genome.fa.s7832.2.7.7.80.10.50.1000.3.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  3  of  21  ( 2482 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)
566656--566870	20	10.6	20	74	11	163	15	21	22	40	1.91
566635--566870	41	5.8	40	80	6	192	16	20	23	38	1.92
566699--566770	22	3.4	22	69	11	78	19	18	23	38	1.93
566720--566795	19	3.8	19	75	10	71	19	19	18	42	1.90
566613--566891	61	4.6	60	75	10	235	18	19	23	37	1.94
566798--566894	20	4.7	21	83	2	90	18	19	26	35	1.95
567013--567109	6	16.5	6	98	1	180	31	51	16	0	1.45
567737--567790	22	2.5	22	84	0	81	38	27	14	18	1.90
567760--567848	41	2.2	40	84	8	108	40	23	17	17	1.91
567775--567877	41	2.5	40	84	10	122	36	22	19	21	1.95
567818--567881	21	3.1	21	72	4	67	37	26	17	18	1.93
573941--573992	26	2.0	26	100	0	104	34	30	15	19	1.93
575606--575642	19	1.9	19	88	0	56	16	5	0	78	0.93
575591--575665	29	2.6	28	81	8	87	14	10	0	74	1.07
575682--575716	2	18.5	2	88	11	56	45	0	0	54	0.99
575682--575716	11	3.3	11	96	4	63	45	0	0	54	0.99
575723--575759	15	2.4	16	82	17	51	13	5	5	75	1.15
575765--575822	22	2.6	23	84	10	75	15	8	1	74	1.14
575785--575845	23	2.7	22	84	5	68	18	8	0	73	1.07
578831--578892	13	5.1	12	76	16	56	75	6	16	1	1.08
578843--578893	26	2.0	25	92	3	84	74	3	17	3	1.12
578965--579102	69	2.0	69	91	0	222	38	21	14	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580848--581321	110	4.4	110	82	4	518	33	22	19	24	1.97
580840--581321	216	2.2	216	86	0	658	33	22	19	24	1.97
581462--581547	36	2.4	36	82	3	102	23	20	15	40	1.90
581563--581717	65	2.4	64	85	5	195	29	19	11	40	1.87
581674--581747	37	2.0	37	89	0	112	28	24	12	35	1.91
583527--583563	19	1.9	19	88	0	56	16	5	0	78	0.93
583512--583592	28	2.8	29	82	12	80	16	9	0	74	1.07
583539--583673	36	4.0	35	74	8	111	18	5	2	72	1.18
583547--583673	15	7.6	15	68	25	62	18	6	3	72	1.19
583526--583614	13	7.0	12	69	26	51	15	6	1	76	1.05
583543--583664	51	2.4	49	73	20	115	18	5	2	72	1.15
583527--583696	9	18.0	9	68	19	55	18	6	2	72	1.19
587211--587263	27	2.0	27	92	0	88	28	11	24	35	1.90
587218--587279	27	2.3	27	83	5	81	30	9	20	38	1.85
587418--587531	60	1.9	60	85	3	158	41	16	13	28	1.86
587913--587969	19	3.2	19	80	14	75	45	0	15	38	1.47
587913--587980	35	2.0	34	83	8	86	47	0	14	38	1.45
588022--588145	40	3.4	38	73	21	120	43	6	6	43	1.55
588070--588128	30	1.9	31	86	3	84	45	8	5	40	1.56
587940--588145	70	2.9	71	82	7	235	46	4	7	42	1.51
588179--588217	2	19.5	2	100	0	78	48	0	0	51	1.00
588295--588343	5	9.2	5	88	4	62	18	2	2	77	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
594524--594561	18	2.1	18	100	0	76	44	10	15	28	1.80
596739--596894	64	2.4	64	79	8	174	35	21	17	25	1.95
603205--603360	64	2.4	64	75	8	156	36	19	17	26	1.94
603738--603818	29	2.8	29	96	3	146	44	16	22	17	1.86
611692--611754	22	3.0	21	86	4	90	25	22	26	25	2.00
612316--612442	67	1.9	68	80	1	148	20	20	23	35	1.96
618512--618572	22	2.9	21	83	9	70	26	22	24	26	2.00
618517--618572	21	2.6	22	85	2	69	28	23	25	23	1.99
621482--621547	31	2.2	31	86	8	91	69	4	6	19	1.27
622724--622920	44	4.5	43	77	3	196	32	20	18	27	1.96
622724--622917	88	2.2	88	83	0	253	32	21	18	27	1.96
623142--623214	36	2.0	36	84	7	94	49	2	8	39	1.47
623179--623237	31	1.9	31	86	6	84	42	5	11	40	1.64
623242--623285	2	22.0	2	100	0	88	50	0	0	50	1.00
623271--623383	59	1.9	59	85	7	156	44	2	6	46	1.42
623415--623467	6	9.6	5	80	13	52	22	3	1	71	1.12
