genome.fa.s8082.2.7.7.80.10.50.1000.8.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  8  of  28  ( 3312 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)
1474251--1474283	16	2.1	16	94	0	57	39	3	0	57	1.14
1474629--1474721	21	4.5	21	78	4	100	39	18	24	17	1.91
1474629--1474721	41	2.3	41	100	0	186	39	18	24	17	1.91
1474648--1474782	41	3.3	41	84	4	148	37	21	20	20	1.94
1474710--1474803	20	4.7	20	80	7	91	32	25	17	24	1.96
1474991--1475034	22	2.0	22	95	0	79	20	45	15	18	1.85
1476569--1476613	18	2.5	18	85	0	63	26	46	15	11	1.79
1477085--1477186	19	5.6	19	76	13	79	41	23	21	13	1.89
1477198--1477255	14	3.9	14	79	16	71	8	17	25	48	1.75
1477193--1477271	32	2.4	33	95	2	142	10	18	24	46	1.80
1477212--1477329	20	6.4	19	77	11	95	13	20	24	41	1.88
1479219--1479315	19	5.4	19	85	12	141	46	18	21	13	1.83
1479272--1479329	14	3.8	14	79	20	71	50	18	20	10	1.76
1479219--1479332	33	3.3	33	91	6	165	45	19	21	13	1.84
1479361--1479410	20	2.5	20	93	0	82	20	22	24	34	1.97
1480447--1480500	24	2.2	24	90	0	81	24	16	20	38	1.92
1480675--1480699	12	2.1	12	100	0	50	72	0	28	0	0.86
1482974--1483104	19	7.7	19	66	23	94	42	19	22	14	1.88
1482974--1483100	33	3.8	33	88	4	202	42	19	22	14	1.88
1482975--1483107	66	2.0	66	97	0	248	41	19	22	16	1.90
1483100--1483142	20	2.2	20	87	4	61	16	18	23	41	1.89
1483128--1483161	14	2.4	14	85	0	50	8	23	20	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483283--1483319	14	2.6	14	91	0	65	45	24	0	29	1.53
1484698--1484781	42	2.0	42	85	0	114	22	16	39	21	1.92
1486734--1486765	16	2.0	16	93	0	55	46	18	21	12	1.82
1486732--1486849	32	3.5	33	87	4	139	42	22	22	11	1.86
1486732--1486911	19	10.1	19	74	16	154	43	22	22	11	1.85
1486822--1486911	39	2.3	38	94	1	153	46	22	20	11	1.81
1486907--1486951	19	2.4	19	92	0	72	8	15	26	48	1.74
1487494--1487545	20	2.6	20	93	0	86	25	19	28	26	1.98
1487577--1487648	20	3.5	20	84	3	108	15	22	19	43	1.88
1487577--1487665	20	4.4	20	80	2	97	16	22	19	41	1.90
1487579--1487665	41	2.1	41	97	2	167	17	21	18	42	1.89
1488251--1488297	15	3.2	14	85	8	58	4	42	0	53	1.20
1489261--1489362	32	3.1	32	70	19	93	45	3	7	43	1.51
1489203--1489317	61	1.9	61	83	0	149	43	6	5	45	1.51
1489264--1489389	67	1.9	67	83	9	168	46	5	7	39	1.56
1490330--1490923	309	1.9	303	90	2	929	34	19	14	30	1.92
1494387--1494472	40	2.1	42	89	6	131	32	13	8	45	1.74
1496736--1496830	48	2.0	48	97	2	183	46	6	16	30	1.72
1499629--1499678	26	1.9	26	100	0	100	30	20	34	16	1.94
1500158--1500303	45	3.3	45	79	4	152	37	9	22	30	1.86
1500820--1500859	2	20.0	2	89	0	62	45	0	5	50	1.23
1500820--1500859	14	2.9	14	96	0	71	45	0	5	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1504265--1504294	2	15.0	2	100	0	60	50	0	0	50	1.00
1504749--1504808	22	2.9	21	92	5	95	26	23	23	26	2.00
1505081--1505125	15	2.8	16	86	6	56	44	0	13	42	1.43
1505521--1505573	20	2.9	17	74	15	61	41	1	3	52	1.30
1505521--1505582	9	6.8	9	80	10	63	40	1	4	53	1.32
1505521--1505582	18	3.4	18	78	10	72	40	1	4	53	1.32
1509475--1509541	31	2.2	31	91	0	107	34	14	29	20	1.93
1510220--1510407	32	5.9	32	85	5	236	29	19	14	36	1.92
1510192--1510407	96	2.2	96	82	1	254	29	19	15	35	1.93
1512805--1513424	311	2.0	310	91	0	1008	33	20	15	30	1.93
1518342--1518395	18	3.3	18	69	28	57	27	1	25	44	1.64
1518353--1518377	12	2.1	12	100	0	50	16	0	32	52	1.44
1518342--1518400	30	2.0	30	96	0	109	27	1	27	44	1.64
1520451--1520475	12	2.1	12	100	0	50	0	28	0	72	0.86
1521756--1521813	20	2.9	20	94	0	98	37	22	22	17	1.93
