genome.fa.s7760.2.7.7.80.10.50.1000.4.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: VEPZ01007760.1 Hibiscus syriacus cultivar Beakdansim tig00110029_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2010226

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 949 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)
1042121--1042162	16	2.8	16	80	20	54	40	0	16	42	1.48
1042392--1042428	18	2.1	17	90	5	56	16	13	35	35	1.88
1043338--1043475	70	2.0	70	85	2	188	25	22	16	35	1.95
1043348--1043478	35	3.7	35	85	0	163	25	22	16	35	1.95
1045279--1045318	19	2.1	19	85	0	53	32	27	17	22	1.96
1046272--1046363	48	1.9	46	82	10	114	41	7	8	42	1.64
1045976--1046402	200	2.1	200	83	7	512	38	5	9	46	1.61
1050329--1050528	106	1.9	106	87	0	292	24	20	23	32	1.98
1050456--1050591	63	2.2	63	94	0	236	25	16	26	30	1.97
1050345--1050697	169	2.1	169	90	1	546	23	17	25	33	1.96
1050510--1051336	106	7.8	106	93	0	1343	21	18	25	34	1.96
1052311--1052365	22	2.5	22	100	0	110	23	12	27	36	1.91
1052968--1053033	22	2.9	22	79	16	73	1	15	6	77	1.04
1052970--1053025	16	3.7	15	79	15	62	1	14	3	80	0.93
1052958--1053040	22	3.8	21	73	17	62	2	16	4	75	1.08
1056478--1056523	20	2.3	20	96	0	83	2	41	30	26	1.68
1056510--1056554	17	2.6	17	89	0	63	15	40	15	28	1.88
1057386--1057436	5	10.2	5	77	8	50	70	0	7	21	1.12
1057521--1057570	20	2.7	19	82	14	52	68	0	2	30	1.01
1057535--1057587	19	2.7	20	85	2	63	60	0	3	35	1.15
1057764--1057790	2	13.5	2	100	0	54	51	0	0	48	1.00
1057763--1057811	8	5.7	9	75	18	50	59	0	2	38	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058350--1058432	37	2.3	35	83	4	94	31	9	15	43	1.79
1076211--1076279	34	2.0	35	94	2	122	43	11	4	40	1.61
1078497--1078536	9	4.2	9	81	12	53	15	22	30	32	1.94
1078548--1078622	17	4.4	17	98	0	141	17	44	24	14	1.86
1078612--1078648	7	5.4	7	90	6	58	18	29	27	24	1.98
1078612--1078648	13	2.7	14	87	8	58	18	29	27	24	1.98
1085127--1085173	9	5.1	9	82	5	58	14	25	31	27	1.95
1085167--1085241	17	4.4	17	94	0	123	18	41	24	16	1.90
1085231--1085280	7	7.4	7	91	8	86	16	30	30	24	1.96
1085231--1085276	13	3.5	13	96	3	83	15	30	30	23	1.95
1085231--1085280	20	2.5	20	93	6	84	16	30	30	24	1.96
1092702--1092955	43	6.0	42	81	6	233	22	16	23	36	1.94
1092660--1092955	128	2.3	127	80	4	317	23	16	24	35	1.94
1092659--1092968	43	7.2	42	79	7	221	24	16	24	34	1.95
1092661--1092968	86	3.6	85	79	6	291	24	16	24	34	1.95
1093352--1093415	21	3.0	21	77	4	67	7	31	17	43	1.77
1098402--1098465	12	5.7	12	85	12	82	6	15	0	78	0.95
1098402--1098465	21	2.9	22	84	11	78	6	15	0	78	0.95
1104994--1105061	13	5.5	13	79	10	88	17	44	22	16	1.87
1105008--1105051	23	1.9	23	90	0	70	20	45	20	13	1.85
1104989--1105059	36	2.0	36	91	0	115	18	45	21	15	1.86
1105035--1105084	8	6.5	8	78	21	54	14	38	28	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105051--1105084	15	2.1	16	89	10	52	11	35	29	23	1.90
1106386--1106421	18	2.0	18	88	0	54	52	0	16	30	1.44
1107545--1107651	24	4.5	24	75	4	90	23	13	16	46	1.82
1108556--1108596	19	2.2	19	86	0	55	63	2	0	34	1.08
1108780--1108847	3	23.3	3	75	11	61	66	1	4	27	1.20
1108779--1108858	38	2.2	37	80	13	94	63	2	5	28	1.28
1110130--1110205	3	24.3	3	78	2	62	53	1	0	44	1.08
1110130--1110205	21	3.4	23	79	12	79	53	1	0	44	1.08
1111789--1111815	2	13.5	2	100	0	54	48	0	0	51	1.00
1114711--1114759	25	2.0	25	100	0	98	28	8	42	20	1.80
1114883--1114961	41	1.9	41	84	5	106	36	16	11	35	1.85
1117969--1118014	20	2.3	20	88	3	67	23	21	15	39	1.92
1127705--1127733	2	14.5	2	100	0	58	48	0	0	51	1.00
1130025--1130186	80	2.0	80	93	2	281	50	7	16	25	1.71
