genome.fa.s7749.2.7.7.80.10.50.1000.5.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: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1787532

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 889 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)
865848--866199	73	4.6	74	72	19	244	46	6	5	41	1.53
866064--866224	73	2.2	73	81	10	179	45	5	4	44	1.49
866251--866276	11	2.4	11	100	0	52	61	7	0	30	1.24
866271--866327	2	29.0	2	94	3	98	52	0	0	47	1.00
866260--866327	27	2.6	27	90	6	104	54	1	0	44	1.09
880542--880743	101	2.0	101	99	0	395	34	8	10	46	1.69
883198--883224	2	13.5	2	100	0	54	51	48	0	0	1.00
883904--883932	11	2.6	11	100	0	58	44	24	10	20	1.82
885992--886069	31	2.6	29	81	4	84	46	1	8	43	1.43
887564--887588	12	2.1	12	100	0	50	60	0	8	32	1.26
891618--891751	31	4.3	31	95	0	223	42	8	8	40	1.66
898357--898402	24	1.9	24	100	0	92	26	8	21	43	1.81
899124--899193	18	3.7	18	77	20	79	25	31	22	20	1.98
900703--900863	64	2.5	63	84	8	184	26	20	18	34	1.95
901636--901693	24	2.4	24	91	0	89	20	20	20	37	1.94
902704--902728	2	12.5	2	100	0	50	48	0	0	52	1.00
903950--904001	19	2.6	20	77	20	63	32	1	0	65	1.04
903953--904001	20	2.4	21	83	10	66	32	2	0	65	1.04
907594--907660	28	2.3	30	72	10	77	35	13	4	46	1.63
907901--907925	12	2.1	12	100	0	50	44	16	0	40	1.47
912191--912231	20	2.0	20	90	0	64	41	2	0	56	1.13
912190--912233	22	2.0	22	86	0	61	40	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
913733--913820	3	30.0	3	95	4	162	65	0	0	34	0.93
915009--915158	74	2.0	75	83	5	187	28	14	18	39	1.89
923730--923789	25	2.5	24	89	5	93	45	0	0	55	0.99
924901--924944	22	2.0	22	86	0	61	61	9	13	15	1.56
928849--928890	15	2.8	15	82	7	50	50	26	0	23	1.50
930013--930125	30	3.7	30	77	5	111	46	15	1	37	1.56
930019--930126	31	3.6	30	78	6	103	45	16	1	36	1.59
933431--933478	25	1.9	25	82	0	60	37	10	27	25	1.88
941845--941889	20	2.3	20	88	3	65	48	11	4	35	1.59
941848--941887	20	2.0	20	95	0	71	45	12	5	37	1.64
941901--941940	20	2.0	21	90	5	64	45	15	5	35	1.68
941954--941992	20	2.0	20	94	0	69	41	17	5	35	1.72
941846--941993	53	2.8	52	95	3	271	47	13	5	33	1.65
946510--946554	20	2.3	20	88	3	65	48	11	4	35	1.59
946513--946552	20	2.0	20	95	0	71	45	12	5	37	1.64
946566--946605	20	2.0	21	90	5	64	45	15	5	35	1.68
946619--946657	20	2.0	20	94	0	69	41	17	5	35	1.72
946511--946658	53	2.8	52	95	3	271	47	13	5	33	1.65
948676--948781	52	2.0	52	98	0	203	33	21	16	27	1.95
957968--958044	29	2.7	29	95	0	136	29	27	7	35	1.85
960468--960510	20	2.2	20	91	0	68	32	13	20	32	1.92
966288--966330	20	2.2	20	86	0	59	32	13	18	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
973381--973443	23	2.7	23	95	2	108	34	0	15	49	1.45
982782--982828	18	2.5	20	83	13	55	59	4	0	36	1.17
988866--988970	51	2.1	50	98	1	201	27	11	15	45	1.80
989429--989479	20	2.4	22	90	6	79	58	0	5	35	1.22
997756--997803	25	1.9	25	100	0	96	22	27	16	33	1.96
1000809--1000840	2	16.0	2	100	0	64	50	0	0	50	1.00
1002203--1002250	21	2.3	21	81	0	60	33	18	39	8	1.81
1016698--1016732	17	1.9	19	88	11	56	25	34	8	31	1.86
1019586--1019685	29	3.4	29	100	0	200	33	16	20	31	1.94
1024741--1024765	2	12.5	2	100	0	50	52	0	0	48	1.00
1031792--1031824	13	2.3	15	90	10	52	30	6	0	63	1.18
1032445--1032484	21	1.9	21	89	0	62	27	10	2	60	1.42
1032472--1032566	31	3.1	31	82	0	118	43	5	9	42	1.59
1043564--1043623	16	3.7	17	80	6	54	45	5	3	46	1.41
1043579--1043621	17	2.6	17	85	3	61	41	4	4	48	1.44
1045335--1045389	22	2.5	22	75	0	56	29	9	23	38	1.85
