genome.fa.s1465.2.7.7.80.10.50.1000.8.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  8  of  55  ( 6520 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)
1346106--1346208	6	17.2	6	96	3	190	49	17	16	16	1.80
1346448--1346539	21	4.4	21	87	2	114	13	21	18	46	1.82
1351569--1351608	20	2.0	20	100	0	80	35	30	0	35	1.58
1359720--1359984	83	3.2	83	83	4	325	31	21	19	27	1.97
1359739--1359983	42	5.8	43	77	5	230	31	22	19	26	1.98
1360087--1360193	42	2.6	41	74	2	106	28	20	22	28	1.99
1359884--1360783	217	4.2	215	87	4	1182	31	19	16	33	1.94
1362481--1362510	12	2.5	12	88	0	51	30	13	30	26	1.94
1363789--1363837	20	2.4	20	78	21	57	71	6	6	16	1.27
1364902--1365014	31	3.6	31	91	0	172	33	0	15	50	1.50
1365168--1365461	2	157.0	2	65	27	105	41	2	5	50	1.39
1365168--1365469	7	43.0	7	72	16	146	40	2	5	51	1.38
1365208--1365471	27	10.1	27	70	19	127	40	1	5	51	1.36
1368650--1368807	21	7.8	20	72	7	86	38	25	17	18	1.92
1368774--1369023	20	12.5	20	86	1	259	37	24	18	19	1.94
1369706--1369752	24	2.0	24	87	8	69	25	14	21	38	1.92
1369927--1369951	12	2.1	12	100	0	50	72	0	28	0	0.86
1372267--1372383	19	6.6	19	79	17	137	13	22	17	46	1.83
1372267--1372383	53	2.2	52	95	1	207	13	22	17	46	1.83
1372490--1372526	14	2.6	14	91	0	65	45	21	0	32	1.52
1374451--1374566	19	6.6	19	75	19	108	45	22	19	12	1.83
1374488--1374544	14	3.7	14	77	20	60	45	22	21	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374469--1374561	33	2.8	33	95	0	168	47	21	20	10	1.80
1374562--1374690	19	7.3	19	75	17	125	8	17	28	45	1.77
1374562--1374653	33	2.8	33	93	3	150	7	18	28	45	1.76
1374734--1375114	93	4.1	93	96	0	708	45	18	12	22	1.84
1376819--1376908	14	5.7	14	74	23	72	42	23	24	10	1.84
1376811--1376925	33	3.5	33	93	0	203	45	20	23	10	1.82
1376818--1376930	19	6.8	18	72	23	88	43	22	23	10	1.84
1376926--1376970	19	2.4	19	92	0	72	8	17	26	46	1.78
1376968--1377045	41	1.9	41	94	0	138	12	25	17	43	1.85
1376969--1377044	21	3.7	21	85	3	109	11	25	18	44	1.83
1377124--1377194	33	2.2	33	89	0	106	47	16	23	11	1.79
1377376--1377430	22	2.5	22	81	0	74	20	16	40	23	1.91
1377576--1377769	20	9.6	20	82	5	221	19	19	25	35	1.95
1377576--1377769	60	3.2	60	83	0	253	19	19	25	35	1.95
1377736--1377833	21	4.7	21	75	6	74	22	18	21	37	1.94
1377736--1377834	42	2.4	43	77	11	100	22	18	22	37	1.94
1391804--1391843	19	2.1	19	85	0	53	10	2	25	62	1.39
1393621--1393645	13	1.9	13	100	0	50	64	0	0	36	0.94
1394080--1394117	18	2.2	17	86	9	51	36	13	0	50	1.42
1395583--1395611	2	14.5	2	100	0	58	0	48	0	51	1.00
1400102--1400260	78	2.0	78	93	0	273	26	23	16	33	1.95
1407048--1407105	22	2.6	22	75	8	55	13	3	6	75	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409856--1410103	123	2.0	124	99	0	489	39	9	6	44	1.63
1412169--1412211	18	2.4	18	76	3	52	62	13	6	16	1.51
1412321--1412363	10	4.1	10	81	6	50	83	0	2	13	0.74
1412324--1412367	16	2.8	17	90	10	67	81	0	4	13	0.83
1412323--1412363	15	2.6	16	84	11	57	82	0	2	14	0.76
1412324--1412372	25	2.0	25	84	8	64	81	0	4	14	0.83
1412324--1412369	15	2.9	15	81	12	56	80	0	4	15	0.86
1412391--1412415	3	8.3	3	100	0	50	68	0	0	32	0.90
1412470--1412498	2	14.5	2	100	0	58	51	0	0	48	1.00
1412644--1412676	3	10.7	3	93	6	57	66	0	0	33	0.92
1412702--1412742	20	2.0	21	86	13	59	73	0	4	21	1.02
1412724--1412774	16	3.2	16	86	10	61	66	0	0	33	0.92
1412705--1412775	17	4.2	17	79	15	69	69	0	1	29	0.98
1417894--1417934	21	2.0	21	100	0	82	21	19	24	34	1.97
1425725--1425768	13	3.3	13	77	3	52	77	2	6	13	1.07
1425783--1425811	14	2.1	14	93	6	51	82	0	0	17	0.66
