genome.fa.s9579.2.7.7.80.10.50.1000.7.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  7  of  29  ( 3390 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)
1140601--1140756	61	2.6	59	80	10	156	28	10	23	37	1.87
1144332--1144399	30	2.2	31	84	2	84	39	11	8	39	1.73
1144995--1145043	17	2.9	16	79	8	53	46	0	2	51	1.12
1145262--1145293	9	3.6	9	95	0	55	43	3	0	53	1.16
1146437--1146505	2	34.5	2	100	0	138	50	0	0	49	1.00
1147404--1147623	2	116.0	2	70	15	128	42	3	4	50	1.39
1155885--1155909	2	12.5	2	100	0	50	48	0	0	52	1.00
1159397--1159446	12	4.2	12	75	12	50	78	0	20	2	0.86
1159403--1159456	27	1.9	29	82	14	69	72	0	24	3	1.01
1160347--1160460	47	2.5	45	73	8	104	32	21	19	26	1.97
1160365--1160791	111	3.9	111	90	3	639	31	23	17	27	1.97
1162418--1162487	2	36.5	2	80	13	85	45	0	2	51	1.16
1164092--1164223	69	1.9	69	84	3	176	28	12	21	37	1.90
1164906--1164947	21	2.0	21	86	9	59	42	11	9	35	1.74
1165077--1165144	33	2.1	33	97	0	127	39	13	30	16	1.86
1166559--1166592	18	1.9	17	88	5	50	47	2	17	32	1.63
1166807--1166913	18	5.9	18	92	0	169	19	19	33	27	1.96
1168846--1168890	19	2.4	19	96	0	81	42	0	31	26	1.56
1170452--1170493	21	2.0	21	86	9	59	42	11	9	35	1.74
1170621--1170687	33	2.0	33	97	0	125	40	14	31	13	1.85
1172334--1172380	18	2.6	18	96	0	85	17	23	31	27	1.96
1185867--1186215	173	2.0	172	83	2	441	31	20	14	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1186048--1186402	190	1.9	189	85	1	496	32	18	15	33	1.92
1188671--1188700	14	2.1	14	93	0	51	50	6	0	43	1.28
1191637--1192040	200	2.0	203	97	2	771	43	12	12	32	1.80
1192927--1193006	30	2.7	30	100	0	160	40	6	21	32	1.78
1194472--1194709	118	2.0	119	98	0	460	34	14	12	38	1.84
1201607--1201636	13	2.3	13	94	0	51	16	23	43	16	1.87
1203556--1203841	43	6.6	43	90	0	374	33	23	24	19	1.97
1203587--1203846	129	2.0	130	93	0	450	32	23	25	18	1.97
1205808--1205846	17	2.2	18	86	4	53	33	12	5	48	1.63
1208679--1208965	43	6.6	43	89	2	367	32	22	24	19	1.97
1208713--1208973	43	6.0	44	88	2	377	32	23	26	17	1.97
1208712--1208973	87	3.0	86	87	2	382	32	23	26	17	1.97
1213018--1213048	14	2.2	14	100	0	62	32	6	0	61	1.21
1214713--1214966	36	7.1	36	73	10	128	37	20	23	19	1.94
1214713--1214968	72	3.6	71	81	8	268	37	19	23	19	1.95
1214713--1214968	108	2.4	106	79	3	271	37	19	23	19	1.95
1216367--1216600	36	6.5	36	84	3	267	34	22	23	20	1.97
1216368--1216578	72	2.9	71	90	2	314	36	21	23	18	1.95
1246029--1246088	20	2.9	21	90	5	86	36	11	5	46	1.62
1246056--1246104	22	2.3	22	82	10	57	32	10	4	53	1.54
1254705--1254740	2	18.0	2	94	0	63	52	0	0	47	1.00
1255328--1255362	16	2.2	16	90	5	54	37	11	11	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1266440--1266592	44	3.4	44	91	1	225	39	10	21	28	1.86
1267026--1267078	21	2.5	21	96	0	97	28	39	11	20	1.87
1275807--1275886	36	2.2	37	93	2	135	30	20	12	37	1.89
1275899--1276120	36	6.1	36	86	2	284	24	19	13	41	1.88
1275975--1276075	21	5.4	21	61	26	64	26	20	9	42	1.83
1275899--1276120	73	3.1	72	86	2	293	24	19	13	41	1.88
1276165--1276279	33	3.5	33	91	4	187	40	18	9	32	1.83
1280334--1280435	45	2.2	45	84	5	134	29	5	12	51	1.63
1281276--1281324	23	2.0	24	92	7	82	18	12	18	51	1.76
1282944--1282998	27	2.1	26	86	3	74	40	10	1	47	1.49
1287630--1287672	23	1.9	23	90	4	70	41	0	4	53	1.21
1292374--1292410	17	2.2	17	86	13	51	37	8	0	54	1.30
1302000--1302043	23	2.0	23	90	4	72	40	0	4	54	1.21
1306669--1306712	11	3.9	11	82	14	54	70	2	11	15	1.26
1309011--1309060	19	2.6	19	81	9	57	72	0	2	26	0.96
1309011--1309060	20	2.6	19	73	17	50	72	0	2	26	0.96
