genome.fa.s9462.2.7.7.80.10.50.1000.7.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  7  of  91  ( 10815 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)
1245765--1246416	52	13.1	52	76	14	296	34	19	25	21	1.96
1245765--1246416	53	13.1	52	81	13	625	34	19	25	21	1.96
1245969--1246051	39	2.0	41	90	9	134	37	16	22	22	1.94
1245765--1246416	145	4.4	149	80	13	631	34	19	25	21	1.96
1245834--1246398	198	2.9	194	83	11	664	34	19	25	20	1.96
1246025--1246540	50	10.3	49	84	10	454	32	18	25	23	1.97
1246363--1246590	51	4.4	53	87	7	280	30	14	25	28	1.95
1246069--1246590	105	5.2	101	79	13	293	32	17	25	24	1.97
1246363--1246621	105	2.5	102	82	13	282	31	14	25	28	1.95
1248817--1248859	21	2.0	23	86	9	63	34	0	4	60	1.17
1249588--1249618	16	1.9	16	93	0	53	58	0	0	41	0.98
1252596--1252935	55	6.3	55	88	3	501	28	28	14	28	1.95
1252596--1252935	108	3.1	110	89	2	510	28	28	14	28	1.95
1252635--1252934	163	1.8	163	97	1	566	28	27	15	29	1.96
1255405--1255481	10	7.8	9	80	12	73	3	14	0	81	0.82
1255402--1255481	29	2.6	30	77	16	85	3	15	0	81	0.83
1255405--1255489	39	2.1	42	83	16	108	4	14	0	81	0.85
1255402--1255489	17	5.1	17	71	23	60	4	14	0	80	0.86
1257727--1257760	6	5.8	6	96	3	61	47	17	17	17	1.84
1264683--1264722	19	2.1	19	90	0	62	0	17	12	70	1.18
1266026--1266174	75	2.0	75	86	5	212	35	6	23	34	1.80
1268475--1268518	21	2.1	21	82	0	52	29	0	34	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1268874--1268924	2	26.5	2	92	7	88	50	0	0	49	1.00
1268917--1269246	37	8.9	35	75	15	192	42	1	6	48	1.39
1268943--1269314	39	9.9	37	80	9	208	42	1	7	48	1.39
1270535--1270602	34	2.1	32	83	8	84	17	14	1	66	1.33
1271697--1271726	15	1.9	16	93	6	53	10	10	6	73	1.25
1274069--1274312	95	2.7	94	81	10	278	32	17	18	31	1.94
1275442--1276922	248	6.0	248	88	3	1851	29	24	20	25	1.99
1275442--1276922	84	17.9	83	81	4	1618	29	24	20	25	1.99
1277342--1277387	20	2.3	20	88	7	67	21	4	0	73	1.00
1277342--1277389	21	2.3	20	89	3	69	22	4	0	72	1.01
1277498--1277526	12	2.3	13	94	5	51	31	0	0	68	0.89
1280499--1280581	38	2.1	40	82	12	102	50	3	1	44	1.27
1282168--1282852	182	3.8	182	88	2	968	27	16	12	43	1.85
1286542--1287528	199	5.0	199	92	1	1541	27	15	15	41	1.87
1286542--1287528	396	2.5	398	91	1	1550	27	15	15	41	1.87
1287355--1287695	167	2.0	167	95	0	610	28	14	15	40	1.88
1287152--1287836	366	1.9	366	94	0	1208	27	15	15	40	1.88
1288193--1288240	18	2.7	18	90	6	71	56	10	2	31	1.45
1290356--1290411	24	2.5	21	76	18	58	50	7	1	41	1.40
1291670--1291736	19	3.6	18	89	4	89	37	14	0	47	1.45
1292141--1292190	20	2.6	18	79	17	55	12	16	12	60	1.60
1292103--1293665	182	8.6	180	84	7	2009	26	15	14	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292103--1293665	363	4.3	364	90	3	2477	26	15	14	43	1.85
1293593--1293631	20	1.9	21	94	5	71	15	15	12	56	1.68
1293590--1293636	20	2.4	19	82	10	67	14	17	10	57	1.65
1296851--1296947	44	2.2	44	84	0	122	29	23	15	30	1.95
1302736--1302807	21	3.4	21	67	14	67	27	18	19	34	1.95
1303329--1303361	12	2.6	13	90	4	50	36	12	6	45	1.66
1304949--1305033	43	2.0	42	88	2	125	37	12	24	24	1.91
1304974--1305136	85	1.9	87	82	6	206	36	16	20	26	1.93
1307855--1307943	46	1.9	46	93	0	151	48	13	13	24	1.78
1307966--1307992	13	2.1	13	100	0	54	22	22	25	29	1.99
1309997--1310032	18	1.9	19	88	5	56	30	27	19	22	1.98
1310013--1310074	21	2.7	23	78	14	74	33	29	16	20	1.94
1311643--1311832	65	2.9	63	86	4	236	31	16	21	31	1.95
1312150--1312181	12	2.6	13	85	14	50	43	6	9	40	1.62
1313951--1313997	18	2.6	17	80	12	58	70	10	0	19	1.16
