genome.fa.s8027.2.7.7.80.10.50.1000.17.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  17  of  38  ( 4505 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)
3645310--3645386	14	5.9	14	78	9	58	49	7	0	42	1.31
3645308--3645687	11	31.3	11	67	24	121	45	8	1	44	1.42
3645380--3645425	9	5.2	9	81	5	58	36	10	0	52	1.37
3645369--3645439	23	3.0	23	86	11	106	39	9	0	50	1.36
3645308--3645491	25	7.3	26	80	7	173	45	7	1	46	1.39
3645488--3645542	16	3.2	16	79	18	58	49	14	0	36	1.44
3645477--3645526	19	2.6	19	96	0	91	48	18	0	34	1.48
3645539--3645631	26	3.6	26	88	5	134	44	7	2	46	1.44
3645421--3645680	124	2.2	118	89	6	389	46	8	1	43	1.44
3645861--3645895	17	2.0	18	94	5	63	37	5	0	57	1.23
3645860--3645906	20	2.3	20	78	7	51	38	6	0	55	1.26
3645900--3646080	49	3.7	49	96	0	335	45	10	0	43	1.42
3650071--3650131	20	2.9	20	80	7	50	16	24	34	24	1.95
3658541--3658600	26	2.3	24	76	15	57	41	1	6	50	1.39
3659360--3659422	28	2.2	30	91	5	103	55	12	1	30	1.47
3659364--3659429	28	2.4	28	85	10	98	54	12	1	31	1.46
3659399--3659447	21	2.3	21	82	3	62	51	16	2	30	1.56
3659975--3660056	40	2.0	41	97	2	157	29	20	35	14	1.93
3671979--3672004	13	2.0	13	100	0	52	30	0	15	53	1.42
3672582--3672652	3	23.7	3	100	0	142	67	0	0	32	0.91
3673405--3673469	29	2.2	29	86	0	85	52	7	16	23	1.70
3675870--3676757	225	3.9	226	83	7	1067	21	21	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3677328--3677365	2	19.0	2	100	0	76	50	0	0	50	1.00
3677557--3677583	2	13.5	2	100	0	54	48	0	0	51	1.00
3682506--3682540	2	17.5	2	100	0	70	48	0	0	51	1.00
3686534--3686566	2	16.5	2	87	12	50	48	0	3	48	1.17
3686802--3686840	13	3.0	13	80	0	51	33	17	20	28	1.96
3688541--3688573	17	1.9	17	93	0	57	39	15	9	36	1.79
3688628--3688738	52	2.2	51	96	1	204	36	11	16	35	1.85
3690700--3690787	44	2.0	44	84	0	113	38	2	7	51	1.44
3693151--3693279	64	2.0	64	86	1	179	27	17	11	43	1.83
3693680--3693720	3	13.7	3	85	10	57	34	0	2	63	1.08
3693680--3693729	12	4.2	12	82	14	50	34	2	2	62	1.18
3706634--3706696	27	2.4	27	82	15	78	77	1	14	6	1.03
3707837--3708196	96	4.0	92	88	6	504	28	22	18	30	1.97
3707839--3708196	185	1.9	183	92	2	592	28	22	18	31	1.97
3707839--3708222	48	8.3	47	79	8	346	27	22	18	32	1.97
3708458--3708495	3	12.7	3	83	10	51	34	0	2	63	1.09
3714399--3714444	20	2.3	20	84	0	56	13	32	54	0	1.39
3722158--3722213	29	2.0	27	82	6	67	60	7	14	17	1.55
3723276--3723310	2	17.5	2	100	0	70	48	0	0	51	1.00
3728183--3728291	36	3.0	36	78	9	121	31	22	11	33	1.91
3728517--3728708	103	1.9	101	81	4	233	31	14	12	41	1.82
3728613--3728808	66	3.0	65	83	5	259	27	15	14	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3728813--3728986	95	1.8	95	92	2	296	26	32	17	24	1.97
3728868--3729306	138	3.2	134	81	6	506	28	29	15	26	1.96
3729502--3729545	20	2.2	20	84	8	54	31	0	2	65	1.05
3737862--3737899	20	1.9	20	94	0	67	26	23	34	15	1.95
3737919--3737972	19	2.8	19	91	2	81	22	18	35	24	1.96
3740739--3740827	20	4.8	19	79	13	105	25	21	29	23	1.99
3740758--3740806	15	2.9	16	72	21	55	24	24	30	20	1.98
3740738--3740806	35	2.0	35	94	2	122	26	23	28	21	1.99
3740953--3740985	16	2.1	16	94	0	57	45	21	6	27	1.75
3746533--3746646	60	1.9	60	85	3	158	46	7	6	39	1.58
3749420--3749462	20	2.3	19	92	8	70	41	16	18	23	1.89
3749493--3749543	20	2.5	20	87	0	75	33	19	21	25	1.97
3750389--3750555	60	2.8	59	81	5	178	40	4	19	35	1.72
3750826--3751056	20	11.5	20	85	1	221	35	25	17	21	1.95
3751739--3751785	24	2.0	24	87	8	69	25	14	21	38	1.92
3754267--3754476	33	6.2	34	80	14	215	45	18	21	13	1.84
