genome.fa.s7721.2.7.7.80.10.50.1000.5.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: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3738426

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1904 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)
1016660--1016699	20	2.0	20	85	9	55	62	5	0	32	1.17
1018251--1018362	3	36.7	3	79	7	118	58	0	0	40	1.04
1018617--1018697	43	2.0	40	85	9	110	18	23	9	48	1.78
1018637--1019303	113	5.9	114	83	7	872	30	19	12	37	1.89
1018637--1019300	225	2.9	227	93	1	1107	30	19	12	37	1.89
1020079--1020432	83	4.3	83	92	0	546	36	22	12	28	1.91
1021565--1021660	30	3.3	29	76	23	96	1	16	0	82	0.73
1021572--1021661	39	2.4	37	80	12	103	1	17	0	81	0.76
1021568--1021664	14	6.6	14	80	13	106	1	17	0	81	0.75
1028999--1029030	15	2.1	15	94	0	55	46	9	18	25	1.79
1034430--1034511	3	26.7	3	81	4	92	58	0	1	40	1.06
1034443--1034519	9	8.8	9	74	16	63	59	0	1	38	1.06
1039530--1039960	215	2.0	215	90	0	684	22	18	17	40	1.91
1041732--1041775	22	2.0	22	100	0	88	45	13	27	13	1.81
1048023--1048058	19	1.9	18	94	5	63	83	2	8	5	0.89
1065607--1065707	36	2.8	36	86	3	121	40	15	14	28	1.87
1066178--1066264	19	4.6	19	70	20	58	33	3	3	59	1.31
1066306--1066364	2	29.5	2	100	0	118	49	0	0	50	1.00
1066609--1066664	16	3.6	15	80	7	67	14	8	0	76	1.00
1071110--1071149	15	2.7	15	84	7	55	80	5	15	0	0.88
1071116--1071149	14	2.4	14	86	13	52	82	2	14	0	0.79
1071118--1071191	17	3.9	18	77	12	69	78	5	14	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072776--1073832	106	10.0	106	90	2	1578	33	24	19	22	1.97
1072776--1073832	423	2.5	422	91	2	1675	33	24	19	22	1.97
1074533--1074626	37	2.5	37	89	0	134	40	15	12	30	1.85
1075068--1075211	67	2.2	66	77	14	156	31	4	4	59	1.37
1075106--1075196	19	4.6	19	68	21	53	32	3	3	60	1.29
1075239--1075283	2	22.5	2	100	0	90	48	0	0	51	1.00
1075383--1075437	23	2.3	23	81	3	65	20	0	7	72	1.07
1075423--1075458	18	1.9	19	88	5	56	30	5	0	63	1.17
1075517--1075613	4	24.2	4	71	15	51	18	10	0	71	1.14
1075517--1075613	16	6.1	16	73	14	67	18	10	0	71	1.14
1079324--1079396	31	2.4	31	81	4	87	42	10	19	27	1.84
1088738--1088834	48	2.0	48	93	0	167	15	25	31	26	1.96
1091393--1091463	35	2.0	36	97	2	135	40	5	14	39	1.69
1091409--1091468	18	3.4	18	64	13	52	45	3	11	40	1.57
1091903--1091942	21	1.9	21	85	10	55	40	0	7	52	1.30
1093172--1093238	7	10.0	7	79	9	61	23	0	2	73	0.97
1093182--1093218	12	2.9	12	92	8	56	13	0	5	81	0.86
1093175--1093232	19	2.9	19	82	7	62	20	0	3	75	0.94
1093209--1093238	13	2.3	13	100	0	60	26	0	0	73	0.84
1093175--1093239	33	1.9	34	84	9	89	21	0	3	75	0.94
1094179--1094222	20	2.1	21	91	4	72	40	0	47	11	1.39
1094190--1094234	20	2.2	20	88	0	63	44	4	42	8	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097028--1097056	14	2.1	14	100	0	58	27	13	20	37	1.91
1109920--1110098	90	2.0	90	97	0	340	40	12	13	32	1.83
1110582--1110809	76	3.0	75	89	3	332	29	16	18	35	1.93
1132269--1132322	29	1.9	28	85	7	74	29	20	18	31	1.96
1132364--1132557	66	2.9	66	82	1	237	31	24	14	28	1.94
1140711--1140744	11	3.1	11	82	0	50	26	20	8	44	1.81
1144053--1144094	19	2.2	20	87	12	61	19	19	2	59	1.49
1145601--1145759	12	12.2	12	76	13	113	79	0	16	3	0.85
1145602--1145737	17	8.4	17	74	16	69	80	0	15	3	0.84
1145602--1145757	60	2.6	57	79	14	163	80	0	16	3	0.83
1145602--1145757	7	22.4	7	74	17	130	80	0	16	3	0.83
1145668--1145770	26	3.7	27	80	18	97	78	0	18	2	0.87
1148154--1148867	134	5.3	134	80	6	748	33	21	15	30	1.94
1148154--1148879	268	2.7	267	82	3	879	33	21	15	30	1.94
