genome.fa.s1465.2.7.7.80.10.50.1000.7.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   

This is table  7  of  55  ( 6520 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)
1162692--1162731	19	2.1	19	95	0	71	32	40	15	12	1.84
1163815--1163843	14	2.0	15	93	6	51	37	0	0	62	0.96
1170887--1170995	20	5.6	20	79	4	105	30	20	14	34	1.92
1170885--1170957	38	1.9	38	88	0	110	31	21	12	34	1.91
1171043--1171559	36	14.4	36	87	4	679	32	18	19	28	1.96
1171043--1171562	215	2.4	216	85	6	673	33	18	19	28	1.96
1171737--1171767	2	16.0	2	93	6	55	48	0	0	51	1.00
1173024--1173052	14	2.0	15	93	6	51	37	0	0	62	0.96
1174922--1174962	14	2.9	15	79	13	52	73	2	24	0	0.96
1175981--1176070	44	2.0	44	84	0	117	28	13	25	32	1.93
1177301--1177448	75	2.0	75	91	0	242	37	21	15	25	1.93
1177492--1177588	36	2.7	36	78	10	92	35	14	13	37	1.85
1177608--1177744	67	2.0	67	82	8	163	33	16	11	38	1.84
1177661--1178064	99	3.9	101	78	10	372	35	16	10	36	1.84
1177982--1178265	36	8.2	36	72	13	211	27	18	11	41	1.86
1177966--1178098	66	2.0	66	92	0	221	28	18	12	41	1.86
1177661--1178124	208	2.3	203	78	7	431	33	17	10	38	1.84
1177982--1178235	102	2.5	102	90	0	391	27	18	11	41	1.86
1178257--1178969	278	2.6	278	86	0	971	30	28	15	25	1.96
1178257--1178969	139	5.1	139	85	1	865	30	28	15	25	1.96
1179216--1179256	3	14.7	3	80	14	52	26	2	0	70	0.99
1185067--1185195	20	6.6	20	78	3	136	28	20	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185062--1185180	58	2.1	57	88	6	177	26	23	14	35	1.93
1185153--1185204	20	2.6	20	81	0	59	28	17	19	34	1.94
1185245--1185762	36	14.4	36	89	2	704	32	18	19	29	1.96
1187254--1187282	14	2.0	15	93	6	51	37	0	0	62	0.96
1191693--1191849	37	4.3	36	77	10	149	31	17	11	39	1.86
1191688--1191836	73	2.0	73	82	7	178	32	16	12	39	1.85
1191803--1191968	66	2.5	67	79	12	166	34	18	10	36	1.85
1191879--1192250	99	3.8	97	78	9	342	35	16	10	37	1.83
1191856--1192250	200	2.0	199	81	8	471	35	16	10	37	1.83
1191860--1192207	99	3.5	101	81	9	349	35	15	10	38	1.82
1192152--1192284	66	2.0	66	92	0	221	29	18	11	40	1.86
1192168--1192420	102	2.5	102	90	0	389	26	18	12	41	1.86
1192168--1192441	36	7.9	36	71	13	209	27	18	12	41	1.87
1192342--1192403	21	3.2	20	70	25	62	29	19	12	38	1.89
1192448--1193155	139	5.1	139	84	3	861	29	29	15	24	1.96
1193399--1193476	3	26.7	3	89	5	124	30	2	0	66	1.05
1198695--1198739	2	22.5	2	95	0	81	46	2	0	51	1.13
1199264--1199289	5	5.2	5	100	0	52	0	19	57	23	1.40
1200238--1200281	22	1.9	24	86	9	65	34	0	2	63	1.07
1200260--1200332	30	2.3	33	81	9	89	42	0	1	56	1.08
1202606--1202644	19	2.1	19	85	0	51	41	2	10	46	1.51
1203061--1204255	139	8.6	138	83	3	1374	33	21	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203061--1204230	417	2.8	412	85	3	1515	33	21	20	24	1.97
1207420--1207501	19	4.1	19	66	20	51	47	0	2	50	1.14
1208213--1208252	17	2.4	17	91	0	62	25	35	27	12	1.92
1208753--1208820	36	2.0	32	86	13	93	32	5	10	51	1.60
1213342--1213372	6	5.2	6	100	0	62	32	16	32	19	1.94
1215590--1215640	4	12.8	4	100	0	102	25	0	23	50	1.49
1220725--1220766	21	2.0	21	90	0	66	26	26	21	26	1.99
1222387--1222434	19	2.5	20	82	3	62	29	12	6	52	1.63
1223646--1223687	21	2.0	21	95	0	75	26	28	21	23	1.99
1223799--1223873	20	4.0	20	70	22	72	16	29	33	21	1.95
1225403--1225452	25	2.0	25	88	3	75	40	0	0	60	0.97
1230357--1230514	78	2.0	78	92	0	262	35	13	18	32	1.90
1233666--1233713	19	2.6	18	83	9	62	22	16	35	25	1.95
1234015--1234111	49	2.0	49	100	0	194	46	4	8	41	1.53
1240201--1240240	21	1.9	21	85	10	55	35	10	2	52	1.48
