genome.fa.s7923.2.7.7.80.10.50.1000.31.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  31  of  40  ( 4704 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)
6429799--6429956	22	7.2	22	91	0	244	15	24	31	29	1.95
6435904--6436052	22	7.1	22	87	6	163	14	22	31	31	1.94
6435979--6436053	18	3.9	18	85	7	96	14	22	33	29	1.94
6443177--6443258	43	1.9	43	84	0	110	32	24	8	34	1.86
6448785--6448848	29	2.2	29	100	0	128	15	34	28	21	1.94
6448867--6448919	21	2.5	21	87	6	72	67	9	0	22	1.19
6448953--6448994	19	2.1	21	86	8	61	21	30	28	19	1.97
6459842--6459880	20	2.0	20	90	5	62	53	7	0	38	1.30
6462221--6462271	23	2.3	22	90	10	77	21	21	37	19	1.95
6468248--6468286	20	2.0	20	90	5	62	53	7	0	38	1.30
6470511--6470580	12	5.8	12	71	6	52	51	18	12	17	1.76
6470509--6470580	24	3.0	24	85	0	108	51	18	12	18	1.76
6472759--6472783	13	1.9	13	100	0	50	20	24	40	16	1.91
6472758--6472822	31	2.1	31	91	0	103	15	20	46	18	1.84
6472782--6472818	13	2.8	13	83	0	56	13	21	45	18	1.84
6472764--6472822	18	3.6	18	73	21	65	13	20	47	18	1.82
6478566--6479264	348	2.0	348	92	0	1148	23	29	15	32	1.95
6481683--6481731	20	2.5	20	93	0	89	36	30	6	26	1.81
6482278--6482329	17	3.1	17	100	0	104	48	5	11	34	1.63
6487223--6487254	15	2.1	15	94	0	55	28	6	34	31	1.82
6487942--6488161	111	2.0	111	87	3	318	24	24	17	34	1.96
6488370--6488763	111	3.6	111	91	1	616	22	18	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6495779--6495838	21	2.8	22	79	5	68	73	5	5	16	1.19
6496093--6496510	36	12.2	33	70	18	126	47	5	2	45	1.37
6496206--6496545	70	5.0	63	80	14	199	47	6	1	44	1.36
6496260--6496590	36	9.2	36	79	14	337	48	5	1	44	1.34
6496258--6496592	70	4.7	72	84	9	366	48	5	1	44	1.34
6496577--6496641	2	32.5	2	100	0	130	50	0	0	49	1.00
6499656--6499707	26	2.0	26	88	0	77	44	15	9	30	1.78
6501648--6501678	8	3.9	8	91	0	53	16	12	32	38	1.86
6504330--6504399	35	2.0	34	91	2	113	10	51	21	17	1.74
6504327--6504395	7	9.9	7	75	0	57	8	50	23	17	1.73
6510473--6510528	21	2.7	21	85	0	76	66	1	0	32	1.03
6511148--6511181	16	2.1	16	88	0	50	41	5	20	32	1.76
6511232--6511279	23	2.1	23	88	0	69	35	12	18	33	1.89
6511755--6511827	23	3.2	23	86	0	83	39	17	5	36	1.73
6512193--6512262	23	3.2	23	82	10	92	38	21	5	34	1.77
6511649--6512523	434	2.0	438	97	0	1650	38	11	8	42	1.70
6515016--6515096	6	13.5	6	82	0	72	22	33	7	37	1.82
6515017--6515113	12	7.8	12	82	10	106	20	31	8	39	1.82
6515020--6515100	24	3.4	24	87	0	117	20	33	8	37	1.84
6515038--6515113	6	12.7	6	77	5	73	18	31	9	40	1.82
6516634--6517979	201	6.7	201	96	0	2361	31	17	15	35	1.91
6518080--6518138	19	3.2	18	87	2	55	52	11	1	33	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6518092--6518138	19	2.5	19	96	0	85	55	10	2	31	1.46
6519939--6520004	33	2.0	33	90	0	105	22	48	0	28	1.51
6520038--6520102	21	3.1	21	93	0	103	16	30	10	41	1.83
6522338--6522384	20	2.4	19	82	10	67	19	17	10	53	1.72
6522520--6522580	20	3.2	19	77	11	61	19	14	9	55	1.67
6522303--6522778	182	2.6	181	88	1	682	26	16	13	42	1.86
6523464--6523540	32	2.5	31	81	10	77	42	9	23	24	1.83
6524465--6524577	52	2.2	52	95	0	199	17	17	27	37	1.93
6525440--6525480	3	13.7	3	100	0	82	65	0	0	34	0.93
6536774--6536887	46	2.6	46	78	10	114	35	11	21	31	1.89
6536819--6537462	274	2.3	275	82	5	728	36	12	17	33	1.87
6538087--6538128	18	2.3	18	100	0	84	42	26	14	16	1.86
6539784--6539834	12	4.3	12	76	18	54	31	0	1	66	1.03
6539817--6539891	23	3.0	26	84	11	95	45	0	1	53	1.08
6539815--6539913	12	8.2	12	72	13	60	45	1	1	52	1.14
