genome.fa.s9461.2.7.7.80.10.50.1000.8.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1395 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)
1457875--1457975	31	3.3	31	84	8	143	35	18	16	28	1.93
1458194--1458359	31	5.4	31	89	0	260	41	21	16	19	1.90
1458794--1458847	2	27.5	2	96	3	101	48	0	0	51	1.00
1461001--1461046	21	2.2	21	84	3	58	43	8	17	30	1.79
1461603--1461639	18	2.1	17	90	5	56	27	5	10	56	1.55
1461603--1461639	17	2.1	18	85	14	51	27	5	10	56	1.55
1462393--1462424	15	2.1	16	94	5	57	6	18	50	25	1.70
1462198--1462617	205	2.0	208	91	4	686	30	13	17	38	1.88
1463245--1463291	18	2.8	16	78	9	58	31	29	4	34	1.77
1468554--1468612	22	2.7	22	75	17	59	16	18	10	54	1.70
1474966--1474997	6	5.5	6	92	7	57	0	84	0	15	0.63
1475470--1475586	42	2.8	42	81	6	112	15	46	11	26	1.80
1475734--1475831	33	3.0	33	81	0	115	17	45	18	18	1.85
1477309--1477369	2	30.5	2	100	0	122	49	0	0	50	1.00
1479415--1479458	19	2.3	19	100	0	88	20	34	25	20	1.97
1486647--1486714	8	8.5	8	76	11	50	33	27	2	35	1.72
1486638--1486726	16	5.6	16	76	5	81	35	26	3	33	1.73
1486669--1486726	24	2.4	24	82	0	62	39	27	3	29	1.73
1490721--1490851	51	2.6	50	79	6	122	17	34	28	19	1.95
1495316--1495399	42	2.0	44	81	13	104	50	7	14	28	1.69
1501875--1502075	65	3.1	63	76	13	185	31	23	17	26	1.97
1503095--1503182	33	2.6	33	82	10	90	19	3	15	61	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1508495--1508565	28	2.5	30	84	9	94	25	0	18	56	1.42
1508494--1508566	29	2.6	27	82	4	92	26	0	17	56	1.42
1508494--1508585	29	3.2	28	77	14	82	25	1	17	56	1.48
1510914--1510943	15	2.0	15	100	0	60	26	6	20	46	1.75
1516097--1516146	12	4.2	12	86	0	64	18	38	4	40	1.69
1516112--1516142	6	5.2	6	92	0	53	16	38	0	45	1.47
1516133--1516167	18	1.9	18	88	0	52	17	40	14	28	1.88
1524471--1524853	107	3.7	105	79	5	339	36	14	11	37	1.83
1524503--1524965	103	4.5	102	81	7	429	36	13	10	39	1.80
1524616--1524980	100	3.6	100	80	10	366	36	13	9	40	1.78
1533077--1533114	16	2.4	16	91	8	60	15	0	7	76	1.01
1534524--1534566	19	2.2	20	87	8	61	48	0	2	48	1.14
1541043--1541089	22	2.1	23	84	4	60	23	10	25	40	1.87
1543614--1543647	16	2.2	15	89	5	50	23	0	0	76	0.79
1546951--1547003	3	18.0	3	86	11	65	39	0	0	60	0.97
1548367--1548641	140	2.0	139	79	9	301	39	7	8	45	1.62
1549098--1549159	25	2.5	26	84	5	74	25	1	0	72	0.94
1549120--1549159	20	1.9	22	90	10	66	25	0	0	75	0.81
1554827--1555046	114	1.9	114	92	1	370	32	15	21	30	1.94
1556190--1556309	38	3.2	38	64	21	97	30	17	21	30	1.96
1556191--1556368	76	2.4	76	89	0	259	29	15	23	31	1.95
1557196--1557254	22	2.7	22	89	0	91	35	10	11	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557765--1558406	113	5.7	113	85	3	819	37	14	19	27	1.92
1557763--1558396	228	2.8	227	86	3	897	37	14	20	27	1.91
1557765--1558396	338	1.9	340	87	4	952	37	14	19	27	1.91
1558321--1558546	117	1.9	116	84	12	296	38	16	21	24	1.93
1558450--1558505	17	3.4	17	70	22	55	46	12	25	16	1.81
1558754--1558804	3	17.0	3	88	8	59	41	0	0	58	0.98
1558754--1558815	18	3.1	21	82	15	87	46	0	0	53	1.00
1560087--1560140	22	2.4	21	81	9	54	42	1	0	55	1.10
1561546--1561649	27	3.7	27	71	11	75	45	3	4	46	1.42
1561605--1561694	35	2.5	36	83	8	112	47	4	6	41	1.50
1561505--1561679	94	1.9	94	82	9	227	44	4	6	44	1.49
1561399--1561727	38	9.5	37	73	17	189	44	4	6	44	1.49
1561468--1561722	130	2.0	131	97	2	489	44	4	6	44	1.50
1561750--1561796	25	1.9	25	83	12	62	38	2	6	53	1.39
1562255--1562305	25	1.9	28	84	11	72	56	29	3	9	1.49
1562236--1562307	26	2.6	27	76	12	76	55	31	4	8	1.49