1521981--1522017	14	2.6	14	86	0	56	48	21	0	29	1.50
1523875--1523940	19	3.5	19	81	6	80	37	24	22	15	1.92
1523930--1523987	14	3.8	14	75	20	62	48	24	17	10	1.78
1523914--1523992	33	2.4	33	95	2	142	46	22	18	11	1.81
1523856--1523973	19	6.4	19	73	14	77	42	23	19	14	1.88
1523914--1524003	33	2.8	33	89	5	121	46	24	17	11	1.81
1524015--1524078	14	4.4	14	80	16	76	10	15	23	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524004--1524094	32	2.8	33	93	3	157	12	17	21	48	1.80
1524081--1524133	20	2.7	20	90	0	79	15	20	24	39	1.91
1524617--1524659	18	2.4	18	84	0	59	16	16	41	25	1.88
1525976--1526034	20	3.0	20	87	0	73	42	22	18	16	1.89
1526269--1526312	22	2.0	22	95	0	79	18	15	45	20	1.85
1526480--1526596	41	2.9	42	80	3	123	25	17	23	32	1.97
1526480--1526592	20	5.6	20	81	6	102	26	18	24	30	1.98
1526519--1526614	41	2.3	41	80	3	104	21	19	21	36	1.95
1529353--1529380	2	14.0	2	100	0	56	50	0	0	50	1.00
1530516--1530551	16	2.2	17	95	5	65	22	0	5	72	1.05
1530538--1530585	9	4.8	10	78	19	55	35	0	2	62	1.07
1530542--1530583	3	14.0	3	85	9	59	35	0	2	61	1.09
1532918--1532971	27	2.0	27	88	0	81	24	7	16	51	1.69
1534602--1534711	45	2.4	46	92	6	186	30	9	20	40	1.83
1540763--1540796	2	17.0	2	93	0	59	47	0	2	50	1.16
1544270--1544345	28	2.8	28	77	15	70	77	0	14	7	0.98
1544309--1544430	8	14.2	8	71	18	68	76	0	17	5	1.03
1544323--1544440	30	3.9	30	76	17	95	75	0	16	6	1.06
1544309--1544440	30	4.4	31	73	14	91	75	0	17	6	1.04
1544309--1544430	52	2.3	52	83	8	142	76	0	17	5	1.03
1544359--1544440	9	9.6	9	73	22	54	78	0	14	7	0.96
1544282--1544421	28	4.9	27	73	22	90	75	0	15	7	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544329--1544438	24	4.5	24	72	17	84	75	0	17	6	1.06
1545772--1546247	55	8.9	55	82	9	528	28	15	25	30	1.96
1545787--1546247	110	4.3	109	84	8	581	29	16	24	29	1.96
1548807--1549093	45	6.4	45	91	4	442	32	20	7	39	1.81
1548807--1549093	89	3.2	91	91	4	453	32	20	7	39	1.81
1548801--1549093	134	2.2	133	88	6	441	32	20	7	39	1.81
1554540--1554667	43	3.0	43	88	5	188	32	7	21	39	1.80
1561481--1561587	54	2.0	52	89	7	162	38	14	22	25	1.91
1561956--1562018	22	2.9	22	90	4	92	38	12	14	34	1.84
1562393--1562848	123	3.7	123	91	1	736	38	14	20	26	1.91
1562761--1563124	139	2.6	138	84	6	468	39	14	19	27	1.90
1564860--1564926	2	33.5	2	100	0	134	49	0	0	50	1.00
1564947--1565000	23	2.3	23	96	0	99	33	3	7	55	1.45
1564988--1565027	20	2.1	18	86	13	53	27	5	0	67	1.11
1564970--1565220	133	1.9	136	87	4	375	38	5	7	47	1.56
1568624--1568691	20	3.4	20	75	15	77	30	23	13	32	1.93
1568836--1568874	16	2.4	16	86	0	51	28	5	2	64	1.28
1571939--1571974	18	2.0	18	94	0	63	55	25	2	16	1.55
1572278--1572429	20	7.6	20	80	0	178	43	24	19	13	1.86
1572434--1572472	20	2.0	20	94	0	69	25	12	28	33	1.93
1572483--1572567	20	4.2	20	78	0	89	11	18	22	47	1.81
1572621--1572656	16	2.2	16	90	0	54	66	13	0	19	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572715--1572843	20	6.4	20	82	0	150	44	23	18	13	1.86
1572715--1572842	60	2.1	60	85	0	166	44	22	18	14	1.86
1572847--1572963	20	5.8	20	82	7	139	10	17	23	47	1.78
1572847--1572963	60	2.0	60	86	6	166	10	17	23	47	1.78
1572845--1572963	40	3.0	40	91	0	175	11	17	23	47	1.81
1573019--1573128	13	8.5	13	67	18	68	56	16	1	25	1.50
1573025--1573199	63	2.8	64	93	1	298	53	17	2	27	1.56
1573082--1573191	27	3.7	27	69	23	87	49	19	0	30	1.55
1574538--1574651	21	5.4	21	77	17	87	24	18	34	22	1.96
1574538--1574656	42	2.8	40	85	7	148	25	17	34	22	1.96

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