genome.fa.s8242.2.7.7.80.10.50.1000.26.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  26  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)
6236225--6236249	5	5.0	5	100	0	50	60	0	0	40	0.97
6238661--6238710	24	2.1	24	100	0	100	54	4	26	16	1.59
6238852--6239885	517	2.0	518	96	0	1908	38	8	19	32	1.83
6240858--6240906	22	2.3	21	86	10	64	34	8	22	34	1.84
6242637--6242697	26	2.3	26	75	10	63	44	3	29	22	1.69
6245704--6245778	22	3.5	22	68	17	66	18	4	12	65	1.41
6245689--6245782	43	2.2	43	98	0	179	15	5	11	67	1.40
6245709--6245776	21	3.2	21	64	25	52	19	4	11	64	1.42
6247076--6247113	20	1.9	20	94	0	67	36	13	18	31	1.89
6250227--6250328	42	2.2	45	81	15	111	34	3	11	50	1.58
6259982--6260404	116	3.6	116	74	9	275	34	11	22	31	1.90
6269193--6269234	10	4.2	10	84	0	57	35	0	30	33	1.58
6269193--6269234	20	2.1	20	90	0	66	35	0	30	33	1.58
6271435--6271503	26	2.7	26	82	6	79	53	1	8	36	1.41
6272190--6272247	16	3.7	16	90	2	82	34	20	8	36	1.84
6272208--6272261	15	3.5	15	89	2	72	33	24	7	35	1.83
6273519--6274093	81	7.1	81	88	2	814	30	23	11	34	1.90
6275020--6275075	3	18.0	3	81	7	58	62	0	1	35	1.06
6281898--6281981	34	2.5	33	92	3	132	41	0	0	58	0.98
6283597--6283659	25	2.4	26	79	15	67	47	4	3	44	1.40
6283639--6283748	19	5.7	20	68	25	67	51	4	3	40	1.40
6283641--6283748	52	2.1	52	81	10	123	51	4	3	39	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6283652--6283800	77	1.9	78	93	1	255	50	3	4	42	1.37
6284027--6284057	16	1.9	16	100	0	62	48	0	6	45	1.28
6284118--6284235	11	10.5	11	67	19	66	44	9	6	38	1.63
6284164--6284223	20	3.0	20	95	2	102	46	5	8	40	1.56
6284111--6284279	87	1.9	87	88	7	252	42	7	9	40	1.66
6284169--6284230	20	3.1	20	90	0	61	46	8	6	38	1.59
6284452--6284582	62	2.1	62	92	0	217	45	6	7	39	1.59
6284584--6284622	16	2.4	16	84	12	53	35	12	28	23	1.91
6285215--6285253	21	1.9	20	89	5	60	71	2	0	25	0.98
6286761--6286831	19	3.6	19	74	11	63	76	4	4	15	1.10
6286761--6286829	5	13.8	5	71	17	54	75	4	4	15	1.12
6286974--6287021	24	2.0	24	87	0	69	64	0	6	29	1.18
6286976--6287036	30	2.0	30	84	6	79	65	0	6	27	1.17
6288262--6288456	106	1.8	106	85	2	275	22	18	25	33	1.97
6288509--6288549	16	2.6	16	84	0	55	48	9	19	21	1.77
6302617--6302654	20	1.9	20	88	0	58	13	26	34	26	1.93
6309551--6309621	22	3.3	20	76	16	63	74	7	4	14	1.18
6309874--6309906	2	16.5	2	100	0	66	51	0	0	48	1.00
6309904--6309992	3	29.3	3	70	17	51	62	2	5	29	1.30
6309930--6309979	24	2.1	24	88	0	73	66	0	6	28	1.15
6309934--6309994	30	2.0	30	84	6	79	65	0	6	27	1.17
6310021--6310082	16	3.8	16	75	12	54	59	1	6	32	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6310882--6310997	57	2.0	59	93	3	200	40	19	16	23	1.91
6322803--6322862	29	2.1	29	96	0	111	51	1	21	25	1.57
6324557--6324612	24	2.3	23	90	6	85	26	48	0	25	1.52
6324754--6324783	14	2.1	14	93	0	51	46	0	0	53	1.00
6324794--6324850	15	3.9	14	76	15	53	40	0	0	59	0.97
6325968--6326003	17	2.1	17	90	10	56	41	2	5	50	1.40
6326558--6326708	42	3.6	42	82	3	178	25	33	17	23	1.96
6326684--6326749	21	3.1	21	80	0	78	24	37	22	15	1.92
6327481--6327522	21	2.0	21	95	0	75	50	4	0	45	1.23
6327614--6327996	136	2.8	134	83	6	475	34	24	19	22	1.97
6332781--6333214	135	3.2	135	90	0	681	42	12	11	33	1.79
6333276--6333522	73	3.4	73	89	2	370	39	15	12	32	1.85
6333602--6334201	114	5.3	114	90	1	844	42	13	12	31	1.81
6334173--6334242	22	3.3	22	72	11	83	27	11	12	48	1.75
6334159--6334251	41	2.2	42	96	1	170	29	9	15	46	1.77
6334173--6334242	21	3.3	21	75	13	81	27	11	12	48	1.75