623415--623467	11	4.8	10	78	17	52	22	3	1	71	1.12
630661--630704	18	2.5	17	85	7	52	65	4	2	27	1.23
634826--634850	7	3.6	7	100	0	50	52	0	0	48	1.00
635298--635399	31	3.4	31	74	10	93	37	6	22	33	1.81
650415--650471	25	2.3	23	77	16	60	40	3	15	40	1.65
664372--664401	13	2.3	13	94	0	51	16	43	23	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666865--666970	24	4.4	24	80	0	104	19	14	16	49	1.80
666865--666971	48	2.2	48	85	3	135	19	14	16	49	1.79
666900--666969	12	5.8	12	76	6	70	15	14	18	51	1.77
671874--671903	10	3.0	10	95	0	51	60	23	10	6	1.52
673004--673033	14	2.1	14	93	0	51	13	10	13	63	1.52
677612--677691	24	3.3	24	98	0	151	28	18	16	36	1.93
677914--677975	30	2.1	30	82	11	74	11	29	24	35	1.90
679393--679525	15	8.5	15	78	11	142	48	0	2	49	1.13
679368--679482	30	3.9	30	87	3	155	50	0	1	47	1.11
679438--679659	54	4.3	46	85	10	156	40	0	8	50	1.32
679507--679602	32	3.3	31	72	27	111	36	0	9	54	1.33
679528--679570	22	2.0	22	95	0	77	34	0	11	53	1.37
679627--679674	22	2.4	18	73	23	51	33	0	14	52	1.42
679550--681951	134	17.8	133	76	14	1122	32	0	14	52	1.43
679604--682080	80	30.9	78	80	11	1122	32	0	14	53	1.43
679707--679754	22	2.4	18	73	23	51	33	0	14	52	1.42
679507--681089	214	7.4	207	75	15	1054	32	0	14	52	1.42
679787--679859	22	3.3	22	69	16	53	28	0	16	54	1.42
679867--679914	22	2.4	18	73	23	51	33	0	14	52	1.42
679923--680030	32	3.7	32	74	23	128	36	0	12	50	1.41
679956--679998	22	2.0	22	100	0	86	34	0	13	51	1.42
680057--680244	32	5.7	32	65	28	108	33	0	13	52	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
680081--680128	22	2.4	18	73	23	51	33	0	14	52	1.42
680170--680212	22	2.0	22	95	0	77	37	0	11	51	1.39
680215--680262	22	2.4	18	73	23	51	33	0	14	52	1.42
680224--680329	22	4.8	23	78	10	105	30	0	16	52	1.44
680217--680348	65	2.0	65	97	0	246	28	0	18	53	1.45
680254--680344	22	4.2	22	72	10	71	26	0	19	53	1.45
680520--680567	22	2.4	18	73	23	51	33	0	14	52	1.42
679928--682347	271	8.8	276	77	13	1855	32	0	14	53	1.43
680576--680740	32	4.7	32	70	20	132	32	0	14	52	1.42
680600--680647	22	2.4	18	73	23	51	33	0	14	52	1.42
680576--682214	112	14.6	112	69	18	663	32	0	14	53	1.43
680192--681281	191	5.7	191	88	6	1509	31	0	15	53	1.44
680711--680758	22	2.4	18	73	23	51	33	0	14	52	1.42
680847--680926	31	2.6	31	88	7	135	31	0	15	53	1.42
680901--680948	22	2.4	18	73	23	51	33	0	14	52	1.42
680767--681121	111	3.2	112	86	8	462	32	0	14	52	1.42
680192--681866	381	4.2	388	84	10	1762	32	0	14	53	1.43
681037--681121	32	2.7	32	94	1	154	32	0	14	52	1.41
681092--681139	22	2.4	18	73	23	51	33	0	14	52	1.42
681228--681340	32	3.8	31	71	23	109	31	0	13	53	1.45
681261--681303	22	2.0	22	95	0	77	32	0	16	51	1.45
680417--682214	214	8.3	213	77	13	1560	32	0	14	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
681362--681501	32	4.7	32	83	16	210	34	0	13	52	1.41
681427--681469	22	2.0	22	100	0	86	34	0	13	51	1.42
681528--681635	32	3.7	32	74	23	128	34	0	13	51	1.42
681665--681774	32	3.8	30	71	24	101	33	0	10	54	1.42
681796--681903	32	3.7	32	75	23	137	34	0	12	52	1.40
681883--681951	26	3.0	22	76	15	84	31	0	15	52	1.44
679844--682268	134	18.1	133	76	14	1721	32	0	14	53	1.43
682018--682117	32	3.5	30	73	25	99	35	1	10	54	1.41
682065--682214	80	1.9	80	94	0	264	32	0	12	54	1.43
682144--682251	32	3.7	32	74	23	128	34	0	11	53	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21