3754281--3754482	19	11.7	19	73	21	194	45	18	21	14	1.85
3754309--3754482	52	3.3	52	96	1	314	44	17	22	14	1.85
3754491--3754588	19	5.4	19	84	13	143	14	22	17	45	1.84
3754472--3754588	53	2.2	53	96	1	218	13	24	17	43	1.86
3754695--3754731	14	2.6	14	91	0	65	45	21	0	32	1.52
3756711--3756766	14	3.7	14	80	17	67	44	25	21	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3756692--3756783	32	2.8	33	95	3	168	46	22	20	9	1.80
3756655--3756788	19	7.6	19	78	15	128	45	24	19	10	1.81
3756784--3756912	19	7.3	19	75	17	125	8	17	28	45	1.77
3756784--3756875	33	2.8	33	93	3	150	7	18	28	45	1.76
3756960--3757428	93	5.1	93	99	0	913	46	18	12	22	1.83
3759133--3759222	14	5.7	14	72	23	72	44	22	24	8	1.81
3759125--3759238	33	3.5	33	98	1	221	46	20	23	9	1.80
3759147--3759243	14	5.7	19	70	23	90	44	21	23	10	1.83
3759239--3759297	19	3.4	18	73	22	54	8	18	25	47	1.77
3759255--3759311	14	3.7	14	77	20	60	8	22	22	45	1.80
3759239--3759319	33	2.5	33	93	0	135	8	20	22	48	1.77
3759295--3759372	41	1.9	41	97	0	147	12	25	16	44	1.83
3759296--3759371	21	3.7	21	83	3	109	11	25	17	46	1.82
3759451--3759521	33	2.2	33	92	0	115	47	18	22	11	1.80
3759703--3759757	22	2.5	22	81	0	74	20	16	40	23	1.91
3759904--3760057	20	7.7	20	81	7	168	18	18	26	37	1.93
3759903--3760057	40	3.8	40	82	4	186	18	18	26	37	1.93
3760044--3760126	21	4.0	21	73	6	78	25	16	24	33	1.96
3760024--3760122	42	2.4	43	77	11	100	21	18	23	37	1.94
3761302--3761341	16	2.5	16	100	0	80	27	32	20	20	1.97
3767095--3767130	10	3.9	10	79	20	51	33	33	22	11	1.89
3767089--3767128	17	2.4	17	100	0	80	37	27	25	10	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3770196--3770232	18	2.1	18	100	0	74	62	16	5	16	1.51
3774181--3774229	19	2.5	20	83	12	66	28	0	0	71	0.86
3775170--3775222	23	2.4	23	87	6	74	47	5	1	45	1.37
3785028--3785188	65	2.5	64	89	3	234	28	22	19	29	1.98
3785159--3785207	19	2.6	19	84	9	57	24	26	22	26	2.00
3792954--3793062	56	1.9	56	81	5	130	31	23	18	26	1.97
3800172--3800215	23	2.0	23	86	4	63	50	18	11	20	1.77
3800403--3800476	17	4.6	17	82	16	104	27	5	39	28	1.78
3800420--3800476	29	2.0	29	96	0	105	28	5	38	28	1.78
3801308--3801723	88	4.7	88	85	6	558	26	18	21	33	1.96
3801356--3801675	44	7.3	44	66	2	185	26	18	20	33	1.96
3801313--3801726	176	2.3	175	89	3	627	26	17	21	33	1.96
3802296--3802555	66	3.9	66	82	6	303	37	13	20	28	1.91
3802493--3802830	39	8.8	39	86	3	384	38	17	17	26	1.92
3802844--3803081	76	3.1	75	78	7	241	40	12	13	33	1.82
3806143--3806233	23	4.0	23	83	0	110	28	23	28	19	1.98
3808097--3808141	19	2.4	19	100	0	90	35	24	0	40	1.56
3808445--3808472	2	14.0	2	100	0	56	50	0	0	50	1.00
3810164--3810207	23	2.0	23	86	4	63	50	18	11	20	1.77
3811370--3811418	24	2.0	24	88	0	71	46	16	14	22	1.82
3811384--3811502	24	5.0	24	83	6	134	40	20	16	22	1.91
3811420--3811520	48	2.1	48	81	3	114	41	20	14	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3816074--3816125	24	2.2	24	82	0	59	51	17	9	21	1.73
3816090--3816136	24	2.0	24	91	0	76	46	17	14	21	1.83
3816124--3816208	24	3.6	23	87	6	116	42	18	16	22	1.89
3816130--3816230	48	2.1	48	83	3	123	42	18	14	23	1.88
3818673--3818720	15	2.7	18	84	15	57	22	25	33	18	1.97
3818674--3818720	10	5.5	8	85	14	51	23	25	34	17	1.96
3821741--3821790	24	2.1	24	81	7	57	26	24	28	22	1.99
3825114--3825191	31	2.5	31	78	0	84	23	11	11	53	1.69
3826487--3826540	26	2.0	27	89	3	83	22	22	29	25	1.99
3826491--3826575	26	3.4	24	80	9	75	24	24	28	22	1.99

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