genome.fa.s8645.2.7.7.80.10.50.1000.8.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  8  of  22  ( 2605 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)
1420561--1420617	3	19.3	3	89	3	89	33	0	0	66	0.92
1421357--1421405	7	7.0	7	100	0	98	14	28	14	42	1.84
1422329--1422404	32	2.5	29	80	16	82	67	2	6	23	1.27
1424030--1424095	22	3.0	22	84	4	80	60	4	0	34	1.17
1424057--1424095	12	3.4	12	86	13	64	66	0	0	33	0.92
1424059--1424119	10	5.8	10	80	16	54	60	0	1	37	1.07
1424399--1424838	136	3.3	135	94	1	749	25	23	17	32	1.97
1424758--1424935	91	1.9	92	88	3	270	25	20	13	39	1.89
1437618--1437692	31	2.5	29	83	12	89	66	2	6	24	1.28
1437721--1437755	17	2.1	17	88	0	52	62	5	0	31	1.18
1439317--1439371	19	2.7	20	83	8	58	61	3	0	34	1.13
1439344--1439411	14	5.2	12	84	13	64	58	0	0	41	0.98
1439317--1439382	22	3.0	22	86	4	80	60	3	0	36	1.12
1439346--1439417	12	6.8	10	83	16	60	58	0	0	41	0.98
1439375--1439418	2	23.0	2	90	9	74	52	0	0	47	1.00
1440520--1440577	3	19.7	3	96	3	109	31	0	0	68	0.89
1441503--1441549	23	2.1	22	84	4	58	36	10	19	34	1.86
1442026--1442088	23	2.7	23	92	0	99	38	20	4	36	1.74
1442509--1442571	23	2.7	23	92	0	99	38	20	4	36	1.74
1441623--1447138	482	11.5	482	96	0	10081	40	11	7	40	1.69
1442991--1443053	23	2.7	23	92	0	99	38	20	4	36	1.74
1443473--1443535	23	2.7	23	92	0	99	38	20	4	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1443954--1444016	23	2.7	23	90	0	90	38	19	4	38	1.73
1444435--1444497	23	2.7	23	92	0	99	38	20	4	36	1.74
1444913--1444975	23	2.7	23	92	0	99	38	20	4	36	1.74
1445395--1445457	23	2.7	23	92	0	99	38	20	4	36	1.74
1445879--1445936	23	2.5	23	94	0	98	37	20	5	36	1.75
1446356--1446423	23	2.9	23	88	2	91	41	22	2	33	1.69
1446844--1446906	23	2.7	23	90	4	92	39	19	4	36	1.72
1446938--1447646	228	3.1	228	96	1	1298	39	8	7	44	1.63
1453481--1453530	22	2.2	22	82	13	66	20	16	0	64	1.30
1455059--1455129	16	4.2	17	72	15	58	76	1	8	14	1.09
1457719--1457782	20	3.2	20	66	18	53	43	14	20	21	1.87
1463526--1463595	31	2.2	29	77	20	70	47	0	4	48	1.21
1463637--1463743	11	9.9	11	66	24	50	47	0	1	49	1.18
1463761--1463824	8	8.4	8	73	16	55	42	0	1	56	1.09
1463790--1463868	23	3.4	23	81	13	83	48	0	1	50	1.08
1463793--1463860	12	5.9	12	70	16	54	50	0	1	48	1.10
1463863--1463909	24	1.9	25	86	4	69	44	0	4	51	1.21
1464591--1464631	15	2.7	15	88	3	55	56	4	2	36	1.34
1465818--1465876	31	1.9	31	83	10	77	28	11	13	45	1.79
1468225--1468270	3	15.3	3	100	0	92	32	0	0	67	0.91
1469390--1469456	29	2.3	28	83	14	91	44	4	10	40	1.59
1469689--1469771	22	3.8	22	95	0	139	26	19	38	15	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1472524--1472592	21	3.2	21	71	15	68	28	26	20	24	1.99
1472525--1472610	44	2.0	44	83	0	109	30	25	20	23	1.99
1478524--1478574	22	2.5	22	81	9	63	25	27	17	29	1.98
1478618--1478688	20	3.5	20	75	17	83	30	28	11	29	1.91
1478639--1478708	21	3.4	21	77	18	92	30	27	12	30	1.93
1478617--1478708	41	2.2	41	98	0	175	30	27	13	29	1.94
1481513--1481633	30	3.9	30	77	18	124	46	0	4	49	1.21
1481528--1481633	15	6.7	15	78	15	115	44	0	3	51	1.19
1481613--1481819	32	7.4	32	68	28	175	36	0	11	51	1.42
1481637--1481678	22	1.9	22	100	0	84	38	0	14	47	1.44
1481613--1482209	54	11.1	54	77	14	560	33	0	13	52	1.42
1481690--1481732	22	2.0	22	100	0	86	34	0	13	51	1.42
1481744--1481787	23	2.0	22	90	4	70	36	2	11	50	1.51
1481925--1482032	32	3.7	31	75	23	126	35	0	13	50	1.42
1481958--1482000	22	2.0	22	100	0	86	34	0	13	51	1.42
1481980--1482289	80	3.9	80	94	0	539	32	0	14	52	1.42
