genome.fa.s7863.2.7.7.80.10.50.1000.7.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: VEPZ01007863.1 Hibiscus syriacus cultivar Beakdansim tig00110234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1653362

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 912 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)
1227150--1227194	20	2.4	18	92	7	72	11	13	0	75	1.05
1230759--1230788	14	2.1	14	93	0	51	63	0	23	13	1.29
1238845--1238883	20	1.9	21	94	5	71	71	5	0	23	1.05
1239007--1239037	16	1.9	16	93	0	53	61	12	9	16	1.56
1251710--1251749	21	1.9	21	94	0	71	22	22	27	27	1.99
1252244--1252290	23	2.0	23	100	0	94	31	25	4	38	1.75
1256983--1257030	3	15.7	3	83	12	62	62	0	4	33	1.14
1257175--1257218	22	2.0	22	86	8	63	56	4	0	38	1.20
1257520--1257549	2	15.0	2	100	0	60	50	0	0	50	1.00
1258754--1258778	6	4.2	6	100	0	50	84	0	0	16	0.63
1259372--1259397	2	13.0	2	100	0	52	0	50	0	50	1.00
1260667--1260711	17	2.6	17	82	0	54	42	0	0	57	0.98
1265606--1265648	22	2.0	21	86	4	59	53	0	4	41	1.21
1265898--1265985	32	2.8	32	78	11	101	38	4	5	51	1.46
1268384--1268431	13	3.7	13	82	0	69	29	18	16	35	1.93
1268413--1268574	85	1.9	84	84	1	216	31	19	18	30	1.96
1273159--1273203	19	2.4	19	92	0	72	31	26	17	24	1.97
1273393--1273426	16	2.1	16	94	0	59	70	0	26	2	1.01
1274197--1274247	20	2.5	20	96	0	93	13	19	17	49	1.80
1274878--1275270	189	2.1	189	98	0	754	34	17	12	35	1.87
1276390--1276454	30	2.2	30	97	0	121	27	15	26	30	1.96
1278265--1278304	20	1.9	22	85	10	57	62	15	5	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279058--1279105	20	2.5	19	86	3	69	39	18	10	31	1.85
1281042--1281074	2	16.5	2	100	0	66	51	0	0	48	1.00
1285290--1285328	2	19.5	2	100	0	78	51	0	0	48	1.00
1286122--1286396	151	1.8	152	88	0	426	40	9	17	32	1.82
1286310--1286367	29	2.0	29	82	0	71	37	8	17	36	1.80
1286121--1286438	151	2.1	152	84	1	406	41	9	18	30	1.82
1286452--1286498	23	2.1	22	92	4	76	36	4	17	42	1.68
1293347--1293470	65	1.9	65	88	3	187	30	20	15	33	1.94
1293355--1293515	65	2.5	65	83	4	182	30	22	16	30	1.96
1306045--1306127	23	3.8	21	77	13	80	21	33	21	22	1.97
1307196--1307225	15	2.0	15	100	0	60	40	0	26	33	1.57
1308327--1308394	18	3.9	18	69	23	65	39	7	4	48	1.51
1308343--1308418	32	2.4	32	100	0	152	39	9	6	44	1.62
1311155--1311183	13	2.3	13	94	5	51	62	0	6	31	1.22
1311210--1311262	27	2.0	25	82	13	63	54	3	5	35	1.42
1311620--1311659	21	1.9	21	84	0	53	47	22	2	27	1.64
1317687--1317733	19	2.5	19	92	0	76	53	10	4	31	1.55
1325191--1325521	136	2.4	136	84	5	414	32	13	12	40	1.82
1327909--1327933	2	12.5	2	100	0	50	48	0	0	52	1.00
1339212--1339297	18	4.8	18	91	0	136	29	33	18	18	1.95
1347032--1347070	19	2.0	20	90	5	62	17	2	23	56	1.53
1347739--1347892	65	2.4	64	79	7	177	31	21	16	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1351302--1351461	74	2.1	74	79	8	164	30	1	13	55	1.49
1352104--1352154	20	2.6	19	75	6	57	19	3	3	72	1.16
1357396--1357433	11	3.5	11	83	16	53	10	0	7	81	0.87
1357396--1357433	10	3.6	10	89	10	58	10	0	7	81	0.87
1358252--1358293	10	4.0	10	84	9	57	85	0	4	9	0.72
1360515--1360570	12	4.2	13	75	18	53	19	3	0	76	0.93
1364247--1364319	24	3.0	24	93	0	119	45	13	12	28	1.80
1364855--1364922	31	2.3	31	85	10	88	35	20	5	38	1.77
1370286--1370337	20	2.5	21	85	14	65	50	7	3	38	1.50
1384654--1384694	9	4.3	10	85	14	52	21	14	0	63	1.30
1384654--1384717	19	3.3	19	79	16	67	21	12	0	65	1.25
1386340--1386429	7	13.7	6	82	14	65	78	0	16	4	0.90
1386328--1386369	21	2.0	21	95	4	75	78	0	7	14	0.95
1386368--1386429	13	4.5	14	84	10	74	79	0	20	0	0.74
