genome.fa.s9247.2.7.7.80.10.50.1000.8.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: VEPZ01009247.1 Hibiscus syriacus cultivar Beakdansim tig00112888_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1479039

Tables:   1   2   3   4   5   6   7   8   

This is table  8  of  8  ( 948 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)
1304129--1304158	15	1.9	16	93	6	53	10	10	0	80	0.92
1304129--1304158	8	3.9	8	91	8	53	10	10	0	80	0.92
1307087--1307125	19	2.1	19	90	0	60	7	12	23	56	1.62
1307123--1307157	16	2.1	16	89	5	52	5	31	14	48	1.67
1307420--1307459	11	3.5	11	80	6	53	40	2	5	52	1.37
1307708--1307757	23	2.1	24	92	3	84	48	2	0	50	1.12
1307925--1307963	19	2.0	19	85	5	51	48	5	0	46	1.24
1308034--1308083	16	3.1	16	100	0	100	36	12	32	20	1.89
1309593--1309620	2	14.0	2	100	0	56	50	0	0	50	1.00
1310051--1310080	3	10.0	3	100	0	60	33	0	0	66	0.92
1310811--1310893	2	41.0	2	80	7	96	46	6	1	45	1.35
1311009--1311053	2	22.5	2	100	0	90	51	0	0	48	1.00
1313764--1313829	5	13.2	5	98	0	114	19	0	43	36	1.51
1313853--1313930	23	3.5	22	75	15	79	47	0	5	47	1.24
1313851--1313925	24	3.3	24	73	17	70	48	0	5	46	1.25
1313935--1313979	22	2.0	21	83	8	54	17	6	0	75	1.01
1333395--1333943	156	3.5	155	83	2	627	46	5	18	29	1.72
1335779--1335803	8	3.1	8	100	0	50	76	0	12	12	1.04
1338272--1338296	13	1.9	13	100	0	50	0	4	0	96	0.24
1349095--1349158	23	2.8	23	78	0	83	32	25	25	17	1.96
1353990--1354100	48	2.3	48	81	7	120	35	5	0	59	1.20
1354028--1354097	16	4.4	16	70	18	56	38	4	0	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1354103--1354134	15	2.1	15	94	0	55	12	9	0	78	0.97
1354104--1354157	21	2.6	20	80	13	56	16	5	3	74	1.16
1354178--1354211	2	17.5	2	93	6	61	47	0	0	52	1.00
1357280--1357335	27	2.1	27	96	0	103	25	16	37	21	1.93
1364575--1364777	110	1.9	106	87	2	246	38	24	15	21	1.92
1366186--1366228	2	21.5	2	100	0	86	48	0	0	51	1.00
1366283--1366308	2	13.0	2	100	0	52	50	0	0	50	1.00
1366320--1366392	17	4.6	17	70	28	54	34	4	1	60	1.24
1366397--1366428	15	2.1	15	94	0	55	12	9	0	78	0.97
1366398--1366451	21	2.6	20	80	13	56	14	5	5	74	1.19
1371171--1371221	20	2.5	20	93	0	84	21	19	31	27	1.97
1371187--1371230	20	2.2	20	83	0	52	25	22	31	20	1.98
1373449--1373489	21	2.0	21	100	0	82	34	24	21	19	1.97
1375513--1376074	198	2.8	196	83	3	689	37	6	11	45	1.64
1375949--1376027	33	2.4	33	78	12	83	39	5	7	48	1.54
1383476--1383512	19	1.9	19	88	0	56	35	27	16	21	1.94
1383538--1383649	20	5.6	20	82	4	136	27	25	20	25	1.99
1383538--1383673	40	3.4	40	79	7	143	30	24	19	26	1.98
1383815--1383865	22	2.3	22	89	0	75	25	43	9	21	1.83
1384256--1384356	20	5.4	19	69	15	59	18	17	22	40	1.91
1384255--1384303	19	2.5	20	83	3	64	12	18	24	44	1.84
1384240--1384378	73	1.9	73	82	5	174	23	17	19	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385215--1385270	23	2.5	23	77	13	71	50	0	3	46	1.19
1385316--1385357	20	2.2	19	86	4	57	64	2	0	33	1.07
1385236--1385461	120	1.9	119	81	6	280	46	9	7	36	1.64
1386809--1386895	3	29.7	3	79	9	99	60	0	0	39	0.97
1387242--1387897	113	5.8	112	86	3	915	30	19	12	37	1.89
1387241--1387913	224	3.0	224	94	0	1148	29	18	13	37	1.90
1399798--1399979	66	2.8	66	98	0	355	39	20	20	20	1.93
