genome.fa.s1279.2.7.7.80.10.50.1000.6.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  6  of  29  ( 3433 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)
1197642--1197733	26	3.4	27	77	15	75	42	7	1	48	1.38
1197765--1197864	31	3.2	30	77	9	103	53	1	5	41	1.30
1197781--1197871	31	3.0	30	79	4	110	54	0	5	39	1.23
1197832--1198005	30	5.9	30	78	9	153	54	0	8	36	1.36
1199015--1199062	20	2.4	20	85	0	60	29	20	18	31	1.97
1200532--1200755	30	7.3	30	75	12	125	54	2	8	35	1.42
1200512--1200775	60	4.3	61	72	10	175	53	1	8	36	1.43
1200756--1200802	18	2.6	18	86	3	58	40	2	12	44	1.54
1205090--1205186	50	1.9	50	89	0	149	31	23	24	19	1.98
1207633--1207658	10	2.6	10	100	0	52	92	7	0	0	0.39
1217476--1217516	14	2.9	14	81	0	55	29	2	19	48	1.61
1218618--1218657	14	2.9	14	88	0	62	27	2	22	47	1.64
1223764--1223832	33	2.1	33	100	0	138	44	8	13	33	1.74
1228575--1228648	31	2.4	30	82	4	85	35	13	32	18	1.90
1231832--1231874	20	2.0	21	91	8	70	30	20	13	34	1.92
1232897--1233051	65	2.4	65	81	7	163	30	22	17	29	1.97
1236409--1236448	18	2.2	18	100	0	80	52	10	17	20	1.72
1241634--1241760	65	2.0	65	84	6	168	30	24	16	28	1.96
1243698--1243737	21	1.9	21	89	0	62	52	7	10	30	1.62
1246830--1246866	16	2.3	16	95	0	65	21	8	40	29	1.82
1247558--1247680	44	2.8	40	77	13	111	28	22	19	29	1.98
1247577--1247655	23	3.5	23	71	23	69	25	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1248151--1248184	13	2.8	12	86	8	50	35	8	2	52	1.47
1250352--1250478	65	2.0	65	87	3	184	29	25	16	28	1.97
1252414--1252453	21	1.9	21	89	0	62	52	7	10	30	1.62
1255901--1255939	21	1.9	20	84	5	51	33	12	17	35	1.88
1256466--1256499	13	2.8	12	86	8	50	35	8	2	52	1.47
1258662--1258787	64	2.0	65	84	4	166	30	25	15	28	1.95
1260520--1260562	21	2.0	21	86	0	59	44	9	13	32	1.76
1262033--1262071	17	2.3	18	86	8	55	7	7	10	74	1.22
1262436--1262471	17	2.1	17	89	0	54	61	5	11	22	1.50
1263080--1263123	20	2.2	20	95	0	79	29	9	34	27	1.87
1265521--1265554	13	2.6	13	100	0	68	32	17	8	41	1.80
1265520--1265562	13	3.4	13	90	3	61	32	16	9	41	1.80
1267446--1267505	30	2.0	31	86	3	86	35	10	31	23	1.88
1268908--1268953	19	2.6	18	89	6	67	15	4	34	45	1.66
1271450--1271484	16	2.2	16	100	0	70	37	25	5	31	1.80
1272181--1272218	17	2.3	17	90	4	60	47	5	2	44	1.39
1272228--1272281	27	2.0	28	82	10	67	44	1	3	50	1.30
1272392--1272455	29	2.2	29	94	0	110	32	7	12	46	1.70
1272477--1272724	107	2.3	109	87	5	358	35	11	13	39	1.80
1272800--1272838	20	2.0	20	89	0	60	51	2	2	43	1.29
1273261--1273334	29	2.5	30	80	12	91	31	9	27	32	1.88
1274050--1274109	28	2.1	28	82	11	70	21	36	8	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287534--1287592	29	2.0	29	100	0	118	49	13	13	23	1.78
1290196--1290227	14	2.3	14	94	0	55	62	0	3	34	1.11
1297693--1297778	19	4.6	18	73	15	59	72	5	5	16	1.24
1297820--1297860	2	20.5	2	100	0	82	51	0	0	48	1.00
1297916--1297964	16	3.0	17	77	20	59	75	8	2	14	1.12
1297978--1298004	2	13.5	2	100	0	54	51	0	0	48	1.00
1299270--1299322	6	8.3	6	82	12	52	73	0	1	24	0.93
1299290--1299324	3	11.3	3	93	6	61	68	0	0	31	0.90
1299272--1299324	13	4.1	13	85	9	72	71	0	1	26	0.96
1299319--1299634	37	8.6	37	77	15	234	49	5	3	42	1.41
1299328--1299606	76	3.9	73	75	15	201	49	5	3	42	1.40
1299524--1299578	28	2.0	27	89	10	85	41	7	1	49	1.41
1299564--1299659	35	2.6	35	85	6	111	44	8	7	39	1.62
1300226--1301380	84	13.9	83	84	3	1365	24	18	22	34	1.96
1300225--1301376	167	6.9	167	85	3	1344	24	18	22	34	1.96
1301321--1301436	60	1.9	60	89	0	178	21	21	21	35	1.96
