genome.fa.s190.2.7.7.80.10.50.1000.5.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   55   56   57   58   59   60   61   62   

This is table  5  of  62  ( 7381 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)
1086498--1086528	12	2.6	12	94	0	53	12	16	45	25	1.83
1086526--1086615	2	46.0	2	86	4	130	51	0	0	48	1.00
1086597--1086676	42	1.9	43	82	14	105	43	0	0	56	0.99
1086716--1086796	36	2.2	37	82	10	105	16	39	13	30	1.87
1087080--1087220	75	1.9	75	96	0	264	47	7	4	41	1.50
1087739--1087811	31	2.4	31	81	9	94	50	4	4	41	1.40
1087782--1087840	11	5.4	11	78	8	66	49	3	0	47	1.18
1087776--1087840	33	2.0	33	84	6	87	52	4	0	43	1.22
1087902--1087926	5	5.0	5	100	0	50	60	0	0	40	0.97
1088030--1088273	122	2.0	120	85	6	325	32	12	8	46	1.72
1089313--1089355	19	2.3	19	95	0	77	37	4	6	51	1.50
1095809--1095845	20	1.9	19	89	10	58	27	21	5	45	1.73
1095815--1095852	20	1.9	20	88	0	58	28	23	5	42	1.76
1097220--1097249	15	2.0	15	93	0	51	26	23	6	43	1.78
1097452--1097481	11	2.6	12	89	10	53	20	60	6	13	1.55
1097593--1097659	7	9.6	7	79	11	57	53	0	0	46	1.00
1097573--1097662	40	2.2	40	92	3	146	55	0	0	44	0.99
1103171--1103274	39	2.7	39	81	12	108	25	0	30	43	1.61
1103937--1104039	36	2.8	36	82	2	116	39	12	14	33	1.84
1105868--1105913	5	8.8	5	90	9	74	17	4	0	78	0.91
1105868--1105913	16	2.9	16	96	3	85	17	4	0	78	0.91
1105869--1105910	21	2.0	22	95	4	77	19	4	0	76	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107804--1107847	18	2.4	18	88	7	63	79	6	13	0	0.92
1107802--1107860	19	3.3	18	83	6	75	79	6	11	1	0.99
1108444--1108520	22	3.5	22	84	7	111	41	24	10	23	1.85
1109285--1110665	106	13.0	106	92	0	2219	33	24	18	23	1.97
1111364--1111467	36	2.8	36	80	2	118	39	13	14	32	1.85
1113545--1113600	23	2.3	23	84	9	67	60	1	0	37	1.07
1117796--1117863	32	2.2	31	89	2	100	54	4	4	36	1.41
1135847--1135895	19	2.5	20	77	6	57	55	2	0	42	1.11
1137516--1137582	19	3.3	19	73	15	71	32	20	20	25	1.97
1137516--1137593	19	3.9	19	73	12	66	34	20	20	24	1.96
1137545--1137618	21	3.6	21	72	7	80	33	25	20	20	1.97
1137520--1137612	40	2.3	42	94	3	163	35	23	19	21	1.96
1137627--1137866	21	11.6	21	82	9	253	24	22	22	31	1.98
1137600--1137866	62	4.3	63	76	14	261	25	21	21	31	1.98
1137627--1137866	104	2.3	103	92	2	401	24	22	22	31	1.98
1137627--1137869	83	2.9	83	83	8	268	24	21	21	32	1.98
1138064--1138253	60	3.1	60	74	8	157	32	19	5	42	1.75
1138953--1139028	37	2.1	37	100	0	152	47	26	5	21	1.71
1139985--1140017	2	16.5	2	93	0	57	45	0	0	54	0.99
1148738--1148771	16	2.1	16	94	0	59	32	26	8	32	1.87
1151948--1151972	2	12.5	2	100	0	50	48	0	0	52	1.00
1157433--1157490	24	2.4	24	75	18	57	34	1	1	62	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184648--1184870	111	2.0	111	84	1	286	35	13	7	43	1.71
1184894--1184946	22	2.4	22	87	0	70	33	3	1	60	1.26
1192396--1192492	37	2.8	36	75	17	98	47	4	3	45	1.37
1192935--1192992	24	2.4	23	80	5	62	55	8	1	34	1.41
1192970--1193008	17	2.3	17	86	8	53	51	10	0	38	1.36
1193791--1193881	28	3.2	28	96	0	164	43	9	23	23	1.83
1195925--1196293	20	18.5	20	84	4	449	34	26	19	20	1.96
1196967--1197013	24	2.0	24	87	8	69	25	14	21	38	1.92
1197188--1197212	12	2.1	12	100	0	50	72	0	28	0	0.86
1199516--1199822	19	17.4	19	79	16	358	47	18	20	14	1.83
1199544--1199822	52	5.2	53	90	5	358	47	17	20	14	1.83
1199583--1199822	71	3.4	71	83	11	355	47	17	20	15	1.83
1199516--1199854	142	2.4	137	89	6	497	46	18	20	14	1.83
1199851--1199952	19	5.6	19	85	12	151	14	23	17	44	1.86
1200059--1200093	14	2.6	14	95	4	63	42	22	0	34	1.54
