genome.fa.s190.2.7.7.80.10.50.1000.46.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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  46  of  62  ( 7381 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)
10678482--10678555	36	2.0	37	86	2	105	60	6	2	29	1.36
10679174--10679203	15	2.0	15	100	0	60	60	13	6	20	1.55
10680669--10680774	42	2.5	42	92	3	169	29	11	34	24	1.90
10680791--10680842	15	3.6	14	85	10	68	17	61	7	13	1.54
10682441--10682492	26	2.0	26	92	0	86	25	19	15	40	1.90
10682675--10682728	11	4.9	11	81	0	63	59	22	7	11	1.56
10682675--10682752	22	3.5	22	77	3	66	52	21	10	15	1.72
10682711--10682779	23	3.0	23	78	2	66	43	17	14	24	1.86
10682742--10682840	24	4.2	24	76	3	94	39	15	19	26	1.91
10683129--10683223	29	3.2	29	68	20	79	31	21	5	42	1.75
10683110--10683260	60	2.5	60	82	6	173	31	19	7	41	1.79
10683130--10683277	60	2.5	61	81	6	160	31	21	6	40	1.79
10688028--10688076	20	2.5	20	82	0	62	28	34	12	24	1.91
10688068--10688115	20	2.4	21	80	16	57	35	22	18	22	1.96
10688086--10688152	32	2.1	32	91	5	109	46	26	13	13	1.80
10688117--10688167	20	2.6	20	93	3	86	47	27	11	13	1.78
10688135--10688227	19	4.7	20	81	6	91	40	22	10	25	1.86
10689161--10689214	24	2.2	24	93	0	90	20	18	20	40	1.91
10690158--10690221	23	2.8	22	85	4	83	26	26	26	20	1.99
10690237--10690557	103	3.1	103	97	0	615	37	24	13	25	1.91
10691234--10691278	21	2.1	21	87	0	63	31	28	24	15	1.96
10691856--10691890	18	1.9	18	88	11	54	54	5	17	22	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10691947--10691990	22	2.0	22	86	4	63	45	0	22	31	1.53
10692701--10693004	149	2.0	149	96	0	563	27	17	20	34	1.95
10692983--10693026	22	2.0	22	86	0	61	20	25	27	27	1.99
10694217--10694259	21	2.0	21	86	0	59	16	25	27	30	1.97
10696892--10696925	12	2.8	12	100	0	68	52	23	5	17	1.66
10696890--10696931	12	3.5	12	90	0	57	54	21	7	16	1.65
10697224--10697273	20	2.5	20	93	0	82	42	20	20	18	1.90
10697330--10697409	20	4.3	19	69	18	62	18	22	21	37	1.94
10697375--10697440	23	3.0	21	85	12	89	18	22	18	40	1.91
10697500--10697549	25	2.0	25	92	0	82	26	6	22	46	1.74
10698259--10698374	20	5.8	20	78	11	139	19	16	23	40	1.91
10698343--10698405	32	2.0	32	96	0	117	23	15	22	38	1.93
10698259--10698404	20	7.7	20	74	18	134	20	16	23	39	1.92
10705520--10705702	90	2.0	90	100	0	366	20	20	21	37	1.94
10706102--10706187	36	2.7	29	73	21	82	44	9	16	30	1.79
10706193--10706229	14	2.6	14	91	0	56	32	8	21	37	1.83
10706344--10706442	49	2.0	50	80	9	114	47	2	0	50	1.12
10706421--10706489	32	2.3	30	82	12	79	43	0	5	50	1.26
10706530--10706581	23	2.3	23	86	0	68	46	1	0	51	1.12
10706569--10706621	20	2.7	20	75	16	56	49	1	0	49	1.12
10706577--10706654	28	2.7	29	76	13	81	51	1	0	47	1.09
10706651--10706740	5	18.4	5	72	14	55	54	1	1	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10706668--10706736	29	2.3	29	80	11	79	55	0	1	43	1.08
10706645--10706739	39	2.4	39	73	16	90	55	1	1	42	1.13
10711538--10711570	16	2.1	16	88	11	50	30	3	0	66	1.06
10713821--10713874	27	2.0	27	85	7	74	59	5	0	35	1.21
10718332--10718444	41	2.7	42	80	6	122	24	21	22	31	1.98
10718690--10718743	21	2.6	21	84	0	72	51	22	3	22	1.63
10720035--10720094	22	2.8	22	82	7	70	48	21	5	25	1.70
10723116--10723198	43	1.9	43	87	0	121	33	24	16	25	1.96
10723118--10723544	41	10.4	41	84	2	437	31	20	19	29	1.97
10724937--10724984	15	3.2	14	85	11	60	77	2	0	20	0.88
10726703--10726746	3	14.3	3	81	13	54	36	0	0	63	0.95
10726707--10726746	16	2.6	16	88	4	55	37	0	0	62	0.95
10726703--10726746	13	3.3	13	78	15	54	36	0	0	63	0.95
10729672--10729772	49	2.1	49	98	0	193	32	11	4	50	1.60
10731322--10731361	16	2.5	16	88	8	55	37	7	17	37	1.78
