genome.fa.s1465.2.7.7.80.10.50.1000.52.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  52  of  55  ( 6520 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)
10468538--10468621	42	2.0	42	97	0	159	22	16	14	46	1.83
10468501--10468647	78	1.9	79	90	4	235	22	19	14	43	1.87
10468590--10469001	65	5.9	65	69	19	206	26	16	13	42	1.85
10468718--10468801	42	2.0	42	95	0	150	22	15	14	47	1.81
10468478--10468823	180	1.9	180	95	1	622	25	17	13	43	1.85
10468681--10468837	78	2.0	79	87	3	228	22	16	14	46	1.83
10468538--10468973	216	2.0	217	89	3	669	25	16	13	44	1.84
10468531--10469022	180	2.7	181	82	8	523	26	17	13	43	1.85
10468484--10469021	36	14.9	35	73	16	331	25	17	13	43	1.86
10468886--10469021	73	1.9	73	84	0	182	25	18	14	41	1.89
10469655--10469693	3	12.7	3	84	15	53	33	0	0	66	0.92
10470140--10470176	3	12.3	3	100	0	74	32	0	0	67	0.91
10471282--10471359	29	2.7	29	87	2	102	39	8	14	37	1.77
10472370--10472439	23	3.0	23	83	6	88	32	22	22	21	1.98
10474181--10474240	30	2.0	31	86	3	86	36	25	8	30	1.85
10475461--10475522	30	2.2	27	83	13	72	48	3	1	46	1.28
10475483--10475525	19	2.3	19	84	8	52	53	2	0	44	1.13
10475655--10475730	17	4.5	17	70	20	61	47	0	1	51	1.09
10477859--10477935	2	38.5	2	100	0	154	49	0	0	50	1.00
10481009--10481086	21	3.7	21	98	0	147	32	17	10	39	1.84
10482229--10482360	30	4.4	30	86	0	167	35	12	9	42	1.75
10482267--10482314	15	3.2	15	71	11	53	31	12	6	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10482403--10482630	113	2.0	113	100	0	456	45	12	9	32	1.73
10482714--10482751	17	2.2	17	90	0	58	60	0	2	36	1.11
10485990--10486063	37	2.0	37	89	0	112	44	1	13	40	1.52
10486382--10486448	33	2.0	33	94	0	116	29	10	20	38	1.86
10486627--10486708	32	2.6	32	86	0	101	25	15	13	45	1.83
10490037--10490346	157	2.0	159	92	1	516	40	17	12	30	1.86
10493853--10493892	14	2.9	14	86	13	57	27	0	27	45	1.54
10504125--10504252	67	1.9	66	82	6	161	49	7	12	31	1.67
10504384--10504658	10	24.4	11	71	19	116	47	4	3	44	1.40
10504393--10504541	23	6.3	23	71	15	67	48	4	1	44	1.31
10504384--10504627	2	129.5	2	67	25	133	48	4	2	44	1.37
10504384--10504658	12	23.5	12	70	20	94	47	4	3	44	1.40
10504755--10504802	16	3.0	16	96	0	87	31	12	27	29	1.93
10509611--10509647	6	6.0	6	87	6	56	45	0	2	51	1.15
10511065--10511174	24	4.6	24	76	10	102	47	17	15	20	1.83
10511069--10511160	12	7.8	12	71	16	66	47	18	15	18	1.82
10511067--10511157	47	1.9	48	84	10	125	48	17	15	18	1.82
10521422--10521478	2	28.5	2	100	0	114	50	0	0	49	1.00
10522969--10523006	3	12.7	3	100	0	76	34	0	0	65	0.93
10523047--10523092	12	3.8	12	94	0	74	10	19	13	56	1.66
10523284--10523656	146	2.6	147	88	1	545	34	20	24	21	1.97
10526501--10526545	6	7.5	6	82	9	56	15	20	17	46	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10526504--10526529	13	2.0	13	100	0	52	15	15	23	46	1.83
10529818--10530079	125	2.1	125	85	2	357	32	16	27	23	1.96
10531245--10531438	36	5.4	36	81	2	201	36	22	17	23	1.95
10531810--10533339	54	29.0	54	82	6	1632	32	18	24	23	1.97
10531810--10533339	159	9.7	157	81	7	1587	32	18	24	23	1.97
10531810--10533339	213	7.2	209	81	8	1577	32	18	24	23	1.97
10533368--10533620	55	4.6	55	86	3	314	33	13	23	29	1.93
10533368--10533651	55	5.2	55	84	3	306	33	13	22	30	1.93
10533819--10533866	3	15.7	3	95	4	87	35	0	0	64	0.94
10533907--10533967	12	5.1	12	89	0	86	11	16	11	60	1.58
10533907--10533967	24	2.5	24	89	0	95	11	16	11	60	1.58
10534158--10534530	146	2.6	145	90	1	584	33	20	25	20	1.97
10537025--10537243	103	2.1	104	93	2	377	48	14	10	26	1.76
10537025--10537252	52	4.4	52	90	5	354	47	14	10	27	1.77
10540918--10540956	13	2.9	13	81	7	51	20	15	7	56	1.63