1301237--1301523	143	2.0	144	86	2	407	22	20	22	34	1.97
1301382--1302161	84	9.3	84	87	1	994	23	19	24	32	1.97
1303294--1303557	95	2.7	94	84	6	325	32	18	17	31	1.94
1306133--1306183	2	25.5	2	100	0	102	50	0	0	49	1.00
1306200--1306239	13	3.2	13	82	7	55	80	0	5	15	0.88
1306292--1306344	24	2.3	23	78	18	56	62	0	3	33	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306389--1306437	16	3.0	17	77	20	59	75	8	2	14	1.12
1306391--1306464	32	2.4	30	80	14	73	77	5	6	10	1.13
1306504--1306577	19	3.9	18	74	20	71	75	1	5	17	1.06
1306505--1306580	39	1.9	38	87	10	109	75	1	5	18	1.07
1307870--1308053	29	6.4	29	81	7	169	45	18	4	31	1.71
1307901--1308055	56	2.7	58	80	10	192	45	18	5	30	1.73
1308067--1308118	17	3.1	17	80	0	68	17	19	42	21	1.89
1308118--1308175	19	3.1	19	87	0	62	18	25	32	22	1.97
1308132--1308179	19	2.5	19	89	0	69	22	27	29	20	1.99
1310470--1310545	15	5.1	15	67	19	52	27	9	21	42	1.83
1312221--1312586	36	9.8	36	78	13	309	46	7	3	42	1.49
1312221--1312545	74	4.4	71	82	9	343	46	6	3	43	1.46
1312204--1312558	111	3.2	108	84	8	409	46	6	3	43	1.46
1312575--1312603	2	14.5	2	100	0	58	51	0	0	48	1.00
1312980--1313076	44	2.2	42	87	5	140	45	10	3	41	1.54
1319927--1320018	3	33.0	3	76	16	74	30	0	1	68	0.97
1319925--1320014	16	5.6	16	75	13	69	28	0	1	70	0.95
1319928--1320014	19	4.5	19	82	7	86	29	0	1	68	0.96
1319927--1320018	22	4.3	21	74	8	78	30	0	1	68	0.97
1321583--1321956	126	3.0	121	73	16	333	39	8	9	42	1.69
1321760--1321997	116	2.1	116	83	3	300	36	9	9	43	1.70
1325039--1325067	11	2.6	11	100	0	58	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325049--1325095	19	2.5	19	76	13	53	42	0	0	57	0.98
1326184--1326212	2	14.5	2	100	0	58	51	0	0	48	1.00
1327390--1327556	29	5.7	29	83	5	158	33	2	14	49	1.56
1327422--1327585	29	5.7	29	82	5	172	31	3	14	51	1.57
1347808--1347837	12	2.6	12	94	5	53	13	6	10	70	1.34
1349143--1349331	85	2.2	84	85	5	247	32	17	19	30	1.95
1349143--1349356	85	2.5	85	79	11	233	33	17	18	30	1.94
1373293--1373367	34	2.2	34	90	2	123	48	2	14	34	1.58
1374618--1374663	24	1.9	24	90	0	74	19	0	54	26	1.44
1374880--1374906	2	13.5	2	100	0	54	51	0	0	48	1.00
1375452--1375508	22	2.7	21	84	13	73	36	14	19	29	1.91
1383966--1384038	27	2.7	27	89	0	119	39	2	12	45	1.56
1394160--1394189	13	2.3	13	94	0	51	76	0	13	10	1.01
1408625--1408690	26	2.5	26	95	2	114	42	0	30	27	1.56
1411308--1411350	18	2.4	18	96	0	77	30	6	27	34	1.83
1411853--1411923	22	3.5	19	81	12	88	29	15	26	28	1.96
1412261--1412412	56	2.7	55	83	3	187	38	10	15	34	1.82
1418475--1418523	19	2.5	19	80	3	53	32	18	26	22	1.97
1418933--1419090	56	2.8	56	86	3	228	36	15	18	29	1.92
1419049--1419133	43	2.0	43	88	0	125	35	14	21	29	1.92
1419523--1419734	41	5.0	43	83	5	236	23	24	21	31	1.99
1419556--1419723	85	2.0	84	85	5	225	21	24	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1422415--1422447	17	1.9	17	88	11	50	18	18	0	63	1.31
1422665--1422747	32	2.6	32	84	3	96	33	13	19	33	1.90
1422705--1422779	32	2.3	33	84	8	93	33	13	21	32	1.92
1428420--1428495	32	2.4	32	81	0	98	31	13	18	36	1.89
1431168--1431584	47	8.9	47	89	1	613	23	21	11	43	1.85
1431454--1431571	20	5.2	20	65	25	56	22	24	11	41	1.87
1431464--1431551	27	3.5	26	69	20	80	20	25	12	42	1.87
1431672--1431709	2	19.0	2	100	0	76	50	0	0	50	1.00
1432466--1432520	26	2.1	26	100	0	110	36	25	0	38	1.56
1439553--1439586	17	2.1	17	88	5	52	32	23	5	38	1.79

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29