genome.fa.s8747.2.7.7.80.10.50.1000.6.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  6  of  51  ( 6054 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)
1066293--1066334	18	2.5	17	84	7	50	14	23	0	61	1.32
1066304--1066349	18	2.5	19	89	3	67	13	17	0	69	1.19
1075465--1075500	15	2.4	15	90	0	54	44	0	5	50	1.25
1079732--1079767	15	2.4	15	90	0	54	44	0	5	50	1.25
1082055--1082207	81	1.9	81	84	0	207	28	24	14	32	1.94
1087392--1087438	17	2.8	17	80	0	67	36	12	6	44	1.68
1091796--1091831	18	2.0	18	88	0	54	86	2	8	2	0.77
1091761--1091831	34	2.2	31	76	16	72	80	5	11	2	0.99
1093117--1093490	187	2.0	187	100	0	748	27	21	20	30	1.98
1093754--1093818	30	2.2	30	82	0	76	46	4	20	29	1.70
1103912--1104032	59	2.1	59	85	0	161	25	17	22	34	1.95
1109567--1109619	17	3.1	17	75	8	54	35	13	3	47	1.61
1115826--1115895	29	2.4	29	92	0	113	44	10	17	28	1.81
1125154--1125178	11	2.3	11	100	0	50	84	0	8	8	0.79
1126209--1126253	22	2.0	23	86	4	65	26	15	26	31	1.96
1128590--1128622	12	2.6	13	90	4	50	45	6	12	36	1.66
1128647--1128690	20	2.2	20	84	8	54	70	13	2	13	1.26
1134377--1134402	12	2.2	12	100	0	52	61	0	23	15	1.33
1147793--1148352	96	5.8	97	81	5	588	30	22	14	33	1.93
1147784--1148331	47	11.4	47	76	7	471	29	22	14	32	1.94
1159830--1160645	406	2.0	408	98	1	1577	36	14	15	32	1.89
1170455--1170573	31	3.9	30	69	11	80	26	26	29	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1171306--1171357	22	2.4	22	83	0	68	26	17	28	26	1.97
1171375--1171416	20	2.2	19	91	4	66	14	26	33	26	1.94
1173556--1173607	19	2.8	19	81	18	65	53	9	3	32	1.51
1174307--1174407	31	3.1	34	71	17	88	53	1	0	43	1.18
1174308--1174407	30	3.2	30	77	11	85	53	2	1	44	1.19
1175377--1175434	31	1.9	29	86	13	82	70	6	10	12	1.33
1179324--1179391	3	22.0	3	85	5	91	38	0	0	61	0.96
1179663--1179716	21	2.6	21	96	0	99	18	29	27	24	1.98
1180691--1180750	15	4.1	14	74	19	52	28	5	0	66	1.12
1180804--1180835	14	2.3	14	94	0	55	43	0	0	56	0.99
1181208--1181243	17	2.3	15	90	9	54	61	0	2	36	1.11
1181701--1181735	15	2.3	15	90	5	52	20	5	0	74	1.02
1183815--1183873	21	2.8	21	94	2	100	16	16	8	57	1.63
1183815--1183874	7	8.6	7	80	12	70	16	16	8	58	1.61
1186421--1186471	26	1.9	27	92	4	86	68	7	19	3	1.30
1186451--1186521	18	4.1	17	81	15	92	83	0	16	0	0.66
1186455--1186512	7	8.4	7	84	7	75	84	0	15	0	0.62
1186451--1186521	25	2.8	25	89	4	97	83	0	16	0	0.66
1188458--1188791	114	2.9	114	92	0	551	32	15	21	30	1.94
1190867--1191022	54	3.0	53	78	7	167	39	16	20	23	1.92
1191144--1191315	85	2.0	87	97	2	330	37	15	22	25	1.92
1191473--1191527	22	2.5	22	93	0	101	34	10	14	40	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192076--1192448	186	2.0	186	90	2	588	33	13	14	38	1.86
1192389--1192576	76	2.5	77	89	4	299	23	21	20	33	1.97
1193938--1194008	15	4.6	15	69	19	56	28	5	1	64	1.24
1194053--1194085	15	2.3	15	89	5	50	42	0	0	57	0.98
1194367--1194402	17	2.3	15	90	9	54	61	0	2	36	1.11
1203816--1203869	23	2.3	24	87	3	83	62	12	14	9	1.53
1222238--1222270	12	2.6	13	85	9	50	57	0	3	39	1.14
1227631--1227796	65	2.6	63	80	7	190	24	16	25	32	1.96
1232426--1232647	117	1.9	118	80	2	259	28	13	9	48	1.73
1233931--1234131	65	3.1	63	76	9	190	25	18	24	31	1.98
1235189--1235215	4	6.8	4	100	0	54	25	22	0	51	1.48
1239770--1239803	17	1.9	17	88	5	50	52	14	11	20	1.73
1247373--1247854	201	2.4	201	77	2	450	34	18	18	28	1.94
1248721--1248785	21	3.1	21	95	0	112	35	23	7	33	1.83
1256366--1256455	32	2.8	32	84	5	101	33	11	18	36	1.87
1261590--1261640	26	2.0	26	100	0	102	29	15	23	31	1.95
