genome.fa.s8356.2.7.7.80.10.50.1000.50.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  50  of  56  ( 6656 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)
11435119--11435341	48	4.6	49	87	2	308	30	22	12	34	1.91
11435119--11435341	97	2.3	97	88	1	331	30	22	12	34	1.91
11435367--11435563	49	4.0	49	89	0	295	30	20	12	35	1.90
11435197--11435512	171	1.9	170	91	2	526	29	20	14	35	1.92
11441294--11441703	49	8.4	49	90	1	621	29	22	13	34	1.92
11441283--11441703	97	4.3	98	89	3	629	30	22	13	34	1.92
11446043--11446072	15	1.9	16	93	6	53	36	6	10	46	1.64
11446568--11447362	422	1.9	416	86	3	1130	39	10	8	42	1.69
11453465--11453504	2	20.0	2	100	0	80	50	0	0	50	1.00
11463268--11463312	22	2.0	22	100	0	90	24	17	31	26	1.97
11465194--11465402	65	3.2	63	77	11	210	28	18	22	31	1.97
11466065--11466122	29	2.0	29	87	9	84	53	22	3	20	1.60
11468065--11468136	21	3.3	21	73	7	72	19	22	27	30	1.98
11468042--11468145	44	2.4	44	91	0	163	23	22	25	29	1.99
11468076--11468144	21	3.2	21	74	8	75	21	20	24	33	1.97
11475336--11475605	26	11.7	20	76	17	108	21	22	13	42	1.87
11475331--11475631	46	6.4	46	90	4	485	20	22	13	43	1.87
11475402--11475643	26	10.0	26	80	15	304	20	21	14	44	1.86
11475402--11475643	72	3.4	72	81	13	343	20	21	14	44	1.86
11475358--11475643	144	2.0	144	97	0	536	20	20	13	44	1.86
11476064--11476265	96	2.1	96	82	7	241	24	21	14	39	1.91
11478175--11478215	19	2.2	19	86	0	55	14	14	7	63	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11479959--11480014	20	2.8	19	84	7	76	30	16	30	23	1.96
11480429--11480584	52	3.0	52	80	10	160	32	12	20	34	1.90
11480761--11481821	81	13.1	81	86	1	1376	35	11	22	29	1.89
11485872--11485927	20	2.8	19	84	7	76	30	16	30	23	1.96
11486344--11486541	54	3.6	54	76	8	186	39	10	17	32	1.83
11486695--11487759	81	13.1	81	87	0	1432	36	11	22	29	1.90
11491809--11491863	20	2.8	18	78	13	56	30	14	29	25	1.95
11491753--11491979	116	2.0	116	99	0	445	33	14	22	29	1.94
11491925--11491980	20	2.9	18	82	12	67	30	16	28	25	1.96
11492020--11492074	22	2.5	22	93	0	101	41	10	16	30	1.83
11492672--11493548	81	11.1	81	86	5	1140	34	11	24	28	1.91
11493117--11493548	161	2.7	162	88	0	623	34	11	24	28	1.91
11496212--11496282	18	3.8	18	88	5	97	26	29	25	18	1.98
11497219--11497365	68	2.2	67	83	7	176	25	23	18	33	1.97
11498667--11498698	2	16.0	2	93	0	55	53	0	0	46	1.00
11504884--11504949	14	4.6	14	77	7	62	22	3	1	72	1.06
11504953--11505028	36	2.1	36	87	4	109	21	6	2	69	1.23
11505421--11505460	18	2.1	19	86	9	55	30	2	5	62	1.29
11508763--11509221	147	3.1	147	92	0	765	37	23	14	25	1.92
11509165--11509799	121	5.2	121	88	1	871	36	25	14	23	1.93
11509477--11509853	55	6.5	54	67	17	166	36	25	15	22	1.93
11509532--11510161	55	10.4	65	65	19	190	35	25	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11509477--11510096	297	2.1	297	91	0	979	35	25	15	23	1.94
11509597--11509975	176	2.2	176	90	0	580	35	25	16	22	1.95
11509773--11510161	121	3.2	121	90	2	602	34	23	15	25	1.95
11509355--11510161	418	1.9	418	88	0	1220	36	24	14	24	1.93
11510232--11510414	85	2.2	85	85	2	251	31	25	21	21	1.98
11510232--11510460	85	2.7	85	80	4	203	32	23	19	24	1.98
11512270--11512310	15	2.6	16	88	7	57	26	0	0	73	0.84
11512267--11512304	11	3.6	11	89	10	62	23	0	0	76	0.79
11512267--11512334	6	12.4	5	79	14	57	23	1	1	73	1.00
11512269--11512333	19	3.7	18	75	20	57	24	1	1	72	1.02
11512267--11512334	11	6.2	10	82	14	57	23	1	1	73	1.00
11512274--11512403	11	12.5	11	69	19	59	24	4	0	70	1.12
11513086--11513128	2	21.5	2	100	0	86	51	0	0	48	1.00
11514143--11514225	41	2.0	43	81	9	102	45	6	9	38	1.62
11514197--11514330	38	3.5	38	83	6	155	47	0	6	45	1.34