6539792--6539898	12	8.8	12	74	16	87	40	0	1	57	1.16
6539792--6539950	62	2.6	62	89	6	227	40	0	2	55	1.18
6539945--6540006	19	3.3	19	78	15	58	37	1	0	61	1.06
6540471--6540530	31	1.9	31	93	0	102	43	6	6	43	1.57
6550256--6550355	35	2.7	35	73	11	103	53	7	9	31	1.59
6550582--6550614	14	2.2	15	89	10	50	66	0	0	33	0.92
6561470--6561813	157	2.2	157	84	4	442	47	6	16	29	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6565685--6565728	21	2.0	22	82	4	54	34	4	4	56	1.40
6567064--6567139	34	2.2	35	90	4	127	35	14	26	23	1.93
6567077--6567169	34	2.8	34	90	3	136	31	17	25	25	1.97
6569653--6569677	12	2.1	12	100	0	50	32	8	8	52	1.60
6570095--6570215	21	5.7	21	77	9	129	22	36	19	22	1.95
6570235--6570277	20	2.2	20	95	0	77	16	25	27	30	1.97
6570654--6570722	34	2.1	32	83	5	84	34	14	27	23	1.94
6571464--6571608	35	4.1	36	78	10	140	24	21	19	35	1.96
6573142--6573357	41	5.2	41	88	4	276	26	18	17	37	1.92
6574214--6574361	76	2.0	75	90	4	235	29	2	8	59	1.39
6574289--6574334	19	2.3	20	78	17	51	23	2	6	67	1.25
6574235--6574388	75	2.0	77	90	5	242	28	1	9	61	1.35
6574235--6574399	76	2.1	77	87	8	246	28	1	9	61	1.34
6574242--6574412	75	2.3	76	84	7	197	28	1	9	60	1.36
6576812--6576845	15	2.3	15	94	0	59	47	17	23	11	1.81
6580835--6580944	52	2.1	52	93	3	186	41	15	22	20	1.89
6582539--6582730	64	2.9	68	86	6	241	28	1	12	57	1.45
6592515--6592741	43	5.3	43	78	4	165	23	19	20	36	1.95
6592510--6592741	86	2.7	85	79	3	250	23	20	20	35	1.96
6597526--6597582	24	2.4	24	94	2	98	26	5	15	52	1.64
6597526--6597597	23	3.1	23	88	6	83	23	5	19	51	1.68
6609710--6609760	23	2.2	24	86	10	70	41	7	0	50	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6613393--6613426	3	11.3	3	87	12	52	0	32	0	67	0.91
6615166--6615199	16	2.2	16	90	10	54	55	0	2	41	1.15
6617219--6617298	31	2.6	31	75	0	88	50	8	12	28	1.70
6620460--6620486	7	3.9	7	100	0	54	14	11	59	14	1.62
6631902--6631933	15	2.1	16	94	5	57	46	0	0	53	1.00
6632178--6632237	23	2.6	23	81	0	75	15	20	16	48	1.81
6637984--6638033	23	2.2	22	85	3	64	34	2	0	64	1.05
6639226--6639275	3	16.7	3	100	0	100	34	0	0	66	0.92
6640586--6640638	23	2.3	22	81	18	63	28	0	5	66	1.15
6640719--6641003	146	2.0	144	84	6	369	39	6	7	46	1.58
6640843--6640916	33	2.2	33	83	11	89	35	0	1	63	1.03
6643566--6643619	26	2.1	26	96	0	99	62	7	12	16	1.51
6644619--6644649	16	2.0	16	93	6	55	19	0	0	80	0.71
6644619--6644657	6	7.0	6	88	11	57	17	0	0	82	0.68
6645070--6645114	14	3.3	14	81	6	56	11	13	20	55	1.68
6645385--6645436	26	2.0	26	96	0	95	46	17	23	13	1.83
6655231--6655277	21	2.2	21	96	0	85	23	8	25	42	1.82
6655466--6655521	21	2.7	21	85	0	85	25	8	23	42	1.82
6655159--6655631	235	2.0	237	97	1	887	28	15	16	39	1.89
6655867--6655928	27	2.3	26	81	13	72	38	3	1	56	1.25
6661994--6662121	61	2.1	60	82	2	150	37	19	13	29	1.90
6667693--6667758	31	2.2	31	83	2	80	27	9	13	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6667702--6667768	31	2.2	31	88	0	98	22	10	14	52	1.72
6681296--6681336	15	2.7	15	88	0	64	14	2	29	53	1.54
6684832--6684860	15	1.9	15	100	0	58	34	0	10	55	1.34
6684934--6685018	24	3.5	24	85	4	100	49	2	5	42	1.40
6684935--6685018	13	6.7	13	77	12	50	50	2	5	41	1.40
6685141--6685180	17	2.5	15	88	8	53	45	0	2	52	1.14
6685830--6685890	7	8.7	7	81	13	72	45	29	0	24	1.53
6686299--6686338	17	2.5	15	88	8	53	52	2	0	45	1.14
6686367--6686408	22	1.9	22	85	9	59	40	9	7	42	1.65
6686461--6686518	13	4.5	13	82	10	57	43	3	3	50	1.36

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