genome.fa.s8001.2.7.7.80.10.50.1000.7.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  7  of  18  ( 2081 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)
1267421--1267485	14	4.3	14	76	17	67	50	21	18	9	1.74
1267375--1267504	33	4.0	33	82	5	140	48	22	20	9	1.77
1267436--1267543	19	5.9	19	85	10	136	49	26	15	8	1.73
1267587--1267644	20	2.9	20	89	0	89	24	18	18	37	1.94
1269154--1269459	149	2.1	149	94	1	533	34	21	16	27	1.95
1270358--1270392	18	1.9	18	88	11	54	22	17	5	54	1.64
1270884--1271044	64	2.5	64	85	5	209	26	21	18	34	1.96
1274414--1274458	23	2.0	23	90	0	72	24	26	26	22	2.00
1274426--1274740	149	2.1	149	92	2	517	34	21	17	26	1.95
1275641--1275675	18	1.9	18	88	11	54	22	17	5	54	1.64
1276167--1276327	64	2.5	63	85	8	200	26	21	18	33	1.96
1278237--1278272	14	2.6	14	90	0	54	30	0	22	47	1.52
1278385--1278469	33	2.5	33	92	1	134	43	18	23	14	1.87
1278407--1278475	19	3.8	19	73	21	76	44	18	21	14	1.85
1278484--1278568	33	2.5	33	90	1	125	15	23	17	43	1.87
1278553--1278639	20	4.3	20	79	2	104	19	20	21	37	1.94
1278551--1278639	40	2.2	41	84	4	119	20	21	21	37	1.95
1281069--1281122	24	2.2	24	90	0	81	42	20	16	20	1.89
1281977--1282210	20	11.7	19	76	10	100	21	19	20	37	1.94
1281985--1282210	40	5.7	40	91	6	343	21	19	20	38	1.94
1281985--1282210	60	3.8	60	94	2	375	21	19	20	38	1.94
1282207--1282252	21	2.2	21	84	7	58	36	17	26	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282303--1282495	20	9.6	20	77	7	185	20	19	23	36	1.95
1282324--1282495	41	4.2	41	90	3	267	20	19	23	37	1.94
1282324--1282495	81	2.1	82	90	3	267	20	19	23	37	1.94
1282321--1282556	20	11.6	20	74	6	107	19	19	23	37	1.94
1282324--1282537	81	2.6	79	80	10	209	20	18	23	37	1.94
1289976--1290325	156	2.2	156	86	1	475	47	6	15	30	1.70
1292364--1292408	20	2.2	20	84	0	54	31	15	22	31	1.95
1294478--1294525	2	25.5	2	87	12	75	47	0	0	52	1.00
1294463--1294514	21	2.3	24	81	15	67	48	0	0	51	1.00
1295401--1295523	48	2.6	48	81	2	142	37	16	9	36	1.82
1306316--1306350	16	2.1	17	89	10	54	51	5	0	42	1.25
1306286--1306354	22	3.0	22	71	10	59	53	4	2	39	1.36
1309527--1309585	26	2.3	26	100	0	118	47	11	25	15	1.79
1310201--1310508	154	2.0	154	99	0	607	29	30	16	23	1.96
1310622--1310660	18	2.2	18	85	0	51	38	25	7	28	1.83
1313396--1313441	2	23.0	2	100	0	92	50	0	0	50	1.00
1314124--1314171	19	2.4	20	82	6	53	39	4	0	56	1.19
1314220--1314272	21	2.5	20	75	6	52	37	5	0	56	1.23
1314279--1314313	13	2.6	13	90	4	52	28	0	2	68	1.04
1322912--1322963	25	2.1	25	96	0	95	26	17	23	32	1.96
1324949--1324990	2	21.0	2	100	0	84	50	0	0	50	1.00
1325161--1325185	12	2.1	12	100	0	50	56	8	0	36	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326962--1327023	22	2.7	23	92	5	99	45	4	12	37	1.64
1332174--1332252	40	2.0	40	94	0	140	21	20	25	32	1.97
1333894--1333955	31	2.0	30	82	14	74	32	0	1	66	1.02
1334087--1334143	29	2.0	29	100	0	114	26	42	17	14	1.87
1335405--1335431	4	6.8	4	100	0	54	25	0	0	74	0.83
1336296--1336354	24	2.5	23	78	13	66	30	3	0	66	1.08
1336284--1336352	26	2.7	26	84	13	81	30	2	0	66	1.06
1338757--1338835	35	2.3	35	97	0	149	39	5	17	37	1.72
1339305--1339407	30	3.4	30	94	0	170	24	15	24	35	1.94
1342393--1342423	15	2.1	15	100	0	62	25	19	6	48	1.72
1347832--1347866	14	2.4	15	85	9	54	2	17	42	37	1.64
1347927--1347986	3	21.0	3	77	16	65	63	3	0	33	1.11
1347927--1347976	13	3.7	13	89	7	73	64	4	0	32	1.12
1348303--1348954	112	5.8	113	87	5	857	28	19	13	37	1.91
1348303--1348954	223	2.9	221	87	4	897	28	19	13	37	1.91