11514275--11514340	2	33.5	2	84	14	84	46	0	3	50	1.16
11514324--11514726	38	10.6	38	69	20	174	45	1	6	45	1.39
11514351--11514409	12	4.5	13	76	18	59	45	1	3	49	1.28
11514437--11514468	2	16.5	2	93	6	57	53	0	0	46	1.00
11514361--11514547	91	2.1	89	88	4	277	46	2	5	45	1.39
11514453--11514599	39	3.8	38	90	3	215	49	0	5	44	1.30
11514556--11514621	25	2.7	25	95	2	116	51	0	7	40	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11514580--11514739	37	4.3	37	77	10	155	45	1	8	45	1.44
11514769--11514818	18	2.8	18	78	3	57	24	0	2	74	0.93
11514771--11514818	12	4.1	11	80	19	53	22	0	2	75	0.91
11516167--11516216	17	3.1	16	80	11	57	30	4	0	66	1.10
11517322--11517359	15	2.6	15	87	4	51	13	15	0	71	1.16
11520477--11520501	10	2.5	10	100	0	50	60	12	0	28	1.32
11521654--11522067	85	4.9	85	85	0	522	36	20	16	26	1.94
11522720--11522753	2	17.5	2	93	6	61	50	0	0	50	1.00
11522738--11523234	38	13.4	36	76	14	362	46	2	7	44	1.43
11522738--11523298	36	14.9	37	73	16	360	45	1	7	44	1.43
11522742--11523146	77	5.3	75	81	11	336	46	2	6	43	1.43
11523112--11523173	25	2.5	25	89	0	97	43	1	11	43	1.50
11523139--11523232	35	2.6	36	84	6	109	45	1	8	44	1.41
11523050--11523231	98	1.8	99	87	8	273	44	1	8	46	1.40
11523080--11523205	62	2.0	62	83	7	157	46	0	8	43	1.40
11523298--11523351	18	3.3	18	65	24	55	37	0	0	62	0.95
11523296--11523376	31	2.6	31	88	7	112	34	0	0	65	0.93
11523301--11523378	21	3.7	22	69	17	58	34	0	0	65	0.93
11523301--11523378	11	7.4	11	72	17	67	34	0	0	65	0.93
11524323--11524377	24	2.3	23	76	11	58	9	7	1	81	0.93
11524460--11524519	4	15.5	4	87	6	88	25	0	1	73	0.93
11525120--11525213	45	2.1	45	96	2	172	64	5	4	25	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11531740--11531811	26	3.0	24	68	27	62	27	6	2	62	1.35
11535225--11535252	12	2.3	12	100	0	56	67	0	0	32	0.91
11535498--11535577	41	2.0	40	87	7	117	18	28	36	16	1.93
11535627--11535691	29	2.2	29	84	13	80	30	13	24	30	1.94
11535817--11535885	31	2.2	31	84	2	93	21	27	14	36	1.93
11536807--11536949	65	2.2	65	96	0	259	28	19	13	38	1.89
11537658--11537735	31	2.5	31	93	0	129	25	25	12	35	1.92
11538979--11539020	18	2.3	18	84	8	50	40	4	0	54	1.21
11545574--11545615	20	2.1	20	90	0	66	11	11	16	59	1.61
11547256--11547313	29	2.0	29	83	6	73	44	1	1	51	1.21
11547370--11547436	5	13.8	5	92	6	102	43	0	16	40	1.48
11547372--11547419	23	2.1	23	100	0	96	39	0	20	39	1.53
11547370--11547424	28	2.0	28	100	0	110	40	0	20	40	1.52
11547484--11547554	20	3.6	19	69	12	54	52	4	1	42	1.29
11547473--11547584	39	2.9	39	85	6	142	49	2	1	46	1.26
11547536--11547612	31	2.5	30	80	16	79	48	1	2	48	1.23
11547536--11547599	30	2.1	31	83	13	80	46	1	1	50	1.20
11547607--11547645	15	2.5	16	91	4	62	48	2	0	48	1.15
11547638--11547680	22	2.0	22	86	13	63	51	0	0	48	1.00
11549060--11549091	2	16.0	2	100	0	64	50	0	0	50	1.00
11549919--11549952	12	2.8	12	91	8	52	35	2	0	61	1.11
11551447--11551564	14	8.1	14	72	15	73	77	3	6	11	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11551494--11551564	22	3.3	22	77	13	76	78	0	5	15	0.92
11551444--11551535	14	6.6	13	76	9	76	80	4	4	10	0.99
11551494--11551639	27	5.1	28	69	16	86	71	2	6	19	1.17
11551701--11551768	3	22.7	3	85	11	95	64	0	0	35	0.94
11553923--11553994	29	2.6	28	80	10	85	79	12	8	0	0.94
11553925--11553987	19	3.4	19	81	12	69	82	9	7	0	0.84
11553942--11553994	10	5.4	10	86	4	63	77	11	11	0	1.00
11584077--11584110	16	2.1	16	88	0	50	35	20	8	35	1.84
11596277--11596354	3	25.7	3	84	2	102	60	1	0	38	1.05
11596480--11597655	76	15.5	76	98	0	2253	35	21	20	21	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   51   52   53   54   55   56