genome.fa.s5946.2.7.7.80.10.50.1000.11.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

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

This is table  11  of  11  ( 1316 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)
2299868--2300620	128	5.9	128	94	1	1285	31	21	24	22	1.98
2299868--2300602	387	1.9	387	98	0	1416	31	21	24	22	1.98
2299868--2300627	259	3.0	256	93	1	1317	31	21	24	22	1.98
2300698--2300738	8	5.2	8	82	5	57	36	29	0	34	1.58
2305566--2305609	21	2.2	20	83	4	52	50	11	2	36	1.51
2305631--2305879	130	1.9	130	83	3	322	36	16	10	36	1.83
2317560--2317594	15	2.3	15	90	5	52	17	5	2	74	1.14
2319361--2319411	2	26.5	2	76	7	52	49	0	0	50	1.00
2319324--2319411	40	2.2	40	86	11	121	50	0	0	50	1.00
2319324--2319411	46	1.9	46	90	0	140	50	0	0	50	1.00
2320531--2320556	13	2.0	13	100	0	52	30	7	0	61	1.24
2322255--2322314	11	5.5	11	80	4	68	15	1	16	66	1.33
2322255--2322318	32	2.0	32	87	0	92	14	1	18	65	1.34
2324024--2324072	11	4.5	11	84	5	73	16	0	18	65	1.28
2324032--2324076	21	2.1	21	95	0	81	13	0	22	64	1.28
2328580--2328661	15	5.5	15	86	2	112	36	7	20	35	1.81
2328574--2328661	45	2.0	44	90	2	140	38	6	21	32	1.80
2328580--2328661	30	2.8	30	92	1	130	36	7	20	35	1.81
2328644--2328693	20	2.5	20	100	0	100	40	10	16	34	1.81
2328893--2328994	30	3.5	28	78	17	93	51	1	0	45	1.19
2328892--2329038	28	4.9	28	70	15	82	51	1	1	46	1.18
2328979--2329042	19	3.8	16	70	22	58	50	0	1	48	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2328896--2329057	31	5.4	30	74	16	99	52	1	1	45	1.16
2329011--2329056	10	4.5	10	78	21	51	58	0	0	41	0.98
2329012--2329068	22	2.6	22	84	10	73	54	0	0	45	0.99
2329019--2329068	21	2.3	21	86	10	66	54	0	0	46	1.00
2329257--2329371	42	2.7	42	95	0	203	46	20	17	16	1.85
2329916--2329950	2	17.5	2	100	0	70	48	0	51	0	1.00
2330883--2330914	17	1.9	17	93	6	57	34	0	0	65	0.93
2332647--2332758	10	11.1	10	67	22	56	11	10	17	59	1.59
2332671--2332731	14	3.9	14	75	22	59	8	11	19	60	1.55
2332684--2332746	20	3.5	20	73	24	75	9	12	19	58	1.61
2332671--2332755	34	2.5	34	98	0	161	9	11	20	58	1.60
2332699--2332745	24	2.0	24	82	0	58	8	12	21	57	1.62
2332684--2332757	20	4.0	20	73	20	70	10	12	18	58	1.63
2334806--2334846	18	2.3	18	95	4	75	65	0	29	4	1.13
2337594--2337661	23	3.0	23	80	0	91	33	23	23	19	1.97
2339302--2339344	17	2.6	16	78	7	50	39	25	0	34	1.56
2341972--2342040	23	3.0	23	78	0	84	31	24	24	18	1.98
2342525--2342593	23	3.0	23	82	0	93	31	26	24	17	1.97
2341911--2343012	553	2.0	553	98	0	2150	31	21	15	31	1.94
2346621--2346679	31	1.9	31	89	6	93	47	6	3	42	1.46
2360379--2360408	13	2.3	13	100	0	60	10	23	33	33	1.88
2363393--2363426	14	2.4	15	85	14	54	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2364362--2364410	22	2.2	22	88	0	71	46	0	0	53	1.00
2364360--2364418	30	1.9	32	89	6	95	49	0	0	50	1.00
2364374--2364480	21	5.1	21	71	20	73	50	0	1	47	1.11
2364370--2364440	22	3.3	22	79	13	67	52	0	0	47	1.00
2364367--2364430	21	3.2	19	77	16	51	51	0	0	48	1.00
2371705--2371786	42	2.0	42	90	0	128	32	20	21	24	1.98
2371707--2371908	43	4.8	43	78	7	184	32	17	23	25	1.97
2375634--2376132	41	12.1	41	82	3	493	34	17	19	28	1.95
2375634--2376073	206	2.1	206	84	2	555	34	16	20	28	1.94
2377626--2377703	29	2.6	30	82	10	97	24	43	17	14	1.86
2377651--2377707	29	2.0	29	96	0	105	24	42	21	12	1.87
2377722--2377760	18	2.1	19	95	4	71	0	56	17	25	1.41
2377880--2377944	33	2.0	32	96	3	121	30	12	29	27	1.93
