genome.fa.s9289.2.7.7.80.10.50.1000.7.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: VEPZ01009289.1 Hibiscus syriacus cultivar Beakdansim tig00112988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661737

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 855 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)
1304249--1304293	12	3.7	12	81	3	54	66	0	4	28	1.11
1304307--1304356	2	25.0	2	100	0	100	50	0	0	50	1.00
1304889--1304985	37	2.6	37	85	0	131	32	11	14	41	1.81
1305215--1305265	22	2.3	22	96	0	93	1	35	17	45	1.60
1305735--1307215	106	14.0	106	89	1	2181	22	17	24	34	1.96
1308042--1308118	22	3.5	22	90	0	127	22	14	25	37	1.92
1308723--1308805	22	3.7	21	75	15	76	3	13	9	73	1.21
1308736--1308808	16	4.7	15	71	17	60	2	13	9	73	1.18
1308723--1308812	46	2.0	46	91	4	146	4	13	10	72	1.26
1308730--1308805	23	3.3	22	75	14	73	3	11	10	73	1.22
1311811--1311880	9	8.4	8	78	10	70	77	2	0	20	0.90
1311839--1311890	13	3.9	14	80	12	56	78	5	0	15	0.92
1311816--1311953	23	5.7	23	69	18	75	68	2	1	26	1.12
1312421--1312461	11	3.6	11	87	6	55	65	4	4	24	1.32
1312483--1312588	3	37.0	3	70	22	68	66	0	4	29	1.12
1319139--1319178	21	1.9	21	89	0	62	25	40	25	10	1.86
1322690--1322794	37	2.8	37	85	0	138	31	13	14	40	1.84
1327867--1327928	21	3.0	20	76	4	61	16	16	25	41	1.88
1328026--1328060	11	3.1	11	91	4	52	28	51	17	2	1.59
1328700--1328771	22	3.4	22	72	18	71	41	25	15	18	1.89
1328811--1328855	19	2.3	20	84	7	65	28	15	28	26	1.96
1331114--1331138	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1335147--1335232	29	3.0	29	70	13	77	34	15	3	46	1.62
1335210--1335302	29	3.1	29	64	17	73	33	25	3	37	1.72
1335147--1335302	60	2.6	60	85	6	185	33	21	3	41	1.69
1335487--1335619	60	2.2	60	80	5	153	42	4	17	35	1.69
1336527--1336565	14	2.9	15	75	25	50	33	5	0	61	1.18
1338571--1338605	12	2.9	12	91	0	52	31	2	20	45	1.65
1345716--1345788	35	2.2	33	92	7	121	36	5	26	31	1.79
1348748--1348790	21	2.0	21	81	0	50	30	30	25	13	1.94
1348748--1348921	67	2.6	67	85	7	210	27	27	27	17	1.98
1349224--1349295	29	2.5	29	93	0	117	38	9	12	38	1.76
1349310--1349369	30	2.0	31	90	3	95	36	6	23	33	1.81
1349589--1349633	22	2.0	22	100	0	90	20	26	26	26	1.99
1349589--1349641	22	2.4	22	93	0	79	20	24	24	30	1.99
1355674--1355716	21	2.0	21	81	0	50	30	30	25	13	1.94
1355696--1355848	68	2.2	69	88	4	222	26	27	28	17	1.98
1356151--1356222	29	2.5	29	93	0	117	38	9	12	38	1.76
1356237--1356296	30	2.0	31	90	3	95	36	6	23	33	1.81
1356516--1356582	22	3.0	22	100	0	134	19	26	26	26	1.99
1367116--1367256	75	1.9	75	88	2	212	14	11	27	46	1.79
1371914--1371966	25	2.1	25	92	0	88	26	11	32	30	1.91
1372201--1372260	27	2.3	27	94	5	106	40	15	36	8	1.77
1378317--1378361	21	2.1	21	84	8	56	48	6	13	31	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1393806--1394444	319	2.0	319	96	0	1179	28	17	15	37	1.91
1395811--1395862	4	13.5	4	92	8	90	26	0	23	50	1.50
1398912--1399047	73	1.9	72	83	3	175	33	18	14	33	1.91
1399749--1399775	13	2.1	13	100	0	54	37	14	25	22	1.93
1401213--1401255	21	2.1	20	86	4	59	27	6	11	53	1.63
1401302--1401420	59	2.0	59	98	0	229	45	8	14	31	1.74
1401464--1401554	29	3.0	30	81	10	89	36	7	10	45	1.68
1402936--1402974	17	2.4	17	95	4	71	51	5	0	43	1.24
1403089--1403114	9	2.9	9	100	0	52	23	7	23	46	1.78
1406708--1406743	14	2.6	14	95	0	63	44	19	5	30	1.73
1411220--1411245	3	8.7	3	100	0	52	0	65	0	34	0.93
1411240--1411303	24	2.5	26	80	15	78	4	43	3	48	1.39
1411247--1411313	24	2.8	24	90	0	98	4	41	2	50	1.37
1415205--1415413	75	2.8	75	86	3	260	22	31	23	22	1.99
