genome.fa.s8094.2.7.7.80.10.50.1000.8.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  8  of  43  ( 5090 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)
1411942--1412696	375	2.0	376	92	1	1246	23	23	21	31	1.99
1412808--1412848	18	2.3	18	95	0	73	17	48	21	12	1.79
1413671--1413710	17	2.3	18	86	4	55	42	5	15	37	1.68
1415255--1415293	12	3.3	12	82	7	53	15	17	20	46	1.84
1415259--1415294	11	3.2	11	84	7	54	13	16	19	50	1.79
1415256--1415325	23	3.0	24	81	6	83	20	12	17	50	1.78
1418086--1418126	10	4.3	10	80	20	52	14	31	29	24	1.95
1418121--1418163	14	3.1	14	86	0	50	23	46	20	9	1.79
1418123--1418164	19	2.2	19	87	8	59	23	47	21	7	1.75
1425289--1425337	17	3.1	17	91	8	77	18	48	22	10	1.77
1431903--1431955	21	2.5	21	84	0	70	20	26	18	33	1.96
1431945--1432070	20	6.3	20	86	7	168	35	19	19	25	1.95
1431930--1432070	40	3.5	41	80	7	155	34	19	19	27	1.96
1431930--1432070	60	2.3	60	83	10	180	34	19	19	27	1.96
1432037--1432077	20	2.0	20	85	0	55	29	19	19	31	1.96
1432927--1432978	23	2.3	23	89	0	77	19	19	19	42	1.90
1435410--1435502	20	4.7	20	70	13	75	36	23	18	21	1.95
1435476--1435601	33	3.8	33	94	2	218	45	19	23	11	1.83
1435476--1435601	65	1.9	66	93	1	218	45	19	23	11	1.83
1435601--1435677	19	4.3	19	78	18	85	12	16	24	45	1.83
1435616--1435698	33	2.5	33	90	3	123	10	19	21	48	1.79
1435812--1435847	14	2.6	14	86	4	56	47	22	0	30	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1437703--1437798	39	2.5	39	87	0	138	46	18	21	12	1.82
1437703--1437798	19	4.9	20	79	5	106	46	18	21	12	1.82
1437814--1437851	20	1.9	20	94	0	67	5	13	28	52	1.61
1437853--1437919	14	4.8	14	94	0	116	11	19	23	44	1.84
1438057--1438621	94	6.1	94	93	3	921	47	19	12	21	1.82
1440280--1440375	20	5.2	20	72	21	91	45	18	23	11	1.82
1440327--1440380	14	3.5	14	73	22	54	44	22	24	9	1.81
1440278--1440418	19	7.8	19	72	17	122	46	19	22	11	1.82
1440278--1440401	33	3.5	33	84	7	140	45	20	23	11	1.83
1441003--1441096	20	4.7	20	81	2	125	21	20	19	39	1.93
1441003--1441092	41	2.2	40	86	2	117	21	20	17	41	1.91
1441093--1441179	21	4.2	21	80	5	97	39	18	24	18	1.92
1441086--1441179	41	2.3	41	87	5	118	37	19	23	20	1.94
1442627--1442660	12	2.7	13	81	9	52	41	0	5	52	1.25
1445596--1446054	231	2.0	232	80	3	523	25	15	21	37	1.92
1446309--1446388	30	2.7	30	76	7	92	23	26	11	38	1.88
1446309--1446403	30	3.2	28	75	12	77	24	26	10	38	1.87
1446739--1446805	13	5.3	13	70	25	54	43	0	19	37	1.51
1446741--1446816	24	3.1	24	82	15	86	44	0	18	36	1.50
1452843--1452883	20	2.0	20	100	0	82	24	0	24	51	1.49
1456161--1456197	2	19.0	2	94	5	67	48	0	0	51	1.00
1463032--1463060	12	2.4	12	100	0	58	27	17	48	6	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467602--1467691	26	3.4	26	77	11	94	44	21	4	30	1.71
1467602--1467690	27	3.4	26	81	6	99	44	21	4	29	1.71
1467654--1467732	27	3.0	26	81	1	77	43	21	8	26	1.82
1472240--1472278	19	2.1	19	95	0	69	20	38	15	25	1.92
1472229--1472388	65	2.5	65	84	3	216	29	26	16	27	1.97
1473732--1473779	19	2.5	20	86	3	62	50	6	14	29	1.67
1473787--1473830	23	2.0	22	86	4	61	50	4	18	27	1.66
1475027--1475095	30	2.2	30	85	15	95	34	5	17	42	1.73
1475036--1475095	30	2.0	30	93	6	104	33	6	16	43	1.74
1475175--1475275	21	4.8	21	81	11	109	23	32	17	25	1.97
1475239--1475341	20	5.4	20	70	17	67	28	29	17	25	1.97
1475295--1475341	21	2.3	20	96	3	85	19	34	19	27	1.96
1475302--1475353	12	4.6	12	79	20	67	19	36	17	26	1.94
1476619--1476670	19	2.7	19	96	0	95	26	21	30	21	1.98
1476699--1476786	46	1.9	45	90	2	140	26	18	27	28	1.98
