genome.fa.s8364.2.7.7.80.10.50.1000.6.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  6  of  27  ( 3136 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)
1194054--1194091	10	3.7	10	96	3	67	39	0	18	42	1.50
1193994--1194204	70	3.2	70	88	8	300	40	0	13	46	1.43
1194172--1194219	14	3.6	14	83	16	75	35	0	18	45	1.50
1194172--1194220	25	2.0	25	100	0	98	36	0	18	44	1.50
1196352--1196385	15	2.2	16	94	5	61	55	5	0	38	1.24
1196438--1196543	30	3.5	30	87	5	142	47	14	0	38	1.44
1196442--1196496	15	3.6	16	70	20	55	43	14	0	41	1.45
1196670--1196705	17	2.1	17	100	0	72	41	41	0	16	1.48
1196895--1196949	27	2.0	27	100	0	110	40	25	16	18	1.91
1198790--1199168	41	9.2	41	77	6	318	29	18	17	33	1.95
1198790--1199105	124	2.6	124	80	5	336	29	19	18	32	1.95
1198934--1199157	124	1.8	124	82	1	288	28	20	17	34	1.95
1201548--1201593	23	2.0	23	100	0	92	39	8	21	30	1.84
1202614--1202672	22	2.8	22	82	5	68	20	5	18	55	1.61
1202869--1203051	43	4.3	43	82	6	221	27	24	20	27	1.99
1202869--1203051	85	2.2	85	85	4	244	27	24	20	27	1.99
1202869--1203090	43	5.2	42	80	2	201	27	25	20	27	1.99
1204254--1204330	24	3.0	25	76	14	66	36	3	10	49	1.56
1204238--1204378	29	5.1	28	73	10	94	34	4	14	46	1.64
1205687--1205737	22	2.3	23	90	10	88	25	7	9	56	1.58
1206147--1206190	2	22.5	2	95	4	81	47	0	0	52	1.00
1206142--1206191	23	2.2	23	96	0	91	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1208067--1208165	30	3.3	29	83	6	117	36	16	13	34	1.87
1212897--1212973	31	2.5	31	82	4	84	38	9	22	29	1.85
1216300--1216414	51	2.2	55	82	6	139	50	18	7	23	1.72
1219674--1219710	16	2.3	16	90	0	56	59	0	0	40	0.97
1222705--1222735	15	2.1	15	100	0	62	6	19	67	6	1.35
1223369--1223479	43	2.6	43	87	5	154	52	5	17	25	1.65
1225216--1225261	3	15.7	3	80	13	51	36	0	0	63	0.95
1227474--1227530	28	2.2	26	84	9	71	31	5	1	61	1.28
1238159--1238216	12	4.8	12	84	16	75	81	0	18	0	0.70
1238163--1238207	13	3.2	15	81	12	60	84	0	15	0	0.62
1238159--1238218	24	2.4	25	86	10	88	80	0	20	0	0.72
1238166--1238216	27	1.9	26	92	4	84	82	0	17	0	0.67
1238570--1238618	19	2.8	17	84	9	64	36	8	6	48	1.58
1238876--1239213	114	3.0	115	88	2	502	34	14	19	31	1.92
1239914--1240398	215	2.2	216	96	2	911	36	15	19	29	1.92
1240361--1240782	116	3.7	114	79	12	420	39	13	18	27	1.89
1240571--1240870	124	2.5	123	84	4	369	42	15	18	24	1.88
1241015--1241060	3	15.7	3	80	13	51	36	0	0	63	0.95
1246552--1246620	30	2.2	30	85	15	95	34	5	17	42	1.73
1246561--1246620	30	2.0	30	93	6	104	33	6	16	43	1.74
1246699--1246797	21	4.8	20	79	10	110	23	35	19	22	1.96
1246818--1246912	20	4.7	19	79	7	91	17	22	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246818--1246912	41	2.3	40	83	5	111	17	22	25	34	1.96
1248275--1248305	14	2.1	15	94	5	55	64	0	32	3	1.09
1249895--1249934	21	1.9	21	89	0	62	30	10	10	50	1.69
1250036--1250104	30	2.2	30	82	15	86	36	4	17	42	1.69
1250045--1250104	29	2.0	30	90	6	95	35	5	16	43	1.70
1250233--1250288	22	2.7	21	86	10	71	25	28	23	23	1.99
1250309--1250381	20	3.7	20	98	0	137	16	30	24	28	1.96
1251544--1251582	13	2.9	13	81	7	51	35	0	5	58	1.20
1254215--1254286	20	3.6	20	90	3	101	34	29	16	19	1.94
1254215--1254327	40	2.8	38	82	7	118	38	25	15	20	1.91
1255073--1255106	12	2.8	12	86	0	50	55	23	0	20	1.43
1255231--1255284	24	2.2	24	90	0	81	22	18	18	40	1.91
1257548--1257583	18	2.0	18	94	0	63	55	25	2	16	1.55
1258355--1258407	24	2.2	24	89	0	79	37	1	13	47	1.54
1258709--1258795	39	2.2	39	93	0	147	47	20	14	17	1.83
