genome.fa.s6573.2.7.7.80.10.50.1000.4.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: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218788

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 727 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)
465666--465731	4	14.8	4	76	17	51	65	0	4	30	1.13
465666--465731	14	4.9	13	77	17	64	65	0	4	30	1.13
465667--465731	18	3.6	18	87	8	87	64	0	4	30	1.14
465706--465768	26	2.3	27	81	8	74	50	3	0	46	1.17
466729--466780	21	2.5	21	87	3	70	53	0	0	46	1.00
467418--467494	19	4.2	19	77	15	72	3	28	1	66	1.17
467418--467477	20	3.0	20	87	2	77	3	26	0	70	1.03
467600--467650	23	2.2	23	85	0	66	19	21	19	39	1.93
467606--467651	23	2.0	23	91	0	74	21	19	21	36	1.95
468268--468295	2	14.0	2	100	0	56	50	0	0	50	1.00
478817--478942	55	2.3	55	86	4	166	32	23	11	31	1.91
478947--480015	54	19.7	54	83	5	1202	24	23	18	33	1.96
480397--480626	36	6.4	36	88	0	280	20	19	23	36	1.95
480397--480635	108	2.2	109	85	4	315	20	19	23	36	1.95
481815--482193	125	3.0	125	87	1	519	25	24	17	32	1.96
481860--482193	126	2.7	124	87	3	393	24	25	17	32	1.97
486094--486230	21	6.6	21	84	9	92	16	21	22	39	1.92
486112--486230	21	5.7	21	84	7	127	17	21	21	38	1.93
492297--492348	21	2.5	21	87	6	79	7	34	38	19	1.80
494334--494515	29	6.3	29	75	5	118	33	4	17	45	1.68
494333--494516	58	3.2	57	71	13	144	33	4	17	44	1.68
495464--495626	42	3.9	41	91	3	245	20	23	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511411--511569	29	5.6	29	76	7	128	32	5	17	44	1.72
511429--511510	28	3.0	28	70	3	67	36	4	15	42	1.69
512510--512714	42	4.8	41	87	4	259	18	25	23	32	1.97
515730--515854	61	2.0	61	98	0	241	32	10	12	45	1.75
520242--521627	691	2.0	691	97	0	2601	36	13	19	30	1.90
522191--522311	31	3.9	31	73	8	93	17	25	28	28	1.97
527773--527896	66	1.9	66	94	0	221	28	20	22	29	1.98
528262--528292	10	3.1	10	95	0	53	29	3	6	61	1.37
530629--530678	21	2.4	21	96	0	91	22	28	28	22	1.99
542336--542464	3	43.0	3	100	0	258	66	0	0	33	0.92
542672--542699	2	14.0	2	100	0	56	50	0	0	50	1.00
543960--544063	51	2.0	51	100	0	208	24	20	15	40	1.90
545497--545532	13	2.8	13	91	0	54	16	47	22	13	1.82
548028--548101	24	3.1	24	88	3	105	21	17	17	43	1.88
552745--552783	12	3.2	12	79	13	53	28	12	23	35	1.91
552729--552844	24	4.8	24	87	6	155	25	15	18	40	1.90
556414--556450	13	2.7	14	91	8	67	24	29	29	16	1.96
556440--556497	17	3.4	17	97	0	107	15	24	43	17	1.87
556414--556450	7	5.4	7	93	6	67	24	29	29	16	1.96
556491--556579	19	4.7	19	90	5	135	26	30	25	16	1.97
556491--556578	9	9.3	9	79	9	95	27	30	26	15	1.96
563732--563768	13	2.7	14	91	8	67	24	29	29	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563758--563815	17	3.4	17	97	0	107	15	24	43	17	1.87
563732--563768	7	5.4	7	93	6	67	24	29	29	16	1.96
563809--563897	19	4.7	19	90	5	135	26	30	25	16	1.97
563809--563896	9	9.3	9	79	9	95	27	30	26	15	1.96
566065--566569	250	2.0	250	96	0	938	38	9	19	32	1.84
566695--566721	9	3.0	9	100	0	54	55	22	11	11	1.66
579807--580536	45	16.2	45	86	0	938	24	21	13	40	1.89
586075--586131	20	2.7	19	76	15	51	17	28	28	26	1.98
589771--590446	45	15.2	45	85	2	857	26	22	12	38	1.90
590064--590135	36	2.0	36	91	5	119	31	20	16	30	1.95
589842--590446	261	2.3	261	85	3	771	26	22	12	38	1.90
594299--594343	13	3.4	13	80	17	56	44	8	0	46	1.34
594470--594512	2	21.5	2	100	0	86	51	0	0	48	1.00
594578--594608	2	15.5	2	100	0	62	51	0	0	48	1.00
