genome.fa.s9330.2.7.7.80.10.50.1000.7.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: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1820295

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 950 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)
1369662--1369714	23	2.3	22	90	6	79	32	1	1	64	1.15
1370402--1370603	43	4.8	42	75	8	151	29	18	23	28	1.98
1378990--1379081	40	2.3	39	84	3	112	31	15	18	34	1.92
1379002--1379081	40	2.0	40	87	2	115	36	17	16	30	1.92
1379066--1379164	41	2.4	42	83	6	130	27	17	19	36	1.94
1379065--1379277	83	2.6	83	77	8	222	32	19	15	31	1.94
1379229--1379393	83	2.0	84	79	5	183	36	16	16	29	1.91
1380911--1381075	80	2.0	80	82	4	197	35	21	14	28	1.93
1382929--1382957	2	14.5	2	100	0	58	48	0	0	51	1.00
1384170--1384221	23	2.2	24	83	13	63	61	3	3	30	1.32
1387071--1387191	59	2.1	59	92	3	199	26	16	22	34	1.95
1390043--1390265	113	2.0	114	81	9	269	34	21	7	36	1.82
1391172--1391252	31	2.6	31	84	2	108	29	30	24	14	1.95
1399229--1399277	22	2.2	22	100	0	98	36	4	22	36	1.73
1400262--1400345	23	3.7	23	93	0	141	19	27	26	27	1.99
1401713--1401750	19	2.0	19	100	0	76	36	15	21	26	1.93
1411204--1411262	24	2.5	24	100	0	118	32	20	25	22	1.98
1412461--1412504	17	2.6	17	96	0	79	29	13	9	47	1.74
1413467--1413745	119	2.4	117	82	5	345	36	21	8	33	1.84
1421322--1421352	14	2.2	14	94	0	53	32	16	22	29	1.95
1426277--1426380	44	2.4	44	83	3	129	31	18	20	29	1.96
1431635--1431809	65	2.7	65	80	9	180	28	16	24	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432910--1432962	18	2.9	18	100	0	106	56	11	16	15	1.67
1434158--1434206	25	2.0	25	84	8	64	40	2	4	53	1.32
1434244--1434332	2	45.0	2	97	2	171	50	0	0	49	1.00
1437563--1437607	21	2.1	21	84	8	56	37	8	0	53	1.32
1445312--1445346	18	1.9	18	88	0	52	28	17	0	54	1.43
1448897--1448926	13	2.3	13	100	0	60	40	0	13	46	1.43
1453320--1453354	14	2.4	15	85	4	54	34	28	20	17	1.95
1453485--1453538	12	4.3	13	80	13	51	31	16	3	48	1.64
1453966--1454036	35	2.0	36	97	2	135	19	30	32	16	1.95
1457710--1457745	15	2.4	15	85	0	54	33	30	19	16	1.94
1457877--1457930	12	4.3	13	80	13	51	33	16	3	46	1.65
1468350--1468391	21	2.0	21	86	9	59	52	33	0	14	1.42
1471100--1471127	3	9.3	3	100	0	56	67	0	0	32	0.91
1474647--1474671	3	8.3	3	100	0	50	68	0	0	32	0.90
1481597--1482020	37	11.2	37	74	13	326	22	18	22	36	1.95
1481603--1482056	153	3.0	153	90	0	703	22	18	22	35	1.96
1482229--1482270	21	2.0	21	85	0	57	26	28	14	30	1.95
1482026--1482463	214	2.0	214	90	3	693	35	15	15	33	1.89
1482292--1482573	151	1.9	151	87	3	415	35	14	14	35	1.87
1483270--1483438	37	4.6	37	81	4	198	40	20	18	20	1.91
1483272--1483438	73	2.3	75	82	5	198	41	19	18	20	1.91
1483480--1483794	88	3.6	87	83	3	375	28	23	17	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483474--1483794	89	3.6	89	83	2	407	28	23	17	29	1.97
1485996--1486251	37	6.8	37	75	15	220	22	17	23	36	1.95
1486254--1486328	22	3.5	21	67	20	57	33	20	22	24	1.97
1486457--1486497	21	2.0	21	85	0	55	26	29	17	26	1.97
1488853--1488894	13	3.3	13	86	6	59	4	14	0	80	0.86
1488846--1488920	30	2.5	30	81	18	93	4	16	0	80	0.87
1488850--1488920	12	6.4	11	76	20	60	4	15	0	80	0.86
1488846--1488911	17	3.8	18	76	13	59	4	15	0	80	0.87
1488846--1488920	33	2.3	33	84	9	91	4	16	0	80	0.87
1490778--1490837	28	2.1	28	100	0	120	26	26	3	43	1.70
1500271--1500300	2	15.0	2	100	0	60	50	0	0	50	1.00
1502257--1502405	73	2.0	73	97	0	280	26	8	16	48	1.74
1504852--1504900	21	2.4	21	93	3	82	14	18	26	40	1.89
1504931--1504973	19	2.2	20	84	12	63	20	48	20	9	1.77