1320067--1320256	65	2.9	64	86	4	238	31	14	21	33	1.93
1320141--1320275	65	2.1	65	81	2	155	34	12	19	33	1.89
1321572--1321620	22	2.2	22	96	0	89	30	16	10	42	1.81
1322598--1322633	18	2.0	18	100	0	72	33	11	5	50	1.61
1322988--1323080	44	2.1	44	83	0	114	32	23	13	30	1.94
1323122--1323205	22	3.8	22	93	0	141	32	25	21	21	1.98
1325662--1325704	18	2.4	18	85	11	54	62	4	0	32	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1327081--1327128	3	16.3	3	80	4	53	64	4	0	31	1.12
1329632--1329658	2	13.5	2	100	0	54	48	0	0	51	1.00
1331450--1331494	24	2.0	22	82	8	54	40	0	2	57	1.11
1331461--1331546	35	2.4	35	81	14	97	41	0	1	56	1.06
1331468--1331565	35	2.9	34	77	8	92	41	0	0	58	0.98
1333272--1333337	21	3.1	21	82	8	80	19	30	21	28	1.98
1333993--1334023	14	2.2	14	100	0	62	58	16	0	25	1.38
1334091--1334213	63	2.0	63	93	0	210	38	21	0	39	1.59
1334181--1334236	23	2.4	23	96	0	103	35	17	0	46	1.49
1334391--1334844	117	3.9	117	87	2	678	31	22	23	22	1.98
1334391--1334843	235	1.9	233	89	1	701	31	22	23	22	1.98
1339596--1339848	42	5.9	42	84	4	310	33	17	24	24	1.97
1339596--1339837	85	2.8	84	86	3	324	32	17	23	25	1.97
1339605--1339846	128	1.9	129	86	4	346	32	17	23	26	1.97
1341274--1341332	10	5.7	10	73	15	57	57	20	11	10	1.63
1341278--1341326	16	3.1	16	93	0	89	57	22	12	8	1.61
1342426--1342457	14	2.3	14	100	0	64	50	28	15	6	1.68
1344774--1344921	15	9.5	15	82	10	172	47	0	0	51	1.05
1344774--1344878	45	2.3	45	96	0	192	51	0	0	48	1.00
1344915--1344988	22	3.2	23	76	14	71	28	0	17	54	1.44
1344901--1345619	80	8.8	80	77	15	661	33	0	13	53	1.40
1344971--1345442	32	15.7	32	74	21	402	33	0	13	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1344946--1345099	54	2.7	56	86	8	213	31	0	14	53	1.41
1345004--1345046	22	2.0	22	95	0	77	37	0	11	51	1.39
1345110--1345625	54	9.4	54	75	15	438	33	0	13	53	1.40
1345196--1345238	22	2.0	22	100	0	86	34	0	13	51	1.42
1345250--1345314	22	3.0	22	73	8	69	32	0	16	50	1.46
1345303--1345420	14	7.6	14	67	20	65	36	0	8	55	1.31
1345493--1345540	22	2.4	18	73	23	51	33	0	14	52	1.42
1345330--1345602	112	2.4	112	77	14	312	32	0	13	53	1.39
1346678--1346792	41	2.8	41	78	2	124	38	17	17	26	1.92
1346801--1346890	41	2.2	41	83	2	108	34	20	14	31	1.92
1355911--1355967	25	2.3	24	79	8	62	57	3	3	35	1.33
1356034--1356070	15	2.5	15	91	4	58	48	0	2	48	1.15
1356715--1356740	13	2.0	13	100	0	52	23	23	15	38	1.92
1361722--1361776	22	2.5	22	81	3	65	23	7	16	52	1.68
1362395--1362698	135	2.3	133	85	5	393	26	18	27	27	1.98
1363646--1363680	10	3.5	10	88	0	52	2	11	0	85	0.69
1370777--1370839	30	2.1	30	84	0	81	31	6	20	41	1.77
1373697--1373723	4	6.8	4	100	0	54	77	0	0	22	0.76
1375044--1375077	15	2.2	16	89	5	52	76	5	2	14	1.09
1380922--1380956	14	2.5	14	100	0	70	11	51	31	5	1.61
1385357--1385426	27	2.6	27	81	0	77	20	20	44	15	1.87
1398395--1398435	21	1.9	21	90	5	64	21	17	17	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409813--1410000	98	1.9	98	86	6	265	42	11	12	34	1.79
1412502--1412744	68	3.5	69	77	7	183	30	17	19	33	1.95
1417162--1417201	13	3.3	13	76	20	50	27	0	2	70	1.01
1417564--1417591	13	2.2	13	100	0	56	28	0	0	71	0.86
1419356--1419451	31	3.1	31	92	1	147	59	7	6	27	1.48
1421523--1421582	30	2.0	30	83	6	77	28	6	20	45	1.76
1423352--1423381	2	15.0	2	100	0	60	50	0	0	50	1.00
1424822--1425073	73	3.4	73	90	3	371	44	3	3	48	1.35
1424822--1425074	36	6.8	36	83	5	292	44	3	3	49	1.35
1425680--1426337	84	7.9	84	80	6	669	25	19	24	30	1.98

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   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91