1262721--1262745	10	2.5	10	100	0	50	0	8	0	92	0.40
1264497--1264544	24	2.0	24	100	0	96	16	29	4	50	1.64
1277945--1277981	17	2.2	17	100	0	74	10	27	13	48	1.75
1279252--1279337	3	29.0	3	81	6	104	26	1	0	72	0.92
1280729--1280769	2	21.0	2	95	5	75	51	0	0	48	1.00
1280914--1280960	2	23.5	2	100	0	94	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282137--1282184	20	2.4	20	82	6	62	10	8	4	77	1.12
1282132--1282185	20	2.8	18	78	15	54	11	7	3	77	1.09
1282160--1282230	30	2.3	32	83	11	87	21	9	2	66	1.34
1285348--1285460	52	2.2	52	90	3	174	34	19	18	27	1.95
1288585--1288629	13	3.5	13	84	6	56	35	6	6	51	1.55
1290707--1290744	20	1.9	20	100	0	76	21	34	21	23	1.97
1291563--1291616	27	2.0	27	92	0	90	44	16	27	11	1.82
1291558--1291665	30	3.7	30	81	7	150	44	14	25	14	1.84
1296057--1296098	11	3.8	11	93	0	66	30	21	16	30	1.95
1297703--1297755	21	2.5	21	75	3	52	50	0	3	45	1.19
1298632--1298683	19	2.8	19	81	18	65	51	9	5	32	1.58
1301514--1301562	3	16.7	3	79	12	57	63	0	0	36	0.95
1301501--1301562	21	3.0	21	81	11	74	59	0	0	40	0.97
1301512--1301567	15	3.3	18	71	21	57	60	0	0	39	0.97
1312416--1312547	59	2.2	59	86	2	176	29	25	15	28	1.96
1324556--1324583	2	14.0	2	100	0	56	50	0	0	50	1.00
1327736--1327776	21	1.9	22	85	5	57	4	65	2	26	1.25
1336473--1336502	10	2.9	10	95	5	51	6	3	0	90	0.56
1339216--1339250	15	2.4	15	90	4	54	2	11	0	85	0.69
1347780--1347859	23	3.6	22	74	9	74	23	31	22	22	1.99
1353319--1353361	20	2.2	20	86	0	59	34	13	16	34	1.88
1354880--1354934	19	2.8	18	77	22	58	29	29	1	40	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1355168--1355212	14	2.9	16	80	16	58	15	13	2	68	1.30
1363689--1363731	20	2.2	20	86	0	59	34	13	16	34	1.88
1365504--1365537	16	2.2	16	89	5	52	82	0	2	14	0.79
1366946--1366979	17	2.0	17	88	0	50	67	0	5	26	1.13
1367004--1367049	23	2.0	23	87	8	67	50	0	2	47	1.13
1367010--1367047	19	2.1	18	95	5	67	50	0	0	50	1.00
1368133--1368166	3	11.7	3	87	6	52	61	0	0	38	0.96
1374099--1374123	13	1.9	13	100	0	50	48	16	8	28	1.74
1378041--1378086	16	2.8	17	81	15	53	32	8	21	36	1.84
1378100--1378179	42	1.9	42	89	0	124	28	12	10	48	1.73
1378884--1378974	33	2.7	33	82	1	110	42	12	6	38	1.68
1379166--1379222	17	3.2	18	85	7	71	45	3	3	47	1.37
1380692--1380717	2	13.0	2	100	0	52	50	0	0	50	1.00
1382750--1382865	29	4.2	30	62	29	76	28	1	24	45	1.63
1382777--1382819	22	2.0	22	86	9	61	30	0	25	44	1.55
1385471--1385541	24	3.0	24	87	0	97	21	11	18	49	1.78
1405016--1405098	42	1.9	43	82	4	105	49	6	3	40	1.45
1408982--1409230	117	2.1	117	87	0	363	32	19	32	15	1.93
1408982--1409293	117	2.7	116	82	4	315	33	19	32	15	1.93
1409900--1409934	15	2.3	15	95	0	61	20	11	31	37	1.88
1415223--1415318	48	2.0	48	97	0	183	20	7	35	36	1.81
1415227--1415303	24	3.2	24	66	20	70	22	7	32	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1423475--1423529	27	2.0	28	89	3	85	9	41	3	45	1.53
1434385--1434580	46	4.3	46	82	2	232	25	20	10	44	1.82
1441066--1441261	46	4.3	46	81	7	220	25	18	11	44	1.83
1441066--1441261	92	2.1	92	83	3	252	25	18	11	44	1.83
1443384--1443423	21	2.0	21	90	5	64	40	12	15	32	1.84
1462620--1462705	44	2.0	43	88	2	127	27	22	11	38	1.89
1464382--1464458	21	3.5	22	85	7	111	12	45	23	18	1.84
1497292--1497423	33	4.1	32	73	5	81	38	3	9	47	1.55
1497296--1497611	170	1.9	168	87	5	467	39	5	9	45	1.60
1499342--1500005	337	2.0	327	95	3	1204	40	18	20	21	1.92

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   39   40   41   42   43   44   45   46   47   48   
          49   50   51