genome.fa.s7825.2.7.7.80.10.50.1000.8.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: VEPZ01007825.1 Hibiscus syriacus cultivar Beakdansim tig00110163_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2082551

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

This is table  8  of  11  ( 1245 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)
1339151--1339204	20	2.7	21	80	8	67	24	12	31	31	1.93
1344889--1344930	21	2.0	21	95	0	75	23	26	19	30	1.98
1345681--1345771	30	3.1	30	84	4	96	42	7	15	34	1.75
1346682--1346759	30	2.6	31	78	8	81	37	8	21	32	1.85
1346954--1347002	18	2.7	18	81	6	55	30	8	16	44	1.76
1347958--1348080	38	3.2	38	89	0	174	26	26	21	25	2.00
1347958--1348094	38	3.6	37	88	2	157	27	24	24	24	2.00
1347958--1348107	76	2.0	76	82	2	185	28	24	24	24	2.00
1347985--1348107	38	3.2	38	82	2	104	29	22	25	22	1.99
1348183--1348246	24	2.7	24	87	2	85	37	15	17	29	1.91
1348183--1348248	12	5.6	12	80	3	71	36	15	19	28	1.92
1349009--1349418	32	12.9	32	89	2	585	35	20	17	27	1.95
1351748--1351805	30	2.0	30	82	3	73	37	12	5	44	1.64
1353758--1353782	13	1.9	13	100	0	50	80	0	0	20	0.72
1354681--1354718	12	3.2	12	92	0	58	60	0	0	39	0.97
1354668--1354722	3	19.0	3	75	7	51	67	0	0	32	0.91
1355347--1355624	124	2.2	123	83	1	358	25	19	24	30	1.98
1355703--1356107	110	3.7	110	92	0	648	25	16	22	35	1.94
1356026--1356170	67	2.2	63	92	4	236	26	16	22	33	1.95
1358821--1358857	18	2.1	19	90	10	60	75	2	16	5	1.10
1359720--1359744	13	1.9	13	100	0	50	80	0	0	20	0.72
1362797--1362837	20	2.0	20	85	4	55	0	19	7	73	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363337--1363464	3	42.7	3	90	3	204	63	0	2	34	1.07
1363785--1364418	224	2.8	225	95	1	1123	29	18	14	37	1.91
1363785--1364418	113	5.6	113	91	1	1008	29	18	14	37	1.91
1365090--1365725	83	7.7	83	96	0	1112	38	21	12	28	1.89
1366775--1366811	10	3.6	10	92	7	65	0	10	0	89	0.49
1366770--1366815	11	4.2	11	88	8	67	0	13	0	86	0.56
1375812--1376103	144	2.0	146	97	2	561	26	19	19	34	1.95
1377681--1377737	16	3.7	15	75	11	62	42	3	0	54	1.17
1377978--1378014	19	1.9	19	89	10	58	70	2	0	27	1.01
1378829--1378869	20	2.0	20	85	4	55	0	21	7	70	1.11
1379325--1379369	20	2.3	19	84	3	54	35	0	2	62	1.08
1379320--1379375	29	2.0	30	83	13	75	37	0	1	60	1.07
1379368--1379486	3	39.7	3	89	0	184	61	0	3	35	1.13
1386446--1386493	23	2.0	24	84	11	64	27	2	0	70	0.98
1386721--1386775	22	2.5	21	82	11	65	29	3	0	67	1.08
1386741--1386804	30	2.2	30	86	8	87	23	1	0	75	0.90
1388101--1388137	19	1.9	19	89	10	58	8	24	0	67	1.17
1391744--1391777	16	2.1	16	89	10	52	76	8	14	0	1.01
1391750--1391824	8	9.7	7	76	23	55	80	6	10	2	1.00
1392598--1392695	22	4.5	22	93	0	169	36	26	14	22	1.92
1393470--1395063	106	15.0	106	91	0	2477	34	24	17	23	1.96
1395813--1395909	37	2.6	37	86	0	140	40	16	12	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1396317--1396363	23	2.0	23	84	15	62	27	2	0	70	0.99
1396437--1396462	13	2.0	13	100	0	52	23	7	0	69	1.14
1396576--1396678	30	3.6	30	72	13	90	31	3	0	64	1.18
1401038--1401204	55	3.0	55	94	1	298	32	17	12	37	1.87
1401038--1401219	56	3.2	56	93	3	305	32	18	12	36	1.88
1401554--1401596	22	2.0	22	90	0	68	32	20	13	32	1.92
1408482--1408536	27	2.1	24	79	20	74	25	12	14	47	1.80
1413989--1414053	20	3.3	20	72	21	57	41	3	1	53	1.25
1418569--1418605	18	2.0	20	89	10	60	51	5	21	21	1.68
1427712--1427779	22	3.1	23	85	4	88	23	39	11	25	1.88
1427806--1427833	14	2.0	14	100	0	56	35	35	14	14	1.86
1428132--1428190	20	3.0	20	100	0	118	50	20	13	15	1.77
1428200--1428250	20	2.5	20	77	0	57	17	15	17	49	1.81
