genome.fa.s7879.2.7.7.80.10.50.1000.2.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: VEPZ01007879.1 Hibiscus syriacus cultivar Beakdansim tig00110257_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1117421

Tables:   1   2   3   4   

This is table  2  of  4  ( 467 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)
363414--363530	21	5.6	21	73	8	103	21	33	18	26	1.97
363419--363530	42	2.7	42	81	0	125	21	33	18	25	1.96
365048--365125	20	3.9	20	91	0	120	43	21	17	16	1.88
365164--365314	20	7.8	20	82	8	188	25	18	21	34	1.96
365164--365314	40	3.9	40	84	10	215	25	18	21	34	1.96
365156--365302	74	2.0	74	93	2	251	23	18	22	36	1.95
365285--365528	129	1.9	129	96	1	454	40	15	13	29	1.86
365604--365637	18	1.9	17	94	5	59	17	2	23	55	1.55
367885--367938	24	2.2	24	93	0	90	40	20	18	20	1.91
367885--367952	24	2.8	24	84	0	64	38	20	17	23	1.93
368759--368882	20	6.3	20	81	7	155	24	17	29	28	1.97
368972--369008	19	1.9	19	88	0	56	24	16	27	32	1.96
372926--373289	182	2.0	182	98	0	701	26	23	19	29	1.98
385747--385786	17	2.4	17	87	4	55	50	0	0	50	1.00
385805--385837	14	2.4	14	94	0	57	36	0	6	57	1.23
386165--386199	18	1.9	18	88	0	52	40	0	2	57	1.14
390167--390302	52	2.6	53	92	1	229	31	9	18	40	1.83
395309--395391	40	2.0	42	84	9	109	39	2	1	56	1.20
396003--396035	2	17.0	2	93	6	59	48	0	0	51	1.00
397171--397222	24	2.2	24	100	0	104	28	15	30	25	1.96
399801--399833	15	2.3	15	89	5	50	15	3	30	51	1.58
401919--401961	16	2.5	17	81	11	61	34	0	6	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402959--402996	2	19.0	2	100	0	76	50	0	0	50	1.00
402996--403020	2	12.5	2	100	0	50	52	0	48	0	1.00
404157--404196	21	2.0	20	90	5	62	52	2	0	45	1.14
408054--408093	20	2.0	20	90	0	62	20	15	20	45	1.86
408137--408183	12	3.7	12	81	15	58	46	17	19	17	1.84
410477--410516	21	1.9	21	94	0	71	30	15	7	47	1.72
410511--410609	33	3.0	33	94	1	164	32	7	15	45	1.73
410595--410649	13	4.2	13	75	13	58	34	3	12	49	1.59
410915--410972	20	2.8	20	92	5	89	17	25	36	20	1.94
411213--411244	16	2.0	17	88	11	50	43	21	21	12	1.86
419273--419299	4	6.8	4	100	0	54	25	0	0	74	0.83
420783--420835	15	3.4	15	71	19	54	35	7	47	9	1.64
420770--420939	32	5.3	32	88	6	247	37	4	47	10	1.59
420768--420969	33	6.3	32	82	13	133	36	5	47	9	1.61
420770--420969	32	6.2	32	84	10	198	37	6	47	10	1.62
424775--424839	23	2.8	23	84	9	87	16	23	38	21	1.93
425809--425849	18	2.3	18	91	0	64	2	29	26	41	1.69
427338--427399	23	2.7	23	85	2	81	22	24	29	24	1.99
427318--427399	22	3.7	22	79	6	76	23	24	26	25	2.00
446580--446633	20	2.8	20	97	2	101	55	0	0	44	0.99
446794--446832	14	2.9	14	84	3	53	41	0	0	58	0.98
446778--446832	23	2.4	23	84	3	67	38	0	3	58	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451042--451095	17	3.2	17	73	5	56	40	0	1	57	1.09
451038--451116	34	2.3	34	93	4	133	40	1	1	56	1.15
458734--458766	14	2.4	14	94	0	57	30	30	6	33	1.82
464359--464388	2	15.0	2	100	0	60	50	0	0	50	1.00
465533--465652	60	2.0	59	95	1	213	41	9	6	42	1.63
466248--466461	96	2.2	96	89	0	329	37	11	24	26	1.90
472594--472660	25	2.7	25	95	0	125	31	34	13	20	1.92
472752--472806	12	4.6	12	83	0	65	12	14	47	25	1.80
472804--472903	2	53.0	2	72	11	68	48	0	0	52	1.00
472919--472955	12	3.0	12	92	4	56	10	16	54	18	1.71
482501--482609	28	3.6	30	77	10	98	47	0	2	49	1.15
482501--482610	31	3.7	31	73	17	92	47	0	2	50	1.15
482640--482712	23	3.1	23	73	9	67	43	1	0	54	1.08
