genome.fa.s4693.2.7.7.80.10.50.1000.6.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

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

This is table  6  of  12  ( 1372 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)
1164477--1164617	15	9.2	15	76	17	139	44	0	2	52	1.15
1164597--1164850	32	8.4	31	65	26	127	35	0	11	52	1.37
1164624--1164733	22	4.5	22	67	27	71	39	0	9	51	1.34
1164597--1164867	54	5.1	54	80	9	335	35	0	11	52	1.38
1164776--1164818	22	2.0	22	95	0	77	32	0	16	51	1.45
1164821--1164868	22	2.4	18	73	23	51	33	0	14	52	1.42
1164877--1164940	32	2.0	32	96	0	119	32	0	14	53	1.41
1164875--1164925	14	3.1	17	70	18	54	27	0	17	54	1.43
1168577--1168634	21	2.8	20	70	17	55	31	5	3	60	1.35
1175656--1175714	23	2.5	24	78	10	70	35	5	6	52	1.50
1191613--1191676	30	2.1	30	82	5	76	35	26	18	18	1.94
1192411--1192462	19	2.7	19	100	0	104	26	21	17	34	1.95
1192346--1192511	83	2.0	84	85	5	230	27	18	18	35	1.94
1198445--1198742	6	50.0	6	90	1	447	17	2	34	45	1.60
1201051--1201084	17	1.9	18	94	5	61	61	0	0	38	0.96
1201051--1201094	18	2.5	19	85	10	58	54	0	0	45	0.99
1201030--1201094	20	3.3	19	74	19	62	50	0	1	47	1.10
1201030--1201131	41	2.5	42	81	9	111	49	2	1	46	1.28
1201483--1201532	22	2.3	22	82	6	57	48	22	0	30	1.51
1205830--1205865	9	4.0	9	92	0	63	36	0	44	19	1.51
1205827--1205864	18	2.1	18	100	0	76	39	0	44	15	1.47
1222524--1222555	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1223397--1223534	41	3.4	41	81	6	154	34	24	18	22	1.96
1223401--1223514	20	5.7	20	82	6	122	31	26	18	23	1.97
1223668--1223701	12	2.9	12	86	4	52	17	41	5	35	1.74
1223850--1223887	20	1.9	20	94	0	67	39	23	21	15	1.92
1223906--1223957	14	3.2	16	73	24	54	11	25	19	44	1.84
1224091--1224127	14	2.6	14	86	0	56	48	21	0	29	1.50
1225992--1226042	19	2.6	20	81	3	68	45	19	19	15	1.86
1226015--1226093	32	2.4	33	91	2	124	46	20	18	13	1.83
1226031--1226088	14	3.9	14	75	16	53	48	20	17	13	1.81
1226100--1226182	19	4.6	19	73	14	86	14	20	19	45	1.85
1226168--1226210	20	2.2	20	87	4	61	18	23	20	37	1.94
1226176--1226221	20	2.3	20	88	0	65	15	21	26	36	1.93
1226702--1226746	18	2.5	18	85	0	54	13	15	40	31	1.86
1228067--1228124	20	2.9	21	82	7	66	44	20	17	17	1.86
1228626--1228671	20	2.3	20	92	0	74	26	19	28	26	1.99
1228680--1228733	20	2.7	20	97	0	99	25	18	24	31	1.97
1228599--1228736	61	2.3	61	84	0	186	25	16	22	35	1.95
1228625--1228754	61	2.1	61	81	2	145	23	19	23	33	1.97
1228804--1228844	21	2.0	21	85	0	55	34	29	17	19	1.94
1232969--1233103	71	1.9	71	98	0	261	39	10	11	39	1.75
1233409--1233582	20	8.6	20	81	5	199	34	25	20	20	1.96
1233409--1233582	60	2.9	60	82	4	224	34	25	20	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1233965--1234035	33	2.2	33	94	0	124	11	23	16	47	1.79
1234134--1234223	14	5.7	14	72	23	72	43	23	24	8	1.82
1234127--1234239	33	3.4	33	95	0	199	46	23	22	8	1.79
1234148--1234209	19	3.5	19	75	20	71	43	24	22	9	1.83
1234257--1234346	14	5.7	14	72	23	72	8	24	23	43	1.82
1234240--1234354	33	3.5	33	96	0	212	9	22	20	46	1.79
1234235--1234332	19	5.7	19	69	22	81	10	22	22	44	1.82
1236051--1236333	93	3.1	93	97	0	532	22	12	18	46	1.83
1236381--1236457	19	4.3	19	71	17	65	45	28	16	9	1.78
1236397--1236457	19	3.5	19	74	21	78	47	29	16	6	1.72
1236453--1236587	19	7.6	19	75	16	128	11	19	23	45	1.82
1236475--1236531	14	3.7	14	77	20	60	10	21	22	45	1.82
1236458--1236550	33	2.8	33	95	0	168	10	20	21	47	1.80
1238501--1238536	14	2.6	14	95	0	63	33	0	22	44	1.53
1238643--1238726	19	4.6	19	80	16	115	44	17	23	14	1.86
