genome.fa.s7967.2.7.7.80.10.50.1000.7.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: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2476418

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  7  of  11  ( 1301 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)
1284724--1284772	2	25.5	2	79	8	57	51	0	0	48	1.00
1288389--1288421	14	2.3	15	89	5	50	42	0	0	57	0.98
1289783--1290383	298	2.0	299	98	1	1143	38	12	11	36	1.80
1298136--1298228	21	4.4	20	90	5	132	39	20	23	16	1.91
1298136--1298232	42	2.3	42	87	7	151	40	21	22	15	1.91
1304359--1304439	9	9.6	9	85	12	102	80	1	8	9	0.97
1304359--1304429	8	8.6	8	85	13	83	80	0	8	11	0.91
1304359--1304449	9	9.5	10	79	13	86	81	2	7	8	0.96
1304359--1304440	19	4.3	19	83	15	98	80	1	8	9	0.96
1304356--1304409	7	7.1	7	80	15	54	77	0	9	12	0.98
1304405--1304449	19	2.4	19	88	0	63	84	4	6	4	0.87
1305682--1306338	53	12.5	53	90	5	975	30	18	26	24	1.98
1305682--1306338	107	6.3	107	90	4	1008	30	18	26	24	1.98
1305682--1306338	160	4.2	160	89	5	979	30	18	26	24	1.98
1312645--1312722	38	2.1	38	100	0	156	38	15	17	28	1.91
1318700--1318741	18	2.3	19	91	4	68	30	0	0	69	0.89
1318906--1318968	25	2.5	25	79	7	65	52	11	14	22	1.72
1320712--1320745	18	1.9	18	88	5	52	73	5	0	20	1.04
1322554--1322608	3	18.7	3	96	3	103	67	0	0	32	0.91
1329115--1329175	23	2.7	22	85	5	86	24	26	26	22	2.00
1329103--1329191	22	4.0	22	76	13	69	24	26	26	21	1.99
1335917--1335959	20	2.1	20	82	4	50	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1342294--1342408	60	1.9	60	83	0	149	33	17	18	30	1.94
1343234--1343330	31	3.1	31	83	2	115	36	11	9	43	1.73
1344012--1344162	30	5.0	30	100	0	302	47	6	16	29	1.72
1346459--1346500	13	3.2	13	89	3	57	35	2	0	61	1.09
1349433--1349472	21	1.9	21	100	0	80	40	5	20	35	1.74
1376049--1376172	28	4.4	28	96	0	230	37	16	4	41	1.67
1378043--1378079	16	2.2	17	90	4	58	70	0	0	29	0.88
1385455--1385529	30	2.5	31	78	14	84	38	12	12	37	1.79
1388614--1388682	33	2.1	33	94	0	120	37	7	7	47	1.59
1389242--1389295	23	2.3	23	78	6	56	42	16	14	25	1.87
1389701--1389757	16	3.7	15	88	2	51	64	5	5	24	1.35
1389713--1389763	8	6.9	7	75	20	50	64	1	3	29	1.22
1389713--1389758	16	2.9	16	93	3	76	63	2	4	30	1.26
1392989--1393035	21	2.2	21	100	0	94	29	23	25	21	1.99
1393049--1393139	21	4.3	21	79	10	105	20	19	26	32	1.97
1393049--1393167	42	2.8	40	87	5	130	23	19	23	33	1.97
1393089--1393160	21	3.5	20	71	21	67	22	18	22	37	1.94
1396408--1396477	15	4.5	15	70	19	54	37	1	1	60	1.15
1396972--1397007	14	2.5	15	86	13	58	63	0	0	36	0.94
1397728--1397784	28	2.0	28	100	0	114	43	17	17	21	1.88
1399481--1399522	19	2.2	20	83	12	52	4	59	0	35	1.19
1406512--1406787	46	6.0	46	95	0	471	43	12	23	20	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406616--1406945	158	2.1	158	95	0	597	43	11	24	21	1.85
1406564--1407102	92	5.9	89	82	10	350	44	11	23	21	1.84
1406728--1407102	138	2.7	135	82	10	449	44	10	22	22	1.84
1406570--1406991	204	2.1	204	94	0	745	43	11	23	21	1.84
1406774--1407141	46	8.0	46	87	2	490	44	11	21	23	1.84
1408100--1408126	7	3.9	7	100	0	54	88	0	0	11	0.50
1411405--1411441	2	18.5	2	100	0	74	51	0	0	48	1.00
1411611--1411681	24	3.0	24	82	0	88	52	18	8	21	1.71
1413283--1413314	2	16.0	2	100	0	64	50	0	0	50	1.00
1415957--1416012	17	3.3	18	76	18	57	62	0	30	7	1.22
1415957--1416012	26	2.2	25	84	9	69	62	0	30	7	1.22
1418802--1418844	17	2.5	17	100	0	86	41	0	20	37	1.53
1423874--1423899	2	13.0	2	100	0	52	50	0	0	50	1.00
1430426--1430516	2	51.0	2	73	22	51	58	0	0	41	0.98
