genome.fa.s7823.2.7.7.80.10.50.1000.8.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   32   
          33   

This is table  8  of  33  ( 3920 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)
1333288--1333327	21	1.9	21	85	10	55	62	0	0	37	0.95
1346325--1346374	22	2.3	22	93	3	84	46	2	8	44	1.44
1354928--1354982	22	2.5	22	87	0	65	27	12	32	27	1.93
1362145--1362170	13	2.0	13	100	0	52	15	30	7	46	1.74
1368612--1368653	19	2.2	19	100	0	84	33	19	28	19	1.96
1368619--1368662	19	2.3	19	88	0	61	31	20	22	25	1.98
1374974--1375011	15	2.5	15	83	12	51	28	18	13	39	1.88
1384100--1384148	4	12.8	4	82	8	66	0	22	0	77	0.77
1384100--1384155	19	3.1	18	82	10	69	0	21	0	78	0.75
1389985--1390016	16	2.0	16	93	0	55	40	0	15	43	1.47
1399764--1399893	22	5.9	22	77	7	129	24	16	22	36	1.94
1399764--1399892	44	2.9	44	84	0	177	24	16	22	36	1.94
1399941--1399970	2	15.0	2	100	0	60	50	0	0	50	1.00
1405205--1405255	24	2.2	23	83	16	61	33	11	5	49	1.64
1406620--1406717	45	2.2	45	98	0	187	54	11	11	23	1.68
1406833--1406914	40	2.1	38	95	4	146	24	9	7	58	1.55
1407753--1407795	16	2.6	16	85	3	50	46	0	2	51	1.13
1409603--1409647	20	2.2	20	84	0	54	44	2	2	51	1.26
1413873--1413956	15	6.0	15	80	16	108	47	0	0	52	1.00
1413890--1413986	39	2.6	37	90	3	140	44	0	3	52	1.16
1413955--1415172	32	41.7	32	69	21	406	32	0	14	52	1.44
1413988--1415204	54	21.6	54	70	20	646	32	0	14	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414020--1414062	22	2.0	22	100	0	86	34	0	13	51	1.42
1414042--1414345	80	3.7	80	85	10	439	31	0	14	53	1.43
1414154--1414196	22	2.0	22	100	0	86	34	0	13	51	1.42
1414181--1414265	33	2.5	35	88	7	129	34	0	10	55	1.34
1414348--1414425	22	3.4	22	70	22	61	28	0	16	55	1.42
1413955--1415118	171	7.3	166	73	19	782	32	0	14	52	1.44
1414042--1415132	287	3.8	276	79	13	1059	32	0	14	52	1.44
1413955--1415168	116	10.7	120	78	14	753	32	0	14	52	1.44
1414558--1414600	22	2.0	22	100	0	86	34	0	13	51	1.42
1414705--1414758	14	3.6	14	72	18	54	37	0	5	57	1.22
1414818--1414859	22	1.9	22	100	0	84	33	0	14	52	1.42
1414981--1415135	84	1.9	80	92	5	256	31	0	15	52	1.43
1415152--1415194	22	2.0	22	95	0	77	34	2	13	48	1.56
1415219--1415277	31	1.9	31	89	0	91	40	10	8	40	1.69
1416589--1416645	28	2.0	28	93	0	96	42	22	15	19	1.89
1417647--1417696	20	2.5	20	83	0	64	30	24	16	30	1.96
1420320--1420376	27	2.2	26	84	6	71	57	0	1	40	1.09
1420338--1420420	27	3.1	27	81	6	82	55	1	4	38	1.29
1420361--1420420	25	2.3	27	85	5	79	53	1	5	40	1.33
1420430--1420460	15	2.0	16	93	6	55	48	0	0	51	1.00
1420676--1420778	39	2.6	39	76	14	113	45	1	16	35	1.59
1421171--1421236	31	2.1	31	88	0	96	51	10	7	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425202--1425229	2	14.0	2	100	0	56	50	0	0	50	1.00
1426512--1426793	140	2.0	140	100	0	564	32	11	23	31	1.90
1428558--1428891	138	2.4	137	78	7	336	25	19	30	23	1.98
1433317--1433351	15	2.2	16	90	5	54	40	14	2	42	1.60
1437869--1437901	17	2.0	17	88	5	50	33	0	30	36	1.58
1440657--1440759	51	2.0	51	96	0	188	27	15	15	41	1.87
1441938--1441985	22	2.2	22	88	0	69	27	20	16	35	1.94
1447109--1447138	14	2.1	14	93	0	51	26	30	23	20	1.98
1451023--1451490	234	2.0	232	97	2	893	39	21	13	25	1.89
1452706--1452754	23	2.1	23	96	0	89	24	10	22	42	1.84
1453574--1454090	77	6.7	76	84	2	583	36	9	17	36	1.83
1453762--1453890	40	3.3	40	66	14	106	38	4	17	38	1.71
1454029--1454142	59	1.9	59	89	0	174	38	12	20	28	1.89
1453953--1454227	136	2.0	137	82	3	340	37	11	18	32	1.86
1454088--1454247	77	2.1	77	80	8	175	38	10	16	34	1.84
