genome.fa.s8497.2.7.7.80.10.50.1000.6.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: VEPZ01008497.1 Hibiscus syriacus cultivar Beakdansim tig00111342_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504768

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 719 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)
1237938--1237970	17	1.9	17	93	0	57	57	12	3	27	1.49
1237918--1238001	43	2.0	43	97	0	159	52	8	2	36	1.45
1242303--1242406	51	2.0	51	100	0	208	31	11	7	49	1.67
1242915--1243026	56	2.0	56	98	0	215	36	33	7	23	1.82
1243038--1243100	6	10.3	6	94	1	108	50	0	49	0	1.00
1250589--1250619	16	1.9	16	100	0	62	58	22	12	6	1.58
1250689--1250733	16	2.8	16	93	0	81	55	24	11	8	1.63
1250968--1251024	12	4.8	12	82	4	80	21	22	24	31	1.98
1250932--1251011	23	3.4	23	80	1	88	28	21	23	26	1.99
1253908--1253950	2	21.5	2	100	0	86	51	0	0	48	1.00
1253950--1254013	2	32.0	2	100	0	128	50	0	50	0	1.00
1254993--1255035	21	2.0	21	82	8	52	23	9	30	37	1.86
1255670--1255711	16	2.7	16	79	17	52	45	4	4	45	1.45
1255847--1256009	2	82.0	2	65	23	60	49	5	1	42	1.36
1255977--1256037	10	6.0	10	74	11	52	47	0	3	49	1.18
1255987--1256043	7	8.3	7	75	21	50	50	0	1	47	1.11
1255960--1256044	31	2.7	32	82	15	81	51	1	2	44	1.21
1256337--1256560	102	2.2	102	82	4	247	33	21	8	35	1.85
1256398--1256755	193	1.9	193	82	7	458	34	24	6	35	1.80
1256569--1256755	103	1.8	103	90	2	304	34	24	4	36	1.77
1256992--1257061	34	2.1	32	86	5	95	21	31	14	32	1.93
1257345--1257386	21	2.0	21	95	0	75	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1257494--1257560	19	3.5	19	91	0	89	35	13	10	40	1.79
1257625--1257684	29	2.0	31	90	6	97	41	16	6	35	1.75
1260203--1260242	15	2.7	15	88	11	57	17	5	0	77	0.94
1260401--1260430	15	2.1	15	93	6	53	20	6	0	73	1.05
1260606--1260668	21	3.2	20	76	10	67	14	1	9	74	1.13
1260586--1260707	33	3.5	33	78	13	104	16	0	9	72	1.15
1260621--1260706	12	7.4	12	75	13	74	15	1	9	74	1.12
1260652--1260727	23	3.3	22	77	15	73	11	1	9	77	1.05
1260632--1260721	46	2.0	45	82	6	110	13	2	10	74	1.16
1263129--1263180	9	5.6	9	73	8	50	53	0	11	34	1.37
1263127--1263185	19	3.1	19	92	2	100	55	0	10	33	1.33
1265592--1265651	25	2.4	25	88	0	93	40	1	6	51	1.38
1271200--1271232	2	16.5	2	100	0	66	0	48	0	51	1.00
1271232--1271271	2	20.0	2	100	0	80	50	0	0	50	1.00
1282793--1282825	16	2.0	17	94	5	59	63	12	0	24	1.28
1285640--1285674	17	2.1	17	94	0	61	25	22	22	28	1.99
1285662--1285695	17	2.0	17	94	0	59	32	11	14	41	1.82
1288090--1288124	18	1.9	18	94	0	61	45	20	22	11	1.82
1288129--1288160	2	16.0	2	93	0	55	46	0	0	53	1.00
1288408--1288437	2	15.0	2	100	0	60	50	0	0	50	1.00
1298404--1298433	9	3.2	9	90	9	51	60	20	20	0	1.37
1298703--1298730	14	2.0	14	100	0	56	42	0	7	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299600--1299636	19	1.9	19	89	10	58	45	0	0	54	1.00
1304108--1304233	43	2.9	42	86	2	162	23	15	19	40	1.91
1305404--1305429	6	4.3	6	100	0	52	61	19	0	19	1.35
1309656--1309707	2	27.0	2	88	7	81	50	1	0	48	1.12
1311031--1311103	36	2.0	36	81	5	85	34	13	0	52	1.41
1313808--1313838	2	15.5	2	93	0	53	48	3	0	48	1.17
1314319--1314368	22	2.3	22	96	0	91	26	24	28	22	1.99
1315843--1315939	2	48.5	2	100	0	194	50	0	0	49	1.00
1316294--1316406	59	1.9	60	88	1	174	47	7	0	43	1.38
1325180--1325246	2	33.5	2	100	0	134	49	0	0	50	1.00
1326747--1326799	24	2.2	24	90	6	81	32	1	30	35	1.69
1334784--1334813	2	15.0	2	100	0	60	50	0	0	50	1.00
1338611--1338644	2	17.0	2	100	0	68	50	0	0	50	1.00
1341729--1341778	15	3.3	15	77	0	55	14	40	6	40	1.70
