genome.fa.s9602.2.7.7.80.10.50.1000.6.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: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1420948

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 718 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)
1142737--1142764	2	14.0	2	100	0	56	50	0	0	50	1.00
1145722--1145876	57	2.8	56	92	2	247	37	8	18	35	1.81
1145712--1145889	56	3.2	56	89	1	257	35	10	19	34	1.86
1145981--1146271	45	6.5	45	89	0	458	41	12	23	23	1.88
1146104--1146170	19	3.2	19	68	22	53	40	14	22	22	1.90
1145981--1146271	134	2.2	135	90	1	460	41	12	23	23	1.88
1149278--1149312	1	35.0	1	88	0	52	0	5	0	94	0.32
1149276--1149313	14	2.7	14	87	0	58	0	10	0	89	0.49
1149429--1149468	18	2.2	18	86	0	53	30	5	10	55	1.54
1150534--1150691	37	4.1	37	79	18	196	30	6	20	42	1.77
1150591--1150717	41	3.1	41	74	17	156	31	5	19	43	1.74
1150555--1150715	80	2.0	80	100	0	322	31	6	19	42	1.76
1150747--1150785	20	2.0	19	90	5	60	35	7	30	25	1.84
1154115--1154187	31	2.4	31	83	0	92	36	10	16	35	1.84
1160077--1160109	2	16.5	2	100	0	66	51	0	0	48	1.00
1162745--1162823	21	3.8	21	91	0	131	20	16	40	22	1.91
1166636--1166699	22	2.9	22	78	0	74	23	25	20	31	1.98
1166789--1166836	21	2.1	24	85	11	66	27	18	2	52	1.57
1168729--1168864	70	1.9	70	90	0	218	32	17	8	41	1.79
1174580--1174641	21	2.9	21	77	17	74	35	20	16	27	1.94
1177078--1177141	24	2.8	24	73	21	66	29	18	29	21	1.97
1178062--1178693	5	126.6	5	98	1	1207	40	0	19	39	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180958--1181582	49	12.8	49	87	2	839	31	20	13	34	1.91
1180958--1181582	97	6.4	98	86	3	850	31	20	13	34	1.91
1180958--1181578	146	4.3	146	86	2	845	31	20	13	34	1.91
1181545--1181601	30	1.9	30	92	0	96	28	21	10	40	1.86
1211678--1211721	23	1.9	23	90	0	70	9	54	6	29	1.58
1213045--1213131	34	2.5	35	79	7	97	35	16	22	25	1.94
1216732--1216774	22	1.9	23	85	4	61	58	6	16	18	1.60
1216743--1216813	23	3.0	23	79	2	79	57	5	12	23	1.56
1221684--1221768	42	2.0	42	88	0	125	47	8	11	32	1.70
1224919--1225032	58	2.0	58	82	5	142	34	6	9	50	1.60
1229500--1229536	19	2.0	20	89	10	60	35	8	2	54	1.44
1230498--1230752	43	5.9	43	91	0	411	33	23	24	17	1.96
1236895--1236961	31	2.2	31	94	0	116	56	7	5	29	1.51
1237066--1237147	41	2.0	41	92	0	137	20	29	10	39	1.87
1237127--1237173	24	2.0	24	100	0	94	34	14	17	34	1.90
1237186--1237216	14	2.1	15	94	5	55	41	0	6	51	1.27
1237233--1237318	42	2.1	42	80	6	95	37	3	10	48	1.55
1237685--1237723	19	2.1	19	90	4	62	43	2	0	53	1.14
1238014--1238094	30	2.7	30	90	0	126	44	9	1	44	1.45
1238018--1238108	15	6.1	15	68	15	64	42	9	1	46	1.44
1238016--1238104	30	3.0	30	85	3	117	41	10	1	47	1.44
1239134--1239161	14	2.0	14	100	0	56	21	35	21	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245899--1245976	2	39.0	2	100	0	156	50	0	0	50	1.00
1258296--1258355	21	2.7	23	70	21	54	31	30	16	21	1.96
1259014--1259059	20	2.3	20	96	0	83	32	15	4	47	1.65
1263979--1264178	83	2.4	83	83	0	258	32	14	18	35	1.90
1263979--1264220	82	2.9	82	80	3	200	31	14	18	35	1.91
1264099--1264242	41	3.5	40	73	10	103	29	15	16	38	1.90
1267769--1267949	84	2.1	85	87	2	265	37	22	18	21	1.94
1267776--1267949	43	4.1	43	86	3	235	36	22	19	21	1.95
1268502--1268686	43	4.3	43	85	0	244	40	21	17	20	1.92
1269072--1269120	19	2.5	19	86	3	62	20	0	12	67	1.22
1280289--1281201	452	2.0	455	95	4	1644	28	21	25	24	1.99
1289722--1289746	2	12.5	2	100	0	50	48	0	0	52	1.00
1302375--1302409	16	2.2	16	100	0	70	42	5	14	37	1.69
