genome.fa.s7768.2.7.7.80.10.50.1000.7.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: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2539099

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

This is table  7  of  11  ( 1290 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)
1427653--1428058	65	6.1	65	71	17	296	28	19	11	40	1.86
1427561--1427847	36	8.2	34	76	13	214	30	18	10	40	1.84
1427589--1428029	134	3.3	134	91	1	675	28	19	11	40	1.86
1427910--1427977	33	2.1	32	91	2	109	23	19	13	44	1.85
1429848--1429883	12	2.9	12	88	8	54	16	0	5	77	0.94
1429869--1429931	17	3.6	17	72	19	58	12	6	3	77	1.07
1429848--1429944	8	11.5	8	71	14	61	14	5	5	75	1.15
1429878--1429929	27	1.9	27	84	7	70	13	7	3	75	1.17
1429853--1429954	42	2.4	43	77	19	115	15	4	4	74	1.16
1437073--1437146	7	10.7	7	79	2	78	45	32	0	21	1.52
1437073--1437146	21	3.6	21	83	1	87	45	32	0	21	1.52
1446954--1447080	59	2.1	60	85	4	177	36	14	3	46	1.60
1448105--1448166	21	3.0	22	77	15	69	38	11	1	48	1.49
1450439--1450507	21	3.3	20	74	11	59	14	2	2	79	0.96
1452620--1452690	31	2.4	28	80	15	72	46	4	14	35	1.64
1456283--1456327	21	2.1	21	88	8	65	26	2	11	60	1.42
1460056--1460093	3	12.7	3	100	0	76	68	0	0	31	0.90
1461560--1461752	101	1.9	101	94	0	341	49	8	5	36	1.58
1461727--1461759	13	2.5	13	90	0	57	72	0	12	15	1.12
1461727--1461759	6	5.0	7	85	14	52	72	0	12	15	1.12
1465464--1465520	21	2.7	21	77	2	60	47	5	8	38	1.57
1465988--1466029	13	3.2	13	86	6	50	61	0	2	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1465998--1466038	13	3.2	13	89	6	57	58	0	0	41	0.98
1466460--1466485	4	6.5	4	100	0	52	26	0	0	73	0.84
1467936--1467975	21	1.9	22	90	10	66	12	10	40	37	1.77
1468086--1468160	20	3.7	20	75	3	69	29	20	29	21	1.98
1468183--1468280	21	4.7	20	81	10	99	23	18	32	25	1.97
1468182--1468280	42	2.4	41	83	10	112	23	18	33	25	1.97
1468360--1468419	30	2.0	30	90	6	95	43	15	6	35	1.72
1469606--1469651	23	2.0	23	82	0	56	30	10	4	54	1.55
1469655--1469702	19	2.5	20	82	3	62	29	12	6	52	1.63
1470846--1470885	21	1.9	22	90	10	66	12	10	40	37	1.77
1470991--1471070	41	2.0	41	85	9	110	27	21	27	23	1.99
1471093--1471211	21	5.7	21	81	10	145	25	19	31	23	1.98
1471291--1471350	31	2.0	31	87	6	88	46	15	8	30	1.74
1475042--1475094	5	10.6	5	100	0	106	60	0	0	39	0.97
1476032--1476068	16	2.3	17	81	13	51	45	0	0	54	1.00
1480138--1480251	29	3.9	28	76	19	108	49	0	0	49	1.13
1480215--1480261	24	2.0	23	83	4	58	40	0	2	57	1.11
1480144--1480270	29	4.4	28	74	19	77	46	0	0	51	1.11
1480240--1480286	24	2.0	24	87	8	69	40	0	2	57	1.11
1480389--1480427	7	4.8	9	79	20	50	33	0	0	66	0.92
1480386--1480427	16	2.6	16	96	0	75	33	0	0	66	0.92
1480527--1480596	30	2.4	30	92	2	124	32	17	5	44	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480527--1480596	15	4.7	15	78	3	88	32	17	5	44	1.72
1481009--1481104	31	3.2	29	71	14	79	57	7	4	31	1.45
1481389--1481433	18	2.5	18	85	0	63	22	17	31	28	1.97
1484534--1484595	19	3.4	19	77	8	74	59	16	9	14	1.60
1485669--1485702	17	2.0	17	100	0	68	41	11	5	41	1.66
1494850--1494890	21	2.0	21	90	9	66	0	21	0	78	0.76
1495975--1496014	21	2.0	21	85	5	55	2	45	2	50	1.28
1499427--1499485	28	2.1	28	100	0	118	33	45	3	16	1.64
1500638--1500977	169	2.0	169	98	0	662	32	17	15	35	1.91
1501221--1501265	16	2.8	16	80	10	56	37	17	2	42	1.62
1508259--1508324	34	1.9	34	87	6	98	48	21	1	28	1.59
1509987--1510273	30	9.6	30	82	0	297	37	17	21	22	1.93
1509986--1510245	90	2.9	89	87	3	344	36	16	22	23	1.94
1510365--1510389	2	12.5	2	100	0	50	52	0	0	48	1.00
