genome.fa.s7938.2.7.7.80.10.50.1000.7.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: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2808856

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  7  of  14  ( 1662 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)
1290832--1290861	3	9.7	3	92	7	51	63	0	0	36	0.95
1308315--1308408	27	3.4	27	77	20	72	77	5	9	7	1.11
1308344--1308382	20	2.0	20	85	10	53	79	5	10	5	1.04
1308330--1308410	26	3.1	24	76	15	72	80	6	8	4	1.02
1308337--1308411	22	3.4	21	72	17	62	81	5	8	5	0.99
1310251--1310816	285	2.0	283	95	2	1030	32	14	15	37	1.88
1313896--1314013	58	2.0	60	96	3	222	44	6	15	33	1.72
1316279--1316438	36	4.5	36	74	8	148	26	20	25	28	1.99
1316999--1317447	223	2.0	222	96	3	832	37	19	3	38	1.69
1320407--1320466	24	2.5	24	91	0	93	18	16	21	43	1.88
1320720--1320780	31	2.0	31	90	0	95	44	3	24	27	1.69
1321503--1321578	37	2.1	37	94	0	134	35	9	11	43	1.73
1328758--1328873	48	2.4	48	86	0	160	34	19	23	22	1.97
1328781--1328890	48	2.3	48	83	0	112	37	19	24	19	1.94
1332248--1332345	45	2.2	45	81	0	106	28	23	22	25	1.99
1334266--1334326	14	4.1	15	74	21	58	60	0	31	8	1.26
1334259--1334309	17	3.1	18	76	23	58	60	0	31	7	1.25
1335448--1335480	13	2.5	13	100	0	66	33	33	6	27	1.81
1344200--1344524	162	2.0	162	99	0	641	30	19	8	41	1.81
1347450--1347500	25	2.0	25	100	0	102	23	15	19	41	1.90
1348630--1348666	17	2.2	17	90	0	56	72	5	2	18	1.15
1348765--1348816	17	2.8	19	77	11	54	28	5	1	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348784--1348840	28	2.0	29	82	3	71	28	5	1	64	1.25
1353691--1353730	21	1.9	21	89	0	62	15	27	25	32	1.95
1356481--1356551	37	1.9	37	97	0	133	42	23	9	23	1.84
1356481--1356544	21	3.3	21	66	20	66	40	23	10	25	1.87
1358243--1358292	26	1.9	26	100	0	100	40	8	24	28	1.83
1358311--1358345	14	2.5	14	95	0	61	2	20	48	28	1.63
1360271--1360325	23	2.3	26	81	12	73	54	0	3	41	1.18
1361877--1361941	3	21.7	3	82	17	82	63	0	0	36	0.95
1362323--1362653	117	2.9	116	86	4	465	32	18	13	35	1.89
1362562--1362744	91	2.0	91	87	2	260	36	16	12	34	1.86
1362449--1362821	204	1.8	205	88	0	577	32	18	12	36	1.88
1363497--1364316	93	8.8	93	96	0	1491	35	21	14	28	1.93
1365313--1365360	6	7.8	6	84	11	62	0	14	0	85	0.60
1365312--1365362	24	2.2	23	89	10	77	0	13	0	86	0.58
1365311--1365363	22	2.4	22	81	15	65	0	16	0	83	0.66
1372605--1372636	15	2.1	15	94	0	55	46	9	18	25	1.79
1376474--1376528	23	2.3	26	81	12	73	54	0	3	41	1.18
1378080--1378160	3	26.7	3	83	16	105	62	0	0	37	0.95
1379835--1379874	16	2.4	16	87	4	53	65	2	0	32	1.06
1382905--1382947	10	4.3	10	79	8	52	81	0	4	13	0.84
1384688--1385042	114	3.1	114	96	1	665	33	19	10	36	1.86
1387077--1387116	19	2.1	19	90	0	62	75	2	17	5	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388828--1388880	24	2.1	26	86	6	74	43	1	0	54	1.11
1389947--1389992	24	1.9	24	82	8	58	30	2	2	65	1.16
1390591--1390737	35	4.2	35	88	0	177	40	21	1	37	1.62
1391451--1391492	15	2.9	15	82	10	52	38	0	19	42	1.51
1397074--1397108	13	2.7	13	90	0	52	42	0	0	57	0.99
1400857--1401487	127	5.0	127	91	0	998	21	22	21	33	1.97
1401920--1402020	34	3.0	34	88	0	157	38	3	4	52	1.42
1404362--1404462	31	3.3	31	78	9	84	59	0	0	40	0.97
1405349--1405797	229	2.0	227	94	0	781	45	7	7	39	1.62
1405863--1405908	20	2.3	19	89	10	74	54	10	17	17	1.70
1406030--1406076	20	2.4	19	82	10	67	53	10	17	19	1.72
1406039--1406081	20	2.3	19	88	11	63	51	11	16	20	1.75
1407312--1407384	23	3.2	23	88	0	101	34	4	21	39	1.73
1407743--1407815	23	3.2	23	84	0	92	34	4	20	41	1.72
