genome.fa.s8772.2.7.7.80.10.50.1000.8.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  8  of  16  ( 1817 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)
1402411--1402517	34	3.1	34	84	0	142	57	4	1	35	1.30
1402882--1403220	127	2.7	128	93	1	583	32	21	25	20	1.98
1414487--1414566	3	26.3	3	87	2	88	42	0	0	57	0.98
1419944--1419975	15	2.1	15	94	0	55	28	18	6	46	1.73
1427305--1427368	21	3.0	21	86	6	92	81	0	18	0	0.70
1427305--1427369	9	7.3	9	77	11	64	80	0	20	0	0.72
1427305--1427357	15	3.7	15	80	14	67	81	0	18	0	0.70
1427305--1427369	7	9.4	7	75	14	64	80	0	20	0	0.72
1428515--1429118	83	7.2	83	89	4	940	29	12	21	36	1.90
1428515--1429315	259	3.1	257	86	7	996	29	12	21	36	1.90
1428949--1429396	197	2.3	196	93	3	777	30	13	21	34	1.92
1429228--1429522	114	2.7	114	92	4	491	32	14	19	33	1.91
1429031--1429587	311	1.8	302	94	3	997	31	13	20	34	1.92
1429959--1430063	52	2.0	52	94	3	185	36	13	18	32	1.89
1430355--1431590	113	11.0	113	93	2	1913	34	15	18	31	1.92
1431518--1431573	20	3.0	20	70	15	57	50	8	23	17	1.74
1431820--1431867	3	16.0	3	91	0	78	37	0	0	62	0.95
1431824--1431870	15	3.1	15	100	0	94	40	0	0	59	0.97
1431866--1431894	3	9.7	3	100	0	58	65	0	0	34	0.93
1437137--1437186	23	2.2	23	81	0	55	26	20	22	32	1.98
1437144--1437189	23	2.0	23	91	0	74	21	21	26	30	1.99
1442326--1442357	16	2.0	16	93	0	55	46	6	21	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445008--1445485	242	2.0	242	99	0	938	35	24	15	24	1.95
1447677--1447816	3	46.3	3	91	1	226	34	0	2	62	1.12
1449904--1449938	18	1.9	18	88	11	54	31	0	2	65	1.07
1460499--1460550	20	2.5	21	82	14	72	84	1	13	0	0.70
1461390--1461805	52	8.0	52	97	0	780	23	15	24	37	1.93
1461836--1461973	50	2.8	50	100	0	276	25	13	21	39	1.90
1462624--1463155	118	4.6	118	92	2	846	37	15	20	26	1.92
1463295--1463399	3	34.3	3	86	3	147	34	0	2	61	1.17
1464728--1464772	20	2.2	20	80	7	56	24	2	8	64	1.34
1469614--1469664	15	3.3	15	75	21	52	33	19	1	45	1.62
1472404--1472510	50	2.1	50	79	6	119	19	19	22	38	1.94
1472634--1472765	3	43.7	3	95	4	239	32	0	1	65	1.02
1473330--1473385	2	28.0	2	100	0	112	50	0	0	50	1.00
1474460--1474496	2	18.5	2	100	0	74	51	0	0	48	1.00
1486281--1486344	25	2.7	23	78	7	58	68	0	21	9	1.17
1486308--1486360	27	2.0	27	81	7	63	71	0	22	5	1.06
1487588--1487900	111	2.8	111	88	2	441	31	24	15	27	1.96
1488626--1488703	2	39.0	2	97	0	147	50	0	1	48	1.09
1489602--1489895	2	155.5	2	73	15	216	45	2	3	47	1.33
1499689--1499726	20	1.9	20	94	0	67	21	23	23	31	1.98
1501842--1501917	15	5.1	15	69	13	59	43	19	9	27	1.81
1526943--1526996	27	2.0	27	88	0	81	33	12	25	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529849--1529903	19	2.9	19	80	0	65	21	30	16	30	1.95
1531079--1531109	16	2.0	16	93	6	55	54	12	6	25	1.62
1531273--1531307	4	8.8	4	90	0	52	28	2	22	45	1.67
1541320--1541401	6	13.2	6	75	12	67	0	45	1	53	1.08
1541290--1541409	51	2.4	51	81	8	147	1	45	1	50	1.21
1541303--1541401	18	5.2	19	72	12	78	2	44	1	52	1.19
1541350--1541394	14	3.3	14	79	17	58	0	44	0	55	0.99
1541354--1541438	30	2.7	31	83	8	102	1	48	1	49	1.16
1541327--1541423	51	1.9	51	84	0	131	1	45	2	51	1.19
1541477--1541769	75	3.9	75	88	1	390	10	35	13	39	1.80
1542094--1542119	7	3.7	7	100	0	52	15	0	0	84	0.62
1554924--1555223	35	8.5	35	77	13	242	43	5	9	41	1.61
1555053--1555101	12	3.8	12	80	19	62	42	8	10	38	1.68
1554957--1555215	135	1.9	136	87	5	380	41	5	10	42	1.63
1555019--1555144	65	2.0	63	87	3	180	41	6	12	39	1.69