1348976--1349148	76	2.3	75	90	1	274	31	20	22	25	1.98
1350214--1350308	50	1.9	50	93	0	163	26	24	11	37	1.89
1354729--1354753	11	2.3	11	100	0	50	0	16	0	84	0.63
1359088--1359120	11	2.9	12	82	17	52	75	0	0	24	0.80
1361385--1361431	3	16.0	3	82	12	62	63	2	0	34	1.06
1364019--1364057	20	2.0	20	100	0	78	46	25	15	12	1.81
1364553--1364607	20	2.8	19	77	2	56	21	16	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1366726--1366821	21	4.6	20	78	7	93	21	37	19	20	1.94
1366730--1366821	42	2.2	42	90	3	141	21	38	19	20	1.94
1368167--1368338	65	2.7	66	88	7	252	28	2	15	54	1.53
1368525--1368605	42	1.9	43	82	2	101	38	23	16	22	1.93
1368817--1368852	18	2.0	18	88	0	54	19	2	22	55	1.56
1371900--1371938	15	2.5	15	83	4	51	66	0	5	28	1.12
1372114--1372187	20	3.7	20	76	15	80	28	10	25	35	1.90
1372096--1372166	20	3.5	20	80	14	76	30	9	21	38	1.86
1372095--1372187	41	2.3	40	85	7	118	30	10	23	35	1.89
1372211--1372285	19	3.8	19	69	10	62	22	14	30	32	1.94
1376676--1376748	3	24.0	3	72	13	51	34	1	1	63	1.12
1377965--1378044	12	6.9	11	73	17	56	31	3	1	63	1.20
1378433--1378458	2	13.0	2	100	0	52	50	0	0	50	1.00
1383173--1383228	18	3.1	18	72	27	64	51	30	14	3	1.59
1388523--1388567	20	2.2	20	84	0	63	44	28	2	24	1.66
1388746--1388883	36	3.8	36	83	7	181	19	24	18	37	1.94
1388743--1388888	72	2.0	72	95	0	265	18	23	17	39	1.92
1390219--1390263	20	2.2	20	84	0	63	44	28	2	24	1.66
1391265--1391309	22	2.1	21	83	4	54	40	2	11	46	1.52
1391310--1391455	39	3.7	40	78	4	154	43	3	9	43	1.54
1391309--1391460	79	1.9	79	84	5	200	44	3	9	42	1.54
1391428--1391482	21	2.5	23	85	14	80	41	5	10	41	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391404--1391538	57	2.2	61	83	7	161	42	3	9	43	1.55
1391558--1391631	5	15.2	5	76	16	50	16	8	0	75	1.02
1391593--1391630	13	3.2	13	85	14	55	21	5	0	73	1.02
1392022--1392105	42	2.0	42	83	0	105	50	21	14	14	1.78
1395335--1395421	38	2.3	39	91	4	149	48	5	3	42	1.44
1395405--1395438	2	17.5	2	93	6	61	50	0	0	50	1.00
1395367--1395480	56	2.1	55	90	4	178	48	2	1	47	1.26
1395415--1395516	42	2.4	43	93	3	163	49	1	0	48	1.19
1395421--1395603	39	4.7	38	84	8	185	45	2	4	46	1.36
1395423--1395615	38	5.0	38	85	6	203	45	2	4	47	1.35
1395762--1395808	21	2.2	21	92	0	85	21	25	17	36	1.94
1395697--1395814	20	5.8	21	74	5	80	28	26	16	28	1.97
1395741--1395855	21	5.6	21	73	9	58	32	23	17	26	1.97
1395824--1395863	20	2.0	20	85	9	55	42	25	15	17	1.88
1395985--1396057	22	3.3	22	92	0	119	23	39	12	24	1.89
1396494--1396547	24	2.2	24	93	0	90	40	20	18	20	1.91
1396494--1396561	24	2.8	24	84	0	64	38	20	17	23	1.93
1397440--1397568	20	6.6	19	80	12	82	22	16	23	37	1.93
1397457--1397569	20	5.7	20	88	2	165	20	17	24	37	1.94
1397440--1397569	40	3.3	40	90	4	185	22	16	23	37	1.93
1397440--1397646	20	10.4	20	72	11	79	25	15	25	34	1.95
1397732--1397852	36	3.1	39	86	12	169	42	0	4	52	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1397732--1397854	40	3.2	39	83	13	164	43	0	4	52	1.26
1397808--1397867	26	2.3	27	79	2	77	36	1	1	60	1.17
1397846--1397924	7	11.1	7	74	17	56	20	2	1	75	0.98
1402262--1402375	24	4.8	24	88	4	149	27	13	19	40	1.88
1403973--1404015	22	2.0	22	86	9	61	39	6	13	39	1.72
1404020--1404166	37	3.9	38	83	7	183	43	3	10	42	1.56
1404020--1404166	76	1.9	76	87	5	217	43	3	10	42	1.56
1404132--1404188	24	2.6	23	86	13	84	40	5	12	42	1.65
1404112--1404244	57	2.2	61	86	7	184	40	5	10	43	1.62
1404293--1404337	5	9.6	5	85	9	60	20	2	0	77	0.87

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18