1341841--1341898	9	6.8	9	72	18	52	1	41	13	43	1.55
1341841--1341929	24	4.0	22	75	19	69	3	40	13	42	1.61
1341852--1341895	18	2.4	18	96	0	79	0	43	13	43	1.44
1347089--1347137	25	2.0	25	84	8	64	61	2	8	28	1.36
1353520--1353629	39	2.8	39	84	5	150	26	28	1	43	1.65
1355037--1355074	18	2.1	18	95	0	67	26	28	10	34	1.90
1357055--1357093	16	2.5	16	87	4	53	30	17	10	41	1.83
1360999--1361049	19	2.6	20	87	3	77	27	15	11	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364929--1364968	17	2.4	17	86	0	53	17	27	32	22	1.96
1365112--1365147	16	2.3	15	90	4	54	52	5	0	41	1.24
1375664--1375746	19	4.2	20	76	7	73	38	21	15	24	1.92
1375671--1375741	19	3.7	19	86	1	88	39	22	11	26	1.88
1376653--1376706	24	2.2	24	90	0	81	20	16	20	42	1.89
1378968--1379003	18	2.0	18	94	0	63	55	25	2	16	1.55
1379289--1379358	20	3.5	20	98	0	131	41	22	20	15	1.90
1379362--1379403	20	2.1	20	95	0	75	21	21	26	30	1.98
1379494--1379543	25	2.0	25	88	0	73	28	10	18	44	1.81
1381704--1381743	2	20.5	2	94	5	73	50	0	0	50	1.00
1382158--1382234	21	3.7	21	71	13	68	22	20	35	22	1.96
1382152--1382240	42	2.1	42	83	8	110	23	19	34	22	1.96
1384848--1384952	20	5.2	20	78	13	117	20	17	22	39	1.93
1384848--1385033	40	4.6	42	73	12	131	25	16	24	33	1.96
1384947--1384990	21	2.1	21	95	0	79	40	15	22	20	1.90
1384985--1385034	19	2.5	20	84	12	68	22	14	28	36	1.92
1406946--1406982	2	18.5	2	100	0	74	51	0	0	48	1.00
1417075--1417122	23	2.1	23	84	0	60	37	12	16	33	1.86
1417598--1417670	23	3.2	23	90	0	92	39	19	4	36	1.71
1419300--1419365	33	2.0	33	87	0	96	22	46	0	30	1.52
1419411--1419463	21	2.5	21	96	0	97	15	32	9	43	1.78
1421677--1421733	20	2.9	20	80	12	64	21	15	8	54	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421645--1422116	180	2.6	180	90	1	676	27	16	13	42	1.86
1427563--1427662	24	4.2	24	74	5	94	47	17	14	22	1.82
1427556--1427664	48	2.3	48	77	0	119	48	16	13	21	1.80
1430192--1430219	13	2.2	13	100	0	56	21	25	39	14	1.91
1431050--1431123	39	1.9	38	94	2	130	35	14	0	50	1.44
1431369--1431417	24	2.0	24	84	7	64	42	14	14	28	1.84
1440900--1441093	93	2.1	93	93	1	327	38	9	20	31	1.85
1441734--1441826	22	4.2	22	95	0	168	29	19	40	10	1.85
1443925--1443980	24	2.3	24	100	0	112	23	7	33	35	1.82
1446616--1446727	60	1.9	60	83	3	147	44	1	2	50	1.26
1448923--1448956	2	17.0	2	100	0	68	50	0	0	50	1.00
1456532--1456594	21	3.0	21	80	0	81	22	4	30	42	1.74
1464018--1464047	14	2.1	14	93	0	51	43	0	6	50	1.28
1464321--1464477	52	3.0	52	94	1	269	45	14	3	36	1.62
1464321--1464481	53	3.1	53	95	0	279	45	13	3	36	1.62
1465531--1465635	51	2.1	51	92	0	174	33	3	15	47	1.63
1467164--1467239	36	2.1	37	95	2	136	32	34	14	18	1.91
1470525--1470568	16	2.8	16	100	0	88	36	0	25	38	1.56
1480716--1481066	180	1.9	181	87	2	508	30	17	30	21	1.96
1489243--1489267	5	5.0	5	100	0	50	20	0	0	80	0.72
1489652--1489709	30	1.9	30	82	3	71	51	3	8	36	1.49
1490924--1490960	2	18.5	2	100	0	74	51	0	48	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1491278--1491405	62	2.0	62	89	1	193	43	11	6	38	1.66
1491427--1491611	60	3.1	60	78	4	194	42	4	18	34	1.70
1492794--1492952	60	2.7	59	81	3	167	40	6	18	35	1.76
1492855--1492972	59	2.0	59	85	3	157	38	5	19	36	1.74
1494298--1494323	13	2.0	13	100	0	52	61	7	0	30	1.24
1500444--1500569	62	2.0	62	96	0	234	38	18	4	38	1.72
1502100--1502137	18	2.1	19	95	5	69	5	34	18	42	1.73
1502849--1502890	20	2.0	21	95	4	77	40	19	35	4	1.72
1504445--1504540	28	3.4	28	72	11	104	37	3	20	38	1.69

Tables:   1   2   3   4   5   6

The End!