genome.fa.s1547.2.7.7.80.10.50.1000.8.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  8  of  51  ( 6083 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)
1538590--1538639	16	3.1	16	83	13	59	72	0	0	28	0.86
1538602--1538671	27	2.9	23	83	12	70	68	1	1	28	1.06
1538611--1538671	3	20.3	3	80	9	63	67	1	1	29	1.10
1538593--1538671	24	3.0	26	80	12	83	68	1	1	29	1.05
1538677--1538726	24	2.1	24	85	3	66	52	10	0	38	1.35
1538696--1539081	73	5.3	72	79	13	391	44	6	3	45	1.48
1538696--1539080	36	10.5	36	85	8	399	44	7	3	44	1.48
1539169--1539289	29	4.2	30	83	10	153	47	9	8	34	1.67
1539169--1539289	58	2.1	58	87	6	174	47	9	8	34	1.67
1539169--1539306	29	4.8	29	83	5	127	47	10	7	33	1.68
1542064--1542088	2	12.5	2	100	0	50	52	0	0	48	1.00
1548507--1548549	20	2.0	21	86	8	61	53	6	6	32	1.55
1559920--1560218	110	2.7	109	82	7	356	49	12	14	23	1.77
1559931--1560261	110	3.0	109	78	10	315	48	12	14	23	1.79
1559953--1560275	108	3.0	107	78	10	241	47	13	14	23	1.81
1560356--1560385	9	3.3	9	95	0	51	0	56	0	43	0.99
1560554--1560583	9	3.3	9	95	0	51	0	56	0	43	0.99
1561963--1562004	17	2.4	18	84	4	50	30	9	7	52	1.61
1563291--1563331	22	1.9	21	90	5	64	41	36	2	19	1.65
1564171--1564223	22	2.5	22	85	11	67	28	33	11	26	1.91
1564177--1564230	22	2.3	24	78	12	67	29	35	7	27	1.84
1564615--1564661	17	2.8	17	100	0	94	10	21	6	61	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1565061--1565118	3	19.3	3	85	0	80	60	0	6	32	1.23
1565061--1565111	18	2.8	18	100	0	102	58	0	7	33	1.27
1565363--1566469	203	5.5	203	84	2	1409	26	19	18	34	1.95
1565363--1566470	405	2.7	403	85	4	1469	26	19	18	34	1.95
1567175--1567224	22	2.2	22	85	7	64	30	28	20	22	1.98
1567738--1567901	62	2.6	64	80	2	170	27	20	20	32	1.97
1569340--1569384	19	2.4	19	100	0	90	40	20	4	35	1.72
1570713--1570743	2	15.5	2	100	0	62	51	0	0	48	1.00
1572655--1572792	40	3.5	40	87	4	197	29	29	20	20	1.97
1572708--1572769	18	3.2	18	70	16	52	32	32	16	19	1.94
1572674--1572791	22	5.7	22	71	15	90	29	28	20	21	1.98
1573267--1573324	24	2.6	23	82	12	77	25	25	18	29	1.98
1575157--1575203	11	4.5	11	84	10	62	0	17	2	80	0.80
1575158--1575206	5	9.8	5	81	14	57	0	16	2	81	0.78
1575201--1575226	10	2.6	10	100	0	52	15	0	0	84	0.62
1584211--1584464	129	2.0	129	95	0	454	38	12	12	37	1.80
1585203--1585262	29	2.0	30	87	3	86	68	5	3	23	1.24
1585416--1585632	110	2.0	110	88	1	328	44	11	19	23	1.84
1585541--1585737	94	2.1	95	86	3	281	47	16	14	22	1.82
1586156--1586195	2	20.0	2	100	0	80	50	0	0	50	1.00
1586606--1586661	23	2.3	25	85	11	73	7	12	37	42	1.70
1586713--1586753	3	13.3	3	89	5	64	68	0	2	29	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1591782--1591994	15	13.7	15	76	10	151	23	14	13	48	1.78
1591775--1591869	33	3.0	33	83	10	126	24	14	13	47	1.81
1591782--1591994	30	6.9	30	80	9	169	23	14	13	48	1.78
1604005--1604047	2	21.5	2	100	0	86	51	0	0	48	1.00
1604387--1604432	18	2.4	18	85	7	56	52	0	2	45	1.13
1604400--1604449	18	2.7	18	87	3	64	44	0	0	56	0.99
1608368--1608398	10	3.1	10	95	0	53	61	16	9	12	1.56
1609849--1609875	14	1.9	14	100	0	54	29	29	18	22	1.97
1611466--1611514	23	2.1	23	100	0	98	32	30	12	24	1.92
1611482--1611550	35	2.0	35	85	0	93	28	30	11	28	1.92
1611517--1611576	22	2.7	22	84	5	77	33	25	16	25	1.96
1614755--1614812	18	3.1	18	80	11	62	31	12	6	50	1.66
1615024--1615155	22	5.9	22	68	9	79	31	24	15	28	1.96
1615078--1615103	12	2.2	12	100	0	52	30	46	0	23	1.53
1615560--1615629	33	2.1	33	89	0	104	31	14	32	21	1.93
