genome.fa.s1111.2.7.7.80.10.50.1000.15.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

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

This is table  15  of  17  ( 1987 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)
3229309--3229333	13	1.9	13	100	0	50	4	8	0	88	0.64
3229301--3229346	23	2.0	23	91	0	74	4	13	0	82	0.81
3232550--3232596	17	2.7	17	81	12	60	72	0	12	14	1.13
3232696--3232757	16	3.6	18	74	12	58	75	0	3	20	0.94
3232911--3232949	20	2.0	20	85	10	53	69	2	5	23	1.21
3233955--3233979	2	12.5	2	100	0	50	48	0	0	52	1.00
3234985--3235091	17	6.6	16	75	11	85	49	0	3	46	1.19
3235068--3235114	24	2.0	24	87	8	69	53	0	0	46	1.00
3235095--3235139	22	2.2	20	88	8	63	46	0	0	53	1.00
3239008--3239069	24	2.6	24	94	0	106	30	19	19	30	1.96
3242960--3242986	9	3.0	9	100	0	54	55	22	0	22	1.44
3243140--3243194	19	2.8	20	83	5	69	43	3	1	50	1.30
3259320--3259790	55	8.7	55	89	3	688	29	15	27	27	1.96
3259320--3259790	163	2.9	162	88	4	714	29	15	27	27	1.96
3259320--3259790	108	4.3	108	92	2	757	29	15	27	27	1.96
3266493--3266706	108	2.0	108	91	0	347	30	18	15	34	1.93
3269246--3269281	3	12.3	3	88	5	56	33	2	0	63	1.08
3276804--3277115	63	5.0	62	81	11	273	28	20	13	37	1.91
3276803--3277115	126	2.5	125	80	7	330	28	20	13	37	1.91
3277277--3277470	82	2.4	82	88	0	280	34	19	19	26	1.96
3277491--3277735	35	6.9	35	85	6	307	44	19	17	18	1.88
3279079--3279129	2	25.5	2	100	0	102	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3280030--3280083	24	2.2	24	96	0	99	22	11	14	51	1.73
3282727--3282771	17	2.6	18	89	10	67	42	31	6	20	1.77
3283344--3283387	20	2.1	21	91	4	72	27	11	22	38	1.88
3283606--3283644	20	1.9	20	89	5	60	41	30	15	12	1.85
3285201--3285240	17	2.3	18	86	4	55	60	0	2	37	1.11
3290293--3290332	20	2.0	20	85	9	55	27	5	0	67	1.11
3290731--3290818	41	2.2	40	82	11	108	63	11	7	17	1.50
3292524--3292562	18	2.2	18	86	4	53	17	2	2	76	1.01
3296000--3296069	29	2.4	28	86	6	95	20	15	2	61	1.46
3296318--3296379	32	1.9	32	83	0	79	20	25	27	25	1.99
3296350--3296440	36	2.5	35	80	3	101	26	21	20	30	1.98
3296712--3296765	28	1.9	28	82	14	67	48	9	3	38	1.53
3307337--3307381	22	2.0	22	86	0	63	44	11	2	42	1.52
3309627--3309660	17	2.0	17	88	0	50	38	5	17	38	1.74
3310153--3310360	114	1.8	112	83	12	271	30	18	14	37	1.90
3312890--3313119	69	3.3	69	78	6	241	23	26	24	25	2.00
3313220--3313262	2	21.5	2	95	0	77	46	0	0	53	1.00
3313330--3313384	3	18.7	3	82	17	71	36	0	0	63	0.95
3314104--3314156	16	3.2	17	74	17	58	69	0	13	16	1.18
3315230--3315286	4	14.0	4	85	7	71	70	1	3	24	1.13
3315223--3315286	16	4.2	15	82	15	78	70	1	3	25	1.11
3315216--3315286	25	3.0	22	81	18	81	70	1	2	25	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3315286--3315558	38	7.3	38	90	4	394	49	7	1	42	1.38
3315426--3315558	37	3.5	37	92	5	223	48	6	1	42	1.38
3315521--3315570	26	1.9	26	87	0	73	42	6	4	48	1.46
3315526--3315581	26	2.2	26	83	0	67	51	3	3	41	1.36
3315565--3315645	35	2.3	36	86	2	110	48	6	3	41	1.46
3315565--3315651	36	2.5	35	88	1	120	49	6	3	40	1.46
3315553--3315714	36	4.5	34	74	15	105	48	8	3	40	1.50
3316296--3316640	84	4.2	84	80	5	366	27	18	22	30	1.98
3316296--3316640	164	2.1	165	84	1	451	27	18	22	30	1.98
3316651--3317240	84	7.2	82	74	6	469	27	20	22	29	1.98
3316675--3316939	80	3.2	80	69	14	234	27	20	21	29	1.98
3316643--3317017	164	2.3	165	88	1	558	27	20	22	30	1.98
3318434--3318619	95	2.0	94	84	3	248	30	17	17	33	1.94
3321205--3321293	28	3.2	27	80	16	85	71	0	10	17	1.12
3321290--3321332	20	2.2	20	84	12	54	69	0	6	23	1.12
