genome.fa.s1838.2.7.7.80.10.50.1000.7.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

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

This is table  7  of  18  ( 2134 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)
1214697--1214740	16	2.8	16	96	0	79	34	18	11	36	1.86
1217945--1217981	15	2.5	15	95	0	65	24	0	16	59	1.37
1218759--1218810	23	2.2	23	82	6	59	36	5	5	51	1.50
1219889--1220013	53	2.3	54	84	5	164	29	21	22	26	1.99
1220571--1220650	21	3.7	21	75	15	74	21	17	28	32	1.96
1220571--1220656	44	2.0	44	90	4	138	23	17	27	31	1.97
1228310--1228388	30	2.5	32	80	10	92	37	26	6	29	1.81
1228475--1228526	24	2.2	24	100	0	104	19	26	11	42	1.85
1230049--1230140	34	2.7	34	98	1	175	33	9	20	35	1.86
1230076--1230194	37	3.3	36	84	7	120	31	6	21	40	1.79
1234648--1234740	37	2.7	35	83	8	109	33	7	18	40	1.78
1234675--1234758	37	2.3	36	88	6	125	32	4	20	42	1.73
1235612--1235668	27	2.0	29	87	12	84	52	5	0	42	1.24
1235711--1235807	32	3.2	29	76	18	74	48	1	3	47	1.24
1235752--1235796	20	2.2	20	84	7	56	48	0	4	46	1.22
1235748--1235816	21	3.2	21	76	15	61	47	0	2	49	1.16
1235758--1235816	32	1.9	33	86	13	90	49	0	3	47	1.18
1237384--1237425	17	2.7	15	80	16	50	50	0	2	47	1.14
1238947--1238976	2	15.0	2	100	0	60	50	0	0	50	1.00
1239102--1239145	3	14.7	3	100	0	88	65	0	0	34	0.93
1239982--1240014	16	2.1	16	88	11	50	12	12	24	51	1.73
1242952--1242982	15	2.1	15	93	0	53	22	0	0	77	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242954--1243005	21	2.5	21	79	14	63	25	1	1	71	1.07
1242968--1243007	21	1.9	21	94	0	71	27	2	2	67	1.16
1244148--1244203	21	2.7	21	97	0	103	19	19	25	35	1.95
1247855--1247893	13	3.1	13	81	3	53	20	20	0	58	1.39
1247927--1247996	19	3.7	19	88	0	86	31	17	7	44	1.75
1248354--1248422	2	34.5	2	94	0	120	49	0	2	47	1.16
1259920--1259958	13	3.1	13	81	3	53	20	17	0	61	1.34
1260004--1260061	19	3.1	18	80	9	62	34	15	5	44	1.69
1260391--1260416	2	13.0	2	100	0	52	50	0	0	50	1.00
1265739--1265778	21	1.9	21	89	0	62	27	17	17	37	1.92
1265748--1265788	21	2.0	21	85	0	55	29	12	19	39	1.88
1266137--1266179	18	2.4	18	80	0	50	60	2	4	32	1.30
1281126--1281205	19	3.9	20	79	12	83	23	31	26	18	1.98
1281881--1281906	12	2.2	12	100	0	52	23	53	0	23	1.46
1285384--1285433	21	2.4	21	80	6	57	24	20	18	38	1.93
1285503--1285563	21	2.9	21	87	0	86	19	19	26	34	1.96
1287418--1287568	76	2.0	77	88	1	223	31	7	19	41	1.80
1287500--1287772	51	5.4	51	87	0	323	31	10	19	38	1.85
1287664--1287744	26	3.2	26	63	19	62	29	9	17	43	1.81
1290065--1290156	39	2.4	37	80	7	105	10	14	6	68	1.38
1292052--1292114	20	3.2	20	93	0	99	33	20	12	33	1.90
1294563--1294592	15	2.0	15	93	0	51	43	13	23	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1295066--1295116	9	5.7	9	78	0	57	56	1	13	27	1.48
1296424--1296571	77	1.9	77	85	0	206	30	8	18	41	1.81
1296507--1296779	51	5.4	51	82	0	305	31	8	19	40	1.81
1296507--1296779	102	2.7	102	84	0	339	31	8	19	40	1.81
1299564--1299818	129	2.0	130	99	0	503	46	14	11	27	1.79
1303849--1303892	20	2.2	20	87	0	61	45	27	0	27	1.54
1305975--1306022	3	16.0	3	82	0	51	33	4	31	31	1.77
1306726--1306890	81	2.0	82	98	1	323	30	18	26	25	1.98
1321964--1322070	21	5.1	21	88	0	160	26	25	22	26	2.00
1322567--1322649	23	3.6	23	83	3	96	27	25	25	21	1.99
1324345--1324383	19	2.1	19	85	9	53	69	0	10	20	1.17
1324969--1325196	114	2.0	114	100	0	456	38	15	16	28	1.90
1330594--1330942	174	2.0	174	100	0	698	35	15	25	24	1.94
1333653--1333766	35	3.2	34	86	7	156	42	22	0	33	1.60
1334779--1334865	33	2.6	33	83	7	95	37	1	19	41	1.59
