genome.fa.s8973.2.7.7.80.10.50.1000.4.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: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2070395

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

This is table  4  of  11  ( 1243 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)
431169--431212	23	2.0	22	90	4	70	86	2	11	0	0.66
431170--431212	18	2.4	18	88	11	63	86	2	11	0	0.67
435845--435921	22	3.5	22	96	0	145	33	11	14	40	1.82
436599--438980	76	31.3	76	97	0	4424	24	19	21	34	1.97
439140--439201	3	21.0	3	74	9	56	43	0	0	56	0.99
439140--439204	15	4.1	16	79	16	73	44	0	0	55	0.99
440237--440266	2	15.0	2	100	0	60	50	0	0	50	1.00
440926--440982	29	2.0	29	86	6	80	47	1	0	50	1.11
446962--447167	100	2.1	100	100	0	412	31	9	29	30	1.89
447913--447988	37	2.1	37	85	5	100	48	1	3	46	1.29
453125--453170	15	3.1	15	81	12	58	45	21	6	26	1.76
453813--453889	32	2.3	32	85	12	95	50	0	0	49	1.00
453808--453887	13	5.8	15	66	20	50	50	0	0	50	1.00
453804--453889	38	2.3	37	82	5	120	50	0	0	50	1.00
453996--454044	25	2.0	25	87	0	71	28	12	34	24	1.91
456529--456561	17	2.0	16	94	5	57	42	27	6	24	1.78
461761--461795	17	2.1	17	88	0	52	28	0	5	65	1.15
462424--462449	2	13.0	2	100	0	52	50	0	0	50	1.00
464449--464489	21	2.0	21	85	9	57	41	36	2	19	1.65
466568--466809	121	2.0	121	100	0	484	35	22	14	28	1.93
470187--470221	16	2.2	16	90	10	54	34	0	14	51	1.42
478933--478976	17	2.7	16	80	13	54	27	6	9	56	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481450--481530	13	6.2	13	91	0	126	27	22	17	33	1.96
481450--481530	39	2.1	39	95	0	144	27	22	17	33	1.96
481502--481667	85	2.0	84	82	9	203	31	20	18	30	1.96
499050--499102	2	26.5	2	100	0	106	50	0	0	49	1.00
509748--510403	81	8.1	81	89	0	918	32	21	10	36	1.87
518066--518090	3	8.3	3	100	0	50	68	0	32	0	0.90
525983--526027	21	2.2	21	84	4	56	35	13	20	31	1.91
535484--535630	77	1.9	78	83	8	192	46	5	6	42	1.52
544018--544055	18	2.1	18	100	0	76	15	15	10	57	1.64
551339--551414	3	26.0	3	92	5	129	32	1	0	65	1.01
553728--553781	28	2.0	27	92	3	90	33	5	0	61	1.19
553701--553787	29	3.0	30	74	17	85	31	6	0	62	1.22
555369--555434	27	2.4	28	85	7	91	21	12	9	57	1.62
561669--561838	75	2.3	75	81	2	189	34	14	21	30	1.93
563166--563266	22	4.6	22	88	2	132	34	12	11	40	1.80
563550--564237	119	5.8	119	85	5	827	39	14	18	27	1.89
563688--563752	20	3.2	20	63	16	53	44	9	20	26	1.81
563807--563870	20	3.2	20	63	20	53	42	9	23	25	1.84
563926--563988	20	3.2	20	68	28	62	46	9	17	26	1.79
564047--564110	20	3.2	20	63	20	53	42	9	23	25	1.84
563550--564307	122	6.3	121	83	7	732	39	14	18	27	1.90
563550--564318	119	6.4	123	85	6	796	39	14	18	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564555--564608	11	4.7	11	86	6	72	29	1	0	68	1.00
564554--564608	16	3.1	19	80	17	73	29	1	0	69	0.99
564555--564609	3	19.0	3	82	14	71	30	1	0	67	1.01
574859--574969	15	7.6	15	91	3	156	22	30	23	23	1.99
579315--579429	61	1.9	61	83	3	151	25	17	26	30	1.97
579512--579653	45	3.2	45	90	1	214	39	7	21	31	1.80
583259--583343	31	2.7	32	82	8	102	25	29	29	15	1.96
595462--595497	18	2.0	18	94	0	63	33	8	27	30	1.86
595496--595565	8	8.4	8	71	7	50	31	4	1	62	1.23
595532--595564	17	1.9	17	88	11	50	30	3	3	63	1.24
601062--601093	14	2.4	14	90	10	50	40	3	0	56	1.15
602483--602558	31	2.4	30	78	6	80	28	31	25	14	1.95
609250--609284	3	11.3	3	93	6	61	2	31	0	65	1.07
614204--614236	13	2.5	13	90	9	50	72	0	12	15	1.12
