genome.fa.s9634.2.7.7.80.10.50.1000.54.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  54  of  78  ( 9351 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)
10696036--10696114	28	2.9	27	78	16	83	65	0	30	3	1.10
10696333--10696377	19	2.4	19	89	10	67	46	0	4	48	1.22
10697407--10697437	4	7.5	4	92	7	53	29	0	0	70	0.87
10697410--10697434	13	1.9	13	100	0	50	28	0	0	72	0.86
10698229--10698269	21	2.0	21	90	0	64	31	4	46	17	1.69
10698483--10698520	18	2.1	18	100	0	76	36	0	5	57	1.21
10702061--10702116	18	3.2	17	80	7	58	66	5	0	28	1.14
10702218--10702252	18	1.9	18	88	11	54	2	22	2	71	1.13
10702217--10702309	15	6.1	15	72	18	68	3	27	1	67	1.12
10713065--10713225	60	2.7	59	80	3	162	39	6	22	31	1.80
10714004--10714071	28	2.5	27	79	11	77	42	2	10	44	1.53
10714916--10714980	18	3.8	16	71	20	51	23	4	1	70	1.14
10715463--10715492	2	14.5	2	93	6	51	46	0	3	50	1.18
10716628--10717062	139	3.1	139	88	2	606	40	14	11	32	1.82
10717388--10717440	13	3.7	13	75	20	52	66	3	5	24	1.31
10717388--10717452	31	2.1	31	86	11	89	66	4	6	23	1.33
10720760--10720796	16	2.3	17	77	13	51	16	5	48	29	1.68
10721033--10721064	17	1.9	16	93	6	55	68	0	0	31	0.90
10722313--10722485	54	3.1	54	74	11	163	36	20	9	34	1.84
10722338--10722546	116	1.8	112	83	6	276	38	19	10	31	1.85
10722312--10722553	116	2.2	111	81	10	271	37	18	9	34	1.83
10722645--10722705	20	2.9	22	73	9	72	29	22	19	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10722584--10722724	42	3.4	41	74	5	131	31	21	19	26	1.97
10722706--10723013	145	2.1	145	92	0	526	28	14	28	28	1.95
10722990--10723103	42	2.7	41	73	6	104	33	21	19	25	1.97
10723140--10723388	53	4.6	54	79	7	231	41	18	9	30	1.82
10723390--10723472	39	2.1	39	88	0	121	37	16	16	28	1.91
10723587--10723746	66	2.5	64	84	5	205	38	14	20	26	1.91
10723587--10723754	65	2.6	63	83	8	203	36	13	20	29	1.91
10723820--10724089	102	2.7	101	86	6	343	37	10	20	31	1.87
10724438--10724481	16	2.9	15	87	9	63	22	0	27	50	1.50
10729245--10729279	16	2.2	16	90	5	54	14	5	54	25	1.62
10729497--10729570	3	25.7	3	83	8	100	66	1	0	32	1.00
10731236--10731285	3	17.7	3	78	12	52	68	2	2	28	1.12
10731236--10731289	11	4.8	12	82	11	51	68	1	1	27	1.10
10731724--10731787	27	2.4	28	76	5	69	51	3	4	40	1.38
10731840--10731890	24	2.1	24	82	7	59	49	1	3	45	1.32
10732224--10732280	22	2.6	22	97	2	107	21	5	8	64	1.41
10732374--10734137	37	48.1	37	88	7	2516	23	4	8	63	1.41
10732492--10732557	25	2.5	26	73	22	66	22	1	9	66	1.28
10732504--10732541	20	2.0	20	89	5	60	28	2	5	63	1.30
10732504--10732595	31	2.9	30	76	9	85	23	3	6	66	1.30
10732529--10732581	26	2.1	26	85	3	72	20	1	7	69	1.22
10732643--10732797	28	5.2	28	69	24	95	25	5	7	61	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10732906--10733270	14	25.8	13	63	23	50	22	5	8	63	1.43
10732886--10733106	35	6.5	29	73	21	84	22	5	9	63	1.44
10732766--10734128	8	186.6	7	67	19	343	22	4	8	64	1.40
10733528--10733609	14	5.7	14	71	17	53	20	3	8	67	1.33
10733719--10733942	14	15.7	14	64	24	55	21	4	8	65	1.39
10739547--10739599	22	2.4	22	75	12	54	30	9	20	39	1.84
10740829--10740911	35	2.3	36	83	6	107	37	4	2	55	1.34
10746675--10746715	20	2.0	21	95	4	75	36	29	14	19	1.92
10749246--10749282	13	2.8	13	95	0	65	43	0	13	43	1.44
10753920--10753951	14	2.3	14	100	0	64	46	0	0	53	1.00
10754248--10754273	7	3.7	7	100	0	52	0	30	30	38	1.58
10755008--10755120	30	3.7	30	72	10	86	53	0	0	45	1.12
10755018--10755100	40	2.0	41	84	9	107	51	1	1	45	1.16
10755018--10755111	40	2.4	39	80	16	97	52	1	1	45	1.15
10761717--10761771	28	2.0	28	82	7	67	16	5	38	40	1.72
10765286--10765878	47	12.6	47	91	1	893	41	11	22	24	1.86
