genome.fa.s8075.2.7.7.80.10.50.1000.8.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: VEPZ01008075.1 Hibiscus syriacus cultivar Beakdansim tig00110577_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1947163

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

This is table  8  of  10  ( 1176 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)
1338652--1338707	15	3.6	15	76	9	58	33	12	10	42	1.77
1338671--1338704	18	1.9	18	94	5	61	38	11	11	38	1.79
1338798--1338829	16	2.0	17	88	11	50	43	21	21	12	1.86
1344641--1344732	3	31.0	3	78	6	98	32	1	0	66	0.99
1346212--1346255	23	2.0	22	86	4	61	61	0	0	38	0.96
1357660--1357717	11	5.1	11	78	4	62	81	0	17	1	0.78
1358067--1358115	19	2.8	17	81	9	55	36	10	6	46	1.63
1358409--1358745	114	3.0	114	92	0	548	33	14	20	31	1.93
1359457--1360115	112	6.0	112	88	4	880	39	15	18	26	1.90
1359909--1360113	104	2.0	104	92	1	340	40	14	18	26	1.89
1360083--1360245	84	1.9	84	88	2	247	38	19	15	27	1.91
1360528--1360589	18	3.4	18	86	4	81	32	1	0	66	1.02
1360528--1360595	3	23.0	3	76	8	68	32	1	0	66	1.01
1363560--1363620	27	2.2	28	88	2	88	44	3	4	47	1.41
1363569--1363627	27	2.1	28	87	6	84	44	1	3	50	1.28
1364103--1364155	21	2.5	21	81	6	72	20	26	18	33	1.96
1364130--1364361	41	5.7	41	72	7	132	33	19	18	27	1.96
1364145--1364192	20	2.3	20	85	3	60	39	16	20	22	1.92
1364206--1364278	21	3.5	21	79	3	76	23	21	17	36	1.94
1364268--1364379	20	5.6	20	84	4	136	37	20	20	21	1.94
1364938--1364982	19	2.4	19	92	0	72	46	26	17	8	1.78
1364978--1365123	19	7.1	19	72	15	112	13	22	19	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365043--1365074	14	2.3	14	94	0	55	12	28	18	40	1.87
1365064--1365123	20	3.0	20	77	18	70	13	21	18	46	1.83
1367246--1367312	21	3.2	21	66	6	55	23	35	20	19	1.95
1367194--1367312	42	2.8	42	81	5	107	22	36	18	22	1.95
1368661--1368711	14	3.6	14	92	7	86	31	0	21	47	1.51
1368818--1368876	19	3.4	19	73	22	74	45	18	20	15	1.85
1368818--1368911	33	2.8	33	90	3	136	45	21	19	13	1.84
1368850--1368926	19	4.3	19	76	18	76	45	23	16	14	1.84
1368931--1369052	19	7.2	18	67	25	88	13	23	18	45	1.84
1368926--1369052	33	3.8	33	95	0	218	13	23	18	44	1.85
1368947--1369034	14	5.6	14	69	23	50	12	23	19	44	1.85
1369046--1369118	20	3.6	20	68	17	60	24	17	24	32	1.97
1371577--1371630	24	2.2	24	86	0	72	40	20	14	24	1.90
1372474--1372530	20	2.8	20	94	0	96	26	22	21	29	1.99
1372470--1372539	20	3.5	20	84	0	68	34	21	18	25	1.96
1372818--1372862	20	2.2	20	88	4	63	11	13	24	51	1.73
1372825--1372863	20	2.0	20	94	0	69	12	10	30	46	1.75
1374407--1374498	42	2.2	42	86	1	132	20	14	42	22	1.88
1374434--1374494	21	2.9	21	73	9	70	21	11	42	24	1.86
1374836--1374874	20	2.0	20	89	0	60	35	28	10	25	1.89
1374862--1374948	20	4.4	20	88	1	122	36	24	24	14	1.93
1374862--1374981	33	3.2	39	80	10	126	40	23	22	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1374937--1374995	14	3.9	14	76	20	64	49	23	16	10	1.77
1374921--1375000	33	2.4	33	97	0	151	47	22	18	11	1.80
1375007--1375103	19	5.6	19	71	22	97	13	18	20	47	1.82
1375031--1375087	14	3.7	14	75	20	60	10	15	22	50	1.74
1375012--1375103	33	2.8	33	98	0	175	13	17	20	48	1.80
1375097--1375142	20	2.3	20	88	0	65	15	21	26	36	1.93
1375683--1375730	18	2.7	18	93	0	87	14	12	45	27	1.81
1377042--1377100	20	3.0	20	87	0	73	44	22	18	15	1.87
1377361--1377404	22	2.0	22	95	0	79	18	15	40	25	1.90
1377572--1377667	20	4.6	22	72	12	87	19	17	25	37	1.94
1377572--1377667	41	2.3	41	89	0	147	19	17	25	37	1.94
1377655--1377727	21	3.5	21	86	1	94	21	21	17	38	1.93
1377599--1377687	41	2.2	41	81	4	99	20	19	24	35	1.95
