genome.fa.s1465.2.7.7.80.10.50.1000.17.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   51   52   53   54   55   

This is table  17  of  55  ( 6520 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)
3320340--3320391	19	2.7	19	69	3	50	55	1	3	38	1.29
3320701--3320797	32	3.0	32	79	4	115	37	30	12	19	1.89
3321058--3321147	41	2.2	42	80	5	105	32	12	1	54	1.45
3321813--3321979	61	2.7	61	81	7	196	46	4	4	44	1.44
3322871--3322943	23	3.2	23	86	0	101	39	10	16	32	1.83
3323052--3323111	23	2.6	23	83	0	75	40	8	18	33	1.80
3322911--3323243	158	2.1	158	93	0	558	41	12	13	33	1.82
3323495--3323523	2	14.5	2	100	0	58	51	0	0	48	1.00
3324615--3324664	24	2.1	24	100	0	100	46	16	0	38	1.47
3325867--3327397	199	7.7	198	90	1	2249	30	14	14	40	1.85
3325835--3327397	397	3.9	397	91	1	2344	31	14	14	40	1.85
3325836--3327397	596	2.6	594	89	1	2333	31	14	14	40	1.85
3328838--3328895	24	2.4	25	80	11	75	50	13	5	31	1.64
3333446--3333491	6	7.7	6	77	18	51	15	6	0	78	0.95
3337172--3337221	3	16.7	3	82	0	64	26	32	0	42	1.56
3338722--3339645	198	4.7	199	85	2	1191	31	16	13	39	1.87
3346582--3346634	20	2.7	20	96	0	97	28	15	18	37	1.91
3346600--3347162	182	3.1	183	92	1	941	26	15	14	42	1.86
3346986--3347324	162	2.1	162	92	1	581	25	15	14	44	1.84
3347045--3347745	182	4.1	164	81	10	630	26	15	14	42	1.86
3347150--3347760	182	3.4	182	92	0	1001	26	15	15	43	1.85
3346604--3347762	344	3.2	358	86	7	1373	26	15	14	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3346600--3347760	364	3.2	351	87	6	1570	26	15	14	42	1.86
3346640--3347696	526	2.0	525	89	1	1589	27	15	14	42	1.86
3351401--3351502	22	5.0	21	85	5	99	22	19	27	30	1.98
3351450--3351502	18	2.9	18	94	0	79	18	22	30	28	1.98
3354274--3354367	45	2.1	45	93	0	161	26	15	31	25	1.96
3357613--3357637	13	1.9	13	100	0	50	32	4	0	64	1.12
3359832--3359945	58	2.0	58	96	0	210	21	33	15	29	1.94
3361283--3362104	55	14.9	55	91	1	1259	36	18	10	34	1.86
3361283--3362104	166	5.0	165	90	1	1259	36	18	10	34	1.86
3361283--3362104	111	7.4	110	91	1	1297	36	18	10	34	1.86
3367499--3368027	55	9.6	55	87	1	718	36	16	10	36	1.84
3367499--3368027	166	3.2	165	85	2	722	36	16	10	36	1.84
3367499--3368027	111	4.8	110	87	2	738	36	16	10	36	1.84
3371485--3371610	40	3.2	40	68	10	107	30	26	8	34	1.86
3371643--3372086	40	11.1	40	73	6	319	29	24	12	33	1.92
3371643--3372123	80	6.0	80	83	1	581	29	23	13	33	1.93
3371643--3372123	158	3.0	161	84	3	596	29	23	13	33	1.93
3372204--3372333	20	6.5	19	72	10	73	42	19	10	28	1.83
3372195--3372313	20	5.9	21	72	8	79	41	19	9	30	1.82
3373839--3373876	17	2.2	17	95	0	67	55	13	2	28	1.51
3377601--3377671	20	3.6	20	76	1	63	40	8	16	33	1.79
3377718--3377806	20	4.4	20	82	0	115	31	17	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378595--3378624	15	2.0	15	93	0	51	40	16	10	33	1.82
3385870--3385904	16	2.2	16	94	0	61	25	5	28	40	1.78
3388653--3388842	29	6.6	29	85	1	256	37	5	19	36	1.76
3388658--3388842	86	2.1	87	86	1	255	38	5	18	37	1.74
3395056--3395098	17	2.5	18	85	11	63	18	48	23	9	1.76
3395102--3395272	87	2.0	87	90	0	270	36	5	18	39	1.75
3395100--3395274	29	6.0	29	85	0	242	37	5	18	38	1.74
3397641--3397682	20	2.0	20	86	4	57	30	7	9	52	1.61
3398289--3398318	15	2.0	15	93	0	51	33	10	16	40	1.82
3401108--3401220	47	2.4	47	88	5	160	20	10	35	33	1.87
3401481--3401519	16	2.4	16	91	0	69	23	28	5	43	1.75
3401741--3401784	19	2.3	19	100	0	88	18	27	9	45	1.79
3401738--3401786	19	2.4	22	80	20	77	16	26	8	48	1.73
3401618--3401907	142	2.0	142	91	0	463	25	19	15	39	1.91
