genome.fa.s8025.2.7.7.80.10.50.1000.6.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: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2744542

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

This is table  6  of  12  ( 1393 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)
1213957--1214194	54	4.4	54	85	0	314	30	13	19	37	1.89
1224826--1224865	18	2.2	18	90	0	62	27	15	5	52	1.63
1227017--1227072	24	2.4	23	87	3	76	25	5	17	51	1.66
1227018--1227072	23	2.3	24	87	3	76	25	5	16	52	1.65
1227639--1227703	23	2.7	24	83	11	80	29	7	13	49	1.70
1227645--1227718	23	3.2	22	83	9	76	29	8	14	47	1.73
1226841--1228008	625	1.9	616	84	5	1594	29	14	15	39	1.88
1230265--1230335	36	2.0	36	86	5	99	42	5	19	32	1.75
1231080--1231117	17	2.2	17	86	9	51	10	13	13	63	1.53
1235728--1235831	53	2.0	52	90	1	163	50	6	9	33	1.62
1236332--1236890	198	2.8	197	84	2	719	38	12	16	31	1.87
1239071--1239103	12	2.8	12	95	0	57	54	0	45	0	0.99
1239053--1239098	18	2.7	17	81	15	51	54	2	39	4	1.32
1240965--1241058	49	1.9	49	100	0	188	38	6	17	38	1.75
1241896--1241969	21	3.6	21	94	1	123	24	13	17	44	1.85
1241959--1242728	200	4.1	183	78	11	722	39	13	13	33	1.83
1243621--1243648	2	14.0	2	100	0	56	50	0	0	50	1.00
1245861--1246341	130	3.7	131	87	1	689	40	12	14	32	1.83
1250135--1250223	43	2.1	43	95	0	160	44	7	14	32	1.74
1250705--1250748	22	2.0	22	90	0	70	47	15	0	36	1.46
1251037--1251096	2	30.0	2	100	0	120	50	0	0	50	1.00
1251928--1251976	20	2.6	19	78	9	55	36	24	2	36	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252399--1252495	46	2.1	46	100	0	194	45	24	4	25	1.71
1254899--1254971	33	2.2	32	85	7	94	45	12	5	36	1.65
1254960--1254986	4	6.8	4	100	0	54	48	25	0	25	1.52
1255176--1255314	61	2.3	60	80	8	149	35	17	5	40	1.74
1261580--1261654	39	1.9	39	86	2	107	50	4	2	42	1.35
1261651--1261690	21	1.9	21	84	0	53	42	2	2	52	1.28
1268287--1268338	26	2.0	26	92	0	86	9	17	30	42	1.81
1268348--1268425	3	25.7	3	79	7	86	58	0	0	41	0.98
1268350--1268421	13	5.8	13	79	17	82	56	0	0	43	0.99
1268580--1269367	76	10.4	76	95	0	1391	34	22	19	22	1.97
1270036--1270090	22	2.5	23	85	8	78	38	14	12	34	1.84
1270457--1270608	54	2.9	53	89	3	220	23	21	15	38	1.92
1272965--1273303	115	3.0	115	93	0	583	30	20	15	33	1.94
1275457--1275505	24	2.0	24	84	7	64	6	10	12	71	1.30
1282520--1282553	16	2.1	17	88	5	52	0	26	8	64	1.22
1282950--1283014	3	21.7	3	81	6	78	60	0	0	40	0.97
1292898--1293027	45	2.9	45	84	0	161	40	20	22	16	1.91
1292897--1293064	45	3.8	44	80	3	149	40	22	21	15	1.91
1293386--1293446	26	2.4	25	83	5	79	47	3	4	44	1.41
1293367--1293482	62	1.9	61	84	10	157	46	1	6	45	1.38
1293412--1293681	74	3.6	75	84	9	331	45	2	7	44	1.44
1293414--1293680	37	7.2	36	83	9	290	46	2	7	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299807--1299869	21	3.0	21	92	0	99	22	22	30	25	1.99
1299831--1299877	21	2.2	21	84	3	58	27	25	27	19	1.99
1301603--1301647	17	2.6	17	89	0	72	57	0	20	22	1.40
1303642--1303676	13	2.7	13	100	0	70	0	42	0	57	0.99
1305705--1305746	21	2.0	21	95	0	75	23	21	28	26	1.99
1306929--1307213	97	2.9	98	91	2	457	31	16	20	32	1.94
1308590--1309142	201	2.7	200	84	2	696	33	20	19	26	1.97
1309746--1309828	25	3.4	25	82	14	93	45	6	8	39	1.59
1309795--1310065	36	7.3	35	80	13	240	46	2	7	43	1.45
1309805--1310064	78	3.4	76	85	7	336	46	2	7	43	1.44
1310109--1310157	21	2.5	19	83	6	53	16	4	4	75	1.11
1312832--1313092	42	6.1	42	76	8	190	26	16	9	47	1.77
1314057--1314099	16	2.9	14	83	13	50	69	0	0	30	0.88
1315184--1315222	20	2.0	20	94	0	69	23	23	12	41	1.88
