genome.fa.s2875.2.7.7.80.10.50.1000.5.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: VEPZ01002875.1 Hibiscus syriacus cultivar Beakdansim tig00005929_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1473696

Tables:   1   2   3   4   5   

This is table  5  of  5  ( 570 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)
1232500--1232543	22	2.0	23	87	12	67	47	4	2	45	1.35
1234409--1234618	33	6.3	33	83	4	269	27	15	18	39	1.91
1234409--1234618	99	2.1	98	90	1	312	27	15	18	39	1.91
1237283--1237322	19	2.0	20	85	4	55	50	0	0	50	1.00
1248078--1248110	2	16.5	2	100	0	66	48	0	0	51	1.00
1249912--1250165	42	6.2	40	79	9	230	21	19	24	35	1.96
1249927--1250162	19	11.5	19	72	16	159	21	19	23	36	1.95
1249887--1250098	61	3.4	60	89	5	300	21	19	25	34	1.96
1266618--1266813	98	2.0	98	100	0	392	25	21	24	28	1.99
1267236--1267365	62	2.1	64	97	2	246	24	11	27	36	1.90
1274955--1275031	38	2.0	38	95	5	138	37	19	15	27	1.92
1278791--1278858	2	34.0	2	100	0	136	50	0	0	50	1.00
1280852--1280979	62	2.1	61	97	1	238	28	7	35	27	1.85
1299131--1299201	36	2.0	36	100	0	142	35	2	11	50	1.53
1304107--1304147	17	2.4	17	91	0	64	2	26	26	43	1.67
1304099--1304157	20	3.1	20	78	11	70	5	27	25	42	1.76
1304467--1304514	18	2.7	18	93	0	78	33	14	20	31	1.93
1306200--1306240	18	2.4	17	87	4	55	60	2	7	29	1.36
1308023--1308075	25	2.1	25	100	0	106	24	35	18	20	1.95
1310374--1310419	21	2.2	21	84	3	58	34	2	6	56	1.37
1312193--1312223	14	2.2	14	94	0	53	74	9	12	3	1.19
1315990--1316038	11	4.5	11	84	0	71	73	4	0	22	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1315998--1316041	21	2.0	21	95	4	79	72	9	0	18	1.10
1324869--1325165	145	2.0	145	92	0	486	30	17	24	26	1.97
1333139--1333207	9	7.7	9	88	3	68	40	0	0	59	0.97
1333139--1333197	3	19.7	3	92	0	100	37	0	0	62	0.95
1333130--1333206	12	6.4	12	84	3	84	41	0	0	58	0.98
1333193--1333231	9	3.8	10	84	15	53	56	2	0	41	1.13
1333317--1333353	16	2.4	16	90	4	58	8	54	18	18	1.68
1337681--1337750	12	5.8	12	80	6	79	51	18	15	14	1.77
1337679--1337787	24	4.5	24	79	2	121	47	17	16	18	1.83
1337679--1337787	48	2.3	47	85	3	137	47	17	16	18	1.83
1338910--1338945	18	2.0	18	88	0	54	30	16	0	52	1.44
1339954--1340001	3	16.0	3	100	0	96	66	0	0	33	0.92
1342389--1342458	12	5.8	12	80	6	79	51	18	15	14	1.77
1342387--1342495	24	4.5	24	79	2	121	47	17	16	18	1.83
1342387--1342495	48	2.3	47	85	3	137	47	17	16	18	1.83
1343618--1343653	18	2.0	18	88	0	54	30	16	0	52	1.44
1344958--1345017	3	20.0	3	100	0	120	66	0	0	33	0.92
1355082--1355133	11	4.9	11	90	6	81	78	0	15	5	0.92
1355084--1355130	10	4.7	10	89	5	60	80	0	12	6	0.88
1355078--1355133	21	2.6	21	81	13	78	78	0	16	5	0.92
1355082--1355145	32	2.0	32	84	9	85	79	0	15	4	0.89
