genome.fa.s8539.2.7.7.80.10.50.1000.8.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  8  of  31  ( 3630 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)
1394786--1394901	42	2.8	42	94	0	196	47	18	18	16	1.83
1396097--1396144	17	2.8	17	78	15	53	22	4	2	70	1.15
1397473--1397511	20	2.0	20	84	0	51	5	12	10	71	1.28
1398395--1398536	65	2.2	64	83	8	173	30	22	19	28	1.98
1404201--1404273	20	3.5	20	81	9	85	32	28	15	23	1.95
1404217--1404312	44	2.2	44	85	7	126	28	26	21	23	1.99
1404240--1404317	23	3.5	23	75	8	90	26	26	23	23	2.00
1404240--1404335	44	2.2	42	80	7	104	27	27	23	21	1.99
1405845--1405888	21	2.1	21	82	0	52	9	38	15	36	1.80
1406895--1407104	65	3.3	63	79	10	210	31	22	18	27	1.97
1407263--1407293	16	1.9	16	100	0	62	25	38	16	19	1.92
1410477--1410935	244	1.9	244	80	4	532	35	20	15	29	1.93
1410879--1410992	47	2.4	47	97	0	210	34	21	13	30	1.92
1410926--1411300	133	2.8	133	84	1	482	35	20	14	29	1.92
1412551--1412585	14	2.6	13	86	8	52	17	2	0	80	0.84
1412756--1412792	3	13.0	3	83	11	51	32	2	0	64	1.07
1414484--1414548	14	4.7	14	67	3	51	35	4	1	58	1.28
1418218--1418264	17	2.9	16	75	15	51	68	6	21	4	1.30
1418203--1418283	33	2.5	33	82	11	105	70	3	19	6	1.24
1422255--1422525	61	4.4	61	85	1	319	38	23	11	25	1.89
1423267--1423300	17	2.0	17	88	0	50	32	2	0	64	1.08
1425843--1425890	26	1.9	24	83	8	60	22	12	4	60	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1427525--1427572	19	2.5	19	96	0	87	64	8	0	27	1.22
1427841--1427882	21	2.0	21	95	0	75	38	11	9	40	1.75
1429350--1429385	14	2.6	14	90	0	54	58	2	13	25	1.49
1429623--1429664	21	2.0	20	86	4	57	35	4	28	30	1.78
1429670--1429881	105	2.0	105	83	5	268	42	16	17	23	1.88
1431048--1431093	23	2.0	23	100	0	92	34	13	13	39	1.83
1431397--1431912	245	2.1	244	88	5	761	36	16	16	31	1.91
1431973--1432345	52	7.1	51	74	9	250	42	18	10	28	1.83
1431973--1432345	104	3.5	105	76	8	321	42	18	10	28	1.83
1431972--1432282	52	6.0	53	77	6	303	42	18	9	29	1.83
1432322--1432448	59	2.2	58	83	5	157	42	16	7	33	1.77
1434032--1434082	2	25.0	2	96	4	93	49	1	0	49	1.12
1449424--1449474	14	3.6	14	81	7	59	60	0	11	27	1.31
1449452--1449515	15	4.3	15	76	9	60	62	4	6	26	1.39
1449424--1449490	14	4.6	14	78	12	57	59	1	10	28	1.39
1449466--1449535	31	2.3	31	82	7	81	64	5	8	21	1.43
1449680--1449743	14	4.3	15	76	11	53	39	4	25	31	1.76
1450479--1450541	33	1.9	33	90	6	101	33	34	22	9	1.86
1451235--1451348	55	2.1	56	98	1	221	34	15	14	35	1.89
1452034--1452168	60	2.2	60	82	7	159	32	16	4	46	1.67
1456338--1456381	2	22.0	2	100	0	88	50	0	0	50	1.00
1460449--1460528	37	2.1	37	82	11	92	38	12	11	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1460510--1460554	21	2.1	21	95	0	81	37	0	15	46	1.46
1477041--1477144	6	16.7	6	71	18	52	75	0	18	5	0.99
1477041--1477123	30	2.8	28	79	13	87	77	0	15	7	0.98
1477075--1477120	22	2.1	21	84	4	56	78	0	17	4	0.91
1478954--1479404	54	8.4	54	85	3	606	35	19	18	27	1.95
1481990--1482060	2	35.5	2	100	0	142	49	0	0	50	1.00
1485448--1485532	19	4.4	18	75	11	71	77	0	18	3	0.91
1485448--1485542	39	2.5	39	81	8	106	75	0	20	4	0.96
1485447--1485532	33	2.6	33	82	8	88	77	0	18	3	0.90
1487521--1487972	54	8.4	54	86	1	611	35	19	18	26	1.95
1490089--1490145	21	2.8	20	86	10	71	22	22	29	24	1.99
1502345--1502442	23	4.5	21	86	5	97	22	30	23	23	1.99
1502357--1502441	23	3.8	23	90	4	129	23	29	24	22	1.99
1504328--1504393	16	4.1	16	75	14	64	22	1	24	51	1.57
1506452--1506514	21	3.0	21	90	0	90	25	19	26	28	1.98
