genome.fa.s9574.2.7.7.80.10.50.1000.6.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  6  of  14  ( 1597 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)
1196384--1196443	31	2.0	31	83	3	77	36	25	8	30	1.85
1197200--1197264	30	2.2	31	80	8	80	38	16	6	38	1.74
1199447--1199552	39	2.6	41	76	5	126	30	7	13	49	1.69
1199446--1199550	40	2.6	39	76	14	124	29	7	13	49	1.69
1199910--1199993	24	3.5	24	79	7	73	9	8	36	45	1.67
1199911--1200031	23	5.1	25	75	9	94	9	6	35	47	1.63
1200010--1200051	19	2.4	17	84	11	57	9	7	40	42	1.65
1200010--1200051	18	2.3	18	88	8	59	9	7	40	42	1.65
1200040--1200101	21	2.9	22	78	4	81	6	14	35	43	1.71
1200418--1201622	139	8.7	139	88	0	1667	26	21	17	35	1.95
1202669--1202729	5	11.8	5	78	13	61	0	21	1	77	0.86
1202669--1202732	11	6.1	11	75	8	62	0	21	1	76	0.87
1202660--1202728	26	2.7	24	78	12	66	0	21	2	75	0.93
1202679--1202747	31	2.2	31	90	7	113	1	18	2	76	0.98
1202708--1202742	18	1.9	18	88	0	52	2	17	2	77	1.02
1202674--1202735	18	3.4	18	78	22	60	0	22	1	75	0.88
1215507--1215597	24	4.0	22	80	8	101	6	7	39	46	1.59
1215566--1215635	34	2.1	34	91	0	113	7	12	37	42	1.71
1215939--1215967	14	2.1	14	100	0	58	0	6	41	51	1.28
1218883--1218994	3	35.0	3	77	12	107	32	0	6	60	1.27
1218884--1218994	13	8.4	13	79	8	100	32	0	6	60	1.28
1218883--1218994	16	7.2	15	77	14	75	32	0	6	60	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1221475--1221504	10	3.0	10	90	0	51	56	13	0	30	1.37
1230497--1230530	13	2.6	13	95	0	59	41	23	17	17	1.90
1230860--1230895	3	12.3	3	94	5	65	30	0	0	69	0.89
1235232--1235500	134	2.0	135	97	2	515	33	20	14	31	1.92
1242530--1242924	194	2.0	198	96	2	735	30	10	21	37	1.88
1244000--1244058	31	2.0	30	87	12	86	22	16	18	42	1.89
1245488--1245537	21	2.4	21	96	3	93	20	22	36	22	1.96
1248081--1248119	20	2.0	20	84	0	51	23	7	23	46	1.78
1248275--1248357	21	3.9	21	75	7	69	14	22	36	26	1.93
1248320--1248357	20	1.9	20	88	0	58	13	26	36	23	1.91
1252073--1252112	21	2.0	20	85	14	55	37	7	2	52	1.43
1264021--1264091	24	2.9	23	76	16	63	46	5	2	45	1.41
1264222--1264274	22	2.4	22	84	9	63	50	3	0	45	1.19
1264238--1264283	22	2.1	21	84	4	56	45	0	0	54	0.99
1264417--1264470	22	2.5	20	80	16	63	46	0	1	51	1.11
1272709--1273545	183	4.6	183	84	3	943	44	12	14	28	1.82
1272740--1273545	367	2.2	366	83	3	1005	44	12	14	28	1.82
1273940--1274008	15	4.3	16	73	10	52	20	24	33	21	1.97
1273952--1274008	15	3.7	15	75	9	60	19	24	35	21	1.96
1273940--1274008	32	2.2	32	89	0	102	20	24	33	21	1.97
1275550--1275621	36	2.0	36	91	0	117	20	8	43	27	1.81
1279097--1279126	15	2.0	15	93	0	51	23	3	60	13	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1283123--1284462	199	6.7	199	87	2	1821	39	14	14	32	1.86
1285842--1285881	6	6.7	6	91	0	62	45	2	32	20	1.64
1287260--1287317	30	1.9	30	86	6	82	29	3	15	51	1.60
1287267--1287321	24	2.3	24	87	3	76	30	3	16	49	1.63
1288747--1289220	200	2.4	200	87	3	661	39	14	13	31	1.86
1289066--1289390	164	2.0	163	93	0	560	36	15	16	32	1.89
1288863--1289591	365	2.0	363	90	2	1160	37	14	15	32	1.87
1289226--1289913	201	3.5	200	92	0	1076	38	14	15	31	1.88
1289825--1289862	20	1.9	20	88	0	58	28	13	10	47	1.76
1292340--1292443	45	2.3	45	81	3	129	34	19	20	25	1.96
1294272--1294296	2	12.5	2	100	0	50	48	0	0	52	1.00
1294731--1294791	23	2.6	23	73	2	68	32	16	9	40	1.81
1294596--1294923	156	2.1	157	89	1	505	33	13	12	40	1.82
1295615--1295657	20	2.2	20	88	8	63	60	11	4	23	1.50
1296110--1296180	30	2.6	25	82	17	79	50	2	1	45	1.25
1305002--1305055	24	2.2	24	100	0	108	38	11	33	16	1.84
