genome.fa.s8488.2.7.7.80.10.50.1000.5.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  5  of  54  ( 6450 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)
1036677--1036848	34	4.9	34	78	15	167	54	3	15	26	1.57
1036681--1036831	35	4.1	39	72	13	140	56	3	13	25	1.53
1036688--1036852	74	2.2	75	95	1	296	52	3	16	27	1.58
1036959--1036987	5	5.8	5	100	0	58	82	0	0	17	0.66
1036865--1037090	125	1.8	125	85	5	323	46	14	14	24	1.82
1038023--1038408	54	7.1	54	90	2	580	31	19	16	32	1.94
1042633--1043944	54	24.1	54	82	2	1180	23	24	19	31	1.98
1042631--1043944	161	8.1	162	83	2	1199	23	24	19	31	1.98
1042633--1043944	215	6.0	215	81	4	1183	23	24	19	31	1.98
1043929--1043959	15	2.1	15	100	0	62	41	12	32	12	1.81
1045254--1045374	8	14.2	8	74	16	57	7	14	0	78	0.95
1045253--1045337	16	5.4	16	77	19	72	9	11	0	78	0.95
1045256--1045286	13	2.4	13	100	0	62	6	12	0	80	0.89
1045269--1045352	8	10.4	8	82	11	91	8	14	0	77	0.99
1045262--1045371	25	4.5	24	77	15	100	6	15	0	78	0.95
1045253--1045370	17	6.9	17	66	16	64	6	14	0	78	0.94
1045253--1045377	11	11.9	10	69	23	53	7	14	0	78	0.95
1050113--1050265	55	2.8	55	82	2	182	24	19	11	44	1.83
1050768--1050901	41	3.0	46	89	7	197	31	19	28	20	1.97
1054671--1054996	163	2.0	162	99	0	643	27	26	9	36	1.88
1058784--1059029	54	4.6	55	85	5	324	31	19	15	33	1.93
1059375--1059418	22	2.0	21	86	4	61	31	25	11	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1059476--1059525	19	2.6	19	93	0	91	36	14	20	30	1.91
1059896--1059928	13	2.5	13	100	0	66	30	9	42	18	1.81
1061000--1061192	61	3.2	61	69	14	184	25	13	24	35	1.93
1060946--1061198	120	2.1	119	90	5	395	25	12	24	37	1.91
1060980--1061248	120	2.2	120	85	6	350	25	12	25	36	1.91
1061329--1061749	139	3.0	139	86	1	556	25	17	27	29	1.98
1065005--1065034	2	15.0	2	100	0	60	50	0	0	50	1.00
1066030--1066117	45	1.9	46	93	2	151	26	19	13	40	1.88
1066410--1066616	112	1.9	109	89	5	326	36	19	9	34	1.84
1066410--1066616	55	3.8	54	89	4	308	36	19	9	34	1.84
1070719--1070762	22	2.0	22	90	0	70	29	25	9	36	1.86
1070959--1071282	108	3.0	109	89	2	472	34	17	12	34	1.88
1070970--1071279	163	1.9	164	87	3	455	34	17	12	35	1.87
1070970--1071282	55	5.7	55	90	2	454	34	17	12	35	1.87
1073959--1074019	22	2.8	22	100	0	122	26	8	32	32	1.86
1074890--1074968	24	3.2	24	92	3	140	43	7	7	41	1.61
1074946--1074993	19	2.5	20	82	3	62	54	6	10	29	1.59
1077341--1077622	141	2.0	141	100	0	564	29	14	21	34	1.94
1090947--1090997	15	3.5	15	75	5	59	27	29	17	25	1.98
1096858--1096914	28	2.0	28	86	0	78	28	15	22	33	1.95
1098055--1098153	43	2.3	43	89	5	146	36	20	11	32	1.88
1100074--1100223	31	4.9	31	77	4	124	30	30	26	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100073--1100223	62	2.5	62	83	1	178	29	30	26	13	1.94
1102459--1102529	30	2.4	29	90	4	106	36	18	21	23	1.95
1104639--1104804	31	5.4	31	76	2	154	28	30	27	14	1.95
1104638--1104804	62	2.7	62	82	1	174	28	29	26	14	1.95
1105973--1106156	65	2.9	64	79	7	185	29	22	18	28	1.97
1105990--1106156	64	2.6	63	77	10	151	29	23	19	27	1.98
1114000--1114060	2	30.5	2	100	0	122	49	0	0	50	1.00
1114544--1114728	65	2.9	64	77	10	189	30	23	18	27	1.98
1114676--1114724	19	2.6	19	84	9	57	24	28	20	26	1.99
1125387--1125519	67	2.0	67	98	0	257	27	25	9	36	1.88
1126764--1126812	20	2.4	21	80	16	59	24	12	28	34	1.91
1135397--1135435	8	4.2	9	84	15	53	12	2	0	84	0.72
1135401--1135435	17	2.1	17	89	5	54	11	2	0	85	0.69
1135455--1135500	13	3.6	13	72	16	51	39	34	21	4	1.73
1137008--1137089	2	41.0	2	100	0	164	50	0	0	50	1.00
