genome.fa.s8982.2.7.7.80.10.50.1000.8.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: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2253222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1401 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)
1206690--1206758	35	2.0	35	88	0	102	30	24	14	30	1.95
1216689--1216741	17	3.3	17	78	17	60	66	0	0	33	0.92
1216689--1216756	33	2.0	34	83	16	88	60	0	0	39	0.97
1216692--1216800	49	2.1	50	83	11	141	58	0	0	41	0.98
1217527--1217586	24	2.5	24	100	0	120	53	10	33	3	1.51
1217831--1217871	21	2.0	21	95	0	73	17	24	19	39	1.92
1217832--1217900	21	3.3	21	79	2	68	26	20	20	33	1.97
1217868--1217960	20	4.7	20	90	2	98	30	21	20	27	1.98
1217868--1217994	40	3.2	40	84	2	121	29	23	20	26	1.99
1217887--1217993	20	5.3	20	89	0	142	28	25	20	26	1.99
1218583--1218670	20	4.4	20	85	1	88	14	15	23	45	1.84
1218634--1218677	20	2.2	20	91	0	70	11	13	20	54	1.69
1220638--1220702	20	3.4	19	87	8	87	18	15	26	40	1.90
1221193--1221290	21	4.7	21	77	3	90	22	35	20	21	1.96
1221189--1221289	42	2.4	42	75	3	105	21	35	19	22	1.96
1222691--1222752	14	4.3	14	79	6	70	37	0	16	46	1.47
1222693--1222747	29	1.9	29	85	3	76	34	0	18	47	1.49
1222867--1222904	20	1.9	20	94	0	67	47	23	21	7	1.77
1222967--1223103	20	6.8	20	94	0	229	27	19	21	31	1.97
1222943--1223103	60	2.7	60	90	0	232	27	21	20	31	1.98
1223271--1223309	12	3.2	12	85	0	51	15	2	25	56	1.52
1223274--1223308	18	1.9	18	94	0	61	17	2	22	57	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1226444--1226551	20	5.4	20	94	0	180	24	21	27	26	1.99
1227478--1227537	25	2.4	25	83	5	77	41	0	3	55	1.16
1227565--1227689	5	25.0	5	98	0	142	50	0	9	40	1.35
1227717--1227746	7	4.4	7	95	4	53	73	0	0	26	0.84
1229091--1229233	69	2.1	69	97	2	270	20	18	13	46	1.83
1230473--1230522	20	2.5	20	87	6	66	10	18	16	56	1.67
1238482--1238537	14	4.3	14	76	17	66	10	12	23	53	1.69
1238489--1238558	24	2.9	24	87	4	97	12	10	18	58	1.62
1239282--1239356	10	7.7	10	67	21	52	9	13	21	56	1.65
1239288--1239352	16	4.1	16	91	0	112	7	13	23	55	1.64
1239704--1239774	30	2.4	30	90	0	106	35	15	30	18	1.92
1239886--1239936	2	26.5	2	76	7	52	49	0	0	50	1.00
1239847--1239936	46	2.0	44	91	4	144	50	0	0	50	1.00
1240610--1240662	3	18.0	3	92	3	90	33	0	0	66	0.92
1244635--1244957	107	3.1	103	80	11	388	31	16	12	40	1.85
1244896--1245033	36	3.8	36	83	3	154	33	18	13	34	1.90
1245101--1245280	99	1.8	100	84	6	249	30	12	13	43	1.81
1245195--1245378	64	2.8	65	81	4	219	32	10	15	41	1.81
1245397--1245510	29	3.8	29	85	4	138	28	11	14	44	1.80
1245455--1245653	91	2.2	92	85	3	258	30	12	14	43	1.81
1245775--1245881	29	3.5	29	75	17	99	25	14	14	45	1.82
1246035--1246182	40	3.6	40	81	4	154	23	33	18	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246361--1246401	3	14.0	3	89	5	66	34	0	0	65	0.93
1246364--1246401	20	1.9	20	94	0	67	34	0	0	65	0.93
1250512--1251011	172	3.0	167	84	5	673	35	13	14	36	1.86
1252468--1252573	23	4.6	23	90	0	167	17	28	25	28	1.98
1253849--1254071	43	5.2	42	84	3	275	23	21	20	34	1.97
1253849--1254091	85	2.8	86	87	1	326	24	22	19	33	1.97
1258955--1258991	18	2.1	18	89	0	56	48	8	2	40	1.47
1259364--1259404	9	4.8	9	87	3	50	0	34	0	65	0.93
1265202--1265259	21	2.9	19	82	5	62	53	0	5	41	1.23
1265202--1265250	21	2.4	21	86	3	64	46	0	6	46	1.27
1269770--1269831	31	2.0	31	96	0	115	50	6	3	40	1.44
1270265--1270309	17	2.5	18	85	7	56	53	2	0	44	1.13
1270351--1270455	30	3.6	29	82	8	106	41	10	12	35	1.77
1271635--1271706	20	3.5	20	75	14	65	29	11	29	30	1.91