1050429--1050455	2	13.5	2	100	0	54	48	0	0	51	1.00
1053834--1053877	3	16.0	3	82	17	51	29	0	2	68	1.02
1053820--1053873	27	2.0	26	89	10	83	24	0	3	72	1.01
1053826--1053877	16	3.4	16	81	5	63	28	0	1	69	0.99
1055251--1055309	29	2.0	30	83	9	77	28	6	3	61	1.38
1056281--1056335	27	2.1	26	86	3	74	30	5	1	61	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1057958--1058017	27	2.3	26	82	2	75	20	15	6	58	1.59
1060098--1060143	2	23.0	2	100	0	92	50	0	0	50	1.00
1060433--1060505	1	73.0	1	80	0	74	89	0	10	0	0.50
1060434--1060511	8	9.5	8	90	4	120	87	0	12	0	0.55
1060433--1060511	17	4.8	17	90	6	126	87	0	12	0	0.55
1062861--1063080	114	1.9	114	93	0	377	32	13	20	32	1.92
1065702--1065780	22	3.6	22	94	0	131	32	13	13	39	1.85
1066489--1066601	36	3.1	36	79	0	154	36	15	10	37	1.83
1066840--1066955	36	3.2	36	71	6	117	29	14	16	39	1.88
1066311--1067154	336	2.5	335	94	0	1474	33	15	14	36	1.88
1067130--1067438	77	4.0	77	92	2	509	24	18	22	33	1.97
1067436--1068088	113	5.8	113	85	3	883	37	14	19	28	1.92
1067436--1068082	337	1.9	334	87	3	949	37	14	19	27	1.91
1068006--1068291	120	2.4	119	78	10	280	41	13	19	25	1.88
1068438--1068481	3	16.0	3	82	17	51	29	0	2	68	1.02
1068435--1068481	16	3.0	16	81	3	60	29	0	2	68	1.02
1068428--1068471	23	2.0	23	91	8	74	22	0	4	72	1.02
1069857--1069915	29	2.0	30	83	9	77	28	6	3	61	1.38
1075436--1075471	16	2.2	17	90	5	56	44	22	0	33	1.53
1086281--1086338	24	2.4	24	94	0	98	18	17	10	53	1.71
1098643--1098668	13	2.0	13	100	0	52	23	0	23	53	1.46
1101153--1101400	14	18.5	13	72	14	184	50	5	4	40	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1101141--1101254	42	2.7	42	90	2	167	48	4	5	42	1.45
1101153--1101402	28	9.3	28	76	13	213	49	5	4	40	1.46
1101244--1101418	37	4.6	37	90	7	280	50	5	3	41	1.41
1101230--1101402	79	2.2	79	100	0	346	50	5	4	40	1.44
1103424--1103531	51	2.2	47	88	8	153	24	18	13	43	1.86
1103670--1103755	32	2.7	32	94	0	154	34	32	25	6	1.83
1103737--1103844	47	2.3	47	95	0	189	37	22	19	20	1.94
1105342--1105505	73	2.2	74	89	3	242	46	14	22	17	1.83
1113485--1113526	22	1.9	22	85	9	59	64	4	7	23	1.38
1116117--1116192	32	2.4	32	93	0	134	25	31	25	18	1.97
1118531--1118884	175	2.0	176	99	0	701	31	23	14	29	1.95
1120439--1120482	22	2.0	22	86	8	63	47	2	11	38	1.52
1129474--1129602	29	4.4	29	71	13	111	32	21	3	41	1.71
1129504--1129636	60	2.2	60	82	2	151	30	21	5	42	1.75
1132891--1132918	2	14.0	2	100	0	56	50	0	0	50	1.00
1137993--1138397	187	2.1	191	82	4	505	40	4	9	44	1.58
1141241--1141268	2	14.0	2	100	0	56	50	0	0	50	1.00
1143893--1143961	31	2.2	31	84	0	84	26	10	15	47	1.77
1145882--1145920	19	2.1	19	90	0	60	15	20	30	33	1.94
1153040--1153089	22	2.3	22	89	0	73	22	50	18	10	1.76
1157014--1157104	33	2.8	32	80	12	105	24	13	23	39	1.90
1161758--1161822	33	2.0	33	87	0	94	32	13	21	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163464--1163506	6	7.2	6	89	0	59	2	11	46	39	1.53
1166754--1166798	18	2.5	18	85	0	63	37	11	26	24	1.89
1170855--1170968	36	3.2	36	88	3	169	44	11	7	36	1.68
1180405--1180440	18	2.0	18	100	0	72	44	11	5	38	1.63
1180779--1180848	20	3.5	20	76	3	77	14	20	24	41	1.89
1180783--1180933	41	3.7	42	84	5	157	19	19	21	39	1.92
1181506--1181542	5	7.4	5	100	0	74	0	40	21	37	1.54
1181543--1181577	6	5.8	6	96	0	61	2	17	48	31	1.61
1181677--1181746	22	3.3	22	76	11	83	37	25	18	18	1.94
1181652--1181745	41	2.3	41	88	3	136	40	22	15	21	1.91

Tables:   1   2   3   4   5   6   7   8