genome.fa.s7999.2.7.7.80.10.50.1000.49.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  49  of  50  ( 5918 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)
11468736--11468837	30	3.5	29	77	6	100	42	10	12	34	1.78
11468500--11468890	200	1.9	201	87	4	565	38	12	10	37	1.79
11469051--11469155	30	3.5	30	77	10	115	42	13	8	35	1.75
11469951--11470153	111	1.8	112	92	1	345	46	13	14	24	1.81
11473378--11473660	112	2.5	112	92	0	458	46	13	14	25	1.81
11474688--11475147	112	4.1	112	94	0	762	45	14	15	25	1.83
11475018--11475470	182	2.5	182	92	1	757	43	13	16	26	1.85
11476399--11476437	2	19.5	2	100	0	78	51	0	0	48	1.00
11494399--11494441	22	2.0	22	95	0	77	32	18	20	27	1.96
11495887--11495923	15	2.5	15	100	0	74	27	5	18	48	1.70
11497566--11497612	24	2.0	24	83	8	60	57	12	2	27	1.47
11499538--11499584	24	2.0	24	100	0	94	6	29	38	25	1.81
11506730--11506769	21	2.0	20	85	5	53	22	17	35	25	1.95
11508369--11508428	2	30.0	2	87	0	84	46	1	5	46	1.34
11508977--11509214	114	2.1	113	94	0	413	36	19	12	31	1.89
11509199--11509233	13	2.7	13	86	0	52	14	22	45	17	1.84
11516065--11516322	129	2.0	128	84	2	338	32	12	21	32	1.91
11517601--11517808	65	3.2	65	81	12	223	26	17	24	31	1.97
11523753--11523969	117	1.9	117	82	5	278	26	14	9	49	1.74
11532854--11532898	23	1.9	24	86	4	65	48	0	6	44	1.29
11532863--11533064	30	6.6	29	73	20	144	51	0	6	40	1.32
11532856--11533063	61	3.4	60	75	13	174	52	0	6	40	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11532886--11533075	96	2.0	95	79	10	208	53	0	7	38	1.33
11533080--11533134	19	3.1	19	84	10	71	43	0	10	45	1.39
11533144--11533192	21	2.3	21	100	0	98	61	4	8	26	1.42
11533929--11533963	2	17.5	2	100	0	70	48	0	51	0	1.00
11538137--11538202	24	2.5	27	72	18	68	51	3	0	45	1.16
11538374--11538422	22	2.2	22	88	0	71	55	2	0	42	1.11
11539242--11539279	2	19.0	2	100	0	76	50	0	0	50	1.00
11539977--11540003	12	2.2	12	100	0	54	29	0	0	70	0.88
11540973--11541001	2	14.5	2	100	0	58	48	0	0	51	1.00
11543636--11543675	21	1.9	21	100	0	80	10	10	32	47	1.70
11552954--11552998	13	3.3	13	87	6	54	17	42	22	17	1.89
11552975--11553005	7	4.3	7	92	8	53	12	35	25	25	1.92
11552960--11553015	15	3.7	15	88	9	71	16	37	25	21	1.93
11552972--11553026	10	6.6	9	84	16	50	18	32	25	23	1.97
11555845--11555869	13	1.9	13	100	0	50	32	0	24	44	1.54
11557930--11557994	8	8.0	8	80	16	80	81	12	6	0	0.86
11557932--11557993	7	7.9	7	78	21	61	82	11	6	0	0.84
11557932--11558005	17	4.4	17	86	13	100	79	12	8	0	0.92
11557946--11558012	9	7.6	9	73	14	50	74	14	10	0	1.07
11562704--11562735	13	2.5	13	100	0	64	15	37	0	46	1.46
11566028--11566062	18	1.9	18	88	0	52	37	14	22	25	1.92
11571837--11571995	60	2.7	60	81	3	169	35	18	5	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11573777--11573826	20	2.5	20	76	0	55	36	24	16	24	1.94
11573997--11574038	22	1.9	22	100	0	84	23	42	14	19	1.87
11575846--11575886	21	2.0	21	85	0	55	14	12	36	36	1.84
11576294--11576366	21	3.5	21	82	0	101	21	38	20	19	1.94
11576286--11576366	42	1.9	42	94	0	144	20	38	19	20	1.94
11580636--11580669	12	2.8	12	95	0	59	14	0	26	58	1.36
11586297--11586323	2	13.5	2	100	0	54	51	0	0	48	1.00
11586343--11586562	85	2.6	84	82	5	244	27	17	21	33	1.96
11592322--11592373	20	2.4	21	81	18	63	55	3	15	25	1.57
11592547--11592891	191	1.8	192	87	4	529	45	7	4	42	1.52
11593313--11593461	72	2.1	72	98	0	289	32	2	8	57	1.42
11593442--11593496	23	2.7	19	75	21	58	32	0	3	63	1.12
11595248--11595295	23	2.1	23	88	0	69	35	12	18	33	1.89
11596022--11596058	18	2.1	18	89	0	56	51	10	5	32	1.60
11596262--11596326	23	2.8	23	90	0	94	38	18	7	35	1.80