1316682--1316747	26	2.5	26	83	14	82	28	0	4	66	1.11
1316752--1316854	4	24.0	4	70	16	55	24	3	6	65	1.34
1316746--1316775	15	2.0	15	93	0	51	20	3	10	66	1.35
1318390--1318428	15	2.4	17	87	8	55	48	0	23	28	1.51
1319168--1319276	29	3.8	29	96	1	193	45	15	20	18	1.85
1319361--1319393	15	2.2	15	94	0	57	15	21	33	30	1.94
1322872--1322897	3	8.7	3	100	0	52	0	34	0	65	0.93
1324050--1324159	29	3.8	29	97	2	204	44	16	21	17	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329339--1329373	14	2.5	14	95	0	61	22	22	0	54	1.45
1330775--1330820	19	2.4	19	85	0	65	45	6	36	10	1.65
1331580--1331632	20	2.7	20	74	11	63	28	33	15	22	1.94
1331682--1331921	20	12.1	19	81	8	223	41	23	15	20	1.90
1331657--1331921	40	6.7	40	79	7	265	41	22	15	20	1.90
1331694--1331921	60	3.8	60	87	3	282	41	22	15	20	1.90
1332396--1332463	20	3.5	19	78	11	75	11	14	22	51	1.74
1332426--1332469	20	2.2	20	83	0	52	13	15	18	52	1.75
1334410--1334451	4	10.5	4	84	0	57	26	2	2	69	1.13
1334595--1334693	21	4.7	21	75	9	94	25	35	18	21	1.95
1334591--1334713	42	2.9	43	79	11	130	23	36	18	21	1.95
1336068--1336211	66	2.2	65	91	2	227	30	0	17	51	1.50
1336270--1336307	20	1.9	20	88	0	58	39	23	21	15	1.92
1336368--1336406	20	2.0	20	94	0	69	17	20	23	38	1.93
1336618--1336706	39	2.3	39	92	0	142	19	13	20	47	1.82
1337017--1337053	18	2.1	18	89	0	56	51	10	5	32	1.60
1337479--1337520	20	2.1	20	90	0	66	40	19	21	19	1.92
1337529--1337571	20	2.2	20	95	0	77	13	16	25	44	1.85
1337857--1337892	18	2.0	18	94	0	63	16	2	25	55	1.55
1340152--1340211	24	2.5	24	77	0	66	36	21	16	25	1.94
1340905--1340942	16	2.5	15	84	12	51	65	0	5	28	1.14
1341105--1341209	19	5.4	19	80	7	104	25	12	21	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1341105--1341209	40	2.7	39	82	7	115	25	12	21	40	1.89
1341118--1341288	60	2.9	60	80	12	169	21	15	23	39	1.92
1341118--1341231	20	5.8	20	84	9	128	21	14	23	39	1.91
1341156--1341231	39	1.9	40	91	2	127	18	15	26	39	1.91
1341237--1341280	20	2.2	20	95	0	79	20	18	25	36	1.95
1346550--1346632	3	27.7	3	80	4	51	31	45	1	21	1.60
1346568--1346629	6	10.8	6	83	10	58	32	50	0	17	1.47
1346550--1346632	12	6.7	12	76	12	69	31	45	1	21	1.60
1347603--1347723	52	2.3	52	84	4	147	28	2	33	35	1.71
1349037--1349085	26	1.9	25	83	4	62	67	6	0	26	1.14
1349542--1349685	4	35.8	4	74	9	123	68	3	2	26	1.17
1349542--1349705	23	7.7	23	75	16	133	67	4	1	26	1.19
1349778--1349811	16	2.1	17	88	5	52	50	0	32	17	1.47
1350288--1350456	86	2.0	86	86	2	241	33	22	14	30	1.93
1358960--1359071	59	1.9	58	80	12	131	44	3	0	50	1.25
1358960--1359077	58	2.0	57	79	12	125	45	4	0	49	1.27
1361274--1361314	20	2.0	20	95	0	73	31	2	24	41	1.68
1363439--1363513	10	7.7	10	68	21	52	56	20	13	10	1.66
1363444--1363507	16	4.0	16	91	0	110	56	21	12	9	1.64
1364608--1364634	14	1.9	14	100	0	54	51	29	7	11	1.64
1365224--1365646	114	3.8	114	81	10	481	27	11	13	48	1.76
1369365--1369505	36	3.9	36	87	3	212	38	21	21	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369360--1369505	72	2.0	72	94	0	256	39	20	21	17	1.92
1369555--1369606	27	2.0	27	88	3	79	34	13	19	32	1.90
1379424--1379485	31	2.2	28	81	16	74	29	29	22	19	1.98
1388589--1389560	165	5.9	164	84	5	1123	23	21	25	29	1.99
1388690--1389519	249	3.3	249	93	0	1338	23	21	25	29	1.99
1388589--1389560	414	2.3	412	88	2	1380	23	21	25	29	1.99
1392906--1392950	19	2.4	19	96	3	83	66	6	15	11	1.42
1394745--1394780	2	18.5	2	94	5	65	50	0	0	50	1.00
1405980--1406017	15	2.5	15	87	8	51	52	2	7	36	1.45
1406897--1406994	45	2.2	45	88	0	142	23	14	39	22	1.90

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