genome.fa.s8527.2.7.7.80.10.50.1000.6.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  6  of  37  ( 4336 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)
1281721--1281833	33	3.5	31	81	9	120	41	7	5	45	1.56
1281812--1281849	20	1.9	20	94	0	67	39	5	0	55	1.23
1281882--1281940	14	4.0	14	80	8	64	47	0	0	52	1.00
1281897--1281953	3	19.0	3	75	7	53	42	0	1	56	1.10
1281881--1281942	22	2.8	22	83	14	83	48	0	0	51	1.00
1283204--1283262	31	1.9	31	89	3	93	28	5	20	45	1.72
1286130--1286237	51	2.1	51	82	6	128	50	5	3	39	1.43
1286210--1286250	17	2.4	17	95	0	73	46	7	0	46	1.30
1286142--1286240	51	1.9	53	89	4	157	49	5	4	41	1.43
1286330--1286370	16	2.5	17	76	11	50	31	17	17	34	1.93
1286366--1286400	16	2.2	16	89	0	52	31	17	28	22	1.96
1290830--1290870	18	2.3	18	100	0	82	46	4	0	48	1.23
1293406--1293453	12	3.9	12	83	10	62	47	0	18	33	1.49
1293404--1293465	12	4.9	13	78	11	58	43	0	17	38	1.49
1293452--1293519	32	2.2	32	97	2	129	33	5	13	47	1.67
1293546--1293593	2	24.0	2	100	0	96	50	0	0	50	1.00
1294105--1294168	26	2.5	26	87	5	85	29	1	18	50	1.57
1294105--1294172	13	5.2	13	76	3	66	29	1	19	50	1.57
1305718--1305777	31	2.0	31	87	6	88	50	5	1	43	1.34
1316112--1316222	2	60.0	2	68	26	68	49	1	1	46	1.22
1316111--1316189	26	3.1	26	82	8	92	50	2	2	44	1.29
1316128--1316237	8	13.6	8	71	17	61	49	1	0	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316570--1316794	103	2.2	102	82	2	272	34	25	6	34	1.81
1316945--1317242	159	1.9	158	83	5	395	23	26	4	45	1.71
1317080--1317218	55	2.6	52	75	15	140	20	25	2	50	1.62
1323117--1323338	20	10.9	20	70	8	119	18	22	22	36	1.94
1323198--1323271	21	3.6	21	74	3	87	21	18	25	33	1.96
1323138--1323294	41	3.9	41	88	1	244	19	22	24	33	1.97
1323138--1323294	81	1.9	82	89	3	246	19	22	24	33	1.97
1323283--1323395	22	5.4	22	81	6	103	18	17	23	39	1.92
1323304--1323351	19	2.5	19	100	0	96	18	20	18	41	1.90
1323141--1323413	82	3.3	81	82	8	238	19	20	23	36	1.95
1323994--1324026	6	5.5	6	100	0	66	0	15	51	33	1.43
1324147--1324198	20	2.6	20	90	0	77	46	21	21	11	1.82
1328124--1328157	18	1.9	17	88	5	50	35	2	0	61	1.11
1330991--1331043	21	2.5	21	81	0	61	20	24	18	35	1.95
1331268--1331332	22	3.0	22	86	0	94	27	40	12	20	1.88
1331667--1331732	20	3.3	20	80	2	71	15	19	24	40	1.90
1331721--1331764	20	2.2	20	83	0	52	11	13	22	52	1.72
1333631--1333827	20	10.5	20	81	14	215	41	21	18	17	1.90
1333654--1333848	40	5.4	35	82	11	202	42	21	20	16	1.89
1333874--1333959	20	4.3	20	83	1	93	20	18	19	40	1.91
1333874--1334013	40	3.7	40	72	13	132	17	17	21	42	1.89
1333965--1334013	20	2.5	20	89	0	71	14	14	26	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334496--1334537	21	2.2	19	87	12	59	21	35	19	23	1.96
1334491--1334601	42	2.6	42	77	5	109	20	36	18	24	1.95
1335978--1336013	14	2.6	14	90	0	54	30	0	22	47	1.52
1335965--1336026	13	4.6	14	75	13	51	27	0	19	53	1.45
1336119--1336182	33	1.9	34	87	3	94	40	21	25	12	1.88
1336181--1336226	20	2.3	20	88	0	74	21	21	23	32	1.98
1338473--1338526	24	2.2	24	93	0	90	40	20	18	20	1.91
1338473--1338540	24	2.8	24	84	0	64	38	20	17	23	1.93
1339368--1339414	20	2.3	20	92	0	76	21	19	27	31	1.97
1339401--1339554	20	7.7	20	85	1	218	20	18	20	40	1.92
1339551--1339596	21	2.2	21	84	0	56	39	17	26	17	1.91
1339970--1340016	22	2.1	23	84	4	60	36	12	19	31	1.89
1340919--1341828	199	4.6	199	96	1	1677	31	16	16	36	1.90
1341947--1341993	19	2.6	19	90	6	71	57	10	2	29	1.44
1343786--1343851	33	2.0	33	87	0	96	24	48	0	27	1.51
