genome.fa.s9330.2.7.7.80.10.50.1000.6.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: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1820295

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 950 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)
1164491--1164669	61	2.9	62	83	3	209	28	27	15	29	1.96
1164616--1164700	29	3.1	29	77	8	72	34	30	14	21	1.93
1165906--1165939	16	2.2	15	89	5	50	41	0	0	58	0.98
1170093--1170118	3	8.7	3	100	0	52	34	0	0	65	0.93
1171428--1171471	5	8.6	5	90	9	63	20	0	0	79	0.73
1171427--1171471	21	2.1	21	88	8	65	20	0	0	80	0.72
1171486--1171512	2	13.5	2	100	0	54	48	0	0	51	1.00
1171553--1171624	21	3.2	22	77	21	69	18	9	0	72	1.11
1171560--1171630	26	2.9	24	82	16	76	18	11	0	70	1.16
1171722--1171750	12	2.3	13	94	5	51	31	0	0	68	0.89
1183876--1183917	17	2.6	16	85	7	57	23	7	14	54	1.64
1185134--1185272	69	2.0	69	100	0	278	21	8	17	52	1.71
1186483--1186573	46	2.0	47	82	2	112	51	0	2	46	1.13
1187690--1187738	19	2.7	17	84	9	53	26	20	28	24	1.99
1187710--1187835	64	2.0	64	87	4	182	26	20	24	28	1.99
1187718--1187852	65	2.1	64	82	6	157	28	19	22	29	1.98
1188366--1188414	2	24.5	2	100	0	98	51	0	0	48	1.00
1190114--1190189	22	3.5	22	81	5	100	25	22	25	27	2.00
1190114--1190208	21	4.4	21	81	9	104	24	20	26	29	1.99
1193328--1193446	59	2.0	59	96	3	222	36	18	10	34	1.86
1195757--1195835	36	2.2	36	97	0	149	12	15	21	50	1.76
1196020--1196125	45	2.3	45	85	4	133	29	20	19	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1196066--1196191	65	2.0	63	83	10	157	26	18	23	32	1.97
1197242--1197316	3	26.0	3	84	8	75	68	0	0	32	0.90
1197264--1197318	14	3.9	14	79	9	67	76	0	0	23	0.79
1197257--1197312	11	5.0	11	84	2	58	73	0	0	26	0.84
1197686--1198490	123	6.7	123	88	4	982	26	19	15	38	1.91
1198183--1198503	113	2.9	112	90	3	477	27	19	15	37	1.92
1199424--1199469	18	2.6	18	92	0	74	17	50	19	13	1.78
1199446--1199475	13	2.3	13	100	0	60	16	46	23	13	1.82
1200208--1200262	26	2.1	26	83	6	67	45	10	16	27	1.80
1201880--1201944	12	5.5	11	74	18	60	16	18	18	46	1.85
1201863--1201970	47	2.3	47	79	12	114	20	15	16	47	1.83
1201877--1201972	24	4.0	23	81	8	95	20	14	16	47	1.82
1203247--1203379	54	2.5	53	85	7	162	32	19	10	37	1.86
1204565--1204591	14	1.9	14	100	0	54	29	0	14	55	1.40
1204863--1204896	16	2.1	16	88	0	50	38	0	17	44	1.49
1205136--1205175	21	1.9	21	100	0	80	57	0	22	20	1.41
1205249--1205388	31	4.5	31	92	0	226	20	17	20	41	1.90
1210462--1210501	7	5.7	7	87	0	62	0	25	0	75	0.81
1213572--1213610	20	2.0	20	84	0	51	64	7	10	17	1.48
1213699--1213739	6	6.0	7	83	16	59	56	12	17	14	1.68
1215774--1215836	33	1.9	33	83	6	83	46	7	17	28	1.76
1219596--1219678	23	3.8	21	76	18	80	26	30	21	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224328--1224360	4	8.2	4	100	0	66	24	0	0	75	0.80
1226081--1226131	3	17.0	3	86	8	68	62	0	0	37	0.95
1230194--1230370	90	2.0	89	95	1	318	37	11	6	44	1.67
1233878--1233937	30	2.0	31	87	6	88	35	6	15	43	1.72
1234186--1234225	20	1.9	21	85	10	55	37	37	10	15	1.80
1248751--1248803	27	2.0	27	85	7	72	64	1	0	33	1.05
1249645--1249684	18	2.3	18	86	4	55	65	0	2	32	1.06
1254012--1254051	16	2.6	16	88	4	55	35	20	7	37	1.81
1255423--1255469	23	2.0	23	87	0	67	48	23	17	10	1.77
1255417--1255471	23	2.5	21	77	11	65	47	20	20	12	1.82
1255509--1255561	27	1.9	28	85	11	74	49	0	0	50	1.00
1258891--1258915	11	2.3	11	100	0	50	28	8	8	56	1.57
1264441--1264491	25	2.0	27	88	7	79	1	31	0	66	1.03
1265037--1265067	15	2.1	15	93	0	53	25	16	19	38	1.92
1267060--1267136	2	38.5	2	100	0	154	50	0	0	49	1.00
