genome.fa.s7999.2.7.7.80.10.50.1000.3.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  3  of  50  ( 5918 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)
460929--461507	112	5.2	113	94	2	969	37	13	18	30	1.89
461813--461875	3	20.7	3	90	9	101	33	0	0	66	0.92
461805--461875	33	2.3	32	86	11	103	32	0	0	67	0.91
466748--466802	2	27.5	2	100	0	110	49	0	0	50	1.00
478024--478186	88	1.9	88	86	2	238	26	26	22	25	2.00
480016--480072	23	2.4	25	88	8	84	70	0	5	24	1.08
480438--480494	14	4.1	14	78	12	57	1	45	0	52	1.11
481284--481322	20	2.0	20	85	10	53	51	2	2	43	1.29
483934--483997	22	2.9	21	77	15	58	42	37	1	18	1.60
489087--489328	99	2.5	100	89	4	359	30	19	18	32	1.95
493204--493255	20	2.7	19	75	13	52	80	1	9	7	0.97
493227--493264	17	2.2	17	100	0	76	78	0	10	10	0.95
493540--493667	43	3.0	43	84	4	145	31	18	18	31	1.95
493540--493667	42	3.0	42	82	2	148	31	18	18	31	1.95
493804--493870	34	2.0	34	90	0	107	52	2	25	19	1.60
496741--497184	41	10.9	40	77	9	166	27	17	18	36	1.93
496739--497184	82	5.4	81	78	7	366	27	17	17	36	1.93
500548--500656	43	2.6	43	77	4	123	42	16	11	30	1.83
508341--508516	90	2.0	89	93	1	298	44	6	11	36	1.67
511502--511684	90	2.0	90	87	2	258	30	18	18	32	1.95
519763--519844	22	3.7	22	80	6	85	25	29	24	20	1.99
519763--519830	22	3.0	23	89	4	95	23	26	27	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521915--521939	13	1.9	13	100	0	50	40	0	16	44	1.47
522747--522788	10	4.2	10	84	9	50	59	19	11	9	1.59
524787--524833	13	3.6	13	94	0	76	38	19	10	31	1.86
524838--525026	85	2.2	84	86	7	274	29	19	18	32	1.96
525083--525133	2	25.5	2	91	0	84	52	0	0	47	1.00
526947--526976	12	2.6	12	94	5	53	70	10	6	13	1.34
527558--527637	26	3.1	25	67	7	70	2	40	3	53	1.32
531445--531500	15	3.7	15	85	2	67	8	19	10	60	1.55
548658--548697	20	2.0	20	95	0	71	15	32	35	17	1.91
553763--553797	17	2.1	17	89	10	54	60	0	17	22	1.37
553827--553877	17	2.9	18	76	2	59	64	7	17	9	1.46
554377--554402	12	2.2	12	100	0	52	53	7	15	23	1.67
554839--554880	19	2.3	19	95	4	77	30	0	23	45	1.53
555411--555462	20	2.5	22	78	12	56	30	25	17	26	1.97
555998--556059	29	2.1	30	84	3	81	41	3	19	35	1.67
557801--557849	24	2.0	24	96	0	89	30	14	12	42	1.82
570375--570430	18	3.1	18	80	12	62	17	12	5	64	1.45
570771--570950	66	2.7	66	86	1	245	31	26	13	28	1.94
580317--580626	135	2.3	136	79	5	324	25	20	21	31	1.98
580746--580956	51	4.1	51	80	2	217	38	16	11	33	1.84
580746--580964	102	2.1	102	83	1	269	38	16	11	33	1.85
585810--585979	89	1.9	88	85	1	232	30	19	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
587487--587564	6	13.8	6	77	12	85	0	16	1	82	0.75
587479--587565	34	2.6	34	82	10	99	1	14	1	82	0.78
599490--599731	118	2.0	122	95	3	447	35	18	13	32	1.90
602428--602466	19	2.1	19	85	0	51	12	28	5	53	1.60
607453--607515	20	2.9	21	79	9	65	15	25	34	23	1.95
616463--616518	12	4.7	13	72	18	59	23	17	19	39	1.92
616455--616510	23	2.4	23	90	0	85	28	16	19	35	1.93
616504--616553	24	2.1	23	85	3	64	24	24	20	32	1.98
616467--616544	12	6.6	12	70	7	52	25	19	20	34	1.96
617721--617754	7	4.9	7	85	0	50	20	0	38	41	1.53
620378--620409	15	2.1	15	100	0	64	34	6	0	59	1.23
625556--625589	2	17.0	2	93	0	59	47	0	2	50	1.16
634643--634682	21	1.9	21	94	0	71	25	25	22	27	2.00
637690--638001	43	7.2	42	76	9	222	50	7	16	25	1.71
649493--649526	13	2.6	13	90	0	50	35	5	8	50	1.58