1271605--1271706	42	2.4	42	81	0	123	31	12	26	29	1.93
1271614--1271686	22	3.4	22	74	14	71	26	16	28	28	1.97
1272567--1272630	21	2.9	22	72	21	62	23	17	28	31	1.97
1272567--1272652	44	2.0	44	88	0	127	22	17	29	31	1.96
1277568--1277668	42	2.4	43	85	5	134	27	12	28	30	1.93
1277593--1277664	20	3.5	20	78	14	74	29	9	30	30	1.89
1283163--1283205	20	2.3	19	88	8	61	25	25	9	39	1.85
1285775--1285816	5	8.4	5	84	10	59	38	4	0	57	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1288033--1288095	26	2.4	27	94	5	119	46	7	9	36	1.66
1288807--1288850	16	2.9	16	77	16	58	72	0	0	27	0.85
1289920--1289944	13	1.9	13	100	0	50	4	48	0	48	1.20
1292078--1292115	8	4.8	8	81	12	51	28	0	0	71	0.87
1292751--1292936	101	1.8	101	89	2	293	33	9	17	40	1.81
1299539--1299576	20	1.9	20	100	0	76	36	10	28	23	1.88
1300563--1300712	70	2.1	69	78	10	169	40	7	13	39	1.72
1304708--1304767	3	20.0	3	93	6	104	66	0	0	33	0.92
1304708--1304795	18	4.8	18	80	14	74	69	2	0	28	1.01
1304948--1305888	113	8.3	113	90	2	1344	29	19	14	36	1.92
1306729--1307285	83	6.7	83	95	0	988	38	22	12	26	1.89
1306640--1307285	250	2.6	249	93	3	1069	38	22	12	26	1.90
1306640--1307285	167	3.8	167	94	2	1080	38	22	12	26	1.90
1308434--1308497	16	3.9	17	82	13	73	0	18	0	81	0.70
1308433--1308498	24	2.8	23	78	15	73	0	18	0	81	0.68
1308433--1308491	23	2.6	22	84	10	75	0	18	0	81	0.69
1308433--1308498	22	3.0	22	76	14	73	0	18	0	81	0.68
1308451--1308499	13	3.8	13	82	17	66	0	18	0	81	0.69
1315773--1315797	11	2.3	11	100	0	50	84	0	0	16	0.63
1315833--1315865	15	2.1	16	88	5	50	39	6	24	30	1.79
1321264--1321311	3	16.0	3	91	8	80	66	0	0	33	0.92
1321271--1321335	24	2.8	24	86	6	80	70	3	0	26	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1321582--1321634	16	3.4	17	73	23	53	62	0	1	35	1.06
1321582--1321641	29	2.0	31	83	9	79	61	0	1	36	1.06
1322011--1322085	35	2.1	35	92	0	123	36	10	6	46	1.65
1322297--1322352	21	2.7	21	88	0	76	23	28	21	26	1.99
1322787--1322842	22	2.6	22	97	2	105	25	26	32	16	1.96
1325918--1325942	13	1.9	13	100	0	50	24	4	0	72	1.02
1327558--1327610	20	2.7	20	85	5	63	28	24	13	33	1.93
1330442--1330525	36	2.3	35	84	8	105	26	19	5	48	1.71
1333348--1333400	25	2.3	22	77	20	63	52	9	13	24	1.69
1333356--1333403	25	1.9	25	100	0	96	54	10	12	22	1.68
1336590--1336621	3	10.7	3	100	0	64	68	0	0	31	0.90
1336631--1336712	33	2.4	34	80	13	98	74	0	8	17	1.06
1336653--1336704	22	2.2	24	83	12	65	78	0	9	11	0.95
1338055--1338080	13	2.0	13	100	0	52	76	7	0	15	0.99
1338130--1338229	31	3.2	31	78	14	107	49	4	2	45	1.32
1338192--1338383	36	5.2	36	78	10	201	45	3	4	46	1.39
1338194--1338421	75	3.1	73	79	11	225	43	4	5	45	1.48
1339749--1339773	12	2.1	12	100	0	50	24	16	0	60	1.36
1370456--1370524	30	2.3	30	100	0	138	28	24	14	31	1.95
1376335--1376385	17	3.1	17	81	13	70	43	0	1	54	1.11
1378322--1378360	20	1.9	21	94	5	71	35	0	7	56	1.28
1379483--1379524	3	14.0	3	80	9	50	28	0	40	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385481--1385520	14	2.9	14	88	3	64	2	10	27	60	1.42
1391816--1391904	2	44.5	2	100	0	178	50	0	0	49	1.00
1401175--1401238	29	2.2	29	91	0	101	56	10	10	21	1.64
1401175--1401249	29	2.6	29	87	6	98	50	13	13	22	1.76
1402430--1402505	38	2.0	38	89	0	116	28	9	21	40	1.84
1407095--1407154	31	1.9	31	96	0	111	43	5	6	45	1.52
1407177--1407633	22	20.6	22	80	7	494	48	8	0	42	1.41
1407598--1407647	12	4.3	12	72	10	50	52	2	2	44	1.24
1409921--1409981	24	2.5	24	86	0	86	54	14	18	13	1.72
1409931--1410004	34	2.2	34	83	9	89	51	14	20	13	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12