genome.fa.s9639.2.7.7.80.10.50.1000.6.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  6  of  62  ( 7398 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)
1353622--1353681	27	2.1	27	87	9	84	63	8	16	11	1.51
1364501--1364548	24	2.0	24	83	4	60	52	10	25	12	1.71
1369800--1369838	20	2.0	20	89	0	60	53	15	12	17	1.72
1373784--1374053	6	45.8	6	88	5	345	48	0	51	0	1.00
1377619--1377693	21	3.6	21	88	0	114	30	28	21	20	1.98
1377798--1377836	6	6.5	6	96	0	69	30	53	15	0	1.42
1378324--1378355	6	5.5	6	96	3	57	0	15	53	31	1.43
1378499--1378548	21	2.4	21	89	0	73	22	20	30	28	1.98
1378512--1378555	21	2.1	21	95	0	79	20	20	34	25	1.97
1378937--1378991	25	2.2	26	83	9	69	38	0	9	52	1.33
1379382--1379414	15	2.1	16	88	5	50	45	3	0	51	1.16
1385464--1385489	3	8.7	3	100	0	52	34	0	0	65	0.93
1387554--1387598	23	2.0	22	82	4	54	40	4	0	55	1.20
1388421--1388479	3	19.0	3	82	6	73	37	0	0	62	0.95
1388426--1388486	18	3.2	18	88	6	86	40	0	0	59	0.98
1389673--1389718	20	2.3	20	85	7	58	28	0	4	67	1.10
1389680--1389736	20	2.8	20	80	12	64	29	1	1	66	1.12
1390518--1390555	20	1.9	20	88	0	58	34	7	5	52	1.53
1393894--1393991	36	2.7	36	86	9	121	19	19	7	54	1.67
1397271--1397637	188	2.0	188	100	0	734	32	22	16	28	1.96
1398364--1398426	31	2.0	31	87	0	90	36	17	12	33	1.88
1400296--1400445	50	3.0	50	95	0	255	36	13	22	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400814--1400890	22	3.5	22	92	0	127	32	14	14	38	1.86
1401565--1402714	76	15.4	76	94	2	1951	23	20	22	34	1.97
1401565--1402714	302	3.8	304	93	2	1969	23	20	22	34	1.97
1402847--1402909	3	21.0	3	76	12	58	39	0	0	60	0.97
1402835--1402878	20	2.1	21	91	4	72	45	0	0	54	0.99
1407623--1407738	60	1.9	60	82	3	144	39	12	11	36	1.80
1408041--1408065	12	2.1	12	100	0	50	40	0	32	28	1.57
1408457--1408482	3	8.7	3	100	0	52	65	0	34	0	0.93
1416763--1416896	46	2.9	46	97	0	250	38	14	20	25	1.91
1423643--1423759	35	3.2	36	86	6	157	31	3	17	47	1.64
1427697--1427816	35	3.3	37	88	5	165	32	5	18	43	1.74
1451021--1451057	2	18.5	2	100	0	74	48	0	51	0	1.00
1454555--1454587	16	2.1	16	94	0	57	33	6	27	33	1.81
1477435--1477566	59	2.2	60	82	8	153	21	23	26	28	1.99
1477870--1477907	19	2.0	20	94	5	69	23	0	7	68	1.16
1477983--1478040	24	2.4	25	83	8	68	32	0	5	62	1.18
1479666--1479735	21	3.3	20	88	9	104	20	37	22	20	1.95
1480248--1480314	34	2.0	34	90	0	107	55	5	2	35	1.40
1493966--1494067	32	3.3	32	76	10	79	40	0	0	59	0.97
1494028--1494080	28	1.9	27	81	11	63	33	0	3	62	1.13
1494051--1494088	19	2.0	20	94	5	69	23	0	7	68	1.16
1495850--1495922	21	3.5	21	88	7	112	17	35	24	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496433--1496499	34	2.0	34	87	0	98	53	5	4	35	1.46
1505784--1505829	17	2.6	17	89	6	65	65	8	13	13	1.48
1510169--1510223	20	2.7	21	72	5	51	47	0	0	52	1.00
1510241--1510276	17	2.1	18	94	5	65	25	0	5	69	1.10
1510352--1510409	24	2.4	25	83	8	68	32	0	5	62	1.18
1512037--1512109	21	3.5	21	88	7	112	17	35	24	21	1.95
1512619--1512725	34	3.1	34	86	0	160	54	5	2	37	1.39
1513032--1513056	2	12.5	2	100	0	50	48	0	0	52	1.00
1513160--1513535	127	3.0	127	94	1	639	33	20	23	22	1.97
1522035--1522073	17	2.2	17	86	9	51	30	5	5	58	1.41
1530270--1530342	36	2.0	37	84	10	96	47	1	4	46	1.30
1531092--1531210	53	2.2	54	92	5	206	32	24	12	30	1.92
1531092--1531231	53	2.6	53	88	4	194	33	25	12	28	1.93
1543179--1543215	18	2.0	19	89	5	58	43	0	13	43	1.44
1544090--1544212	45	2.5	47	85	12	169	42	5	0	52	1.25
1544136--1544287	22	6.5	22	68	15	99	42	6	0	50	1.28
