genome.fa.s7984.2.7.7.80.10.50.1000.54.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  54  of  65  ( 7696 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)
10593106--10593196	15	6.5	14	73	26	86	47	0	1	51	1.07
10593104--10593187	6	14.7	6	71	19	56	46	0	1	52	1.08
10593075--10593197	50	2.4	54	79	6	130	48	2	0	47	1.20
10593106--10593196	29	3.2	29	85	11	111	47	0	1	51	1.07
10593807--10593845	20	1.9	21	84	5	53	53	7	5	33	1.51
10593895--10593961	25	2.7	25	86	4	73	49	14	7	28	1.71
10603536--10603575	11	3.5	11	83	6	53	40	7	5	47	1.54
10603823--10603918	23	4.1	23	95	1	165	48	7	0	43	1.30
10605067--10605239	64	2.7	63	81	13	192	31	18	21	28	1.97
10605595--10605631	18	2.1	18	89	0	56	56	8	8	27	1.56
10611667--10611721	2	27.5	2	100	0	110	50	0	0	49	1.00
10612003--10612251	30	8.3	30	93	0	410	30	23	21	23	1.99
10612237--10612301	31	2.1	31	88	0	94	36	23	18	21	1.95
10612744--10612945	64	3.2	64	85	5	223	27	18	19	34	1.95
10616649--10616682	2	17.0	2	93	0	59	50	2	0	47	1.16
10616955--10617143	30	6.3	30	93	0	317	29	24	22	23	1.99
10616955--10617168	90	2.4	90	88	1	295	30	24	21	22	1.99
10617945--10618051	45	2.4	45	85	3	135	26	17	21	34	1.96
10617991--10618128	64	2.2	64	85	5	181	28	19	18	33	1.96
10619864--10619987	64	1.9	65	85	4	171	32	16	20	30	1.95
10620623--10620677	11	4.7	12	86	9	62	45	7	0	47	1.30
10620633--10620683	11	4.6	11	92	0	84	45	5	0	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10623191--10623220	14	2.1	14	100	0	60	23	23	6	46	1.75
10627229--10627269	21	2.0	21	90	0	64	19	24	19	36	1.95
10627579--10627607	6	5.0	6	95	4	51	17	17	31	34	1.93
10642224--10642274	20	2.6	20	84	9	61	25	25	17	31	1.97
10650498--10650555	28	2.1	28	83	6	73	27	5	1	65	1.23
10652603--10652649	3	16.0	3	86	4	69	29	2	2	65	1.15
10653952--10654019	35	2.0	34	83	13	86	22	8	14	54	1.67
10659231--10659266	2	18.0	2	100	0	72	50	0	0	50	1.00
10661424--10661467	21	2.1	21	91	0	70	36	4	2	56	1.32
10661767--10661825	29	2.0	30	93	3	102	40	5	11	42	1.64
10663643--10663695	2	26.5	2	100	0	106	49	0	0	50	1.00
10663705--10663751	19	2.6	18	80	12	51	72	2	4	21	1.12
10675434--10675478	19	2.6	17	86	13	58	42	35	2	20	1.64
10675444--10675483	19	2.1	19	100	0	80	35	37	5	22	1.76
10676084--10676420	114	3.0	113	90	1	514	30	19	14	35	1.92
10680638--10680676	14	2.8	14	85	11	53	58	7	17	15	1.59
10683589--10683621	15	2.3	15	89	5	50	57	0	0	42	0.98
10683679--10683738	15	4.1	14	78	19	61	68	0	5	26	1.10
10685133--10685217	3	28.0	3	79	9	75	56	0	0	43	0.99
10685133--10685194	17	3.5	19	79	16	80	56	0	0	43	0.99
10694538--10694567	15	2.0	15	100	0	60	13	46	26	13	1.80
10696681--10696813	60	2.2	60	82	5	162	35	9	16	39	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10696714--10696855	60	2.4	60	80	9	164	38	12	16	33	1.86
10704328--10704394	30	2.2	31	86	5	93	49	7	4	38	1.51
10704456--10704501	23	2.0	22	87	4	65	52	10	2	34	1.49
10710169--10710222	27	2.0	27	92	0	90	24	20	16	38	1.92
10714467--10714508	21	2.0	21	86	9	59	45	21	4	28	1.72
10720643--10720725	21	3.8	22	78	7	80	21	34	24	19	1.96
10720641--10720703	21	2.9	21	83	4	81	20	33	25	20	1.97
10726527--10726600	21	3.5	21	83	7	96	39	21	10	28	1.87
10726540--10726613	21	3.5	20	81	5	67	40	24	12	22	1.88
10726532--10726615	42	2.0	42	86	4	116	39	22	13	25	1.90
10729981--10730014	16	2.1	17	88	5	52	35	0	0	64	0.94
10730730--10730778	24	2.1	22	92	7	80	53	20	0	26	1.46
10735872--10735914	10	4.3	10	85	8	61	86	0	4	9	0.71
10735879--10735920	11	3.8	11	90	9	68	83	0	4	11	0.79
10735872--10735920	21	2.3	20	93	6	80	83	0	4	12	0.77
10737156--10737185	2	15.0	2	92	0	51	46	0	3	50	1.18
