genome.fa.s8356.2.7.7.80.10.50.1000.53.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  53  of  56  ( 6656 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)
12125727--12125774	23	2.1	23	88	0	69	39	16	8	35	1.79
12129848--12129916	18	3.8	18	86	0	102	26	31	23	18	1.97
12131758--12131783	2	13.0	2	100	0	52	50	0	0	50	1.00
12134113--12134218	18	5.9	18	90	0	158	26	33	23	16	1.96
12135304--12135393	41	2.2	41	100	0	180	38	22	2	36	1.66
12138897--12138973	40	1.9	40	92	5	129	33	9	22	35	1.85
12142307--12142382	36	2.1	36	97	0	143	31	10	14	43	1.79
12142805--12142834	15	2.0	15	100	0	60	13	26	46	13	1.80
12147311--12147386	36	2.1	36	97	0	143	31	10	14	43	1.79
12147804--12147833	15	2.0	15	100	0	60	13	26	46	13	1.80
12152311--12152386	36	2.1	36	97	0	143	31	10	14	43	1.79
12152809--12152838	15	2.0	15	100	0	60	13	26	46	13	1.80
12157314--12157389	36	2.1	36	97	0	143	31	10	14	43	1.79
12162453--12162480	13	2.2	13	100	0	56	42	17	10	28	1.83
12162467--12163779	472	2.8	472	96	0	2434	36	23	11	27	1.90
12167128--12167206	23	3.4	23	87	1	113	30	24	21	24	1.99
12180017--12180884	55	15.8	55	87	0	1105	34	18	19	26	1.95
12181060--12181516	68	6.8	68	87	1	675	31	14	24	29	1.95
12181060--12181516	135	3.4	136	87	1	677	31	14	24	29	1.95
12181060--12181516	203	2.3	203	88	3	663	31	14	24	29	1.95
12181702--12181872	45	3.8	44	86	3	225	47	5	18	28	1.72
12181702--12181872	90	1.9	90	87	2	254	47	5	18	28	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12183499--12183541	2	21.5	2	95	0	77	48	0	2	48	1.14
12185608--12185659	20	2.6	20	93	0	95	32	17	25	25	1.97
12186113--12186681	55	10.6	55	83	4	714	34	19	19	27	1.96
12186400--12186586	99	1.9	99	90	0	302	32	21	20	26	1.98
12186832--12187086	68	3.8	68	91	0	402	30	14	24	29	1.95
12187080--12187136	29	2.0	29	89	0	87	40	5	22	31	1.76
12187198--12187229	2	16.0	2	100	0	64	50	0	0	50	1.00
12187287--12187442	45	3.5	45	90	0	249	46	6	21	25	1.75
12189366--12189392	12	2.2	12	100	0	54	55	0	7	37	1.28
12189481--12189539	25	2.3	25	85	5	73	74	0	1	23	0.91
12191307--12192389	84	12.9	84	83	1	1130	25	18	23	32	1.97
12192353--12192417	27	2.4	27	94	2	114	29	20	21	29	1.98
12193697--12194008	95	3.2	97	83	8	384	32	17	15	34	1.91
12207019--12207064	20	2.3	19	85	14	58	50	8	15	26	1.73
12209083--12209117	18	1.9	18	88	0	52	57	5	11	25	1.56
12209634--12209719	22	3.8	22	73	14	77	72	0	6	20	1.08
12216758--12216789	2	16.0	2	100	0	64	50	0	0	50	1.00
12217154--12217242	20	4.3	20	73	8	88	14	23	21	40	1.90
12217171--12217274	41	2.5	42	90	3	156	19	23	19	38	1.93
12218118--12218181	20	3.2	20	73	4	74	37	20	23	18	1.94
12218104--12218212	41	2.7	41	94	0	182	33	18	22	24	1.96
12218104--12218218	21	5.6	21	70	4	81	33	17	23	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12218250--12218312	21	3.0	21	81	4	83	36	19	23	20	1.95
12219908--12219948	16	2.6	16	88	3	66	9	26	24	39	1.86
12220819--12220851	10	3.3	10	91	8	50	78	0	3	18	0.87
12222666--12222867	83	2.4	84	83	6	232	26	18	19	35	1.95
12223123--12223164	22	1.9	22	85	0	57	28	7	33	30	1.84
12227649--12227690	22	1.9	22	90	0	66	21	7	40	30	1.80
12229866--12229936	32	2.2	32	84	0	97	33	23	14	28	1.94
12230973--12231004	11	2.8	11	95	4	55	0	18	6	75	1.01
12230997--12231029	16	2.1	17	88	11	52	0	15	6	78	0.93
12233973--12234015	19	2.3	19	87	0	59	60	4	0	34	1.17
12235319--12235353	12	2.9	12	91	0	52	71	0	0	28	0.86
12235965--12236172	38	5.6	37	84	11	284	46	2	7	43	1.45
12236145--12236193	23	2.1	23	88	0	71	46	0	6	46	1.27
12236145--12236202	21	2.6	22	83	8	64	46	0	6	46	1.29
12236173--12236276	38	2.8	37	84	8	133	46	2	7	43	1.47
