genome.fa.s8463.2.7.7.80.10.50.1000.9.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: VEPZ01008463.1 Hibiscus syriacus cultivar Beakdansim tig00111276_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1833679

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1213 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)
1324166--1324218	9	5.6	10	75	16	51	43	1	1	52	1.23
1326081--1326109	2	14.5	2	100	0	58	51	0	0	48	1.00
1326392--1326444	27	2.0	27	84	0	70	39	18	9	32	1.83
1329271--1329326	21	2.7	21	77	0	58	26	33	19	19	1.96
1333548--1333605	24	2.4	24	88	0	89	32	24	20	22	1.98
1335160--1335249	24	3.9	23	85	5	101	30	21	25	23	1.99
1335168--1335237	23	3.0	24	91	4	115	28	22	25	22	1.99
1354719--1354956	79	3.0	80	90	6	378	33	16	28	22	1.95
1356492--1356517	4	6.5	4	100	0	52	76	0	0	23	0.78
1363593--1363624	2	16.0	2	100	0	64	50	0	0	50	1.00
1364626--1364671	23	2.0	23	86	0	65	21	26	23	28	1.99
1368159--1368202	21	2.1	21	100	0	88	31	13	22	31	1.93
1368163--1368212	21	2.4	21	90	3	75	28	14	22	36	1.92
1369997--1370024	14	2.0	14	100	0	56	21	7	42	28	1.79
1380880--1380941	3	20.3	3	79	9	54	0	38	1	59	1.07
1380880--1380941	26	2.4	26	83	5	81	0	38	1	59	1.07
1380879--1380939	23	2.7	23	84	5	79	0	37	3	59	1.14
1383033--1383067	2	17.5	2	100	0	70	51	0	0	48	1.00
1387880--1387907	2	14.0	2	100	0	56	50	0	0	50	1.00
1391788--1391832	23	2.0	23	90	0	72	51	6	13	28	1.66
1391679--1392040	105	3.4	105	93	1	602	33	11	17	37	1.86
1395032--1395056	12	2.1	12	100	0	50	32	16	24	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398323--1398365	20	2.2	20	86	0	59	30	13	20	34	1.92
1406056--1406090	13	2.7	13	86	0	52	11	25	0	62	1.28
1408125--1408156	7	4.9	7	85	14	50	78	0	21	0	0.76
1408717--1408759	20	2.2	20	86	0	59	30	13	20	34	1.92
1414510--1414568	21	2.8	21	78	0	64	38	18	40	1	1.61
1415027--1415294	43	6.3	43	82	10	298	30	25	20	23	1.98
1422497--1422587	22	4.1	22	92	2	139	28	29	17	24	1.97
1422505--1422587	11	7.5	11	83	0	103	27	30	16	25	1.97
1425250--1425297	7	6.9	7	85	0	69	45	35	0	18	1.50
1425378--1425407	14	2.1	14	93	0	51	43	0	6	50	1.28
1438599--1438642	23	2.0	22	90	4	70	27	0	2	70	0.99
1439998--1440060	23	2.7	23	95	0	108	20	12	14	52	1.74
1443515--1443620	46	2.3	46	77	6	117	41	14	13	31	1.84
1443463--1444156	276	2.5	276	83	7	803	35	11	17	35	1.86
1447204--1447239	6	6.5	6	81	18	51	0	44	0	55	0.99
1447211--1447239	15	1.9	15	100	0	58	0	41	0	58	0.98
1453973--1454004	14	2.3	14	94	0	55	59	3	0	37	1.13
1454177--1454318	49	2.8	50	88	4	205	23	14	16	45	1.84
1457702--1457733	8	3.8	9	92	8	50	56	0	0	43	0.99
1458541--1458587	18	2.6	18	86	6	60	44	2	0	53	1.12
1459187--1459226	2	20.5	2	92	5	64	52	0	0	47	1.00
1459260--1459296	18	2.1	18	100	0	74	43	21	18	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1464904--1464945	21	2.0	21	95	0	75	35	14	21	28	1.92
1468713--1468737	13	1.9	13	100	0	50	56	20	0	24	1.43
1471794--1471835	21	1.9	23	85	9	61	47	14	14	23	1.80
1472486--1472517	13	2.5	13	95	5	57	71	6	0	21	1.07
1472472--1472549	37	2.1	37	85	4	104	67	5	0	26	1.11
1472617--1472658	20	2.1	20	100	0	84	50	0	0	50	1.00
1473105--1473162	14	3.9	14	75	18	55	43	0	0	56	0.99
1473178--1473206	15	1.9	15	100	0	58	37	0	0	62	0.96
1473335--1473392	21	2.8	21	97	0	107	46	22	3	27	1.68
1475452--1475535	35	2.4	35	98	2	161	34	0	5	59	1.22
1475460--1475520	17	3.5	18	76	14	74	37	0	4	57	1.20
1475452--1475535	18	4.9	17	71	17	75	34	0	5	59	1.22
1476113--1476145	14	2.3	15	89	5	50	24	3	15	57	1.52
1476369--1476475	39	2.7	40	86	4	155	32	8	18	40	1.81