10737610--10737647	20	2.0	19	90	10	60	47	10	23	18	1.79
10739092--10739457	131	2.8	130	80	3	441	32	13	14	40	1.84
10741929--10741988	3	19.7	3	80	10	68	40	0	0	60	0.97
10741929--10741987	22	2.9	22	83	14	65	40	0	0	59	0.97
10741954--10741998	22	2.0	22	82	0	54	44	0	0	55	0.99
10743556--10743773	118	1.9	118	81	4	271	37	9	8	45	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10743743--10743798	29	2.0	29	85	3	78	48	1	0	50	1.11
10746662--10746706	7	6.3	7	87	5	63	13	13	11	62	1.55
10753587--10753641	22	2.5	22	90	0	92	32	10	14	41	1.81
10754099--10754425	165	2.0	165	93	1	557	35	13	13	37	1.84
10754467--10754744	37	7.6	36	74	3	216	30	17	13	38	1.88
10754469--10754744	73	3.8	73	95	0	482	29	17	13	39	1.88
10754914--10755475	76	7.4	76	91	0	908	23	20	21	34	1.96
10755630--10755689	3	19.7	3	80	10	68	38	0	1	60	1.07
10755655--10755699	22	2.0	22	82	0	54	42	0	2	55	1.12
10757263--10757497	126	1.9	126	82	4	296	37	8	7	46	1.62
10757462--10757518	29	2.0	29	86	6	80	47	1	0	50	1.11
10759170--10759204	18	1.9	18	100	0	70	5	45	5	42	1.51
10759495--10759555	22	2.5	24	74	17	63	29	9	26	34	1.88
10759508--10759561	22	2.5	22	87	3	74	31	11	25	31	1.91
10764001--10764051	22	2.4	21	84	15	61	37	11	19	31	1.88
10764988--10765036	20	2.5	20	96	0	89	36	10	28	24	1.88
10767138--10767324	94	2.0	93	81	8	220	37	8	16	38	1.78
10767123--10767612	169	3.0	168	91	3	746	37	7	15	39	1.77
10767540--10767670	26	4.9	26	68	13	86	37	9	15	37	1.81
10767523--10767695	81	2.2	80	91	3	276	38	8	15	37	1.78
10767606--10767832	94	2.4	94	91	2	359	35	7	14	41	1.76
10768179--10768553	183	2.0	183	93	0	633	42	3	9	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10770825--10770876	2	26.0	2	84	0	68	42	0	7	50	1.31
10770825--10770876	12	4.3	12	92	0	86	42	0	7	50	1.31
10770825--10770879	18	3.1	18	89	0	83	41	0	9	49	1.34
10772942--10772980	19	2.1	19	85	0	51	53	10	5	30	1.56
10775800--10775828	2	14.5	2	100	0	58	51	0	0	48	1.00
10777123--10777275	43	3.5	43	97	0	288	40	0	7	51	1.34
10777714--10777793	43	2.0	43	84	15	111	43	1	1	53	1.16
10790258--10790286	2	15.0	2	92	7	51	0	48	0	51	1.00
10790261--10790286	13	2.0	13	100	0	52	0	46	0	53	1.00
10791580--10791667	19	4.6	19	94	0	149	45	0	2	52	1.13
10799406--10799534	52	2.5	52	90	0	204	32	15	26	25	1.95
10809411--10809440	13	2.3	13	94	0	51	60	0	36	3	1.14
10820736--10820788	26	2.0	26	100	0	106	49	18	20	11	1.78
10824327--10824365	20	2.0	20	94	0	69	71	17	2	7	1.21
10827644--10827751	47	2.3	47	75	1	119	25	41	12	20	1.87
10828504--10828562	20	3.0	20	97	0	109	8	3	16	71	1.25
10830866--10830893	12	2.3	12	100	0	56	92	0	7	0	0.37
10835445--10835524	39	2.1	39	85	0	106	26	16	12	45	1.83
10840156--10840197	18	2.3	18	87	0	57	45	0	2	52	1.13
10842824--10842929	45	2.4	45	88	0	158	35	13	12	38	1.82
10844174--10844234	31	2.0	31	83	0	77	27	26	6	39	1.81
10844491--10844518	14	2.0	14	100	0	56	57	0	14	28	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10845028--10845107	9	8.6	9	75	20	67	82	2	13	1	0.83
10845033--10845107	7	10.3	7	75	16	64	82	2	13	1	0.84
10845028--10845123	22	4.8	20	78	13	99	80	2	16	1	0.87
10845033--10845100	31	2.2	31	87	10	95	83	1	13	1	0.78
10845034--10845125	6	14.2	6	76	18	62	79	2	17	1	0.89
10845032--10845099	8	8.9	8	78	15	72	83	1	13	1	0.78
10846611--10846834	45	5.0	45	85	4	285	22	15	21	40	1.91
10846611--10846834	89	2.5	90	84	7	289	22	15	21	40	1.91
10847689--10848225	131	4.1	131	74	7	451	34	21	14	29	1.93
10847687--10848192	264	1.9	263	82	3	624	35	21	15	28	1.93

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