1421179--1421241	21	2.9	21	83	4	63	20	38	25	15	1.92
1421223--1421262	21	1.9	21	89	0	62	25	40	25	10	1.86
1423853--1424048	74	2.6	75	84	4	243	23	31	24	20	1.98
1430386--1430455	23	3.0	24	80	2	70	35	17	18	28	1.93
1433364--1433479	58	2.0	59	94	1	207	30	12	17	39	1.87
1447530--1447597	19	3.4	19	69	15	55	55	1	1	41	1.18
1447505--1447602	42	2.4	41	86	11	130	51	1	2	45	1.19
1447544--1447617	15	5.2	14	71	19	64	51	0	1	47	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1453469--1453513	20	2.2	20	84	7	56	13	51	0	35	1.41
1453508--1453646	8	14.8	9	72	21	58	2	58	0	37	1.18
1453578--1453623	14	3.4	14	88	5	69	6	52	0	41	1.27
1453578--1453632	14	4.3	13	84	11	62	5	54	0	40	1.23
1453623--1453660	16	2.4	16	91	8	60	0	76	0	23	0.79
1453621--1453659	12	3.3	12	82	17	55	0	74	0	25	0.82
1461515--1461667	60	2.5	59	79	7	164	45	5	17	32	1.71
1461893--1461929	20	1.9	19	89	10	58	45	10	24	18	1.81
1463131--1463432	152	2.0	152	97	0	568	22	23	27	27	1.99
1463384--1463642	107	2.5	105	92	1	430	22	28	18	30	1.97
1463777--1463801	12	2.1	12	100	0	50	52	0	0	48	1.00
1464022--1464048	2	13.5	2	100	0	54	51	0	0	48	1.00
1464661--1464741	3	27.0	3	100	0	162	33	0	0	66	0.92
1465030--1465075	24	2.0	23	91	4	74	26	28	21	23	1.99
1465056--1465109	17	3.2	17	94	0	90	31	29	16	22	1.96
1471965--1472026	27	2.2	28	83	8	83	66	0	1	32	1.02
1471961--1472028	15	5.3	12	78	14	57	63	0	1	35	1.04
1472063--1472099	12	3.2	12	85	14	51	51	0	0	48	1.00
1471969--1472132	69	2.5	65	78	14	183	53	1	3	41	1.26
1474682--1474706	6	4.2	6	100	0	50	0	0	16	84	0.63
1474851--1474877	13	2.1	13	100	0	54	29	22	14	33	1.94
1478304--1478343	21	1.9	22	90	10	66	12	10	40	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478371--1478431	21	3.0	21	92	2	97	21	27	21	29	1.98
1478586--1478612	14	1.9	14	100	0	54	25	22	29	22	1.99
1481719--1481760	2	21.0	2	100	0	84	50	0	0	50	1.00
1482712--1482749	20	1.9	20	88	0	58	21	26	10	42	1.85
1491252--1491321	31	2.3	31	82	5	79	25	10	10	54	1.65
1492552--1492602	26	2.0	26	84	7	68	58	7	3	29	1.44
1492552--1492604	27	2.0	26	82	10	63	58	7	3	30	1.43
1494589--1494630	21	2.0	21	85	0	57	45	7	16	30	1.74
1495278--1495355	2	39.0	2	97	0	147	1	50	0	48	1.09
1495355--1495408	2	27.0	2	100	0	108	50	0	0	50	1.00
1497978--1498082	45	2.3	45	85	6	133	40	9	13	37	1.77
1503782--1503820	4	9.8	4	94	0	51	33	0	15	51	1.44
1503774--1503820	24	2.0	24	91	0	76	36	2	12	48	1.53
1521285--1521384	29	3.5	27	77	9	92	38	12	10	40	1.76
1525951--1525993	20	2.2	20	83	8	52	55	0	0	44	0.99
1526952--1528228	421	3.0	423	92	1	2089	35	15	13	35	1.87
1528440--1528491	22	2.4	22	93	0	86	50	13	15	21	1.78
1528844--1528881	12	3.0	13	76	7	51	28	21	7	42	1.81
1529520--1529588	31	2.2	31	89	0	102	55	17	18	8	1.67
1531351--1531409	29	2.0	29	96	0	109	45	23	10	20	1.81
1534365--1534440	34	2.2	34	95	0	134	36	3	17	42	1.68
1535115--1535199	39	2.2	39	93	4	145	25	2	27	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558922--1559618	174	4.0	174	86	3	921	16	18	17	47	1.83
1562380--1562418	17	2.4	17	95	4	71	51	5	0	43	1.24
1569405--1569817	129	3.2	128	83	7	514	47	8	18	25	1.77
1569417--1569817	43	9.3	43	72	12	261	46	8	18	26	1.77
1569763--1569944	43	4.3	43	74	8	142	56	7	10	25	1.59
1569750--1569953	85	2.4	85	79	8	202	57	6	11	25	1.57
1569765--1569925	86	1.9	85	83	6	209	57	4	11	26	1.53
1582844--1582948	33	3.2	33	83	5	151	40	33	10	15	1.81
1585941--1586006	33	2.2	28	81	13	69	36	24	10	28	1.89
1590686--1590771	33	2.7	31	79	10	102	41	10	6	40	1.66

Tables:   1   2   3   4   5   6   7   8