genome.fa.s8184.2.7.7.80.10.50.1000.6.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: VEPZ01008184.1 Hibiscus syriacus cultivar Beakdansim tig00110785_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1549336

Tables:   1   2   3   4   5   6   7   8   

This is table  6  of  8  ( 844 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)
1113706--1113770	21	3.1	21	77	0	67	29	26	20	24	1.99
1114369--1114400	5	6.4	5	92	0	55	3	40	18	37	1.67
1121155--1121194	21	1.9	21	84	0	53	47	5	10	37	1.59
1124186--1124225	22	1.9	19	85	14	53	52	2	5	40	1.37
1130592--1130668	33	2.3	33	95	0	136	24	15	41	18	1.89
1132415--1132459	13	3.5	13	75	6	56	48	24	13	13	1.78
1132414--1132463	25	2.0	25	100	0	100	52	24	12	12	1.72
1134107--1134141	2	17.5	2	93	0	61	48	0	2	48	1.16
1135546--1135749	42	4.8	42	88	2	284	33	24	24	18	1.97
1136529--1136560	12	2.7	12	95	0	55	28	12	28	31	1.93
1136585--1136739	29	5.4	29	78	6	154	48	18	2	30	1.61
1142880--1143045	42	4.0	42	95	0	287	34	24	22	18	1.96
1143873--1144025	29	5.2	29	71	6	92	49	14	3	32	1.62
1145806--1145895	38	2.4	37	78	12	94	15	18	10	55	1.68
1151176--1151237	23	2.7	23	97	0	115	33	9	20	35	1.86
1151265--1151754	198	2.5	197	83	5	580	31	15	14	38	1.88
1157762--1157820	20	2.8	20	85	12	66	20	27	30	22	1.98
1161603--1161645	20	2.2	20	83	8	52	37	4	2	55	1.33
1164424--1165473	197	5.1	199	79	10	1044	31	13	16	38	1.87
1164957--1165005	21	2.3	21	89	10	82	36	14	12	36	1.83
1164754--1165411	222	3.0	218	80	10	732	30	13	15	39	1.87
1165017--1165473	205	2.2	206	81	8	542	31	13	17	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168305--1168340	15	2.4	15	90	0	54	38	2	41	16	1.63
1168810--1169448	198	3.2	198	88	3	932	33	15	15	35	1.89
1173420--1173490	36	2.0	36	97	0	133	38	8	30	22	1.84
1173513--1173566	23	2.4	23	87	3	74	22	25	24	27	2.00
1174806--1174855	19	2.6	19	93	0	82	60	10	0	30	1.30
1176544--1177118	182	3.2	180	85	3	740	27	16	12	43	1.85
1178069--1178108	18	2.2	18	100	0	80	25	30	25	20	1.99
1179936--1180008	31	2.4	31	77	6	78	36	1	10	50	1.46
1182008--1182062	17	3.2	17	78	2	56	43	0	7	49	1.30
1187138--1187188	23	2.3	22	83	12	61	37	1	5	54	1.36
1187887--1187915	14	2.0	15	93	6	51	41	0	0	58	0.98
1188389--1188419	14	2.2	14	100	0	62	48	0	0	51	1.00
1197563--1197633	26	2.7	26	93	0	115	36	36	12	14	1.84
1197807--1197933	32	3.8	31	80	14	128	47	26	8	17	1.76
1197807--1197934	33	3.8	34	82	9	136	46	27	8	17	1.76
1197979--1198053	32	2.3	32	84	9	98	40	33	10	16	1.82
1197868--1198058	104	1.8	105	89	1	303	41	30	8	18	1.81
1208589--1208795	104	2.0	105	82	2	256	40	22	14	23	1.90
1208936--1209099	53	3.1	53	66	13	147	33	19	9	37	1.83
1208937--1209148	106	2.0	104	95	1	379	32	20	8	37	1.84
1213921--1214134	105	2.0	104	82	2	259	39	21	14	23	1.91
1214284--1214496	106	2.0	105	94	0	372	32	22	8	37	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1215725--1215796	22	3.3	22	78	3	74	19	27	18	34	1.95
1216990--1217082	24	4.0	24	78	5	91	25	16	19	38	1.92
1217040--1217089	24	2.1	24	84	0	64	28	12	20	40	1.87
1219871--1219939	28	2.5	29	78	19	85	65	1	0	33	1.02
1219895--1219935	20	2.0	21	86	13	59	68	2	0	29	1.03
1219862--1219938	16	4.4	16	74	19	57	64	2	0	32	1.07
1229408--1229510	24	4.3	24	83	9	129	28	20	36	14	1.92
1229408--1229510	48	2.1	48	87	3	145	28	20	36	14	1.92
1229265--1229789	279	1.9	278	85	2	739	28	23	30	18	1.98
1229682--1229949	24	11.3	24	91	2	350	23	23	40	12	1.89
1229680--1229978	141	2.1	142	79	7	349	25	23	38	12	1.90
1234162--1234222	12	5.1	12	87	0	86	42	31	8	18	1.79
1234162--1234214	24	2.2	24	100	0	106	43	32	7	16	1.76