1242184--1242346	65	2.5	64	84	3	220	26	15	26	30	1.96
1242294--1242344	19	2.7	19	85	8	70	25	15	35	23	1.94
1243374--1243516	64	2.2	64	81	0	178	37	11	18	32	1.87
1243343--1243514	32	5.4	32	75	1	121	36	12	18	33	1.88
1243402--1243551	64	2.3	63	81	4	167	35	13	18	33	1.89
1248998--1249106	32	3.4	32	80	2	103	33	12	17	35	1.88
1256221--1256300	20	3.8	20	74	18	56	30	18	17	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258255--1258311	19	2.9	20	82	7	55	21	3	15	59	1.51
1258533--1258579	13	3.7	13	91	5	78	44	8	8	38	1.65
1260897--1260933	15	2.5	15	100	0	74	54	0	37	8	1.30
1260891--1260941	15	3.4	16	86	10	65	54	0	39	5	1.24
1267729--1267934	76	2.8	73	79	11	235	31	1	11	55	1.47
1268627--1268685	15	4.1	14	73	8	57	20	5	0	74	1.00
1268625--1268711	35	2.4	36	86	5	115	24	4	0	71	1.05
1273348--1273548	76	2.7	72	80	10	235	30	1	11	56	1.44
1274163--1274205	18	2.4	18	92	7	70	20	4	0	74	1.00
1274245--1274342	36	2.6	39	84	11	123	24	4	0	71	1.03
1274274--1274336	10	6.9	9	70	22	51	25	1	0	73	0.93
1275563--1275590	14	2.0	14	100	0	56	35	7	21	35	1.81
1283262--1283319	29	2.0	30	86	10	84	51	3	6	37	1.46
1284846--1284905	25	2.3	26	83	11	70	11	40	1	46	1.50
1295127--1295211	40	2.1	40	95	0	152	50	9	7	32	1.62
1298627--1298713	29	3.0	29	84	0	120	18	39	26	16	1.91
1298718--1298834	30	3.6	30	73	18	117	25	47	16	10	1.78
1298736--1298795	20	3.0	20	73	22	72	25	48	15	11	1.78
1298740--1298803	20	3.2	20	69	10	60	26	46	14	12	1.79
1299470--1299520	19	2.5	22	72	24	56	31	0	15	52	1.43
1299528--1299625	42	2.2	47	78	10	107	38	1	12	47	1.48
1302697--1302783	11	7.6	11	73	15	52	39	0	13	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302724--1302810	21	4.3	21	64	24	60	40	0	10	49	1.37
1302649--1302948	119	2.6	119	91	5	488	40	0	12	46	1.45
1302649--1302948	60	5.1	60	91	5	483	40	0	12	46	1.45
1302887--1302977	44	2.0	44	89	6	139	42	0	9	47	1.37
1305529--1305568	21	1.9	21	100	0	80	57	15	0	27	1.38
1305742--1305814	27	2.6	28	81	14	80	47	16	1	34	1.55
1306086--1306121	11	3.2	11	84	7	54	36	19	22	22	1.95
1306312--1306377	33	2.0	33	90	0	105	16	19	36	27	1.93
1306366--1306431	10	6.6	10	68	25	50	10	16	50	22	1.76
1306366--1306445	30	2.8	30	92	7	132	11	15	50	23	1.76
1306613--1306712	51	2.0	51	84	4	130	20	33	32	15	1.93
1307130--1307167	16	2.3	17	90	4	60	63	2	0	34	1.09
1307172--1307207	19	1.9	18	88	5	54	58	13	5	22	1.56
1310313--1310364	15	3.2	17	72	22	58	36	21	0	42	1.53
1320852--1320897	22	2.1	22	88	8	67	28	19	26	26	1.99
1321966--1322049	43	2.0	43	85	0	114	32	25	5	36	1.80
1323500--1323549	23	2.2	22	82	13	57	4	30	4	62	1.32
1324009--1324090	21	4.0	21	96	1	139	31	15	28	24	1.96
1324117--1324154	20	1.9	19	94	5	67	28	15	31	23	1.96
1332348--1332393	21	2.2	21	88	0	65	10	23	41	23	1.86
1332358--1332403	21	2.2	21	96	3	85	8	21	41	28	1.83
1333036--1333298	83	3.2	83	83	4	332	32	21	18	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333054--1333294	42	5.7	42	77	3	234	32	21	19	26	1.97
1333399--1333505	42	2.6	41	76	2	115	28	20	22	28	1.99
1333198--1334077	209	4.2	214	84	7	1066	31	19	16	33	1.94
1340019--1340270	54	4.7	53	84	2	299	23	24	16	35	1.95
1340034--1340275	108	2.2	109	85	5	339	23	22	17	36	1.95
1340092--1340324	108	2.2	108	80	9	253	25	23	15	35	1.94
1340253--1340877	55	11.4	55	89	1	929	30	25	14	30	1.94
1340253--1340877	164	3.8	164	89	2	952	30	25	14	30	1.94
1340278--1340877	329	1.8	328	91	1	1004	30	25	14	30	1.94
1342646--1342885	125	1.9	125	86	3	340	24	23	17	35	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55