genome.fa.s8372.2.7.7.80.10.50.1000.3.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: VEPZ01008372.1 Hibiscus syriacus cultivar Beakdansim tig00111128_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1214897

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 660 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)
369222--369344	42	2.9	41	80	7	140	25	21	34	19	1.96
369622--369671	21	2.4	21	93	0	82	30	28	20	22	1.98
372006--372253	60	4.1	60	76	11	231	21	16	21	40	1.91
372008--372215	20	10.4	19	74	12	127	22	15	22	40	1.91
372213--372251	20	2.0	20	89	0	60	23	20	15	41	1.90
372054--372300	120	2.1	120	82	4	293	21	17	23	37	1.94
373094--373808	358	2.0	358	98	0	1394	40	12	15	31	1.85
379736--379763	11	2.5	11	100	0	56	14	25	32	28	1.94
386280--386317	15	2.5	15	91	0	58	47	31	2	18	1.62
387330--387393	23	2.8	22	83	4	74	26	26	25	21	2.00
387409--387626	103	2.1	103	96	0	400	36	23	14	25	1.93
388075--388202	64	2.0	67	89	7	201	27	19	18	34	1.95
388087--388247	64	2.5	63	82	5	180	26	21	18	34	1.96
392278--392358	24	3.4	25	71	19	73	22	22	22	33	1.97
393375--393424	19	2.7	18	87	6	73	50	2	16	32	1.56
393375--393439	19	3.5	18	83	6	58	46	4	18	30	1.69
393461--393520	13	4.7	13	79	4	68	51	0	25	23	1.48
393443--393520	25	3.0	25	83	11	77	51	1	24	23	1.56
393550--393632	39	2.1	39	90	0	130	22	6	20	50	1.70
395840--395914	25	3.0	25	90	0	114	24	22	21	32	1.98
399188--399234	14	3.5	13	80	13	51	40	2	2	55	1.24
399916--399952	14	2.8	14	84	12	51	24	5	5	64	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
403180--403211	15	2.1	15	94	0	55	31	21	6	40	1.78
410552--410592	21	2.0	21	85	0	55	78	0	19	2	0.87
410907--410951	16	2.8	16	83	10	56	28	8	6	55	1.56
411753--412376	83	7.5	83	94	2	1024	27	13	21	36	1.91
413094--413770	116	5.9	116	95	0	1155	36	12	21	29	1.91
414087--414145	3	19.7	3	92	0	100	33	3	0	62	1.12
414299--414337	16	2.5	16	95	4	71	7	58	17	15	1.59
414504--414542	19	2.0	20	95	5	71	61	5	33	0	1.18
415502--415548	14	3.5	13	80	13	51	40	2	2	55	1.24
416959--416989	2	15.5	2	93	0	53	51	0	0	48	1.00
418015--418096	17	4.8	16	72	17	58	47	2	2	47	1.28
418032--418096	35	1.9	35	84	6	89	49	1	3	46	1.27
419951--419982	2	16.0	2	100	0	64	50	0	0	50	1.00
425345--425378	15	2.3	15	94	0	59	32	32	20	14	1.93
425905--426061	64	2.5	64	77	12	162	27	17	21	33	1.96
433574--433607	15	2.3	15	89	0	50	32	29	20	17	1.96
434134--434290	64	2.5	64	77	12	162	27	17	21	33	1.96
436354--436378	13	1.9	13	100	0	50	28	8	24	40	1.83
436357--436400	11	3.7	11	82	11	52	22	9	22	45	1.80
436484--436535	26	2.0	26	100	0	104	30	11	11	46	1.76
441415--441476	24	2.6	24	79	2	81	20	27	25	25	1.99
442167--442201	11	3.2	11	87	0	52	28	11	28	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442272--442324	12	4.6	12	83	9	74	16	13	20	49	1.79
442272--442333	22	2.8	23	83	9	76	17	14	19	48	1.81
443299--443371	32	2.3	32	95	0	128	28	19	30	21	1.98
446075--446132	21	2.8	21	81	0	80	31	36	20	12	1.89
457822--457873	21	2.8	19	77	19	56	55	0	38	5	1.24
457839--457870	16	1.9	17	93	6	57	56	0	37	6	1.25
462205--462519	9	35.4	9	67	22	118	48	5	3	42	1.42
462208--462523	11	30.2	10	68	19	80	49	5	3	42	1.41
462229--462527	13	23.2	13	68	19	123	48	5	3	42	1.42
462252--462442	17	11.5	17	71	16	78	49	5	3	41	1.41
462205--462544	2	162.5	2	68	17	158	48	5	3	42	1.43
462492--462581	22	4.2	22	68	16	62	44	6	5	43	1.53
462630--462725	22	4.6	20	67	18	61	44	3	3	48	1.34
