genome.fa.s8242.2.7.7.80.10.50.1000.32.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   66   67   68   69   70   71   72   73   

This is table  32  of  73  ( 8740 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)
7770055--7770088	2	17.0	2	100	0	68	50	0	0	50	1.00
7770034--7770177	14	10.1	14	71	21	79	52	0	9	37	1.34
7770128--7770281	36	4.3	36	75	13	165	53	2	7	36	1.44
7770138--7770210	30	2.5	31	85	12	93	54	2	8	34	1.44
7770128--7770258	14	8.4	16	68	24	52	54	3	6	35	1.42
7770183--7770262	42	1.9	42	85	10	110	55	3	5	36	1.40
7775435--7775564	44	3.0	44	94	0	224	24	27	22	25	2.00
7775694--7775762	32	2.2	32	86	5	95	40	20	8	30	1.82
7782333--7782362	15	2.0	15	93	0	51	56	0	0	43	0.99
7782437--7782500	21	3.1	21	77	4	60	59	0	1	39	1.07
7782652--7782691	3	13.7	3	89	5	64	65	0	2	32	1.06
7782656--7782690	17	2.1	17	94	0	61	62	0	2	34	1.10
7782653--7782691	20	2.0	20	94	0	69	64	0	2	33	1.08
7784041--7784108	3	22.0	3	82	5	82	61	1	0	36	1.05
7784262--7784755	76	6.6	76	95	2	856	34	21	19	23	1.96
7784720--7784804	44	1.9	45	97	2	163	41	18	17	22	1.91
7784647--7784875	118	1.9	119	92	4	392	37	20	19	22	1.95
7784760--7784899	75	1.9	75	95	0	253	35	20	21	22	1.96
7785746--7785844	22	4.5	22	96	0	180	41	13	12	33	1.81
7789729--7789789	30	2.0	30	100	0	122	26	6	19	47	1.74
7790695--7790770	9	8.3	9	81	8	82	0	19	0	80	0.72
7790691--7790774	4	20.5	4	78	16	75	0	20	0	79	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7790681--7790774	26	3.7	26	92	5	156	0	21	0	78	0.75
7790681--7790774	13	7.3	13	82	14	124	0	21	0	78	0.75
7795949--7795980	15	2.1	16	94	5	57	59	0	0	40	0.97
7796277--7796301	3	8.3	3	100	0	50	68	0	0	32	0.90
7797667--7797734	3	22.0	3	82	5	82	61	1	0	36	1.05
7800900--7800973	35	2.1	35	94	0	130	10	29	27	32	1.90
7801726--7801770	20	2.5	17	80	19	63	48	0	33	17	1.48
7801732--7801771	20	2.0	20	100	0	80	45	0	35	20	1.51
7802745--7802784	21	1.9	21	84	0	53	27	10	22	40	1.86
7802754--7802815	23	2.8	24	78	9	69	29	6	24	40	1.80
7802774--7802827	23	2.3	23	83	3	63	29	9	22	38	1.85
7810641--7810685	22	2.1	22	91	4	74	28	22	8	40	1.84
7811423--7811463	21	1.9	22	95	5	75	34	17	19	29	1.94
7826068--7826136	17	4.3	15	70	24	52	60	0	1	37	1.06
7826060--7826122	32	2.0	32	87	6	92	60	0	1	38	1.07
7826077--7826183	24	4.2	24	73	18	83	57	0	0	41	1.12
7826107--7826187	29	2.5	31	76	15	85	54	1	0	44	1.08
7826109--7826183	8	10.0	7	72	22	55	56	1	0	42	1.08
7832472--7832504	17	1.9	17	88	11	50	36	15	12	36	1.84
7841227--7841281	27	2.0	27	96	0	101	29	14	21	34	1.93
7844569--7844703	18	7.5	18	93	0	225	17	23	32	25	1.97
7856621--7856704	2	42.0	2	100	0	168	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7858082--7858126	20	2.2	20	96	0	81	66	22	2	8	1.30
7860822--7860915	38	2.4	39	78	8	102	39	13	13	32	1.85
7866018--7866214	40	4.9	40	69	14	145	27	24	13	35	1.92
7865989--7866214	80	2.8	80	88	0	344	26	23	14	35	1.93
7866254--7866355	34	2.9	36	91	5	172	44	13	14	27	1.83
7866867--7866935	24	3.0	23	75	8	68	24	5	2	66	1.27
7866945--7866979	16	2.1	18	89	10	56	25	8	0	65	1.21
7869082--7869121	18	2.2	18	100	0	80	20	32	12	35	1.90
7869642--7869680	8	5.0	8	84	6	53	10	17	12	58	1.61
7870836--7870881	16	3.1	16	82	17	55	80	8	10	0	0.91
7871565--7871608	22	2.0	22	91	8	72	38	22	11	27	1.88
7872043--7872078	18	2.0	18	94	0	63	16	8	33	41	1.78
7872560--7872629	36	1.9	36	91	0	113	24	22	12	40	1.89
7872645--7872802	36	4.3	36	91	2	253	25	20	12	41	1.87
7872821--7872930	37	3.1	36	81	3	141	24	20	13	41	1.88
7872725--7872908	102	1.8	101	85	1	260	29	17	12	40	1.86
