genome.fa.s8364.2.7.7.80.10.50.1000.7.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  7  of  27  ( 3136 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)
1374324--1374372	18	2.7	19	81	9	57	32	20	14	32	1.92
1375143--1375176	12	2.8	12	90	0	50	55	29	0	14	1.40
1375297--1375343	24	2.0	24	95	0	85	27	21	17	34	1.95
1377904--1377972	34	2.0	34	86	5	95	24	18	24	31	1.98
1378111--1378268	64	2.5	64	95	1	280	50	17	1	30	1.56
1379617--1379734	21	5.6	21	80	10	134	22	20	36	21	1.95
1379617--1379739	42	2.9	42	90	0	183	22	20	36	20	1.95
1382320--1382377	22	2.6	22	91	0	98	17	18	44	18	1.87
1382525--1382566	20	2.1	20	100	0	84	14	14	23	47	1.80
1386123--1386314	5	38.8	5	92	6	320	59	0	0	40	0.97
1386389--1386432	5	8.2	5	82	12	52	54	2	0	43	1.12
1387771--1387868	33	3.2	33	73	19	120	55	8	17	19	1.67
1396745--1396773	2	14.5	2	100	0	58	48	0	0	51	1.00
1426948--1426992	21	2.1	21	87	0	63	15	24	28	31	1.96
1434672--1434711	21	1.9	21	89	0	62	12	30	35	22	1.91
1435059--1435101	16	2.7	16	96	0	77	20	44	0	34	1.52
1436154--1436201	19	2.4	21	80	13	57	29	10	6	54	1.59
1439333--1439378	17	2.7	17	89	0	74	50	10	21	17	1.77
1439382--1439412	15	2.1	15	93	0	53	32	19	12	35	1.90
1443165--1443203	20	2.0	20	100	0	78	23	15	0	61	1.33
1444263--1444292	7	4.3	7	91	0	51	46	36	0	16	1.47
1444538--1444588	14	3.6	14	83	0	57	47	29	1	21	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1444542--1444588	21	2.2	21	88	0	67	44	29	2	23	1.65
1444263--1444984	297	2.5	289	88	4	1047	38	24	6	30	1.81
1444990--1445061	28	2.5	28	84	2	81	34	19	1	44	1.59
1445164--1445204	21	2.0	21	90	9	66	58	4	2	34	1.32
1445164--1445216	21	2.6	19	83	16	63	58	3	1	35	1.27
1446758--1446788	16	1.9	16	93	0	53	77	9	0	12	0.99
1448783--1448811	2	14.5	2	100	0	58	48	0	0	51	1.00
1448830--1448948	39	3.1	39	74	12	111	36	15	1	47	1.55
1450650--1450678	11	2.6	11	100	0	58	10	68	13	6	1.37
1451750--1451803	18	3.1	18	76	15	67	27	3	1	66	1.19
1451739--1451803	18	3.8	17	75	15	62	30	3	1	64	1.18
1454580--1454677	49	2.0	49	97	0	187	24	25	12	37	1.90
1459596--1459640	22	2.0	22	100	0	90	33	13	17	35	1.89
1461093--1461158	20	3.2	20	66	19	55	30	10	15	43	1.80
1461078--1461160	41	2.0	41	95	0	148	30	13	13	43	1.82
1470488--1470588	51	2.0	51	84	11	136	34	13	12	38	1.84
1472324--1472407	11	7.8	11	68	21	54	22	3	2	71	1.13
1472474--1472532	27	2.2	26	81	3	64	28	6	1	62	1.30
1472650--1472699	19	2.6	19	84	6	66	18	22	4	56	1.58
1473945--1473971	10	2.7	10	100	0	54	18	0	0	81	0.69
1476148--1476198	24	2.2	22	80	13	59	19	9	5	64	1.44
1483169--1483289	63	2.0	61	85	3	161	50	10	26	12	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1484061--1484657	106	5.8	100	84	7	712	32	24	20	23	1.98
1484045--1484886	105	8.2	107	83	7	909	32	24	19	22	1.97
1484466--1484955	97	5.0	98	80	6	433	33	25	20	21	1.97
1484051--1484886	417	2.0	408	82	8	1018	32	24	19	22	1.97
1484693--1484982	98	3.0	96	80	5	327	33	27	18	20	1.96
1486964--1487019	13	4.7	13	72	17	50	25	0	8	66	1.21
1487001--1487041	16	2.5	17	84	8	57	24	4	0	70	1.06
1492311--1492357	23	2.0	25	83	8	62	40	2	0	57	1.11
1495479--1495505	13	2.1	13	100	0	54	40	22	0	37	1.54
1500631--1500659	12	2.4	12	100	0	58	34	27	13	24	1.93
1505173--1505245	36	2.0	36	84	10	96	47	4	1	46	1.30
1507236--1507340	51	2.0	53	88	3	160	35	13	3	47	1.61
1527349--1527389	2	20.5	2	100	0	82	51	0	0	48	1.00
1535834--1536040	53	4.2	53	80	12	219	36	19	12	31	1.88
1539018--1539067	2	25.0	2	100	0	100	50	0	0	50	1.00
