genome.fa.s5546.2.7.7.80.10.50.1000.7.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: VEPZ01005546.1 Hibiscus syriacus cultivar Beakdansim tig00012840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1755203

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 904 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)
1383529--1383572	23	1.9	22	86	9	61	25	22	27	25	2.00
1396219--1396313	46	2.1	46	97	0	181	11	28	12	47	1.76
1400101--1400151	9	5.7	9	75	9	50	52	0	3	43	1.19
1400380--1400810	55	8.3	55	82	10	430	31	24	14	29	1.94
1400402--1400712	161	1.9	164	86	3	450	31	25	13	29	1.94
1400661--1400801	45	3.2	45	92	2	248	29	22	16	31	1.96
1400763--1401843	54	19.8	55	84	4	1227	26	21	17	34	1.96
1400763--1401843	109	9.9	109	85	3	1262	26	21	17	34	1.96
1402241--1402373	37	3.6	37	79	5	153	26	19	21	32	1.97
1403652--1403909	125	2.1	125	85	2	340	24	28	15	32	1.95
1407812--1407914	55	1.9	52	86	5	143	23	22	12	41	1.88
1408223--1408323	45	2.2	46	80	7	116	41	20	8	28	1.83
1412745--1412856	24	4.7	24	74	6	84	21	13	16	49	1.79
1417835--1418158	68	4.8	68	91	1	508	30	13	25	30	1.94
1418108--1418573	243	1.9	243	88	0	698	34	11	25	28	1.91
1418108--1418563	81	5.6	81	87	1	608	34	11	25	28	1.91
1419987--1420302	55	5.8	55	94	0	535	34	12	18	35	1.88
1431209--1431364	53	3.0	53	80	4	190	42	11	20	25	1.86
1431334--1431557	73	3.1	73	77	8	201	39	11	15	33	1.83
1431334--1431555	36	6.2	36	71	7	148	39	11	15	33	1.83
1432876--1432961	44	2.0	44	92	0	145	30	30	18	20	1.97
1437899--1437937	18	2.2	18	85	0	51	69	2	12	15	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438520--1438575	24	2.3	24	85	8	78	71	3	7	17	1.23
1438771--1438822	27	2.0	26	88	3	77	30	21	19	28	1.97
1448425--1448459	18	2.0	18	94	5	63	28	5	8	57	1.52
1448597--1448652	24	2.4	24	85	14	73	73	3	12	10	1.22
1458763--1458799	20	1.9	19	89	10	58	59	27	0	13	1.35
1458821--1458894	33	2.2	34	90	2	114	54	31	6	8	1.56
1460381--1460419	7	5.7	7	87	6	62	0	10	0	89	0.48
1460380--1460434	14	4.0	14	80	4	67	5	7	0	87	0.68
1460368--1460434	27	2.5	27	82	2	91	8	5	0	85	0.75
1460361--1460434	21	3.5	20	76	14	60	9	5	1	83	0.85
1464413--1465025	304	2.0	309	97	2	1159	38	14	17	30	1.89
1465966--1466250	58	5.0	58	74	10	232	32	10	17	40	1.83
1466246--1466358	42	2.7	41	81	6	111	29	20	21	29	1.98
1466380--1466537	59	2.7	59	89	3	237	29	29	13	27	1.95
1466852--1466989	59	2.3	60	83	6	181	31	28	13	26	1.94
1467559--1467606	25	1.9	25	100	0	96	54	33	4	8	1.50
1468536--1468605	10	7.4	9	76	9	52	17	2	2	77	1.02
1470258--1470404	28	5.2	29	87	4	210	39	21	4	34	1.74
1470424--1470473	22	2.3	21	86	3	64	20	26	38	16	1.92
1477186--1477289	29	3.6	29	92	0	172	38	21	6	33	1.80
1483341--1483387	25	1.9	24	95	4	85	40	4	21	34	1.73
1485048--1485098	26	1.9	27	88	4	77	37	9	19	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486294--1486334	21	2.0	21	85	0	55	60	7	12	19	1.54
1486992--1487562	289	2.0	289	98	0	1108	34	19	13	32	1.90
1488011--1488249	90	2.8	87	82	5	292	25	8	42	23	1.83
1488594--1488791	75	2.7	75	82	4	235	27	4	15	52	1.62
1488782--1488823	20	2.1	20	95	0	75	35	0	2	61	1.09
1510687--1510715	13	2.1	14	93	6	51	62	3	0	34	1.12
1511248--1511305	23	2.4	24	91	5	91	17	29	15	37	1.90
1523017--1523053	17	2.2	17	90	9	58	21	10	0	67	1.21
1526262--1526324	29	2.2	29	94	0	108	30	6	33	30	1.82
1530319--1530357	9	4.4	9	83	6	53	5	0	5	89	0.58
1530311--1530358	22	2.2	22	85	7	62	8	0	6	85	0.74
1533564--1533596	16	2.0	17	88	5	50	81	9	9	0	0.87
1533566--1533666	20	5.5	17	72	22	80	80	1	15	1	0.90
1533624--1533676	16	3.3	15	80	19	63	83	0	16	0	0.66