1554984--1555180	100	2.0	99	86	6	274	41	6	11	40	1.66
1555082--1555220	37	3.8	36	83	9	131	43	5	9	42	1.58
1555217--1555340	7	17.1	7	66	21	51	33	6	0	58	1.29
1555264--1555346	41	2.0	43	85	4	116	33	3	0	62	1.12
1557912--1557950	17	2.4	17	95	4	71	51	5	0	43	1.24
1558412--1558444	16	2.1	16	100	0	66	30	21	36	12	1.90
1559714--1559771	24	2.4	25	91	5	100	24	15	3	56	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569695--1569831	36	3.8	36	92	0	220	40	13	18	27	1.88
1579036--1579134	24	4.0	25	71	20	64	19	6	4	70	1.24
1579102--1579136	4	9.0	4	87	6	54	25	0	2	71	1.00
1582041--1582102	13	4.7	12	76	21	54	79	1	16	3	0.95
1582040--1582128	27	3.3	27	75	20	87	77	2	16	3	1.01
1582046--1582125	42	2.0	40	82	5	97	77	2	16	3	1.02
1583053--1583097	21	2.1	21	83	0	54	31	31	24	13	1.93
1583616--1583651	14	2.6	14	90	0	54	44	8	13	33	1.74
1583823--1583888	31	2.2	30	81	10	80	30	19	18	31	1.96
1583877--1583999	30	4.1	30	95	1	212	21	21	26	30	1.98
1588071--1588115	21	2.1	21	87	0	63	33	31	22	13	1.92
1588635--1588670	14	2.6	14	90	0	54	44	8	13	33	1.74
1588843--1588908	31	2.2	30	81	10	80	30	19	18	31	1.96
1588897--1589019	30	4.1	30	95	1	212	21	21	26	30	1.98
1593651--1593686	14	2.6	14	90	0	54	44	8	13	33	1.74
1593859--1593924	31	2.2	30	81	10	80	30	19	18	31	1.96
1593913--1594035	30	4.1	30	95	1	212	21	21	26	30	1.98
1596440--1596502	31	2.1	31	85	8	85	34	25	17	22	1.95
1596452--1596516	31	2.1	31	85	5	87	38	21	16	23	1.93
1597409--1597465	24	2.6	22	86	13	75	26	21	21	31	1.98
1597453--1597593	64	2.2	63	81	9	162	25	22	18	33	1.97
1599069--1599298	116	2.0	116	91	0	370	30	25	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1599363--1599493	37	3.6	35	83	11	165	25	21	14	38	1.91
1599387--1599499	37	3.1	37	94	2	210	26	19	15	38	1.91
1599554--1599640	38	2.4	35	84	5	111	43	16	8	32	1.76
1601424--1601482	17	3.5	16	73	11	55	13	8	5	72	1.24
1601887--1601950	25	2.5	25	77	5	67	17	3	4	75	1.11
1603925--1603976	26	2.0	27	88	3	79	50	1	0	48	1.12
1607611--1607652	11	3.3	12	84	15	50	71	0	4	23	1.05
1608775--1609125	175	2.0	175	93	0	603	23	22	28	25	1.99
1609415--1609460	3	15.3	3	100	0	92	65	0	0	34	0.93
1611091--1611189	42	2.3	42	81	8	103	34	15	22	28	1.94
1616463--1616511	15	3.3	15	76	0	53	40	24	8	26	1.83
1616457--1616514	30	1.9	30	89	0	89	41	22	6	29	1.80
1622313--1622348	17	2.1	18	89	5	56	19	0	8	72	1.10
1626087--1626159	17	4.2	17	76	10	67	34	9	12	43	1.75
1626129--1626175	17	2.8	17	86	0	58	38	6	17	38	1.75
1627551--1627627	36	2.2	35	95	2	136	29	16	20	32	1.95
1630243--1630303	20	2.9	21	85	7	70	16	26	32	24	1.96
1636907--1637067	81	2.0	81	86	2	225	26	24	12	36	1.91
1637018--1637346	67	4.7	67	73	11	293	30	23	13	33	1.93
1636921--1637345	214	2.0	215	89	3	660	29	23	13	34	1.92
1637085--1637507	147	2.9	147	90	0	639	29	22	11	36	1.90
1637668--1637837	57	3.0	57	92	0	286	35	19	8	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1638184--1638224	19	2.2	19	95	0	73	29	24	14	31	1.95
1638248--1638316	20	3.6	19	75	13	70	20	31	15	31	1.94
1638248--1638291	18	2.3	20	84	7	56	18	31	18	31	1.95
1640955--1641011	23	2.6	23	81	13	66	24	5	3	66	1.28
1648952--1649002	25	2.0	25	92	0	84	11	7	23	56	1.61
1649004--1649035	6	5.5	6	96	3	57	15	0	0	84	0.63
1649067--1649480	208	2.0	208	96	0	767	40	13	7	38	1.73
1651023--1651124	37	2.9	36	88	5	154	45	13	12	28	1.81
1651023--1651122	34	2.8	35	89	6	148	45	14	12	29	1.80
1651020--1651158	37	3.8	37	82	5	149	42	13	12	31	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16