1512447--1512475	14	2.1	14	100	0	58	20	51	20	6	1.70
1514879--1514993	53	2.2	53	84	9	155	40	3	32	23	1.71
1516594--1516622	14	2.0	15	93	6	51	62	27	3	6	1.37
1518525--1518576	20	2.6	20	100	0	104	21	25	25	28	1.99
1518564--1518643	22	3.6	22	77	11	92	25	23	26	25	2.00
1518568--1518662	44	2.2	42	87	7	129	25	21	26	27	1.99
1518568--1518662	21	4.4	21	75	13	79	25	21	26	27	1.99
1524365--1524430	26	2.5	26	100	0	132	24	24	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524383--1524497	45	2.6	43	78	10	124	25	24	20	29	1.99
1524466--1524514	19	2.6	19	84	9	57	24	28	20	26	1.99
1525262--1525298	18	2.1	18	94	0	65	21	10	29	37	1.88
1525269--1525311	18	2.4	18	84	7	52	18	6	32	41	1.77
1525323--1525383	6	10.2	6	71	7	52	4	4	42	47	1.46
1526011--1526140	61	2.1	61	92	0	215	33	10	9	46	1.70
1526203--1526279	32	2.5	30	93	4	127	44	6	7	41	1.59
1526226--1526278	16	3.5	16	69	21	51	45	3	5	45	1.45
1526448--1526521	27	2.9	25	83	4	76	47	5	8	39	1.56
1526436--1526528	25	3.6	25	79	11	89	46	4	8	40	1.54
1526473--1526528	27	2.2	26	90	6	87	44	7	8	39	1.63
1526546--1526583	13	2.7	15	80	16	53	34	2	7	55	1.43
1526553--1526627	26	2.9	26	75	9	73	37	4	9	49	1.54
1526543--1526735	66	2.9	67	71	14	175	37	5	9	47	1.60
1526680--1526786	13	8.0	13	69	19	69	40	4	7	47	1.52
1526882--1526950	17	4.0	16	75	20	59	49	1	0	49	1.09
1526897--1526949	26	2.0	28	88	7	83	47	1	0	50	1.12
1526841--1527034	11	17.6	11	67	17	73	46	3	3	46	1.33
1526875--1527023	81	1.9	79	82	10	187	46	2	2	47	1.30
1526840--1527034	22	8.9	22	68	17	102	46	3	3	46	1.35
1526872--1527034	42	4.0	40	73	15	145	46	2	3	47	1.31
1526965--1527100	55	2.5	55	77	8	152	44	5	2	47	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1526863--1527099	11	21.5	11	66	19	93	44	3	3	48	1.37
1530663--1530704	15	2.9	14	77	22	50	26	4	4	64	1.33
1531052--1531666	139	4.4	138	81	4	603	31	12	13	43	1.81
1532715--1532772	27	2.2	27	79	11	68	53	3	3	39	1.35
1532925--1533062	70	2.0	67	82	9	165	50	6	9	33	1.60
1534490--1534599	45	2.4	45	90	0	184	35	19	10	35	1.85
1534949--1535001	22	2.4	22	90	3	79	39	11	15	33	1.83
1537838--1537940	49	2.1	49	92	0	170	18	28	3	49	1.65
1544847--1544889	10	4.3	10	82	11	61	20	37	0	41	1.53
1544983--1545030	20	2.4	20	75	0	51	37	18	8	35	1.81
1547597--1547645	22	2.3	22	96	3	91	18	18	26	36	1.94
1551862--1551899	12	3.5	11	82	10	51	7	0	28	63	1.23
1555760--1555798	4	9.8	4	83	10	53	71	0	0	28	0.86
1562417--1562586	30	5.8	31	77	12	85	61	9	13	15	1.57
1562417--1562657	29	8.5	28	77	11	199	59	8	14	17	1.59
1562437--1562642	56	3.7	56	76	16	212	60	8	14	16	1.57
1562428--1562640	86	2.5	86	87	6	303	61	8	13	16	1.56
1563435--1563483	25	2.0	25	100	0	98	20	28	24	26	1.99
1573978--1574196	66	3.3	66	83	6	218	41	15	20	23	1.90
1574254--1574346	36	2.6	35	83	5	107	35	11	20	32	1.89
1575493--1575592	34	3.0	34	80	8	109	1	18	11	70	1.22
1579185--1579486	30	10.2	30	77	6	269	60	11	11	16	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581395--1581504	55	2.0	55	100	0	220	34	9	32	23	1.86
1592341--1592378	17	2.1	19	85	9	53	39	10	5	44	1.61
1595992--1596071	24	3.3	24	78	5	81	53	16	12	17	1.72
1595990--1596071	12	6.8	12	74	10	60	53	15	13	17	1.73
1597133--1597177	23	1.9	24	90	4	74	33	15	24	26	1.95
1598413--1598455	20	2.1	21	86	4	61	69	6	0	23	1.12
1600578--1600906	131	2.5	131	78	3	311	31	18	19	30	1.96
1604713--1604774	20	3.0	21	81	9	65	25	33	4	35	1.78
1604736--1604773	20	1.9	20	94	0	67	28	36	5	28	1.79
1610795--1610839	22	2.0	22	95	0	81	40	17	15	26	1.90

Tables:   1   2   3   4   5   6   7   8