genome.fa.s8280.2.7.7.80.10.50.1000.16.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

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

This is table  16  of  17  ( 1944 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)
3349719--3350137	209	2.0	208	99	0	829	36	17	13	32	1.89
3356717--3356797	33	2.5	31	82	7	99	50	25	9	13	1.72
3357203--3357244	22	2.0	20	86	9	57	47	0	2	50	1.14
3357955--3357995	3	13.7	3	100	0	82	68	0	0	31	0.90
3358228--3358296	3	22.0	3	79	8	57	42	0	0	57	0.98
3358263--3358294	17	1.9	16	93	6	55	40	0	0	59	0.97
3360363--3360416	20	2.5	20	85	8	63	22	3	1	72	1.10
3371015--3371049	10	3.6	10	88	3	54	88	0	11	0	0.51
3372413--3372887	82	5.6	83	93	2	756	24	12	24	38	1.91
3372413--3372887	165	2.8	165	92	3	754	24	12	24	38	1.91
3372725--3372905	92	2.0	92	92	2	301	27	13	23	34	1.93
3373214--3373413	95	2.1	95	96	0	373	37	15	16	31	1.90
3373851--3374731	123	7.3	121	78	10	891	39	14	19	27	1.90
3373716--3374531	123	6.9	113	78	10	750	37	14	19	28	1.91
3373746--3374530	236	3.3	236	91	2	1202	38	14	19	28	1.90
3373986--3374636	360	1.8	348	89	4	1007	38	14	19	26	1.90
3374878--3374953	3	24.3	3	76	7	71	42	0	0	57	0.98
3376331--3376380	22	2.2	22	85	7	64	42	4	0	54	1.19
3384573--3384608	18	2.0	18	88	0	54	55	0	0	44	0.99
3389576--3389629	21	2.6	21	73	5	56	31	12	11	44	1.78
3390634--3390678	23	2.0	21	87	8	63	53	0	46	0	1.00
3393568--3393664	33	2.9	33	92	0	167	25	18	25	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3393574--3393660	17	5.2	17	62	25	51	25	19	25	29	1.98
3393731--3393759	14	2.0	15	93	6	51	13	0	27	58	1.36
3394191--3394251	10	5.7	10	74	14	59	27	18	16	37	1.92
3394200--3394268	12	6.1	12	78	13	65	28	18	15	36	1.92
3394191--3394260	22	3.2	22	91	0	113	27	20	15	37	1.93
3395374--3395443	20	3.5	20	88	0	104	31	14	21	32	1.93
3395365--3395443	40	2.0	40	94	0	140	31	13	22	31	1.93
3395974--3396036	22	2.9	22	87	0	99	15	26	31	25	1.96
3400480--3400524	21	2.1	21	87	0	63	31	28	24	15	1.96
3401799--3401826	14	2.0	14	100	0	56	28	7	28	35	1.84
3401927--3402239	147	2.1	148	94	3	542	27	17	21	33	1.95
3402207--3402251	23	2.0	23	90	0	72	22	26	26	24	2.00
3405390--3405434	21	2.1	21	87	0	63	31	28	24	15	1.96
3406712--3406739	14	2.0	14	100	0	56	28	7	28	35	1.84
3406840--3407152	147	2.1	148	95	2	558	27	17	21	34	1.95
3407120--3407164	23	2.0	23	90	0	72	22	26	26	24	2.00
3410005--3410043	19	2.1	19	85	0	51	43	0	23	33	1.54
3410236--3410312	20	3.8	20	96	0	136	28	16	27	27	1.97
3411788--3411834	20	2.3	20	92	0	76	36	25	17	21	1.94
3411808--3411893	40	2.2	40	89	0	127	40	22	13	23	1.89
3411788--3411874	20	4.3	20	72	16	72	37	22	16	22	1.93
3411839--3411954	20	5.8	19	68	12	65	43	24	12	19	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3411842--3411954	40	2.8	40	75	7	106	43	24	11	20	1.85
3411903--3411960	20	2.9	20	86	0	80	50	25	10	13	1.74
3412512--3412545	14	2.4	14	95	0	59	8	20	20	50	1.75
3412484--3412560	20	4.2	20	78	20	96	10	19	23	46	1.80
3412494--3412560	34	2.0	34	96	0	125	8	20	22	47	1.78
3414411--3414457	21	2.2	21	77	7	51	19	21	27	31	1.97
3414557--3414602	4	11.5	4	80	0	56	26	2	4	67	1.21
3414752--3414822	21	3.4	21	78	0	70	19	35	25	19	1.96
3416151--3416322	66	2.6	67	88	8	237	29	2	17	51	1.58
3416179--3416322	66	2.2	65	93	2	245	30	1	18	50	1.55
3417733--3417769	18	2.1	18	89	0	56	51	10	5	32	1.60
3418240--3418299	20	2.9	20	76	14	59	40	20	18	21	1.92
3418307--3418355	20	2.5	20	79	0	62	30	22	24	22	1.99
3418685--3418720	18	2.0	18	88	0	54	19	2	22	55	1.56