1131263--1131294	2	16.5	2	93	6	57	46	0	0	53	1.00
1133718--1133791	3	25.3	3	80	5	71	56	1	1	40	1.16
1133715--1133798	35	2.6	32	81	14	100	55	1	1	41	1.15
1133947--1134454	55	9.2	56	84	5	617	23	23	18	33	1.97
1133947--1134569	55	11.3	56	83	5	607	25	23	17	33	1.97
1133947--1134459	166	3.1	165	84	5	637	24	23	18	33	1.97
1134421--1134596	55	3.2	55	91	1	273	31	22	12	33	1.91
1135231--1135279	13	3.6	13	75	20	55	12	10	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1144476--1144565	3	30.7	3	79	4	76	55	1	1	42	1.14
1144498--1144556	14	4.1	14	86	4	82	52	0	1	45	1.10
1145662--1145715	28	2.0	27	85	10	74	18	3	5	72	1.20
1145671--1145714	16	2.5	18	85	10	56	18	4	2	75	1.09
1145660--1145712	19	2.7	21	75	16	51	20	3	3	71	1.17
1161278--1161346	27	2.5	28	84	15	92	79	0	15	4	0.88
1161279--1161343	20	3.2	20	84	4	67	81	0	15	3	0.81
1161292--1161343	17	3.2	16	80	17	54	82	0	15	1	0.75
1161293--1161343	5	9.8	5	78	16	50	82	0	15	1	0.76
1163842--1163880	12	3.2	12	82	17	53	30	7	35	25	1.84
1169379--1169550	62	2.8	62	86	0	245	28	20	13	37	1.91
1169378--1169589	62	3.4	60	81	8	221	29	18	15	36	1.92
1169369--1169594	124	1.8	124	82	5	296	29	18	15	36	1.91
1169627--1169854	90	2.5	90	81	3	262	32	15	19	32	1.94
1169822--1169918	36	2.7	36	87	3	133	43	16	19	20	1.88
1169959--1170591	136	4.7	136	83	3	731	34	26	15	24	1.94
1169965--1170591	269	2.3	270	83	3	760	34	26	15	24	1.94
1171343--1171416	31	2.3	32	83	2	96	31	31	21	16	1.95
1181277--1181394	60	2.0	60	86	0	164	43	3	7	45	1.49
1181314--1181387	26	3.0	23	81	12	62	41	1	6	50	1.37
1181328--1181387	26	2.3	26	88	5	86	43	0	6	50	1.28
1181337--1181489	37	3.9	37	81	9	171	44	1	6	47	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1181314--1181374	26	2.5	25	86	7	81	42	1	6	49	1.38
1181337--1181478	38	3.6	41	79	14	149	44	2	6	47	1.40
1181455--1181502	25	1.9	24	83	8	60	41	0	6	52	1.27
1181520--1181561	7	6.1	7	81	15	52	30	0	2	66	1.04
1182802--1182829	4	7.0	4	100	0	56	25	0	0	75	0.81
1182825--1182907	3	27.7	3	88	0	112	25	0	4	69	1.07
1182843--1182919	24	3.0	25	83	7	102	22	0	5	72	1.04
1182843--1182922	27	3.1	27	82	12	80	22	0	5	72	1.04
1188863--1188915	24	2.2	24	90	6	81	50	5	3	39	1.44
1199782--1199806	11	2.3	11	100	0	50	40	8	36	16	1.77
1209693--1209745	18	2.9	18	91	0	88	15	47	24	13	1.81
1212182--1212295	24	4.8	24	90	4	158	25	15	18	40	1.90
1212187--1212313	24	5.3	23	85	5	94	25	13	19	40	1.88
1214402--1214426	13	1.9	13	100	0	50	16	40	24	20	1.91
1216902--1217016	24	4.8	24	86	4	151	26	15	19	39	1.91
1216917--1216955	12	3.2	12	77	0	51	30	12	23	33	1.92
1216905--1217033	24	5.4	24	84	3	116	27	13	20	39	1.89
1224179--1224220	18	2.3	18	91	0	66	33	35	14	16	1.89
1224872--1224923	22	2.4	22	100	0	104	32	26	13	26	1.94
1228018--1228059	18	2.4	18	84	11	52	33	16	9	40	1.81
1228079--1228124	17	2.7	17	93	0	83	47	17	4	30	1.67
1228051--1228135	17	4.9	17	78	7	64	42	12	4	40	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1234316--1234737	215	2.0	214	85	5	568	50	15	9	25	1.74
1235932--1236629	214	3.3	215	88	4	1055	50	8	11	29	1.67
1236754--1236817	20	3.1	20	77	16	67	43	1	7	46	1.42
1236736--1236822	22	4.0	22	75	17	74	44	1	6	47	1.37
1236736--1236868	42	3.2	44	77	8	136	45	3	5	45	1.41
1236827--1236868	18	2.3	18	87	0	57	50	7	2	40	1.43
1236733--1236851	2	59.5	2	66	18	52	45	2	5	47	1.38
1236838--1236887	20	2.7	18	79	11	55	50	10	4	36	1.55
1236919--1237089	22	8.4	20	70	15	91	47	2	4	45	1.36
1236940--1236997	11	5.5	11	76	17	61	50	1	3	44	1.29

Tables:   1   2   3   4   5   6   7   8