genome.fa.s7993.2.7.7.80.10.50.1000.2.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: VEPZ01007993.1 Hibiscus syriacus cultivar Beakdansim tig00110443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2245901

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1410 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)
236909--236949	20	2.0	22	90	9	68	39	0	14	46	1.45
241280--241354	20	3.8	20	78	3	71	30	21	25	22	1.99
241297--241353	20	2.9	20	84	10	73	24	22	29	22	1.99
241410--241585	79	2.2	79	97	0	334	40	18	12	28	1.87
243656--243726	34	2.1	34	94	0	124	46	9	21	22	1.80
243885--243991	17	6.2	17	72	6	81	39	9	14	36	1.79
243983--244028	17	2.7	17	82	0	65	43	10	15	30	1.81
250211--250248	17	2.2	18	85	4	51	65	21	5	7	1.38
251993--252099	17	6.2	17	70	8	63	42	11	11	35	1.76
252913--252944	16	2.0	16	100	0	64	37	12	25	25	1.91
253675--253706	11	2.6	13	85	14	50	21	6	21	50	1.71
256271--256341	30	2.3	31	81	9	83	25	18	7	49	1.72
259512--259555	8	5.0	9	86	13	65	59	0	18	22	1.38
259511--259555	17	2.5	19	89	10	69	60	0	17	22	1.37
260398--260447	26	2.0	25	84	4	64	74	6	8	12	1.22
260415--260472	18	3.2	18	76	16	57	77	3	3	15	1.04
260517--260563	17	2.7	17	81	12	60	72	0	12	14	1.13
260580--260628	22	2.2	23	85	3	64	69	4	0	26	1.06
260647--260702	15	3.7	15	76	13	53	71	0	5	23	1.06
260650--260716	26	2.6	25	77	11	73	73	1	4	20	1.09
260676--260755	16	5.1	16	71	17	60	68	2	2	26	1.14
263207--263523	65	4.7	65	76	9	258	37	11	20	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
263339--263564	36	6.4	36	78	10	243	38	13	21	26	1.91
263285--263544	138	1.9	138	89	0	403	38	12	21	27	1.89
263375--263901	102	5.2	102	84	3	569	37	12	18	30	1.88
263682--263864	37	5.2	37	70	14	118	37	12	19	30	1.89
264049--264367	106	3.0	105	86	2	415	23	19	23	34	1.97
264949--265035	32	2.8	32	84	5	106	36	20	12	29	1.90
264966--265059	31	2.9	32	82	4	100	35	19	12	32	1.89
265977--266114	69	2.0	69	92	0	231	26	15	20	38	1.92
266172--266255	12	7.4	11	70	16	64	2	19	3	75	1.07
266201--266250	12	4.2	12	82	14	68	0	18	2	80	0.82
266178--266248	23	3.0	25	80	15	71	2	18	2	76	1.04
266191--266248	25	2.4	24	88	11	84	0	18	3	77	0.91
266191--266248	23	2.4	25	88	11	86	0	18	3	77	0.91
269562--269611	26	1.9	26	95	0	91	70	0	6	24	1.10
269655--269747	23	4.1	22	72	13	64	62	0	6	31	1.20
269729--269759	14	2.2	14	94	0	53	67	0	0	32	0.91
269686--269751	22	2.9	22	70	20	64	68	0	6	25	1.13
270160--270202	17	2.5	17	85	7	52	41	20	9	27	1.83
276380--276420	20	2.0	20	100	0	82	19	9	41	29	1.83
279638--279677	19	2.0	20	95	4	73	30	10	30	30	1.90
280893--280966	17	4.4	17	94	0	112	35	25	9	29	1.88
281905--281951	18	2.4	21	79	17	64	51	12	0	36	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291066--291110	19	2.3	19	81	11	56	31	2	0	66	1.04
291234--291271	13	3.0	13	84	3	51	44	0	10	44	1.38
297235--297264	14	2.1	14	93	0	51	26	10	0	63	1.26
306753--306793	17	2.4	17	95	0	73	24	31	12	31	1.92
333836--333891	29	1.9	29	85	7	78	51	0	8	39	1.33
351249--351311	30	2.1	30	100	0	126	15	22	17	44	1.86
354476--354524	24	2.0	24	84	4	62	48	0	10	40	1.37
359280--359498	45	4.9	45	88	5	295	31	21	6	41	1.78
359280--359498	91	2.5	90	87	7	306	31	21	6	41	1.78
368354--368417	18	3.6	18	95	0	119	17	50	21	10	1.77
368376--368423	13	3.3	13	75	25	51	16	47	22	12	1.80
370908--370998	24	3.8	24	79	2	94	27	14	19	38	1.91
370929--370997	24	2.9	24	84	2	95	28	10	21	39	1.86
371076--371150	35	2.1	35	97	0	141	9	29	28	33	1.88
