genome.fa.s7999.2.7.7.80.10.50.1000.41.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  41  of  50  ( 5918 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)
9722179--9722282	21	4.6	22	72	20	72	75	0	18	5	0.99
9722240--9722282	14	2.8	15	86	10	52	81	0	18	0	0.69
9725745--9725999	36	6.9	36	69	8	174	31	18	10	38	1.86
9725730--9726122	73	5.3	72	86	4	493	31	18	10	39	1.85
9725730--9726133	146	2.7	146	85	6	546	31	18	10	38	1.85
9726128--9726704	123	4.7	123	88	1	811	39	14	20	25	1.91
9726761--9727070	118	2.6	119	81	7	368	40	14	20	25	1.90
9728033--9728071	8	4.8	8	84	15	53	12	0	0	87	0.55
9728030--9728066	18	2.1	18	94	0	65	13	0	0	86	0.57
9728035--9728071	9	4.1	9	86	13	58	10	0	0	89	0.49
9728030--9728071	17	2.4	18	92	4	68	14	0	0	85	0.59
9728094--9728136	17	2.5	17	84	3	50	30	11	2	55	1.48
9729571--9729595	11	2.3	11	100	0	50	64	8	0	28	1.22
9730788--9731165	101	3.7	100	82	5	447	39	11	11	38	1.76
9731303--9731519	76	2.8	77	82	2	258	34	17	9	38	1.82
9732025--9732051	14	1.9	14	100	0	54	14	7	0	77	0.97
9732019--9732089	25	2.9	24	81	8	81	16	9	1	71	1.19
9733618--9733644	14	1.9	14	100	0	54	14	7	0	77	0.97
9733618--9733682	25	2.6	25	80	9	80	16	9	1	72	1.18
9735210--9735290	35	2.3	36	91	2	128	43	25	0	30	1.55
9735210--9735306	36	2.7	34	79	7	86	41	27	2	28	1.67
9735780--9736072	148	2.0	148	89	0	451	46	9	7	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9736231--9736324	35	2.7	35	81	3	91	29	1	24	44	1.61
9737315--9737356	15	2.6	16	82	17	52	33	4	0	61	1.17
9740095--9740162	24	2.8	24	86	4	84	51	17	20	10	1.74
9752009--9752085	37	2.1	37	100	0	154	32	7	20	38	1.81
9753064--9753089	3	8.7	3	100	0	52	30	0	0	69	0.89
9754016--9754061	20	2.3	20	96	0	83	39	4	54	2	1.32
9760303--9760342	2	20.0	2	100	0	80	50	0	0	50	1.00
9762794--9762885	44	2.1	45	85	4	125	30	14	5	50	1.65
9762889--9763045	41	3.8	40	79	9	147	26	19	5	49	1.68
9762912--9763046	43	3.2	41	80	8	146	26	18	5	49	1.68
9762873--9763073	41	4.8	43	74	10	141	26	17	3	51	1.63
9769769--9769825	20	2.8	19	87	10	78	24	15	8	50	1.72
9770342--9770382	14	2.9	14	88	0	55	58	24	9	7	1.55
9771681--9773826	6	360.2	6	96	3	3975	50	17	0	32	1.46
9774194--9774241	2	24.0	2	86	0	69	43	0	6	50	1.27
9775344--9775398	28	2.0	28	82	13	69	32	21	10	34	1.89
9776033--9776100	3	23.0	3	80	3	57	66	1	0	32	1.01
9776238--9776314	39	2.0	39	94	0	136	16	20	12	49	1.79
9776933--9776986	26	2.1	25	83	10	65	55	1	0	42	1.10
9778361--9778420	3	21.0	3	83	10	81	65	3	0	31	1.09
9778361--9778424	23	2.8	23	85	2	85	65	3	0	31	1.08
9778785--9780109	226	5.9	221	88	5	1583	27	20	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9779006--9780109	113	9.9	113	92	2	1810	27	20	15	36	1.93
9778679--9780109	339	4.3	337	88	5	1909	27	20	15	37	1.92
9784917--9785052	72	1.9	72	89	6	213	34	17	19	27	1.95
9788164--9788233	36	1.9	36	94	0	122	30	11	18	40	1.86
9789897--9789922	2	13.0	2	100	0	52	50	0	0	50	1.00
9791310--9791373	3	22.0	3	80	6	78	64	3	0	32	1.10
9791397--9791965	6	93.5	6	95	4	1025	49	33	0	16	1.46
9792342--9792384	2	21.5	2	95	0	77	46	0	2	51	1.13
9794167--9794234	3	23.0	3	80	3	66	67	1	0	30	0.99
9794369--9794436	20	3.5	20	69	18	61	13	20	16	50	1.78
9794371--9794450	39	2.1	39	95	0	142	15	21	13	50	1.78
9795071--9795096	2	13.0	2	100	0	52	50	0	0	50	1.00
9796468--9796530	3	22.0	3	84	9	87	65	3	0	31	1.09
9796798--9797062	102	2.6	100	88	3	374	27	19	12	41	1.87
9797111--9798120	113	9.0	113	93	1	1629	27	20	15	36	1.93
