genome.fa.s8747.2.7.7.80.10.50.1000.42.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  42  of  51  ( 6054 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)
10529126--10529156	10	3.1	10	100	0	62	19	19	9	51	1.74
10533140--10533210	3	23.3	3	97	2	133	64	1	33	0	1.02
10534039--10534111	29	2.6	28	91	6	114	39	12	0	47	1.41
10535695--10535721	3	9.0	3	100	0	54	66	0	33	0	0.92
10536195--10536545	178	2.0	180	82	5	442	35	12	11	39	1.80
10537367--10537431	21	3.2	20	80	10	60	18	23	23	35	1.96
10537390--10537557	21	8.2	20	87	7	216	19	22	23	35	1.96
10537390--10537557	42	4.1	42	89	6	240	19	22	23	35	1.96
10537628--10537660	6	5.5	6	100	0	66	33	51	15	0	1.43
10538248--10538508	21	12.5	21	88	3	377	33	22	22	21	1.97
10538971--10539056	19	4.2	19	75	16	73	36	5	25	32	1.80
10539291--10539333	5	8.0	5	89	5	50	0	18	60	20	1.36
10539299--10539336	6	6.7	6	96	3	62	0	18	63	18	1.32
10539299--10539343	18	2.6	18	86	6	58	2	17	60	20	1.47
10539407--10539447	19	2.0	20	86	9	57	31	21	21	24	1.98
10539486--10539531	20	2.3	20	85	7	58	21	19	32	26	1.97
10543562--10543613	26	1.9	25	81	14	59	59	1	3	34	1.27
10544011--10544123	35	3.2	35	87	0	154	39	22	0	37	1.60
10545183--10545295	35	3.2	35	87	0	163	34	0	23	40	1.61
10545644--10545675	15	2.1	15	94	0	55	34	0	0	65	0.93
10551341--10551377	18	2.1	18	100	0	74	0	51	0	48	1.00
10551405--10551435	11	2.8	11	95	0	53	32	9	12	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10554609--10554665	30	1.9	30	96	0	105	19	17	24	38	1.93
10561093--10561149	30	1.9	30	96	0	105	19	17	24	38	1.93
10564425--10564469	20	2.2	20	84	0	54	31	26	24	17	1.97
10568942--10568974	16	2.1	16	88	11	50	75	9	0	15	1.03
10571334--10571414	27	3.1	27	59	16	62	28	4	18	48	1.69
10573038--10573091	6	9.2	6	76	15	51	83	0	14	1	0.73
10573049--10573091	19	2.2	19	95	4	77	83	0	16	0	0.64
10574087--10574769	136	5.0	136	85	3	849	36	16	20	26	1.94
10578422--10578473	20	2.5	20	75	3	50	63	3	3	28	1.30
10578465--10578505	15	2.7	15	84	0	55	63	0	0	36	0.95
10578956--10578981	5	5.2	5	100	0	52	76	0	0	23	0.78
10581627--10581678	19	2.7	19	96	0	95	32	30	15	21	1.94
10590197--10590356	65	2.5	64	91	3	250	32	21	16	28	1.96
10600354--10600385	16	2.0	16	93	0	55	28	12	12	46	1.78
10602353--10602500	46	3.3	45	85	6	192	32	22	6	38	1.80
10602360--10602491	45	2.9	46	89	3	187	31	22	7	37	1.82
10602601--10602730	60	2.2	59	88	1	188	29	24	16	30	1.96
10606369--10606561	85	2.3	85	84	0	269	31	16	21	31	1.95
10606561--10606597	13	2.8	13	91	0	56	37	10	18	32	1.86
10611376--10611450	37	2.0	37	100	0	150	37	6	18	37	1.77
10611590--10611690	48	2.1	49	83	1	123	34	9	9	45	1.71
10611541--10611749	113	1.9	113	92	3	359	37	9	9	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10614256--10614290	13	2.6	14	86	4	54	57	2	0	40	1.14
10615308--10615349	18	2.3	18	91	0	75	33	19	9	38	1.84
10617965--10618012	23	2.1	23	84	0	60	35	12	16	35	1.87
10618488--10618560	23	3.2	23	86	0	101	38	19	5	36	1.75
10618978--10619050	23	3.2	23	92	0	119	38	21	5	34	1.77
10618086--10619883	490	3.7	489	96	1	3248	40	10	7	41	1.69
10619464--10619536	23	3.2	23	88	0	110	38	20	5	35	1.76
10622344--10624019	183	9.2	183	96	0	3036	33	16	15	35	1.90
10625230--10625338	12	8.8	12	81	6	119	20	32	7	40	1.80
10625251--10625338	6	14.7	6	80	4	97	18	31	7	42	1.79
10626815--10627598	200	3.9	200	93	2	1279	30	17	15	36	1.91
10627699--10627759	19	3.3	18	90	2	68	54	11	0	34	1.37
10627711--10627759	19	2.6	19	96	0	89	57	10	0	32	1.32
10629544--10629609	33	2.0	33	90	0	105	22	48	0	28	1.51
10629642--10629705	21	3.1	20	90	4	92	17	31	10	40	1.84
10631937--10631983	20	2.4	19	79	10	58	21	17	8	53	1.70