10542988--10543026	15	2.5	16	84	16	55	46	15	15	23	1.83
10545131--10545423	117	2.5	116	84	2	372	34	15	23	26	1.95
10556082--10556121	2	20.5	2	94	5	73	52	0	0	47	1.00
10560403--10560441	21	1.9	20	89	5	60	53	5	0	41	1.23
10562059--10562087	15	1.9	15	100	0	58	58	0	6	34	1.25
10563273--10563324	21	2.4	21	80	6	59	50	0	9	40	1.35
10565929--10565976	19	2.5	20	89	3	71	33	14	4	47	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10568561--10568617	23	2.4	24	94	5	98	8	28	15	47	1.75
10570960--10571003	21	2.1	21	100	0	88	27	4	13	54	1.58
10572128--10572246	35	3.3	36	88	5	161	43	19	5	31	1.72
10572178--10572238	21	3.2	21	65	29	64	42	21	4	31	1.74
10572145--10572273	35	3.6	36	84	9	133	41	19	6	31	1.78
10572978--10573022	23	2.0	23	86	0	63	26	28	24	20	1.99
10573001--10573304	149	2.0	149	98	0	590	35	20	16	26	1.94
10574784--10574828	21	2.1	21	87	0	63	15	24	28	31	1.96
10579870--10579989	35	3.3	36	88	5	172	43	18	5	33	1.72
10579921--10579981	21	3.2	21	65	29	64	42	21	4	31	1.74
10579888--10580016	35	3.6	36	85	9	142	41	18	6	32	1.77
10588030--10588088	31	1.9	31	96	0	109	42	3	8	45	1.51
10588112--10588670	22	25.5	22	85	4	709	47	9	0	41	1.43
10588657--10588694	12	3.2	12	88	3	60	50	0	2	47	1.15
10591476--10591554	29	2.6	28	82	11	95	58	7	3	30	1.44
10592020--10592075	2	28.0	2	100	0	112	50	0	0	50	1.00
10595733--10596091	183	2.0	183	89	1	549	45	7	2	44	1.45
10598515--10598549	6	5.8	6	86	0	52	60	5	34	0	1.21
10601970--10602433	232	2.0	231	96	0	847	29	18	22	29	1.98
10609889--10610246	157	2.3	155	82	3	398	45	6	17	29	1.75
10610408--10610439	14	2.3	14	94	0	55	34	15	15	34	1.90
10613913--10613956	21	2.1	21	86	0	61	29	27	27	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10613979--10614027	22	2.2	22	82	7	64	32	30	28	8	1.86
10615111--10615424	101	3.1	102	89	5	505	27	13	22	36	1.92
10615444--10615508	23	2.8	24	84	6	73	23	21	23	32	1.98
10615463--10615508	24	2.0	24	86	4	67	19	19	26	34	1.96
10617828--10617886	29	2.0	31	90	6	95	20	13	23	42	1.88
10618000--10618071	31	2.2	33	85	7	94	31	9	12	45	1.74
10618220--10618365	75	2.0	74	92	5	244	35	1	18	44	1.59
10619159--10619328	86	2.0	84	97	2	322	31	17	14	37	1.89
10621283--10621399	58	2.0	58	100	0	234	35	22	13	29	1.92
10621662--10622338	135	5.0	135	80	8	688	34	19	16	29	1.94
10621907--10621962	27	2.1	27	86	0	76	32	17	16	33	1.92
10622046--10622097	27	1.9	27	84	0	68	34	17	15	32	1.91
10621662--10622268	274	2.2	274	88	2	904	34	18	16	30	1.94
10622181--10622236	27	2.1	27	89	0	85	32	21	14	32	1.93
10623783--10623920	70	2.0	68	97	2	258	29	20	13	36	1.90
10627611--10627721	47	2.5	46	83	5	129	30	20	9	38	1.85
10629816--10629851	19	1.9	18	88	5	54	55	0	2	41	1.14
10634208--10634346	71	2.0	70	98	1	269	33	11	7	47	1.69
10636742--10636772	2	15.5	2	100	0	62	48	0	0	51	1.00
10640462--10640496	16	2.1	17	89	5	54	37	2	0	60	1.12
10641862--10641962	28	3.5	28	73	9	87	47	7	4	39	1.54
10641862--10641965	29	3.7	27	74	6	73	47	7	4	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10643442--10643505	30	2.1	30	82	5	76	32	7	18	40	1.80
10645701--10645747	14	3.4	14	77	11	51	19	8	0	72	1.10
10649580--10649617	19	2.1	19	90	9	62	15	7	5	71	1.28
10652480--10652560	13	6.3	13	77	18	57	16	44	23	16	1.86
10652457--10652539	18	4.6	18	96	0	157	16	49	22	10	1.77
10652503--10652567	8	8.5	8	75	21	68	15	40	24	20	1.91
10652455--10652508	5	9.6	5	78	21	54	16	53	22	7	1.67
10652537--10652568	7	4.4	7	92	7	55	12	34	28	25	1.92
10652521--10652567	15	3.3	15	91	5	71	14	38	25	21	1.92
10655016--10655130	24	4.8	24	88	6	162	22	17	19	40	1.91

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