1238716--1239089	19	20.7	19	85	11	536	14	21	17	45	1.84
1241373--1241397	12	2.1	12	100	0	50	0	28	0	72	0.86
1241572--1241618	24	2.0	24	87	8	69	38	21	14	25	1.92
1242301--1242510	20	10.5	20	85	2	215	20	17	25	37	1.94
1242477--1242573	20	4.8	20	76	3	77	22	18	21	37	1.95
1244985--1245031	4	11.8	4	100	0	94	74	0	0	25	0.82
1250412--1250469	30	1.9	30	82	6	73	6	36	18	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250412--1250486	33	2.4	30	82	6	78	6	33	18	41	1.77
1254567--1254616	23	2.2	23	92	0	82	24	18	14	44	1.86
1256019--1256097	33	2.4	30	81	12	86	39	0	1	59	1.06
1256238--1256291	17	3.2	17	72	0	54	31	0	3	64	1.11
1257821--1257868	21	2.3	21	85	0	60	25	39	12	22	1.89
1257872--1257941	21	3.3	21	88	7	106	18	35	27	18	1.94
1258466--1258570	34	3.1	35	84	4	142	56	4	3	35	1.39
1259906--1260525	128	4.9	127	93	2	1009	32	20	24	22	1.98
1264313--1264355	2	21.5	2	100	0	86	51	0	0	48	1.00
1270480--1270522	21	2.0	21	90	0	68	46	0	16	37	1.47
1273370--1273404	17	1.9	19	88	11	56	31	2	2	62	1.24
1273512--1273561	15	3.4	15	71	15	50	56	2	2	40	1.22
1276235--1276263	2	15.0	2	92	7	51	51	0	0	48	1.00
1278337--1278421	3	28.3	3	97	0	161	32	1	0	65	1.00
1285624--1285653	2	15.0	2	100	0	60	50	0	0	50	1.00
1290835--1290872	18	2.1	18	90	0	58	31	28	10	28	1.90
1294432--1294820	183	2.1	186	89	5	587	42	2	7	46	1.47
1295579--1295646	31	2.2	31	86	0	91	41	10	22	26	1.85
1299759--1300213	227	2.0	227	94	2	799	42	6	5	45	1.54
1300384--1300421	20	1.9	20	100	0	76	23	28	10	36	1.88
1301049--1301086	20	1.9	20	94	0	67	23	26	10	39	1.87
1302208--1302245	19	2.0	19	100	0	76	31	36	21	10	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302260--1302330	32	2.2	32	92	0	115	30	30	29	8	1.87
1302318--1302412	29	3.3	29	95	0	163	13	30	32	23	1.93
1302439--1302553	49	2.4	49	88	8	177	20	37	19	22	1.94
1302757--1302795	16	2.3	18	86	8	55	38	0	5	56	1.22
1302859--1302968	41	2.6	40	77	11	114	40	0	10	49	1.38
1302900--1302988	45	2.0	46	84	10	121	40	0	11	48	1.39
1303016--1303068	12	4.3	12	81	11	63	30	0	16	52	1.44
1303163--1303209	16	3.0	16	84	9	53	29	0	10	59	1.31
1303184--1303214	15	2.1	14	94	5	53	38	0	6	54	1.26
1305349--1305380	17	1.9	17	93	6	57	46	9	6	37	1.61
1305375--1305418	21	2.1	21	86	0	61	45	4	9	40	1.56
1305383--1305447	21	3.2	21	77	14	66	49	7	4	38	1.52
1305526--1305713	11	16.2	12	69	16	69	46	10	1	42	1.47
1305640--1305707	26	2.7	26	84	8	79	41	10	2	45	1.53
1305568--1305761	95	2.0	95	93	5	331	44	10	2	43	1.50
1305526--1305707	23	7.8	23	67	20	83	46	9	1	42	1.47
1305728--1305770	22	2.0	21	86	4	59	37	9	2	51	1.47
1305856--1305901	11	3.6	14	80	19	64	45	17	0	36	1.49
1305898--1305937	20	2.0	20	95	0	71	57	0	0	42	0.98
1305943--1306260	11	27.6	11	66	18	71	45	15	0	39	1.48
1305924--1306430	59	8.7	60	92	6	830	45	14	0	39	1.47
1306348--1306378	11	2.9	11	95	4	55	41	19	0	38	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309450--1309503	28	1.9	28	96	0	99	57	12	0	29	1.36
1309446--1309510	28	2.3	28	84	10	96	55	10	0	33	1.35
1309480--1309528	21	2.3	21	85	3	71	53	16	0	30	1.43
1310129--1310230	30	3.4	30	87	1	161	10	17	48	23	1.79
1310288--1310346	26	2.3	26	96	0	109	8	25	45	20	1.79
1310877--1310921	21	2.1	21	83	0	54	35	13	2	48	1.54
1321083--1321121	2	19.5	2	100	0	78	51	0	0	48	1.00
1321258--1321293	19	2.0	17	89	10	54	66	0	0	33	0.92
1321548--1321591	20	2.1	21	95	4	81	52	0	0	47	1.00
1330385--1330423	19	2.1	18	85	4	51	46	7	17	28	1.76

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