1476604--1476897	58	5.1	58	86	4	344	35	7	14	41	1.75
1476982--1477093	38	2.9	38	85	4	154	37	1	10	50	1.48
1477025--1477273	96	2.6	97	81	6	274	40	7	12	39	1.71
1477217--1477311	39	2.4	39	81	6	111	44	6	13	35	1.70
1477285--1477337	26	2.0	26	85	0	70	39	9	13	37	1.77
1477354--1477451	39	2.5	40	85	5	137	30	7	14	47	1.70
1479535--1479571	16	2.3	16	100	0	74	32	21	18	27	1.97
1481281--1481358	26	2.9	26	88	7	120	14	20	29	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1481285--1481359	28	2.8	28	91	4	118	16	20	29	34	1.94
1484338--1484375	20	2.0	20	94	5	69	34	10	18	36	1.85
1485042--1485110	28	2.6	27	79	6	86	18	14	27	39	1.90
1486279--1486331	21	2.5	21	100	0	106	32	18	22	26	1.97
1489290--1489322	14	2.3	15	94	5	59	27	3	12	57	1.49
1491464--1491684	2	114.0	2	73	18	166	47	3	4	45	1.39
1491748--1491903	16	9.8	16	66	21	53	48	2	8	40	1.48
1491773--1491881	2	54.0	2	69	18	66	46	1	8	43	1.44
1491825--1491903	8	10.1	8	76	15	53	49	1	7	41	1.39
1491827--1491903	38	2.0	38	87	7	111	49	1	7	41	1.40
1492503--1492553	11	4.6	11	77	15	52	47	0	1	50	1.12
1492602--1492644	18	2.5	17	85	11	52	53	0	0	46	1.00
1492602--1492674	27	3.0	26	84	13	93	50	1	1	46	1.18
1492768--1492809	19	2.2	19	91	0	66	45	28	0	26	1.54
1495962--1495995	12	2.8	12	86	0	50	70	2	0	26	1.01
1497895--1497941	14	3.4	14	77	11	60	57	0	6	36	1.24
1498849--1498889	15	2.7	15	88	7	57	0	21	2	75	0.92
1499392--1499484	3	31.0	3	77	8	91	68	2	0	29	1.01
1499626--1499857	124	1.9	124	81	5	281	24	17	15	42	1.88
1500566--1500610	21	2.1	21	87	0	63	31	28	24	15	1.96
1502186--1502274	22	4.0	22	95	1	142	20	25	28	25	1.99
1502198--1502257	13	5.2	13	67	29	55	21	26	25	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1505449--1505493	21	2.1	21	87	0	63	31	28	24	15	1.96
1507064--1507126	13	5.5	13	68	27	61	20	26	26	25	1.99
1507052--1507140	22	4.0	22	97	1	151	20	26	28	24	1.99
1507826--1507881	16	3.4	16	74	13	60	19	19	10	50	1.77
1507807--1507894	33	2.5	35	89	7	135	20	21	10	47	1.79
1507837--1507890	16	3.3	16	73	14	56	25	16	11	46	1.80
1507862--1508253	113	3.5	113	94	0	642	28	20	14	37	1.91
1508946--1509260	114	2.8	114	94	0	531	32	19	15	33	1.93
1509216--1509610	83	4.7	83	94	0	648	37	23	12	26	1.91
1509216--1509608	167	2.4	165	93	1	660	37	23	12	26	1.91
1510755--1510799	8	5.8	8	81	5	56	4	11	0	84	0.76
1510752--1510795	22	2.0	23	86	4	63	4	11	0	84	0.77
1523127--1523167	15	2.7	15	88	7	57	0	21	2	75	0.92
1523661--1523754	3	31.0	3	76	14	86	65	2	0	31	1.04
1523662--1523751	23	4.0	22	74	16	78	66	2	0	31	1.04
1537482--1537537	2	28.0	2	100	0	112	50	0	0	50	1.00
1553198--1553257	23	2.7	23	82	7	70	38	1	1	58	1.18
1554309--1554362	23	2.3	23	96	0	99	33	18	16	31	1.93
1554511--1554602	27	3.5	27	82	8	109	55	0	3	41	1.16
1554530--1554602	25	2.8	27	83	12	98	54	0	2	42	1.14
1555375--1555450	31	2.5	31	88	0	116	48	14	9	27	1.74
1558177--1558208	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1558593--1558623	9	3.4	9	95	0	53	9	3	0	87	0.66
1560456--1560665	107	2.0	105	86	3	296	32	20	21	25	1.97
1561044--1561107	28	2.3	29	81	10	71	42	1	4	51	1.32
1562344--1562412	26	2.7	26	97	0	129	37	33	1	27	1.66
1563319--1563393	36	2.1	36	82	5	89	73	2	5	18	1.15
1563407--1563463	27	2.1	27	84	9	73	73	1	5	19	1.11
1564676--1565083	5	83.2	5	90	9	664	59	0	0	40	0.97
1571616--1571744	67	2.0	62	85	10	170	43	6	4	45	1.49
1571640--1571768	67	2.0	67	84	9	176	44	6	4	44	1.52
1571909--1571965	2	28.5	2	100	0	114	50	0	0	49	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11