1533566--1533676	39	2.9	36	79	14	107	80	1	16	1	0.89
1533602--1533660	11	5.8	11	76	15	56	79	0	18	1	0.81
1533609--1533662	27	2.0	27	92	7	92	81	0	16	1	0.78
1533566--1533676	19	5.7	19	76	16	104	80	1	16	1	0.89
1533566--1533676	50	2.2	48	81	10	125	80	1	16	1	0.89
1536011--1536107	41	2.3	40	75	13	90	27	19	19	32	1.96
1535677--1536621	274	3.4	276	85	6	1196	29	15	19	34	1.93
1543012--1543188	90	2.0	89	93	1	300	45	6	10	37	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544032--1544086	21	2.6	21	77	5	58	21	25	18	34	1.96
1544072--1544146	20	3.8	20	89	0	123	38	21	18	21	1.93
1544072--1544148	40	1.9	40	94	0	136	37	20	18	23	1.94
1544815--1544858	20	2.2	20	91	0	70	13	15	22	47	1.81
1544821--1544860	20	2.0	20	100	0	80	10	15	20	55	1.68
1544825--1544868	20	2.2	20	87	0	61	13	13	20	52	1.74
1546646--1546769	20	6.5	20	80	10	152	38	19	20	21	1.93
1546672--1546788	34	3.3	34	77	13	117	38	19	22	19	1.94
1546649--1546751	54	1.9	54	93	0	179	39	18	21	20	1.92
1546646--1546788	74	1.9	74	88	0	214	38	19	20	20	1.94
1546778--1546856	33	2.4	34	84	2	97	16	20	21	41	1.90
1546830--1546895	20	3.3	20	93	0	105	21	19	22	36	1.95
1548834--1548869	14	2.6	14	90	0	54	30	0	22	47	1.52
1548971--1549034	33	1.9	34	83	3	85	42	20	25	12	1.87
1549076--1549199	19	6.4	19	83	8	106	20	22	16	40	1.91
1549133--1549236	20	5.2	20	89	2	138	20	24	20	35	1.96
1549074--1549236	40	4.2	39	81	3	150	19	23	18	39	1.92
1549112--1549230	60	2.0	60	88	3	177	21	24	18	36	1.95
1551643--1551702	24	2.5	24	88	0	93	40	18	16	25	1.91
1552549--1552715	20	8.3	20	85	2	219	23	20	19	35	1.96
1552712--1552757	21	2.2	21	88	0	65	36	17	28	17	1.92
1554779--1554820	2	21.0	2	95	0	75	47	0	2	50	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567320--1567344	11	2.3	11	100	0	50	0	0	8	92	0.40
1567366--1567410	14	3.8	12	78	21	58	2	11	8	77	1.07
1567366--1567426	24	2.5	24	81	5	70	3	9	8	78	1.06
1567670--1567709	20	2.0	21	90	5	64	47	5	0	47	1.24
1570475--1570775	128	2.4	128	81	2	354	28	19	18	33	1.95
1572043--1572106	17	3.6	18	74	20	62	10	17	0	71	1.13
1572069--1572106	18	2.1	19	90	9	62	10	18	0	71	1.14
1586508--1586536	14	2.0	15	93	6	51	55	10	20	13	1.68
1586536--1586576	21	1.9	22	90	5	66	56	9	24	9	1.62
1588889--1588913	6	4.2	6	100	0	50	32	0	16	52	1.44
1594482--1594554	20	3.7	20	73	0	74	34	1	5	58	1.29
1594482--1594588	40	2.7	40	84	5	119	35	1	7	55	1.39
1594603--1594642	20	2.0	20	100	0	80	25	5	20	50	1.68
1596438--1596481	17	2.6	17	96	0	79	40	11	4	43	1.61
1612671--1612725	28	2.0	27	82	13	67	56	5	0	38	1.23
1613545--1613583	19	2.1	19	95	0	69	0	15	23	61	1.33
1614180--1614212	17	1.9	17	100	0	66	63	0	0	36	0.95
1616717--1616745	12	2.3	13	94	5	51	17	6	0	75	1.01
1616927--1616966	2	20.0	2	94	0	71	47	0	2	50	1.14
1618064--1618186	17	7.1	17	74	3	93	40	8	12	38	1.74
1621936--1622058	17	7.1	17	70	10	79	41	8	12	37	1.74
1625710--1625808	17	5.8	17	72	7	74	37	9	13	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1629899--1629957	21	2.8	21	84	0	73	18	5	20	55	1.61
1630110--1630334	43	5.3	43	85	3	283	28	22	21	27	1.99
1630110--1630330	85	2.6	85	86	2	300	28	23	21	26	1.99
1630920--1630969	17	2.9	17	81	0	55	44	6	10	40	1.63
1634799--1634841	17	2.5	17	84	0	59	39	2	16	41	1.61
1634873--1634905	17	1.9	17	93	0	57	33	9	21	36	1.85
1639000--1639035	2	18.0	2	100	0	72	50	0	0	50	1.00
1639824--1639863	21	2.0	20	85	9	55	37	0	12	50	1.41
1642291--1642328	20	1.9	20	100	0	76	36	10	28	23	1.88
1646602--1648199	796	2.0	796	99	0	3178	34	8	18	38	1.82

Tables:   1   2   3   4   5   6   7   8