genome.fa.s8721.2.7.7.80.10.50.1000.6.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: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2464137

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

This is table  6  of  12  ( 1342 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)
951498--951617	33	3.5	33	84	14	138	45	19	24	10	1.82
951634--951690	14	3.7	14	75	20	60	8	24	22	43	1.81
951618--951697	33	2.4	33	95	0	142	8	21	22	47	1.78
951678--951750	21	3.5	21	76	10	87	15	20	17	46	1.84
951830--951900	33	2.2	33	94	0	124	47	16	23	11	1.79
952279--952433	20	7.7	20	88	4	240	20	19	27	32	1.97
952420--952471	20	2.6	20	87	6	70	11	19	25	44	1.84
952278--952471	40	4.8	40	85	4	239	18	19	26	35	1.95
952279--952471	60	3.2	60	82	6	230	18	19	26	35	1.95
952439--952536	21	4.8	20	75	10	81	21	19	21	37	1.94
952439--952537	42	2.4	43	77	11	100	21	19	22	37	1.94
953657--953691	16	2.3	15	90	5	52	11	0	14	74	1.08
959946--960005	20	2.9	20	76	13	68	13	23	25	38	1.91
959969--960040	22	3.4	22	73	11	87	18	19	25	37	1.94
959949--960056	41	2.6	41	92	4	173	16	20	23	39	1.92
959987--960050	19	3.1	21	69	13	69	18	18	20	42	1.90
960062--960141	20	3.9	20	79	6	88	15	23	21	40	1.91
960263--960327	6	10.8	6	98	0	103	21	50	27	0	1.49
960995--961042	22	2.2	22	92	0	78	37	29	14	18	1.91
961070--961173	41	2.5	41	85	0	154	39	22	19	19	1.93
961146--961197	20	2.6	20	96	0	95	44	23	23	9	1.82
961108--961222	61	1.9	61	94	0	203	37	22	21	18	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
963382--963456	29	2.6	29	84	0	96	18	40	26	14	1.90
963383--963470	29	3.0	29	84	0	95	20	37	30	11	1.88
963669--963755	29	3.0	29	84	0	120	14	29	39	16	1.88
964395--964432	14	2.6	15	83	8	51	55	0	0	44	0.99
965164--965218	29	1.9	28	85	10	76	47	1	1	49	1.23
965474--965529	28	2.0	28	89	6	87	42	0	1	55	1.10
966340--966381	20	2.0	21	86	13	59	50	4	2	42	1.36
968926--968957	16	2.0	16	93	0	55	28	3	0	68	1.04
976148--976209	27	2.3	27	82	0	70	19	4	29	46	1.70
977165--977239	20	3.8	20	78	7	89	20	22	26	30	1.98
977165--977247	40	2.1	40	86	0	112	20	24	25	30	1.99
981028--981095	21	3.0	22	89	8	93	22	7	16	54	1.66
991933--991969	6	6.2	6	100	0	74	0	16	48	35	1.46
992247--992301	22	2.5	22	75	0	56	29	9	23	38	1.85
997829--997867	5	7.8	5	91	0	51	5	41	35	17	1.72
997865--997894	6	5.0	6	91	0	51	3	16	50	30	1.62
998075--998129	22	2.5	22	75	0	56	29	9	23	38	1.85
1013213--1013261	22	2.3	22	89	3	73	30	28	12	28	1.93
1013254--1013342	42	2.2	40	84	8	108	28	13	26	31	1.94
1013285--1013339	20	2.8	20	75	10	67	25	14	29	30	1.95
1016376--1016423	21	2.3	20	80	19	55	66	4	0	29	1.10
1020415--1020461	19	2.6	18	83	9	60	72	2	2	23	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1020525--1020562	2	19.5	2	94	5	69	47	0	0	52	1.00
1020455--1020540	36	2.4	37	88	5	122	47	8	0	44	1.32
1020489--1020597	57	1.9	55	83	10	141	45	5	2	45	1.40
1020542--1020718	39	4.5	39	85	5	198	41	7	4	46	1.53
1020544--1020683	39	3.7	38	89	2	201	42	7	4	46	1.51
1024997--1025035	17	2.4	17	95	4	71	43	0	5	51	1.24
1028471--1028551	29	2.8	29	96	3	146	17	22	16	44	1.86
1028928--1029084	64	2.5	64	80	6	167	29	17	19	34	1.94
1035281--1035314	15	2.3	15	94	0	59	32	32	20	14	1.93
1035399--1035479	29	2.8	29	96	3	146	17	22	16	44	1.86
1035856--1036012	64	2.5	64	80	8	185	27	17	19	35	1.95
1040593--1040623	16	1.9	16	93	0	53	19	6	0	74	1.03
1044295--1044346	7	7.3	7	85	10	70	82	1	15	0	0.75
1044299--1044343	15	2.9	15	84	15	65	80	2	17	0	0.82
1045467--1045697	110	2.1	107	81	4	259	33	23	17	24	1.96
