genome.fa.s8041.2.7.7.80.10.50.1000.5.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  5  of  21  ( 2430 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)
1135048--1135307	132	2.0	133	90	3	416	29	22	12	36	1.90
1135852--1136073	95	2.4	95	84	4	281	25	26	17	30	1.97
1140179--1140357	95	1.9	95	83	4	236	22	17	17	41	1.90
1141005--1141580	57	9.9	58	73	14	395	30	20	12	36	1.89
1141023--1141229	53	3.7	55	86	7	269	28	22	10	37	1.88
1141160--1141300	71	1.9	75	85	7	200	29	24	14	32	1.94
1141107--1141357	129	2.0	128	85	5	346	28	23	12	35	1.91
1141008--1141449	240	1.8	242	86	7	655	30	21	11	36	1.89
1141050--1141580	187	3.0	182	82	9	571	30	21	12	36	1.90
1141229--1141573	57	6.1	59	85	7	448	30	20	12	36	1.90
1141236--1141580	115	3.0	116	84	7	451	30	20	12	37	1.90
1143314--1143340	13	2.1	13	100	0	54	14	14	14	55	1.70
1146168--1146346	95	1.9	95	86	4	254	22	18	18	40	1.91
1146996--1147272	57	5.0	57	86	9	389	28	21	12	37	1.89
1146996--1147272	110	2.5	115	88	9	400	28	21	12	37	1.89
1147155--1147404	129	2.0	126	86	7	353	28	22	13	35	1.92
1147272--1147431	57	2.8	57	87	5	225	30	21	12	35	1.91
1155773--1155843	20	3.5	20	72	14	74	42	18	14	25	1.87
1155760--1155859	40	2.5	40	83	3	139	41	22	13	24	1.88
1155793--1155859	20	3.3	20	71	8	55	38	22	13	25	1.90
1155852--1156545	77	9.1	75	66	16	220	27	16	19	36	1.93
1155914--1156057	57	2.5	56	85	4	182	25	15	25	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1156046--1156096	19	2.6	20	81	3	68	19	19	21	39	1.93
1156161--1156274	57	2.0	58	89	1	176	24	15	23	35	1.94
1155856--1156376	222	2.3	222	94	4	884	27	16	20	35	1.94
1156269--1156318	20	2.5	20	86	0	73	20	20	22	38	1.94
1156307--1156549	77	3.1	77	86	2	337	29	16	18	35	1.93
1156423--1156469	20	2.3	20	85	7	60	29	17	21	31	1.96
1156518--1156575	21	2.7	22	81	7	75	29	13	24	32	1.94
1163554--1163883	54	6.1	54	89	3	477	31	18	16	33	1.93
1170650--1170963	52	5.9	53	84	8	390	31	18	17	32	1.94
1170656--1170963	107	2.9	106	87	4	421	31	18	17	32	1.94
1170663--1170963	159	1.9	159	88	6	457	31	18	17	32	1.94
1172581--1172611	15	2.0	16	93	6	55	32	12	12	41	1.81
1174303--1174375	31	2.4	32	84	11	91	71	2	4	21	1.16
1174413--1174486	38	2.0	37	87	7	107	64	2	5	27	1.28
1174522--1174582	2	32.0	2	87	9	83	50	0	3	45	1.17
1174574--1174635	23	2.8	22	74	20	58	67	0	6	25	1.14
1174576--1174632	20	2.8	20	84	10	62	68	0	7	24	1.14
1175093--1175173	39	2.0	40	97	2	155	17	7	32	43	1.77
1175686--1175902	85	2.6	83	81	7	237	25	17	21	35	1.95
1177284--1177478	36	5.6	36	75	15	176	38	12	19	28	1.89
1177393--1177478	37	2.4	36	86	2	118	41	13	19	24	1.88
1177293--1177672	102	3.8	101	85	4	491	38	11	19	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1177494--1177576	35	2.4	35	77	4	87	43	9	18	28	1.81
1178537--1178648	32	3.5	32	84	6	129	36	18	13	31	1.90
1179413--1179485	14	5.8	13	79	20	84	1	19	4	75	1.04
1179413--1179492	24	3.2	24	89	10	110	1	18	5	75	1.06
1179423--1179485	13	4.8	15	70	26	54	1	19	3	76	1.01
1182628--1182662	18	2.0	18	88	5	54	65	0	20	14	1.26
1182765--1182822	18	3.5	17	73	17	50	74	0	5	20	1.01
1182784--1182835	26	1.9	27	85	14	72	67	1	5	25	1.23
1182916--1182967	2	25.5	2	88	11	79	48	0	3	48	1.20
1184022--1184065	20	2.2	20	83	0	52	40	0	18	40	1.50
1186812--1186859	25	1.9	25	83	8	62	33	2	2	62	1.18
1190038--1190239	100	2.0	100	96	2	370	36	12	18	32	1.89
1190640--1190752	46	2.6	42	74	10	102	29	16	15	38	1.89
1192485--1192714	115	2.0	115	100	0	460	32	23	12	32	1.91
1196198--1196238	3	13.7	3	100	0	82	31	0	34	34	1.58
