genome.fa.s9639.2.7.7.80.10.50.1000.53.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  53  of  62  ( 7398 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)
12617586--12617718	13	11.0	12	66	24	50	30	34	4	30	1.78
12618110--12618157	12	4.1	11	80	19	53	77	4	18	0	0.93
12618181--12618225	14	2.9	15	80	12	56	77	2	17	2	0.97
12621698--12621829	13	10.8	12	66	19	60	31	36	3	28	1.75
12621698--12621832	23	5.6	23	69	25	75	31	36	3	28	1.75
12621698--12621849	36	4.2	36	94	1	252	30	36	3	28	1.76
12622290--12622336	14	3.1	15	75	12	51	72	4	19	4	1.18
12622487--12622536	24	2.0	25	85	11	68	16	20	0	64	1.30
12623615--12623681	24	2.8	23	75	8	62	26	19	26	26	1.99
12625808--12625939	13	10.8	12	66	19	60	31	36	3	28	1.75
12625808--12625942	23	5.6	23	69	25	75	31	36	3	28	1.75
12625808--12625959	36	4.2	36	94	1	252	30	36	3	28	1.76
12628477--12628525	23	2.1	23	100	0	98	34	28	16	20	1.94
12634813--12634854	18	2.4	17	92	8	66	28	4	4	61	1.36
12635566--12635595	11	2.7	11	94	0	51	13	6	43	36	1.70
12640103--12640149	17	2.7	17	83	9	60	27	14	23	34	1.94
12642175--12642231	25	2.3	25	90	0	87	45	14	12	28	1.80
12643134--12643197	26	2.5	26	84	5	76	50	17	7	25	1.72
12647230--12647375	65	2.3	63	82	7	168	29	23	18	28	1.98
12655878--12656033	65	2.4	64	82	5	172	31	20	16	31	1.95
12658003--12658055	17	3.1	17	80	0	61	35	7	13	43	1.72
12658098--12658160	17	3.7	17	82	0	72	46	14	12	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12659312--12659578	134	2.0	136	91	1	439	47	8	11	31	1.70
12660151--12660188	19	2.1	19	85	5	51	36	10	2	50	1.51
12675921--12676014	20	4.7	20	67	17	68	28	15	28	26	1.96
12676051--12676106	22	2.7	20	81	10	76	30	14	30	25	1.95
12676489--12676959	79	6.0	79	88	0	663	33	10	25	30	1.90
12677382--12677535	81	1.9	81	83	2	202	38	9	23	28	1.86
12677644--12677732	44	2.0	45	82	6	110	43	4	24	26	1.73
12681173--12681242	34	2.1	34	97	0	131	25	8	24	41	1.83
12683807--12683931	59	2.2	56	86	4	169	26	16	26	30	1.97
12690097--12690286	56	3.3	56	84	3	238	27	17	23	31	1.97
12692651--12692707	19	3.0	19	76	0	60	29	21	28	21	1.98
12692690--12692849	65	2.5	65	84	5	191	26	18	23	31	1.98
12692690--12692899	65	3.3	63	77	12	187	25	19	23	31	1.98
12693899--12693950	21	2.5	21	90	0	77	34	13	34	17	1.89
12695815--12695840	2	13.0	2	100	0	52	50	0	0	50	1.00
12700880--12700906	8	3.4	8	100	0	54	22	22	29	25	1.99
12705332--12705366	18	1.9	18	94	0	61	62	8	2	25	1.38
12710723--12710765	22	2.0	22	85	0	59	32	4	16	46	1.67
12724612--12724686	31	2.4	31	90	0	123	45	4	8	42	1.52
12727305--12727375	20	3.6	20	94	1	117	40	18	18	22	1.91
12727425--12727471	19	2.4	20	82	10	53	29	12	34	23	1.92
12727496--12727549	19	2.6	21	75	21	60	31	16	20	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12727950--12728035	27	3.2	27	64	23	72	30	18	18	32	1.95
12728058--12728143	27	3.2	27	65	23	63	31	20	17	30	1.96
12727893--12728229	54	6.2	54	86	1	433	32	19	18	29	1.96
12733931--12733971	18	2.3	18	100	0	82	51	0	29	19	1.47
12734323--12734376	19	2.6	21	80	8	67	35	14	18	31	1.91
12734721--12735053	54	6.2	54	89	0	468	29	19	20	30	1.97
12744132--12744440	154	2.0	155	99	0	611	38	23	11	26	1.89
12746419--12746487	30	2.3	30	100	0	138	37	7	34	20	1.80
12762476--12762550	39	1.9	39	97	0	141	2	20	17	60	1.48
12772378--12772425	21	2.3	21	96	0	87	35	31	16	16	1.92
12787002--12787157	80	2.0	77	80	10	174	42	9	5	42	1.59
12790680--12790784	51	2.1	51	100	0	210	43	11	25	19	1.84
12791656--12791705	24	2.1	24	88	7	75	56	6	18	20	1.62
12803858--12804392	265	2.0	265	96	0	989	31	16	22	29	1.96
12804870--12804917	23	2.1	23	88	0	69	35	12	18	33	1.89
