genome.fa.s1840.2.7.7.80.10.50.1000.3.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: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2412736

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

This is table  3  of  12  ( 1360 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)
433223--433301	39	2.0	39	82	0	95	31	15	15	37	1.88
433314--433389	39	1.9	39	86	5	109	28	17	19	34	1.94
433363--433557	76	2.6	72	80	10	216	31	15	15	37	1.89
433510--433811	39	8.0	39	86	5	291	28	18	15	38	1.91
433593--433982	36	11.0	36	76	12	249	27	20	13	38	1.90
433512--433982	78	6.5	74	76	13	312	28	19	14	38	1.90
433613--433999	101	3.7	102	80	6	366	28	20	12	38	1.90
433856--433980	66	1.9	66	83	3	162	28	21	12	37	1.90
434501--434764	91	2.9	91	88	1	377	39	15	21	23	1.91
434958--435052	30	3.2	30	92	0	145	29	33	2	34	1.70
441565--441643	39	2.0	39	82	0	95	32	16	15	35	1.90
441590--441703	60	1.9	60	87	3	167	30	16	17	35	1.92
441650--441731	39	2.1	39	84	4	103	26	17	20	35	1.95
441695--441908	76	2.9	75	83	8	260	32	16	14	36	1.88
441857--442273	36	11.1	37	89	4	434	27	19	14	38	1.91
441650--442273	72	8.3	77	82	7	370	28	18	15	37	1.91
441852--442269	117	3.7	117	84	6	341	27	19	15	37	1.92
442252--442330	29	2.8	29	94	1	142	30	18	10	40	1.84
442338--442462	66	1.9	66	86	3	180	26	21	14	37	1.92
442310--442487	36	5.1	36	75	10	172	26	21	13	38	1.90
442983--443246	91	2.9	91	89	1	377	38	15	21	24	1.92
443440--443522	29	2.8	29	92	3	130	31	30	2	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446176--446233	31	1.9	31	86	6	84	17	17	10	55	1.69
446680--446709	15	1.9	16	93	6	53	26	16	10	46	1.78
449903--450472	39	15.0	39	78	8	383	28	17	15	38	1.90
449983--450127	76	1.9	77	87	4	213	29	15	14	40	1.86
450135--450563	39	11.7	36	79	10	311	27	18	15	38	1.91
451052--451325	91	3.0	90	86	1	359	40	14	21	24	1.90
451159--451222	17	3.2	20	63	20	53	43	10	21	23	1.84
451474--451557	30	2.8	30	85	7	116	28	34	2	34	1.70
458270--458351	39	2.1	39	84	4	103	26	17	19	36	1.94
458325--458519	76	2.6	73	80	11	220	31	15	14	37	1.88
458510--458568	19	3.0	20	66	14	59	28	16	15	38	1.89
458472--458809	39	9.0	39	87	3	349	28	18	15	38	1.90
458503--458565	20	3.2	20	69	13	67	31	17	15	34	1.92
458474--458998	36	14.6	38	78	9	389	28	19	13	38	1.90
458614--458980	101	3.5	102	82	5	405	29	20	12	38	1.89
459390--459476	30	2.9	29	88	6	120	28	31	4	35	1.78
461645--461688	21	1.9	23	82	17	56	43	9	2	45	1.48
462461--462509	22	2.1	24	85	7	66	57	10	18	14	1.65
462905--463168	91	2.9	91	88	2	370	39	14	21	24	1.91
463360--463426	30	2.2	30	91	0	116	28	37	2	31	1.72
465589--465632	21	1.9	23	82	17	56	43	9	2	45	1.48
466404--466452	22	2.1	24	85	7	66	57	10	18	14	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466690--466723	2	17.0	2	100	0	68	50	0	0	50	1.00
471501--471539	13	2.9	14	92	3	62	17	17	38	25	1.92
473005--473332	111	3.0	111	94	2	558	45	11	7	36	1.68
473393--473433	18	2.3	18	91	4	66	63	2	4	29	1.28
473636--473766	50	2.6	50	80	2	147	20	26	33	19	1.96
479077--479135	31	1.9	31	82	6	75	45	10	3	40	1.54
490154--490199	19	2.4	21	76	23	57	54	8	4	32	1.51
498888--499040	43	3.5	45	76	11	142	26	18	18	35	1.95
501838--501871	16	2.1	16	100	0	68	38	8	11	41	1.73
505043--505374	113	2.9	112	88	3	477	28	19	14	37	1.91
516779--516837	28	2.2	26	78	6	64	61	1	5	32	1.28
527910--528029	42	2.9	42	97	0	222	15	20	19	45	1.86
528218--528276	21	2.8	22	85	10	79	45	0	0	54	0.99
528229--528389	56	2.7	59	74	18	138	45	1	1	51	1.17
