genome.fa.s8245.2.7.7.80.10.50.1000.7.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  7  of  33  ( 3922 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)
1189816--1189863	24	1.9	26	83	8	64	43	2	2	52	1.24
1190410--1190471	3	20.7	3	100	0	124	66	0	33	0	0.92
1191345--1191379	2	17.5	2	100	0	70	0	48	0	51	1.00
1202606--1202631	5	5.2	5	100	0	52	61	0	0	38	0.96
1216906--1216937	9	3.6	9	95	0	55	0	28	9	62	1.26
1221116--1221161	6	7.7	6	95	0	74	21	15	30	32	1.94
1226357--1227481	563	2.0	563	95	0	2009	25	20	13	39	1.90
1229682--1229715	16	2.1	16	88	0	50	32	0	17	50	1.47
1230804--1231124	103	3.1	103	96	0	588	26	13	23	36	1.92
1231143--1231208	23	2.9	23	88	0	87	22	28	22	25	1.99
1231378--1231430	16	3.2	16	72	5	52	30	1	26	41	1.66
1234807--1234857	24	2.2	24	86	10	70	21	15	19	43	1.88
1234824--1235005	70	2.6	70	91	0	301	23	13	21	41	1.89
1234861--1234979	34	3.4	34	68	13	89	21	12	21	44	1.85
1234953--1234998	24	2.0	23	86	4	65	21	15	21	41	1.90
1236058--1236102	23	2.0	23	100	0	90	31	4	28	35	1.77
1239237--1239288	27	1.9	27	92	0	86	25	23	34	17	1.96
1240915--1240964	23	2.2	23	96	0	91	28	6	26	40	1.79
1241798--1241899	40	2.5	41	77	6	109	48	9	9	32	1.69
1249110--1249165	20	2.8	20	94	0	94	10	23	23	42	1.85
1249291--1249340	5	9.6	5	91	2	64	24	52	20	4	1.63
1249836--1249867	6	5.5	6	96	3	57	0	15	53	31	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1249980--1250031	22	2.4	22	83	6	70	38	25	17	19	1.93
1255211--1255250	21	2.0	20	85	5	53	32	7	17	42	1.77
1257702--1257762	23	2.8	22	90	5	88	21	26	29	22	1.99
1263277--1263332	28	2.0	28	100	0	112	25	28	14	32	1.94
1265273--1265440	21	7.9	21	76	5	149	35	25	15	23	1.94
1266175--1266273	20	4.9	20	94	0	180	25	30	15	29	1.95
1268662--1268698	11	3.2	12	85	14	51	59	0	29	10	1.31
1269707--1269766	3	20.0	3	96	0	111	65	0	1	33	1.03
1271555--1271593	20	2.0	20	94	0	69	35	5	17	41	1.72
1271554--1271704	54	2.9	52	90	4	250	32	5	12	49	1.63
1271661--1271700	20	2.0	20	95	0	71	37	5	12	45	1.64
1276306--1276344	20	2.0	20	84	0	51	35	2	15	46	1.60
1276279--1276378	53	1.9	52	95	2	182	32	5	13	50	1.62
1278561--1278898	171	2.0	172	99	0	669	25	12	19	42	1.86
1279495--1279581	44	2.0	44	88	0	129	44	18	5	31	1.73
1279711--1279866	23	6.5	23	82	8	150	30	23	19	26	1.98
1281532--1281570	20	2.0	20	94	0	69	38	17	10	33	1.84
1282257--1282311	20	2.7	21	83	5	69	20	14	30	34	1.92
1282257--1282303	21	2.3	20	88	3	67	21	17	29	31	1.96
1282257--1282314	21	2.8	21	82	7	66	22	13	31	32	1.93
1282831--1283506	336	2.0	338	95	0	1212	23	24	15	36	1.94
1285738--1285795	23	2.5	23	86	5	73	32	25	15	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1287705--1287753	22	2.2	22	85	3	62	55	12	0	32	1.37
1287708--1287857	80	1.9	80	94	0	264	52	14	0	32	1.46
1287694--1288154	134	3.4	132	81	11	533	52	12	1	34	1.47
1287805--1288278	32	16.4	32	67	27	269	52	11	1	34	1.45
1287788--1288278	54	9.1	54	79	9	547	52	11	1	34	1.46
1287891--1287933	22	2.0	22	100	0	86	51	9	0	39	1.34
1287893--1287941	22	2.2	22	88	3	71	55	10	0	34	1.34
1287693--1288278	188	3.1	188	86	5	801	52	11	1	34	1.45
1287947--1288021	22	3.2	23	75	17	82	54	17	0	28	1.43
1288112--1288201	22	3.9	22	75	11	99	52	16	0	31	1.44
1288163--1288210	22	2.4	19	78	18	53	52	14	0	33	1.42
1288213--1288313	22	4.5	22	70	7	76	52	7	0	39	1.31
1288258--1288420	15	10.5	15	85	9	211	50	1	0	47	1.11
1290211--1290251	3	14.0	3	84	5	57	29	2	0	68	1.03
1291789--1291845	21	2.7	21	84	12	73	29	1	0	68	1.00
1291781--1291845	21	3.0	21	79	16	71	30	1	0	67	1.00