1563039--1563068	13	2.2	14	94	5	53	20	0	3	76	0.92
1563276--1563334	29	2.0	29	87	6	84	20	13	1	64	1.37
1567961--1568678	165	4.4	165	97	0	1339	28	25	21	23	1.99
1567961--1568678	329	2.2	330	97	0	1339	28	25	21	23	1.99
1567961--1568759	329	2.4	325	92	2	1267	29	25	21	23	1.99
1569489--1569539	27	2.0	25	84	7	66	43	1	7	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569358--1569614	131	2.0	131	96	3	475	45	4	6	43	1.50
1569289--1569678	35	11.1	35	71	17	197	44	4	6	45	1.49
1569490--1569673	36	4.9	38	75	11	96	45	3	5	45	1.46
1570146--1570196	25	1.9	28	84	11	72	56	29	3	9	1.49
1570127--1570198	26	2.6	27	76	12	76	55	31	4	8	1.49
1570932--1570961	13	2.2	14	94	5	53	20	0	3	76	0.92
1571288--1571321	6	5.5	6	93	6	59	44	0	0	55	0.99
1571698--1572221	138	3.8	137	80	4	520	30	12	13	44	1.80
1572682--1572706	13	1.9	13	100	0	50	48	0	0	52	1.00
1574439--1574540	3	34.0	3	100	0	204	66	0	0	33	0.92
1575665--1575829	72	2.3	73	91	1	269	30	25	20	24	1.98
1577316--1577346	9	3.4	9	95	0	53	32	6	22	38	1.80
1578480--1578533	25	2.2	24	78	15	58	24	11	1	62	1.37
1585625--1585669	19	2.4	19	88	3	65	80	2	11	6	0.99
1591016--1591071	20	2.8	20	86	2	76	21	25	17	35	1.95
1591057--1591110	23	2.5	21	80	11	63	25	22	16	35	1.95
1592789--1592822	13	2.6	14	86	13	54	44	8	5	41	1.60
1593114--1593278	73	2.3	72	87	1	231	29	24	21	25	1.99
1598291--1598373	31	2.7	31	83	5	98	42	1	6	50	1.34
1598904--1599020	60	2.0	60	81	6	139	31	17	5	44	1.73
1599505--1599873	20	18.5	20	84	5	451	34	26	18	20	1.96
1600557--1600603	24	2.0	24	87	8	69	25	14	21	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1600778--1600802	12	2.1	12	100	0	50	72	0	28	0	0.86
1603085--1603358	19	15.4	19	81	15	354	47	18	20	14	1.83
1603085--1603380	71	4.2	74	82	13	314	46	18	20	14	1.83
1603113--1603380	109	2.5	104	90	6	446	46	17	21	14	1.83
1603085--1603396	161	2.0	157	91	5	502	46	18	20	15	1.84
1603113--1603380	52	5.0	52	90	4	437	46	17	21	14	1.83
1603387--1603488	19	5.6	19	85	12	151	14	23	17	44	1.86
1603595--1603631	14	2.6	14	91	0	65	45	21	0	32	1.52
1605533--1605667	19	7.6	19	75	16	119	47	22	18	11	1.80
1605567--1605662	33	2.9	33	93	3	167	48	21	18	10	1.78
1605589--1605645	14	3.7	14	75	24	53	47	22	19	10	1.80
1605663--1605791	19	7.3	19	75	17	125	8	17	28	45	1.77
1605663--1605754	33	2.8	33	93	3	150	7	18	28	45	1.76
1605835--1606121	93	3.1	93	97	1	549	46	18	12	22	1.82
1607825--1607881	14	3.7	14	79	20	69	40	24	26	8	1.84
1607817--1607900	33	2.5	33	92	0	150	44	21	25	9	1.82
1607839--1607922	19	4.7	19	81	14	97	42	22	23	10	1.85
1607934--1607988	14	3.6	14	73	21	56	9	25	23	41	1.83
1607918--1607988	33	2.2	33	94	0	124	8	22	25	43	1.81
1607929--1608010	33	2.5	33	89	2	119	9	25	21	42	1.84
1607941--1608029	20	4.8	20	72	19	75	12	24	19	43	1.85
1608109--1608179	33	2.2	33	92	0	115	47	18	22	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1608361--1608415	22	2.5	22	81	0	74	20	16	40	23	1.91
1608561--1608753	20	9.6	20	82	5	219	19	19	25	35	1.95
1608561--1608753	60	3.2	60	83	0	251	19	19	25	35	1.95
1608809--1608860	20	2.6	20	96	0	95	21	13	26	38	1.90
1610905--1611010	37	2.9	37	82	0	131	39	15	14	31	1.86
1611546--1611588	2	22.0	2	85	4	61	44	0	0	55	0.99
1611842--1611905	25	2.6	25	73	9	60	28	6	0	65	1.16
1611884--1611962	12	6.4	13	70	14	51	17	10	0	72	1.12
1616381--1616468	20	4.2	21	73	22	78	79	6	12	1	0.98
1616386--1616456	24	3.2	22	78	11	83	80	7	12	0	0.90

Tables:   1   2   3   4   5   6   7   8   9   10   11   12