1506983--1507043	31	2.0	31	90	6	97	40	4	9	44	1.59
1507493--1507553	17	3.8	16	74	22	56	63	1	0	34	1.04
1507535--1507693	63	2.5	65	92	7	274	55	1	0	42	1.10
1507597--1507678	24	3.2	26	81	13	100	56	1	0	42	1.07
1513375--1513922	54	10.2	54	85	3	703	35	19	18	26	1.95
1515439--1516001	45	12.5	45	81	3	497	23	15	19	40	1.90
1515439--1516001	90	6.3	90	81	3	569	23	15	19	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517085--1517416	131	2.5	131	90	0	513	30	22	19	27	1.98
1519232--1519260	2	14.5	2	100	0	58	51	0	0	48	1.00
1523373--1523463	10	9.5	10	72	18	61	79	0	19	1	0.80
1523374--1523459	15	6.3	14	72	18	74	77	0	20	1	0.83
1523381--1523462	26	3.0	26	84	8	94	79	0	20	0	0.74
1525249--1525297	2	24.5	2	100	0	98	48	0	0	51	1.00
1525289--1525334	24	2.0	23	86	4	65	28	4	2	65	1.23
1532354--1532585	99	2.4	99	82	2	279	30	19	18	31	1.96
1533338--1533380	22	2.0	22	90	0	68	23	2	0	74	0.93
1533344--1533385	19	2.3	18	80	8	50	26	2	0	71	0.98
1533344--1533385	12	3.5	12	83	6	50	26	2	0	71	0.98
1536954--1537013	32	1.9	31	93	3	102	61	5	1	31	1.27
1537194--1537232	20	2.0	20	85	9	55	64	0	2	33	1.08
1539240--1539337	48	2.1	47	96	1	178	17	11	9	62	1.53
1547804--1547845	22	2.0	21	85	4	57	33	4	14	47	1.65
1550625--1550761	61	2.3	60	84	3	177	41	13	7	37	1.73
1554508--1554560	24	2.2	24	93	0	88	43	13	9	33	1.76
1563683--1563711	14	2.1	14	100	0	58	27	20	20	31	1.98
1566385--1566465	20	3.9	20	75	12	74	25	33	24	16	1.96
1566385--1566444	20	2.9	20	85	5	75	25	31	25	18	1.97
1568097--1568121	12	2.1	12	100	0	50	28	32	40	0	1.57
1570275--1570304	13	2.2	14	94	5	53	3	36	0	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1571342--1571366	8	3.1	8	100	0	50	24	48	0	28	1.52
1574549--1574720	95	1.8	95	92	2	292	30	20	19	29	1.97
1575495--1575544	21	2.4	21	96	0	91	26	20	8	46	1.78
1575580--1575774	36	5.4	35	81	9	230	24	19	13	42	1.88
1575580--1575774	73	2.7	71	85	7	257	24	19	13	42	1.88
1575828--1575911	33	2.5	33	94	3	143	41	19	8	30	1.80
1575908--1576103	80	2.4	80	80	7	225	30	26	18	25	1.98
1578156--1578215	11	5.4	11	75	16	61	18	1	1	78	0.92
1578159--1578215	5	11.4	5	79	9	55	17	1	1	78	0.91
1578156--1578225	5	12.2	6	76	15	51	18	2	1	77	0.97
1578248--1578298	13	3.9	13	82	10	68	29	0	1	68	1.00
1580012--1580094	38	2.2	38	91	4	132	10	10	38	39	1.75
1579830--1580333	247	2.0	244	90	5	798	21	11	28	38	1.88
1580256--1580381	37	3.6	34	88	8	157	13	10	35	40	1.79
1580272--1580373	37	2.8	37	100	0	204	14	9	33	42	1.79
1580012--1580638	286	2.2	288	91	4	1014	20	11	29	38	1.87
1580550--1580638	38	2.4	38	90	7	146	12	11	39	37	1.79
1581212--1581257	18	2.7	17	80	9	58	30	28	6	34	1.82
1593134--1593158	11	2.3	11	100	0	50	68	8	0	24	1.16
1593508--1593576	29	2.4	27	86	11	86	71	2	5	20	1.20
1593507--1593628	26	4.8	26	69	22	82	73	2	4	18	1.12
1593537--1593630	46	2.1	44	88	7	136	76	2	5	15	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593675--1593750	40	1.9	41	83	5	102	75	3	2	18	1.08
1593706--1593766	21	2.9	21	75	20	63	70	3	4	21	1.21
1593690--1593790	45	2.4	41	83	8	114	70	2	6	19	1.24
1595014--1595094	9	8.9	9	72	22	55	71	1	2	24	1.05
1595014--1595096	22	3.9	19	75	21	76	71	1	2	25	1.06
1595028--1595070	16	2.5	17	82	17	54	72	2	2	23	1.08
1595094--1595309	36	5.9	36	83	6	249	43	7	2	45	1.47
1595094--1595466	37	9.6	37	81	13	323	45	6	2	45	1.43
1595132--1595365	36	6.4	33	77	17	146	44	6	2	46	1.42
1595276--1595458	88	2.1	86	85	9	239	46	5	2	45	1.38

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