genome.fa.s8488.2.7.7.80.10.50.1000.50.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  50  of  54  ( 6450 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)
11819410--11819472	26	2.6	23	76	14	63	50	19	1	28	1.56
11822492--11822569	39	2.0	39	92	0	129	29	28	14	28	1.95
11825998--11826024	2	13.5	2	100	0	54	51	0	0	48	1.00
11827217--11827254	15	2.5	15	91	0	58	10	21	47	21	1.80
11828127--11828172	22	2.1	22	100	0	92	17	13	17	52	1.75
11831221--11831255	5	7.0	5	87	12	54	82	0	0	17	0.66
11831631--11831726	48	2.0	48	93	0	165	34	10	11	43	1.75
11831784--11831861	29	2.7	29	85	0	102	34	5	11	48	1.61
11832684--11832735	22	2.4	22	80	6	61	34	0	0	65	0.93
11839078--11839121	19	2.4	19	85	11	56	52	2	0	45	1.13
11840425--11840472	18	2.5	19	83	12	55	56	0	0	43	0.99
11840642--11840720	36	2.2	37	90	2	124	18	17	17	45	1.86
11842876--11842913	3	12.7	3	100	0	76	0	34	0	65	0.93
11845947--11845992	20	2.3	19	85	14	58	26	15	8	50	1.73
11847332--11847366	18	1.9	18	100	0	70	28	22	28	20	1.98
11847551--11847594	21	2.1	21	86	0	61	38	20	18	22	1.93
11856235--11856280	20	2.3	19	85	14	58	26	15	8	50	1.73
11861590--11861638	17	2.9	17	93	0	80	65	14	12	8	1.47
11861600--11861646	10	4.9	10	80	17	55	63	14	12	8	1.50
11867013--11867073	23	2.7	22	92	2	95	22	32	26	18	1.97
11868636--11868671	18	2.0	18	88	0	54	41	30	25	2	1.69
11874635--11874672	15	2.6	15	87	4	51	47	5	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11877487--11877519	15	2.1	16	88	5	50	39	27	3	30	1.72
11878819--11878865	18	2.8	16	81	15	51	25	34	19	21	1.96
11878835--11878864	15	1.9	16	93	6	53	26	26	23	23	2.00
11879286--11879356	34	2.1	33	86	2	97	36	15	26	21	1.93
11885451--11885512	23	2.9	21	85	7	81	20	35	25	17	1.95
11885494--11885533	21	1.9	21	89	0	62	25	40	25	10	1.86
11885894--11885943	26	2.0	25	88	11	75	52	4	4	40	1.39
11887773--11887859	43	2.0	43	97	0	165	37	0	32	29	1.58
11887780--11887851	23	3.2	24	64	18	64	43	0	27	29	1.56
11889771--11889801	14	2.1	15	94	5	55	64	0	25	9	1.24
11891466--11891505	21	1.9	21	94	0	71	32	10	7	50	1.64
11891890--11891929	20	1.9	22	90	10	66	37	37	10	15	1.80
11892142--11892214	34	2.2	33	83	14	87	34	13	31	20	1.92
11894100--11894136	2	18.5	2	100	0	74	51	0	0	48	1.00
11894321--11894424	33	3.2	32	87	4	145	35	20	23	21	1.96
11896148--11896208	26	2.3	26	97	0	113	50	8	3	37	1.48
11896156--11896206	14	3.8	14	76	10	61	52	7	3	35	1.49
11899550--11899782	120	2.0	120	82	5	285	45	7	8	38	1.64
11899808--11899848	20	2.0	20	86	13	57	58	0	0	41	0.98
11901152--11901209	3	19.3	3	85	0	80	60	0	0	39	0.97
11901347--11901603	76	3.4	76	96	0	460	35	21	19	23	1.96
11901729--11902095	76	4.8	76	94	1	644	33	21	20	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11902098--11902422	166	2.0	166	93	0	551	39	13	13	33	1.84
11902937--11902995	22	2.7	22	91	0	100	42	11	8	37	1.72
11913370--11913428	31	2.0	29	83	12	75	50	0	1	47	1.11
11913484--11913525	20	2.2	19	86	4	57	64	2	0	33	1.07
11913397--11913629	120	2.0	120	84	5	312	45	9	8	36	1.66
11914986--11915041	11	5.0	12	72	22	50	55	0	0	44	0.99
11914993--11915060	3	22.0	3	79	5	64	57	0	0	42	0.98
11914986--11915066	18	4.5	18	76	19	80	55	0	0	44	0.99
11915988--11916071	43	2.0	42	93	4	143	39	7	20	33	1.80
11918702--11918756	2	27.5	2	100	0	110	50	0	0	49	1.00
11920575--11920767	94	2.1	94	93	2	325	38	15	20	25	1.91
11935582--11935614	12	2.8	12	100	0	66	9	15	0	75	1.03
11942213--11942258	20	2.4	20	79	17	53	32	19	21	26	1.97
11943043--11943121	21	3.8	21	98	0	149	18	18	40	21	1.92
11944731--11944770	20	2.0	20	85	0	53	47	25	0	27	1.52
11944684--11944763	27	2.9	27	92	1	133	47	25	0	27	1.52