1425929--1425961	2	16.5	2	100	0	66	51	0	0	48	1.00
1426278--1426327	23	2.2	23	78	3	57	56	4	26	14	1.56
1427056--1427236	22	8.8	22	74	14	179	29	29	23	17	1.97
1427044--1427213	40	4.2	40	88	3	252	30	30	21	17	1.96
1427122--1427191	18	3.7	17	75	18	68	30	31	24	14	1.94
1427122--1427238	62	1.9	61	86	10	168	29	29	24	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430623--1430654	3	10.7	3	100	0	64	68	0	0	31	0.90
1432429--1432467	18	2.1	19	85	4	53	66	5	7	20	1.36
1434152--1434221	21	3.3	22	76	9	65	15	21	4	58	1.54
1434152--1434204	22	2.5	21	84	3	61	13	22	5	58	1.56
1441517--1441555	18	2.1	19	85	4	53	66	5	7	20	1.36
1445963--1446003	16	2.6	16	84	0	55	48	19	17	14	1.81
1445927--1446136	74	2.8	73	82	5	244	43	16	16	23	1.87
1447230--1447302	36	2.0	36	100	0	146	47	16	24	10	1.78
1448008--1448048	17	2.4	17	100	0	82	24	29	36	9	1.87
1453268--1453319	20	2.6	20	93	0	86	46	5	15	32	1.70
1459212--1459246	15	2.4	14	95	4	61	57	14	14	14	1.66
1465835--1465992	81	2.0	81	93	0	271	15	31	22	31	1.95
1466108--1466355	55	4.5	55	79	8	270	25	26	22	26	2.00
1466111--1466376	27	9.5	28	66	19	110	24	26	21	26	2.00
1466111--1466321	113	1.9	114	91	3	354	25	26	23	25	2.00
1466108--1466413	54	5.5	53	77	8	227	25	25	21	27	1.99
1468306--1468362	29	2.0	29	86	6	80	19	14	17	49	1.80
1468218--1468425	93	2.2	94	89	5	325	25	13	17	43	1.86
1468346--1468469	63	2.0	63	98	0	239	29	13	16	40	1.87
1470347--1470405	3	19.7	3	100	0	118	0	33	0	66	0.92
1470383--1470602	65	3.0	77	87	10	324	26	17	16	38	1.91
1471888--1472084	100	2.0	99	94	2	351	32	36	7	23	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1474072--1474116	19	2.5	19	85	7	58	71	0	8	20	1.12
1480311--1480368	13	4.2	13	76	8	53	29	25	18	25	1.98
1480351--1480413	30	2.1	30	90	0	99	23	26	19	30	1.98
1482345--1482453	24	4.5	24	81	2	121	17	16	17	48	1.81
1482387--1482453	12	5.6	12	72	13	57	16	14	16	52	1.75
1482345--1482453	48	2.3	48	85	3	139	17	16	17	48	1.81
1487565--1487709	76	1.9	76	90	2	229	27	1	12	58	1.42
1488292--1488321	12	2.6	11	90	10	51	16	0	3	80	0.85
1488372--1488420	20	2.5	19	78	15	55	22	8	0	69	1.14
1491350--1491401	5	9.8	5	76	12	50	13	5	3	76	1.10
1491350--1491403	11	5.0	11	81	4	74	14	7	3	74	1.18
1491332--1491400	21	3.2	21	87	6	93	14	5	5	73	1.20
1493428--1493624	76	2.6	76	93	0	333	27	0	10	61	1.33
1493545--1493606	32	1.9	32	84	12	83	25	0	9	64	1.24
1494229--1494266	18	2.1	19	85	5	51	26	0	2	71	1.00
1494302--1494350	18	2.5	20	84	15	68	22	6	0	71	1.08
1494762--1494836	35	2.1	35	87	0	105	42	24	0	33	1.55
1495213--1495270	3	19.3	3	100	0	116	32	0	0	67	0.91
1502743--1502787	3	15.3	3	86	4	65	37	0	0	62	0.96
1502740--1502787	23	2.1	23	92	0	78	37	0	0	62	0.95
1509689--1509731	22	2.0	22	81	9	52	37	9	6	46	1.63
1511374--1511443	21	3.2	21	64	28	56	41	10	20	28	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1511372--1511729	45	8.0	45	90	0	538	41	6	20	31	1.78
1514290--1514317	2	14.0	2	100	0	56	50	0	0	50	1.00
1530867--1530925	24	2.4	24	91	2	100	32	32	5	30	1.79
1533921--1533958	19	2.0	20	84	5	51	34	2	31	31	1.72
1537975--1538007	16	2.1	16	94	0	57	42	30	9	18	1.81
1541130--1541182	27	2.0	27	100	0	106	24	22	22	30	1.99
1542858--1542887	12	2.5	12	94	0	51	73	3	0	23	0.98
1547102--1547129	11	2.5	11	100	0	56	50	0	0	50	1.00
1553711--1553735	11	2.3	11	100	0	50	52	0	0	48	1.00
1555455--1555490	18	2.0	18	88	0	54	55	5	13	25	1.60

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   44   45   46   47   48   
          49   50   51   52   53   54   55