genome.fa.s8914.2.7.7.80.10.50.1000.7.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: VEPZ01008914.1 Hibiscus syriacus cultivar Beakdansim tig00112217_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1601432

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 853 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)
1365792--1365899	32	3.4	32	87	2	101	30	12	20	36	1.90
1366475--1366689	106	2.0	106	89	0	331	34	23	19	22	1.97
1366920--1367286	101	3.6	101	90	1	567	31	18	13	36	1.89
1367073--1367259	37	5.4	37	67	17	114	28	18	13	39	1.89
1366920--1367286	203	1.8	202	90	1	601	31	18	13	36	1.89
1367193--1367259	35	1.9	35	93	0	116	25	20	14	38	1.91
1367324--1367426	36	2.8	37	91	2	172	29	20	13	36	1.91
1367324--1367556	36	6.6	35	73	19	119	27	20	12	39	1.89
1368823--1368906	33	2.5	33	84	5	98	30	2	0	66	1.04
1368851--1368969	48	2.4	50	80	14	131	19	4	2	73	1.11
1368967--1369024	23	2.7	20	78	10	53	17	10	1	70	1.23
1369049--1369079	4	7.8	4	100	0	62	22	0	0	77	0.77
1372535--1372572	19	2.0	19	94	0	67	34	42	7	15	1.76
1372605--1372713	37	3.1	37	66	22	99	25	20	17	36	1.94
1372587--1372713	67	1.9	67	91	3	211	27	18	16	37	1.93
1384004--1384072	27	2.6	27	95	2	122	56	15	1	26	1.48
1389279--1389331	15	3.5	15	86	0	79	7	11	66	15	1.44
1390693--1390718	12	2.2	12	100	0	52	69	0	15	15	1.20
1390693--1390814	60	2.0	60	93	0	208	49	9	17	24	1.75
1392164--1392264	20	5.0	20	80	10	107	32	27	12	26	1.93
1392227--1392292	20	3.3	19	79	8	78	24	22	16	36	1.94
1392166--1392314	40	3.7	40	80	3	138	30	24	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1392473--1392510	16	2.5	15	84	12	51	28	5	0	65	1.14
1393105--1393138	12	2.8	12	90	0	50	55	29	0	14	1.40
1393265--1393318	24	2.2	24	93	0	90	20	18	20	40	1.91
1395856--1395912	29	2.0	29	96	0	105	26	15	26	31	1.96
1395900--1395942	20	2.2	20	91	0	68	53	18	13	13	1.73
1397480--1397593	21	5.4	21	84	4	149	21	21	35	21	1.96
1397480--1397598	42	2.8	41	89	2	166	23	20	35	21	1.96
1397878--1397929	21	2.5	21	83	0	59	34	26	17	21	1.95
1397948--1397987	21	2.0	21	85	5	55	35	35	10	20	1.86
1398168--1398266	42	2.4	42	87	0	144	17	18	36	28	1.93
1399969--1400038	22	3.2	22	93	0	113	20	12	44	22	1.85
1401307--1401369	3	20.0	3	87	9	90	34	0	0	65	0.93
1401308--1401376	6	10.7	7	87	6	69	37	0	0	62	0.96
1401315--1401376	12	4.8	14	94	4	80	37	0	0	62	0.95
1402921--1403154	111	2.1	111	80	3	258	39	8	9	42	1.68
1405269--1405336	27	2.5	27	68	17	68	14	11	7	66	1.44
1411636--1411790	54	3.0	49	82	9	168	38	15	21	24	1.92
1412160--1412214	22	2.5	22	90	0	92	36	7	14	41	1.74
1412728--1413052	164	2.0	166	96	1	600	34	13	12	39	1.83
1413055--1413550	77	6.5	76	94	1	821	21	20	21	36	1.96
1413686--1413760	3	24.0	3	89	8	114	34	0	0	65	0.93
1415312--1415545	111	2.1	111	80	3	258	38	8	10	41	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1424851--1425129	135	2.1	136	96	0	515	33	18	12	34	1.89
1429358--1429414	25	2.4	24	80	11	64	71	1	3	22	1.10
1429467--1429537	22	3.1	22	76	13	65	66	2	4	26	1.24
1429563--1429628	2	33.5	2	82	8	55	57	4	0	37	1.19
1431272--1431340	22	3.0	23	79	8	70	50	1	0	47	1.09
1435839--1435886	22	2.2	22	92	0	78	37	0	39	22	1.55
1436901--1437000	43	2.3	43	91	0	164	38	9	20	33	1.84
1443397--1443452	24	2.3	24	84	0	67	32	1	5	60	1.29
1443691--1443788	31	3.2	31	89	0	142	29	16	14	39	1.88
1447255--1447292	20	1.9	20	88	0	58	18	26	13	42	1.87
1446734--1447950	659	1.8	656	90	3	1962	36	15	9	38	1.80
1447914--1447975	20	3.1	20	90	0	106	20	32	9	37	1.86
1449265--1449303	20	2.0	20	94	0	69	25	30	20	23	1.98