2377987--2378049	26	2.3	27	86	10	92	50	7	34	6	1.57
2378044--2378090	14	3.5	13	77	11	51	57	0	40	2	1.11
2378545--2378575	15	2.1	14	94	5	53	38	0	6	54	1.26
2380817--2381000	21	8.3	21	64	20	81	49	8	0	41	1.33
2380806--2380968	48	3.4	48	93	1	263	47	9	0	42	1.36
2380903--2381776	60	14.2	60	77	12	744	45	12	1	41	1.49
2380855--2381772	169	5.4	169	79	12	972	45	11	1	41	1.48
2380985--2381073	22	4.3	22	65	23	57	44	12	0	42	1.42
2381083--2381769	109	6.1	109	72	18	518	45	11	1	41	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2381153--2381297	21	7.2	21	64	21	60	47	11	0	41	1.39
2381267--2381353	21	3.8	22	68	20	61	48	13	0	37	1.43
2381262--2381377	49	2.3	49	98	1	223	44	14	0	40	1.45
2381322--2381409	21	4.3	20	67	16	56	47	12	0	39	1.41
2381361--2381445	21	4.2	21	66	19	54	45	12	0	41	1.42
2381519--2381566	14	3.6	14	78	16	57	47	14	0	37	1.44
2381518--2381624	25	4.6	22	72	17	74	48	12	0	39	1.40
2381538--2381649	48	2.3	49	90	3	172	47	11	0	41	1.40
2381595--2381663	36	1.9	36	82	5	86	46	11	0	42	1.40
2381633--2381723	21	4.5	21	72	18	84	45	10	0	43	1.39
2383529--2383558	5	6.0	5	96	0	51	56	0	0	43	0.99
2384278--2384337	28	2.1	28	93	6	104	56	13	0	30	1.37
2384760--2384803	23	1.9	23	95	0	79	29	27	20	22	1.99
2384867--2384949	29	2.9	29	87	0	103	15	24	37	22	1.93
2384959--2384992	16	2.1	16	100	0	68	5	11	55	26	1.58
2386656--2386690	11	3.2	11	91	0	61	51	0	20	28	1.47
2387166--2387210	2	22.5	2	100	0	90	0	51	0	48	1.00
2392907--2392954	23	2.1	23	100	0	96	27	16	27	29	1.97
2399180--2399208	12	2.3	13	94	5	51	72	13	0	13	1.13
2400400--2400481	30	2.7	32	87	9	118	37	2	19	40	1.65
2400494--2400535	19	2.1	19	86	8	57	50	0	2	47	1.14
2400505--2400545	19	2.2	19	90	0	64	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2402171--2402204	14	2.4	14	90	5	50	47	2	0	50	1.16
2402707--2402747	21	2.0	20	85	4	55	39	0	4	56	1.21
2407331--2407359	2	14.5	2	100	0	58	51	0	0	48	1.00
2410277--2410323	20	2.5	19	90	10	78	36	27	14	21	1.93
2411644--2411704	22	2.8	22	100	0	122	36	0	13	50	1.41
2411729--2411787	31	1.9	31	92	0	100	42	10	6	40	1.65
2412377--2412438	32	2.0	31	87	3	88	43	11	0	45	1.40
2414929--2414984	2	28.0	2	100	0	112	50	0	0	50	1.00
2416535--2416625	13	6.9	13	84	9	114	30	31	0	37	1.58
2416547--2416623	20	4.0	20	91	6	115	31	32	0	36	1.58
2416536--2416625	33	2.7	33	85	8	121	31	31	0	37	1.58
2418107--2418147	19	2.2	18	86	4	55	65	2	2	29	1.18
2421551--2421581	2	16.0	2	93	6	55	48	0	0	51	1.00
2426340--2426389	25	2.0	25	96	0	91	32	22	20	26	1.98
2427001--2427063	24	2.6	25	76	18	71	30	23	26	19	1.98
2428094--2428144	25	2.0	26	81	11	61	41	23	1	33	1.66
2438815--2438906	32	2.8	32	85	4	114	45	15	5	33	1.69
2439261--2439317	29	2.0	28	86	3	78	40	17	5	36	1.72
2439359--2439418	26	2.3	26	80	11	61	31	6	16	45	1.74
2446428--2446474	23	2.0	23	83	0	58	42	2	4	51	1.33
2448254--2448307	25	2.3	23	81	9	65	50	0	3	46	1.19
2448416--2448478	29	2.1	30	85	2	83	49	0	4	46	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2448492--2448532	10	4.1	10	79	20	50	53	0	0	46	1.00
2456815--2456848	10	3.4	10	87	0	50	14	11	14	58	1.63
2456832--2456887	23	2.4	24	81	6	69	8	8	19	62	1.51
2458790--2458818	2	14.5	2	100	0	58	48	0	0	51	1.00
2460325--2460368	19	2.2	20	80	11	56	13	34	6	45	1.70
2463589--2463625	15	2.5	15	100	0	74	37	29	16	16	1.90

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

The End!