374208--374258	18	2.8	18	93	0	84	19	49	19	11	1.79
374229--374285	13	4.5	13	81	16	75	19	47	21	12	1.81
374225--374276	23	2.2	24	93	3	88	19	50	21	9	1.76
376787--376905	24	5.0	24	86	4	159	27	13	19	39	1.89
376803--376841	12	3.2	12	79	13	53	28	12	23	35	1.91
377021--377108	43	2.0	43	95	0	158	18	10	36	35	1.84
379249--379285	13	2.8	13	87	0	56	16	45	21	16	1.84
379231--379312	31	2.6	32	86	1	112	19	47	19	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379227--379318	18	5.2	18	73	18	77	19	47	18	14	1.82
379280--379312	14	2.4	14	95	5	59	21	45	21	12	1.84
381848--381886	12	3.2	12	79	13	53	28	12	23	35	1.91
381832--381950	48	2.5	48	86	5	161	27	14	19	38	1.90
381832--381950	24	5.0	24	83	4	141	27	14	19	38	1.90
382066--382153	43	2.0	43	97	0	167	17	11	36	35	1.85
385090--385166	31	2.5	31	80	2	91	27	31	27	14	1.95
385043--385166	63	2.0	63	82	6	153	25	29	28	16	1.97
386054--386128	5	13.8	5	76	15	69	8	22	50	18	1.73
386047--386128	22	4.0	22	84	15	129	9	23	48	18	1.77
386059--386129	17	3.9	17	83	16	97	9	22	49	18	1.77
386047--386129	39	2.1	39	100	0	166	10	22	48	18	1.79
386131--386194	19	3.3	19	79	12	60	28	28	26	17	1.97
386157--386215	20	2.9	20	87	9	84	30	25	27	16	1.97
392394--392517	63	2.0	63	82	6	153	25	29	28	17	1.98
393399--393476	17	4.3	17	83	15	102	12	23	46	17	1.83
393423--393475	5	9.8	5	76	15	52	7	22	50	18	1.72
393426--393475	22	2.3	22	100	0	100	8	24	50	18	1.73
393392--393485	39	2.3	40	87	9	136	14	24	43	17	1.86
393472--393570	9	10.3	9	77	10	90	29	28	27	15	1.96
393474--393571	19	5.1	19	80	13	101	29	28	25	16	1.97
393497--393571	29	2.5	31	91	8	129	29	28	26	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408594--408646	10	5.5	10	80	8	65	16	22	32	28	1.96
408582--408648	10	7.0	9	77	11	62	16	23	31	28	1.96
408582--408648	19	3.5	19	91	2	98	16	23	31	28	1.96
408642--408682	17	2.4	17	95	0	73	17	41	24	17	1.89
408672--408708	7	5.4	7	93	6	67	16	29	29	24	1.96
408672--408704	13	2.5	13	95	5	57	15	30	30	24	1.95
414715--414783	9	7.3	9	79	9	75	15	27	31	24	1.96
414714--414783	19	3.7	19	94	3	115	17	27	31	24	1.97
414777--414834	17	3.4	17	92	0	98	17	41	24	17	1.90
414777--414854	34	2.2	36	88	6	115	16	38	25	19	1.92
414824--414873	7	7.4	7	91	8	86	16	30	30	24	1.96
414824--414869	13	3.5	13	96	3	83	15	30	30	23	1.95
414824--414873	20	2.5	20	93	6	84	16	30	30	24	1.96
433396--433463	27	2.5	27	82	2	73	23	13	20	42	1.87
433854--433882	12	2.3	13	94	5	51	27	6	17	48	1.72
445588--446402	81	10.1	81	87	0	1038	35	9	22	32	1.86
451491--451944	161	2.8	162	87	0	631	35	10	21	32	1.88
451469--451944	81	5.9	81	87	0	612	35	10	21	32	1.88
455239--455850	55	11.3	54	84	5	756	37	16	15	30	1.90
455539--455632	47	2.0	47	91	0	152	38	14	19	27	1.91
455484--455796	102	3.0	102	81	9	387	37	16	15	29	1.91
473300--473358	18	3.3	18	90	0	91	11	35	32	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474109--474290	90	2.0	90	93	0	310	32	18	11	37	1.87
476253--476655	211	1.9	207	86	4	567	43	13	11	31	1.80
480960--480999	17	2.4	17	95	0	71	32	7	5	55	1.50
491208--491247	21	1.9	21	85	10	55	35	10	2	52	1.48
492284--492311	14	2.0	14	100	0	56	21	21	14	42	1.88
494065--494105	17	2.4	17	100	0	82	31	4	4	58	1.40
516959--517063	45	2.3	45	86	1	147	29	16	22	31	1.96
517013--517149	65	2.1	65	80	8	163	28	16	23	31	1.96
517051--517097	19	2.5	19	83	10	62	25	17	31	25	1.97
518111--518154	21	2.1	21	86	0	61	40	13	34	11	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12