1510604--1510645	17	2.5	17	96	0	75	45	0	0	54	0.99
1510935--1510972	19	2.1	19	85	5	51	28	2	13	55	1.51
1527405--1527466	18	3.4	18	100	0	124	19	30	14	35	1.92
1533596--1533626	3	10.3	3	100	0	62	35	0	0	64	0.94
1534470--1534517	3	16.0	3	100	0	96	33	0	0	66	0.92
1535446--1535491	21	2.1	22	84	11	60	36	2	6	54	1.39
1535507--1535664	60	2.7	60	82	4	169	34	22	5	38	1.76
1535526--1535665	60	2.3	60	85	3	176	35	20	5	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536520--1536589	23	3.1	23	74	25	85	30	15	14	40	1.87
1546096--1546155	29	2.1	29	96	0	111	13	33	28	25	1.93
1546132--1546177	23	2.0	23	91	8	76	13	41	23	21	1.88
1546236--1546291	29	1.9	29	92	0	94	14	35	30	19	1.91
1546317--1546368	23	2.3	23	93	0	86	11	38	26	23	1.89
1546351--1546381	14	2.2	14	94	0	53	6	32	35	25	1.82
1551683--1551738	2	30.5	2	81	16	68	48	1	0	50	1.11
1553368--1553440	2	39.0	2	81	13	75	53	2	0	43	1.15
1562661--1562707	2	24.0	2	95	4	87	51	0	0	48	1.00
1563144--1563197	22	2.5	22	80	14	67	46	29	0	24	1.53
1570882--1570919	20	1.9	20	88	0	58	21	26	10	42	1.85
1571707--1571744	20	1.9	20	94	0	67	28	15	10	44	1.80
1572793--1572879	16	5.4	16	84	0	111	21	24	12	41	1.88
1573148--1573194	14	3.7	14	71	26	50	44	0	4	51	1.21
1573147--1573196	23	2.1	24	96	3	93	48	0	4	48	1.20
1573359--1573429	14	5.1	14	77	3	63	22	0	28	49	1.50
1573353--1573429	41	1.9	40	86	7	111	24	0	25	49	1.51
1574304--1574442	64	2.2	64	85	3	192	28	28	18	24	1.98
1576563--1576607	22	2.0	23	83	12	58	24	0	26	48	1.51
1579107--1579162	24	2.3	23	76	8	67	21	14	16	48	1.81
1580301--1580328	2	14.0	2	100	0	56	50	0	0	50	1.00
1584293--1584580	115	2.5	114	79	6	294	28	10	6	54	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586341--1586367	13	2.1	13	100	0	54	22	25	14	37	1.93
1609872--1609967	18	5.3	18	79	0	120	46	23	15	13	1.82
1609872--1609967	36	2.7	36	91	0	156	46	23	15	13	1.82
1615841--1615869	14	2.1	14	100	0	58	20	20	6	51	1.70
1618405--1618471	31	2.2	31	83	5	82	20	10	14	53	1.70
1621022--1621089	21	3.2	21	85	2	82	19	17	32	30	1.95
1623314--1623489	92	1.9	91	87	1	253	32	25	10	31	1.89
1628599--1628646	23	2.1	23	92	0	78	39	12	8	39	1.73
1629122--1629166	22	2.0	24	86	8	67	60	6	0	33	1.23
1629109--1629215	34	3.1	34	78	12	94	59	3	1	34	1.26
1631106--1631527	144	2.8	150	83	5	493	10	29	22	36	1.89
1632271--1632336	28	2.4	28	82	5	71	45	4	7	42	1.53
1632292--1632359	28	2.3	28	82	7	73	42	7	10	39	1.67
1632534--1632569	14	2.6	14	86	0	54	11	11	19	58	1.62
1633469--1633535	16	4.3	16	81	3	75	11	8	16	62	1.53
1633468--1633529	32	1.9	32	93	0	106	9	9	19	61	1.54
1633599--1633631	16	2.1	16	100	0	66	6	12	24	57	1.57
1638909--1638958	18	2.8	18	81	0	64	28	18	36	18	1.94
1641550--1641575	5	5.2	5	100	0	52	23	57	19	0	1.40
1641695--1641769	32	2.3	33	81	6	100	36	25	8	30	1.85
1647659--1647699	21	2.0	21	86	9	59	60	0	0	39	0.96
1647601--1647695	42	2.4	39	86	10	129	51	2	0	46	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648737--1648788	19	2.6	20	76	14	54	28	25	17	28	1.97
1649766--1649831	29	2.3	29	97	0	123	39	24	13	22	1.90
1661681--1661934	22	11.6	22	84	0	330	47	9	0	43	1.35
1661681--1661934	66	3.9	66	92	2	404	47	9	0	43	1.35
1666450--1666479	10	3.0	10	95	0	51	40	3	0	56	1.16
1666448--1666485	13	2.9	14	84	7	53	36	2	0	60	1.11
1679894--1679931	8	4.8	8	100	0	76	78	10	0	10	0.95
1679894--1679947	8	7.4	7	89	6	65	81	7	0	11	0.87
1680900--1681170	141	1.9	141	87	3	402	27	28	18	25	1.98
1681417--1681441	13	1.9	13	100	0	50	40	4	0	56	1.18

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