10765346--10765426	20	3.7	20	67	25	56	40	13	25	19	1.89
10765543--10765614	20	3.2	20	66	23	54	38	13	26	20	1.90
10765722--10765850	20	5.7	20	66	24	69	41	10	26	22	1.85
10770631--10770679	14	3.4	14	83	8	53	77	2	18	2	0.96
10770629--10770685	6	8.7	6	77	22	53	78	1	17	1	0.91
10773153--10773250	43	2.3	41	78	3	115	25	19	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10772784--10773636	249	3.4	249	88	1	1219	32	15	17	33	1.92
10773403--10773511	42	2.6	40	85	5	137	22	21	22	33	1.97
10773929--10773966	3	12.7	3	100	0	76	34	31	0	34	1.58
10778251--10778296	19	2.4	19	81	0	56	17	32	0	50	1.47
10790251--10790289	14	2.8	14	96	0	69	10	35	28	25	1.89
10793525--10793567	17	2.7	16	82	10	52	74	2	9	13	1.16
10797088--10797215	44	3.0	42	87	7	170	50	12	21	15	1.76
10803764--10803805	19	2.2	20	86	4	59	16	0	14	69	1.20
10804416--10804445	15	1.9	16	93	6	53	40	10	23	26	1.86
10805216--10805252	13	2.8	13	91	0	56	13	0	24	62	1.31
10806790--10806852	32	2.0	32	90	0	99	33	30	15	20	1.94
10807721--10807764	17	2.7	15	80	16	52	29	0	2	68	1.02
10810654--10810704	21	2.4	21	90	0	75	23	9	15	50	1.73
10811658--10811712	23	2.4	22	80	14	58	36	0	1	61	1.06
10823818--10824176	133	2.6	133	83	6	400	31	24	16	28	1.96
10824307--10824352	3	15.7	3	84	13	60	30	0	2	67	1.03
10825734--10825778	17	2.9	16	81	12	58	26	0	4	68	1.08
10827248--10827455	42	5.0	42	81	4	195	26	19	18	36	1.94
10827284--10827455	84	2.0	84	88	0	254	28	19	18	33	1.95
10831384--10831416	17	1.9	17	93	0	57	66	6	9	18	1.40
10831384--10831423	17	2.2	18	86	8	55	67	5	10	17	1.37
10831429--10831471	16	2.6	17	77	7	52	62	2	0	34	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10831988--10832030	22	2.0	21	86	4	59	55	16	4	23	1.59
10839840--10839884	23	2.0	23	95	0	81	13	24	15	46	1.82
10843575--10843613	20	2.0	20	89	0	60	33	10	23	33	1.88
10848151--10848368	55	4.0	55	79	4	217	33	10	15	41	1.80
10848132--10848496	57	6.6	56	79	5	316	31	11	16	41	1.84
10848132--10848496	113	3.3	113	79	6	302	31	11	16	41	1.84
10848542--10849242	241	2.9	238	85	3	926	31	16	16	35	1.92
10852368--10852405	19	2.0	20	84	5	51	44	5	5	44	1.49
10864195--10864223	2	14.5	2	100	0	58	48	0	0	51	1.00
10866671--10866731	30	2.0	30	87	0	86	26	18	8	47	1.76
10873055--10873100	18	2.7	17	93	6	76	32	6	32	28	1.83
10873671--10873757	38	2.3	38	92	5	142	37	35	11	14	1.83
10873930--10874017	38	2.3	39	94	5	155	38	38	11	11	1.77
10873650--10874240	259	2.3	254	90	4	913	36	28	11	22	1.90
10877506--10877569	23	2.8	23	85	0	92	17	20	23	39	1.92
10878513--10878555	23	1.9	22	90	4	68	65	2	23	9	1.34
10882886--10882931	24	1.9	24	86	8	67	73	0	19	6	1.04
10883974--10884181	39	5.4	38	76	8	156	27	21	12	38	1.89
10883972--10884163	77	2.5	75	80	8	208	27	20	12	39	1.89
10883973--10884205	39	6.1	37	73	13	152	27	19	12	39	1.89
10884757--10884897	40	3.5	40	94	2	241	39	12	19	28	1.89
10885156--10885190	17	2.1	17	100	0	70	40	25	17	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10885470--10885731	48	5.4	51	68	12	167	28	15	22	34	1.94
10885422--10885731	98	3.2	98	82	6	328	29	14	21	34	1.93
10885500--10885747	94	2.6	93	82	6	257	30	14	22	32	1.94
10898310--10898431	18	6.7	18	74	14	67	78	6	13	0	0.98
10898306--10898430	6	19.5	6	70	21	58	78	6	14	0	0.99
10898317--10898431	10	10.2	11	73	19	69	79	6	13	0	0.98
10898306--10898431	25	5.1	25	74	13	109	78	6	14	0	0.98
10899636--10899715	37	2.2	36	81	2	88	36	17	16	30	1.92
10899648--10899776	36	3.6	34	82	8	141	28	20	13	37	1.91
10899890--10900082	101	1.9	99	81	3	233	29	19	12	38	1.88

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78