12805390--12805462	23	3.2	23	90	0	110	41	20	4	34	1.72
12805822--12805884	23	2.7	23	90	0	90	38	19	4	38	1.73
12806233--12806302	21	3.3	21	74	9	61	38	21	4	35	1.73
12806238--12806307	22	3.2	22	76	12	72	38	21	4	35	1.73
12805228--12806928	422	4.0	429	93	4	2914	39	12	7	40	1.72
12806667--12806729	23	2.7	23	87	0	90	38	20	6	34	1.78
12805228--12806928	845	2.0	845	93	4	2925	39	12	7	40	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12807734--12807788	26	2.1	26	100	0	110	32	18	18	30	1.95
12809540--12810027	183	2.7	183	94	3	839	32	17	15	34	1.91
12810393--12810462	21	3.2	21	74	11	61	40	21	4	34	1.73
12810398--12810468	23	3.2	22	80	8	81	39	21	4	35	1.73
12812001--12812163	3	55.0	3	70	4	116	24	33	6	35	1.82
12812001--12812167	12	14.1	12	79	5	142	24	32	7	35	1.83
12812119--12812180	18	3.5	18	74	10	56	19	33	9	37	1.84
12813382--12814332	197	4.9	199	92	4	1579	31	16	15	36	1.91
12813382--12814332	393	2.4	391	92	4	1586	31	16	15	36	1.91
12814451--12814495	19	2.4	19	92	0	72	57	8	2	31	1.41
12816249--12816311	33	1.9	33	90	0	99	22	49	0	28	1.50
12816345--12816388	21	2.1	21	91	0	70	15	31	11	40	1.83
12818602--12818644	20	2.3	18	85	14	61	20	16	11	51	1.75
12818607--12818653	20	2.4	19	82	10	67	19	17	10	53	1.72
12818789--12818835	20	2.4	19	79	10	58	21	17	8	53	1.70
12818574--12819047	182	2.6	181	90	2	709	26	17	13	42	1.86
12819628--12819652	11	2.3	11	100	0	50	36	24	8	32	1.84
12823541--12823660	24	5.2	24	75	16	92	35	4	7	52	1.49
12823568--12823674	42	2.5	44	80	10	123	38	3	5	52	1.43
12823682--12823726	10	4.8	10	76	15	51	37	2	0	60	1.09
12823673--12823710	18	2.1	18	90	0	58	39	5	0	55	1.23
12827777--12827839	26	2.5	26	94	2	110	39	17	15	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12834382--12834551	90	1.9	88	95	2	304	38	10	6	44	1.65
12835762--12835798	15	2.5	15	100	0	74	32	37	5	24	1.78
12842091--12842156	19	3.5	20	76	17	61	39	3	6	51	1.42
12842092--12842199	45	2.4	45	82	11	127	38	4	5	50	1.46
12842104--12842210	18	6.6	16	68	21	62	39	5	5	49	1.50
12842213--12842257	10	4.8	10	76	15	51	37	2	0	60	1.09
12842204--12842241	18	2.1	18	90	0	58	39	5	0	55	1.23
12842213--12842256	8	5.6	8	84	12	56	36	2	0	61	1.09
12844657--12844712	21	2.7	21	72	10	60	33	26	10	28	1.90
12849271--12849322	20	2.5	21	81	3	61	28	19	28	23	1.98
12858491--12858540	20	2.5	20	83	6	57	40	16	16	28	1.89
12861981--12862060	3	26.7	3	97	0	151	33	1	0	65	1.01
12864206--12864259	28	2.0	27	81	3	63	31	1	1	64	1.14
12864214--12864249	18	1.9	19	88	5	56	33	2	0	63	1.08
12874852--12874898	6	7.7	6	77	13	51	78	0	21	0	0.75
12874847--12874897	10	5.0	10	78	4	57	80	0	19	0	0.71
12875206--12875250	16	2.8	16	83	10	56	28	8	6	55	1.56
12875805--12876305	250	2.0	250	96	3	929	30	16	18	33	1.94
12876164--12876590	82	5.1	83	87	5	603	29	14	20	35	1.92
12877371--12878141	113	6.8	113	91	3	1174	36	11	20	30	1.89
12877390--12878143	342	2.2	340	90	3	1210	37	11	20	30	1.89
12878395--12878459	3	21.7	3	96	0	121	33	1	0	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12879788--12879820	16	1.9	18	88	11	52	30	0	3	66	1.06
12879872--12879912	20	2.0	21	85	4	57	36	2	2	58	1.24
12880606--12880641	18	1.9	19	88	5	56	33	2	0	63	1.08
12891273--12891334	15	3.8	17	79	10	58	30	8	8	53	1.59
12891999--12892426	82	5.1	83	88	4	621	29	14	20	35	1.92
12891999--12892426	170	2.6	165	89	4	628	29	14	20	35	1.92
12893230--12893981	342	2.2	338	90	3	1197	36	11	20	30	1.89
12893211--12893979	113	6.8	113	91	4	1158	36	11	20	30	1.89
12895544--12895584	20	2.0	21	85	4	57	36	2	2	58	1.24
12903580--12903617	17	2.2	17	100	0	76	31	7	26	34	1.85

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