3322620--3322686	4	16.0	4	90	6	82	74	0	1	23	0.90
3322609--3322691	40	2.1	41	90	4	134	74	0	1	24	0.89
3322609--3322691	35	2.4	34	88	8	114	74	0	1	24	0.89
3322696--3323023	39	8.9	37	86	5	389	48	7	1	43	1.39
3322696--3323023	76	4.4	75	84	10	381	48	7	1	43	1.39
3322788--3323050	39	7.2	36	81	10	148	47	7	1	43	1.40
3324013--3324067	4	14.2	4	77	7	51	20	5	3	70	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3324011--3324066	20	2.9	19	89	5	78	17	7	3	71	1.23
3325797--3325855	29	2.0	29	86	6	82	44	6	18	30	1.76
3327029--3327056	11	2.5	11	100	0	56	28	7	10	53	1.62
3335362--3335456	40	2.4	39	81	8	104	26	25	26	22	2.00
3336260--3336359	24	4.2	24	72	10	87	47	17	13	23	1.82
3336253--3336361	48	2.3	48	77	0	119	48	16	12	22	1.80
3337501--3337536	18	2.0	18	88	0	54	30	16	0	52	1.44
3338880--3338928	13	3.8	13	91	0	80	16	18	46	18	1.84
3338867--3338902	18	2.0	18	94	0	63	11	22	47	19	1.80
3338831--3338877	7	6.4	7	90	4	67	27	27	31	12	1.93
3341047--3341154	48	2.3	48	77	1	119	48	16	12	22	1.80
3342293--3342327	17	2.1	17	88	0	52	28	17	0	54	1.43
3343623--3343672	15	3.3	15	91	2	82	26	26	34	14	1.94
3343624--3343667	23	2.0	22	95	4	79	29	27	29	13	1.94
3343672--3343720	13	3.8	13	91	0	80	16	18	46	18	1.84
3343659--3343694	18	2.0	18	94	0	63	11	22	47	19	1.80
3343623--3343672	8	6.5	8	88	6	77	26	26	34	14	1.94
3345992--3346054	27	2.3	27	97	0	117	17	42	9	30	1.81
3349470--3349686	69	3.1	69	78	2	213	24	25	22	28	1.99
3349693--3349844	69	2.2	68	80	5	164	30	26	17	25	1.97
3353589--3353982	36	10.9	36	85	4	499	19	24	23	32	1.97
3353589--3353982	108	3.7	106	87	3	549	19	24	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3359152--3359192	19	2.2	19	86	0	55	73	4	12	9	1.24
3359221--3359297	31	2.5	30	87	4	100	72	3	7	15	1.22
3359441--3359543	20	5.1	20	68	20	70	69	3	1	24	1.15
3361342--3361902	124	4.5	124	93	0	897	25	18	24	32	1.97
3361988--3362262	147	1.9	147	87	1	408	27	14	21	37	1.92
3362218--3362365	64	2.3	64	91	2	235	29	12	21	35	1.91
3367320--3367360	19	2.2	19	90	0	64	75	2	12	9	1.13
3367385--3367452	26	2.6	26	83	2	82	72	4	8	14	1.26
3367616--3367677	24	2.5	26	80	15	76	69	1	1	27	1.07
3367634--3367670	13	2.8	13	91	4	56	70	0	2	27	1.01
3367645--3367690	16	2.8	17	80	12	60	67	0	2	30	1.03
3369423--3369456	17	2.0	17	88	11	52	76	5	11	5	1.14
3370317--3371011	157	4.4	156	84	5	805	46	6	18	29	1.72
3378922--3379023	23	4.4	23	91	6	154	16	21	24	37	1.94
3384151--3384211	20	3.0	20	92	4	97	39	13	32	14	1.85
3395088--3395131	20	2.2	20	84	4	54	38	6	4	50	1.50
3396911--3396954	23	2.0	22	86	4	61	52	9	11	27	1.67
3404413--3404467	27	2.1	27	83	10	69	32	18	20	29	1.96
3406333--3406366	10	3.2	10	84	15	50	11	0	26	61	1.30
3407889--3407934	24	1.9	24	95	0	83	28	13	15	43	1.83
3409125--3409160	13	2.8	14	84	16	51	41	8	11	38	1.71
3409643--3409682	21	1.9	21	94	0	71	32	22	25	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3414341--3414384	22	2.0	23	86	4	63	36	11	25	27	1.90
3414287--3414486	95	2.1	95	82	5	235	32	15	25	27	1.95
3414809--3415134	54	6.1	54	91	0	510	27	19	20	32	1.97
3424087--3424130	22	2.0	23	95	4	81	65	4	15	13	1.41
3434538--3434656	23	5.0	23	70	24	79	32	34	3	29	1.74
3434538--3434656	11	10.0	11	72	23	82	32	34	3	29	1.74
3434535--3434675	36	3.9	36	90	0	212	32	34	4	29	1.77
3440282--3440400	23	5.0	23	69	24	70	31	35	4	28	1.76
3440282--3440400	11	10.0	11	71	23	73	31	35	4	28	1.76
3440279--3440419	36	3.9	36	93	0	230	31	34	4	28	1.79

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