genome.fa.s8302.2.7.7.80.10.50.1000.7.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: VEPZ01008302.1 Hibiscus syriacus cultivar Beakdansim tig00110988_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3402722

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  7  of  17  ( 1926 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)
1259738--1259801	21	3.4	20	66	29	59	31	4	18	45	1.70
1259730--1259848	35	3.3	36	90	5	179	31	5	20	42	1.75
1264346--1264422	35	2.2	36	81	11	97	35	2	20	41	1.66
1266260--1266316	23	2.5	22	73	15	62	22	5	0	71	1.05
1266353--1266397	15	3.1	15	78	15	51	15	6	0	77	0.96
1266352--1266412	28	2.2	28	85	5	79	16	6	0	77	0.98
1266373--1266410	20	1.9	20	88	0	58	15	7	0	76	1.01
1266451--1266485	18	1.9	18	94	0	61	20	2	0	77	0.90
1269245--1269299	23	2.3	24	73	17	60	23	5	0	70	1.07
1270037--1270108	31	2.3	31	85	0	90	33	5	5	55	1.46
1274247--1274321	30	2.5	30	97	0	141	37	14	12	36	1.83
1277955--1277981	2	13.5	2	100	0	54	48	0	0	51	1.00
1286197--1286286	7	12.9	7	74	0	81	6	48	25	18	1.72
1286197--1286286	28	3.2	28	95	0	162	6	48	25	18	1.72
1292578--1292638	23	2.7	23	97	0	113	37	11	6	44	1.67
1295387--1295436	24	2.0	25	92	3	84	20	24	32	24	1.98
1302719--1302763	23	2.0	23	91	8	74	60	6	4	28	1.42
1304793--1304818	11	2.4	11	100	0	52	38	0	0	61	0.96
1307702--1307769	20	3.3	20	70	13	57	41	19	14	25	1.89
1317644--1317701	23	2.6	22	78	19	66	17	0	3	79	0.87
1317668--1317709	5	8.8	5	87	10	61	14	2	0	83	0.75
1317660--1317699	18	2.2	19	82	13	57	15	0	2	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1317644--1317699	13	4.4	13	80	8	62	16	0	3	80	0.85
1317667--1317704	18	2.1	18	100	0	76	15	0	0	84	0.63
1317657--1317710	23	2.2	24	90	6	83	14	1	1	81	0.86
1317673--1317740	17	4.0	16	81	9	64	14	7	1	76	1.07
1317884--1317937	26	2.1	26	83	13	67	68	14	1	14	1.30
1326474--1326556	32	2.7	30	74	9	85	39	7	24	28	1.82
1326986--1327047	28	2.2	28	97	0	115	35	3	20	40	1.69
1327372--1327433	29	2.1	29	100	0	124	37	9	6	46	1.62
1328990--1329030	17	2.4	17	95	0	73	46	0	7	46	1.30
1329000--1329097	51	1.9	52	91	2	162	41	5	5	47	1.47
1329914--1329958	20	2.2	20	88	7	65	53	15	11	20	1.72
1329926--1329971	20	2.3	20	84	0	56	60	17	8	13	1.56
1330488--1330577	45	2.0	45	100	0	180	42	15	8	33	1.78
1332362--1332817	31	14.7	31	89	0	581	50	22	3	23	1.65
1332489--1332578	22	4.3	22	70	18	66	52	23	5	18	1.67
1332819--1332893	2	38.5	2	79	15	68	50	4	2	42	1.35
1333121--1333171	7	7.4	7	88	2	77	11	0	45	43	1.40
1333453--1333716	102	2.5	103	83	12	329	35	4	28	31	1.76
1334152--1334314	45	3.4	47	82	13	165	42	5	8	43	1.58
1334235--1334336	45	2.3	45	86	6	136	45	5	6	42	1.55
1334361--1334579	2	107.0	2	65	25	59	43	2	6	47	1.43
1334264--1334447	31	5.6	31	75	17	144	42	4	5	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334367--1334459	37	2.5	37	81	15	111	44	1	5	49	1.32
1334250--1334430	16	11.8	16	71	16	102	41	4	6	46	1.50
1334354--1334454	40	2.5	39	79	12	105	42	0	5	50	1.33
1334514--1334577	9	6.7	9	71	25	51	48	1	6	43	1.37
1334509--1334579	20	3.5	19	81	9	79	47	2	5	43	1.41
1334500--1334580	29	2.7	29	75	11	76	48	2	7	41	1.44
1334576--1334645	18	3.9	18	70	10	54	40	7	10	42	1.66
1334523--1334632	35	3.1	35	78	10	118	44	4	8	42	1.54
1334570--1334640	35	2.1	34	89	5	108	39	7	9	43	1.65
1334596--1334691	18	5.2	18	70	20	58	40	7	8	43	1.62
1334660--1334716	30	1.9	30	89	7	89	43	8	8	38	1.67
1334727--1334776	11	4.5	11	74	16	50	46	2	8	44	1.44
1334840--1334898	21	2.8	21	78	12	66	47	5	3	44	1.42
1334936--1335083	19	7.8	20	66	24	63	47	4	1	46	1.29