1544124--1544218	45	2.1	45	98	0	181	40	8	0	51	1.32
1544180--1544286	37	2.9	36	68	9	99	42	7	0	49	1.31
1544215--1544264	18	2.7	19	84	6	66	42	12	0	46	1.41
1547572--1547602	2	15.5	2	100	0	62	51	0	0	48	1.00
1549249--1549365	35	3.3	35	89	7	175	43	19	5	30	1.75
1553049--1553109	21	3.2	21	61	29	55	40	21	6	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1553011--1553115	35	3.0	35	91	2	167	44	18	6	30	1.75
1554716--1554746	2	15.5	2	100	0	62	51	0	0	48	1.00
1557396--1557462	30	2.2	30	89	0	98	16	28	20	34	1.95
1561200--1561235	16	2.2	17	95	5	65	41	19	5	33	1.75
1561963--1562043	20	4.0	21	79	9	89	29	24	19	25	1.99
1562575--1562616	18	2.3	19	83	4	50	26	11	14	47	1.78
1564379--1564763	79	4.8	80	84	4	465	29	22	12	35	1.92
1566063--1566097	17	2.0	18	94	5	63	28	34	20	17	1.95
1566751--1566822	35	2.0	36	89	2	110	22	22	19	36	1.95
1577338--1577537	105	1.9	105	83	2	258	25	18	20	36	1.95
1577576--1577643	23	3.0	23	88	0	91	20	26	26	26	1.99
1577674--1577706	17	2.0	17	88	5	50	33	30	6	30	1.82
1582955--1583014	23	2.7	23	89	2	86	21	28	25	25	1.99
1583045--1583077	17	2.0	17	88	5	50	33	30	6	30	1.82
1592573--1592599	2	13.5	2	100	0	54	48	0	0	51	1.00
1614832--1614879	3	16.0	3	100	0	96	66	0	0	33	0.92
1617674--1617993	83	3.8	83	85	2	424	25	18	23	32	1.97
1618964--1619025	26	2.4	26	94	0	106	22	14	12	50	1.77
1619395--1619608	83	2.6	83	96	0	394	35	21	17	26	1.95
1619525--1619722	95	2.1	96	86	1	281	32	18	17	31	1.94
1622178--1622207	13	2.3	13	100	0	60	60	0	0	40	0.97
1622335--1622381	15	3.3	15	91	5	71	74	0	4	21	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1627439--1627522	35	2.3	37	80	15	111	46	0	2	51	1.14
1627951--1627994	21	2.1	21	91	8	72	31	2	4	61	1.28
1636804--1636860	16	3.8	16	71	15	50	57	0	1	40	1.09
1636804--1636862	31	1.9	31	83	13	77	55	0	1	42	1.09
1638151--1638190	2	20.0	2	94	0	71	47	2	0	50	1.14
1664704--1664728	2	12.5	2	100	0	50	48	0	0	52	1.00
1668293--1668321	14	2.1	14	100	0	58	27	0	0	72	0.85
1672148--1672179	13	2.4	14	94	5	57	15	46	25	12	1.81
1674289--1674416	31	4.1	31	78	9	143	26	17	21	34	1.96
1674408--1674474	30	2.2	30	89	0	98	26	14	22	35	1.93
1677901--1677946	21	2.2	21	88	0	65	30	28	26	15	1.96
1677973--1678017	22	2.0	22	86	4	63	31	33	26	8	1.87
1679320--1679416	32	3.1	32	77	14	119	28	16	18	36	1.93
1679322--1679414	31	3.0	31	79	7	107	30	17	19	33	1.95
1679431--1679495	30	2.2	30	91	0	103	26	21	21	30	1.98
1679442--1679503	30	2.1	30	100	0	124	24	19	24	32	1.98
1684765--1684847	29	2.8	29	90	1	130	43	8	14	33	1.76
1688210--1688239	15	2.0	15	93	0	51	20	0	23	56	1.42
1695351--1695528	77	2.3	78	91	0	277	41	15	16	26	1.88
1705721--1705801	39	2.1	39	100	0	162	28	2	20	48	1.63
1707708--1707849	65	2.2	63	80	8	162	33	16	22	26	1.96
1707837--1707893	20	2.7	20	86	10	69	33	21	24	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1707857--1707894	20	1.9	20	100	0	76	31	21	23	23	1.98
1708665--1708736	18	4.0	18	90	3	101	18	18	31	31	1.94
1711708--1711849	65	2.2	63	81	8	162	31	15	24	28	1.96
1711857--1711894	20	1.9	20	94	0	67	31	21	23	23	1.98
1712667--1712718	18	2.9	18	91	0	86	19	21	30	28	1.97
1713325--1713361	16	2.3	16	100	0	74	32	10	18	37	1.86
1713590--1713635	6	7.2	6	81	13	56	19	19	15	45	1.85
1731163--1731376	22	9.7	22	93	0	347	38	13	11	36	1.81
1735563--1735695	66	2.0	66	94	2	232	37	14	10	37	1.80
1735563--1735686	22	5.6	22	93	0	203	36	15	10	37	1.82

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