genome.fa.s7711.2.7.7.80.10.50.1000.6.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: VEPZ01007711.1 Hibiscus syriacus cultivar Beakdansim tig00109926_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1768490

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 857 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)
1352773--1352808	15	2.3	16	85	9	56	41	0	8	50	1.33
1353070--1353128	26	2.3	25	75	18	66	47	8	3	40	1.51
1355947--1356341	124	3.2	124	99	0	781	43	2	10	43	1.52
1356005--1356336	26	13.2	26	78	10	316	44	2	10	42	1.52
1357381--1357421	20	2.0	21	85	4	57	34	2	0	63	1.08
1358422--1358452	15	2.1	14	94	5	53	54	6	0	38	1.26
1358427--1358473	16	3.0	16	84	9	53	59	10	0	29	1.31
1358629--1358720	46	2.0	48	87	8	136	46	11	0	41	1.41
1358629--1358733	47	2.2	48	85	10	135	47	12	0	40	1.41
1358701--1358789	41	2.2	40	78	8	90	46	10	1	42	1.45
1358924--1358976	21	2.5	21	96	0	97	1	35	0	62	1.06
1358947--1358978	17	1.9	16	93	6	55	0	37	0	62	0.95
1358981--1359026	23	2.0	23	100	0	92	8	39	4	47	1.54
1359143--1359198	27	2.1	27	96	0	103	25	23	25	26	2.00
1359267--1359346	29	2.8	29	84	3	99	21	30	33	15	1.94
1359378--1359404	13	2.1	13	100	0	54	14	40	14	29	1.86
1359367--1359456	45	2.0	46	95	2	164	16	31	20	32	1.95
1359423--1359458	13	2.8	13	88	12	56	13	36	16	33	1.89
1360588--1360675	31	2.8	31	77	6	90	30	7	10	51	1.64
1361191--1361246	14	4.3	14	69	17	57	14	12	16	57	1.66
1361209--1361266	24	2.4	24	88	5	82	15	8	17	58	1.61
1361818--1361889	24	3.0	24	97	0	135	29	18	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1363765--1363923	20	7.8	20	80	2	183	32	24	13	30	1.93
1363765--1363923	41	3.9	40	85	3	183	32	24	13	30	1.93
1363768--1363923	61	2.6	60	81	3	186	32	24	13	29	1.93
1364098--1364157	20	3.0	20	82	4	84	26	16	28	28	1.97
1364092--1364167	21	3.7	21	80	5	84	28	14	27	28	1.95
1364099--1364167	20	3.4	20	78	4	75	26	14	30	28	1.95
1364224--1364279	21	2.8	20	83	8	69	25	19	30	25	1.98
1364227--1364279	20	2.5	22	82	8	67	24	20	28	26	1.99
1364035--1364497	111	4.2	111	89	2	705	28	16	23	30	1.96
1364035--1364497	223	2.1	222	91	2	741	28	16	23	30	1.96
1364434--1364523	20	4.4	20	77	2	99	27	16	26	28	1.97
1368426--1368494	33	2.1	33	91	0	111	31	10	44	13	1.76
1368603--1368641	21	1.9	20	89	5	60	33	0	10	56	1.33
1374808--1374858	20	2.8	19	77	11	54	37	7	29	25	1.84
1374940--1374968	14	2.1	14	100	0	58	37	0	20	41	1.53
1374995--1375051	22	2.6	22	100	0	114	33	5	7	54	1.50
1376969--1377013	23	1.9	24	81	4	56	24	4	24	46	1.71
1378386--1378429	19	2.3	18	82	17	54	22	4	6	65	1.35
1378591--1378641	24	2.2	23	86	10	68	19	3	5	70	1.24
1378603--1378648	24	1.9	24	86	0	65	21	4	6	67	1.32
1384376--1384440	22	3.0	22	97	0	121	27	26	18	27	1.98
1386094--1386134	22	1.9	21	90	5	64	70	2	0	26	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386286--1386361	19	3.8	19	73	10	80	15	21	25	38	1.92
1386290--1386406	41	2.9	42	85	9	147	17	20	24	37	1.93
1386392--1386445	22	2.5	22	87	0	90	18	16	27	37	1.93
1386544--1386568	6	4.2	6	100	0	50	36	32	0	32	1.58
1386565--1386614	6	8.5	6	97	2	93	32	52	16	0	1.44
1387104--1387142	6	6.5	6	100	0	78	0	15	51	33	1.44
1387221--1387287	19	3.5	19	100	0	134	41	17	20	19	1.90
1387343--1387443	22	4.9	20	68	10	60	40	23	17	17	1.91
1387218--1387444	41	5.8	42	78	13	234	38	21	19	19	1.93
1387226--1387452	116	2.0	113	90	2	355	38	21	19	20	1.94
1387353--1387424	22	3.4	22	73	11	87	37	26	18	18	1.93
1389419--1389490	25	2.7	26	73	16	76	43	5	1	50	1.34
1396539--1396656	21	5.7	21	71	6	80	36	26	15	22	1.93
1396682--1396872	20	9.6	20	82	4	215	35	24	18	21	1.96
