genome.fa.s7964.2.7.7.80.10.50.1000.5.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: VEPZ01007964.1 Hibiscus syriacus cultivar Beakdansim tig00110393_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1737572

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 720 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)
1205443--1205486	19	2.3	19	84	7	54	27	13	22	36	1.92
1205894--1205939	23	2.0	23	100	0	92	21	21	21	34	1.97
1206078--1206104	13	2.1	13	100	0	54	55	0	0	44	0.99
1206266--1206381	35	3.2	35	71	21	112	43	0	6	50	1.33
1206963--1207060	48	2.0	50	80	11	114	47	2	0	50	1.12
1207189--1207244	26	2.3	23	85	14	76	46	1	0	51	1.11
1207229--1207311	27	3.1	26	76	10	78	50	1	0	48	1.08
1207272--1207332	8	8.1	8	75	14	58	47	0	0	52	1.00
1207261--1207323	21	3.0	21	84	11	76	47	1	0	50	1.10
1207284--1207332	14	3.3	15	77	11	57	46	0	0	53	1.00
1207270--1207334	22	3.0	22	78	17	57	46	0	0	53	1.00
1207244--1207345	27	4.0	25	71	17	75	50	1	0	47	1.12
1208353--1208424	35	2.1	35	86	5	101	36	12	13	37	1.83
1208492--1208553	31	2.0	31	96	0	115	41	14	3	40	1.62
1208973--1209021	3	16.3	3	91	0	80	32	0	2	65	1.04
1210503--1210569	13	5.6	12	77	18	68	76	1	2	19	1.00
1210522--1210569	11	4.4	11	78	17	55	79	0	2	18	0.84
1210503--1210571	23	2.9	23	87	8	86	75	1	2	20	1.01
1210521--1210571	5	9.0	6	83	12	56	78	0	1	19	0.85
1210928--1210970	20	2.2	20	87	8	61	81	4	4	9	0.97
1213858--1213941	29	2.9	28	92	3	132	23	29	30	15	1.95
1214340--1214403	27	2.3	28	79	15	71	35	1	15	46	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1214507--1214557	28	1.9	26	84	11	68	35	0	7	56	1.28
1214590--1214629	21	1.9	21	100	0	80	27	0	15	57	1.38
1214797--1214900	30	3.4	30	82	12	115	39	1	10	48	1.49
1217179--1217273	14	6.6	14	73	15	70	47	13	0	38	1.43
1217246--1217370	59	2.1	60	95	2	227	44	13	0	40	1.49
1217304--1217920	49	11.3	49	77	18	552	46	12	0	40	1.45
1217433--1217492	25	2.4	26	72	8	61	45	13	0	41	1.43
1217403--1217921	60	9.1	59	79	13	565	46	13	0	40	1.44
1217561--1217587	10	2.7	10	100	0	54	40	18	0	40	1.51
1217615--1217663	24	2.0	24	84	7	64	44	14	0	40	1.45
1217403--1217921	227	2.3	225	90	6	832	46	13	0	40	1.44
1220949--1221005	25	2.4	25	91	5	91	54	10	0	35	1.35
1220949--1221005	24	2.4	24	88	5	80	54	10	0	35	1.35
1224052--1224419	183	2.0	185	98	1	713	27	23	18	31	1.97
1225264--1225299	15	2.4	15	90	0	54	55	5	0	38	1.23
1231668--1231734	32	2.1	31	86	2	89	35	32	7	23	1.83
1236149--1236174	11	2.4	11	100	0	52	26	7	0	65	1.20
1236169--1236261	19	4.6	19	72	21	82	48	1	0	50	1.07
1236169--1236278	43	2.7	41	84	13	147	50	1	0	48	1.11
1240800--1240901	50	2.0	51	98	1	197	19	37	15	27	1.92
1244047--1244178	52	2.5	52	91	0	210	22	12	19	44	1.85
1246967--1247184	29	7.6	29	84	5	246	35	2	15	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1247026--1247186	85	1.9	85	92	0	268	32	2	14	50	1.56
1248068--1248191	31	3.9	32	73	10	94	18	26	26	28	1.98
1254459--1254649	29	6.6	29	88	4	278	33	1	15	49	1.55
1254458--1254649	87	2.2	87	92	0	312	33	1	15	48	1.55
1255675--1255729	26	2.1	26	83	6	67	27	7	16	49	1.72
1257213--1257258	17	2.7	17	96	0	83	30	26	10	32	1.90
1259146--1259201	29	2.0	29	85	3	78	37	23	8	30	1.85
1259601--1259637	17	2.2	17	90	4	58	48	5	2	43	1.40
1260907--1260939	2	16.5	2	100	0	66	51	0	0	48	1.00
1263325--1263363	18	2.2	18	95	0	69	28	7	17	46	1.76
1263512--1263561	19	2.6	19	100	0	100	26	4	0	70	1.05
1265046--1265094	23	2.1	24	92	3	82	67	10	16	6	1.39
1265046--1265094	24	2.1	23	88	11	73	67	10	16	6	1.39
1273261--1273298	3	12.3	3	94	5	67	65	0	34	0	0.93