3401760--3402008	123	2.0	123	91	1	401	26	17	16	40	1.90
3401986--3402025	17	2.4	17	100	0	80	30	20	5	45	1.72
3403528--3404497	335	2.9	335	94	0	1654	25	18	19	37	1.94
3405344--3405512	87	1.9	87	91	2	277	33	14	18	32	1.92
3413174--3413198	12	2.1	12	100	0	50	84	0	8	8	0.79
3414076--3414263	84	2.2	84	93	0	322	38	18	17	26	1.92
3414160--3414430	123	2.2	123	89	0	416	38	16	20	25	1.92
3416572--3416695	32	4.0	30	78	12	108	36	20	16	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3416591--3416697	32	3.4	31	90	2	153	37	20	16	25	1.93
3418993--3419026	11	3.2	11	87	8	52	73	0	0	26	0.83
3419179--3419217	21	2.0	20	90	10	62	56	5	0	38	1.22
3420675--3420701	6	4.5	6	100	0	54	48	18	0	33	1.49
3421889--3422003	32	3.6	32	82	5	137	41	14	13	29	1.85
3421924--3422003	17	5.0	16	71	15	67	43	16	13	26	1.85
3425973--3426482	54	9.4	54	81	3	526	27	15	20	37	1.92
3426102--3426194	27	3.4	27	68	19	66	29	8	18	44	1.79
3426806--3426857	22	2.5	21	87	6	70	28	21	17	32	1.96
3431490--3431590	22	4.5	22	71	7	94	38	0	9	51	1.35
3431467--3431545	15	4.9	15	73	20	70	46	0	3	49	1.19
3431525--3431778	32	8.4	32	66	26	160	34	0	12	51	1.46
3431525--3432024	54	9.4	54	76	14	477	34	0	13	51	1.45
3431602--3431746	22	6.0	22	69	19	92	33	1	14	50	1.52
3431525--3432009	102	4.6	102	78	13	486	33	0	14	51	1.45
3431749--3431796	22	2.4	18	73	23	51	33	0	14	52	1.42
3431805--3431912	32	3.7	32	72	23	128	34	0	13	51	1.42
3431548--3431875	80	4.2	78	73	14	318	33	0	14	51	1.48
3431838--3431880	22	2.0	22	90	0	68	34	0	13	51	1.42
3431883--3431930	22	2.4	18	73	23	51	33	0	14	52	1.42
3431624--3432009	80	4.9	80	72	13	305	32	0	15	51	1.47
3431703--3432024	134	2.4	134	97	0	608	33	0	14	51	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3431972--3432014	22	2.0	22	95	0	77	37	0	11	51	1.39
3432039--3432097	31	1.9	31	92	0	100	42	10	6	40	1.65
3432271--3432512	54	4.5	54	85	0	313	26	16	20	37	1.93
3432490--3432534	22	2.0	22	95	0	81	26	17	24	31	1.97
3432893--3432931	20	2.0	20	94	0	69	25	17	15	41	1.89
3434569--3434615	6	7.8	6	86	9	69	0	17	0	82	0.66
3434568--3434606	13	3.1	13	92	7	71	0	15	0	84	0.62
3434569--3434615	19	2.6	18	87	9	69	0	17	0	82	0.66
3434724--3434777	27	2.0	27	92	0	90	44	22	7	25	1.79
3434938--3434964	12	2.2	12	100	0	54	48	7	14	29	1.71
3435315--3435368	5	10.8	5	86	7	74	79	1	1	16	0.91
3443515--3443541	2	13.5	2	100	0	54	48	0	0	51	1.00
3443913--3443940	2	14.0	2	100	0	56	50	0	0	50	1.00
3449252--3449293	12	3.5	12	86	0	57	28	7	0	64	1.20
3449251--3449293	3	14.3	3	80	0	50	30	6	0	62	1.21
3450989--3451022	17	2.0	17	94	0	59	50	0	20	29	1.49
3451123--3451149	2	13.5	2	100	0	54	48	0	0	51	1.00
3455713--3455766	22	2.5	22	78	0	63	38	22	9	29	1.85
3461204--3461245	22	1.9	22	85	0	57	38	21	9	30	1.85
3461521--3461552	6	5.3	6	100	0	64	34	50	15	0	1.45
3464034--3464100	23	2.9	23	93	2	107	44	1	8	44	1.44
3464077--3464398	75	4.2	81	83	9	256	45	3	7	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3464386--3464417	2	16.0	2	100	0	64	50	0	0	50	1.00
3464069--3464396	37	8.7	38	83	9	347	45	3	7	44	1.47
3464428--3464473	9	5.0	10	85	15	64	28	0	0	71	0.86
3464431--3464473	18	2.4	19	92	7	72	27	0	0	72	0.85
3464438--3464481	18	2.4	18	88	3	61	27	2	2	68	1.14
3465668--3465711	19	2.3	18	77	11	52	11	15	0	72	1.11
3465772--3465802	5	6.2	5	100	0	62	19	0	0	80	0.71
3465847--3465876	15	2.0	15	93	0	51	23	6	0	70	1.11
3471917--3472146	85	2.7	85	82	2	275	33	20	18	27	1.96
3472726--3472770	23	1.9	23	90	4	72	44	0	8	46	1.34

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   51   52   53   54   55