	0	33	1.43
1437751--1438057	80	3.8	79	90	8	499	52	14	0	33	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437802--1437876	22	3.2	23	75	17	82	54	17	0	28	1.43
1437514--1437986	220	2.2	220	97	0	892	52	13	0	33	1.43
1437912--1437954	22	2.0	22	100	0	86	51	13	0	34	1.42
1437611--1437904	140	2.2	131	90	6	394	53	14	0	32	1.42
1437914--1437962	22	2.2	22	88	3	71	55	14	0	30	1.40
1437714--1438057	166	2.1	166	96	0	634	52	13	0	33	1.43
1437991--1438043	22	2.5	21	76	11	63	52	13	0	33	1.40
1438037--1438214	15	11.5	15	85	8	223	50	1	0	47	1.15
1438036--1438214	45	3.8	45	88	5	252	50	1	0	47	1.15
1440198--1440615	179	2.4	178	80	8	480	24	14	17	43	1.87

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