11954856--11954963	35	3.0	35	67	24	98	33	24	14	27	1.94
11955147--11955213	28	2.4	28	87	0	89	44	2	11	40	1.56
11955628--11955711	43	2.0	41	88	4	123	27	19	20	33	1.96
11955997--11956028	16	1.9	16	93	6	55	78	3	0	18	0.89
11958831--11958855	3	8.3	3	100	0	50	64	0	0	36	0.94
11959099--11959463	137	2.7	137	85	1	462	27	18	27	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11959465--11959559	36	2.6	35	80	6	118	43	14	17	24	1.87
11959535--11959598	31	2.0	32	84	3	85	31	12	15	40	1.85
11959609--11959720	36	3.1	35	82	7	127	40	12	17	29	1.87
11959663--11959736	36	2.1	36	82	5	87	37	12	16	33	1.85
11959951--11960154	36	5.6	37	80	6	220	38	10	19	31	1.86
11959959--11960157	108	1.8	108	88	2	301	36	11	18	33	1.86
11972430--11972471	11	3.7	11	84	15	59	0	11	7	80	0.88
11972413--11972471	12	4.9	12	82	14	68	0	11	6	81	0.87
11972412--11972498	39	2.2	39	85	4	113	1	13	4	80	0.92
11972432--11972496	22	3.0	22	84	8	71	1	15	4	78	0.99
11972461--11972500	17	2.4	17	87	4	55	2	17	0	80	0.83
11979574--11979939	4	91.0	4	75	3	232	39	25	7	27	1.83
11979578--11979939	8	44.5	8	85	3	292	38	25	7	27	1.83
11981471--11981550	41	2.0	40	87	2	115	42	18	16	22	1.89
11981651--11981713	18	3.6	18	79	12	69	42	7	3	46	1.49
11981683--11981739	18	3.2	18	84	0	69	49	10	7	33	1.64
11981938--11982024	3	29.0	3	100	0	174	33	0	0	66	0.92
11984026--11984072	5	9.8	5	84	9	62	23	55	19	2	1.54
11984026--11984072	14	3.3	14	87	3	67	23	55	19	2	1.54
11984026--11984072	19	2.5	20	86	10	71	23	55	19	2	1.54
11991299--11991344	5	8.8	5	81	9	56	19	52	21	6	1.69
11991304--11991351	22	2.2	22	96	0	87	18	47	22	10	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12000368--12000394	11	2.5	11	100	0	54	18	0	14	66	1.25
12003759--12004273	257	2.0	257	100	0	1030	30	18	14	37	1.90
12011351--12011392	2	21.5	2	90	4	68	50	0	0	50	1.00
12012869--12012907	15	2.6	15	95	0	69	38	10	23	28	1.87
12015970--12016276	75	4.3	73	78	10	255	42	2	7	46	1.47
12015970--12016215	38	6.8	38	70	12	133	41	3	7	47	1.48
12016199--12016281	33	2.5	33	80	0	85	45	1	7	45	1.38
12017656--12017713	25	2.3	25	83	13	75	18	3	0	77	0.91
12018919--12019112	104	1.9	105	95	1	354	19	24	26	29	1.98
12020585--12020643	30	1.9	32	82	6	77	71	6	11	10	1.31
12029412--12029451	21	2.0	20	85	5	53	25	22	5	47	1.71
12030568--12030626	13	4.1	14	78	16	59	79	6	10	3	1.03
12031815--12031946	36	3.5	37	77	9	108	29	17	12	40	1.86
12031927--12032221	66	4.5	67	86	4	386	27	18	13	40	1.88
12031918--12032221	131	2.3	132	83	4	389	27	18	13	40	1.88
12032242--12032701	131	3.5	130	82	4	505	25	30	18	25	1.98
12037203--12037234	12	2.7	12	95	0	55	34	21	18	25	1.96
12039680--12039724	22	2.0	22	87	8	65	53	4	22	20	1.63
12055039--12055358	54	6.0	54	74	13	147	53	13	0	33	1.40
12055105--12055178	22	3.2	22	73	9	67	54	13	0	32	1.40
12055151--12055516	26	13.4	30	63	30	123	52	13	0	34	1.40
12055187--12055417	80	2.9	80	96	0	426	52	15	0	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12055239--12055313	22	3.2	23	75	17	82	54	17	0	28	1.43
12055365--12055516	32	5.4	32	70	28	155	51	10	0	37	1.36
12055134--12055516	54	7.1	54	82	11	441	52	13	0	34	1.41
12055054--12055471	214	2.0	214	95	1	750	52	13	0	33	1.41
12055399--12055447	22	2.2	22	85	3	62	55	12	0	32	1.37
12055451--12055553	22	4.5	22	69	7	80	51	8	0	38	1.40
12055496--12055568	15	4.5	15	74	22	67	53	4	1	41	1.28
12055442--12055567	37	3.6	36	74	15	129	53	7	0	38	1.34
12066736--12066773	12	3.2	12	85	3	51	7	2	5	84	0.86
12069693--12069748	17	3.4	16	79	15	62	62	7	14	16	1.52

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