1149037--1149091	3	18.3	3	100	0	110	32	0	0	67	0.91
1149829--1149869	18	2.3	18	91	0	64	80	0	4	14	0.87
1151497--1151524	14	2.0	14	100	0	56	42	14	7	35	1.73
1151474--1151587	42	2.7	44	85	8	139	27	7	19	45	1.77
1152329--1152373	22	2.0	22	86	0	63	35	2	13	48	1.54
1153750--1154252	251	2.0	251	96	0	927	44	6	4	43	1.51
1154487--1154826	189	1.8	188	90	0	554	45	8	6	40	1.60
1155216--1155244	12	2.3	13	94	5	51	58	6	0	34	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155896--1155931	2	18.5	2	94	5	65	50	0	0	50	1.00
1156442--1156518	14	5.4	14	67	14	50	36	6	11	45	1.67
1156444--1156525	30	2.9	27	79	10	92	35	6	10	47	1.64
1158094--1158119	9	2.9	9	100	0	52	7	34	0	57	1.27
1173334--1173415	40	2.0	40	100	0	164	31	18	21	28	1.97
1178008--1178060	20	2.6	21	79	5	65	32	16	22	28	1.96
1188145--1188197	21	2.5	21	96	0	97	30	18	22	28	1.98
1195317--1195368	21	2.5	21	87	0	68	32	19	21	26	1.97
1195497--1195521	12	2.1	12	100	0	50	24	24	24	28	2.00
1196296--1196351	21	2.6	22	80	2	69	21	23	14	41	1.89
1200611--1200639	13	2.2	13	100	0	58	20	6	20	51	1.70
1201025--1201085	23	2.6	22	80	14	61	67	1	0	31	1.01
1201026--1201086	15	4.0	15	75	12	61	68	1	0	29	0.99
1201026--1201085	24	2.6	23	79	7	68	68	1	0	30	0.99
1201026--1201085	7	8.0	7	82	10	57	68	1	0	30	0.99
1201138--1201193	23	2.4	23	79	8	60	32	3	1	62	1.23
1203410--1203528	32	3.8	32	81	5	118	25	26	29	18	1.98
1205846--1206469	55	11.3	55	86	3	808	38	17	16	27	1.91
1212715--1213307	55	10.8	54	87	3	697	39	17	16	26	1.91
1212715--1213307	110	5.4	110	85	2	773	39	17	16	26	1.91
1212709--1213307	165	3.6	165	86	3	841	39	17	16	26	1.91
1215272--1215348	16	5.0	15	69	15	59	46	0	6	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1216252--1216296	2	22.5	2	100	0	90	48	0	0	51	1.00
1229329--1229513	37	5.1	37	92	3	279	44	17	17	19	1.87
1230267--1230313	22	2.2	22	92	3	78	55	21	21	2	1.54
1230911--1230945	2	17.5	2	100	0	70	48	0	0	51	1.00
1232999--1233199	5	40.6	5	66	21	86	55	3	1	39	1.26
1232989--1233131	17	8.2	18	74	17	61	58	1	2	38	1.19
1233002--1233201	2	109.5	2	67	26	72	55	3	1	39	1.26
1232999--1233201	7	29.4	7	70	17	106	55	3	1	39	1.26
1233084--1233179	43	2.2	43	80	10	108	59	3	1	36	1.20
1233488--1233578	31	3.0	31	96	3	168	32	6	17	42	1.75
1233643--1233709	19	3.5	19	91	0	98	40	10	13	35	1.79
1233816--1233857	21	2.0	21	95	0	75	23	21	28	26	1.99
1233886--1233925	20	1.9	21	85	10	55	37	37	10	15	1.80
1234140--1234209	34	2.1	32	86	5	95	31	15	30	22	1.95
1236199--1236246	23	2.1	23	96	0	87	56	8	2	33	1.41
1236405--1236495	31	3.0	31	96	3	168	32	6	17	42	1.75
1236560--1236626	19	3.5	19	91	0	98	40	10	13	35	1.79
1236732--1236773	21	2.0	21	95	0	75	23	21	28	26	1.99
1237055--1237124	34	2.1	32	86	5	95	31	15	30	22	1.95
1238538--1238731	98	2.0	98	92	0	325	29	18	18	33	1.95
1239881--1239920	20	2.0	21	90	5	64	32	17	20	30	1.95
1243261--1243320	20	3.0	20	85	2	86	31	18	21	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246801--1246832	2	16.0	2	100	0	64	50	0	0	50	1.00
1249509--1249557	25	2.0	25	100	0	98	20	12	20	46	1.82
1252627--1252664	18	2.1	18	90	0	58	76	5	13	5	1.13
1254922--1255065	5	29.8	5	72	21	67	52	6	1	40	1.35
1254913--1254982	20	3.6	19	75	9	52	52	11	0	35	1.37
1254964--1255112	7	20.4	7	72	17	99	53	5	1	40	1.32
1254991--1255057	11	5.7	11	81	13	53	53	1	2	41	1.25
1254925--1255112	2	96.5	2	68	25	84	51	7	1	39	1.37
1263735--1263776	20	2.0	21	86	4	59	64	19	2	14	1.39
1271152--1271635	179	2.7	174	82	5	569	32	19	15	32	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16