1304069--1304129	30	2.0	30	93	0	104	29	24	18	27	1.98
1304509--1304634	47	2.8	44	80	10	128	30	19	7	41	1.80
1304739--1304820	40	2.0	40	95	0	146	34	26	14	24	1.94
1310460--1310504	21	2.1	22	87	4	65	11	20	0	68	1.19
1311937--1312003	30	2.2	30	89	0	107	38	7	2	50	1.46
1318682--1318722	16	2.6	16	92	0	73	19	17	39	24	1.92
1318696--1318789	31	3.0	31	79	11	120	20	14	34	30	1.93
1323724--1323807	16	5.2	16	77	0	69	4	13	32	50	1.62
1325580--1325669	29	3.1	29	80	6	101	58	6	11	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326504--1326608	39	2.6	40	89	6	158	17	22	12	47	1.81
1326546--1327149	117	5.2	117	92	0	1005	25	21	15	37	1.92
1327334--1327452	42	2.9	41	89	3	184	35	18	21	24	1.96
1327374--1327440	19	3.3	19	67	15	53	34	19	19	26	1.96
1328512--1328584	30	2.4	31	81	4	85	35	24	19	20	1.95
1331363--1331518	54	2.9	54	87	0	240	27	24	11	36	1.90
1332938--1332982	10	4.5	10	86	10	65	0	15	0	84	0.62
1332944--1332982	7	5.3	7	82	11	51	0	15	0	84	0.62
1332941--1332979	11	3.5	11	89	3	60	0	12	0	87	0.55
1332922--1332990	12	5.5	12	77	11	59	4	17	0	78	0.91
1338506--1338598	29	3.2	28	77	11	89	60	5	11	22	1.52
1338515--1338598	30	2.8	30	80	8	100	61	4	11	21	1.48
1340038--1340096	3	19.7	3	91	0	91	61	0	1	37	1.07
1343209--1343247	19	2.1	19	100	0	78	20	10	23	46	1.81
1349412--1349436	8	3.1	8	100	0	50	64	0	0	36	0.94
1353127--1353172	15	3.1	15	87	6	67	21	0	32	45	1.52
1353121--1353169	14	3.4	14	86	5	62	22	0	30	46	1.52
1356381--1357119	44	16.9	44	68	9	361	30	19	19	30	1.97
1356336--1357119	132	6.0	132	86	3	1037	30	19	20	29	1.97
1357482--1357556	36	2.1	36	92	0	123	44	17	20	18	1.88
1357762--1357815	21	2.6	21	85	5	74	33	14	16	35	1.90
1357917--1358432	39	13.2	39	89	0	753	34	18	18	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1358435--1358596	76	2.1	75	87	5	229	40	14	14	30	1.86
1358436--1358555	39	3.1	39	62	17	88	39	15	14	31	1.86
1358967--1359027	26	2.3	26	100	0	122	26	3	8	62	1.39
1365936--1366122	101	1.9	99	83	7	243	29	14	22	33	1.94
1366812--1367286	169	2.8	170	81	4	501	30	16	16	36	1.91
1368752--1368821	13	5.5	13	76	10	63	68	11	2	17	1.31
1374365--1374428	31	2.1	31	87	0	92	31	10	9	48	1.70
1375358--1375388	11	2.8	11	100	0	62	19	74	6	0	1.03
1378073--1378141	23	3.0	22	76	4	66	27	26	21	24	1.99
1378157--1378374	103	2.1	103	95	0	391	38	24	11	25	1.90
1378860--1378917	20	2.9	20	89	0	89	8	31	34	25	1.86
1378945--1378987	21	2.0	21	81	0	50	16	25	30	27	1.97
1385053--1385097	23	2.0	23	95	0	81	22	22	31	24	1.99
1385104--1385329	103	2.2	103	96	1	418	37	25	12	24	1.91
1385811--1385848	20	1.9	20	88	0	58	10	31	34	23	1.89
1385876--1385918	21	2.0	21	81	0	50	16	25	30	27	1.97
1388124--1388158	3	11.7	3	100	0	70	31	0	0	68	0.90
1389505--1389563	29	2.0	30	83	9	77	28	6	3	61	1.38
1389610--1389644	11	3.1	11	91	4	52	31	2	0	65	1.07
1391812--1391848	15	2.5	15	90	0	56	8	16	67	8	1.40
1392603--1392649	12	3.9	12	94	0	76	34	23	2	40	1.67
1393850--1393969	41	2.9	42	71	13	104	29	16	23	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1394388--1394435	22	2.2	22	96	0	87	43	10	14	31	1.79
1398450--1398483	16	2.1	16	89	10	52	44	2	2	50	1.32
1401122--1401149	14	2.0	14	100	0	56	42	0	35	21	1.53
1401123--1401156	14	2.6	13	90	9	52	50	0	35	14	1.44
1401871--1401975	44	2.4	43	85	6	140	25	23	17	33	1.96
1415470--1415515	21	2.2	21	96	0	83	19	21	47	10	1.80
1420627--1420669	14	3.0	15	76	10	54	48	2	0	48	1.14
1420661--1420705	24	1.9	23	86	4	63	60	0	0	40	0.97

Tables:   1   2   3   4   5   6

The End!