1396643--1396874	40	5.8	40	83	4	186	37	24	18	19	1.94
1396643--1396852	60	3.5	59	79	3	197	36	24	18	20	1.94
1397555--1397601	24	2.0	24	87	8	69	25	14	21	38	1.92
1400080--1400257	33	5.2	33	84	10	241	46	18	21	14	1.84
1400094--1400263	19	9.7	19	76	19	181	45	18	21	15	1.85
1400061--1400263	67	2.9	71	89	5	299	44	19	21	14	1.86
1400253--1400369	53	2.2	53	98	1	227	13	23	17	44	1.85
1400272--1400369	19	5.4	19	84	13	143	14	22	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1400476--1400512	14	2.6	14	91	0	65	45	21	0	32	1.52
1404353--1404413	28	2.1	29	81	3	70	40	21	4	32	1.74
1404402--1404510	29	3.8	29	90	0	164	48	20	10	21	1.78
1404375--1404508	58	2.3	58	85	1	171	47	20	8	23	1.78
1411769--1411841	28	2.5	28	82	4	74	41	21	6	30	1.79
1411818--1411923	29	3.7	29	83	1	142	47	19	9	23	1.79
1411947--1411987	18	2.3	18	95	0	73	17	19	46	17	1.85
1413448--1413474	13	2.1	13	100	0	54	29	14	33	22	1.94
1420527--1420552	2	13.0	2	100	0	52	50	0	0	50	1.00
1427607--1427677	36	2.0	36	91	5	117	32	25	22	19	1.98
1427610--1427692	36	2.3	36	85	4	105	32	26	20	20	1.97
1429765--1429807	22	2.0	21	81	4	50	46	4	4	44	1.45
1431311--1431354	22	2.0	22	82	8	54	56	20	9	13	1.64
1431384--1431429	24	1.9	24	86	0	65	47	15	13	23	1.80
1435820--1435878	23	2.7	22	84	7	77	57	1	0	40	1.09
1435826--1435878	22	2.5	20	85	11	70	58	1	0	39	1.09
1436642--1436700	19	3.4	18	68	22	54	38	5	0	55	1.22
1436662--1436745	11	7.6	11	65	19	50	36	3	1	58	1.23
1436647--1436760	33	3.5	33	88	4	171	39	6	1	52	1.37
1438105--1438173	30	2.2	30	85	15	95	34	5	17	42	1.73
1438114--1438173	30	2.0	30	93	6	104	33	6	16	43	1.74
1438254--1438369	21	5.6	20	85	9	144	22	37	18	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1438394--1438461	20	3.3	20	80	8	75	19	23	25	32	1.97
1441662--1441730	30	2.2	30	85	15	95	34	5	17	42	1.73
1441671--1441730	30	2.0	30	93	6	104	33	6	16	43	1.74
1441810--1441908	21	4.8	20	77	10	101	23	35	19	22	1.96
1441929--1442012	21	4.0	21	84	6	109	21	25	28	25	1.99
1441929--1442012	41	2.0	42	84	6	109	21	25	28	25	1.99
1442116--1442155	20	1.9	22	90	10	66	37	40	10	12	1.77
1443694--1443763	19	3.7	19	96	0	122	21	21	27	30	1.98
1443991--1444027	15	2.5	15	95	4	67	43	10	13	32	1.79
1444789--1444826	20	1.9	20	94	0	67	31	21	7	39	1.82
1451020--1451125	31	3.4	31	88	2	142	46	16	6	31	1.72
1451674--1451720	16	2.7	17	83	12	60	59	0	0	40	0.97
1455382--1455455	31	2.5	29	82	8	87	29	17	9	43	1.81
1458671--1458745	38	2.0	37	82	7	89	18	8	40	33	1.80
1461005--1461041	14	2.6	15	83	8	51	59	0	0	40	0.97
1460994--1461046	21	2.4	23	84	6	65	56	0	1	41	1.10
1461467--1461498	16	2.0	16	100	0	64	25	12	18	43	1.85
1482390--1482479	27	3.7	23	76	20	67	38	1	1	58	1.12
1482390--1482445	22	2.5	23	81	13	57	37	0	1	60	1.07
1482411--1482490	26	3.1	26	78	16	94	37	1	0	61	1.04
1482411--1482537	52	2.6	48	78	15	120	37	1	1	59	1.17
1483624--1483665	21	2.0	21	90	9	68	57	14	16	11	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1483685--1483737	14	4.1	14	81	18	69	7	15	24	52	1.68
1483672--1483737	24	2.8	24	88	0	96	9	15	22	53	1.70
1483715--1483750	14	2.6	14	90	0	54	13	11	13	61	1.58
1483672--1483750	38	2.1	38	83	4	97	11	13	20	54	1.70
1483919--1484019	7	14.4	7	77	0	67	46	31	0	21	1.52
1483919--1484028	21	5.2	21	80	2	87	46	31	0	21	1.52
1485257--1485314	23	2.5	23	94	0	107	32	22	18	25	1.97
1485551--1485623	16	4.7	16	76	3	69	15	8	15	61	1.55
1486659--1486692	14	2.4	14	95	5	59	76	0	8	14	1.01
1486800--1486900	13	7.9	13	65	18	52	49	7	0	42	1.32

Tables:   1   2   3   4   5   6   7   8