650145--650182	3	13.0	3	83	5	51	36	0	0	63	0.95
650307--650348	12	3.7	12	81	6	52	50	45	0	4	1.23
650298--650344	24	2.0	24	87	8	69	46	46	0	6	1.28
650891--650935	20	2.2	20	84	0	54	11	0	33	55	1.35
655095--655136	14	3.0	14	96	0	75	11	14	16	57	1.66
655940--655983	2	22.0	2	100	0	88	50	0	0	50	1.00
659336--660322	107	9.3	106	93	1	1545	24	25	18	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659336--660322	53	18.5	53	92	2	1527	24	25	18	31	1.97
661659--661758	26	4.2	24	79	15	102	14	7	1	78	1.01
661665--661734	12	6.2	12	84	15	96	14	7	0	78	0.95
661665--661739	33	2.3	34	86	13	104	14	8	0	77	0.98
661665--661781	46	2.6	46	85	12	149	13	8	0	77	0.98
661674--661781	9	12.0	9	72	23	77	12	9	0	77	0.98
661682--661778	12	8.3	12	75	18	89	12	8	0	79	0.93
667121--667162	12	3.7	12	81	6	52	50	45	0	4	1.23
667112--667158	24	2.0	24	87	8	69	46	46	0	6	1.28
667172--667211	19	2.1	19	100	0	80	35	25	17	22	1.95
667721--667763	19	2.3	19	83	0	50	11	0	34	53	1.37
671894--671935	14	3.0	14	96	0	75	11	14	16	57	1.66
672734--672765	2	16.0	2	93	0	55	50	0	3	46	1.17
672775--673253	242	1.9	250	86	3	677	41	16	13	28	1.86
676107--677091	107	9.3	106	91	2	1482	25	25	17	31	1.97
676107--677091	53	18.5	53	91	2	1464	25	25	17	31	1.97
676107--677091	160	6.2	160	90	2	1488	25	25	17	31	1.97
678410--678516	9	12.6	8	75	16	74	12	7	0	79	0.98
678410--678508	21	4.4	24	72	26	83	13	7	1	78	0.99
678416--678473	12	5.2	12	80	19	72	13	6	0	79	0.93
678416--678506	34	2.8	32	84	14	114	14	7	0	78	0.97
678425--678519	43	2.2	42	83	14	115	12	9	0	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
678420--678506	33	2.7	32	85	10	106	14	8	0	77	0.99
678460--678507	17	2.9	17	84	3	71	12	8	0	79	0.94
684582--684622	13	3.1	13	96	3	73	56	14	14	14	1.69
684582--684622	7	6.1	7	88	11	68	56	14	14	14	1.69
687522--687579	24	2.4	24	97	0	107	13	32	22	31	1.93
688790--688824	15	2.4	14	86	9	52	5	17	45	31	1.71
688798--688828	15	2.1	15	100	0	62	6	12	45	35	1.68
689158--689602	231	1.9	231	86	2	626	39	18	16	26	1.91
689602--689678	2	40.0	2	92	7	133	50	0	0	49	1.00
690213--690322	55	2.0	55	87	0	157	43	8	7	40	1.62
694675--694743	23	3.0	23	68	21	56	36	1	0	62	1.04
694674--694698	7	3.6	7	100	0	50	40	0	0	60	0.97
695316--695377	18	3.2	20	72	19	67	50	1	3	45	1.27
695436--695468	2	17.0	2	93	6	59	51	0	0	48	1.00
695773--695801	13	2.1	14	93	6	51	72	0	0	27	0.85
695894--695949	2	28.0	2	100	0	112	50	0	0	50	1.00
696021--697302	6	213.8	6	93	4	1840	46	33	3	17	1.64
697697--697791	2	49.5	2	77	12	101	48	2	4	45	1.33
697428--698847	549	2.6	535	86	8	1892	48	6	11	33	1.64
698856--698883	8	3.5	8	100	0	56	50	10	0	39	1.37
698893--698958	24	2.8	24	80	11	82	43	3	12	40	1.57
698983--699043	3	20.0	3	80	12	56	62	1	1	34	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698986--699074	29	3.1	28	77	15	85	60	2	2	34	1.21
698981--699077	39	2.5	38	79	14	110	60	2	2	35	1.20
699023--699177	20	7.0	22	72	16	99	54	1	8	35	1.42
699038--699184	22	6.8	22	76	13	119	53	1	10	35	1.44
699181--699889	2	359.5	2	62	24	113	41	5	3	49	1.42
699167--699213	24	2.0	24	82	0	58	40	2	8	48	1.45
699191--699265	7	10.6	7	76	18	66	37	6	1	54	1.35
699183--699544	22	17.2	20	68	26	147	38	5	2	53	1.36
699238--699572	29	11.5	29	67	25	142	39	5	1	52	1.35
699217--699535	105	3.1	99	80	15	350	39	5	1	53	1.35

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50