1539422--1539459	17	2.1	18	85	9	51	28	0	7	63	1.23
1540209--1540234	2	13.0	2	100	0	52	50	0	0	50	1.00
1541884--1541931	20	2.5	20	80	6	55	60	0	8	31	1.26
1547730--1547774	2	22.5	2	100	0	90	51	0	0	48	1.00
1548027--1548066	17	2.4	17	82	0	53	20	7	17	55	1.66
1554142--1554181	15	2.6	16	84	8	55	72	0	5	22	1.04
1554189--1554237	27	1.9	25	84	12	64	53	6	2	38	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554254--1554392	36	3.8	35	78	11	145	45	6	4	43	1.49
1554344--1554408	27	2.6	23	78	11	67	47	7	1	43	1.41
1554342--1554445	28	3.9	25	71	18	77	45	5	3	45	1.45
1554378--1554407	15	1.9	16	93	6	53	53	6	0	40	1.27
1554270--1554521	127	2.0	125	95	3	452	44	6	5	44	1.51
1554394--1554593	37	5.4	37	77	9	187	44	7	4	44	1.51
1554461--1554615	71	2.2	71	82	6	179	45	7	3	43	1.48
1555210--1555990	84	9.4	84	81	4	876	23	20	25	29	1.99
1555237--1555971	252	2.9	249	84	3	1010	23	20	25	30	1.99
1562498--1562548	27	1.9	27	84	11	70	52	5	1	39	1.37
1562566--1562704	36	3.8	35	78	11	145	45	6	4	43	1.49
1562656--1562720	27	2.6	23	78	11	67	47	7	1	43	1.41
1562654--1562757	28	3.9	25	71	18	77	45	5	3	45	1.45
1562690--1562719	15	1.9	16	93	6	53	53	6	0	40	1.27
1562582--1562832	127	2.0	125	95	3	450	43	6	5	44	1.52
1562759--1562891	35	3.8	33	79	8	115	45	7	3	43	1.50
1562706--1562905	37	5.4	37	75	15	175	44	7	4	44	1.51
1562724--1562890	36	4.7	35	78	9	142	44	6	3	44	1.47
1562775--1562903	35	3.6	34	78	13	127	45	6	2	44	1.43
1567643--1567729	35	2.4	36	84	5	106	43	17	8	31	1.78
1570975--1571007	15	2.1	16	88	5	50	9	24	15	51	1.72
1571757--1571790	16	2.1	17	94	5	61	35	26	5	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572225--1572311	35	2.4	36	84	5	106	43	17	8	31	1.78
1576984--1577044	23	2.7	23	86	0	95	31	27	24	16	1.96
1578221--1578263	20	2.2	20	86	0	59	32	16	20	30	1.95
1579194--1579292	21	4.8	20	79	13	110	22	19	35	23	1.96
1579361--1579423	30	2.1	29	82	11	74	50	11	6	31	1.63
1586239--1587345	556	2.0	555	88	1	1657	25	16	24	33	1.95
1612133--1612157	2	12.5	2	100	0	50	52	0	0	48	1.00
1617938--1618026	20	4.5	19	75	8	79	31	25	19	23	1.98
1618824--1618877	24	2.2	24	93	0	90	20	18	20	40	1.91
1620137--1620163	14	1.9	14	100	0	54	7	7	40	44	1.60
1621150--1621184	18	1.9	18	94	0	61	54	25	2	17	1.57
1621494--1621610	20	5.8	20	92	0	171	30	19	21	28	1.98
1621661--1621712	20	2.6	20	87	6	70	15	15	19	50	1.79
1621658--1621724	20	3.3	20	77	4	64	13	16	23	46	1.82
1621873--1621967	21	4.5	21	76	5	93	24	16	38	20	1.92
1621849--1621967	42	2.9	41	75	4	118	22	18	36	22	1.95
1622437--1622479	20	2.2	20	91	4	70	48	23	13	13	1.79
1622466--1622532	20	3.4	19	85	8	89	37	25	19	17	1.94
1622539--1622577	19	2.0	20	85	5	53	51	17	15	15	1.77
1622616--1622684	20	3.5	20	87	0	102	17	17	26	39	1.91
1624602--1624645	20	2.2	20	91	0	70	38	25	15	20	1.92
1625416--1625452	19	1.9	19	94	0	65	21	16	29	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637529--1637721	52	3.7	53	86	3	248	23	26	20	30	1.98
1637529--1637721	105	1.8	105	84	4	264	23	26	20	30	1.98
1638206--1638260	20	2.8	20	72	2	58	30	18	21	29	1.97
1638222--1638285	20	3.1	20	68	16	58	29	21	21	26	1.99
1638206--1638285	42	2.0	41	90	7	128	31	20	21	27	1.98
1638273--1638297	13	1.9	13	100	0	50	24	20	24	32	1.98
1638245--1638438	94	2.1	92	84	12	245	28	20	17	33	1.95
1645459--1645562	46	2.2	47	84	8	140	39	20	14	25	1.90
1645635--1645670	15	2.5	14	86	8	54	19	19	25	36	1.95
1647338--1647394	28	2.0	30	86	6	82	42	14	8	35	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27