1357192--1357632	113	3.9	113	92	0	697	37	13	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357961--1358006	3	15.7	3	95	4	85	34	0	0	65	0.93
1358002--1358040	9	3.8	10	84	15	53	56	2	0	41	1.13
1358126--1358162	16	2.4	16	90	4	58	8	54	18	18	1.68
1364064--1364099	2	18.0	2	100	0	72	50	0	0	50	1.00
1365818--1365864	14	3.1	14	73	26	51	48	0	0	51	1.00
1368075--1368113	2	20.0	2	94	5	71	48	0	0	51	1.00
1368476--1368750	144	1.9	146	85	3	385	48	4	18	28	1.67
1368875--1368901	14	1.9	14	100	0	54	44	22	7	25	1.79
1374772--1374889	60	2.0	60	81	6	141	33	13	15	37	1.86
1376320--1376370	24	2.1	24	82	13	61	49	0	1	49	1.12
1377676--1377729	2	27.0	2	100	0	108	50	0	0	50	1.00
1378448--1378477	4	7.5	4	100	0	60	26	0	0	73	0.84
1383169--1383247	29	2.7	29	92	3	133	29	24	11	35	1.90
1383259--1383383	50	2.5	48	77	8	142	20	34	26	19	1.96
1383506--1383545	10	4.0	10	84	12	55	32	27	0	40	1.57
1383672--1383892	110	2.0	111	93	0	381	36	9	9	44	1.69
1385403--1385437	18	1.9	18	100	0	70	28	28	20	22	1.98
1389558--1389594	12	3.2	12	85	14	60	32	8	51	8	1.61
1389741--1389842	49	2.0	51	83	3	127	21	28	34	15	1.94
1390683--1390711	2	15.0	2	92	7	51	51	0	0	48	1.00
1396026--1396075	27	1.9	25	84	15	66	24	6	16	54	1.64
1396628--1396685	20	2.6	22	89	10	84	31	20	22	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397355--1397406	25	2.0	27	82	14	65	46	1	23	28	1.63
1399880--1399939	21	2.8	22	85	5	79	15	28	33	23	1.94
1401239--1401285	20	2.4	19	82	10	51	29	12	8	48	1.71
1401755--1402202	226	2.0	225	97	2	855	24	15	31	28	1.95
1403474--1403630	29	5.4	29	74	8	115	32	3	16	47	1.65
1409932--1409985	27	2.0	26	96	3	99	31	11	33	24	1.90
1413270--1413341	21	3.4	21	84	3	83	12	23	37	26	1.90
1413282--1413336	21	2.6	21	91	2	92	7	27	38	27	1.83
1413383--1413420	20	1.9	20	94	0	67	18	26	34	21	1.96
1413455--1413514	30	2.0	30	100	0	120	40	6	10	43	1.64
1431356--1431434	32	2.5	32	76	0	86	41	11	5	41	1.63
1435704--1435750	24	2.0	24	95	0	85	40	2	0	57	1.11
1435851--1435900	22	2.3	22	79	6	57	44	6	4	46	1.47
1437150--1437206	17	3.3	17	76	11	62	73	3	14	8	1.20
1437965--1438015	2	25.5	2	100	0	102	50	0	0	49	1.00
1441111--1441178	13	5.5	13	70	19	65	19	27	27	25	1.98
1441094--1441190	24	4.1	24	94	1	151	21	25	25	26	2.00
1441060--1441121	17	3.6	17	88	0	97	22	16	30	30	1.96
1447721--1447757	15	2.5	15	90	0	56	5	70	16	8	1.30
1452484--1452543	31	1.9	31	82	0	75	21	16	15	46	1.83
1453447--1453507	31	1.9	32	86	3	88	29	18	3	49	1.63
1453445--1453519	31	2.4	30	80	6	87	28	16	2	53	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459598--1459624	13	2.1	13	100	0	54	37	14	0	48	1.45
1463370--1463401	2	17.0	2	87	12	50	46	0	0	53	1.00

Tables:   1   2   3   4   5

The End!