genome.fa.s9344.2.7.7.80.10.50.1000.9.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  9  of  24  ( 2784 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)
1429517--1429610	24	4.0	24	84	4	129	28	24	22	24	1.99
1432077--1432145	24	2.8	26	83	12	85	31	24	5	37	1.79
1432110--1432145	12	3.0	12	91	0	63	36	25	5	33	1.79
1432453--1432678	64	3.5	62	81	5	231	27	19	19	32	1.96
1435771--1435810	21	1.9	21	89	0	62	42	0	0	57	0.98
1438977--1439057	2	40.5	2	97	0	153	50	0	1	48	1.08
1442992--1443117	64	2.0	64	81	6	148	37	19	15	26	1.93
1443666--1443761	38	2.5	38	79	11	99	25	19	27	28	1.99
1443666--1443756	20	4.8	19	80	11	89	23	19	27	29	1.98
1449584--1449719	63	2.1	63	81	6	150	36	18	16	27	1.93
1450313--1450385	18	3.9	18	84	7	101	20	20	31	27	1.97
1451147--1451195	14	3.4	14	73	15	55	22	10	14	53	1.71
1451146--1451210	29	2.2	29	97	2	121	23	13	15	47	1.81
1451483--1451534	21	2.4	22	87	3	70	28	25	25	21	1.99
1463451--1463500	15	2.9	18	68	17	52	46	16	8	30	1.75
1463447--1463508	18	3.6	18	72	12	67	45	14	6	33	1.71
1474378--1474466	37	2.4	37	94	0	151	30	3	7	58	1.43
1474798--1474843	24	2.0	23	82	4	56	60	0	0	39	0.97
1474803--1474836	18	1.9	17	88	5	50	61	0	0	38	0.96
1486274--1486322	21	2.4	20	86	3	71	36	2	0	61	1.08
1488598--1488869	20	13.5	20	78	6	210	38	23	17	20	1.93
1488598--1488869	40	6.8	40	82	5	273	38	23	17	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1488598--1488869	60	4.5	60	79	7	248	38	23	17	20	1.93
1489729--1489782	24	2.2	24	93	0	90	20	18	20	40	1.91
1492230--1492314	33	2.5	33	90	1	125	44	18	22	14	1.85
1492323--1492410	20	4.8	19	72	17	87	13	21	19	45	1.84
1495867--1495920	25	2.1	25	83	10	65	59	16	7	16	1.59
1495976--1496037	20	3.2	20	90	4	108	50	16	22	11	1.76
1495974--1496132	19	9.1	19	70	20	132	47	18	22	11	1.81
1496021--1496077	14	3.7	14	70	20	51	43	22	22	10	1.84
1495974--1496127	33	4.5	33	91	4	227	48	18	22	11	1.79
1496159--1496249	20	4.6	20	76	13	89	14	15	18	51	1.76
1496787--1496959	20	8.6	20	80	2	175	21	19	22	36	1.95
1496791--1496959	40	4.2	40	87	1	221	21	18	21	37	1.94
1496787--1497000	101	2.1	101	82	5	254	21	19	23	36	1.95
1497829--1497853	2	12.5	2	100	0	50	52	0	0	48	1.00
1497797--1497891	44	2.2	44	90	7	151	47	0	4	48	1.21
1497758--1497927	81	2.1	80	84	9	213	45	1	5	47	1.34
1497837--1498047	37	5.8	35	78	11	194	45	1	6	45	1.38
1499181--1499316	48	2.9	47	77	13	136	23	11	0	64	1.26
1503980--1504327	43	7.8	44	74	13	157	27	16	7	49	1.72
1503989--1504333	95	3.8	91	77	11	313	26	17	7	48	1.73
1504083--1504333	86	2.9	86	80	4	290	26	17	7	47	1.75
1505452--1505496	14	3.1	14	93	6	72	53	15	15	15	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505707--1505790	42	2.0	42	90	0	132	34	15	2	47	1.58
1506808--1506841	16	2.1	16	88	0	50	50	0	2	47	1.16
1506883--1506916	16	2.0	18	88	11	54	26	2	5	64	1.30
1513528--1513643	48	2.4	48	85	7	146	37	2	8	50	1.47
1515456--1515508	22	2.4	22	96	0	97	26	15	26	32	1.95
1515497--1515556	21	2.8	21	79	18	70	30	15	23	31	1.95
1515520--1515664	54	2.7	54	81	4	159	29	16	22	31	1.96
1515647--1515697	22	2.5	20	80	6	57	21	17	33	27	1.96
1517611--1517658	25	1.9	25	95	0	87	31	16	20	31	1.95
1519682--1519719	15	2.5	15	84	12	51	34	2	10	52	1.50
1519700--1519760	33	1.9	32	83	9	81	44	8	8	39	1.64
1519864--1520071	37	5.8	37	84	5	257	44	8	15	31	1.76
1519864--1520071	73	2.9	71	83	8	244	44	8	15	31	1.76
1520213--1520499	116	2.5	115	77	5	274	25	23	13	37	1.91
1520891--1520967	24	3.3	24	91	7	115	28	0	12	58	1.35