10731459--10731549	23	4.0	23	77	5	94	19	19	23	37	1.94
10731461--10731558	46	2.1	47	81	12	123	19	21	23	35	1.96
10732034--10732084	23	2.2	22	80	10	57	29	1	11	56	1.46
10732166--10732201	16	2.4	15	90	9	56	38	8	13	38	1.75
10732589--10732628	17	2.4	17	100	0	80	27	20	17	35	1.95
10733848--10733909	28	2.2	28	97	0	115	61	6	29	3	1.37
10739304--10739367	21	2.9	22	88	6	78	29	26	25	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10739313--10739367	21	2.6	21	94	0	92	29	29	25	16	1.97
10739381--10739442	18	3.4	18	95	0	106	27	37	16	19	1.93
10740216--10740269	20	2.4	24	85	11	71	27	24	18	29	1.98
10743771--10743840	18	3.9	18	94	0	122	28	34	20	17	1.95
10743904--10743955	25	2.0	26	82	14	63	28	23	1	46	1.63
10744592--10744647	20	2.5	23	86	11	73	25	21	21	32	1.98
10744635--10744771	64	2.2	63	80	6	143	24	22	18	33	1.97
10745256--10745293	5	7.6	5	88	11	60	63	0	36	0	0.95
10746904--10746973	34	2.1	32	86	5	95	22	31	12	32	1.92
10752391--10752444	2	27.0	2	100	0	108	50	0	0	50	1.00
10756175--10756230	24	2.3	25	81	9	71	37	23	21	17	1.94
10756237--10756281	24	1.9	23	86	13	65	31	26	17	24	1.97
10757139--10757172	15	2.3	15	89	0	50	20	26	14	38	1.91
10762631--10762805	96	1.8	96	83	0	233	41	15	13	30	1.85
10769951--10769985	7	4.9	7	86	6	52	82	0	14	2	0.77
10769950--10770020	30	2.4	30	81	11	83	74	0	22	2	0.94
10770958--10771342	161	2.4	161	86	4	537	30	20	21	27	1.98
10770958--10771391	161	2.7	161	84	4	457	31	19	21	27	1.97
10771573--10771617	3	15.0	3	81	9	56	40	0	0	60	0.97
10774263--10774355	25	3.5	25	70	18	80	26	16	1	55	1.47
10774231--10774391	55	2.9	55	94	0	277	26	16	1	55	1.49
10774326--10774425	46	2.4	40	75	22	105	26	20	0	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10774337--10774451	46	2.5	44	90	4	185	25	23	0	51	1.49
10775144--10775174	15	2.1	15	100	0	62	48	6	0	45	1.28
10776078--10776329	124	2.0	127	97	2	483	37	17	10	34	1.85
10777700--10777817	60	2.0	61	86	5	168	31	21	4	43	1.72
10777950--10778140	60	3.2	60	81	3	188	39	4	21	34	1.74
10778022--10778121	29	3.4	29	71	8	85	45	2	17	36	1.60
10778931--10778976	20	2.2	21	88	3	67	73	0	0	26	0.83
10779087--10779132	18	2.5	19	79	10	51	67	0	2	30	1.03
10781821--10781902	29	2.8	29	94	1	137	32	14	9	42	1.79
10786440--10786506	26	2.4	27	87	9	100	31	14	11	41	1.83
10788549--10788615	35	1.9	35	84	0	89	17	17	7	56	1.63
10793578--10793614	17	2.0	20	85	15	53	18	5	13	62	1.50
10793773--10793803	16	1.9	16	93	0	53	16	3	6	74	1.16
10794964--10795043	21	3.5	20	67	30	52	36	2	20	41	1.66
10794958--10795063	50	2.1	50	98	0	203	39	4	19	35	1.73
10796657--10796752	3	32.3	3	97	2	185	65	0	34	0	0.93
10806923--10806982	18	3.2	19	73	7	59	78	3	13	5	1.04
10806921--10806988	19	3.7	19	69	13	52	77	2	14	4	1.04
10808968--10809912	263	3.7	255	83	7	1041	34	14	16	33	1.90
10822532--10822586	20	2.7	20	84	13	76	38	16	21	23	1.93
10823028--10823225	59	3.4	59	91	2	294	32	12	21	33	1.91
10823697--10823829	34	3.6	34	70	20	104	37	9	21	30	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10823646--10824177	79	6.8	79	94	1	885	37	10	23	28	1.88
10825542--10825610	23	3.0	23	80	0	66	30	24	23	21	1.99
10825626--10825843	103	2.1	103	99	0	427	37	25	12	24	1.91
10826307--10826466	64	2.5	62	82	6	176	26	21	18	33	1.96
10832576--10832649	23	3.2	22	78	3	67	32	24	21	21	1.98
10832660--10832877	103	2.1	103	99	0	427	36	25	13	24	1.92
10833322--10833462	64	2.1	68	82	8	184	26	17	17	37	1.93
10833338--10833498	64	2.5	62	80	8	153	27	19	17	35	1.94
10836742--10836972	113	2.0	113	99	0	453	31	15	13	39	1.86
10836942--10837018	39	1.9	39	84	7	102	35	14	10	40	1.80

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