1259129--1259274	67	2.2	65	86	4	195	50	17	0	30	1.51
1260597--1260655	20	2.9	21	76	2	66	20	20	40	18	1.91
1260597--1260687	21	4.4	21	71	8	69	19	20	37	21	1.95
1263324--1263469	20	7.3	20	74	13	131	19	15	23	41	1.89
1263332--1263469	40	3.5	40	87	7	208	18	15	23	41	1.90
1263494--1263549	20	2.8	21	78	7	64	25	12	30	32	1.92
1264065--1264102	6	6.5	6	87	3	51	81	2	2	13	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1267629--1267683	20	2.8	20	86	5	76	30	18	5	45	1.72
1268082--1268139	2	29.0	2	100	0	116	50	0	0	50	1.00
1268223--1268279	28	2.0	28	87	12	82	36	21	7	35	1.80
1279622--1279659	3	12.7	3	94	0	67	31	0	2	65	1.06
1280903--1280927	7	3.6	7	100	0	50	0	44	0	56	0.99
1282698--1282746	9	5.7	9	86	11	50	55	0	0	44	0.99
1282801--1282869	28	2.5	27	84	13	79	40	0	1	57	1.07
1283069--1283118	20	2.5	20	90	0	82	36	14	10	40	1.79
1283117--1283167	15	3.4	15	88	0	84	37	19	5	37	1.76
1283101--1283171	30	2.4	29	95	2	124	32	16	7	43	1.75
1289692--1290027	171	2.0	171	98	0	654	40	16	16	27	1.89
1293659--1293697	16	2.4	16	91	0	60	46	17	12	23	1.83
1293771--1293809	16	2.4	16	91	0	60	46	17	12	23	1.83
1293594--1293869	112	2.5	112	97	0	516	44	15	11	28	1.81
1294202--1294246	19	2.3	20	88	3	65	24	40	22	13	1.90
1297952--1298395	229	1.9	227	94	0	780	44	8	7	39	1.62
1300988--1301053	33	2.0	33	87	0	96	28	1	45	24	1.62
1302843--1302895	18	2.9	18	97	0	97	33	3	11	50	1.56
1302982--1304596	199	8.1	199	95	1	2809	37	14	14	32	1.88
1302982--1304596	397	4.1	399	95	1	2813	37	14	14	32	1.88
1302982--1304596	593	2.7	595	97	1	3008	37	14	14	32	1.88
1306053--1306114	18	3.4	18	88	0	88	38	6	33	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306053--1306114	6	10.3	6	83	0	61	38	6	33	20	1.79
1306068--1306118	3	17.0	3	83	0	66	37	3	33	25	1.74
1306056--1306118	12	5.2	12	90	0	81	36	6	33	23	1.80
1307477--1308151	191	3.7	184	95	3	1196	35	15	15	34	1.89
1310693--1310755	23	2.7	23	90	0	90	36	6	19	38	1.77
1310693--1310765	23	3.2	23	86	3	85	35	5	19	39	1.75
1311117--1311179	23	2.7	23	90	0	90	36	6	19	38	1.77
1311117--1311189	23	3.2	23	86	3	85	35	5	19	39	1.75
1318172--1318274	2	52.0	2	96	1	190	0	48	0	50	1.07
1325271--1325295	2	12.5	2	100	0	50	52	0	0	48	1.00
1326448--1326507	23	2.6	23	91	0	102	18	28	28	25	1.98
1335064--1335101	3	12.3	3	94	5	67	31	0	0	68	0.90
1344386--1344414	2	14.5	2	100	0	58	48	0	0	51	1.00
1349079--1349289	2	105.5	2	67	15	107	47	3	3	45	1.39
1349080--1349248	33	4.8	34	73	17	98	49	2	3	43	1.34
1349077--1349297	9	26.1	9	67	24	58	47	3	4	45	1.39
1355960--1356011	16	3.2	17	72	22	58	42	0	21	36	1.53
1357281--1357348	30	2.4	29	83	11	79	38	7	5	48	1.55
1361551--1361598	19	2.4	19	86	6	60	37	18	6	37	1.76
1361568--1361604	19	1.9	19	88	0	56	40	18	2	37	1.65
1361568--1361610	19	2.3	19	83	0	50	37	18	4	39	1.72
1361614--1361662	18	2.7	19	81	9	57	32	20	14	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362427--1362460	12	2.8	12	90	0	50	55	29	0	14	1.40
1365173--1365241	34	2.0	34	86	5	95	24	18	24	31	1.98
1365380--1365537	64	2.5	64	95	1	280	50	17	1	30	1.56
1366887--1367004	21	5.6	21	79	10	125	22	20	35	21	1.96
1366887--1367009	42	2.9	42	88	0	183	23	20	35	20	1.96
1369587--1369644	22	2.6	22	86	0	89	17	17	44	20	1.86
1369792--1369837	20	2.3	20	100	0	92	15	15	26	43	1.85
1369808--1369878	20	3.5	20	75	11	65	21	12	25	40	1.88
1374200--1374290	40	2.2	41	80	7	96	35	23	14	27	1.93
1374241--1374320	19	4.1	19	72	15	72	36	22	8	32	1.85

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