462664--462738	22	3.5	22	81	9	100	45	1	4	49	1.29
464958--465014	19	2.8	20	78	10	71	21	17	31	29	1.96
471312--471363	21	2.8	19	77	19	56	55	0	38	5	1.24
471329--471360	16	1.9	17	93	6	57	56	0	37	6	1.25
475695--476036	9	38.4	9	63	26	74	47	5	3	43	1.41
475697--475731	19	1.9	17	88	11	52	51	2	2	42	1.31
475704--476044	11	32.3	11	66	19	79	47	5	3	43	1.42
475744--475839	43	2.2	42	85	5	129	47	7	3	41	1.47
475702--476038	33	10.6	31	73	16	203	47	5	3	43	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475695--476061	2	176.5	2	66	18	128	47	5	3	44	1.42
476009--476098	22	4.2	22	68	16	62	44	6	5	43	1.53
476147--476236	22	4.2	22	66	18	64	47	2	2	47	1.26
476191--476250	20	2.9	20	87	5	75	45	1	3	50	1.28
476181--476255	22	3.5	22	81	9	100	45	1	4	49	1.29
478471--478527	19	2.8	20	78	10	71	21	17	31	29	1.96
481244--481340	44	2.2	44	83	7	117	27	18	22	30	1.97
487018--487069	19	2.7	19	93	0	86	21	17	36	25	1.94
488500--488537	20	1.9	20	88	0	58	34	18	21	26	1.96
490083--490146	23	2.8	23	92	0	101	15	25	26	32	1.95
491350--491385	18	2.0	18	94	0	63	22	19	30	27	1.98
492276--492462	102	1.8	103	84	7	256	33	30	4	31	1.77
492264--492713	98	4.6	96	75	12	315	35	28	3	32	1.74
492423--492596	92	1.9	93	85	3	244	31	27	4	36	1.77
493212--493246	2	17.5	2	100	0	70	48	0	0	51	1.00
495765--495850	29	2.9	30	70	19	90	43	6	3	46	1.47
504605--504640	18	2.0	18	94	0	63	52	5	33	8	1.55
511900--512083	92	2.0	92	100	0	368	50	5	8	35	1.57
517476--517508	17	1.9	17	93	0	57	45	12	9	33	1.73
517535--517582	20	2.3	21	78	7	53	27	20	12	39	1.89
524255--524442	41	4.6	41	77	9	168	31	16	19	32	1.94
524255--524485	82	2.8	82	83	4	252	32	15	19	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
524377--524485	41	2.7	41	95	0	191	34	13	19	32	1.91
524255--524525	82	3.3	81	77	11	221	32	15	19	32	1.93
524297--524527	41	5.6	40	78	9	150	33	13	20	32	1.92
534258--534353	3	32.0	3	84	8	124	37	0	0	62	0.95
535528--535555	13	2.2	13	100	0	56	32	0	7	60	1.24
535762--535812	14	3.6	14	80	12	52	31	0	1	66	1.03
536727--536765	13	3.1	13	81	7	53	20	0	2	76	0.90
539598--539622	12	2.1	12	100	0	50	56	0	32	12	1.36
547605--547640	17	2.1	17	100	0	72	33	5	5	55	1.46
548260--548344	22	3.9	22	88	0	116	38	14	10	36	1.80
548846--548909	20	3.2	20	63	20	53	42	9	23	25	1.84
548841--549281	122	3.6	122	88	3	656	39	13	19	26	1.89
549091--549154	20	3.2	20	63	20	53	42	9	23	25	1.84
548715--549281	245	2.4	234	87	4	794	39	14	18	27	1.90
549643--549739	3	32.0	3	81	12	92	37	0	2	60	1.08
549643--549739	23	4.1	23	77	13	81	37	0	2	60	1.08
551017--551107	14	6.5	13	69	18	51	30	2	4	62	1.27
551061--551111	14	3.6	14	80	12	52	31	0	1	66	1.03
556973--557035	16	4.0	16	83	6	67	33	11	26	28	1.91
557107--557172	23	2.9	23	95	0	114	22	22	19	34	1.96
566663--566715	3	17.7	3	100	0	106	67	0	0	32	0.91
567547--567600	28	1.9	28	84	0	72	51	29	11	7	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570456--570496	21	2.0	21	85	0	55	53	12	9	24	1.68
574687--574726	18	2.2	19	86	4	55	75	0	12	12	1.06
578636--578670	16	2.1	17	89	5	54	74	0	8	17	1.06
580286--580427	47	3.0	46	88	5	212	29	16	22	30	1.96
581056--581136	42	2.0	41	90	2	126	34	22	20	22	1.97
580449--581449	248	4.0	249	93	0	1675	34	17	16	30	1.93
581902--581951	25	2.0	25	100	0	100	28	16	24	32	1.96
584138--584174	9	4.1	9	89	0	56	0	10	0	89	0.49
590183--590239	20	2.8	20	75	19	64	73	1	3	21	1.07
593473--593540	23	3.0	23	82	0	82	19	26	26	27	1.99

Tables:   1   2   3   4   5   6