1046445--1046519	24	3.1	24	73	16	75	34	5	0	60	1.20
1047723--1047758	15	2.4	15	95	0	63	13	11	2	72	1.23
1060093--1060137	9	5.2	8	82	12	54	84	2	2	11	0.80
1060101--1060137	17	2.2	17	90	4	58	86	2	0	10	0.67
1062167--1062201	15	2.3	15	95	0	61	31	17	2	48	1.61
1062692--1062832	59	2.4	59	79	4	160	41	4	21	31	1.73
1063020--1063056	19	2.1	19	85	10	51	32	5	5	56	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1066498--1066618	33	3.8	33	94	4	205	18	49	13	19	1.79
1066498--1066618	63	1.9	63	91	6	199	18	49	13	19	1.79
1077070--1077136	27	2.8	22	76	22	71	38	1	0	59	1.06
1077087--1077156	27	2.6	27	97	0	131	41	2	0	55	1.14
1079864--1079907	17	2.6	17	80	13	56	65	2	4	27	1.23
1094137--1094164	6	4.7	6	100	0	56	64	0	0	35	0.94
1096334--1096375	15	2.8	15	82	10	50	57	2	0	40	1.12
1098683--1098713	4	7.8	4	100	0	62	22	0	25	51	1.48
1100037--1100061	2	12.5	2	100	0	50	48	0	0	52	1.00
1103567--1103623	26	2.2	26	90	3	87	49	8	10	31	1.68
1104411--1104457	18	2.5	19	82	6	60	29	23	14	31	1.95
1105336--1105391	24	2.3	24	84	0	67	28	19	16	35	1.93
1105350--1105403	24	2.2	24	93	0	90	20	18	20	40	1.91
1106365--1106404	21	1.9	21	89	0	62	30	27	25	17	1.97
1107088--1107149	2	31.0	2	100	0	124	50	0	0	50	1.00
1107225--1107283	20	2.7	21	84	12	75	27	22	22	28	1.99
1107767--1107865	21	4.7	21	96	0	171	31	11	8	49	1.67
1107800--1107859	11	5.6	11	74	7	61	26	13	10	50	1.73
1114380--1114414	18	2.0	17	94	5	61	57	22	2	17	1.53
1116328--1116404	21	3.7	21	78	5	84	23	20	33	22	1.97
1119026--1119095	20	3.5	19	77	16	72	18	17	21	42	1.89
1119225--1119254	15	2.0	15	93	0	51	26	6	3	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1127060--1127156	29	3.3	29	71	5	77	34	9	4	52	1.52
1127059--1127210	60	2.6	60	85	4	175	32	13	4	49	1.62
1127106--1127227	58	2.1	60	81	3	140	34	18	5	41	1.74
1127352--1127607	60	4.3	59	76	8	232	41	5	21	32	1.75
1127380--1127631	120	2.1	119	96	0	468	42	4	20	32	1.73
1127356--1127662	60	5.1	59	71	10	198	41	5	21	32	1.76
1129390--1129428	3	13.0	3	100	0	78	33	0	0	66	0.92
1131352--1131716	131	2.8	131	80	1	392	32	9	14	42	1.79
1134505--1134615	12	9.4	11	74	14	80	37	0	0	61	1.02
1134536--1134603	23	2.7	25	80	13	77	42	0	1	55	1.08
1134511--1134668	63	2.6	61	90	7	241	41	0	1	57	1.07
1134629--1134694	21	2.9	23	73	15	66	40	1	1	56	1.18
1134511--1134710	63	3.3	57	82	13	160	41	0	1	57	1.09
1134658--1134709	20	2.5	20	77	20	54	40	1	0	57	1.10
1134682--1134715	15	2.2	16	89	5	52	38	0	0	61	0.96
1134682--1134732	16	3.3	15	81	15	52	35	0	3	60	1.15
1136741--1136781	20	2.1	20	86	4	57	34	0	0	65	0.93
1137506--1137545	19	2.1	19	100	0	80	25	5	35	35	1.78
1138970--1139001	11	2.6	13	85	14	50	53	0	0	46	1.00
1144522--1144591	32	2.2	32	86	2	95	27	18	18	35	1.94
1146483--1146527	21	2.1	21	87	0	63	31	28	24	15	1.96
1147166--1147212	23	2.0	24	91	4	78	44	0	21	34	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1147428--1147582	31	5.0	31	89	1	224	20	20	21	36	1.95
1150717--1150761	21	2.1	21	87	0	63	31	28	24	15	1.96
1151399--1151445	23	2.0	24	91	4	78	44	0	21	34	1.52
1151656--1151810	31	5.0	31	89	3	233	20	20	22	36	1.95
1152561--1152600	20	2.0	21	85	5	55	22	7	17	52	1.69
1157637--1157669	2	16.5	2	100	0	66	51	0	48	0	1.00
1161554--1161598	21	2.1	21	87	0	63	31	28	24	15	1.96
1162745--1162808	21	3.0	21	88	4	101	23	26	23	26	2.00
1166918--1166962	21	2.1	21	87	0	63	31	28	24	15	1.96
1168137--1168200	21	3.0	21	88	4	101	23	26	23	26	2.00

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