1202053--1202109	14	3.7	14	77	20	60	45	22	21	10	1.82
1202034--1202126	33	2.8	33	95	0	168	47	21	20	10	1.80
1201997--1202131	19	7.6	19	76	16	128	45	23	19	11	1.82
1202127--1202255	19	7.3	19	75	17	125	8	17	28	45	1.77
1202127--1202218	33	2.8	33	93	3	150	7	18	28	45	1.76
1202299--1202771	93	5.1	93	99	0	930	46	18	12	21	1.83
1202299--1202771	185	2.5	186	99	0	930	46	18	12	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1204475--1204564	14	5.7	14	74	23	81	42	23	25	8	1.83
1204467--1204581	33	3.5	33	95	0	212	45	20	24	9	1.81
1204474--1204586	19	6.8	18	72	23	88	43	22	24	9	1.83
1204598--1204652	14	3.6	14	73	21	56	9	27	23	40	1.85
1204772--1204842	33	2.2	33	92	0	115	47	18	22	11	1.80
1205024--1205078	22	2.5	22	81	0	74	20	16	40	23	1.91
1205225--1205418	20	9.6	20	82	5	221	19	19	25	35	1.95
1205225--1205418	60	3.2	60	83	0	253	19	19	25	35	1.95
1205411--1205487	21	3.7	20	70	13	57	27	16	23	32	1.96
1205473--1205524	20	2.6	20	96	0	95	21	13	26	38	1.90
1206032--1206128	3	33.0	3	80	12	112	35	1	0	63	1.01
1206035--1206127	32	2.9	31	79	7	98	34	1	0	64	1.01
1207495--1207524	14	2.2	13	94	5	51	43	0	3	53	1.17
1208635--1208665	15	2.1	15	93	0	53	54	0	0	45	0.99
1212243--1212267	2	12.5	2	100	0	50	48	0	0	52	1.00
1215699--1215736	3	12.7	3	100	0	76	68	31	0	0	0.90
1216207--1216238	3	10.7	3	100	0	64	68	0	0	31	0.90
1217573--1217603	4	7.8	4	92	0	53	48	22	3	25	1.66
1220110--1220151	17	2.5	17	88	0	57	59	2	4	33	1.31
1220940--1220982	22	2.0	22	81	9	52	55	0	4	39	1.20
1223684--1223714	16	1.9	16	100	0	62	6	12	3	77	1.08
1224503--1224530	14	2.0	14	100	0	56	42	7	7	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228758--1228858	31	3.3	31	88	2	150	44	14	16	23	1.85
1231559--1231596	3	12.3	3	94	5	67	31	0	0	68	0.90
1231561--1231608	22	2.2	22	88	7	71	33	0	2	64	1.05
1231711--1231782	25	2.9	25	89	2	110	38	18	15	27	1.90
1235402--1235463	32	2.0	32	93	3	108	16	12	9	61	1.56
1237895--1237972	26	3.2	25	67	22	76	24	23	10	42	1.85
1237910--1237984	20	3.5	20	70	20	62	26	25	10	37	1.89
1238561--1238607	18	2.6	17	75	21	51	68	14	12	4	1.36
1238591--1238628	11	3.4	11	89	7	58	71	10	13	5	1.30
1239806--1239859	4	14.0	4	88	7	85	48	24	1	25	1.61
1240498--1240593	36	2.7	36	82	7	108	34	19	12	33	1.90
1240525--1240628	36	3.0	36	79	9	108	32	20	11	35	1.88
1240881--1241125	29	8.5	28	74	14	171	27	10	15	46	1.77
1240878--1240993	57	2.1	56	80	10	132	29	7	14	48	1.72
1240932--1240993	26	2.3	26	83	10	72	30	4	12	51	1.61
1240852--1241186	147	2.3	147	96	1	613	26	11	15	46	1.80
1241025--1241140	54	2.1	54	80	10	128	28	8	14	48	1.73
1241136--1241239	52	2.0	53	94	3	183	32	13	17	36	1.89
1241238--1241410	67	2.6	66	88	1	249	31	10	10	46	1.74
1241273--1241399	37	3.6	37	69	16	108	31	11	11	45	1.76
1241510--1241734	120	1.9	119	80	8	269	31	13	12	43	1.81
1241632--1241756	64	2.0	63	88	1	187	32	13	11	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1241923--1241957	15	2.3	15	95	0	61	40	20	2	37	1.67
1242261--1242439	66	2.8	64	78	6	191	26	21	13	37	1.91
1242638--1242877	40	5.6	39	71	18	149	25	34	18	20	1.96
1242678--1242877	43	4.5	44	72	16	155	26	33	19	21	1.97
1242625--1242884	134	1.9	134	91	0	421	26	33	19	20	1.96
1243099--1243145	3	15.3	3	95	4	85	31	0	0	68	0.90
1243099--1243145	22	2.2	22	96	3	87	31	0	0	68	0.90
1243260--1243331	25	2.9	25	89	2	110	38	18	15	27	1.90
1247739--1247809	30	2.3	31	80	7	83	28	15	8	47	1.74
1249008--1249035	3	9.3	3	100	0	56	32	0	35	32	1.58

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   55   56   57   58   59   60   61   62