1196988--1197042	28	2.0	28	92	0	92	7	10	21	60	1.55
1200528--1200565	18	2.0	20	85	14	55	39	7	21	31	1.82
1201192--1201218	12	2.2	12	100	0	54	7	25	0	66	1.17
1221047--1221085	20	1.9	21	89	5	62	17	38	30	12	1.88
1223313--1223374	14	4.4	14	76	8	63	9	6	14	69	1.35
1223335--1223382	20	2.5	19	80	6	53	12	6	12	68	1.37
1223593--1223646	24	2.2	24	80	0	63	9	12	20	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224444--1224691	7	30.8	8	70	23	132	39	1	3	55	1.26
1224451--1224692	19	12.8	19	68	22	104	39	1	3	55	1.26
1224445--1224652	26	8.4	25	75	15	143	40	1	3	54	1.26
1224446--1224681	33	7.6	30	72	18	107	40	1	3	54	1.27
1224590--1224691	3	34.3	3	71	26	67	37	0	0	60	1.10
1224507--1224691	62	3.3	55	76	18	134	39	2	2	56	1.24
1228442--1228481	21	1.9	21	84	0	53	40	17	15	27	1.89
1235935--1236015	39	2.1	39	81	9	94	35	19	20	23	1.96
1237157--1237498	5	70.2	5	70	20	169	40	1	3	54	1.26
1237157--1237487	7	47.1	7	72	19	230	40	1	3	54	1.27
1237155--1237499	19	18.5	19	69	20	173	40	1	3	55	1.26
1237254--1237340	36	2.4	37	86	7	115	41	1	8	49	1.40
1237172--1237498	44	7.8	41	69	19	173	39	1	3	55	1.26
1237396--1237499	3	35.3	3	74	22	80	37	0	0	62	0.95
1237422--1237496	14	5.4	14	69	24	52	38	0	0	61	0.96
1239931--1240048	39	3.0	39	87	2	166	23	22	30	22	1.99
1239931--1240067	39	3.5	39	84	2	159	24	22	30	22	1.99
1246135--1246451	158	2.0	158	100	0	634	26	21	24	27	1.99
1248544--1248591	21	2.3	20	79	10	51	35	31	2	31	1.70
1251401--1251436	4	9.0	4	93	0	63	25	22	0	52	1.47
1254063--1254116	22	2.3	23	78	12	58	59	11	16	12	1.61
1254442--1254497	24	2.3	25	76	17	64	35	16	17	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1278041--1278097	22	2.6	22	85	0	78	36	14	17	31	1.89
1278526--1278777	44	5.7	43	93	1	396	43	12	22	21	1.86
1290262--1290288	2	13.5	2	100	0	54	51	0	0	48	1.00
1300622--1301098	59	8.1	59	89	0	704	33	18	15	33	1.92
1301418--1301643	95	2.4	95	83	1	265	29	24	13	32	1.94
1301597--1301644	20	2.8	16	75	22	51	25	27	14	33	1.94
1308319--1308369	21	2.4	21	83	0	66	33	9	21	35	1.86
1311709--1311755	21	2.2	21	81	11	60	36	2	21	40	1.65
1319169--1319501	168	2.0	167	92	1	551	34	5	13	47	1.65
1320994--1321466	72	6.8	72	72	17	413	23	21	12	42	1.87
1321108--1321499	46	8.5	46	88	2	565	23	20	13	43	1.87
1320976--1321283	118	2.6	115	75	15	331	22	21	12	43	1.86
1321112--1321503	137	2.9	138	91	1	637	23	20	13	43	1.86
1337684--1337820	68	2.0	68	97	0	256	18	19	13	48	1.81
1339369--1339426	23	2.5	23	97	0	107	32	17	17	32	1.93
1346349--1346424	36	2.1	36	85	2	100	30	13	28	27	1.94
1357263--1357322	27	2.2	26	82	11	68	28	10	5	56	1.53
1365144--1365203	23	2.8	22	80	7	70	20	35	25	20	1.96
1371902--1372152	85	3.0	85	87	1	342	33	17	17	31	1.94
1372172--1372204	2	16.5	2	100	0	66	48	0	0	51	1.00
1373211--1373236	12	2.2	12	100	0	52	69	7	7	15	1.35
1380528--1380590	14	4.5	14	100	0	126	50	28	0	20	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383588--1383654	20	3.4	20	81	6	66	44	13	8	32	1.75
1384031--1384483	201	2.3	201	84	0	584	33	23	16	26	1.95
1384995--1385044	17	2.9	17	80	11	57	26	4	0	70	1.05
1385003--1385083	8	9.4	8	78	10	56	38	2	0	59	1.11
1385003--1385069	15	4.6	14	78	9	53	35	2	0	61	1.12
1385001--1385079	29	2.7	29	78	9	70	37	2	0	59	1.11
1384999--1385065	26	2.6	26	78	4	73	34	4	0	61	1.16
1385001--1385043	3	15.0	3	80	9	54	30	2	0	67	1.03
1385060--1385085	2	13.0	2	100	0	52	50	0	0	50	1.00
1385021--1385086	15	3.9	17	74	22	50	42	3	0	54	1.15

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21