1400576--1400630	23	2.4	24	82	11	71	49	0	3	47	1.19
1400605--1400818	116	1.9	115	82	4	272	45	9	8	35	1.68
1402246--1402314	3	23.7	3	80	11	72	60	0	0	39	0.97
1403717--1403765	20	2.5	20	93	0	80	34	26	20	18	1.95
1403841--1403909	20	3.5	20	80	7	86	18	18	26	36	1.94
1403896--1403938	19	2.2	20	91	4	70	13	13	23	48	1.79
1404475--1404527	21	2.5	21	71	0	52	18	43	16	20	1.88
1404414--1404533	42	2.9	42	77	2	116	22	37	16	23	1.94
1405912--1405973	14	4.3	14	79	6	70	37	0	16	46	1.47
1405914--1405968	29	1.9	29	85	3	76	34	0	18	47	1.49
1406088--1406145	20	2.9	20	97	0	107	50	20	20	8	1.75
1406154--1406295	34	4.0	34	82	10	149	23	19	21	35	1.96
1406154--1406298	74	2.0	74	87	0	209	24	19	20	35	1.96
1406188--1406298	20	5.8	20	76	12	108	27	18	20	33	1.96
1406269--1406551	140	2.0	140	96	0	521	43	14	12	29	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1408906--1408959	24	2.2	24	90	0	81	42	18	18	20	1.89
1409780--1409868	20	4.4	20	81	8	108	23	17	28	30	1.97
1409795--1409907	41	2.8	39	85	4	136	23	17	25	32	1.97
1409933--1409969	19	1.9	19	88	0	56	24	16	27	32	1.96
1411009--1411041	17	1.9	18	88	11	52	27	0	9	63	1.24
1411818--1412349	180	2.9	176	75	8	453	38	10	10	40	1.75
1414416--1414519	53	2.0	53	84	3	138	26	16	23	33	1.95
1416713--1416781	20	3.5	20	74	7	77	37	15	20	26	1.93
1416713--1416789	20	3.8	20	74	6	75	36	15	20	27	1.93
1416733--1416822	20	4.5	20	75	10	85	30	22	21	26	1.99
1416709--1416800	40	2.3	40	94	0	157	35	18	19	26	1.95
1417641--1417694	24	2.2	24	90	0	81	22	18	18	40	1.91
1419941--1419971	12	2.6	12	94	0	53	48	25	6	19	1.72
1420149--1420429	20	14.7	20	80	9	291	35	22	20	21	1.96
1420174--1420389	54	3.9	54	88	4	254	36	23	19	20	1.95
1420154--1420429	74	3.7	74	77	8	279	35	22	20	21	1.96
1420564--1420643	30	2.4	34	80	20	114	55	15	3	26	1.57
1420579--1420644	30	2.2	30	100	0	132	54	13	3	28	1.54
1422634--1422709	20	3.8	20	92	0	116	35	23	19	21	1.96
1422752--1422876	20	6.2	20	90	1	137	20	20	24	34	1.97
1423027--1423076	18	2.8	18	100	0	100	42	6	20	32	1.76
1424814--1424887	20	3.7	20	88	0	94	43	24	17	14	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1425280--1425336	22	2.6	22	85	0	87	17	19	42	21	1.90
1425500--1425637	20	6.9	20	79	9	111	26	21	22	30	1.98
1425500--1425637	40	3.5	40	87	4	163	26	21	22	30	1.98
1436486--1436559	14	5.2	14	85	3	103	43	2	18	35	1.65
1436486--1436559	29	2.6	28	85	4	103	43	2	18	35	1.65
1436907--1436957	23	2.2	23	82	0	57	45	3	1	49	1.32
1436945--1437011	19	3.6	19	74	8	66	47	1	1	49	1.19
1437056--1437103	25	1.9	25	87	8	71	52	2	0	45	1.12
1437797--1437860	24	2.6	24	78	11	67	62	18	9	9	1.52
1438725--1438839	31	3.7	31	74	12	96	46	7	6	39	1.58
1443670--1443704	12	2.9	12	91	0	61	0	62	0	37	0.95
1450493--1450553	25	2.4	25	89	5	88	21	4	29	44	1.73
1453525--1453561	19	1.9	19	88	0	56	40	8	16	35	1.78
1454931--1454992	23	2.7	23	92	2	99	12	12	11	62	1.54
1455489--1455531	21	2.0	22	91	8	72	32	20	20	25	1.97
1460335--1460359	12	2.1	12	100	0	50	44	0	0	56	0.99
1462231--1462297	29	2.3	29	84	7	82	40	5	4	49	1.48
1462337--1462379	22	1.9	23	85	4	61	55	0	6	37	1.27
1462337--1462386	22	2.3	22	79	6	57	54	0	6	40	1.25
1467089--1467128	19	2.1	19	86	9	55	57	5	0	37	1.21

Tables:   1   2   3   4   5   6   7   8

The End!