1269730--1269778	24	2.0	24	100	0	98	42	12	12	32	1.79
1271361--1273467	4	528.8	4	91	1	2485	27	0	47	25	1.52
1274783--1274835	20	2.7	20	94	2	90	49	5	28	16	1.69
1275735--1275796	24	2.6	24	78	0	79	14	11	17	56	1.67
1276239--1276278	16	2.5	16	100	0	80	17	25	15	42	1.88
1276417--1276490	10	7.6	10	68	22	50	9	9	21	59	1.57
1276422--1276486	16	4.1	16	91	0	112	7	10	23	58	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287198--1287300	36	2.9	36	95	0	179	25	16	16	41	1.89
1293294--1293346	19	2.8	19	91	0	88	20	26	16	35	1.94
1293392--1293445	21	2.6	21	96	0	99	25	14	29	29	1.95
1293456--1293571	22	5.4	22	76	12	89	17	18	25	39	1.91
1293473--1293525	23	2.2	25	90	10	92	13	18	22	45	1.84
1293650--1293682	6	5.5	6	100	0	66	33	51	15	0	1.43
1294163--1294199	11	3.3	11	92	3	56	0	18	54	27	1.44
1294166--1294203	6	6.5	6	93	6	60	0	15	55	28	1.41
1294166--1294203	17	2.2	17	90	4	58	0	15	55	28	1.41
1294299--1294348	19	2.4	22	77	19	70	36	26	18	20	1.95
1294308--1294347	19	2.1	19	95	0	71	37	25	15	22	1.93
1294409--1294473	21	3.2	21	65	8	62	30	24	20	24	1.98
1294337--1294477	41	3.5	41	93	1	239	32	21	20	25	1.97
1294417--1294481	21	3.2	21	63	6	53	35	26	18	20	1.95
1294477--1294544	28	2.4	28	97	0	127	29	17	30	22	1.97
1294527--1294579	19	2.8	19	97	0	97	33	16	28	20	1.95
1294563--1295009	226	2.0	219	96	3	815	34	14	19	31	1.92
1296061--1296159	35	2.8	35	92	3	155	26	18	15	40	1.89
1296534--1297294	380	2.0	381	97	2	1442	34	10	15	39	1.82
1304135--1304193	23	2.6	24	75	24	65	20	11	0	67	1.21
1314382--1314472	46	1.9	48	84	4	123	41	14	26	17	1.88
1315262--1315714	105	4.3	105	94	1	786	33	24	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1316171--1316213	2	23.0	2	81	13	56	46	2	0	51	1.13
1316175--1316221	24	2.0	24	87	8	69	44	4	2	48	1.34
1317790--1317853	23	2.8	23	76	21	64	18	14	0	67	1.24
1324506--1324550	22	2.0	22	100	0	90	33	13	17	35	1.89
1325371--1325532	29	5.6	29	93	2	272	30	3	21	44	1.68
1327446--1327498	25	2.1	25	89	0	79	30	7	13	49	1.69
1334210--1334328	24	5.0	24	89	4	177	40	20	15	24	1.90
1337103--1337145	19	2.3	19	87	0	59	25	30	20	23	1.99
1337156--1337202	22	2.1	22	84	7	60	23	44	19	12	1.85
1337183--1337242	24	2.5	24	94	0	102	20	36	18	25	1.94
1337243--1337347	30	3.5	30	91	5	160	33	2	19	44	1.65
1338406--1338456	25	2.0	25	88	0	75	29	7	17	45	1.77
1342544--1342587	22	2.0	22	95	0	79	40	2	9	47	1.48
1342611--1342669	31	1.9	31	92	0	100	42	10	6	40	1.65
1342339--1342954	223	2.8	223	94	0	1101	36	5	11	46	1.63
1342767--1342810	22	2.0	22	95	0	79	38	0	13	47	1.43
1342834--1342890	30	1.9	30	85	0	78	42	8	5	43	1.58
1345777--1345809	2	16.5	2	100	0	66	51	0	0	48	1.00
1350362--1350411	19	2.7	19	78	3	57	20	24	18	38	1.93
1350448--1350490	20	2.2	20	86	0	59	34	32	18	13	1.90
1350497--1350529	14	2.4	14	90	10	50	27	27	12	33	1.92
1350272--1350607	173	2.0	169	96	3	620	30	23	16	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1350516--1350584	19	3.7	19	78	7	61	21	24	15	37	1.93
1351765--1351801	13	2.8	14	80	12	51	27	21	10	40	1.86
1359033--1359092	15	3.8	16	72	14	52	60	5	0	35	1.19
1359490--1359538	13	3.6	14	78	13	57	22	2	2	73	1.04
1362713--1362830	32	3.7	31	83	2	137	27	27	26	18	1.98
1362710--1362830	64	1.9	64	82	3	154	26	27	26	19	1.99
1363796--1363859	27	2.3	28	86	2	85	18	10	26	43	1.83
1366769--1367069	137	2.2	138	82	7	364	33	13	13	39	1.84
1367285--1367329	19	2.4	19	100	0	90	37	37	0	24	1.56
1369648--1369710	22	2.8	22	83	7	65	31	3	3	61	1.27

Tables:   1   2   3   4   5   6   7   8