genome.fa.s8252.2.7.7.80.10.50.1000.5.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: VEPZ01008252.1 Hibiscus syriacus cultivar Beakdansim tig00110904_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2928487

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

This is table  5  of  13  ( 1474 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)
913246--913917	356	1.9	353	90	5	1068	44	13	15	26	1.83
914301--914348	23	2.1	23	92	0	78	39	16	8	35	1.79
914301--914461	87	1.9	87	87	0	241	34	13	10	41	1.78
915117--915148	14	2.1	16	88	11	50	50	6	0	43	1.27
920267--920317	14	3.4	15	78	21	54	37	9	0	52	1.34
920275--920317	17	2.8	16	82	13	54	39	6	0	53	1.28
920892--920923	2	16.0	2	100	0	64	50	0	0	50	1.00
920969--921000	2	16.0	2	100	0	64	50	0	0	50	1.00
921871--921910	21	1.9	21	89	0	62	47	27	0	25	1.52
928422--928468	21	2.2	21	100	0	94	38	10	0	51	1.37
930417--930470	3	18.0	3	100	0	108	66	0	0	33	0.92
932881--932931	19	2.7	19	96	0	93	62	0	0	37	0.95
933985--934040	24	2.3	24	90	6	87	26	1	48	23	1.61
933991--934046	24	2.4	24	84	3	78	25	5	44	25	1.75
934002--934053	24	2.2	24	82	0	59	26	3	46	23	1.69
935664--935703	21	1.9	21	94	0	71	25	25	22	27	2.00
936107--936259	45	3.4	45	93	1	261	31	21	5	41	1.75
940306--940381	21	3.6	21	76	0	80	26	31	10	31	1.90
940348--940474	57	2.2	58	80	4	150	29	28	11	30	1.92
940498--940645	49	3.0	49	97	0	278	39	27	12	20	1.88
944994--945042	16	3.0	16	90	3	71	30	16	18	34	1.93
945066--945099	17	2.1	17	94	5	61	29	17	17	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948142--948200	24	2.5	24	77	2	75	32	16	23	27	1.96
948187--948220	17	1.9	18	88	5	52	26	20	26	26	1.99
950007--950052	22	2.1	22	88	4	67	47	4	8	39	1.54
950007--950063	22	2.5	23	83	8	64	49	5	8	36	1.57
950614--950655	21	2.0	21	85	0	57	16	23	23	35	1.95
951235--951581	172	2.0	175	98	1	673	42	16	11	29	1.83
957632--957658	13	2.1	13	100	0	54	44	22	11	22	1.84
963778--964002	48	4.7	48	84	2	256	26	20	12	40	1.88
963955--964058	44	2.4	44	85	0	136	26	19	10	43	1.83
969137--969450	47	6.6	48	88	5	419	24	21	13	39	1.90
969137--969502	47	7.9	44	85	7	241	25	21	13	40	1.89
969139--969450	142	2.2	138	85	6	403	25	21	13	39	1.90
981351--981441	45	2.0	46	89	2	139	27	24	19	28	1.99
993879--993918	18	2.3	18	86	4	55	72	0	10	17	1.11
999468--999510	18	2.4	18	84	7	52	67	4	6	20	1.33
1002530--1002582	20	2.9	17	69	15	52	30	13	11	45	1.78
1002626--1002678	17	3.1	17	88	0	79	37	15	5	41	1.70
1011501--1011594	40	2.4	37	83	11	109	29	14	12	42	1.83
1014773--1014827	21	2.6	21	82	2	56	49	3	5	41	1.43
1019500--1019555	3	19.3	3	92	7	98	66	0	0	33	0.92
1019474--1019555	29	2.9	29	89	3	114	63	2	1	32	1.15
1019725--1020085	43	8.4	44	71	12	207	23	18	31	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1019761--1020066	130	2.4	130	92	4	510	23	18	31	26	1.98
1020131--1020192	28	2.2	28	88	5	90	51	12	11	24	1.72
1020586--1021097	67	7.9	65	75	10	424	41	13	14	30	1.84
1021044--1021131	28	3.1	29	80	11	101	39	14	11	34	1.82
1021049--1021131	30	2.9	30	83	8	109	37	14	12	36	1.83
1022035--1022081	4	12.2	4	91	8	80	23	0	25	51	1.49
1023916--1023986	20	3.0	24	69	22	78	40	11	23	23	1.87
1023913--1023992	26	3.3	26	68	20	82	42	10	23	23	1.84
1023901--1023994	46	2.1	45	89	2	143	38	8	25	27	1.85
1029491--1029562	3	24.3	3	97	2	137	66	0	0	33	0.92
1033598--1033659	24	2.6	24	84	0	88	35	22	19	22	1.96
1033805--1033881	15	5.2	15	82	3	84	40	23	3	32	1.73
1033805--1033870	29	2.2	30	83	2	80	39	24	4	31	1.75
1034501--1034550	21	2.5	20	80	9	57	32	28	12	28	1.92