1386368--1386429	14	4.5	13	82	13	72	79	0	20	0	0.74
1386308--1386424	40	2.9	39	74	13	94	77	0	15	6	0.96
1386308--1386429	20	6.2	19	75	11	77	77	0	15	6	0.96
1388747--1388780	18	1.9	17	88	5	50	32	11	11	44	1.77
1394350--1394384	18	1.9	18	88	11	54	54	5	17	22	1.64
1394441--1394484	22	2.0	22	86	4	63	45	0	22	31	1.53
1395025--1395328	149	2.0	149	96	0	563	27	17	20	34	1.95
1395307--1395351	23	2.0	23	86	0	63	20	24	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1403335--1403385	19	2.7	19	93	3	86	19	29	11	39	1.87
1403335--1403392	19	3.1	19	90	2	73	20	27	13	37	1.91
1404469--1405338	285	3.0	286	85	4	1151	42	17	13	26	1.87
1409043--1409092	18	2.6	19	75	15	50	26	26	14	34	1.94
1419566--1419618	25	2.1	25	83	13	65	52	18	3	24	1.62
1427153--1427177	13	1.9	13	100	0	50	24	20	16	40	1.91
1427810--1427843	18	1.9	18	94	5	61	47	5	8	38	1.59
1428854--1428892	5	7.2	5	88	11	51	20	38	17	23	1.93
1428857--1428891	11	3.1	11	91	4	52	17	42	17	22	1.88
1432448--1432495	16	3.2	16	72	22	59	41	16	27	14	1.87
1432438--1432495	28	2.1	28	100	0	116	39	17	27	15	1.90
1437570--1437623	25	2.2	25	96	0	99	12	22	31	33	1.92
1439254--1439339	43	2.0	43	90	0	136	30	13	18	37	1.90
1440812--1440844	6	5.3	6	92	7	57	15	0	0	84	0.61
1451303--1451334	14	2.3	14	94	0	55	43	0	3	53	1.16
1452401--1452454	23	2.3	23	81	12	65	66	9	7	16	1.42
1452791--1453045	107	2.3	109	82	4	284	48	18	14	19	1.81
1454002--1454058	12	4.6	12	89	6	51	56	1	0	42	1.10
1454024--1454058	6	5.8	6	100	0	70	51	0	0	48	1.00
1462674--1462732	24	2.5	24	94	5	102	37	15	13	33	1.86
1474874--1475082	101	2.1	101	85	0	274	22	22	17	37	1.94
1489924--1489967	21	2.1	21	91	0	70	15	29	27	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491796--1491882	8	11.0	8	67	11	54	31	3	31	34	1.74
1491819--1491859	16	2.6	16	96	0	73	36	4	24	34	1.77
1496340--1496410	31	2.3	31	90	4	108	36	18	18	26	1.94
1500812--1500917	54	1.9	55	90	1	169	39	10	21	28	1.86
1505317--1505356	14	3.2	12	83	16	55	30	0	2	67	1.04
1509770--1509825	3	18.7	3	96	0	103	33	1	0	64	1.04
1510154--1510189	19	1.9	19	94	5	65	55	0	2	41	1.14
1513422--1513697	58	4.7	57	80	10	281	17	21	27	34	1.95
1513442--1513697	117	2.2	118	82	10	310	15	21	28	35	1.94
1516637--1516676	21	2.0	20	85	5	53	37	15	22	25	1.93
1516785--1516826	20	2.1	20	95	0	75	16	26	30	26	1.97
1522630--1522665	17	2.0	19	89	10	58	47	5	0	47	1.25
1532938--1533124	20	9.1	20	75	11	148	14	22	22	40	1.91
1532982--1533053	22	3.4	22	71	11	78	18	20	25	36	1.95
1533004--1533124	61	2.0	60	84	9	156	16	22	22	38	1.92
1532916--1533120	41	5.0	40	79	7	164	17	21	22	38	1.93
1533189--1533244	6	9.5	6	98	1	105	0	16	51	32	1.44
1533326--1533395	19	3.5	19	70	11	68	41	21	18	18	1.91
1533319--1533436	21	5.8	20	70	14	75	36	22	16	23	1.94
1533323--1533415	41	2.3	41	94	1	161	38	22	18	20	1.93
1534083--1534115	8	4.1	8	92	7	50	27	0	0	72	0.85
1534183--1534241	26	2.3	26	87	0	82	38	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534360--1534419	25	2.4	25	82	2	75	56	1	1	40	1.19
1534370--1534429	26	2.3	26	88	5	86	53	0	1	45	1.10
1534343--1534411	31	2.2	31	82	7	86	49	1	1	47	1.19
1534710--1534859	58	2.5	57	81	8	174	23	18	17	40	1.91
1534752--1534916	58	2.7	58	79	7	161	23	18	15	41	1.89
1534710--1534916	32	6.7	32	71	18	127	23	19	16	40	1.91
1535533--1535561	5	6.0	5	92	8	51	37	0	0	62	0.96
1535804--1535837	4	8.5	4	86	0	50	47	2	0	50	1.16
1535804--1535837	6	5.7	6	92	0	50	47	2	0	50	1.16
1535850--1536085	34	6.3	36	75	18	171	44	4	5	45	1.46

Tables:   1   2   3   4   5   6   7   8