3420982--3421035	24	2.2	24	90	0	81	40	18	18	22	1.91
3421961--3422007	18	2.6	18	82	3	58	31	14	23	29	1.95
3422000--3422072	19	3.7	19	88	5	83	30	13	21	34	1.92
3421981--3422152	20	8.6	20	74	11	113	25	13	22	37	1.92
3422061--3422206	20	7.3	20	72	6	116	20	14	22	42	1.88
3422020--3422231	80	2.7	80	86	4	250	22	14	22	40	1.90
3422039--3422231	40	4.8	41	80	9	220	21	15	22	40	1.90
3422200--3422246	20	2.4	19	82	10	58	17	17	31	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3422051--3422251	80	2.5	80	87	2	260	20	15	23	40	1.91
3425804--3425833	2	15.0	2	92	0	51	46	0	3	50	1.18
3430755--3430797	21	2.0	21	90	0	68	32	27	23	16	1.96
3430825--3430861	19	1.9	19	88	0	56	24	35	29	10	1.89
3431344--3431557	103	2.1	104	95	1	387	25	10	24	38	1.88
3431578--3431663	23	3.7	23	85	3	120	20	25	26	26	1.99
3434682--3434708	13	2.1	13	100	0	54	14	29	7	48	1.71
3447484--3448025	113	4.8	113	89	2	772	29	18	14	38	1.90
3447482--3448009	224	2.3	225	88	2	781	28	18	14	38	1.90
3449183--3449232	18	2.7	18	87	6	64	54	6	8	32	1.54
3449183--3449257	20	3.8	19	78	16	73	53	5	9	32	1.55
3460261--3460314	28	2.0	27	85	3	72	59	1	5	33	1.31
3461075--3461126	25	2.0	26	82	10	63	63	1	5	28	1.28
3467444--3467858	51	7.7	55	89	3	426	28	26	16	28	1.97
3467506--3467868	51	6.9	51	89	5	458	27	26	16	29	1.97
3469260--3469311	18	2.9	18	83	13	56	13	17	0	69	1.19
3469315--3469356	13	3.2	13	86	6	59	2	16	0	80	0.81
3469245--3469339	35	2.7	35	76	14	88	7	18	0	73	1.06
3472843--3472874	10	3.4	10	83	16	50	50	9	0	40	1.35
3478960--3479048	45	1.9	47	88	4	137	38	21	11	29	1.88
3482509--3482547	21	1.9	20	85	15	53	51	0	0	48	1.00
3483176--3483206	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485829--3485889	23	2.7	23	92	0	104	19	27	24	27	1.99
3496481--3496531	21	2.5	20	87	6	66	19	9	35	35	1.85
3499048--3499114	23	2.9	23	88	0	98	26	25	25	22	2.00
3499118--3499343	103	2.3	99	87	6	321	38	22	12	26	1.90
3500047--3500203	64	2.5	64	76	9	158	26	18	20	34	1.96
3506667--3506701	12	2.9	12	95	0	61	28	51	11	8	1.67
3507262--3507319	27	2.1	27	93	0	98	41	12	6	39	1.69
3507268--3507321	27	2.0	27	100	0	108	40	11	7	40	1.69
3507376--3507434	31	1.9	31	85	0	82	35	10	13	40	1.78
3507644--3507736	21	4.5	21	78	4	100	39	18	24	17	1.91
3507644--3507736	41	2.3	41	100	0	186	39	18	24	17	1.91
3507663--3507797	41	3.3	41	84	4	148	37	21	20	20	1.94
3507725--3507818	20	4.7	20	80	7	91	32	25	17	24	1.96
3508006--3508049	22	2.0	22	95	0	79	20	45	15	18	1.85
3508312--3508349	20	1.9	20	88	0	58	13	15	21	50	1.78
3509654--3509698	18	2.5	18	85	0	63	26	46	15	11	1.79
3510169--3510234	19	3.4	19	81	4	78	37	24	22	15	1.92
3510223--3510280	14	3.9	14	79	16	71	48	25	17	8	1.75
3510207--3510295	32	2.8	33	91	6	148	48	23	17	10	1.78
3510222--3510286	14	4.3	15	74	25	66	49	24	18	7	1.74
3510326--3510413	19	4.6	19	84	4	106	13	22	22	40	1.89
3510337--3510410	39	1.9	38	88	2	112	14	24	22	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3512271--3512309	14	2.8	14	84	0	51	33	2	17	46	1.62
3512391--3512492	19	5.6	19	88	9	151	45	18	22	13	1.85
3512511--3512568	20	2.9	20	94	0	98	17	22	22	37	1.93
3513624--3513677	24	2.2	24	90	0	81	24	16	20	38	1.92
3516138--3516285	33	4.3	36	76	14	136	41	20	22	15	1.90
3516158--3516283	33	3.8	33	85	5	184	42	19	22	15	1.88
3516159--3516290	66	2.0	65	94	1	228	41	19	21	16	1.90
3516445--3516481	14	2.6	14	91	0	65	45	24	0	29	1.53
3517820--3517886	21	3.2	21	68	4	55	19	20	35	23	1.95
3517820--3517942	42	2.9	41	80	7	113	22	17	36	22	1.95

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