genome.fa.s8982.2.7.7.80.10.50.1000.7.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: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2253222

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

This is table  7  of  12  ( 1401 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)
1013128--1013158	16	1.9	16	100	0	62	38	3	12	45	1.59
1013409--1013486	31	2.5	32	91	4	124	32	8	11	47	1.71
1013798--1013822	2	12.5	2	100	0	50	52	0	0	48	1.00
1014531--1014559	2	15.0	2	92	7	51	48	0	0	51	1.00
1016447--1016477	16	1.9	16	100	0	62	38	3	12	45	1.59
1015405--1018232	793	3.6	792	85	2	3724	28	16	19	35	1.94
1016971--1017001	16	1.9	16	100	0	62	38	3	12	45	1.59
1017235--1017265	16	1.9	16	100	0	62	38	3	12	45	1.59
1017500--1017529	16	1.9	15	93	6	51	36	3	13	46	1.60
1018028--1018058	16	1.9	16	100	0	62	38	3	12	45	1.59
1018064--1018400	168	2.0	168	84	3	446	32	15	22	29	1.95
1018460--1018490	16	1.9	16	100	0	62	38	3	12	45	1.59
1019157--1019211	22	2.5	22	75	0	56	29	9	23	38	1.85
1019858--1019893	16	2.2	16	90	0	54	33	2	19	44	1.65
1020917--1020947	16	1.9	16	100	0	62	38	3	12	45	1.59
1021182--1021212	16	1.9	16	100	0	62	38	3	12	45	1.59
1021447--1021477	16	1.9	16	100	0	62	38	3	12	45	1.59
1021711--1021741	16	1.9	16	93	0	53	41	3	12	41	1.59
1019598--1032964	523	25.6	524	83	5	14211	28	16	19	35	1.93
1022754--1022784	16	1.9	16	93	0	53	38	3	16	41	1.64
1024032--1024067	16	2.2	16	90	0	54	33	2	19	44	1.65
1025085--1025115	16	1.9	16	100	0	62	38	3	12	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1025350--1025380	16	1.9	16	100	0	62	38	3	12	45	1.59
1025615--1025645	16	1.9	16	100	0	62	38	3	12	45	1.59
1025879--1025909	16	1.9	16	93	0	53	41	3	12	41	1.59
1026666--1026696	16	1.9	16	93	0	53	41	3	12	41	1.59
1027713--1027743	16	1.9	16	93	0	53	35	3	12	48	1.58
1028992--1029027	16	2.2	16	90	0	54	33	2	19	44	1.65
1029528--1029558	16	1.9	16	100	0	62	38	3	12	45	1.59
1030052--1030082	16	1.9	16	100	0	62	38	3	12	45	1.59
1030317--1030347	16	1.9	16	100	0	62	38	3	12	45	1.59
1030843--1030873	16	1.9	16	100	0	62	38	3	12	45	1.59
1031373--1031403	16	1.9	16	100	0	62	38	3	12	45	1.59
1033313--1033357	2	22.5	2	100	0	90	51	0	0	48	1.00
1033838--1033883	21	2.2	21	84	7	58	45	0	8	45	1.34
1045998--1046035	18	2.1	18	90	0	58	21	15	28	34	1.94
1052855--1052919	23	3.0	22	78	10	62	13	18	16	50	1.78
1053457--1053481	12	2.1	12	100	0	50	40	36	8	16	1.77
1063273--1063357	24	3.5	25	74	18	72	45	0	0	54	1.00
1063327--1063360	2	17.5	2	93	6	61	50	0	0	50	1.00
1064142--1064174	16	2.1	16	88	5	50	39	0	3	57	1.14
1067063--1067100	19	2.0	19	100	0	76	42	21	0	36	1.53
1068545--1068641	33	2.9	33	81	0	113	38	16	8	37	1.79
1078081--1078125	2	22.5	2	100	0	90	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1078227--1078265	21	1.9	20	89	5	60	43	5	2	48	1.38
1078502--1078532	16	1.9	16	93	0	53	54	0	3	41	1.16
1079509--1079545	19	1.9	19	88	0	56	40	13	13	32	1.84
1080216--1080258	2	22.5	2	90	9	72	48	0	0	51	1.00
1080162--1080229	21	3.0	22	81	16	84	50	0	5	44	1.26
1080485--1080586	39	2.6	39	73	14	111	46	1	15	36	1.58
1081347--1081402	3	18.7	3	100	0	112	66	0	0	33	0.92
1084126--1084176	20	2.5	21	81	9	61	15	17	3	62	1.47
1095611--1096586	105	9.3	105	94	1	1651	33	24	18	23	1.97
1095611--1096586	208	4.7	207	94	1	1641	33	24	18	23	1.97
1095617--1096586	311	3.1	312	95	1	1728	33	24	18	23	1.97
1098596--1098646	20	2.5	20	84	15	70	17	15	3	62	1.47
1098602--1098647	19	2.4	19	82	7	58	17	15	4	63	1.47
1102851--1102891	20	2.0	20	95	0	73	31	9	7	51	1.62