1454327--1454364	20	1.9	20	94	0	67	39	7	10	42	1.69
1454407--1454446	20	2.0	20	90	4	64	32	17	10	40	1.83
1454246--1454607	155	2.3	156	81	9	398	40	9	10	39	1.71
1455163--1455202	19	2.2	18	90	4	62	45	12	7	35	1.70
1455993--1456080	39	2.3	38	86	5	117	38	9	18	34	1.82
1456092--1456389	77	3.9	77	82	2	321	34	16	10	37	1.83
1457432--1457471	12	3.3	12	82	10	55	72	5	2	20	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1466261--1466460	56	3.6	56	84	0	265	40	15	17	27	1.89
1468819--1468870	3	17.3	3	84	7	70	34	0	0	65	0.93
1473767--1473836	31	2.3	31	100	0	140	32	8	10	48	1.67
1476904--1476936	17	1.9	17	88	11	50	63	3	0	33	1.10
1477013--1477048	17	2.2	16	90	5	54	41	0	0	58	0.98
1478190--1478236	14	3.8	13	75	18	55	59	14	8	17	1.59
1478192--1478254	23	2.6	24	85	10	83	57	15	9	17	1.65
1478605--1478803	40	4.9	40	75	8	156	33	23	14	29	1.93
1478604--1478743	60	2.3	60	81	6	151	34	23	15	27	1.94
1478705--1478826	62	2.0	62	86	0	172	32	23	11	31	1.90
1478605--1478803	82	2.5	80	82	5	215	33	23	14	29	1.93
1478664--1478803	20	6.9	20	80	6	147	32	21	15	30	1.94
1478774--1478824	20	2.5	20	84	9	59	31	27	11	29	1.92
1487855--1487886	15	2.1	15	94	0	55	37	0	3	59	1.13
1493587--1493748	65	2.5	63	77	11	175	24	19	19	35	1.95
1496132--1496188	3	18.3	3	89	7	87	33	0	1	64	1.04
1498060--1498096	2	18.5	2	100	0	74	48	0	0	51	1.00
1498312--1498354	17	2.6	17	88	3	61	23	0	2	74	0.93
1501363--1501413	2	25.5	2	100	0	102	50	0	0	49	1.00
1507979--1509047	164	6.5	164	84	2	1378	29	24	20	24	1.99
1507979--1509042	248	4.3	245	78	5	1042	29	24	20	24	1.99
1507979--1509047	493	2.2	492	85	2	1434	29	24	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1507979--1509047	329	3.3	326	84	2	1383	29	24	20	24	1.99
1509658--1509693	2	19.0	2	88	11	58	50	0	0	50	1.00
1514591--1514655	25	2.6	26	85	9	82	30	1	1	66	1.10
1514603--1514648	8	5.8	8	78	16	51	26	0	2	71	0.97
1514504--1514646	16	9.1	16	69	20	70	33	2	1	62	1.15
1515115--1515225	42	2.6	42	83	5	134	50	4	18	26	1.66
1517009--1517089	23	3.5	23	86	0	99	28	14	22	34	1.94
1517071--1517121	23	2.2	23	85	0	66	37	25	13	23	1.92
1517223--1517264	19	2.2	20	86	4	59	57	2	9	30	1.44
1519673--1519698	2	13.0	2	100	0	52	50	0	0	50	1.00
1522851--1522956	45	2.3	46	86	1	151	22	21	25	30	1.99
1522850--1522956	23	4.7	23	87	5	146	22	21	25	30	1.99
1522851--1522970	23	5.4	22	80	7	82	25	19	25	30	1.98
1527708--1527776	31	2.2	31	84	5	86	55	2	4	37	1.35
1529778--1529817	13	3.2	13	79	13	57	27	20	17	35	1.95
1532977--1533008	6	5.5	6	96	3	57	18	34	0	46	1.49
1532974--1533020	18	2.7	18	80	3	60	19	38	2	40	1.63
1534513--1534551	20	2.0	20	94	0	69	12	15	17	53	1.72
1535447--1535479	6	5.5	6	86	13	50	84	0	15	0	0.61
1539230--1539269	3	13.7	3	94	5	73	35	0	0	65	0.93
1543220--1543258	17	2.4	16	83	8	53	56	2	7	33	1.41
1544694--1545026	166	2.0	167	95	4	602	26	21	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1545916--1545952	17	2.1	18	95	5	67	43	0	10	45	1.39
1547507--1547531	2	12.5	2	100	0	50	48	0	0	52	1.00
1548954--1549009	19	2.8	20	71	13	53	39	5	3	51	1.42
1555018--1555054	13	2.8	13	100	0	74	16	48	24	10	1.77
1555065--1555174	29	3.8	29	90	2	168	20	10	24	44	1.83
1555065--1555174	57	1.9	58	90	1	177	20	10	24	44	1.83
1555152--1555217	29	2.3	29	83	0	78	24	9	25	40	1.84
1555162--1555218	29	2.0	29	89	0	87	28	5	24	42	1.76
1562450--1562560	29	3.8	29	86	0	150	21	9	22	45	1.81
1562450--1562581	58	2.3	58	81	2	149	22	9	23	44	1.81

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   32   
          33