1617036--1617070	17	2.1	17	88	0	52	54	5	2	37	1.39
1617411--1617456	21	2.2	21	100	0	92	26	28	17	28	1.98
1627964--1628019	20	2.8	20	89	10	96	25	5	10	58	1.52
1628787--1628865	18	4.5	18	73	12	74	22	8	0	68	1.17
1628774--1628845	34	2.1	34	94	0	126	25	6	0	68	1.15
1628817--1628865	23	2.2	22	85	10	64	22	8	0	69	1.14
1637647--1637692	19	2.4	19	81	0	56	73	2	17	6	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1637692--1637739	6	8.3	6	81	9	64	18	2	14	64	1.38
1637709--1637753	22	2.0	22	83	8	56	20	2	11	66	1.33
1639727--1639780	6	8.8	6	91	4	90	14	16	0	68	1.21
1640850--1641180	36	9.8	36	65	16	134	40	9	16	32	1.81
1640641--1641180	101	5.3	101	87	1	733	40	10	17	32	1.82
1640941--1641063	65	1.9	65	81	3	149	43	11	13	32	1.79
1640654--1641180	203	2.6	201	88	2	743	40	9	17	32	1.82
1643191--1643323	8	16.0	8	74	15	67	6	14	0	78	0.93
1643191--1643243	23	2.2	24	87	9	74	3	13	0	83	0.79
1643206--1643247	11	3.7	11	76	17	50	4	11	0	83	0.79
1643279--1643310	14	2.2	14	94	5	55	12	6	0	81	0.87
1643281--1643321	14	2.9	14	80	20	50	14	7	0	78	0.96
1644170--1644535	138	2.6	139	78	8	322	42	15	12	29	1.83
1644595--1644668	29	2.6	28	74	8	69	51	9	14	24	1.72
1644862--1644909	15	3.2	15	82	14	55	58	4	10	27	1.49
1660889--1661236	173	2.0	174	98	1	673	31	24	11	32	1.91
1663357--1663408	25	2.0	27	92	7	90	30	26	19	23	1.98
1668521--1668568	23	2.1	23	84	0	60	20	12	27	39	1.89
1676040--1676085	18	2.6	18	100	0	92	45	6	6	41	1.56
1676186--1676226	16	2.6	17	85	11	52	63	2	0	34	1.08
1677421--1677510	25	3.9	25	68	24	72	53	1	2	43	1.20
1677410--1677490	42	1.9	42	94	0	144	48	1	2	48	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1677522--1677585	30	2.0	30	82	14	76	46	1	1	50	1.20
1677538--1677616	30	2.8	30	75	21	80	50	0	1	48	1.08
1677562--1677646	41	2.1	41	82	10	104	55	0	1	43	1.07
1677676--1677720	22	2.0	22	86	0	63	55	2	0	42	1.12
1677696--1677762	21	3.3	18	75	20	53	47	0	0	52	1.00
1683896--1683937	2	21.0	2	100	0	84	50	0	0	50	1.00
1684565--1684613	3	16.3	3	100	0	98	67	0	0	32	0.91
1684815--1685370	134	4.1	134	86	0	763	32	19	18	29	1.96
1685988--1687150	45	26.3	44	81	4	1040	42	19	17	20	1.89
1686996--1687177	42	4.5	38	79	10	139	39	17	16	26	1.91
1687000--1687292	80	3.6	80	74	5	266	40	15	17	26	1.90
1693074--1693115	22	2.0	21	90	4	66	26	19	14	40	1.89
1698964--1699018	20	2.8	20	97	0	101	30	27	10	30	1.91
1700700--1701506	138	5.8	137	84	2	773	43	14	13	29	1.83
1700700--1701506	276	2.9	274	81	4	910	43	14	13	29	1.83
1701780--1701829	15	3.4	15	74	20	52	70	4	6	20	1.25
1701948--1702032	34	2.5	33	84	3	116	43	8	23	24	1.81
1703351--1703998	183	3.5	184	90	0	978	41	13	15	29	1.85
1706326--1706359	15	2.3	15	89	0	50	26	5	58	8	1.51
1711244--1711302	31	1.9	30	89	3	91	42	5	20	32	1.74
1712595--1712800	103	2.0	103	100	0	412	31	14	19	34	1.92
1714048--1715162	199	5.8	198	82	7	1337	39	13	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1714387--1714728	173	2.0	173	88	2	508	40	14	16	29	1.87
1714188--1715162	372	2.6	372	85	6	1196	39	13	15	31	1.87
1715126--1715166	20	2.0	20	85	0	55	31	7	12	48	1.68
1716545--1716622	21	3.6	21	91	6	113	20	41	17	20	1.91
1719803--1719860	21	2.8	21	89	0	89	20	36	18	24	1.95
1720839--1720882	3	14.7	3	80	0	52	40	2	31	25	1.68
1729340--1729401	25	2.4	25	84	7	81	37	11	8	43	1.70
1730326--1730369	21	2.1	21	95	0	79	29	27	20	22	1.99
1736197--1736258	25	2.4	25	81	7	72	35	12	8	43	1.73
1736300--1736360	31	2.0	31	90	3	97	45	0	21	32	1.52

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51