1343885--1343928	21	2.1	21	86	0	61	13	31	15	38	1.87
1346159--1346201	20	2.3	18	85	14	61	20	16	11	51	1.75
1346332--1346377	20	2.3	20	89	10	76	17	17	10	54	1.70
1352642--1352686	2	24.0	2	82	13	60	53	0	0	46	1.00
1353127--1353185	2	29.5	2	100	0	118	50	0	0	49	1.00
1359632--1359665	17	2.0	17	88	11	52	50	0	8	41	1.34
1360116--1360165	19	2.6	19	90	0	82	20	4	4	72	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365305--1365454	72	2.1	72	88	0	219	26	18	37	17	1.93
1365720--1365956	83	2.8	84	84	1	307	34	20	16	29	1.94
1366531--1366662	64	2.0	65	86	4	187	53	17	6	21	1.66
1368291--1368325	17	1.9	17	88	11	52	45	2	2	48	1.32
1368443--1368512	20	3.5	20	82	0	86	15	4	47	32	1.65
1368777--1368831	13	3.9	13	76	17	56	30	3	7	58	1.43
1368781--1368838	30	1.9	30	89	0	89	32	3	6	56	1.42
1369693--1370139	227	2.0	225	94	1	788	45	8	7	39	1.62
1370205--1370250	20	2.3	19	89	10	74	54	10	17	17	1.70
1370370--1370416	20	2.4	19	79	10	58	55	8	17	19	1.67
1372727--1372792	33	2.0	33	87	0	96	28	1	45	24	1.62
1374583--1374631	19	2.6	19	93	0	80	30	2	10	57	1.43
1374750--1376515	198	8.9	199	98	0	3272	36	15	15	31	1.90
1377974--1378035	18	3.4	18	79	0	79	37	9	35	17	1.83
1377974--1378065	6	15.3	6	79	0	67	36	7	34	20	1.81
1377989--1378069	3	27.0	3	75	0	72	35	6	34	23	1.80
1377977--1378053	36	2.1	36	90	0	118	35	9	35	20	1.85
1377977--1378065	12	7.4	12	84	0	88	35	7	34	21	1.82
1377974--1378065	18	5.1	18	77	0	76	36	7	34	20	1.81
1379541--1379883	184	1.9	183	91	0	560	34	14	16	33	1.89
1382424--1382487	23	2.8	23	87	0	92	35	6	20	37	1.78
1382424--1382496	23	3.2	23	82	7	85	34	5	20	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1382854--1382917	23	2.8	23	87	0	92	35	6	20	37	1.78
1382854--1382926	23	3.2	23	82	7	85	34	5	20	39	1.76
1383191--1383241	25	2.0	25	92	0	84	33	7	19	39	1.81
1383490--1383526	18	2.1	18	89	0	56	32	5	10	51	1.60
1383482--1383528	24	2.0	24	86	0	67	34	4	14	46	1.64
1383784--1383870	39	2.2	39	95	0	156	48	20	13	17	1.81
1384272--1384335	23	2.8	23	87	0	92	35	6	20	37	1.78
1384272--1384344	23	3.2	23	82	7	85	34	5	20	39	1.76
1393855--1393922	27	2.6	26	88	4	93	32	10	16	41	1.82
1397598--1397665	27	2.6	27	95	4	122	30	11	16	41	1.84
1407600--1407628	2	14.5	2	100	0	58	48	0	0	51	1.00
1408876--1408991	38	3.1	38	93	0	187	38	24	16	20	1.92
1411052--1411118	35	1.9	35	84	6	91	8	23	16	50	1.73
1412290--1412354	32	2.0	32	100	0	130	33	20	6	40	1.77
1420877--1420925	20	2.4	21	86	10	75	46	6	20	26	1.73
1421093--1421142	20	2.5	20	86	0	73	52	6	16	26	1.66
1420785--1421229	216	2.1	216	93	0	748	34	6	21	37	1.80
1421301--1421372	37	2.0	37	81	13	87	45	4	2	47	1.36
1422103--1422147	18	2.6	16	80	19	54	22	13	11	53	1.71
1423956--1424039	42	2.0	42	90	4	134	17	13	22	46	1.83
1428411--1428449	21	1.9	19	90	10	60	64	23	2	10	1.37
1429063--1429250	93	2.0	93	97	0	358	22	27	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430681--1430722	19	2.2	19	87	8	59	45	21	0	33	1.52
1431897--1431935	16	2.5	16	87	4	53	35	10	23	30	1.88
1431990--1432054	27	2.4	27	100	0	130	30	15	10	43	1.81
1436925--1436992	31	2.2	31	84	7	84	42	2	4	50	1.37
1464293--1464340	19	2.5	19	80	10	53	37	4	6	52	1.46
1466185--1466277	2	51.0	2	66	18	51	49	0	0	50	1.00
1468143--1468170	2	14.0	2	100	0	56	50	0	0	50	1.00
1479379--1479503	31	4.0	31	72	9	110	32	18	17	32	1.94
1483825--1483951	31	4.1	31	78	9	141	29	18	20	31	1.96
1486266--1486478	110	1.9	111	93	0	365	46	9	7	36	1.65

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