1377717--1377769	21	2.5	22	81	6	74	33	18	26	20	1.96
1385864--1385922	29	2.0	29	83	6	75	47	1	3	47	1.29
1386775--1386848	36	2.1	36	94	0	130	39	16	28	16	1.90
1389500--1389549	25	2.0	25	84	11	66	68	2	10	20	1.29
1391162--1391298	67	2.1	66	98	1	265	25	16	18	38	1.92
1396990--1397056	33	2.0	33	94	0	116	26	16	25	31	1.96
1397135--1397326	44	4.3	44	93	2	296	38	5	22	33	1.78
1397161--1397233	25	3.2	25	60	28	61	42	8	19	30	1.80
1397163--1397234	24	3.2	24	62	34	59	41	8	19	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398937--1398973	20	1.9	19	89	10	58	24	18	5	51	1.67
1398943--1398981	20	2.0	20	89	0	60	25	23	5	46	1.73
1400053--1400078	3	8.7	3	100	0	52	69	30	0	0	0.89
1400632--1400947	157	2.0	157	99	0	623	36	25	13	25	1.92
1402894--1402924	2	15.5	2	100	0	62	51	0	0	48	1.00
1406918--1406952	17	2.0	18	88	5	54	5	37	0	57	1.23
1407566--1407598	17	1.9	17	100	0	66	45	0	0	54	0.99
1410781--1410818	15	2.6	15	83	4	51	28	10	26	34	1.90
1412467--1412502	2	18.0	2	100	0	72	50	0	0	50	1.00
1413597--1413636	16	2.6	16	88	4	55	37	7	20	35	1.81
1418446--1418516	4	17.8	4	100	0	142	50	0	23	25	1.49
1419969--1419993	11	2.3	11	100	0	50	40	0	0	60	0.97
1419935--1420225	87	3.4	85	82	13	357	50	1	5	41	1.36
1420109--1420162	25	2.0	28	86	13	78	51	0	0	48	1.00
1420208--1420265	23	2.5	22	94	5	98	50	0	0	50	1.00
1420614--1420653	17	2.3	18	91	4	64	55	0	5	40	1.22
1421507--1421544	13	2.9	13	81	14	51	18	0	2	78	0.86
1421510--1421546	20	1.9	20	94	5	67	18	0	2	78	0.87
1428962--1429080	29	4.1	29	73	4	96	28	20	12	38	1.89
1428974--1429124	29	5.2	29	75	3	115	25	19	14	40	1.89
1429977--1430032	20	2.8	20	94	0	94	33	12	23	30	1.92
1430099--1430142	20	2.2	20	84	11	56	43	13	11	31	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1432358--1432391	15	2.3	15	94	0	59	32	32	20	14	1.93
1432476--1432556	29	2.8	29	96	3	146	17	22	16	44	1.86
1438927--1438971	21	2.1	21	87	0	63	31	28	24	15	1.96
1439774--1439898	62	2.0	62	88	0	187	20	19	22	37	1.94
1439774--1439883	31	3.5	31	94	0	193	19	20	21	38	1.94
1441225--1441258	15	2.3	15	94	0	59	32	32	20	14	1.93
1441343--1441452	29	3.8	29	93	2	186	17	23	15	43	1.87
1446326--1446376	2	25.5	2	95	0	93	50	1	0	47	1.12
1457329--1457833	103	5.0	100	91	3	780	21	28	11	38	1.89
1457329--1457833	203	2.5	199	91	2	787	21	28	11	38	1.89
1460697--1460800	44	2.3	44	83	6	129	33	25	21	20	1.97
1462597--1462665	23	3.0	23	78	0	75	17	24	24	33	1.96
1467856--1467923	23	3.0	23	82	0	91	17	25	26	30	1.97
1469170--1469224	15	3.8	16	71	28	59	27	0	12	60	1.33
1469292--1469323	15	2.1	15	100	0	64	25	0	6	68	1.12
1474036--1474073	7	5.4	7	100	0	76	0	26	0	73	0.83
1479443--1479560	58	2.0	58	96	0	218	30	22	16	29	1.96
1480718--1480746	14	2.0	15	93	6	51	55	0	3	41	1.17
1483208--1483327	35	3.3	36	89	5	181	43	20	5	31	1.73
1483259--1483319	21	3.2	21	65	29	64	42	21	4	31	1.74
1483210--1483354	35	4.1	36	83	11	142	41	19	6	33	1.76
1487384--1487413	12	2.5	12	94	0	51	43	16	13	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1487847--1487907	21	3.2	21	65	29	64	42	21	4	31	1.74
1487799--1487908	35	3.1	35	92	3	168	43	20	4	31	1.71
1493542--1493637	43	2.3	42	83	3	120	43	7	10	38	1.67
1494634--1494771	47	2.9	47	96	0	249	55	13	13	18	1.70
1498168--1498210	22	2.0	22	85	0	59	44	16	16	23	1.86
1498210--1498250	21	2.0	21	85	0	55	26	24	21	26	2.00
1498829--1498930	49	2.1	49	81	5	118	34	19	20	25	1.96
1499140--1499203	31	2.1	31	94	2	112	34	23	4	37	1.76
1505302--1505341	21	1.9	21	89	0	62	22	25	25	27	2.00
1505916--1505989	25	3.0	25	68	22	66	29	22	21	25	1.99

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