1449299--1449424	32	4.0	31	77	9	105	36	19	17	26	1.94
1450387--1450439	20	2.6	19	82	11	70	22	20	20	35	1.96
1451722--1451761	21	1.9	21	90	10	64	20	27	20	32	1.97
1452187--1452256	27	2.6	27	97	0	131	52	7	10	30	1.61
1458113--1458187	38	2.0	37	87	5	107	48	0	4	48	1.20
1477739--1477784	22	2.0	23	87	4	67	73	15	8	2	1.16
1478309--1478360	27	1.9	27	84	7	70	51	1	3	42	1.31
1480511--1480572	24	2.6	24	80	16	67	46	1	3	48	1.28
1480557--1480638	19	4.2	20	72	18	64	41	2	1	54	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480559--1480614	23	2.5	22	82	5	67	39	1	1	57	1.20
1481995--1482063	35	2.0	34	88	2	102	44	23	0	31	1.53
1482845--1482918	35	2.1	35	92	0	121	31	0	25	43	1.55
1486757--1486795	2	19.5	2	100	0	78	48	0	0	51	1.00
1487126--1487191	27	2.4	27	100	0	132	34	15	12	37	1.84
1487583--1487631	21	2.3	21	85	0	71	42	18	0	38	1.50
1489874--1489981	33	3.3	33	89	2	164	37	11	42	8	1.71
1497097--1497121	2	12.5	2	100	0	50	0	52	0	48	1.00
1499976--1500029	20	2.7	20	85	5	65	38	12	16	31	1.87
1500107--1500147	22	1.9	21	85	14	57	26	4	19	48	1.69
1500109--1500279	88	1.9	88	90	0	270	34	8	10	46	1.69
1500670--1500703	16	2.1	16	100	0	68	55	11	14	17	1.68
1505130--1505160	9	3.4	9	90	0	53	22	45	32	0	1.53
1508873--1508919	20	2.3	21	78	10	62	63	8	2	25	1.34
1510190--1510365	3	57.7	3	86	3	244	61	1	1	35	1.14
1510663--1511335	113	5.9	113	95	0	1132	27	19	14	37	1.91
1511893--1512866	52	18.7	52	95	1	1679	37	22	15	24	1.93
1526549--1526715	3	55.0	3	86	11	234	65	0	0	34	0.93
1527359--1527401	22	1.9	23	90	4	70	25	16	27	30	1.97
1527343--1527441	21	4.7	21	79	13	114	25	15	34	25	1.94
1527525--1527584	30	2.0	30	96	0	111	45	20	5	30	1.72
1528907--1528948	15	2.9	14	89	7	57	71	0	2	26	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1528949--1529184	69	3.3	69	78	13	241	44	5	3	46	1.43
1528987--1529217	36	6.7	35	79	14	205	45	4	4	45	1.44
1529182--1529237	22	2.5	22	82	0	67	50	5	3	41	1.43
1530031--1530059	14	2.1	14	93	6	51	55	6	0	37	1.27
1534534--1534571	13	2.8	14	84	4	51	65	2	0	31	1.06
1538761--1538799	20	2.1	18	86	13	53	28	38	12	20	1.89
1544447--1544522	23	3.2	23	62	17	55	23	14	11	50	1.76
1544374--1544546	49	3.5	49	92	2	258	25	11	12	50	1.74
1544814--1544878	24	2.7	23	78	4	67	13	10	15	60	1.60
1544836--1544865	10	3.0	10	95	0	51	10	6	20	63	1.47
1548183--1548231	2	24.5	2	100	0	98	51	0	0	48	1.00
1548792--1548835	20	2.2	20	95	0	79	18	15	36	29	1.92
1551877--1551925	2	24.5	2	100	0	98	51	0	0	48	1.00
1555256--1555417	79	2.1	79	98	0	315	42	8	12	37	1.72
1556182--1556314	39	3.4	38	85	6	160	21	19	24	33	1.97
1560141--1560328	3	60.7	3	66	20	77	31	5	2	60	1.34
1560145--1560181	13	2.7	14	80	20	51	29	10	0	59	1.31
1560149--1560287	58	2.3	60	85	9	185	30	7	2	59	1.39
1560203--1560324	10	11.8	10	70	20	56	31	4	2	60	1.31
1560262--1560328	23	2.8	24	81	9	73	31	2	2	62	1.25
1560255--1560331	19	4.0	19	77	15	79	33	2	2	61	1.24
1560255--1560330	10	7.8	10	78	8	68	32	2	2	61	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1561607--1561676	24	3.0	24	77	8	81	50	18	10	21	1.76
1561605--1561709	46	2.3	46	83	9	126	48	17	11	22	1.79
1561612--1561711	22	4.3	24	69	17	70	49	17	13	21	1.79
1563545--1563587	18	2.4	18	100	0	86	41	25	6	25	1.80
1564401--1564437	13	2.8	13	100	0	74	10	24	48	16	1.77
1564375--1564441	31	2.2	31	91	0	107	14	19	47	17	1.82
1564389--1564424	18	2.0	18	94	0	63	13	19	50	16	1.79
1568151--1568250	23	4.5	22	76	5	85	33	25	16	26	1.96
1574951--1575023	23	3.3	22	74	14	62	31	24	15	28	1.95
1574967--1575040	23	3.3	23	76	1	87	32	22	17	27	1.97

Tables:   1   2   3   4   5   6   7   8