1429570--1429668	42	2.4	42	77	3	110	29	33	17	20	1.95
1429786--1429826	21	2.0	21	90	0	64	19	14	31	34	1.92
1430055--1430096	12	3.5	12	83	6	50	28	0	4	66	1.12
1430240--1430337	21	4.7	21	84	0	124	22	36	19	21	1.95
1430244--1430337	42	2.2	42	92	3	154	22	37	20	20	1.95
1431844--1431908	29	2.2	29	94	0	112	30	26	15	27	1.96
1434393--1434439	24	2.0	24	91	0	76	31	17	23	27	1.96
1435392--1435461	20	3.5	19	75	7	59	35	12	24	27	1.92
1435494--1435545	20	2.6	20	81	6	61	21	9	32	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1439118--1439181	14	4.6	13	73	21	51	75	1	1	21	0.98
1439137--1439179	21	1.9	21	86	13	59	76	2	2	18	1.00
1439113--1439182	23	2.9	23	74	16	61	75	1	1	21	0.96
1439137--1439287	32	4.7	31	70	18	85	74	3	9	12	1.17
1439212--1439287	31	2.3	32	82	14	86	77	2	10	9	1.08
1439231--1439284	19	2.8	19	78	15	67	83	1	5	9	0.88
1439280--1439307	10	2.8	10	100	0	56	71	0	0	28	0.86
1440438--1440476	3	13.3	3	94	5	71	66	0	0	33	0.92
1440474--1440547	31	2.4	31	84	6	87	45	5	1	47	1.34
1440536--1440922	75	5.2	71	77	17	271	45	4	2	46	1.39
1440469--1440917	37	12.3	37	79	12	357	45	5	2	46	1.39
1440764--1440788	11	2.3	11	100	0	50	44	8	8	40	1.63
1442120--1442150	6	5.2	6	96	0	53	35	19	16	29	1.93
1442658--1442718	20	2.8	22	82	7	72	44	3	3	49	1.35
1444547--1444630	34	2.5	34	83	11	95	50	5	2	41	1.40
1444513--1444870	190	1.9	190	85	6	494	46	8	5	39	1.57
1453739--1453776	15	2.6	14	88	8	58	65	0	2	31	1.06
1453736--1453776	22	1.9	21	85	5	55	60	0	2	36	1.10
1454087--1454121	15	2.4	15	90	4	54	40	28	11	20	1.87
1454995--1455045	16	3.1	16	78	15	52	52	1	5	39	1.37
1458591--1458650	27	2.2	27	100	0	120	30	33	6	30	1.83
1466102--1466144	2	21.5	2	100	0	86	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467679--1467725	17	2.8	17	96	0	85	17	27	17	38	1.91
1468948--1469034	37	2.4	36	83	7	113	35	4	17	42	1.70
1469415--1469439	12	2.1	12	100	0	50	28	16	16	40	1.89
1469440--1469473	16	2.1	16	94	0	59	32	8	26	32	1.87
1471580--1471847	133	2.0	134	98	1	520	38	14	22	23	1.91
1473660--1473743	37	2.3	38	87	6	120	34	4	17	42	1.71
1488103--1488146	14	3.1	15	87	6	65	40	2	0	56	1.11
1488492--1488535	22	2.0	22	86	8	63	47	0	0	52	1.00
1488744--1488787	22	2.0	22	86	8	63	52	0	0	47	1.00
1488320--1488822	251	2.0	248	94	1	891	49	2	2	44	1.32
1489145--1489192	26	1.9	25	83	8	62	45	2	8	43	1.45
1490280--1490335	24	2.5	23	77	8	62	48	0	0	51	1.00
1493782--1493903	59	2.1	59	92	0	199	21	19	16	42	1.89
1496519--1496547	2	14.5	2	100	0	58	51	0	0	48	1.00
1498765--1498835	36	2.0	36	91	0	115	38	4	15	42	1.67
1510026--1510084	31	1.9	31	85	0	82	37	18	18	25	1.94
1520898--1520945	23	2.1	22	81	14	53	45	4	6	43	1.48
1520979--1521047	29	2.3	30	80	9	70	31	0	1	66	1.00
1520979--1521020	16	2.7	16	85	14	61	35	0	0	64	0.94
1520978--1521028	15	3.3	16	76	15	54	33	0	0	66	0.92
1521153--1521179	13	2.1	13	100	0	54	25	0	44	29	1.54
1529172--1529214	16	2.7	16	100	0	86	48	6	23	20	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1529211--1529290	36	2.2	36	95	0	142	21	20	21	37	1.94
1530660--1530799	36	3.9	36	82	7	185	38	19	22	20	1.93
1530649--1530799	72	2.1	72	93	0	257	39	18	21	19	1.92
1530998--1531061	20	3.2	20	93	0	101	21	3	29	45	1.67
1531329--1531405	39	2.0	39	100	0	154	37	10	23	28	1.88
1531927--1531963	19	1.9	19	89	10	58	51	0	16	32	1.45
1534313--1534341	2	14.5	2	100	0	58	51	0	0	48	1.00
1534167--1534536	191	1.9	191	100	0	740	44	16	10	28	1.80
1534504--1534532	2	14.5	2	100	0	58	51	0	0	48	1.00
1535952--1536019	35	1.9	35	88	5	102	44	19	0	36	1.51

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