7872560--7872942	174	2.2	174	82	5	466	28	19	12	39	1.88
7873615--7874171	105	5.3	105	88	4	723	33	25	18	22	1.96
7874718--7874819	34	2.9	36	91	5	172	44	13	14	27	1.83
7875268--7875298	2	15.5	2	93	0	53	45	0	0	54	0.99
7877184--7877512	28	11.6	28	90	2	514	48	15	4	30	1.65
7877184--7877512	57	5.8	57	90	2	520	48	15	4	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7877200--7877511	85	3.7	85	95	1	527	49	15	4	31	1.64
7880056--7880170	38	3.0	37	81	7	133	40	18	13	28	1.88
7882072--7882122	18	2.8	18	90	3	75	29	0	3	66	1.09
7883012--7883413	194	2.1	192	82	3	495	37	11	11	39	1.78
7883062--7883495	194	2.2	194	81	2	480	37	12	11	38	1.80
7891721--7891758	14	2.7	14	83	0	58	63	18	7	10	1.50
7915201--7915236	17	2.1	17	100	0	72	47	25	11	16	1.79
7920941--7920975	2	18.0	2	94	5	63	51	0	0	48	1.00
7921499--7921551	27	2.0	27	100	0	106	37	24	15	22	1.92
7923582--7923654	18	4.2	18	74	8	71	35	13	9	41	1.77
7924059--7924111	24	2.2	24	86	0	70	37	16	15	30	1.90
7926100--7926158	21	3.0	21	73	14	63	57	3	25	13	1.52
7926775--7926844	22	3.3	21	74	16	63	50	2	2	44	1.31
7928336--7928392	28	2.0	28	100	0	114	35	14	10	40	1.80
7928386--7928436	24	2.1	25	96	3	95	25	11	11	50	1.72
7932765--7932796	2	15.5	2	93	6	55	50	3	0	46	1.17
7933548--7933711	90	1.8	89	90	1	265	37	9	6	45	1.64
7935411--7935444	3	12.0	3	87	12	54	32	0	0	67	0.91
7935411--7935444	14	2.4	14	95	0	59	32	0	0	67	0.91
7935411--7935444	17	2.0	17	94	0	59	32	0	0	67	0.91
7937474--7937808	165	2.0	169	97	2	633	29	16	14	39	1.88
7938202--7938235	17	2.0	17	88	0	50	17	35	23	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7938670--7938782	56	2.0	56	100	0	226	26	24	23	25	2.00
7952453--7952519	22	2.8	23	84	13	82	34	10	29	25	1.89
7953691--7953791	36	2.8	36	87	3	141	42	18	20	17	1.89
7953981--7954022	11	3.8	11	78	9	50	42	0	0	57	0.99
7956486--7956541	25	2.2	25	93	0	94	35	12	21	30	1.90
7960406--7960441	16	2.2	17	90	5	56	41	19	2	36	1.66
7962696--7962741	20	2.4	20	89	7	69	26	28	15	30	1.96
7963221--7963270	26	1.9	26	87	0	73	42	24	14	20	1.88
7976467--7976502	17	2.2	17	95	5	65	55	13	5	25	1.60
7978214--7978282	18	3.9	18	76	3	68	20	43	17	18	1.88
7980393--7980446	27	2.0	27	100	0	108	40	3	22	33	1.71
7980834--7980906	24	3.0	24	85	0	101	20	12	16	50	1.77
7980833--7980901	12	5.8	12	74	6	59	17	14	17	50	1.78
7982512--7982558	16	2.7	18	80	12	62	57	14	2	25	1.49
7983746--7983779	17	2.1	17	94	5	61	35	0	20	44	1.52
7993795--7993826	2	16.0	2	100	0	64	50	0	0	50	1.00
7993977--7994021	13	3.5	13	84	6	56	33	20	22	24	1.97
8008313--8008343	12	2.6	12	100	0	62	22	35	0	41	1.54
8008924--8009284	179	2.0	182	98	1	701	41	21	12	24	1.87
8010677--8010897	110	2.0	110	99	0	433	35	17	18	28	1.93
8012374--8012424	14	3.7	14	81	2	59	41	23	19	15	1.90
8027610--8027799	45	4.2	46	87	3	287	21	22	8	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8027614--8027786	91	1.9	91	95	0	310	20	23	8	47	1.77
8027820--8028358	67	8.0	67	89	2	832	28	26	15	30	1.96
8027820--8028358	135	4.0	135	91	1	870	28	26	15	30	1.96
8032297--8032340	21	2.0	22	82	4	54	34	20	11	34	1.88
8048295--8048420	62	2.0	62	100	0	252	31	12	11	43	1.79
8053091--8053145	20	2.5	20	82	11	56	30	10	3	54	1.52
8055994--8056041	20	2.4	20	96	0	87	31	29	10	29	1.90
8057416--8057466	23	2.3	22	83	6	66	62	15	13	7	1.52
8061712--8061761	21	2.4	20	81	15	57	14	0	24	62	1.32
8063072--8063096	2	12.5	2	100	0	50	48	0	0	52	1.00

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   66   67   68   69   70   71   72   73