1038320--1038355	19	1.9	19	88	5	56	47	11	11	30	1.74
1039261--1039287	9	3.0	9	100	0	54	11	33	11	44	1.75
1039606--1039668	24	2.7	24	77	2	74	33	20	22	23	1.97
1039661--1039735	23	3.2	23	79	3	87	28	21	26	24	1.99
1039666--1039736	24	3.0	24	79	4	90	26	23	26	22	2.00
1039837--1039913	15	5.2	15	76	3	57	41	23	2	32	1.68
1040554--1040594	21	2.0	20	85	4	55	36	19	7	36	1.80
1045705--1045744	20	2.1	18	86	9	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1045718--1045751	13	2.5	14	90	4	52	44	2	0	52	1.16
1046730--1046764	18	1.9	18	94	0	61	11	25	17	45	1.81
1057866--1057897	13	2.5	13	100	0	64	18	18	34	28	1.95
1057946--1057998	18	2.9	18	94	0	88	26	32	20	20	1.98
1063258--1063346	18	4.9	18	100	0	178	26	33	22	16	1.96
1065744--1065772	14	2.1	14	100	0	58	58	13	6	20	1.58
1067594--1067628	3	11.7	3	87	0	52	65	0	28	5	1.15
1069956--1069995	20	2.1	18	86	9	53	50	0	0	50	1.00
1071420--1071473	20	2.8	20	97	2	101	35	0	12	51	1.40
1073697--1073736	21	1.9	21	94	0	71	32	10	0	57	1.32
1074067--1074101	15	2.3	15	85	0	52	20	2	0	77	0.90
1076781--1076843	25	2.5	25	78	0	81	25	17	22	34	1.95
1079403--1079452	20	2.5	20	86	0	64	38	16	24	22	1.93
1080867--1080921	25	2.2	26	83	9	69	45	3	3	47	1.38
1080874--1080933	26	2.3	27	85	8	79	43	3	3	50	1.35
1085478--1085598	45	2.7	45	94	3	208	32	22	5	39	1.78
1085681--1085808	59	2.2	59	86	0	175	28	25	18	27	1.98
1086656--1086721	29	2.2	30	75	2	71	34	24	6	34	1.80
1090534--1090579	20	2.3	20	96	0	83	19	17	21	41	1.90
1091437--1091469	15	2.2	15	100	0	66	48	0	0	51	1.00
1091442--1091481	15	2.6	15	88	4	53	47	2	0	50	1.14
1092316--1092400	27	3.2	28	67	26	76	48	5	7	38	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1092318--1092398	26	3.1	26	69	26	80	48	6	7	38	1.56
1093123--1093285	56	2.9	56	74	13	149	36	11	17	34	1.86
1093497--1093748	67	3.8	67	92	3	409	30	15	26	27	1.96
1093699--1093860	80	2.0	80	89	2	245	37	11	22	28	1.89
1095900--1095952	27	2.0	28	88	7	83	69	3	11	15	1.31
1100001--1100034	6	5.8	6	89	6	52	85	11	0	2	0.71
1107851--1107880	7	4.3	7	95	0	51	3	16	10	70	1.29
1108688--1108726	13	3.0	13	84	0	51	38	0	0	61	0.96
1110012--1110046	2	17.5	2	100	0	70	51	0	0	48	1.00
1113207--1113256	25	2.0	25	100	0	100	52	8	4	36	1.50
1114492--1114530	17	2.3	17	86	0	51	38	5	10	46	1.60
1117829--1117888	25	2.4	25	81	8	70	16	13	5	65	1.44
1117973--1118025	19	2.9	18	76	20	56	15	0	3	81	0.83
1118006--1118051	22	2.1	22	88	8	67	15	0	8	76	1.02
1117980--1118043	30	2.1	30	83	11	78	14	0	6	79	0.91
1125038--1125097	31	1.9	31	83	12	79	28	20	5	46	1.71
1127384--1127427	17	2.6	17	77	0	52	43	6	9	40	1.63
1130109--1130142	16	2.2	16	94	5	61	17	0	26	55	1.42
1130171--1130197	14	1.9	14	100	0	54	14	7	55	22	1.64
1134303--1134351	22	2.3	22	83	13	59	34	10	6	48	1.62
1134498--1134545	23	2.1	23	88	0	69	41	6	0	52	1.27
1134928--1134966	20	1.9	21	89	5	62	46	23	15	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1135058--1135739	164	3.9	168	77	12	647	44	13	14	26	1.82
1135218--1135909	180	3.8	181	83	8	860	44	13	15	27	1.83
1135526--1135550	11	2.3	11	100	0	50	44	12	0	44	1.41
1135222--1135909	182	3.7	180	83	7	846	44	13	15	27	1.83
1136299--1136333	16	2.2	16	94	0	61	51	0	20	28	1.47
1137602--1137657	24	2.5	22	77	13	60	41	1	7	50	1.40
1137895--1137946	9	5.8	9	79	0	59	40	7	50	1	1.42
1137895--1137941	18	2.6	18	89	0	76	42	8	48	0	1.33
1137895--1137946	27	1.9	27	84	0	68	40	7	50	1	1.42
1138353--1138391	18	2.2	18	90	0	60	56	0	38	5	1.22

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