genome.fa.s9624.2.7.7.80.10.50.1000.8.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  8  of  38  ( 4514 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)
1329352--1329419	28	2.4	28	72	18	68	50	4	0	45	1.22
1329602--1329673	13	5.2	14	73	13	60	41	1	1	55	1.17
1329869--1329913	21	2.1	21	95	0	81	31	22	22	24	1.99
1331283--1331408	11	11.7	10	69	16	56	45	2	3	49	1.31
1331278--1331388	2	55.5	2	73	16	88	46	1	2	48	1.26
1331357--1331422	20	3.1	21	85	8	89	45	6	3	45	1.43
1331283--1331544	22	12.2	21	65	20	98	45	4	3	45	1.43
1331453--1331534	11	7.6	11	70	10	62	48	3	2	45	1.33
1331569--1331642	33	2.2	33	85	4	96	47	4	4	44	1.41
1331772--1331821	18	2.7	19	81	12	68	42	10	8	40	1.68
1331799--1331857	29	2.1	29	83	3	84	44	11	6	37	1.68
1331837--1331876	13	3.1	13	88	0	62	50	7	2	40	1.44
1331945--1332141	2	98.5	2	73	16	142	48	3	3	45	1.33
1331945--1332067	25	4.7	26	76	13	119	49	2	2	45	1.28
1331936--1332055	64	1.9	63	88	10	183	49	4	3	43	1.38
1331963--1332110	56	2.6	55	85	7	174	49	3	2	44	1.33
1331945--1332110	29	6.3	26	74	15	119	50	3	2	44	1.30
1332086--1332144	31	1.9	31	89	6	93	40	3	5	50	1.41
1332196--1332263	27	2.4	29	87	4	104	39	5	5	48	1.52
1332243--1332324	18	4.4	18	87	6	103	42	7	8	41	1.63
1332184--1332275	27	3.4	27	75	18	86	44	6	4	44	1.49
1332580--1332608	11	2.6	11	100	0	58	48	10	6	34	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333116--1333512	54	7.4	54	85	2	503	26	18	21	32	1.97
1333124--1333508	162	2.4	162	88	1	558	26	18	21	33	1.97
1335102--1335512	210	2.0	211	99	0	815	25	24	12	37	1.91
1337844--1337958	24	4.8	24	84	4	151	40	19	14	25	1.89
1337905--1337943	12	3.2	12	79	13	53	35	23	12	28	1.91
1342445--1342569	24	5.2	23	81	9	108	42	20	13	24	1.87
1342446--1342559	48	2.4	48	89	2	167	40	20	14	24	1.90
1347141--1347258	24	4.9	24	86	5	130	39	19	15	25	1.90
1347141--1347255	48	2.4	48	88	2	160	40	19	15	25	1.91
1349564--1349598	18	1.9	18	94	0	61	17	22	42	17	1.88
1353488--1353822	54	6.2	54	89	2	458	28	17	20	34	1.95
1355000--1355078	24	3.2	24	76	8	70	39	5	10	45	1.60
1355055--1355150	7	14.7	6	76	13	50	44	6	4	44	1.48
1355055--1355150	9	11.0	8	69	17	50	44	6	4	44	1.48
1355055--1355150	2	44.0	2	69	19	50	44	6	4	44	1.48
1355146--1355201	27	2.2	26	83	6	69	48	5	5	41	1.49
1355174--1355231	26	2.2	26	78	15	64	41	1	6	50	1.39
1355183--1355240	25	2.2	27	82	14	77	37	1	6	53	1.38
1355226--1355267	15	2.7	16	92	7	77	40	7	0	52	1.29
1355424--1355512	18	5.1	18	77	8	103	44	6	6	41	1.57
1355381--1355545	51	3.3	49	88	7	221	42	6	7	43	1.58
1355605--1355741	61	2.2	61	84	2	186	48	4	8	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355983--1356250	111	2.4	111	81	7	294	32	29	4	33	1.78
1356502--1356638	6	22.8	6	79	3	132	47	43	5	4	1.45
1356503--1356658	18	8.4	18	72	16	95	46	42	5	5	1.49
1356498--1356650	30	5.1	29	77	6	146	47	42	5	5	1.48
1357228--1357253	13	2.0	13	100	0	52	38	15	30	15	1.88
1359481--1359533	23	2.3	23	90	0	79	26	13	24	35	1.92
1360130--1360222	18	5.1	17	71	18	62	56	3	3	36	1.31
1360130--1360223	38	2.5	39	79	5	104	56	3	3	37	1.31
1361499--1361531	3	11.3	3	93	6	59	69	0	0	30	0.88
1362329--1362388	30	2.0	29	84	9	77	51	16	3	28	1.60
1362478--1362522	21	2.1	21	88	8	65	44	13	6	35	1.70
1363254--1363313	29	2.1	28	82	11	70	36	13	5	45	1.65
1364454--1364483	2	15.0	2	100	0	60	50	0	0	50	1.00
1364779--1364838	12	5.0	12	71	15	52	53	16	13	16	1.73
1364774--1364861	24	3.7	24	69	14	65	51	15	12	20	1.76
1369534--1369642	24	4.5	24	70	12	89	49	17	12	20	1.79