12236079--12236268	94	2.0	94	80	13	212	47	2	6	43	1.41
12236042--12236283	129	1.8	128	83	11	321	45	2	7	45	1.43
12236519--12236556	19	2.0	20	94	5	69	31	31	23	13	1.93
12237372--12237442	33	2.3	31	75	22	76	22	8	2	66	1.32
12237593--12237708	5	23.8	5	71	19	77	18	1	2	77	0.97
12237536--12237617	42	1.9	43	90	2	130	25	6	3	64	1.33
12237592--12237732	10	14.6	9	72	21	74	16	2	2	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12237592--12237731	14	9.7	14	71	15	90	16	2	2	78	0.97
12237593--12237753	61	2.6	63	85	4	202	17	3	2	76	1.04
12237590--12237733	56	2.6	52	78	17	139	16	2	2	78	0.97
12237616--12237754	64	2.1	67	83	13	184	17	3	2	76	1.04
12240111--12240149	18	2.2	18	85	0	51	30	10	2	56	1.46
12249153--12249190	18	2.2	18	90	4	60	21	10	5	63	1.46
12250815--12250891	27	2.9	27	90	3	111	49	20	19	10	1.77
12254029--12254054	12	2.2	12	100	0	52	19	15	7	57	1.62
12270140--12270191	21	2.4	21	83	3	68	0	5	34	59	1.21
12273444--12273505	30	2.1	30	87	0	88	16	30	25	27	1.96
12273451--12273525	30	2.5	30	82	0	78	18	32	22	26	1.97
12275633--12275665	9	3.7	9	84	15	50	45	12	21	21	1.84
12280371--12280421	2	25.5	2	100	0	102	49	0	0	50	1.00
12280575--12280605	12	2.6	12	100	0	62	61	0	6	32	1.21
12280696--12280730	18	1.9	18	94	0	61	17	11	40	31	1.85
12282936--12283029	48	2.0	48	84	0	125	17	9	25	47	1.77
12283818--12283978	59	2.7	59	77	1	151	34	22	4	39	1.74
12283869--12283980	60	1.9	59	85	5	154	32	23	4	40	1.74
12286975--12287065	38	2.4	36	78	8	110	42	9	2	45	1.49
12290589--12290714	47	2.8	45	85	5	164	30	22	7	39	1.82
12290819--12290900	40	2.0	40	100	0	164	32	26	17	23	1.96
12294489--12294560	37	2.0	36	91	8	119	16	30	33	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12295169--12295216	15	2.8	18	78	18	66	12	25	37	25	1.91
12297265--12297301	2	18.5	2	100	0	74	51	0	0	48	1.00
12300573--12300641	36	1.9	36	88	5	104	17	27	31	23	1.97
12301252--12301331	15	5.3	15	100	0	160	13	25	33	27	1.93
12302505--12302530	12	2.2	12	100	0	52	50	26	7	15	1.71
12305442--12305556	45	2.6	42	80	11	131	30	21	9	38	1.86
12305662--12305743	40	2.0	40	100	0	164	32	26	17	23	1.96
12313054--12313195	38	3.8	37	90	4	205	39	7	4	49	1.49
12313167--12313261	42	2.4	42	77	12	101	41	8	4	46	1.53
12314171--12314234	33	1.9	33	93	0	110	43	15	7	32	1.76
12314366--12314409	22	2.0	22	82	8	54	59	6	2	31	1.36
12314391--12314510	5	24.6	5	70	18	58	53	5	5	36	1.45
12314447--12314490	23	1.9	23	86	9	63	50	2	9	38	1.47
12314434--12314543	15	7.4	14	72	11	60	55	5	4	34	1.43
12314657--12314705	24	2.1	22	85	7	62	63	0	4	32	1.13
12315687--12315760	34	2.1	35	87	2	105	17	14	24	43	1.87
12315723--12315790	23	3.0	23	80	0	73	23	20	17	38	1.93
12320647--12321272	325	1.9	324	94	0	1090	23	24	17	34	1.96
12322591--12322628	20	1.9	20	100	0	76	36	10	28	23	1.88
12322591--12322641	20	2.8	18	88	11	61	39	9	27	23	1.86
12323189--12323233	19	2.4	19	100	0	90	24	40	13	22	1.90
12328170--12328230	28	2.2	28	93	0	104	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12332273--12332391	59	2.0	59	98	0	229	27	20	8	43	1.80
12334075--12334132	2	29.0	2	100	0	116	50	0	0	50	1.00
12334618--12334737	36	3.3	36	98	0	231	32	15	6	45	1.71
12339740--12339799	20	3.0	20	97	2	111	28	20	21	30	1.98
12351826--12352032	75	2.7	76	82	5	251	21	23	31	23	1.98
12354619--12354658	21	1.9	21	89	0	62	10	25	40	25	1.86
12360472--12360677	75	2.7	77	84	8	264	22	22	32	22	1.98
12365592--12365626	13	2.6	13	90	4	52	51	0	0	48	1.00
12372371--12372411	8	5.2	8	82	5	57	34	0	29	36	1.58
12372494--12372969	128	3.7	128	94	0	812	21	24	20	33	1.97

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