genome.fa.s8620.2.7.7.80.10.50.1000.7.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   

This is table  7  of  64  ( 7674 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)
1317805--1317884	33	2.4	33	91	0	133	47	21	21	10	1.79
1317902--1317958	14	3.7	14	75	20	60	8	24	22	43	1.81
1317885--1317966	33	2.5	33	100	0	164	9	23	19	47	1.79
1317943--1318007	21	3.1	21	80	4	87	12	26	13	47	1.78
1317909--1318005	20	5.2	20	70	18	91	12	24	16	46	1.81
1319687--1319948	93	2.8	93	98	0	506	22	13	18	45	1.84
1319955--1320119	19	9.4	19	73	20	162	12	21	18	46	1.82
1319955--1320122	53	3.2	53	92	0	266	12	22	18	46	1.82
1319955--1320133	86	2.1	83	84	12	229	12	22	18	46	1.82
1319955--1320133	33	5.2	33	72	16	166	12	22	18	46	1.82
1319955--1320152	53	3.8	53	85	6	167	12	21	19	45	1.83
1322419--1322443	12	2.1	12	100	0	50	0	28	0	72	0.86
1322618--1322664	24	2.0	24	87	8	69	38	21	14	25	1.92
1323357--1323585	20	11.4	20	88	1	237	18	17	25	38	1.92
1323579--1323649	21	3.4	20	75	13	54	25	18	22	33	1.96
1324974--1325022	23	2.1	23	88	0	71	8	16	22	53	1.69
1332546--1332653	32	3.4	32	77	2	110	40	11	14	33	1.82
1337027--1337079	21	2.5	21	87	0	79	32	13	30	24	1.93
1338859--1338986	32	4.0	32	85	4	159	36	12	14	35	1.84
1340988--1341019	14	2.3	14	94	0	55	53	15	0	31	1.43
1341004--1341048	21	2.2	21	88	4	65	46	31	0	22	1.52
1345026--1345065	19	2.2	20	86	13	59	55	7	10	27	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1347847--1347872	2	13.0	2	100	0	52	50	0	0	50	1.00
1348042--1348100	24	2.4	25	86	11	77	59	8	0	32	1.28
1348702--1348760	24	2.4	25	88	11	95	37	6	3	52	1.45
1349937--1349982	20	2.3	20	85	3	58	34	0	28	36	1.58
1351789--1351827	20	2.0	19	90	5	60	46	7	17	28	1.76
1352627--1352691	20	3.3	20	79	8	73	50	4	15	29	1.64
1352625--1352700	39	1.9	39	84	12	102	47	5	18	28	1.70
1354578--1354691	20	5.7	20	81	6	113	32	24	18	24	1.97
1354557--1354687	61	2.2	59	78	8	136	34	22	19	22	1.97
1354575--1354691	61	1.9	61	85	0	162	34	23	17	23	1.96
1355283--1355452	19	9.1	19	82	8	188	12	22	20	44	1.85
1357520--1357722	42	4.8	42	79	2	194	23	36	17	22	1.94
1357656--1357722	21	3.2	21	66	6	55	23	35	20	19	1.95
1357517--1357692	84	2.1	84	100	0	352	22	38	16	23	1.93
1357517--1357722	84	2.5	84	93	1	324	22	36	17	22	1.94
1359270--1359368	19	5.7	19	65	22	74	15	22	20	42	1.89
1359274--1359397	33	3.8	32	85	8	169	15	22	18	43	1.87
1359267--1359397	66	2.0	66	93	0	226	16	22	18	42	1.89
1361692--1361716	12	2.1	12	100	0	50	0	28	0	72	0.86
1361891--1361936	24	1.9	24	86	0	65	36	23	17	21	1.94
1361891--1361944	24	2.2	24	83	0	63	38	22	18	20	1.93
1362729--1362780	21	2.5	21	87	3	70	38	17	23	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362765--1362856	20	4.6	20	71	2	67	39	20	18	21	1.93
1363054--1363123	20	3.5	20	73	7	79	38	24	20	17	1.93
1363321--1363357	14	2.6	14	86	0	56	48	21	0	29	1.50
1365227--1365294	20	3.5	19	78	6	73	39	23	22	14	1.91
1365283--1365373	14	5.9	14	74	20	83	48	23	17	10	1.79
1365271--1365378	33	3.3	33	97	1	200	48	22	18	11	1.79
1365407--1365464	14	3.9	14	79	16	71	10	17	24	48	1.78
1365390--1365480	32	2.8	33	94	3	166	12	18	21	47	1.81
1365465--1365519	20	2.8	19	83	8	65	16	23	23	36	1.94
1366008--1366045	18	2.1	18	90	0	58	13	15	44	26	1.83
1367365--1367423	20	3.0	20	87	0	73	42	22	18	16	1.89
1367687--1367730	22	2.0	22	100	0	88	18	13	45	22	1.84
1367898--1368032	20	6.7	20	80	7	121	24	17	24	33	1.96
1367898--1368035	61	2.3	61	85	0	195	23	17	23	34	1.96
1367898--1368053	61	2.6	61	82	2	161	23	19	23	33	1.97