1369534--1369642	48	2.3	49	85	4	150	49	17	12	20	1.79
1374130--1374237	24	4.5	23	74	6	92	49	17	13	19	1.80
1374131--1374200	12	5.8	12	72	12	54	52	18	11	17	1.73
1374129--1374237	48	2.3	49	85	4	150	48	17	14	19	1.81
1378619--1378654	17	2.1	17	94	0	63	33	13	22	30	1.93
1379751--1379836	32	2.7	32	81	0	82	36	10	20	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384977--1385037	21	2.9	22	71	24	67	37	18	19	24	1.94
1387313--1387365	20	2.7	20	100	0	106	30	15	24	30	1.95
1392717--1392829	21	5.5	21	80	3	122	30	28	18	22	1.97
1392718--1392798	41	2.0	41	87	0	117	33	29	17	19	1.95
1392727--1392829	41	2.5	41	88	1	143	30	27	19	23	1.98
1392866--1392926	20	3.0	20	90	0	86	26	16	19	37	1.93
1396832--1396872	18	2.3	18	91	0	64	21	46	19	12	1.82
1398214--1398249	18	2.0	18	88	0	54	52	0	16	30	1.44
1399386--1399476	24	3.8	24	82	2	112	26	17	18	37	1.93
1399386--1399476	47	1.9	48	86	2	130	26	17	18	37	1.93
1399563--1399663	35	2.9	35	100	0	202	7	30	29	31	1.86
1401619--1401665	13	3.6	13	91	0	76	21	44	17	17	1.86
1403013--1403048	18	2.0	18	88	0	54	52	0	16	30	1.44
1404186--1404276	24	3.8	24	80	8	105	25	16	20	37	1.93
1404186--1404276	47	1.9	48	84	6	123	25	16	20	37	1.93
1405240--1405266	8	3.4	8	100	0	54	51	0	0	48	1.00
1411359--1411466	51	2.1	51	85	11	141	54	5	1	37	1.35
1411448--1411487	17	2.4	16	84	12	53	60	0	0	40	0.97
1411535--1411560	13	2.0	13	100	0	52	69	0	0	30	0.89
1412411--1412468	29	2.0	29	96	0	107	31	17	12	39	1.86
1412700--1412744	18	2.5	18	96	0	81	8	66	0	24	1.20
1432308--1432341	17	2.0	17	100	0	68	47	5	11	35	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438591--1438648	30	2.0	28	83	6	71	39	20	6	32	1.79
1444927--1445267	170	2.0	170	100	0	682	27	19	11	40	1.87
1445811--1445873	31	2.0	31	100	0	126	34	39	3	22	1.70
1448209--1448250	19	2.2	19	100	0	84	54	0	38	7	1.28
1449321--1449362	20	2.3	18	88	12	59	26	14	23	35	1.93
1449457--1449655	55	3.6	55	90	0	290	30	14	26	28	1.95
1452297--1452353	21	2.7	21	91	0	87	36	12	21	29	1.90
1453945--1453994	19	2.6	19	93	0	82	26	26	18	30	1.98
1455859--1456022	82	2.0	82	100	0	328	25	17	18	39	1.92
1456111--1456147	18	2.1	18	90	10	58	56	8	13	21	1.63
1466609--1466668	7	8.7	7	75	10	61	35	0	0	65	0.93
1466599--1466660	33	1.9	32	96	3	115	38	0	0	61	0.96
1467350--1467390	17	2.3	18	83	8	57	24	2	0	73	0.96
1473101--1473181	35	2.3	36	89	2	119	44	24	0	30	1.54
1473613--1473905	147	2.0	149	91	2	484	46	9	6	37	1.62
1474086--1474161	35	2.1	36	90	2	118	31	1	21	46	1.60
1475231--1475293	23	2.4	27	70	24	64	52	1	7	38	1.40
1476143--1476190	20	2.4	20	82	0	60	27	31	14	27	1.95
1477574--1477669	50	1.9	50	93	0	165	40	16	12	30	1.86
1478779--1478811	17	1.9	17	93	0	57	75	3	0	21	0.93
1478777--1478829	25	2.2	24	86	6	72	71	3	5	18	1.21
1479905--1479945	12	3.3	12	86	6	55	2	12	2	82	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479903--1479946	20	2.2	20	88	4	63	2	11	2	84	0.81
1479912--1479946	13	2.8	12	87	8	52	0	11	2	85	0.69
1485135--1485167	17	1.9	17	93	0	57	75	3	0	21	0.93
1485133--1485189	25	2.3	25	85	8	73	68	5	5	21	1.29
1490142--1490448	154	2.0	149	95	3	533	32	15	22	28	1.95
1497041--1497119	5	16.0	5	81	7	90	73	2	5	18	1.13
1497041--1497107	29	2.3	28	83	16	84	73	2	4	19	1.14
1497071--1497125	24	2.2	25	87	9	78	76	1	5	16	1.06
1497041--1497224	34	5.5	34	71	18	111	71	3	5	19	1.21
1497271--1497297	14	1.9	14	100	0	54	85	0	0	14	0.61

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