1476809--1476846	20	1.9	20	88	0	58	21	15	31	31	1.94
1483467--1483506	21	1.9	21	85	10	55	35	10	2	52	1.48
1485378--1485467	45	2.0	46	91	2	146	26	20	26	26	1.99
1485488--1485525	20	1.9	20	94	0	67	18	15	34	31	1.92
1488790--1489123	178	1.9	178	87	0	488	36	14	19	29	1.91
1489604--1489654	20	2.7	20	87	6	70	45	9	13	31	1.76
1491372--1491402	13	2.4	13	100	0	62	22	32	32	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1492867--1492914	21	2.3	21	88	0	69	22	35	27	14	1.93
1494563--1494613	21	2.7	18	80	16	66	27	13	15	43	1.85
1494573--1494619	21	2.2	21	96	0	85	23	12	17	46	1.82
1494606--1494654	19	2.4	21	80	16	66	44	16	2	36	1.59
1494615--1494658	19	2.3	19	96	0	79	47	18	0	34	1.49
1495965--1496012	19	2.5	20	86	3	62	29	14	6	50	1.67
1497445--1497684	134	1.8	132	81	8	299	34	15	19	30	1.93
1497673--1497702	13	2.3	13	94	0	51	13	20	46	20	1.83
1497679--1497730	20	2.8	18	86	11	77	11	23	48	17	1.79
1497694--1497737	20	2.2	20	88	8	63	11	27	45	15	1.81
1499481--1499534	21	2.6	21	93	0	90	25	18	18	37	1.94
1499626--1499672	20	2.4	19	82	3	58	42	17	4	36	1.68
1502437--1502475	3	13.0	3	100	0	78	66	0	0	33	0.92
1503619--1503659	19	2.2	18	86	4	55	9	14	0	75	1.04
1504816--1504930	51	2.3	51	83	7	144	53	6	0	38	1.34
1507827--1507876	20	2.5	20	76	0	55	42	4	2	52	1.31
1519478--1519519	16	2.6	16	96	0	75	38	11	4	45	1.62
1519516--1519564	26	2.0	25	84	8	64	46	2	0	51	1.12
1522914--1522981	22	2.8	24	84	10	86	50	0	5	44	1.26
1524149--1524219	31	2.3	31	82	0	88	52	9	5	32	1.58
1524309--1524346	20	1.9	20	94	0	67	44	10	23	21	1.83
1524309--1524352	20	2.3	19	88	7	63	45	9	25	20	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1524674--1524745	3	24.0	3	79	0	72	38	0	1	59	1.06
1524674--1524745	30	2.4	30	88	0	108	38	0	1	59	1.06
1524784--1524844	20	3.0	21	76	7	72	27	34	26	11	1.91
1527413--1527438	7	3.7	7	100	0	52	15	11	0	73	1.11
1527451--1527482	2	16.0	2	100	0	64	50	0	0	50	1.00
1527727--1527754	2	14.0	2	100	0	56	50	0	0	50	1.00
1528266--1528334	26	2.7	26	82	8	70	27	4	1	66	1.19
1529753--1529800	7	7.0	7	84	9	55	16	14	10	58	1.63
1529866--1529942	14	5.5	14	73	9	50	16	10	7	64	1.46
1532633--1532685	7	7.1	7	91	8	79	73	0	26	0	0.83
1532636--1532718	8	10.6	8	80	14	93	79	0	19	1	0.80
1532633--1532717	15	5.5	15	79	10	91	77	0	21	1	0.83
1532636--1532718	23	3.6	23	87	10	107	79	0	19	1	0.80
1533173--1533234	32	1.9	32	93	0	106	43	19	16	20	1.88
1536891--1536932	22	2.0	21	86	13	59	23	33	23	19	1.97
1537638--1537729	24	3.9	24	72	14	84	32	22	25	19	1.97
1541588--1541637	2	25.0	2	100	0	100	50	0	0	50	1.00
1544114--1544202	23	3.8	24	75	20	89	33	23	25	16	1.96
1545190--1545230	21	2.0	21	90	9	66	21	31	34	12	1.91
1546741--1546818	22	3.6	22	91	1	113	30	16	12	39	1.86
1547471--1547777	45	6.8	45	86	5	388	25	23	19	32	1.98
1547471--1547777	88	3.4	89	85	5	393	25	23	19	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1548008--1548078	3	25.0	3	73	13	53	40	0	0	59	0.98
1548116--1548177	21	3.0	21	78	2	72	30	33	24	11	1.90
1549223--1549260	13	2.9	13	84	11	51	26	2	0	71	1.00
1552429--1552646	29	7.6	29	77	14	186	35	23	4	36	1.74
1552649--1552695	17	2.7	18	80	6	60	14	21	44	19	1.86
1559973--1560132	29	5.5	29	79	10	157	34	18	7	40	1.79
1559973--1560131	60	2.7	60	80	8	159	34	18	7	39	1.79
1560099--1560172	31	2.4	30	82	8	87	41	13	2	41	1.58
1566100--1566172	37	2.1	35	85	12	96	49	0	2	47	1.15
1567191--1567272	11	7.4	10	75	17	65	79	4	13	2	1.00

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