genome.fa.s8184.2.7.7.80.10.50.1000.7.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: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1549336

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 844 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)
1393433--1393544	60	1.9	60	85	7	158	46	16	7	30	1.73
1394363--1394421	29	2.0	29	100	0	118	49	13	13	23	1.78
1395011--1395090	40	2.0	39	82	2	97	26	6	5	62	1.40
1395163--1395246	43	2.0	43	86	6	118	30	17	3	47	1.65
1397179--1397260	39	2.1	39	97	0	155	32	21	6	39	1.78
1399343--1399418	35	2.2	35	92	0	125	39	23	1	35	1.63
1399815--1400058	126	1.9	127	92	0	409	36	15	13	34	1.86
1400523--1400556	16	2.0	18	88	11	54	64	5	2	26	1.30
1403591--1403631	10	4.1	10	84	9	57	14	9	4	70	1.30
1403593--1403631	21	1.9	20	94	5	69	15	10	5	69	1.34
1403968--1403994	11	2.5	11	100	0	54	74	18	7	0	1.05
1408291--1408332	22	1.9	22	90	9	68	14	11	4	69	1.34
1418238--1418297	29	2.1	29	96	0	111	25	28	28	18	1.98
1418382--1418463	32	2.6	32	98	0	155	26	25	36	10	1.89
1418450--1418515	29	2.3	29	91	0	105	13	30	33	22	1.93
1418825--1418863	16	2.3	18	86	8	55	38	0	5	56	1.22
1418968--1419058	45	2.0	47	85	12	127	40	0	10	48	1.38
1419104--1419173	34	2.1	34	81	10	81	40	0	12	47	1.42
1419218--1419264	16	3.0	16	84	9	53	29	0	10	59	1.31
1419239--1419269	15	2.1	14	94	5	53	38	0	6	54	1.26
1421457--1422389	11	77.5	11	66	25	178	46	9	2	41	1.48
1421434--1422363	14	66.5	14	68	21	267	46	9	2	41	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421511--1421936	135	3.2	135	90	6	662	46	9	1	41	1.47
1421641--1421873	26	9.3	26	71	12	139	45	9	2	42	1.48
1421946--1422010	19	3.7	19	74	19	77	46	10	1	41	1.48
1421930--1422250	33	9.9	33	73	17	223	46	9	2	40	1.52
1421783--1422370	226	2.6	226	94	0	1014	45	9	2	41	1.50
1422172--1422236	19	3.7	19	70	19	68	46	10	3	40	1.54
1425430--1425483	28	1.9	28	96	0	99	53	12	0	33	1.39
1425430--1425490	28	2.2	28	90	0	95	54	13	0	32	1.39
1425467--1425515	21	2.3	21	85	3	71	53	16	0	30	1.43
1426144--1426243	30	3.6	30	80	18	142	10	17	50	23	1.75
1426178--1426216	13	3.2	13	79	20	57	12	17	46	23	1.83
1426168--1426229	23	2.8	22	88	11	92	9	19	48	22	1.78
1426164--1426239	10	7.3	10	76	19	75	9	18	50	22	1.75
1426228--1426328	30	3.4	30	73	2	114	14	20	45	18	1.85
1426248--1426393	29	5.0	29	83	1	184	15	25	41	17	1.89
1426227--1426395	59	2.9	59	89	0	250	14	24	42	18	1.88
1431066--1431206	75	1.9	75	89	2	221	20	30	21	26	1.98
1435435--1435468	17	1.9	18	88	5	52	38	17	5	38	1.74
1436113--1436167	14	4.2	13	80	11	51	70	1	0	27	0.97
1436092--1436167	4	18.2	4	71	20	50	72	1	1	25	1.00
1436272--1436300	3	9.7	3	100	0	58	68	0	0	31	0.89
1438519--1438551	15	2.2	15	100	0	66	15	24	33	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445354--1445386	15	2.2	15	94	0	57	18	18	33	30	1.94
1451792--1451840	14	3.4	14	73	15	55	61	4	0	34	1.15
1451850--1451906	25	2.3	24	79	11	62	43	3	1	50	1.29
1459905--1459930	2	13.0	2	100	0	52	50	0	0	50	1.00
1465278--1465330	18	2.8	19	78	13	56	64	3	1	30	1.22
1469743--1469836	24	4.0	23	79	6	98	60	14	9	14	1.58
1469769--1469850	14	6.4	14	72	21	72	60	14	9	14	1.57
1469780--1469850	10	6.9	10	72	23	58	61	12	9	15	1.55
1470839--1470865	14	1.9	14	100	0	54	0	51	37	11	1.37
1470840--1470873	14	2.4	14	90	0	50	2	52	35	8	1.47
1477050--1477092	2	21.5	2	100	0	86	51	0	0	48	1.00
1477260--1477303	2	22.0	2	100	0	88	50	0	0	50	1.00
1478152--1478250	10	10.3	9	77	12	81	16	27	27	29	1.97
1478153--1478250	19	5.1	19	78	14	78	15	27	27	29	1.96
1478151--1478250	29	3.4	30	83	9	118	17	27	27	29	1.97