1309369--1309399	14	2.1	15	94	5	55	38	3	12	45	1.59
1310616--1310684	22	3.1	22	87	0	102	20	34	18	26	1.96
1311095--1311140	23	2.0	23	86	0	65	30	10	43	15	1.81
1311889--1312130	119	2.0	119	80	3	263	50	7	5	36	1.53
1313297--1313739	137	3.2	138	85	1	570	25	14	24	34	1.94
1313687--1313779	40	2.3	40	96	0	168	20	15	30	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1323063--1323097	3	11.7	3	93	0	61	62	0	0	37	0.95
1329797--1329873	30	2.6	29	80	10	75	38	19	3	37	1.70
1329797--1329884	29	3.0	29	76	5	77	35	19	4	40	1.72
1329919--1330209	146	2.0	146	100	0	582	36	13	8	40	1.76
1339240--1339280	16	2.5	17	84	8	57	41	21	17	19	1.90
1339251--1339288	16	2.4	16	91	8	60	28	21	21	28	1.98
1339267--1339319	21	2.5	22	85	11	76	30	22	20	26	1.98
1346134--1346226	26	3.6	24	74	20	82	43	1	4	51	1.28
1346362--1347215	441	1.9	440	88	1	1289	32	21	17	29	1.96
1347314--1347345	16	2.0	16	93	0	55	34	18	3	43	1.66
1356013--1356050	20	2.0	19	90	10	60	47	5	23	23	1.72
1360586--1360645	24	2.5	24	97	0	111	45	23	13	18	1.84
1363592--1363617	2	13.0	2	100	0	52	50	0	0	50	1.00
1364457--1364600	63	2.3	63	83	9	168	27	20	21	31	1.98
1364479--1364615	63	2.2	63	83	9	163	28	18	20	32	1.97
1372736--1372860	64	1.9	65	88	4	191	28	18	21	32	1.97
1372737--1372874	64	2.2	64	83	7	165	28	18	21	31	1.96
1373717--1373778	20	3.0	21	83	4	81	24	25	20	29	1.99
1375512--1375545	17	2.1	16	88	5	50	76	0	8	14	1.01
1377494--1377518	12	2.1	12	100	0	50	40	20	8	32	1.81
1389044--1389089	24	2.0	23	82	4	56	54	8	4	32	1.51
1389341--1389380	16	2.6	16	88	11	57	40	15	0	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1398852--1398882	2	15.5	2	100	0	62	48	0	0	51	1.00
1398902--1399355	234	1.9	232	85	5	621	38	12	16	32	1.86
1402620--1403664	106	9.9	106	97	0	1856	22	18	25	33	1.97
1409079--1409130	21	2.5	21	100	0	104	38	5	3	51	1.44
1409378--1409491	55	2.1	55	100	0	228	36	1	19	42	1.62
1409638--1409668	16	1.9	16	93	0	53	51	0	25	22	1.48
1410198--1410280	26	3.1	27	87	6	132	50	30	4	14	1.63
1410198--1410282	28	3.1	28	89	5	138	50	30	4	14	1.63
1410285--1410423	32	4.2	32	75	12	122	41	27	10	20	1.84
1410285--1410412	69	1.9	67	91	3	211	42	26	9	21	1.83
1413215--1413266	27	2.0	26	82	17	63	42	26	0	30	1.56
1413486--1413535	18	2.8	18	93	0	82	22	34	26	18	1.96
1417686--1417735	18	2.8	18	87	0	73	24	32	24	20	1.98
1421696--1421889	106	1.8	106	92	0	325	39	9	5	44	1.61
1422209--1422249	21	2.0	21	85	4	57	51	9	31	7	1.62
1429000--1429460	231	2.0	230	98	0	886	34	10	9	45	1.71
1439697--1439801	51	2.1	51	83	7	133	43	16	8	31	1.78
1444310--1444358	22	2.2	21	79	10	53	53	4	0	42	1.20
1444296--1444363	30	2.2	31	82	10	77	51	2	0	45	1.16
1445827--1445870	16	2.6	17	75	7	54	43	0	0	56	0.99
1446698--1446727	15	2.0	15	93	0	51	43	33	16	6	1.74
1448859--1449072	107	2.0	106	99	0	419	28	11	10	49	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1450464--1450508	19	2.3	20	88	3	65	13	22	40	24	1.90
1450464--1450508	10	4.6	10	83	5	65	13	22	40	24	1.90
1450903--1450941	16	2.4	16	91	0	60	23	12	17	46	1.83
1450843--1451118	112	2.5	112	98	0	534	28	11	15	44	1.82
1451022--1451052	16	1.9	16	93	0	53	29	16	12	41	1.85
1456455--1456578	46	2.7	47	87	1	178	28	12	24	34	1.92
1456891--1456998	55	2.0	55	94	0	189	42	12	23	22	1.86
1456899--1457021	55	2.2	55	86	2	167	43	15	21	19	1.87
1457681--1457830	72	2.1	72	94	0	264	38	12	25	24	1.89
1461184--1461419	125	1.9	125	83	1	303	34	15	25	25	1.95

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