1143355--1143528	89	2.0	89	91	2	287	44	7	10	37	1.68
1150080--1150149	22	3.3	21	70	16	63	44	4	2	48	1.37
1154135--1154433	134	2.2	133	88	1	438	32	19	17	31	1.95
1154681--1154732	3	16.3	3	84	7	50	25	1	0	73	0.94
1154695--1154733	11	3.8	11	83	16	57	23	0	0	76	0.78
1154686--1154729	16	2.5	17	82	17	54	22	2	0	75	0.92
1154681--1154734	15	3.6	15	78	9	56	24	1	0	74	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1155253--1155307	23	2.4	23	100	0	110	58	7	30	3	1.43
1158735--1158789	23	2.4	23	79	11	67	52	14	12	20	1.73
1159637--1159682	11	4.0	12	80	8	51	60	6	17	15	1.55
1162443--1162508	21	3.1	21	95	0	123	31	15	21	31	1.94
1163115--1163163	19	2.6	18	81	9	62	73	2	4	20	1.10
1165652--1165690	12	3.5	11	83	10	53	79	7	2	10	1.02
1171785--1171832	25	2.0	24	83	4	60	58	14	2	25	1.48
1174726--1174803	37	2.1	37	100	0	156	7	33	10	48	1.66
1175355--1175529	95	1.8	96	84	6	239	34	17	22	26	1.96
1175519--1175571	20	2.5	20	84	6	61	28	15	26	30	1.96
1175970--1176179	90	2.3	90	81	7	237	39	9	21	30	1.85
1175970--1176137	45	3.7	45	86	1	230	39	10	21	28	1.87
1177509--1177544	18	2.0	18	100	0	72	44	11	22	22	1.84
1179674--1179737	23	2.8	23	73	0	65	34	23	23	18	1.96
1184139--1184191	24	2.2	24	96	0	97	41	1	33	22	1.65
1185438--1185488	19	2.5	21	87	9	70	33	15	27	23	1.95
1185398--1185579	95	1.9	96	82	5	226	33	16	24	25	1.96
1186016--1186359	45	7.7	45	90	3	527	38	10	20	30	1.86
1188218--1188299	31	2.6	31	80	3	85	47	8	4	39	1.56
1192632--1192909	135	2.1	133	86	4	382	26	17	29	26	1.97
1195074--1195492	201	2.1	197	84	5	522	27	20	18	33	1.96
1197049--1197117	35	2.0	33	86	5	93	2	13	7	76	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203087--1203111	11	2.3	11	100	0	50	0	16	0	84	0.63
1203214--1203257	22	2.0	23	90	4	72	54	6	18	20	1.66
1208457--1208484	3	9.3	3	100	0	56	0	0	32	67	0.91
1208723--1208798	35	2.2	35	92	0	125	39	23	1	35	1.63
1209194--1209441	130	1.9	130	93	0	424	36	14	12	35	1.85
1209208--1209472	130	2.0	129	81	4	309	40	13	12	33	1.82
1209768--1209830	28	2.3	27	78	8	63	46	1	3	49	1.27
1209910--1209943	16	2.0	18	88	11	54	64	5	2	26	1.30
1213873--1213940	27	2.6	27	93	4	113	30	10	16	42	1.81
1217620--1217718	27	3.8	27	94	4	168	31	12	15	41	1.83
1219307--1219371	23	2.6	25	80	14	71	49	3	1	46	1.27
1219299--1219364	23	2.9	23	78	13	73	45	4	1	48	1.32
1219624--1219665	21	2.0	21	85	4	57	47	2	2	47	1.28
1222101--1222138	3	12.7	3	100	0	76	34	0	0	65	0.93
1225048--1225098	24	2.1	24	85	7	68	23	1	13	60	1.43
1231886--1231928	20	2.1	21	87	8	63	13	16	0	69	1.19
1234204--1234253	24	2.1	24	85	7	66	24	2	14	60	1.45
1239189--1239244	23	2.5	23	94	2	96	21	35	23	19	1.96
1240844--1240884	18	2.3	18	91	8	66	48	21	29	0	1.50
1241410--1241447	2	19.0	2	100	0	76	50	0	0	50	1.00
1243896--1243946	21	2.4	22	87	9	79	19	3	9	66	1.36
1246085--1246224	31	4.5	31	93	0	235	20	20	20	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246870--1246912	21	2.0	21	95	0	77	25	25	27	20	1.99
1248396--1248428	2	16.5	2	100	0	66	48	0	0	51	1.00
1249794--1249831	20	1.9	20	100	0	76	26	15	31	26	1.96
1249795--1249844	20	2.8	17	88	11	66	26	18	28	28	1.98
1250777--1250963	31	6.0	31	91	1	286	21	19	21	37	1.94
1251587--1251629	21	2.0	21	95	0	77	25	20	27	25	1.99
1251653--1251693	12	3.6	12	74	12	50	17	21	19	41	1.90
1251653--1251694	22	1.9	22	95	0	75	16	21	19	42	1.89
1255554--1255607	14	3.7	15	80	14	60	79	5	11	3	1.02
1256711--1256820	38	3.0	36	75	11	114	31	21	12	33	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54