1527709--1527737	15	1.9	15	100	0	58	31	6	27	34	1.83
1527709--1527756	15	3.1	16	85	11	55	31	8	22	37	1.84
1527866--1527944	23	3.4	23	75	6	88	18	17	24	39	1.92
1527933--1527984	24	2.2	24	89	0	77	21	15	21	42	1.89
1535994--1536035	17	2.6	16	85	7	50	14	2	19	64	1.39
1538573--1538614	2	21.0	2	100	0	84	50	0	0	50	1.00
1545222--1545279	24	2.5	21	75	25	55	39	5	22	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545477--1545554	20	3.9	20	83	10	106	21	21	29	26	1.99
1545477--1545553	38	2.0	40	89	5	122	20	22	29	27	1.98
1547142--1547367	113	2.0	113	100	0	452	44	17	12	25	1.84
1549761--1549795	17	2.1	17	100	0	70	34	40	8	17	1.80
1550813--1550844	11	2.8	12	90	9	57	37	0	0	62	0.95
1551529--1551562	17	1.9	18	94	5	61	64	0	2	32	1.08
1552843--1552902	3	19.7	3	83	10	77	65	0	0	35	0.93
1552848--1552905	25	2.1	28	79	17	61	65	0	0	34	0.93
1552848--1552911	20	2.9	21	81	13	76	67	0	0	32	0.91
1552844--1552909	23	2.8	24	82	15	84	66	0	0	33	0.92
1553410--1554027	113	5.5	112	86	3	798	27	18	15	38	1.91
1553822--1553874	16	3.1	16	71	23	54	22	18	9	49	1.76
1553410--1553989	226	2.6	225	92	2	956	27	18	15	38	1.91
1555159--1555207	16	2.8	17	78	12	55	46	6	10	36	1.63
1555536--1555607	10	6.5	10	79	20	81	1	15	0	83	0.72
1555542--1555611	26	2.7	25	84	4	86	1	18	0	80	0.80
1555546--1555602	21	2.6	21	86	8	69	1	17	0	80	0.79
1555538--1555605	5	11.8	6	74	22	58	1	16	0	82	0.75
1555539--1555610	23	3.1	23	79	16	85	1	16	0	81	0.75
1562821--1562886	16	4.2	17	88	5	79	51	6	16	25	1.67
1562821--1562886	32	2.1	31	86	8	89	51	6	16	25	1.67
1566917--1566968	20	2.6	19	79	8	59	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1567143--1567178	3	12.0	3	93	0	63	63	0	2	33	1.08
1567174--1567224	24	2.1	24	82	7	59	62	9	0	27	1.26
1568525--1568584	3	20.7	3	83	10	72	66	0	0	33	0.92
1568525--1568591	15	4.4	15	80	10	82	67	0	0	32	0.91
1572210--1573096	442	2.0	442	93	0	1504	31	15	24	28	1.96
1575116--1575174	18	3.3	18	85	0	91	16	20	33	28	1.95
1583740--1583927	94	2.0	94	100	0	376	22	22	21	34	1.97
1585069--1585147	39	2.0	39	100	0	158	43	7	20	29	1.79
1587263--1587617	179	2.0	176	97	1	674	29	21	8	40	1.82
1588027--1588120	31	3.0	31	95	3	163	38	24	19	18	1.93
1588774--1588930	64	2.5	64	80	4	156	27	17	21	34	1.95
1592425--1592452	5	5.6	5	100	0	56	35	0	0	64	0.94
1593720--1593768	17	2.7	18	84	9	64	61	10	16	12	1.57
1596198--1596265	18	3.8	18	84	0	91	17	20	32	29	1.96
1596852--1597019	86	2.0	82	95	4	300	27	6	20	45	1.76
1598120--1598145	4	6.5	4	100	0	52	23	0	0	76	0.78
1598221--1598363	51	2.8	50	89	2	214	26	12	14	46	1.81
1603552--1603609	19	3.1	19	100	0	116	43	10	25	20	1.84
1605001--1605122	61	2.0	60	90	1	190	34	18	21	25	1.96
1607013--1607271	127	2.0	127	99	0	509	33	6	22	36	1.81
1610168--1610211	21	2.1	21	83	8	54	65	0	6	27	1.17
1611338--1611377	21	1.9	22	90	10	66	10	10	40	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1611489--1611557	36	1.9	36	91	5	113	26	15	30	27	1.96
1611836--1611893	18	3.0	19	83	14	82	48	6	12	32	1.67
1614635--1614703	36	1.9	35	85	11	95	26	17	28	27	1.97
1614736--1614805	20	3.7	20	76	23	87	25	15	32	25	1.95
1615624--1615673	21	2.4	21	82	0	64	26	26	22	26	2.00
1615847--1615901	13	4.2	13	75	13	58	49	12	3	34	1.59
1615887--1615984	32	3.0	33	88	8	132	44	15	7	32	1.73
1615979--1616018	21	1.9	21	94	0	71	47	7	15	30	1.72
1615998--1616053	27	2.1	27	100	0	112	55	3	10	30	1.51
1618469--1618527	29	2.1	29	84	9	77	23	16	11	47	1.80

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