616190--616246	21	2.7	21	100	0	114	33	17	10	38	1.84
616067--616345	143	2.0	143	84	2	373	35	16	11	37	1.84
616971--617030	26	2.4	25	82	2	75	31	6	20	41	1.78
620896--621076	29	6.3	28	74	7	157	25	25	14	33	1.95
620912--621078	58	2.9	57	85	3	219	25	25	15	33	1.95
630548--630591	24	1.9	23	86	9	63	27	11	4	56	1.53
633993--634051	2	30.0	2	96	3	111	50	0	0	49	1.00
635188--635229	22	1.9	22	85	0	57	26	16	21	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
635202--635279	39	2.0	39	82	5	95	35	16	14	33	1.89
635217--635339	37	3.3	37	82	8	126	34	21	12	30	1.90
635254--635350	37	2.7	37	80	10	96	32	25	11	29	1.91
635660--636107	180	2.5	179	78	7	442	39	11	12	37	1.79
642140--642182	22	2.0	22	90	0	68	37	9	6	46	1.63
642406--642462	23	2.6	22	78	8	71	50	8	3	36	1.50
642267--643026	199	3.8	197	86	3	979	46	10	4	38	1.58
642986--643047	29	2.0	32	84	9	85	51	9	8	30	1.63
643182--643539	37	10.5	35	74	18	224	45	3	5	45	1.44
643184--643314	62	2.1	63	85	9	178	42	3	5	48	1.44
644368--644410	19	2.3	19	91	0	68	13	25	46	13	1.81
644957--644990	10	3.6	9	88	11	50	20	2	0	76	0.92
650307--650975	84	8.0	84	76	8	601	30	24	20	24	1.99
650555--650975	175	2.5	175	78	7	440	30	23	21	25	1.99
650703--651004	80	3.7	80	78	6	313	29	24	21	25	1.99
651950--651998	3	16.0	3	87	4	71	32	6	0	61	1.21
657175--657434	95	2.7	95	87	3	351	33	16	18	31	1.93
657401--657795	197	2.0	197	93	0	682	31	18	21	28	1.97
658375--659307	80	11.7	80	87	0	1240	33	24	18	23	1.97
658375--659853	160	9.0	160	78	7	1417	33	22	19	24	1.97
658375--659854	240	6.0	240	79	7	1460	33	22	19	24	1.97
659123--659473	188	1.9	188	84	2	472	31	22	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659311--659817	80	6.2	80	84	4	566	34	20	20	25	1.96
659322--659809	164	3.0	162	85	4	624	34	20	20	25	1.97
663364--663420	30	1.9	30	85	7	80	15	12	8	63	1.52
663349--663403	24	2.2	24	79	17	60	14	14	5	65	1.44
666158--666224	21	3.2	20	81	10	73	23	22	17	35	1.95
666186--666406	20	11.0	20	75	9	100	33	22	16	28	1.95
666134--666286	41	3.8	39	73	9	128	32	20	18	28	1.96
666295--666391	40	2.4	40	81	5	115	30	23	14	30	1.94
666377--666419	20	2.2	20	87	4	61	34	18	11	34	1.87
667195--667228	12	2.8	12	90	0	50	55	29	0	14	1.40
667354--667407	24	2.2	24	86	0	72	22	16	18	42	1.89
670141--670190	25	2.0	25	84	0	64	30	8	20	42	1.80
670573--670607	18	1.9	18	88	0	52	31	5	11	51	1.61
670565--670617	24	2.2	24	82	0	61	33	5	13	47	1.66
671777--671823	6	7.8	6	90	0	58	57	21	4	17	1.56
671778--671828	24	2.1	24	88	0	75	54	23	3	17	1.59
672095--672198	20	5.2	20	85	0	109	25	22	19	33	1.97
672094--672203	40	2.8	40	78	0	121	24	21	20	33	1.97
672266--672400	64	2.1	65	90	1	209	51	16	2	29	1.56
673595--673712	21	5.6	21	73	6	96	24	19	34	21	1.96
673592--673717	42	3.0	41	80	10	148	24	19	36	19	1.95
675768--675804	17	2.2	16	95	4	65	32	16	8	43	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675826--675896	19	3.7	20	84	5	92	47	22	16	12	1.80
676362--676410	25	1.9	26	83	4	64	36	10	18	34	1.85
676379--676416	20	2.0	20	84	5	51	44	10	15	28	1.80
677655--677696	15	2.8	15	75	10	50	11	30	28	28	1.92
678294--678417	26	4.5	26	75	11	122	48	7	0	43	1.36
678338--678374	19	1.9	19	94	0	65	48	8	0	43	1.32
678261--678494	63	3.7	62	80	12	275	46	7	1	44	1.40
678415--678535	26	4.5	26	74	12	102	47	9	1	41	1.47
678479--678561	14	6.1	14	68	13	57	50	9	2	37	1.48
678443--678599	53	2.9	53	92	0	251	45	10	3	40	1.56

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