1478247--1478304	5	10.8	5	77	14	53	18	50	22	8	1.74
1478247--1478311	22	3.0	22	97	0	121	18	47	23	10	1.79
1478300--1478331	7	4.6	7	96	0	55	18	28	25	28	1.98
1485467--1485505	21	1.9	21	89	5	62	17	25	23	33	1.96
1485515--1485594	5	14.8	5	77	14	79	18	51	22	7	1.71
1485515--1485601	22	4.0	22	100	0	174	18	49	22	9	1.76
1485513--1485594	17	5.1	15	76	16	65	18	51	21	8	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485591--1485621	7	4.4	7	100	0	62	16	29	29	25	1.96
1489864--1489888	2	12.5	2	100	0	50	52	0	0	48	1.00
1490445--1490539	44	2.2	44	94	3	167	27	15	11	45	1.81
1492722--1492793	20	3.6	20	86	3	101	41	4	23	30	1.73
1492833--1492903	31	2.3	31	87	0	106	25	2	28	43	1.68
1493805--1493838	2	17.0	2	100	0	68	50	0	0	50	1.00
1518527--1518579	19	2.7	20	91	2	81	47	26	16	9	1.77
1518528--1518877	20	17.5	20	86	3	235	34	26	19	19	1.96
1518547--1518896	40	8.8	40	91	1	456	34	26	18	20	1.96
1518547--1518896	60	5.8	60	86	4	456	34	26	18	20	1.96
1518566--1518896	20	16.6	19	87	3	392	33	26	19	21	1.96
1519790--1519814	12	2.1	12	100	0	50	72	0	28	0	0.86
1522120--1522398	19	15.4	19	84	11	372	46	17	20	15	1.83
1522120--1522376	90	2.9	87	87	6	326	46	17	20	15	1.84
1522120--1522435	109	2.9	109	89	5	484	45	18	20	15	1.85
1522426--1522527	19	5.6	19	85	12	151	14	23	17	44	1.86
1522634--1522670	14	2.6	14	91	0	65	45	21	0	32	1.52
1524630--1524686	14	3.7	14	77	20	60	45	22	21	10	1.82
1524611--1524703	33	2.8	33	95	0	168	47	21	20	10	1.80
1524574--1524708	19	7.6	19	76	16	128	45	23	19	11	1.82
1524704--1524832	19	7.3	19	75	17	125	8	17	28	45	1.77
1524704--1524795	33	2.8	33	93	3	150	7	18	28	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524876--1525345	93	5.1	93	97	2	912	46	18	12	22	1.83
1524876--1525345	182	2.5	186	97	2	912	46	18	12	22	1.83
1527049--1527138	14	5.7	14	74	23	81	42	23	25	8	1.83
1527041--1527155	33	3.5	33	95	0	212	45	20	24	9	1.81
1527048--1527160	19	6.8	18	72	23	88	43	22	24	9	1.83
1527172--1527226	14	3.6	14	73	21	56	9	27	23	40	1.85
1527347--1527417	33	2.2	33	92	0	115	47	18	22	11	1.80
1527599--1527653	22	2.5	22	81	0	74	20	16	40	23	1.91
1527799--1527992	20	9.6	20	82	5	212	19	19	25	36	1.95
1527799--1527992	60	3.2	60	82	0	244	19	19	25	36	1.95
1527985--1528061	21	3.7	20	70	13	57	27	16	23	32	1.96
1528047--1528098	20	2.6	20	96	0	95	21	13	26	38	1.90
1528350--1528392	12	3.6	12	100	0	86	46	6	6	39	1.58
1530332--1530378	22	2.1	23	88	4	69	36	4	2	57	1.30
1531133--1531164	2	16.5	2	93	6	57	50	0	0	50	1.00
1538193--1538261	29	2.3	29	82	7	75	33	1	2	62	1.19
1540443--1540489	13	3.6	13	82	0	58	17	2	12	68	1.31
1544641--1544788	73	2.0	73	86	3	208	39	15	13	31	1.86
1544937--1545108	20	8.6	20	75	7	109	34	25	19	20	1.96
1544797--1544969	61	2.9	61	73	11	137	38	25	16	19	1.92
1544937--1545108	58	2.9	60	81	7	215	34	25	19	20	1.96
1545486--1545555	32	2.2	33	92	2	115	11	24	17	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545635--1545738	19	5.6	19	74	15	92	43	21	23	12	1.86
1545693--1545754	14	4.1	14	73	18	52	45	22	22	9	1.81
1545647--1545765	33	3.4	33	86	6	148	44	22	21	10	1.83
1545783--1545872	14	5.7	14	72	23	72	8	24	23	43	1.82
1545766--1545880	33	3.5	33	96	0	212	9	22	20	46	1.79
1545761--1545858	19	5.7	19	69	22	81	10	22	22	44	1.82
1547561--1548024	93	5.1	93	95	3	843	21	12	18	46	1.83
1548070--1548196	18	7.3	19	73	17	98	45	27	18	8	1.78
1548105--1548196	32	2.8	31	88	8	130	45	28	18	7	1.76
1548086--1548196	51	2.2	50	79	9	118	46	27	18	7	1.75

Tables:   1   2   3   4   5   6   7   8