1482163--1482235	22	3.3	22	69	16	53	28	0	16	54	1.42
1481659--1482160	134	3.8	130	82	9	488	33	0	13	52	1.43
1481589--1482304	214	3.4	209	82	9	725	34	0	13	52	1.42
1482319--1482377	31	1.9	31	96	0	109	42	8	6	42	1.61
1483145--1483203	24	2.5	24	72	5	57	18	20	20	40	1.91
1488686--1488787	51	2.0	51	94	0	177	30	16	13	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489421--1489449	2	14.5	2	100	0	58	48	0	0	51	1.00
1489874--1489907	2	17.0	2	100	0	68	50	0	0	50	1.00
1490789--1490821	14	2.3	15	89	5	50	0	21	0	78	0.75
1493670--1493708	19	2.0	19	85	5	51	48	0	0	51	1.00
1493859--1493912	17	3.2	17	72	0	54	29	0	5	64	1.16
1495320--1495413	21	4.5	21	90	5	136	18	32	27	21	1.96
1501514--1501542	14	2.1	14	100	0	58	48	27	17	6	1.72
1506021--1506140	35	3.3	36	89	5	181	43	20	5	31	1.73
1506072--1506132	21	3.2	21	65	29	64	42	21	4	31	1.74
1506023--1506167	35	4.1	36	83	11	142	41	19	6	33	1.76
1510695--1510758	20	3.4	20	66	29	59	45	18	4	31	1.70
1510645--1510766	35	3.4	36	87	6	176	43	18	4	32	1.72
1513405--1513470	32	2.1	32	100	0	132	24	34	12	28	1.91
1517009--1517260	121	2.1	120	82	7	303	46	7	11	34	1.68
1519067--1519102	16	2.2	16	95	0	63	52	0	0	47	1.00
1519462--1519656	46	4.4	45	69	12	136	30	17	26	25	1.97
1519324--1519705	129	2.9	129	84	5	430	29	17	26	26	1.98
1530985--1531352	165	2.2	164	78	10	385	30	26	16	26	1.97
1530989--1531355	55	6.7	55	83	8	349	30	26	16	26	1.96
1532689--1532876	18	10.8	17	73	19	101	7	17	0	74	1.08
1532683--1532813	50	2.6	51	78	16	132	6	19	0	73	1.09
1532691--1532888	41	4.7	41	73	18	160	8	17	0	73	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532687--1532883	9	22.5	8	68	23	71	8	17	0	74	1.09
1542512--1542603	45	2.0	47	89	4	143	38	20	9	31	1.85
1544890--1544935	23	2.0	23	100	0	92	13	39	13	34	1.83
1545864--1545912	16	3.0	16	70	5	53	14	24	6	55	1.62
1545857--1545930	33	2.2	33	78	2	76	17	22	6	52	1.68
1549076--1549313	124	2.0	122	86	5	340	47	7	11	33	1.69
1551133--1551167	16	2.2	16	100	0	70	51	0	0	48	1.00
1551260--1551322	19	3.6	18	77	14	53	39	11	19	30	1.86
1553320--1553372	26	2.0	26	100	0	106	26	30	11	32	1.91
1555317--1555369	23	2.3	23	83	3	63	22	13	1	62	1.40
1556269--1556426	32	5.0	30	87	5	181	27	25	27	19	1.99
1556266--1556426	64	2.5	62	85	8	200	27	24	28	19	1.98
1559512--1559565	18	2.9	18	78	13	65	62	1	0	35	1.06
1562294--1562329	2	18.0	2	100	0	72	50	0	0	50	1.00
1565897--1565959	32	2.0	32	100	0	126	31	19	28	20	1.97
1565902--1565953	16	3.2	16	70	20	54	30	17	28	23	1.97
1566441--1566484	21	2.1	21	91	0	70	29	0	15	54	1.42
1566454--1566519	28	2.4	28	82	10	98	31	0	12	56	1.36
1566959--1567004	23	2.0	23	84	12	60	41	0	8	50	1.33
1570289--1570348	21	2.8	20	85	14	77	38	0	6	55	1.27
1570455--1570504	22	2.3	22	96	0	91	48	4	6	42	1.46
1570658--1570764	34	3.1	34	82	5	135	42	0	13	43	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570650--1570766	14	7.6	14	70	25	69	41	0	12	45	1.48
1570661--1570775	11	9.9	11	69	20	74	41	0	13	44	1.49
1571395--1571460	23	3.0	22	75	16	64	59	3	1	36	1.22
1572160--1572233	23	3.2	23	98	0	139	21	27	18	32	1.97
1572708--1572754	16	3.0	16	84	9	53	59	10	0	29	1.31
1572795--1572878	30	2.8	30	92	3	134	45	13	1	40	1.51
1572799--1572853	15	3.6	16	70	20	55	43	14	0	41	1.45
1572956--1573069	41	2.9	37	75	18	106	45	13	0	40	1.49
1573079--1573118	21	1.9	21	100	0	80	57	15	0	27	1.38
1572837--1573575	376	2.0	367	90	4	1175	47	11	1	39	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22