1273741--1273845	19	5.2	19	82	13	120	34	5	28	31	1.81
1274221--1274259	14	2.8	14	100	0	78	41	28	15	15	1.87
1274292--1274328	19	1.9	19	94	0	65	27	16	24	32	1.96
1281659--1281738	15	5.3	15	72	21	69	70	0	10	20	1.16
1281657--1281738	30	2.7	30	100	0	164	69	0	9	20	1.16
1287185--1287277	30	3.0	31	87	6	125	33	1	39	25	1.63
1294673--1294745	24	3.0	24	84	4	58	10	13	24	50	1.74
1294683--1294739	14	4.4	14	76	17	59	8	12	24	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294684--1294758	24	3.1	24	88	3	89	12	10	21	56	1.66
1295483--1295557	10	7.7	10	67	21	52	9	13	21	56	1.65
1295489--1295553	16	4.1	16	91	0	112	7	13	23	55	1.64
1295623--1295655	16	2.1	16	100	0	66	6	12	24	57	1.57
1305089--1305135	20	2.4	19	76	13	51	40	8	2	48	1.45
1307845--1307884	17	2.4	17	100	0	80	20	25	37	17	1.94
1316087--1316157	32	2.2	32	94	0	124	47	16	19	15	1.82
1317978--1318030	21	2.5	21	84	9	63	30	24	22	22	1.99
1317978--1318051	22	3.4	22	79	1	69	25	24	24	25	2.00
1320031--1320066	18	2.0	18	100	0	72	22	22	16	38	1.93
1323517--1323586	34	2.1	32	86	5	95	24	28	15	31	1.96
1324017--1324080	19	3.4	19	86	2	67	37	14	12	35	1.83
1324032--1324080	19	2.6	19	90	0	80	38	12	8	40	1.72
1324144--1324203	29	2.0	31	90	6	97	41	16	6	35	1.75
1326124--1326428	42	7.4	41	79	7	298	28	17	19	34	1.95
1326893--1327062	85	2.0	85	100	0	340	21	15	16	47	1.83
1337139--1337179	18	2.3	18	95	0	73	29	34	19	17	1.94
1350907--1350938	2	16.0	2	100	0	64	50	0	0	50	1.00
1350972--1351062	38	2.4	38	94	3	157	40	9	15	34	1.80
1350977--1351037	19	3.2	19	66	25	56	40	8	16	34	1.78
1354471--1354797	163	2.0	166	95	3	590	40	17	14	27	1.87
1357125--1357179	18	3.0	18	82	10	67	74	0	3	21	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1357131--1357182	19	2.7	19	80	14	61	75	0	3	21	0.97
1358073--1358113	19	2.1	20	95	4	75	46	19	9	24	1.80
1359463--1359499	13	2.8	13	91	4	56	81	0	0	18	0.70
1359462--1359496	15	2.2	16	90	5	54	82	0	0	17	0.66
1359498--1359531	5	6.4	5	87	12	50	64	0	17	17	1.29
1364435--1364494	2	30.0	2	100	0	120	50	0	0	50	1.00
1379193--1379387	97	2.0	98	98	1	383	15	25	31	27	1.95
1382377--1382584	107	2.0	104	97	2	389	25	15	12	47	1.80
1387595--1387640	19	2.5	19	82	3	58	32	6	0	60	1.22
1387624--1387671	14	3.4	14	94	5	80	37	4	2	56	1.30
1387584--1387742	85	1.9	84	89	6	250	35	3	1	59	1.24
1387675--1387725	18	2.7	19	77	17	61	35	3	0	60	1.15
1387705--1387741	13	2.7	14	84	15	51	37	2	0	59	1.12
1387987--1388017	15	2.1	15	93	0	53	29	6	16	48	1.70
1390717--1390857	60	2.3	61	86	4	196	35	8	4	51	1.52
1390914--1390947	16	2.1	16	89	10	52	38	2	5	52	1.41
1390980--1391142	18	9.4	18	70	16	130	42	6	6	44	1.55
1390980--1391166	33	5.5	33	84	8	241	43	5	6	43	1.55
1390942--1391057	55	2.1	52	80	15	119	43	8	6	40	1.62
1391203--1391332	2	60.0	2	69	19	66	46	4	6	41	1.51
1391208--1391271	9	6.7	9	71	25	51	48	1	6	43	1.37
1391198--1391274	29	2.6	29	80	10	77	48	2	6	42	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1391198--1391324	51	2.5	51	87	6	170	47	4	7	40	1.52
1391268--1391363	20	4.8	19	69	23	56	43	6	9	40	1.62
1391259--1391472	59	3.6	58	76	16	197	42	6	8	42	1.61
1391259--1391378	33	3.9	32	75	14	128	43	5	10	40	1.62
1391378--1391424	18	2.7	18	83	3	60	44	6	6	42	1.55
1391362--1391427	24	3.0	24	66	25	63	43	7	7	40	1.61
1391447--1391490	18	2.5	17	81	3	52	40	6	9	43	1.63
1391528--1391565	19	2.1	18	95	5	67	50	5	0	44	1.24
1391539--1391578	14	2.8	14	84	3	53	45	2	0	52	1.14
1392705--1392777	31	2.4	31	100	0	146	23	19	21	35	1.96

Tables:   1   2   3   4   5   6