1102916--1102983	31	2.2	31	81	2	73	30	7	11	50	1.66
1102931--1103003	31	2.4	31	92	0	119	26	9	15	49	1.74
1103400--1103500	39	2.6	38	75	17	109	39	15	2	41	1.63
1103763--1103821	21	2.6	22	82	15	75	40	8	1	49	1.43
1103818--1103874	24	2.3	25	84	3	80	40	1	0	57	1.09
1105323--1105395	30	2.5	30	88	2	112	15	32	21	30	1.94
1107275--1107316	2	21.0	2	100	0	84	50	0	0	50	1.00
1114228--1114257	14	2.1	15	93	6	53	70	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1114697--1114794	4	22.8	4	69	15	54	65	5	2	27	1.25
1114742--1114789	18	2.5	20	86	6	64	66	4	2	27	1.21
1118000--1118068	23	3.0	23	95	0	120	28	26	24	20	1.99
1121461--1121520	22	2.7	21	79	18	75	36	0	0	63	0.95
1127766--1127819	23	2.3	23	96	0	99	35	7	24	33	1.83
1128489--1128633	77	1.9	77	85	5	202	31	6	8	53	1.55
1132398--1132427	15	2.1	14	93	6	51	50	6	16	26	1.70
1132705--1132737	17	1.9	17	88	11	50	63	0	3	33	1.10
1132744--1132813	35	2.0	35	94	0	122	35	8	14	41	1.76
1133740--1133799	23	2.5	25	81	8	70	56	0	1	41	1.09
1135757--1136245	172	2.9	170	84	3	646	37	14	13	35	1.85
1136358--1136392	17	2.1	17	88	0	52	34	25	5	34	1.80
1137503--1137553	17	3.4	17	65	30	51	43	0	7	49	1.32
1137496--1137559	28	2.3	28	94	0	119	40	0	6	53	1.26
1139347--1139422	32	2.3	34	82	13	88	48	0	0	51	1.00
1139503--1139572	29	2.4	30	85	2	106	24	32	8	34	1.86
1153207--1153245	20	1.9	20	89	5	60	17	28	35	17	1.94
1157057--1157096	21	1.9	21	85	10	55	35	7	2	55	1.42
1160445--1160603	63	2.5	63	82	2	167	30	18	20	29	1.97
1160591--1160648	20	2.7	20	81	10	62	27	20	25	25	1.99
1162210--1162261	23	2.3	23	86	0	68	23	26	25	25	2.00
1174591--1174621	16	2.0	15	93	6	53	35	25	25	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1176965--1176994	15	2.0	15	100	0	60	26	6	13	53	1.64
1179287--1179496	89	2.3	88	87	4	303	34	20	19	26	1.96
1179388--1179669	132	2.1	132	92	0	456	32	20	21	25	1.97
1179716--1180376	43	15.3	43	72	9	405	30	29	12	27	1.93
1179712--1180162	176	2.6	171	90	3	688	30	30	12	26	1.93
1179839--1180376	215	2.5	214	90	1	806	29	30	12	27	1.93
1180446--1180735	36	8.0	36	88	1	355	35	13	24	26	1.92
1180409--1180774	108	3.3	108	82	5	392	35	14	22	26	1.93
1180777--1181024	76	3.3	74	89	3	352	38	11	15	34	1.83
1180841--1181024	36	4.9	36	68	11	136	39	10	16	33	1.84
1182366--1182432	27	2.6	27	75	13	68	0	13	5	80	0.88
1182376--1182423	17	2.9	15	80	17	51	0	8	6	85	0.74
1182376--1182425	9	5.6	9	79	13	50	0	8	6	86	0.72
1182382--1182423	16	2.5	17	85	14	52	0	7	7	85	0.73
1182382--1182432	15	3.2	16	73	18	52	0	9	5	84	0.78
1188231--1188352	44	2.8	42	81	7	129	36	19	20	23	1.95
1188216--1188497	43	6.6	42	75	8	174	32	20	20	25	1.97
1190865--1191028	80	2.1	79	89	3	249	39	17	12	30	1.87
1193186--1193348	41	4.0	42	84	3	197	35	15	17	31	1.91
1193196--1193419	41	5.5	40	78	8	195	32	18	17	31	1.94
1193811--1193883	24	3.0	24	88	4	67	10	15	24	49	1.76
1193821--1193876	14	4.3	14	82	17	75	8	14	25	51	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193836--1193889	10	5.0	10	79	16	54	11	11	20	57	1.63
1193822--1193883	24	2.6	24	94	0	106	9	12	24	53	1.69
1194885--1194957	16	4.7	16	89	3	105	12	10	17	58	1.61
1194879--1194953	10	7.7	10	68	21	52	12	12	20	56	1.67
1197162--1197194	13	2.5	13	95	0	57	12	9	24	54	1.66
1198440--1198482	21	2.0	21	86	0	59	32	25	23	18	1.97
1199027--1199347	103	3.1	103	93	0	561	27	13	23	36	1.92
1199363--1199415	23	2.3	23	93	0	97	16	32	26	24	1.97
1205462--1205504	21	2.0	21	90	0	68	32	27	23	16	1.96
1205861--1205916	23	2.4	23	90	0	85	19	26	26	26	1.99

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