1407182--1408164	431	2.3	431	99	0	1934	40	7	12	38	1.72
1411265--1411311	24	1.9	25	86	4	69	29	21	10	38	1.87
1415202--1415260	29	2.2	26	76	21	68	25	11	8	54	1.65
1415358--1415420	23	3.0	20	71	15	63	26	4	15	52	1.63
1418942--1419034	26	3.8	25	82	12	97	47	17	2	33	1.60
1418953--1419034	26	3.4	25	84	12	111	45	18	2	34	1.63
1419003--1419051	5	9.8	5	95	0	80	44	16	0	38	1.48
1422164--1422223	27	2.2	26	80	11	68	15	23	1	60	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423011--1423067	31	1.9	30	86	13	82	38	5	8	47	1.57
1426395--1426427	2	16.5	2	93	0	57	0	45	0	54	0.99
1428055--1428654	254	2.3	254	89	6	882	35	26	12	25	1.92
1446053--1446086	17	2.0	17	88	0	50	73	8	2	14	1.19
1449804--1449968	76	2.2	75	86	3	233	30	2	10	56	1.46
1449926--1449988	19	3.2	19	75	4	54	31	0	11	57	1.34
1449919--1450051	64	2.1	64	81	8	155	28	0	14	56	1.44
1450616--1450656	21	1.9	22	90	5	66	19	4	0	75	0.98
1450693--1450729	16	2.3	17	81	13	51	37	5	0	56	1.22
1450713--1450751	17	2.2	19	90	9	64	33	0	0	66	0.92
1452396--1452429	15	2.3	15	89	0	50	44	17	26	11	1.83
1456279--1456313	10	3.4	10	88	7	52	11	2	0	85	0.69
1458145--1458310	76	2.2	76	86	2	235	29	2	10	57	1.46
1458959--1458999	21	1.9	22	90	5	66	19	4	0	75	0.98
1462684--1462718	18	1.9	18	88	0	52	42	2	0	54	1.15
1466054--1466081	13	2.2	13	100	0	56	21	39	0	39	1.54
1468004--1468045	16	2.6	16	92	0	66	26	26	7	40	1.81
1472296--1472369	16	4.6	16	89	0	112	27	27	6	39	1.81
1472296--1472369	32	2.3	32	92	0	130	27	27	6	39	1.81
1478300--1478358	25	2.4	24	80	8	66	50	0	15	33	1.44
1482339--1482379	19	2.2	19	86	8	57	41	0	0	58	0.98
1488007--1488082	2	38.0	2	100	0	152	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)
1488827--1488877	24	2.2	24	79	6	61	19	13	15	50	1.77
1491980--1492020	21	2.0	21	90	0	64	39	7	21	31	1.81
1493942--1493982	16	2.6	16	88	0	55	41	2	17	39	1.62
1494328--1494366	20	2.0	20	84	0	51	33	30	15	20	1.94
1494413--1494477	26	2.5	26	100	0	130	24	20	20	35	1.96
1494531--1494582	19	2.7	19	96	0	95	21	30	21	26	1.98
1503668--1503700	16	2.0	17	88	5	50	0	18	0	81	0.68
1505226--1505257	16	2.0	16	100	0	64	37	37	0	25	1.56
1505272--1505324	29	1.9	28	81	11	65	52	13	7	26	1.66
1506423--1506476	19	2.8	19	94	0	90	20	20	35	24	1.96
1506461--1506615	63	2.4	63	81	4	159	29	19	23	27	1.98
1507477--1507552	35	2.2	35	87	0	107	39	21	1	38	1.62
1507949--1508196	130	1.9	130	94	0	433	36	14	12	35	1.85
1507963--1508227	130	2.0	129	82	4	318	39	13	13	33	1.83
1508522--1508584	28	2.3	27	78	8	63	46	1	3	49	1.27
1508664--1508697	16	2.0	18	88	11	54	64	5	2	26	1.30
1514975--1515202	20	11.6	19	81	10	148	38	25	11	25	1.89
1515113--1515202	19	4.6	19	97	2	162	37	22	10	30	1.87
1515174--1515231	29	2.0	29	90	3	91	36	22	12	29	1.90
1515155--1515250	48	2.0	47	86	6	131	36	21	11	30	1.89
1515225--1515271	18	2.5	19	82	6	60	29	23	14	31	1.95
1516171--1516238	24	2.8	24	86	0	91	25	17	19	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518413--1518448	18	2.0	18	94	0	63	55	25	2	16	1.55
1518704--1518753	20	2.5	20	93	0	82	46	16	18	20	1.85
1518717--1518760	20	2.2	20	87	0	61	45	22	18	13	1.84
1518776--1518901	20	6.2	20	74	1	126	25	19	20	34	1.96
1518776--1518901	40	3.1	40	84	1	153	25	19	20	34	1.96
1519005--1519042	14	2.7	14	100	0	76	47	23	0	28	1.52
1520468--1520545	21	3.8	20	76	5	75	24	20	32	23	1.98
1520878--1520997	63	1.9	63	81	3	143	34	35	12	18	1.88
1522656--1522746	20	4.8	20	70	18	79	46	23	18	12	1.82
1522745--1522813	20	3.5	20	89	0	111	10	15	24	49	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14