genome.fa.s9624.2.7.7.80.10.50.1000.5.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  5  of  38  ( 4514 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)
914752--914784	17	1.9	17	93	0	57	39	3	0	57	1.14
915228--915271	23	2.0	22	86	4	61	43	2	0	54	1.12
915232--915279	23	2.1	23	84	0	60	47	2	0	50	1.12
915268--915309	13	3.2	14	80	12	54	50	0	0	50	1.00
915293--915326	17	2.0	17	88	11	52	44	0	0	55	0.99
916590--916627	13	2.9	13	77	14	51	52	2	2	42	1.29
921426--921463	20	1.9	20	88	0	58	65	2	2	28	1.19
922249--922325	31	2.5	31	78	2	82	28	31	25	14	1.95
928143--928171	2	14.5	2	100	0	58	48	0	0	51	1.00
928249--928278	2	15.0	2	100	0	60	50	0	0	50	1.00
930422--930609	56	3.4	55	80	3	184	22	22	21	32	1.98
930424--930558	52	2.5	52	84	4	162	22	22	20	33	1.97
930560--930689	57	2.3	57	80	0	152	27	21	19	31	1.97
934623--934690	28	2.7	23	72	28	57	63	8	2	25	1.38
934937--935022	45	1.9	45	90	0	136	36	26	20	16	1.94
938171--938211	21	2.0	21	85	0	55	26	9	12	51	1.70
938496--938535	20	1.9	22	90	10	66	37	40	10	12	1.77
938750--938819	34	2.1	32	86	5	95	35	15	27	21	1.94
939762--939813	21	2.5	22	75	15	56	34	7	13	44	1.72
939952--940006	21	2.6	21	100	0	110	23	25	16	34	1.95
940169--940218	20	2.6	19	87	3	64	42	4	14	40	1.64
943366--943423	21	3.0	20	76	11	59	25	13	12	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
943635--943679	19	2.3	20	88	3	65	35	8	20	35	1.84
943723--943764	20	2.1	20	90	0	66	28	21	28	21	1.99
947880--947915	16	2.2	17	90	5	56	47	0	2	50	1.15
947974--948016	18	2.4	18	96	0	77	27	0	4	67	1.10
948112--948167	24	2.3	23	80	17	60	67	0	3	28	1.07
950027--950072	23	2.0	24	82	4	58	19	4	10	65	1.41
951786--951820	2	17.5	2	100	0	70	48	0	0	51	1.00
959782--959879	37	2.6	37	78	0	106	41	12	12	33	1.80
960304--960348	22	2.1	21	88	12	65	22	2	0	75	0.91
960380--960420	2	20.5	2	100	0	82	48	0	0	51	1.00
960420--960468	21	2.3	20	79	6	53	22	6	2	69	1.21
960416--960483	30	2.2	29	80	14	75	26	5	2	64	1.30
960613--960665	11	4.7	11	82	13	63	20	0	0	79	0.74
960613--960653	13	3.2	13	82	3	57	17	0	0	82	0.66
961961--961998	19	2.0	20	89	5	60	7	23	0	68	1.16
965380--965410	13	2.4	13	94	0	53	83	6	9	0	0.79
965340--965400	32	1.9	32	83	12	81	75	4	19	0	0.98
965347--965410	22	2.9	23	73	13	62	76	6	17	0	0.98
966025--966079	22	2.5	22	100	0	110	36	27	12	23	1.91
967038--968301	106	12.0	106	91	1	1936	34	25	18	22	1.96
969055--969151	37	2.6	37	81	0	122	41	15	11	31	1.83
969561--969609	2	25.5	2	87	8	75	44	0	2	53	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
969601--969684	24	3.4	25	74	8	73	22	3	2	71	1.13
969604--969646	11	3.9	11	82	11	52	18	0	0	81	0.69
969676--969702	2	13.5	2	100	0	54	48	0	0	51	1.00
969894--969957	29	2.2	30	86	8	87	25	1	0	73	0.92
970042--970085	19	2.4	19	82	14	56	15	9	0	75	1.05
970174--970203	3	10.0	3	100	0	60	33	0	0	66	0.92
976011--976041	10	3.1	10	90	0	53	51	0	16	32	1.44
983167--983298	59	2.2	59	81	2	140	43	15	15	26	1.86
983167--983426	29	8.4	30	72	13	161	43	15	13	28	1.84
983252--983668	130	3.2	129	84	6	504	42	15	12	29	1.84
983252--983668	66	6.4	65	86	5	501	42	15	12	29	1.84
983738--983801	32	2.0	32	90	0	101	31	29	15	23	1.95
987768--987801	2	17.0	2	100	0	68	50	0	0	50	1.00
988869--988896	14	2.0	14	100	0	56	42	14	21	21	1.88
989443--989486	2	22.0	2	100	0	88	50	0	0	50	1.00
999193--999239	14	3.3	14	77	14	51	38	2	2	57	1.23
