genome.fa.s426.2.7.7.80.10.50.1000.7.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  7  of  15  ( 1749 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)
1393079--1393162	19	4.7	19	78	14	70	10	19	26	44	1.83
1393292--1393607	93	3.4	93	99	0	623	45	18	13	22	1.85
1395294--1395390	20	5.2	20	72	18	100	46	17	24	11	1.81
1395292--1395356	21	3.1	21	82	4	96	47	15	26	10	1.78
1395341--1395395	14	3.6	14	73	21	56	45	21	23	9	1.80
1395292--1395400	33	3.1	33	86	10	128	44	18	25	11	1.82
1395423--1395496	21	3.5	21	80	7	96	14	20	17	47	1.83
1395576--1395646	33	2.2	33	94	0	124	47	15	23	12	1.80
1396026--1396238	20	10.6	20	86	5	286	18	19	27	34	1.95
1400303--1400365	30	2.1	29	83	13	76	42	12	14	30	1.82
1403299--1403379	23	3.7	22	80	9	85	20	23	32	23	1.98
1408993--1409051	2	29.5	2	100	0	118	49	0	0	50	1.00
1409045--1409087	12	3.6	12	80	0	59	20	0	27	51	1.48
1410527--1410571	20	2.2	20	84	4	54	48	11	4	35	1.59
1421885--1421989	44	2.4	43	80	12	122	51	4	1	41	1.34
1430683--1430721	20	1.9	21	89	5	62	35	0	2	61	1.10
1430686--1430739	28	1.9	28	85	7	74	37	0	1	61	1.07
1430734--1430796	32	1.9	31	84	12	81	47	12	0	39	1.42
1430823--1430862	21	1.9	21	100	0	80	32	35	0	32	1.58
1430899--1430953	22	2.5	20	75	16	56	45	0	1	52	1.11
1431500--1431544	23	2.0	23	87	8	67	51	17	8	22	1.73
1434156--1434665	74	6.9	73	84	5	577	38	15	11	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1434156--1434670	147	3.5	148	82	5	598	38	15	11	34	1.84
1434156--1434670	221	2.3	220	85	4	653	38	15	11	34	1.84
1435252--1435294	18	2.4	18	96	0	77	9	44	13	32	1.76
1467689--1467713	12	2.1	12	100	0	50	40	8	44	8	1.63
1472141--1472613	156	3.0	159	82	9	482	24	13	20	40	1.89
1487874--1487912	17	2.2	17	86	4	51	28	20	10	41	1.85
1490584--1490620	10	3.7	10	86	13	58	24	37	27	10	1.88
1490583--1490620	20	1.9	20	100	0	76	23	36	28	10	1.88
1490694--1490781	10	8.5	10	70	7	59	9	31	31	27	1.88
1490679--1490750	33	2.2	33	84	0	99	9	37	26	26	1.87
1490728--1490781	20	2.7	20	97	0	99	9	27	37	25	1.87
1492417--1492465	16	3.1	16	75	0	53	53	0	0	46	1.00
1492387--1492453	20	3.2	20	71	14	55	52	1	2	43	1.25
1495124--1495157	14	2.4	14	90	0	50	38	8	14	38	1.78
1495288--1495338	22	2.3	23	83	10	61	47	5	0	47	1.26
1495446--1495526	19	4.3	19	72	20	64	48	1	1	49	1.17
1495659--1495705	22	2.1	23	88	4	69	53	0	2	44	1.12
1495666--1495728	22	2.9	21	79	11	56	53	0	1	44	1.10
1495695--1495740	23	2.1	23	88	8	69	52	0	0	47	1.00
1497030--1497088	29	2.0	29	83	12	75	54	15	1	28	1.51
1497618--1497662	20	2.5	18	80	19	58	48	11	15	24	1.77
1499778--1499827	18	2.8	18	81	0	64	34	26	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1501101--1501127	14	1.9	14	100	0	54	48	22	14	14	1.81
1506619--1506716	29	3.3	30	83	7	103	32	4	19	43	1.70
1506626--1506727	29	3.5	29	81	7	93	31	1	18	48	1.60
1510175--1510233	3	19.3	3	96	3	109	35	0	0	64	0.94
1510175--1510233	31	1.9	30	100	0	100	35	0	0	64	0.94
1511712--1511794	12	6.8	12	82	9	71	28	3	1	66	1.16
1511817--1513117	6	221.8	6	93	5	2249	16	0	33	49	1.46
1513351--1513398	18	2.5	19	77	16	55	47	4	0	47	1.21
1514343--1514416	28	2.9	25	74	18	71	68	2	4	24	1.19
1514351--1514416	19	3.2	20	71	14	53	68	3	4	24	1.23
1514413--1514446	15	2.3	15	89	0	50	64	5	5	23	1.38
1515947--1516060	60	1.9	60	85	3	158	40	9	7	42	1.65
1523196--1523303	24	4.5	24	88	4	164	28	12	19	38	1.89
1523185--1523310	24	5.2	24	85	3	146	30	11	18	39	1.86
1523419--1523513	43	2.2	43	90	3	147	17	9	35	36	1.83