1368103--1368143	21	2.0	21	85	0	55	34	29	17	19	1.94
1390667--1390736	34	2.1	34	86	0	95	37	0	0	62	0.95
1392425--1392479	21	2.5	22	82	2	67	34	30	14	20	1.92
1399521--1399581	15	3.9	16	72	4	54	32	6	21	39	1.79
1399697--1399774	23	3.3	23	85	7	104	24	24	21	29	1.99
1399697--1399774	24	3.3	24	87	7	108	24	24	21	29	1.99
1405484--1405550	29	2.3	29	84	0	80	37	5	22	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1406658--1406775	47	2.6	44	80	7	128	39	6	22	31	1.80
1412025--1412131	42	2.6	42	79	4	128	27	17	21	33	1.96
1412484--1412532	3	16.7	3	83	8	57	30	2	0	67	1.02
1416412--1416490	36	2.1	37	95	4	142	35	12	17	34	1.88
1426267--1426312	22	2.2	21	85	11	60	41	0	0	58	0.98
1426277--1426312	11	3.3	11	100	0	72	38	0	0	61	0.96
1426376--1426433	29	2.0	29	82	0	71	41	1	3	53	1.28
1426418--1426465	22	2.2	22	85	3	62	56	0	0	43	0.99
1426545--1426651	41	2.4	46	74	20	118	47	0	0	51	1.07
1426551--1426608	25	2.5	25	78	15	63	51	0	0	48	1.00
1426519--1426663	37	3.6	40	82	14	149	46	2	0	51	1.12
1426574--1426663	41	2.3	36	90	7	117	47	1	0	51	1.08
1427065--1427117	13	4.0	13	78	9	54	47	0	1	50	1.12
1427083--1427124	13	3.5	13	84	12	54	47	0	0	52	1.00
1428360--1428409	20	2.5	20	80	6	57	30	18	16	36	1.92
1430134--1430177	14	3.0	15	80	12	56	20	31	4	43	1.72
1433754--1433818	2	32.5	2	100	0	130	50	0	0	49	1.00
1433935--1434020	27	3.1	27	80	10	93	65	4	4	25	1.32
1433973--1434057	27	3.1	28	83	8	86	68	3	3	24	1.22
1434764--1434823	20	3.0	20	95	0	102	43	10	15	31	1.79
1442587--1442882	155	1.9	155	88	0	423	42	16	15	25	1.88
1443637--1443708	19	3.7	19	69	10	65	47	1	15	36	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445009--1445066	24	2.5	23	81	8	73	44	0	3	51	1.18
1445510--1445568	25	2.4	25	91	0	91	32	0	45	22	1.52
1445742--1445780	18	2.2	18	95	0	69	56	0	41	2	1.13
1447711--1449068	200	6.8	200	83	4	1530	35	13	17	32	1.89
1447711--1449068	399	3.4	396	82	6	1641	35	13	17	32	1.89
1450555--1450595	3	13.7	3	89	0	64	39	0	31	29	1.57
1451575--1451626	11	4.5	11	77	13	59	36	7	9	46	1.66
1451898--1451936	15	2.6	15	87	0	51	38	17	7	35	1.79
1452274--1452701	201	2.1	200	89	2	644	39	11	16	33	1.84
1456686--1457388	200	3.5	197	83	6	828	39	13	15	31	1.86
1457681--1457713	2	16.5	2	100	0	66	51	0	0	48	1.00
1458532--1458563	16	2.0	16	100	0	64	56	25	6	12	1.59
1458507--1458660	75	2.0	76	91	1	247	59	18	14	7	1.59
1458776--1458812	3	12.7	3	94	5	67	70	0	29	0	0.88
1458582--1458965	151	2.5	155	90	3	607	46	15	24	13	1.81
1458913--1458944	16	2.0	16	100	0	64	56	25	6	12	1.59
1458888--1459041	75	2.0	76	94	1	274	58	15	18	7	1.60
1459010--1459042	3	11.0	3	100	0	66	66	0	33	0	0.92
1462877--1462913	14	2.4	16	86	8	51	32	13	0	54	1.40
1463233--1463310	23	3.4	22	77	5	75	34	23	24	17	1.96
1464831--1464883	19	2.8	19	100	0	106	22	30	16	30	1.96
1468590--1468870	43	6.6	43	83	3	309	33	21	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1468559--1468870	85	3.7	83	81	6	340	34	21	21	22	1.96
1468590--1468870	128	2.2	128	82	5	343	33	21	22	22	1.97
1472278--1472321	19	2.3	20	80	11	56	22	2	61	13	1.43
1472565--1472675	58	1.9	58	94	0	195	28	30	7	33	1.84
1472728--1473131	41	9.8	41	84	7	450	32	18	21	27	1.96
1472728--1473109	83	4.6	83	83	8	458	31	18	22	27	1.97
1472728--1473131	124	3.3	125	87	4	554	32	18	21	27	1.96
1473414--1473493	31	2.6	31	88	9	128	52	13	10	23	1.71
1480917--1481023	47	2.2	47	88	6	153	27	25	20	27	1.99
1480905--1481023	49	2.5	48	86	5	161	26	24	21	26	1.99

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   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64