1292850--1292881	16	2.0	16	100	0	64	12	0	6	81	0.87
1293933--1294000	31	2.2	31	86	7	93	35	11	20	32	1.89
1294103--1294153	27	1.9	26	84	11	68	25	19	5	49	1.71
1299157--1299262	54	2.0	54	88	0	158	36	13	25	24	1.92
1299631--1299740	22	5.0	22	91	2	150	38	15	11	34	1.84
1300082--1300362	127	2.2	121	83	9	373	40	16	17	25	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1300281--1300635	139	2.6	139	84	4	468	40	14	19	26	1.89
1300857--1300903	3	16.0	3	91	4	78	31	2	0	65	1.04
1307745--1307912	21	8.0	21	86	0	219	19	20	25	34	1.96
1313074--1313179	54	2.0	54	84	3	142	37	13	22	26	1.91
1313547--1313634	22	4.0	22	80	2	97	38	15	10	35	1.82
1313551--1313634	44	1.9	44	85	9	118	39	15	10	34	1.82
1314014--1314340	122	2.7	122	93	0	546	38	15	20	25	1.92
1314255--1314613	139	2.6	137	86	2	488	39	15	18	26	1.90
1315824--1315863	15	2.8	15	79	20	50	32	5	5	57	1.42
1315849--1315892	21	2.2	20	84	12	54	31	6	0	61	1.22
1315948--1315992	23	2.0	23	82	8	56	37	0	2	60	1.09
1323070--1323277	53	3.9	53	88	3	296	19	25	22	32	1.97
1323713--1323795	43	2.0	43	95	2	150	34	22	16	25	1.95
1323751--1323960	80	2.6	80	93	0	339	31	21	17	29	1.96
1323920--1324002	42	2.0	42	95	0	148	31	25	19	24	1.98
1323928--1323996	22	3.2	21	71	17	70	31	24	17	26	1.97
1324218--1324324	42	2.6	41	80	2	133	28	22	23	25	1.99
1324040--1324441	214	1.9	214	92	0	678	31	18	15	34	1.92
1336979--1337052	32	2.3	32	85	0	94	29	28	24	17	1.97
1337006--1337067	32	1.9	32	83	0	79	29	27	24	19	1.98
1340306--1340375	20	3.5	20	73	7	61	32	15	15	35	1.90
1342335--1342366	16	2.0	16	93	0	55	28	21	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345078--1345163	32	2.7	32	85	0	109	30	27	26	15	1.96
1345078--1345193	32	3.6	33	80	6	105	28	29	26	15	1.96
1345073--1345192	64	1.9	64	80	3	143	28	28	26	16	1.97
1348268--1348315	8	5.6	9	81	18	66	56	2	0	41	1.11
1348268--1348323	26	2.2	26	90	6	87	55	1	0	42	1.10
1348268--1348315	17	2.8	18	82	17	66	56	2	0	41	1.11
1348335--1348389	22	2.4	23	88	8	78	49	1	1	47	1.23
1348373--1348398	11	2.4	11	100	0	52	38	0	7	53	1.30
1349150--1349203	21	2.5	23	80	14	71	38	27	12	20	1.89
1351157--1352386	612	2.0	613	86	2	1720	38	15	15	29	1.89
1355414--1355454	22	1.9	21	85	5	55	60	4	2	31	1.30
1359552--1359862	155	2.0	156	99	0	615	24	11	27	36	1.90
1361439--1361480	18	2.3	18	95	0	75	30	16	21	30	1.95
1362422--1362498	25	3.2	24	79	15	97	49	5	0	45	1.24
1362467--1362542	18	4.4	18	67	14	52	44	9	1	44	1.44
1362460--1362524	32	2.1	31	88	2	94	46	9	1	43	1.45
1362727--1362798	32	2.3	30	74	6	81	55	1	12	30	1.45
1363823--1363895	21	3.5	21	75	3	67	23	20	17	38	1.93
1363885--1363978	41	2.3	41	87	1	127	40	19	20	20	1.92
1363885--1363996	20	5.6	20	81	4	127	38	20	19	21	1.94
1364205--1364257	27	1.9	27	84	3	70	39	32	7	20	1.81
1364593--1364648	14	3.6	14	74	21	58	8	25	23	42	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364576--1364672	33	2.9	33	95	1	167	10	24	21	43	1.84
1364571--1364697	20	7.1	19	71	20	103	11	24	19	44	1.84
1368224--1368259	14	2.6	14	95	0	63	30	0	25	44	1.54
1368366--1368457	19	5.4	18	71	26	76	46	21	20	10	1.81
1368384--1368440	14	3.7	14	72	20	51	45	22	22	8	1.80
1368366--1368459	33	2.8	33	93	3	154	45	22	21	10	1.82
1368398--1368474	19	4.3	18	77	15	72	45	23	18	12	1.84
1368470--1368606	19	7.7	19	71	16	114	13	23	20	43	1.87
1368470--1368586	52	2.2	52	96	0	216	11	23	19	44	1.84
1368487--1368606	52	2.3	52	89	1	177	14	23	20	42	1.88

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