10631904--10632377	183	2.6	182	88	1	691	26	16	13	43	1.85
10632127--10632164	20	1.9	20	89	10	60	21	15	5	57	1.57
10634968--10635010	22	2.0	22	86	4	61	23	4	2	69	1.18
10639302--10639335	6	5.5	6	89	6	50	14	11	17	55	1.68
10639302--10639335	13	2.8	12	86	8	50	14	11	17	55	1.68
10643402--10643508	42	2.6	42	80	4	128	27	19	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10643702--10643753	20	2.6	20	93	0	86	23	30	15	30	1.95
10643722--10644131	216	1.9	215	90	0	649	32	14	20	32	1.92
10644179--10644436	42	6.0	42	74	12	173	28	18	22	30	1.97
10644072--10644406	135	2.5	135	94	0	562	29	19	21	28	1.98
10648420--10648464	21	2.1	22	91	4	74	35	8	11	44	1.71
10649630--10649697	19	3.5	19	72	6	64	50	7	2	39	1.46
10650537--10651170	348	1.8	348	88	4	979	38	9	12	39	1.76
10651979--10652110	20	6.6	20	75	6	81	34	21	13	30	1.92
10652897--10652930	12	2.8	12	90	0	50	55	29	0	14	1.40
10653051--10653097	24	2.0	24	95	0	85	27	21	17	34	1.95
10655840--10655876	18	2.1	18	89	0	56	32	5	10	51	1.60
10655832--10655884	24	2.2	24	86	0	70	35	3	13	47	1.61
10657043--10657078	18	2.0	18	94	0	63	55	25	2	16	1.55
10657337--10657400	20	3.2	20	86	2	85	18	20	21	39	1.93
10657459--10657607	64	2.3	64	91	0	235	51	16	2	29	1.59
10658249--10658335	21	4.1	21	79	5	95	24	19	36	19	1.95
10658234--10658327	42	2.2	42	86	3	127	21	21	37	20	1.95
10658598--10658694	21	4.6	21	71	10	56	31	35	12	20	1.90
10660419--10660499	19	4.2	19	88	3	108	53	20	17	8	1.70
10660412--10660501	38	2.3	38	83	11	119	51	21	16	11	1.75
10660504--10660562	20	3.0	20	92	0	100	13	16	16	52	1.75
10661123--10661222	20	4.9	20	92	1	164	22	17	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10661123--10661253	40	3.3	39	85	6	156	22	15	25	37	1.93
10661121--10661255	20	6.7	21	86	6	99	21	14	25	37	1.92
10661247--10661292	21	2.2	21	84	0	56	39	19	21	19	1.93
10662131--10662165	18	1.9	18	94	0	61	48	0	0	51	1.00
10675149--10675186	14	2.6	16	88	12	55	23	5	0	71	1.07
10675522--10675729	104	2.0	104	100	0	416	43	22	18	16	1.88
10679700--10679848	77	1.9	79	83	5	196	44	5	8	41	1.56
10693046--10693070	13	1.9	13	100	0	50	24	24	28	24	2.00
10697255--10697439	50	3.7	50	87	0	282	38	22	9	29	1.86
10697258--10697443	100	1.9	99	93	1	318	38	23	9	29	1.86
10698579--10698627	21	2.5	20	83	12	57	65	6	4	24	1.33
10701469--10701970	253	2.0	251	90	0	797	35	21	12	30	1.91
10703424--10703721	162	1.9	162	85	5	417	33	21	10	34	1.87
10707885--10707923	21	1.9	20	89	5	60	20	30	15	33	1.94
10709745--10709777	16	2.0	17	88	5	50	57	12	0	30	1.35
10712354--10712498	72	2.0	72	100	0	290	35	11	17	35	1.86
10716990--10717032	21	2.0	20	86	8	59	69	2	6	20	1.23
10723003--10723042	19	2.1	19	100	0	80	15	42	0	42	1.46
10731499--10731580	28	2.8	29	88	5	130	42	9	14	32	1.79
10736230--10736312	29	2.8	29	92	1	139	43	9	14	32	1.78
10739969--10739999	6	5.2	6	96	0	53	64	0	32	3	1.09
10742089--10742131	16	2.6	16	85	10	52	13	18	2	65	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10743952--10744012	23	2.7	23	100	0	122	29	27	26	16	1.97
10750031--10750062	12	2.7	12	100	0	64	34	43	6	15	1.72
10757592--10757675	23	3.7	23	86	0	114	28	25	27	19	1.98
10758143--10758188	23	2.0	22	84	12	58	45	15	2	36	1.58
10762341--10762383	19	2.3	19	84	8	52	76	2	13	6	1.08
10763113--10763145	7	4.7	7	100	0	66	72	0	27	0	0.85
10768395--10768506	21	5.3	21	82	0	116	24	10	26	38	1.88
10768343--10768504	42	3.9	42	76	0	126	26	11	23	38	1.88
10768390--10768508	63	1.9	63	87	3	177	23	10	26	39	1.86
10775408--10775575	21	7.9	21	70	5	113	25	13	26	35	1.92

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