528211--528334	27	4.6	27	66	21	73	48	0	0	50	1.12
528248--528389	56	2.5	60	74	22	144	47	1	1	50	1.18
528550--528619	20	3.5	20	92	0	122	35	12	10	41	1.77
528550--528628	40	2.0	40	87	0	113	35	13	8	41	1.76
528602--528683	15	5.5	15	85	2	112	35	18	7	39	1.78
528602--528683	30	2.8	30	92	1	130	35	18	7	39	1.78
528602--528688	45	2.0	44	90	6	140	33	18	6	41	1.77
531618--531676	29	2.1	27	93	6	100	49	23	13	13	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533167--534313	106	10.9	106	88	2	1594	23	18	24	33	1.97
534490--534695	36	5.8	37	70	17	168	35	14	21	28	1.93
534629--534713	37	2.3	38	81	2	100	35	14	21	29	1.92
534684--534867	72	2.5	72	84	2	244	39	14	17	28	1.90
535693--535735	22	2.0	22	95	0	77	25	11	23	39	1.88
536314--536386	9	9.0	8	71	18	53	0	13	9	76	1.01
536314--536345	16	2.0	16	93	0	55	0	15	6	78	0.95
536325--536369	11	3.8	11	80	13	54	0	6	8	84	0.78
536314--536375	17	3.8	16	77	14	54	0	11	8	80	0.90
539509--539572	29	2.3	29	92	7	107	51	21	14	12	1.75
540535--540564	9	3.3	9	90	0	51	50	0	6	43	1.28
541068--541175	31	3.5	31	76	2	108	37	31	13	17	1.89
541105--541151	16	3.0	15	78	9	58	36	31	12	19	1.89
541106--541202	32	3.1	32	72	3	97	39	27	12	20	1.89
541075--541208	63	2.1	63	87	0	196	38	29	11	20	1.87
546633--546880	124	2.0	124	95	0	451	35	10	12	41	1.77
549729--549793	23	2.8	24	90	4	96	43	1	1	53	1.19
550726--550750	10	2.5	10	100	0	50	52	0	8	40	1.31
555400--555445	24	2.0	23	87	12	67	73	4	0	21	1.00
556198--557372	587	2.0	587	100	0	2350	31	16	19	32	1.95
557603--557641	18	2.2	17	86	4	51	23	0	2	74	0.94
558252--558299	24	2.0	24	88	8	71	58	4	0	37	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558545--558582	21	1.9	21	89	10	62	42	2	0	55	1.14
559708--559773	35	2.0	33	88	8	98	7	45	3	43	1.47
560334--560365	12	2.7	12	100	0	64	75	0	25	0	0.81
565142--565187	22	2.1	22	95	0	83	34	19	21	23	1.96
566388--566421	7	5.0	7	96	3	61	58	0	41	0	0.98
569929--569974	22	2.1	22	95	0	83	34	19	21	23	1.96
572340--572369	3	9.7	3	92	7	51	0	33	0	66	0.92
572583--572705	64	1.9	63	98	1	237	45	9	21	23	1.81
579683--579735	17	3.1	17	83	5	70	22	18	30	28	1.98
581744--581846	51	2.0	51	81	7	118	33	17	5	43	1.73
586285--586470	92	2.0	93	94	1	329	46	24	12	16	1.82
586450--586494	2	22.5	2	100	0	90	51	48	0	0	1.00
586814--586872	31	1.9	31	89	0	91	27	18	10	44	1.82
587139--587264	65	2.0	64	87	6	184	29	11	15	43	1.81
587139--587296	65	2.4	64	83	8	160	28	13	15	43	1.84
587272--587399	38	3.5	34	81	13	141	33	16	14	35	1.89
587492--587729	133	1.8	131	81	7	302	28	31	17	22	1.96
587937--587971	3	11.7	3	87	0	52	28	2	2	65	1.21
593738--593827	31	2.9	31	91	3	137	21	20	23	35	1.96
598192--598347	31	5.0	31	93	1	251	20	18	22	38	1.93
602715--602870	31	5.0	31	92	1	251	19	18	22	39	1.93
607237--607392	31	5.0	31	94	1	260	19	18	23	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616826--616994	55	3.1	54	86	5	227	28	18	22	30	1.97
617223--617256	13	2.6	13	85	0	50	26	2	0	70	1.01
617214--617262	23	2.1	23	82	14	57	24	4	0	71	1.03
617400--617842	212	2.1	212	86	5	617	33	16	16	34	1.91
617616--618163	256	2.2	255	88	2	807	33	16	17	33	1.92
618536--618642	42	2.6	41	86	2	151	32	22	19	25	1.97
617934--618719	240	3.3	238	84	2	1051	34	17	14	33	1.90
620187--620243	20	3.0	20	82	7	82	26	29	22	21	1.99
623053--623124	17	4.1	18	70	22	55	2	19	0	77	0.88
623077--623107	13	2.4	13	100	0	62	0	12	0	87	0.55

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