1336910--1336981	27	2.7	27	95	2	128	22	27	26	23	1.99
1337044--1337106	30	2.1	30	84	0	81	15	23	22	38	1.93
1339649--1339712	28	2.3	28	97	2	121	25	15	25	34	1.95
1341412--1341458	20	2.4	20	96	3	87	55	8	19	17	1.67
1341422--1341465	20	2.2	20	87	0	61	50	13	20	15	1.78
1345608--1345708	44	2.3	44	89	0	148	30	20	16	31	1.95
1347609--1347641	16	2.1	16	100	0	66	42	6	6	45	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347629--1347664	18	2.0	18	88	0	54	38	5	8	47	1.57
1349496--1349549	28	1.9	28	88	0	81	35	16	25	22	1.95
1349602--1349761	82	2.0	80	82	2	194	31	14	22	31	1.94
1353646--1353683	14	2.6	14	95	4	67	81	7	10	0	0.87
1353631--1353696	34	2.0	32	85	8	89	80	10	9	0	0.91
1358203--1358247	20	2.1	22	84	8	58	35	13	24	26	1.92
1358568--1359173	54	11.3	54	82	5	694	31	20	17	29	1.96
1359447--1359609	46	3.6	46	85	4	222	43	11	22	22	1.85
1360581--1360609	14	2.0	15	93	6	51	48	0	34	17	1.47
1361286--1361358	2	36.5	2	100	0	146	50	0	0	49	1.00
1364700--1365230	54	9.8	54	87	1	681	31	20	18	29	1.96
1364700--1365251	162	3.4	162	87	1	766	31	20	18	29	1.96
1365534--1365651	46	2.6	46	90	5	193	42	12	25	19	1.87
1371387--1371414	6	4.7	6	100	0	56	53	0	0	46	1.00
1373533--1373575	20	2.1	21	83	12	54	25	4	0	69	1.07
1374150--1374194	21	2.1	21	91	0	72	57	20	4	17	1.56
1377490--1377564	19	3.9	19	92	0	123	33	21	29	16	1.95
1382845--1382936	40	2.2	42	81	11	102	38	19	13	29	1.89
1383031--1383113	40	2.0	41	83	2	105	32	14	18	34	1.91
1383906--1383983	23	3.5	22	74	8	77	41	17	19	21	1.91
1383906--1383994	45	2.0	45	84	6	117	40	20	17	21	1.92
1384724--1384834	42	2.7	42	83	5	138	25	9	17	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386031--1386077	25	2.0	24	87	8	69	31	6	4	57	1.43
1386031--1386085	23	2.4	23	82	8	67	34	7	5	52	1.52
1386644--1386731	34	2.5	34	90	3	140	40	13	18	27	1.88
1388025--1388138	43	2.7	43	83	2	131	35	19	23	21	1.96
1388072--1388205	43	3.1	43	84	4	171	26	19	23	29	1.98
1388230--1388386	42	3.7	42	86	1	197	33	17	21	28	1.95
1388230--1388415	42	4.3	42	84	2	192	32	16	21	29	1.95
1388230--1388416	86	2.2	86	80	3	216	33	16	21	28	1.95
1388735--1388803	21	3.3	21	81	4	77	1	37	17	43	1.58
1391217--1391481	122	2.2	122	76	3	273	37	22	8	31	1.84
1391303--1391387	40	2.1	40	86	4	118	40	23	8	28	1.83
1391343--1391531	83	2.3	83	84	0	236	34	21	11	32	1.89
1395942--1396004	32	1.9	33	87	9	94	31	0	22	46	1.52
1399924--1399957	16	2.1	17	88	5	52	41	5	14	38	1.70
1400094--1400136	19	2.3	19	100	0	86	27	18	34	18	1.95
1404740--1404814	23	3.3	23	82	0	87	20	22	22	34	1.96
1404808--1404859	24	2.2	24	82	6	61	19	13	19	48	1.81
1404969--1405012	3	14.7	3	80	0	52	43	0	22	34	1.54
1404968--1405009	6	7.0	6	97	0	66	45	0	21	33	1.52
1408130--1408165	19	1.9	19	88	5	56	11	2	30	55	1.49
1408666--1408716	20	2.5	20	81	15	61	25	15	29	29	1.96
1409353--1409423	24	2.9	24	76	2	79	25	21	22	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409411--1409481	24	3.0	24	79	6	83	22	21	23	32	1.98
1415623--1415672	21	2.5	20	87	9	66	30	12	26	32	1.92
1416322--1416395	25	3.0	25	80	2	87	24	21	21	32	1.98
1416400--1416453	24	2.2	24	90	0	81	20	22	27	29	1.98
1417348--1417500	66	2.4	62	82	7	180	41	14	21	22	1.89
1424571--1424614	23	1.9	23	85	0	61	22	27	22	27	1.99
1428148--1428197	2	25.5	2	91	4	84	48	2	0	50	1.12
1432262--1432291	15	2.0	15	100	0	60	53	6	6	33	1.53
1432612--1432767	30	5.3	28	70	10	80	60	5	13	19	1.53
1432631--1432783	30	5.2	30	76	7	134	58	7	13	20	1.58

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