1430417--1430502	35	2.5	35	96	1	156	59	0	0	40	0.97
1432315--1432375	31	2.0	31	86	0	86	54	4	14	26	1.61
1436755--1436909	82	1.9	80	80	5	177	35	13	12	38	1.82
1438358--1438414	23	2.4	22	83	13	69	38	17	8	35	1.81
1443159--1443212	20	2.5	22	79	8	67	16	16	14	51	1.76
1443175--1443219	23	2.0	23	81	0	54	15	17	13	53	1.73
1444056--1444135	14	5.7	14	96	0	151	48	0	22	28	1.51
1446447--1446532	23	3.7	23	75	14	86	19	25	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1446461--1446535	24	3.2	23	73	16	73	21	25	22	30	1.99
1450696--1450737	21	2.0	22	85	4	59	59	16	7	16	1.58
1450866--1450904	11	3.4	11	80	13	51	33	33	23	10	1.88
1450861--1450898	13	3.1	13	77	14	53	34	34	23	7	1.84
1471045--1471143	31	3.2	31	74	11	85	28	26	27	18	1.98
1471094--1471204	32	3.5	32	80	8	102	31	29	26	12	1.93
1487717--1487765	19	2.6	19	96	0	89	46	6	16	30	1.71
1490361--1490395	2	17.5	2	100	0	70	51	0	0	48	1.00
1493302--1493608	157	2.0	158	97	2	586	28	25	23	23	1.99
1493954--1493985	15	2.1	15	100	0	64	18	18	25	37	1.94
1495194--1495276	29	2.8	29	92	1	139	43	9	14	32	1.78
1499957--1500039	29	2.8	29	92	1	139	43	9	14	32	1.78
1501592--1501655	31	2.1	31	96	0	119	9	12	40	37	1.75
1505692--1505732	19	2.1	20	95	4	75	36	14	4	43	1.67
1509853--1509898	4	11.5	4	100	0	92	23	0	0	76	0.79
1521472--1521512	16	2.5	17	84	8	57	14	12	36	36	1.84
1521870--1521946	32	2.4	32	84	0	91	15	12	28	42	1.84
1524473--1524528	21	2.7	21	94	0	94	26	25	21	26	1.99
1525330--1525494	88	1.9	88	81	8	203	25	13	6	53	1.64
1525447--1525704	44	6.0	43	73	15	146	24	20	7	48	1.75
1525339--1525648	42	7.3	43	74	10	192	26	18	6	49	1.72
1526469--1526494	6	4.3	6	100	0	52	15	34	0	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1536967--1537246	34	8.3	34	78	10	236	41	12	3	42	1.58
1536986--1537237	135	1.9	136	86	6	368	42	11	2	42	1.56
1536967--1537246	68	4.1	67	79	8	284	41	12	3	42	1.58
1536968--1537237	103	2.6	103	80	8	268	42	12	2	42	1.58
1547261--1547307	3	15.7	3	86	8	69	63	0	2	34	1.06
1547724--1547757	2	17.5	2	93	6	61	50	0	0	50	1.00
1554133--1554206	3	24.7	3	94	5	132	67	0	0	32	0.91
1556396--1556427	11	2.9	11	100	0	64	75	15	9	0	1.05
1557656--1557727	24	3.1	24	75	15	71	70	0	5	23	1.08
1557662--1557727	22	2.9	23	78	10	57	69	0	6	24	1.10
1558975--1559299	35	9.3	34	78	11	270	40	11	3	44	1.58
1559038--1559330	35	8.2	36	76	12	239	40	11	3	44	1.57
1558993--1559299	105	2.9	105	85	6	381	41	11	3	44	1.57
1560092--1560123	17	1.9	17	93	6	57	53	18	0	28	1.45
1560591--1560625	17	1.9	19	88	11	56	34	0	14	51	1.42
1562887--1563052	90	1.8	92	84	5	230	30	11	13	43	1.80
1562888--1563081	90	2.1	90	82	5	221	29	13	13	42	1.83
1568256--1568300	22	2.0	22	100	0	90	40	8	4	46	1.55
1572549--1572622	15	5.1	15	71	15	66	55	2	1	40	1.22
1572548--1572639	42	2.2	42	96	1	168	52	4	2	41	1.33
1572571--1572638	21	3.2	21	64	22	52	52	5	2	38	1.41
1577183--1577227	23	2.0	23	81	0	54	40	8	15	35	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1577139--1577303	87	1.9	86	91	1	267	41	10	13	34	1.78
1577322--1578020	199	3.5	198	83	5	840	31	15	14	39	1.87
1586972--1587035	23	2.8	24	79	9	80	31	25	21	21	1.98
1587646--1587748	45	2.3	44	83	9	120	28	13	17	40	1.87
1589252--1589300	19	2.6	19	80	0	62	51	8	6	34	1.57
1590906--1591837	179	4.8	198	78	9	967	31	16	13	37	1.88
1590906--1591837	189	4.8	190	77	11	780	31	16	13	37	1.88
1594516--1594555	6	6.7	6	91	0	62	20	32	2	45	1.64
1594506--1594555	12	4.2	12	86	0	55	26	30	2	42	1.66
1594516--1594555	18	2.2	18	95	0	71	20	32	2	45	1.64

Tables:   1   2   3   4   5   6   7   8   9   10   11