11596287--11597237	406	2.3	405	96	2	1800	38	12	8	40	1.74
11599697--11600552	184	4.7	184	98	0	1631	34	15	14	35	1.89
11602023--11602096	3	24.7	3	78	0	76	25	33	5	35	1.79
11602031--11602121	42	2.2	42	87	0	128	21	32	7	37	1.82
11602036--11602103	9	7.6	9	73	6	57	23	33	7	35	1.83
11602027--11602124	6	16.3	6	76	8	56	21	32	7	38	1.81
11603587--11604806	199	6.1	199	96	0	2268	32	15	14	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11603587--11604806	399	3.1	398	98	0	2340	32	15	14	38	1.87
11604888--11604932	19	2.4	19	92	0	72	57	8	2	31	1.41
11606726--11606791	33	2.0	33	87	0	96	24	45	1	28	1.62
11609098--11609140	20	2.3	18	82	17	61	20	16	9	53	1.70
11609103--11609149	20	2.3	20	89	10	78	19	17	8	55	1.67
11609271--11609316	20	2.3	20	89	10	76	17	17	10	54	1.70
11609382--11609829	229	2.0	227	94	1	781	39	7	8	45	1.61
11610653--11610706	10	5.6	10	75	16	51	46	0	1	51	1.11
11611155--11611179	6	4.2	6	100	0	50	16	16	36	32	1.90
11612659--11612691	2	16.5	2	100	0	66	48	0	0	51	1.00
11612663--11612699	16	2.4	15	90	4	56	45	2	0	51	1.15
11612723--11612782	15	4.1	14	82	4	75	15	3	1	80	0.93
11612723--11612813	25	3.7	24	84	10	94	15	6	2	75	1.10
11612730--11612829	9	10.9	9	72	15	53	15	8	3	74	1.18
11612724--11612822	15	7.1	15	73	17	70	15	7	3	74	1.15
11612742--11612828	24	3.6	24	83	6	86	14	9	3	72	1.23
11612744--11612842	24	4.1	24	81	11	80	15	8	4	72	1.23
11612853--11612895	15	3.1	14	83	16	54	18	6	2	72	1.19
11615478--11615677	95	2.1	94	90	3	312	36	16	14	33	1.89
11617821--11619382	80	19.3	80	87	2	2111	34	23	18	23	1.97
11617821--11619382	324	4.8	320	87	2	2124	34	23	18	23	1.97
11620181--11620260	2	40.5	2	88	7	119	45	0	3	51	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11621417--11621442	3	8.7	3	100	0	52	30	0	0	69	0.89
11621572--11621658	11	7.7	11	75	15	72	17	4	1	77	1.01
11621549--11621674	5	24.6	5	67	20	57	17	6	2	73	1.14
11621585--11621673	15	6.2	15	74	10	78	16	5	2	75	1.10
11621596--11621639	9	4.7	9	83	8	52	13	4	2	79	0.98
11621604--11621643	19	2.1	19	100	0	80	15	5	0	80	0.88
11621573--11621654	19	4.1	19	73	21	69	17	4	1	76	1.02
11621707--11621736	15	1.9	16	93	6	53	23	6	3	66	1.30
11622769--11622825	2	29.0	2	89	3	89	52	0	0	47	1.00
11623350--11623391	2	21.0	2	100	0	84	50	0	0	50	1.00
11628268--11628308	16	2.6	16	88	3	57	39	21	29	9	1.86
11633188--11633238	21	2.4	21	80	0	66	27	19	19	33	1.96
11633891--11634027	69	2.0	69	100	0	274	18	21	13	46	1.83
11635105--11635161	25	2.4	24	88	5	80	57	3	8	29	1.45
11641198--11641362	42	4.0	42	80	2	172	35	17	20	26	1.94
11642895--11643045	42	3.6	41	75	7	133	26	15	25	32	1.96
11643478--11643510	17	1.9	17	93	0	57	24	33	0	42	1.55
11644898--11644988	20	4.7	20	93	1	150	21	30	21	25	1.99
11645406--11645476	34	2.1	33	84	7	90	35	9	29	25	1.88
11648073--11648204	67	2.0	67	96	0	246	35	9	15	40	1.79
11652563--11652774	43	4.9	44	79	5	200	32	22	17	27	1.97
11653819--11653886	34	2.0	34	83	13	86	42	1	8	47	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11654003--11654029	14	1.9	14	100	0	54	22	25	0	51	1.48
11654725--11654781	16	3.6	16	83	2	71	40	3	17	38	1.67
11656993--11657047	22	2.5	22	75	16	60	23	9	20	47	1.78
11658581--11658641	4	15.8	4	88	6	63	32	1	18	47	1.58
11658976--11659021	23	1.9	24	83	16	60	45	0	4	50	1.21
11660167--11660196	7	4.1	7	91	8	51	13	26	0	60	1.34
11660167--11660196	15	2.1	14	93	6	51	13	26	0	60	1.34
11663962--11664029	29	2.3	29	94	0	118	22	17	30	29	1.97
11663964--11664014	14	3.6	14	73	5	57	21	17	31	29	1.96
11663978--11664033	15	3.8	15	78	4	60	21	17	28	32	1.96

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