1334851--1335102	110	2.3	109	86	11	358	47	4	3	44	1.40
1334957--1335005	22	2.2	23	89	10	75	44	4	2	48	1.33
1335032--1335083	22	2.4	22	83	6	61	50	1	1	46	1.23
1335046--1335083	11	3.5	11	92	0	67	47	2	0	50	1.15
1335151--1335250	2	49.5	2	73	13	80	48	5	1	46	1.31
1335128--1335178	20	2.6	20	84	3	68	43	3	9	43	1.56
1335335--1336454	210	5.2	214	90	3	1688	27	12	7	51	1.67
1338923--1339032	29	3.8	29	92	2	186	18	20	16	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339367--1339523	64	2.5	63	78	10	167	26	19	19	34	1.96
1345818--1345927	29	3.8	29	95	2	195	17	20	16	45	1.85
1346437--1346475	19	2.1	19	100	0	78	28	30	20	20	1.98
1351767--1351832	34	1.9	34	87	0	96	33	3	27	36	1.72
1360540--1360943	201	2.0	202	99	0	792	24	24	17	33	1.96
1362340--1362382	19	2.2	20	83	4	52	20	2	11	65	1.36
1362317--1362470	72	2.1	73	97	2	292	24	2	14	59	1.48
1362412--1362454	19	2.2	20	83	4	52	20	2	11	65	1.36
1362425--1362474	26	2.0	25	88	4	73	16	4	14	66	1.40
1362475--1362528	26	2.2	24	83	6	63	40	1	0	57	1.09
1362699--1362763	26	2.5	26	82	7	69	24	27	16	30	1.97
1362770--1362821	21	2.6	19	78	6	59	21	19	23	36	1.95
1362899--1362931	6	5.5	6	100	0	66	33	51	15	0	1.43
1363526--1363573	20	2.5	18	81	15	60	41	20	22	14	1.89
1363539--1363576	20	1.9	20	100	0	76	42	21	26	10	1.85
1364922--1365016	46	2.1	43	82	5	109	41	4	12	42	1.62
1365161--1365214	18	3.0	17	78	10	54	31	3	1	62	1.23
1365250--1365304	24	2.4	24	87	6	78	32	1	3	61	1.24
1367792--1368100	154	2.0	154	92	0	519	26	14	27	31	1.95
1368308--1368411	7	15.3	7	73	9	81	23	0	34	42	1.54
1368701--1368733	17	1.9	17	88	11	50	57	18	12	12	1.64
1369188--1369221	17	2.1	16	94	5	59	23	0	29	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371341--1371589	43	5.8	43	92	3	362	31	24	26	16	1.97
1377237--1377300	27	2.5	26	80	12	69	37	1	4	56	1.30
1382098--1382149	18	2.9	17	75	10	59	59	0	1	38	1.08
1385027--1385067	19	2.1	20	86	4	57	60	0	2	36	1.10
1389145--1389185	20	2.0	20	86	9	57	39	9	7	43	1.65
1395936--1395976	20	2.0	20	86	9	57	39	9	7	43	1.65
1396822--1396856	18	1.9	18	100	0	70	25	34	28	11	1.91
1407322--1407393	34	2.1	34	97	0	135	31	2	6	58	1.39
1408940--1408964	10	2.5	10	100	0	50	40	0	0	60	0.97
1408970--1409010	18	2.3	18	87	4	57	29	7	2	60	1.36
1421729--1421812	23	3.7	23	98	0	150	27	27	26	19	1.99
1424692--1424720	2	14.5	2	100	0	58	48	0	0	51	1.00
1426296--1426356	23	2.7	23	92	0	95	29	26	24	19	1.99
1427386--1427442	21	2.7	21	91	0	87	29	21	21	28	1.98
1433654--1434332	181	3.7	180	84	5	886	41	12	16	29	1.86
1436685--1436728	21	2.1	21	95	0	79	40	13	31	13	1.84
1437012--1437050	18	2.2	18	95	0	69	58	0	35	5	1.20
1438330--1438378	19	2.6	19	96	0	89	32	2	10	55	1.45
1438730--1439407	201	3.4	199	87	3	986	38	14	15	32	1.87
1440318--1440368	2	25.5	2	100	0	102	49	0	0	50	1.00
1441993--1442042	23	2.2	23	100	0	100	30	20	10	40	1.85
1441999--1442050	23	2.4	21	87	9	70	30	19	9	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1442549--1442585	18	2.1	18	89	0	56	32	5	10	51	1.60
1442541--1442593	24	2.2	24	86	0	70	35	3	13	47	1.61
1442821--1443789	203	4.9	198	81	8	1056	38	13	15	32	1.86
1445318--1445359	19	2.2	19	86	0	57	35	2	9	52	1.47
1446740--1446817	38	2.1	38	87	0	111	23	14	28	34	1.93
1450307--1450368	28	2.2	28	85	0	79	38	11	3	46	1.56
1450419--1450453	16	2.2	16	89	0	52	34	17	2	45	1.63
1453642--1453716	3	25.7	3	85	10	66	61	0	0	38	0.96
1453673--1453725	20	2.5	22	78	12	65	69	0	0	30	0.88
1454187--1454231	23	1.9	23	82	13	56	15	26	6	51	1.68

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17