999231--999311	32	2.5	33	81	13	98	50	2	1	45	1.22
999235--999308	29	2.4	31	82	6	89	50	2	1	45	1.24
1007116--1007226	27	4.1	27	90	0	159	15	17	36	30	1.90
1007113--1007222	54	2.0	54	92	0	184	15	16	35	32	1.90
1007417--1007487	36	2.0	36	85	0	97	25	36	23	14	1.92
1009939--1009964	6	4.3	6	100	0	52	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1014976--1015064	38	2.3	39	92	5	146	31	32	15	20	1.94
1014976--1015047	19	3.8	19	100	0	144	31	31	16	19	1.94
1015119--1015158	20	2.0	20	85	9	55	42	25	17	15	1.88
1015640--1015693	20	2.7	19	80	8	63	14	16	20	48	1.81
1017799--1017874	21	3.6	21	73	7	64	26	34	17	22	1.96
1019301--1019337	14	2.6	14	95	0	65	29	2	21	45	1.65
1019251--1019403	80	2.0	74	86	7	207	32	1	18	48	1.56
1019463--1019518	20	2.8	20	88	0	85	41	23	17	17	1.90
1019759--1019845	39	2.2	39	93	0	147	17	13	19	49	1.79
1020147--1020199	24	2.2	24	89	0	79	47	13	1	37	1.54
1020613--1020650	20	1.9	20	88	0	58	44	15	15	23	1.85
1020619--1020662	20	2.2	20	83	0	52	43	13	20	22	1.87
1023456--1023489	12	2.8	12	90	0	50	14	0	29	55	1.40
1024042--1024079	16	2.5	15	84	12	51	65	0	5	28	1.14
1024206--1024337	19	6.6	21	84	6	143	25	11	23	39	1.88
1024206--1024417	20	10.6	20	77	10	150	24	12	24	38	1.90
1024206--1024356	19	7.6	21	82	8	140	23	11	23	40	1.88
1025435--1025465	16	1.9	16	93	0	53	19	12	19	48	1.81
1026780--1026810	6	5.2	6	100	0	62	16	16	51	16	1.77
1027255--1027290	16	2.2	17	90	5	56	47	0	2	50	1.15
1029062--1029106	20	2.3	20	80	3	56	48	2	2	46	1.26
1031316--1031723	55	7.4	55	90	0	627	35	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031915--1031959	12	4.0	12	75	13	51	28	0	2	68	1.01
1031917--1031970	22	2.4	24	81	9	69	31	0	1	66	1.02
1031959--1032027	29	2.7	24	80	20	93	47	0	0	52	1.00
1031974--1032020	15	3.2	15	75	6	60	53	0	0	46	1.00
1031974--1032032	29	2.0	29	100	0	118	49	0	0	50	1.00
1032048--1032109	19	3.3	19	78	15	58	37	1	0	61	1.06
1032572--1032632	31	2.0	31	90	0	95	44	9	4	40	1.59
1033476--1033740	54	4.9	54	92	3	410	35	16	15	32	1.90
1034514--1034566	23	2.3	23	81	15	65	75	5	3	15	1.13
1034647--1034710	21	3.1	21	73	10	60	75	1	7	15	1.11
1034853--1034893	15	2.8	15	79	17	50	75	2	2	19	1.03
1036077--1036183	2	53.5	2	100	0	214	50	49	0	0	1.00
1036183--1036216	2	17.5	2	93	6	61	50	0	0	50	1.00
1036858--1037082	120	1.9	120	87	1	335	24	17	23	33	1.96
1037209--1037327	43	2.8	43	80	2	132	21	19	26	32	1.97
1038235--1038311	6	12.5	6	78	16	70	0	15	3	80	0.85
1038235--1038311	7	11.1	7	76	15	72	0	15	3	80	0.85
1038235--1038310	31	2.4	32	84	8	102	0	15	3	80	0.86
1041602--1041672	31	2.3	31	88	7	101	29	15	9	45	1.78
1041820--1041920	42	2.4	42	79	0	103	37	18	16	26	1.93
1041898--1042007	38	2.9	38	84	0	139	23	30	22	22	1.99
1041937--1042005	21	3.5	20	67	15	54	20	28	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043119--1043168	18	2.8	18	80	20	68	46	18	8	28	1.77
1043372--1043437	30	2.2	29	81	5	78	36	18	6	39	1.75
1043379--1043436	30	2.0	29	86	3	80	39	17	6	36	1.76
1045430--1045469	6	6.7	6	100	0	80	15	15	0	70	1.18
1045436--1045524	10	8.5	10	85	6	54	14	12	2	70	1.25
1045497--1045538	11	3.7	11	84	6	57	0	16	0	83	0.65
1045503--1045543	14	3.1	14	86	13	52	0	21	2	75	0.92
1047010--1047091	38	2.2	38	84	4	103	21	24	23	30	1.99
1047288--1047354	33	2.0	34	88	2	100	29	19	10	40	1.85
1048188--1048241	9	6.0	9	82	0	63	48	20	7	24	1.75

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