6335807--6336442	259	2.5	256	76	3	627	33	18	18	30	1.95
6336480--6337557	126	8.6	126	76	4	799	32	22	17	27	1.96
6336433--6337557	252	4.5	250	77	4	900	32	22	17	27	1.96
6341024--6342987	54	36.4	54	86	0	2534	29	17	20	32	1.95
6341870--6341955	27	3.2	27	65	23	72	29	17	20	32	1.96
6342059--6342144	27	3.2	27	64	23	72	30	18	18	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6341024--6342985	647	3.0	646	90	1	2982	29	17	20	32	1.95
6343411--6343459	20	2.5	20	90	3	73	22	32	12	32	1.91
6348355--6348747	54	7.3	54	89	0	561	29	18	20	32	1.96
6349163--6349211	20	2.5	20	83	3	55	26	26	10	36	1.88
6354148--6354235	21	4.2	21	88	2	124	30	25	7	36	1.84
6354223--6354443	114	1.9	113	86	2	309	33	22	11	31	1.90
6364298--6364461	90	1.8	89	96	1	301	37	9	6	46	1.63
6364434--6364503	20	3.3	21	70	16	63	48	5	4	41	1.46
6368989--6369028	21	1.9	21	94	0	71	35	5	27	32	1.79
6370771--6370802	16	2.0	16	93	0	55	25	9	31	34	1.87
6380747--6380810	8	7.5	8	78	16	58	76	1	9	12	1.08
6380721--6380759	11	3.5	11	82	6	51	79	0	12	7	0.93
6381832--6382040	55	3.8	56	74	6	151	35	16	22	24	1.95
6381998--6382301	55	5.5	55	81	7	332	32	16	23	28	1.96
6381998--6382310	110	2.9	110	84	5	386	32	15	24	27	1.95
6381998--6382311	165	1.9	164	85	4	436	32	15	24	27	1.95
6388423--6388589	90	1.9	89	94	1	298	36	11	5	46	1.65
6390738--6390781	23	2.0	23	86	4	63	77	2	4	15	1.04
6390868--6390917	23	2.2	23	96	0	91	46	12	22	20	1.83
6391975--6392230	5	51.2	5	65	25	73	53	4	2	39	1.35
6391986--6392230	7	34.1	7	71	19	152	53	4	2	39	1.36
6392042--6392171	2	69.5	2	69	25	81	51	3	2	43	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6391971--6392174	53	3.9	53	78	15	164	55	3	1	39	1.28
6391988--6392093	32	3.4	32	74	20	91	56	4	1	36	1.31
6391986--6392220	41	5.5	42	75	16	159	53	4	2	39	1.35
6398623--6398666	13	3.4	13	80	0	52	68	13	2	15	1.31
6398794--6398827	3	11.3	3	87	0	50	32	32	0	35	1.58
6399124--6399188	33	2.0	33	84	0	85	23	16	40	20	1.92
6400932--6400979	7	6.6	7	76	9	51	62	4	0	33	1.14
6400938--6400980	15	2.9	15	80	10	52	62	4	0	32	1.15
6403993--6404143	74	2.0	74	98	0	293	33	13	17	35	1.88
6404492--6404625	60	2.3	58	77	5	135	37	15	5	41	1.70
6404859--6404964	39	2.7	39	92	0	167	45	9	14	31	1.76
6404860--6404978	39	3.1	39	87	2	114	47	8	12	31	1.71
6405453--6405528	25	3.1	25	67	14	77	36	7	6	48	1.58
6405452--6405548	48	2.0	46	80	11	106	37	12	7	43	1.70
6409736--6409769	17	2.0	17	88	0	50	17	2	35	44	1.64
6410578--6410621	22	2.0	22	82	4	54	43	2	4	50	1.35
6411530--6411576	20	2.3	20	96	0	85	23	8	34	34	1.85
6415610--6415647	19	2.1	19	90	5	60	50	2	13	34	1.55
6417159--6417210	20	2.6	20	96	0	95	32	19	17	30	1.95
6418139--6418177	16	2.4	16	83	8	53	74	0	23	2	0.94
6418139--6418225	24	3.5	25	75	12	72	74	0	19	5	1.01
6418142--6418210	25	2.7	25	80	6	68	75	0	17	7	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6418163--6418229	19	3.5	19	77	16	68	76	0	17	5	0.99
6419872--6420373	79	6.3	79	79	4	528	36	16	18	28	1.93
6419872--6420303	237	1.8	237	94	0	765	35	16	18	29	1.93
6420890--6420935	3	15.3	3	95	0	83	30	2	0	67	1.03
6421742--6421805	22	2.9	21	71	19	58	17	12	7	62	1.52
6424597--6424662	27	2.4	27	87	5	87	48	1	6	43	1.36
6424613--6424696	39	2.2	38	79	10	89	44	4	7	44	1.52
6424633--6424726	39	2.4	39	90	0	143	39	6	6	47	1.54
6425080--6425147	29	2.3	31	75	17	72	47	1	4	47	1.31
6425266--6425337	31	2.4	29	82	10	92	37	13	11	37	1.81

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