595121--595159	18	2.2	18	100	0	78	51	20	0	28	1.48
595176--595219	19	2.3	19	88	7	63	36	25	9	29	1.86
595311--595433	61	2.0	61	98	0	237	44	20	0	34	1.52
595311--595433	21	6.0	21	92	3	205	44	20	0	34	1.52
595490--595564	2	41.0	2	73	21	67	46	1	1	50	1.18
595478--595564	21	4.4	21	78	14	73	44	3	1	50	1.26
595492--595564	16	4.2	18	76	16	75	46	1	1	50	1.18
595490--595564	29	2.6	29	79	12	91	46	1	1	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595504--595550	19	2.3	20	89	7	69	48	0	0	51	1.00
595695--595761	2	34.0	2	96	3	127	50	0	0	49	1.00
601642--602335	355	2.0	354	94	0	1219	29	25	7	36	1.85
609463--609512	16	2.9	17	88	8	75	78	4	14	4	1.05
609492--609563	22	3.2	22	88	7	92	75	2	18	4	1.09
609483--609563	6	15.4	5	75	21	53	76	2	17	3	1.04
609465--609564	6	17.3	6	68	15	50	76	3	17	4	1.07
609497--609565	26	2.6	25	77	20	70	75	1	18	4	1.05
618845--618893	21	2.3	21	82	0	53	51	6	22	20	1.69
626833--627010	49	3.7	48	79	3	187	32	16	11	39	1.85
645665--645697	2	16.5	2	100	0	66	51	48	0	0	1.00
645701--645751	2	25.5	2	100	0	102	50	0	0	49	1.00
657272--657313	21	2.0	22	85	4	59	59	14	4	21	1.53
659408--659438	15	2.0	16	93	6	55	64	0	0	35	0.94
659829--659904	35	2.2	35	90	0	116	30	0	22	47	1.52
671177--671302	20	5.7	20	71	20	90	20	26	10	42	1.84
671177--671315	46	3.0	46	93	0	233	20	24	10	43	1.84
675419--675509	33	2.8	33	91	0	137	35	18	13	32	1.90
681644--681711	34	2.1	32	91	5	109	23	5	20	50	1.70
683201--683257	21	2.7	21	94	0	96	29	33	12	24	1.92
710983--711009	6	4.5	6	100	0	54	14	14	37	33	1.88
720111--720286	89	2.0	89	91	4	284	44	6	11	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
725595--725933	168	2.0	169	98	1	655	29	19	17	33	1.95
732564--732597	16	2.1	16	88	0	50	2	8	44	44	1.50
733478--733537	30	2.0	31	87	9	88	30	8	8	53	1.60
734433--734484	21	2.6	21	90	6	81	34	13	5	46	1.67
736533--736579	24	2.0	24	82	0	58	40	17	17	25	1.90
737631--737691	31	1.9	32	86	3	88	27	8	9	54	1.62
739829--739887	30	1.9	31	83	10	77	13	15	1	69	1.27
740785--740863	32	2.4	33	80	6	97	49	8	17	24	1.75
743636--743743	39	2.8	37	74	19	96	63	1	3	30	1.22
743712--743763	15	3.4	16	76	15	56	69	0	5	25	1.10
743693--743763	30	2.4	31	82	13	80	69	1	4	25	1.15
743905--743938	12	2.9	11	91	8	50	79	0	5	14	0.91
743904--743941	19	2.0	19	89	0	58	78	0	5	15	0.91
745245--745386	58	2.4	59	78	12	150	28	19	7	45	1.76
756537--756978	7	63.4	7	98	0	861	29	0	14	56	1.38
762236--762270	18	1.9	18	100	0	70	2	17	17	62	1.44
762238--762279	18	2.5	17	88	7	59	2	16	16	64	1.40
765308--765345	17	2.4	16	86	8	51	50	10	2	36	1.51
771000--771112	46	2.5	45	81	4	120	28	20	7	44	1.77
771337--771416	29	2.8	29	92	0	133	26	17	8	47	1.76
771632--771904	54	5.1	54	85	3	347	28	20	19	31	1.96
771637--771904	106	2.5	107	85	3	369	29	19	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
775521--776148	55	11.5	55	85	3	587	30	23	16	29	1.97
776155--776256	37	2.8	37	93	0	168	21	23	17	37	1.94
777540--777617	7	10.4	7	77	20	61	5	17	0	76	0.96
777544--777671	17	7.9	16	75	18	90	8	17	0	73	1.08
777543--777601	22	2.5	24	89	5	86	5	20	0	74	1.00
777540--777616	22	3.5	22	84	8	77	5	18	0	76	0.96
783804--783892	45	1.9	47	88	4	137	37	22	12	28	1.90
787304--787367	28	2.2	29	83	10	78	50	4	6	39	1.49
790910--790935	2	13.0	2	100	0	52	50	50	0	0	1.00
790935--790966	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7