1528327--1528441	48	2.4	48	88	2	169	27	13	20	39	1.89
1528320--1528445	24	5.2	24	83	7	148	29	11	19	39	1.87
1528557--1528651	43	2.2	43	92	3	156	16	9	36	36	1.82
1534057--1534130	37	2.0	37	86	0	103	31	10	39	18	1.86
1534235--1534289	2	28.5	2	78	7	60	49	0	0	50	1.00
1534196--1534289	48	2.0	48	89	4	147	48	0	0	51	1.00
1537129--1537195	21	3.2	21	78	6	73	28	0	23	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537113--1537181	28	2.5	28	79	11	70	30	1	23	44	1.62
1537148--1537208	21	2.9	21	77	0	59	29	0	22	47	1.52
1538286--1538310	13	1.9	13	100	0	50	44	8	8	40	1.63
1544229--1544309	20	3.9	20	76	16	60	25	29	25	18	1.98
1544272--1544313	19	2.3	19	84	12	52	21	28	33	16	1.95
1547862--1547941	34	2.4	33	76	14	83	53	1	0	45	1.08
1547863--1547935	23	3.1	23	84	5	85	52	1	0	46	1.09
1548039--1548089	25	2.0	25	85	14	68	50	0	0	49	1.00
1551428--1551483	28	2.0	28	82	3	67	28	5	7	58	1.46
1552934--1552959	11	2.4	11	100	0	52	61	0	7	30	1.24
1555238--1555295	29	2.0	29	82	0	71	67	3	1	27	1.17
1561162--1561193	7	4.6	7	92	0	55	12	3	59	25	1.48
1563139--1563204	27	2.4	26	82	5	69	25	24	18	31	1.97
1568477--1568503	2	13.5	2	100	0	54	51	0	0	48	1.00
1571148--1571175	3	9.3	3	100	0	56	64	0	0	35	0.94
1580811--1580899	19	4.3	20	77	17	101	35	5	28	30	1.80
1581921--1581964	20	2.2	20	87	0	61	43	4	2	50	1.35
1581952--1581994	13	3.3	13	80	0	50	39	0	4	55	1.20
1585017--1585882	289	3.0	288	91	4	1375	36	20	12	30	1.89
1588468--1588627	43	3.7	44	81	10	163	25	17	6	51	1.68
1589561--1589638	41	1.9	41	81	0	93	14	6	24	55	1.62
1595292--1595330	19	2.1	19	90	0	60	53	0	5	41	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604374--1604448	25	3.0	26	81	12	88	46	0	1	52	1.09
1604381--1604503	23	4.4	27	71	17	92	43	0	1	53	1.16
1604357--1604451	12	7.9	11	73	18	66	42	0	2	55	1.11
1604357--1604507	61	2.5	61	92	4	243	42	0	1	54	1.16
1604351--1604455	38	2.8	37	77	9	108	40	0	1	57	1.10
1604474--1604528	21	2.5	22	82	5	67	40	1	1	56	1.21
1604517--1604562	18	2.6	18	83	13	51	36	0	0	63	0.95
1608495--1608525	3	10.3	3	100	0	62	35	0	0	64	0.94
1611425--1611506	36	2.2	37	93	2	139	45	6	14	34	1.70
1613197--1613267	17	4.2	17	73	7	54	59	8	14	18	1.60
1613279--1613323	17	2.6	17	80	13	65	55	6	24	13	1.62
1614854--1614899	14	3.3	14	96	0	83	26	36	30	6	1.82
1614960--1615030	20	3.5	20	90	0	106	12	26	33	26	1.92
1615017--1615044	14	2.0	14	100	0	56	7	28	42	21	1.79
1614960--1615030	10	7.1	10	71	17	58	12	26	33	26	1.92
1615936--1616000	24	2.6	25	80	14	71	46	18	13	21	1.84
1615965--1616035	29	2.3	29	83	9	88	49	25	12	12	1.76
1616750--1616786	14	2.6	14	91	0	65	62	10	5	21	1.48
1617403--1617475	29	2.5	29	84	0	83	19	38	27	15	1.91
1617433--1617491	29	2.0	29	90	0	91	22	33	35	8	1.84
1617706--1617790	29	2.9	29	83	0	107	12	29	40	17	1.87
1619167--1620645	184	8.1	184	98	0	2831	29	12	32	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1621472--1621508	18	2.1	18	90	10	58	59	0	0	40	0.97
1629880--1629919	17	2.4	17	86	0	62	42	0	0	57	0.98
1638744--1638783	19	2.0	21	90	9	66	55	0	2	42	1.13
1642287--1642447	51	3.1	51	61	13	121	26	11	15	46	1.80
1642274--1642485	104	2.0	104	100	0	424	28	10	17	43	1.82
1650304--1650384	40	2.0	40	92	0	135	43	7	23	25	1.80
1651045--1651087	21	2.0	21	86	0	59	44	6	11	37	1.68
1657219--1657266	21	2.3	21	88	0	69	27	16	10	45	1.80
1661884--1661931	21	2.3	21	88	0	69	29	16	10	43	1.81
1662624--1662651	4	7.0	4	100	0	56	50	25	0	25	1.50

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15