9796790--9798120	226	6.0	226	86	6	1733	27	19	15	37	1.92
9796790--9798120	339	4.0	338	87	5	1772	27	19	15	37	1.92
9802934--9803069	72	1.9	72	89	6	213	34	16	19	28	1.94
9806098--9806165	35	1.9	35	91	5	111	29	11	19	39	1.87
9809187--9809250	3	22.0	3	77	6	69	62	3	0	34	1.11
9809277--9812804	6	608.2	6	83	11	4320	47	17	2	32	1.62
9814024--9814094	3	24.0	3	78	2	54	66	2	0	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9814231--9814298	20	3.5	20	69	18	61	13	20	16	50	1.78
9814233--9814312	39	2.1	39	95	0	142	15	21	13	50	1.78
9814556--9814641	39	2.2	39	80	12	97	65	2	0	32	1.06
9814739--9814810	36	2.0	35	89	7	110	16	19	15	48	1.81
9816831--9816890	3	21.0	3	83	10	81	65	3	0	31	1.09
9816831--9816894	23	2.8	23	85	2	85	65	3	0	31	1.08
9817158--9817435	102	2.8	100	84	5	364	28	19	11	40	1.87
9817477--9818592	113	9.9	113	94	0	1900	27	20	15	36	1.93
9817260--9818592	226	5.9	226	91	2	1944	27	20	15	36	1.93
9817153--9818592	339	4.3	339	89	4	1974	27	20	15	37	1.92
9826658--9826727	36	1.9	36	94	0	122	30	11	18	40	1.86
9829796--9829864	3	23.7	3	82	5	88	63	1	0	34	1.03
9829904--9830147	6	40.7	6	99	0	461	34	33	15	16	1.90
9831171--9831251	3	27.0	3	100	0	162	66	0	0	33	0.92
9832296--9832356	16	3.9	16	93	2	97	31	16	13	39	1.87
9832316--9832369	15	3.5	15	89	2	63	29	20	11	38	1.87
9833865--9833901	2	19.0	2	94	5	67	51	0	0	48	1.00
9836141--9836182	18	2.3	19	91	4	68	47	9	0	42	1.36
9836169--9836518	30	11.6	29	69	16	153	39	9	0	50	1.41
9836413--9836492	26	3.2	26	80	7	85	40	8	0	51	1.33
9836540--9836669	29	4.5	29	82	8	158	52	0	8	38	1.37
9836537--9836657	56	2.2	56	84	3	163	52	0	7	39	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9836570--9836621	27	2.0	24	85	10	68	55	0	5	38	1.24
9837187--9837236	23	2.2	23	81	0	55	38	4	2	56	1.30
9837566--9837656	2	48.5	2	69	20	54	52	3	0	43	1.17
9838327--9838362	18	2.0	18	94	0	63	16	13	22	47	1.82
9842317--9842350	16	2.0	18	88	11	54	67	0	5	26	1.13
9842413--9842568	79	2.0	78	95	3	280	58	7	13	19	1.59
9844424--9844884	106	4.4	105	93	1	701	22	20	25	31	1.98
9845081--9845107	1	27.0	1	100	0	54	0	0	0	100	0.00
9845691--9845724	1	34.0	1	100	0	68	0	0	0	100	0.00
9856479--9856522	22	2.0	21	86	4	61	63	0	6	29	1.20
9856479--9856517	19	2.0	21	90	10	64	66	0	5	28	1.12
9856573--9856734	79	2.1	78	94	4	283	59	7	12	20	1.58
9865897--9865933	7	5.3	7	90	9	58	27	0	13	59	1.35
9868285--9868319	2	17.5	2	100	0	70	51	0	0	48	1.00
9869199--9869296	39	2.5	39	86	6	128	28	21	13	36	1.91
9873636--9873660	3	8.3	3	100	0	50	68	0	0	32	0.90
9873933--9873991	31	1.9	31	85	0	82	30	27	10	32	1.89
9875096--9875182	32	2.7	32	84	7	115	29	18	18	33	1.95
9877773--9877895	46	2.7	46	81	7	133	28	13	15	42	1.85
9878988--9879077	2	45.0	2	100	0	180	50	0	0	50	1.00
9880406--9880453	20	2.5	20	96	3	89	22	47	10	18	1.79
9882168--9882216	18	2.7	18	96	0	89	40	16	18	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9882632--9882665	17	2.0	17	88	0	50	29	23	11	35	1.90
9888551--9888630	35	2.2	37	88	4	119	30	37	5	27	1.78
9889005--9889052	26	2.0	23	84	12	60	75	8	16	0	1.04
9889074--9889120	14	3.1	15	75	12	51	72	6	19	2	1.17
9893460--9893539	35	2.2	37	86	4	110	32	35	5	27	1.79
9895516--9895562	15	3.1	15	78	6	51	51	8	2	38	1.45
9903027--9903099	20	3.7	20	78	5	69	31	21	12	34	1.91
9914503--9914541	18	2.2	18	86	4	53	41	5	2	51	1.38
9915271--9915494	89	2.5	89	81	2	261	50	3	8	37	1.50
9915271--9915508	90	2.6	89	81	3	262	50	3	7	37	1.48

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