482790--482899	55	2.1	52	83	11	134	46	1	1	50	1.22
482931--482976	24	1.9	23	83	16	58	50	0	2	47	1.13
486762--486815	26	2.1	26	82	0	63	46	7	3	42	1.49
487473--487523	26	2.0	26	88	0	75	41	13	9	35	1.78
490067--490158	41	2.3	40	76	8	100	47	1	0	51	1.07
490531--490565	15	2.2	16	90	5	54	60	0	2	37	1.12
495457--495498	21	2.0	21	100	0	84	23	19	28	28	1.98
496710--496758	20	2.5	19	80	6	62	53	6	10	30	1.59
498372--498413	21	2.0	21	95	0	75	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500497--500588	2	46.0	2	100	0	184	50	0	0	50	1.00
503475--503524	17	3.4	17	65	35	51	6	8	28	58	1.51
503451--503528	27	2.9	27	90	5	115	8	7	28	55	1.59
504086--504155	4	17.0	4	89	5	97	72	0	2	24	0.98
504082--504159	34	2.3	33	89	6	113	73	0	2	24	0.96
504086--504160	38	2.0	38	92	5	125	73	0	2	24	0.96
504180--504407	38	6.2	38	75	12	165	46	7	2	42	1.45
504155--504409	38	7.0	35	72	16	162	47	8	1	42	1.44
504394--504426	2	17.0	2	93	6	59	51	0	0	48	1.00
504695--504740	22	2.1	22	84	8	58	36	4	2	56	1.31
505720--505831	32	2.9	41	71	25	125	22	19	23	34	1.96
506402--506460	6	10.3	6	94	1	70	0	16	47	35	1.47
506742--506779	2	19.0	2	94	0	67	47	0	0	52	1.00
509621--509650	4	7.5	4	100	0	60	76	0	0	23	0.78
511897--511984	43	2.0	43	95	0	158	44	6	1	47	1.37
513609--513648	21	1.9	21	94	0	71	10	32	25	32	1.89
514831--514889	27	2.2	27	85	11	77	30	3	22	44	1.69
526095--526119	3	8.3	3	100	0	50	36	0	0	64	0.94
528052--528096	21	2.1	21	100	0	90	46	4	22	26	1.70
528418--528504	46	1.9	45	92	2	147	39	13	14	32	1.86
540824--540864	2	20.5	2	100	0	82	51	0	0	48	1.00
545272--545336	31	2.0	31	82	8	76	44	6	7	41	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555600--555645	24	2.0	24	91	4	76	50	13	6	30	1.66
555600--555668	23	3.0	23	82	4	75	44	14	10	30	1.78
555629--555678	23	2.2	23	85	0	64	42	14	16	28	1.86
559672--559739	29	2.3	29	97	0	127	25	5	25	44	1.76
563528--563555	12	2.3	12	100	0	56	53	14	17	14	1.73
570490--570523	2	17.5	2	93	6	61	50	0	0	50	1.00
573997--574362	183	2.0	183	100	0	732	30	16	24	27	1.97
575063--575101	20	2.0	20	85	10	53	20	35	0	43	1.52
576456--576633	89	2.0	89	100	0	356	46	12	20	21	1.83
580960--580993	16	2.1	17	94	5	61	29	23	11	35	1.90
592754--592828	38	2.0	37	84	5	98	48	4	1	46	1.29
593715--593842	20	6.0	20	70	14	71	50	3	0	44	1.25
593720--593845	43	2.9	44	76	11	136	52	3	0	42	1.25
597075--597156	27	2.9	27	80	5	92	37	1	1	59	1.13
597075--597187	58	2.0	58	84	5	149	39	0	1	57	1.15
597296--597363	31	2.2	31	86	0	91	51	8	7	32	1.61
599785--599815	15	2.1	15	100	0	62	67	0	19	12	1.22
611652--611717	33	1.9	35	82	11	84	25	12	3	59	1.47
612464--612507	2	22.0	2	100	0	88	50	0	0	50	1.00
613447--613475	2	14.5	2	100	0	58	48	0	0	51	1.00
614225--614288	28	2.3	28	94	0	110	37	12	1	48	1.51
627493--627579	32	2.8	32	78	3	106	43	6	10	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
628192--628232	21	2.0	21	85	0	55	53	2	7	36	1.42
629755--629811	30	1.9	30	82	7	71	63	10	3	22	1.42
630224--630313	29	3.1	29	75	10	71	38	2	3	55	1.29
636385--636414	15	2.0	15	100	0	60	40	20	0	40	1.52
636389--636422	15	2.3	15	89	0	50	44	14	0	41	1.45
638560--638596	12	3.2	11	85	14	56	62	0	37	0	0.96
638846--638887	21	2.0	21	95	0	75	33	26	19	21	1.97
639056--639109	20	2.8	20	97	2	101	46	5	12	35	1.66
643931--643961	2	15.5	2	100	0	62	0	48	0	51	1.00
652864--652916	27	2.0	27	100	0	106	30	3	24	41	1.72

Tables:   1   2   3   4