1306275--1306349	18	3.8	19	78	15	71	20	17	33	29	1.95
1306275--1306347	20	3.6	21	81	15	75	20	17	34	27	1.95
1309045--1309148	23	4.7	23	79	13	103	26	19	27	25	1.99
1309047--1309148	44	2.3	44	86	6	145	26	19	27	26	1.99
1309045--1309149	21	4.8	22	80	13	119	26	19	27	26	1.99
1312928--1312967	21	1.9	21	85	10	55	35	10	2	52	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1314565--1314637	20	3.7	20	82	12	78	20	19	34	26	1.96
1314565--1314618	21	2.7	19	83	13	56	22	20	31	25	1.98
1314565--1314638	19	3.7	19	77	15	69	20	18	33	27	1.96
1316706--1316803	21	4.8	20	76	6	79	37	22	18	21	1.94
1316770--1316963	20	9.6	20	80	5	212	36	25	19	19	1.95
1316770--1316963	60	3.2	60	83	0	244	36	25	19	19	1.95
1317339--1317403	30	2.2	30	91	0	103	12	24	16	46	1.82
1317481--1317590	21	5.8	20	74	17	108	45	18	24	11	1.83
1317474--1317590	41	3.1	38	81	14	145	46	17	25	11	1.81
1317541--1317597	14	3.7	14	75	20	60	43	22	24	8	1.81
1317533--1317613	33	2.5	33	95	0	144	46	22	22	8	1.78
1317609--1317673	19	3.7	19	72	19	68	10	23	23	43	1.85
1317631--1317687	14	3.7	14	75	20	60	8	24	24	42	1.83
1317614--1317695	33	2.5	33	95	0	155	9	23	20	46	1.80
1319387--1319853	185	2.5	183	98	1	891	21	12	19	46	1.83
1319387--1319852	93	5.1	93	97	1	895	21	12	19	46	1.83
1319900--1320028	19	7.3	19	73	17	116	45	27	17	9	1.78
1319936--1320028	33	2.8	32	88	4	141	46	26	18	8	1.78
1319900--1320028	52	2.5	52	72	14	131	45	27	17	9	1.78
1320024--1320158	19	7.6	19	75	16	128	11	19	23	45	1.82
1320046--1320102	14	3.7	14	77	20	60	10	21	22	45	1.82
1320029--1320121	33	2.8	33	95	0	168	10	20	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1322079--1322114	14	2.6	14	95	0	63	33	0	22	44	1.53
1322221--1322317	19	5.4	19	83	14	134	45	17	22	14	1.85
1322221--1322335	52	2.2	52	96	3	214	43	18	24	13	1.86
1322363--1322541	19	10.4	19	72	23	173	13	21	18	46	1.83
1322341--1322541	52	3.9	52	76	15	222	13	22	18	45	1.84
1322382--1322555	33	5.2	33	93	4	305	12	22	18	45	1.83
1322401--1322488	14	5.6	14	71	23	68	11	23	19	45	1.83
1322382--1322555	67	2.6	66	95	2	305	12	22	18	45	1.83
1325760--1325989	20	11.5	20	84	1	228	20	18	24	36	1.94
1325976--1326058	21	4.0	21	73	6	78	25	16	24	33	1.96
1325956--1326054	42	2.4	43	77	11	100	21	18	23	37	1.94
1327349--1327392	19	2.3	19	88	0	61	38	27	9	25	1.86
1327445--1327522	20	3.9	20	89	0	120	35	21	20	21	1.96
1327430--1327540	40	2.8	40	83	6	125	39	21	16	22	1.92
1327716--1327754	16	2.5	15	84	8	51	28	5	0	66	1.12
1328308--1328341	12	2.8	12	90	0	50	55	29	0	14	1.40
1330790--1330830	12	3.4	12	86	0	55	56	24	2	17	1.53
1330789--1330823	6	5.8	6	86	0	52	60	20	2	17	1.49
1331623--1331675	24	2.2	24	89	0	79	37	1	13	47	1.54
1331978--1332064	39	2.2	39	89	4	131	45	18	14	20	1.84
1333864--1333962	21	4.7	21	76	8	94	22	19	34	24	1.96
1333844--1333962	42	2.8	41	77	9	132	22	20	34	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1334103--1334144	12	3.5	12	83	0	57	66	2	2	28	1.16
1334367--1334416	21	2.4	21	93	0	91	34	30	16	20	1.94
1336509--1336672	39	4.2	39	97	1	301	18	16	25	39	1.91
1336494--1336672	59	3.0	61	86	5	251	18	16	24	40	1.90
1336494--1336660	20	8.4	20	88	2	248	19	16	23	40	1.90
1336666--1336712	20	2.3	20	88	0	76	21	17	25	36	1.94
1336701--1336753	20	2.6	21	79	8	74	22	15	33	28	1.94
1337054--1337115	22	2.9	21	79	11	63	51	0	0	48	1.00
1337057--1337121	7	9.0	7	83	11	60	52	1	0	46	1.10
1341086--1341132	24	2.0	23	88	12	69	36	4	4	55	1.39

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14