1238102--1238491	37	10.6	37	78	14	350	43	7	3	46	1.48
1238210--1238265	25	2.2	26	90	6	87	39	7	0	53	1.28
1238129--1238458	103	3.1	102	81	12	289	43	7	3	46	1.47
1239832--1239919	41	2.2	41	97	2	169	42	6	0	51	1.28
1249045--1249164	62	1.9	62	90	6	190	50	10	3	35	1.54
1249045--1249178	62	2.1	62	85	9	184	51	11	3	32	1.56
1251484--1251593	58	1.9	58	83	3	141	33	17	3	45	1.66
1251753--1251865	60	1.9	60	83	10	151	47	4	16	30	1.66
1251773--1251886	60	1.9	60	81	3	140	46	6	17	29	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1253909--1253947	20	2.0	20	94	0	69	12	30	33	23	1.92
1257286--1257316	2	15.5	2	100	0	62	48	0	0	51	1.00
1261027--1261109	38	2.2	38	91	0	130	25	22	28	22	1.99
1265048--1265072	13	1.9	13	100	0	50	64	0	0	36	0.94
1265604--1265776	60	2.9	59	78	8	181	31	24	6	36	1.82
1269878--1269937	30	2.0	30	87	3	86	40	18	10	31	1.84
1272079--1272148	34	2.1	34	97	0	131	22	21	20	35	1.96
1275938--1276008	31	2.3	31	100	0	142	42	14	18	25	1.87
1280323--1280431	31	3.4	30	75	16	110	39	15	20	24	1.91
1280323--1280456	67	2.0	67	88	2	198	38	18	20	22	1.93
1282130--1282178	25	2.0	25	88	8	73	69	4	12	14	1.33
1307674--1307726	24	2.2	24	100	0	106	43	3	16	35	1.67
1316832--1316865	14	2.4	14	90	0	50	50	20	20	8	1.75
1316859--1316889	10	3.1	10	90	0	53	67	19	0	12	1.22
1320951--1320982	3	11.3	3	87	12	50	28	0	0	71	0.86
1321173--1322428	76	16.6	76	98	0	2446	35	22	21	21	1.96
1321173--1322428	303	4.1	303	99	0	2449	35	22	21	21	1.96
1322370--1322463	48	2.0	48	95	2	172	29	21	23	25	1.99
1323137--1323213	22	3.5	22	80	0	91	37	11	12	37	1.81
1323577--1323688	54	2.1	54	89	0	170	21	22	16	39	1.92
1325839--1326061	114	2.0	114	98	0	428	30	17	16	35	1.92
1328328--1328352	13	1.9	13	100	0	50	0	16	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1332967--1333007	16	2.7	16	81	7	50	75	2	0	21	0.92
1345728--1345757	15	2.1	15	93	6	53	46	10	6	36	1.64
1349194--1349239	24	1.9	24	90	0	74	34	32	10	21	1.88
1353489--1353545	19	2.7	22	78	15	75	31	5	28	35	1.79
1353494--1353579	19	4.2	19	75	16	73	37	5	26	30	1.80
1353489--1353570	44	1.9	41	82	7	101	34	6	26	32	1.81
1353890--1353947	21	2.8	21	94	0	107	17	13	24	44	1.85
1355338--1355399	11	5.7	11	71	22	51	43	1	4	50	1.33
1356988--1357035	25	1.9	25	82	0	60	50	2	10	37	1.49
1357272--1357334	3	21.3	3	80	9	76	66	1	1	30	1.10
1357269--1357319	19	2.7	18	88	8	75	70	0	0	29	0.87
1357281--1357341	16	3.9	14	82	17	59	67	3	1	27	1.16
1357267--1357334	16	4.1	16	83	11	75	67	1	1	29	1.08
1357544--1357910	130	2.8	128	91	3	556	26	18	29	24	1.98
1357951--1358027	28	2.6	28	80	13	93	48	14	14	23	1.80
1358414--1358457	15	2.9	15	93	0	70	43	4	20	31	1.72
1358559--1358723	27	5.9	27	73	14	111	45	12	12	29	1.78
1359043--1359239	105	1.9	105	87	2	288	40	10	19	29	1.85
1359206--1359342	36	3.8	36	78	5	152	34	14	20	30	1.93
1359206--1359340	71	1.9	72	84	4	184	33	14	20	31	1.93
1359691--1359742	16	3.3	16	86	2	79	25	0	21	53	1.45
1363295--1363356	32	2.0	32	96	3	117	61	9	14	14	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1364829--1364862	17	1.9	18	88	5	52	55	2	2	38	1.30
1366849--1366909	3	20.3	3	77	12	63	67	1	1	29	1.10
1367690--1367721	11	2.9	11	95	0	55	37	0	6	56	1.25
1367690--1367763	22	3.4	21	78	14	78	41	1	5	51	1.33
1375434--1375485	3	16.7	3	84	7	68	61	0	0	38	0.96
1381967--1382001	3	12.3	3	88	11	56	68	0	0	31	0.90
1381967--1382002	14	2.6	14	95	0	63	66	0	0	33	0.92
1381967--1382001	17	2.1	17	94	0	61	68	0	0	31	0.90
1389800--1389853	26	2.1	26	100	0	108	14	55	11	18	1.68
1390506--1390655	59	2.5	59	95	2	266	33	19	3	44	1.67

Tables:   1   2   3   4   5   6   7   8