genome.fa.s8724.2.7.7.80.10.50.1000.17.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  17  of  23  ( 2733 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)
3826430--3827265	54	15.3	54	74	14	725	33	0	13	53	1.42
3826542--3826750	80	2.6	80	94	0	355	31	0	12	55	1.42
3826697--3826782	32	2.7	32	96	0	154	33	0	12	53	1.39
3826618--3827194	112	5.2	112	88	5	909	32	0	13	53	1.41
3826809--3827114	32	9.7	32	75	18	234	33	0	13	52	1.41
3826954--3826996	22	2.0	22	95	0	77	37	0	11	51	1.39
3827008--3827050	22	2.0	22	100	0	86	34	0	13	51	1.42
3826873--3827296	134	3.2	131	85	9	531	33	0	14	52	1.42
3827141--3827248	32	3.7	32	75	23	137	34	0	14	50	1.43
3827174--3827216	22	2.0	22	100	0	86	34	0	13	51	1.42
3826434--3827243	112	7.4	109	80	10	745	32	0	13	53	1.41
3826922--3827328	134	3.0	134	88	5	552	33	0	13	52	1.41
3827352--3827408	30	1.9	30	92	0	96	45	7	7	40	1.58
3828643--3828715	24	3.2	24	66	18	64	46	12	17	23	1.82
3828620--3829113	45	10.7	45	84	6	603	44	10	21	22	1.83
3828674--3828736	21	2.9	21	69	19	56	46	11	20	22	1.82
3828690--3828806	57	2.1	57	90	0	180	46	11	19	23	1.82
3830457--3830498	22	2.0	22	81	13	52	35	2	2	59	1.23
3831483--3831526	15	2.9	15	83	6	54	68	2	0	29	1.02
3831472--3831548	19	4.1	18	78	17	68	64	1	1	32	1.09
3832181--3832279	42	2.4	42	96	0	180	35	22	17	25	1.95
3831917--3832536	299	2.1	299	88	2	924	34	18	15	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3835374--3835405	13	2.5	13	94	0	55	37	21	15	25	1.93
3838533--3838583	16	3.1	16	80	5	57	78	0	0	21	0.75
3838545--3838588	15	2.9	15	80	12	54	72	0	0	27	0.85
3838561--3838610	9	5.4	9	83	4	55	62	0	0	38	0.96
3841049--3841086	2	19.0	2	100	0	76	50	0	0	50	1.00
3841125--3841223	22	4.4	22	73	10	74	55	9	2	33	1.43
3841126--3841227	46	2.2	46	89	5	154	54	8	2	33	1.46
3841308--3841334	4	6.8	4	100	0	54	25	0	22	51	1.48
3841337--3841586	8	30.2	9	72	21	135	57	7	2	32	1.40
3841332--3841598	23	10.1	27	70	22	83	56	6	2	33	1.40
3841354--3841565	23	8.7	23	74	20	173	57	7	2	32	1.39
3841340--3841509	53	3.1	54	75	18	158	57	7	2	32	1.38
3841340--3841576	33	7.1	32	73	21	168	57	7	2	32	1.39
3841450--3841606	80	2.0	80	92	2	262	58	5	3	32	1.37
3841810--3841843	17	2.0	17	94	0	59	17	5	2	73	1.16
3842154--3842459	157	2.0	155	84	5	402	28	34	4	33	1.77
3843221--3843279	16	3.7	15	77	22	66	11	0	8	79	0.93
3843218--3843280	33	1.9	33	93	6	110	11	0	9	79	0.94
3843231--3843298	33	2.1	33	86	2	93	14	1	10	73	1.16
3843354--3843421	29	2.4	28	85	11	93	14	5	7	72	1.26
3844196--3844269	35	2.1	36	85	7	98	13	1	10	74	1.14
3844227--3844269	18	2.4	18	81	14	54	13	0	9	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3844353--3844412	29	2.1	29	81	6	79	15	1	8	75	1.12
3846583--3846677	47	2.0	47	95	0	172	40	6	11	42	1.67
3846932--3847048	21	5.3	21	65	18	58	46	11	19	23	1.82
3846930--3847591	45	14.7	45	91	0	1000	44	12	21	21	1.85
3847507--3847576	21	3.2	21	65	31	56	40	10	27	22	1.86
3848149--3848206	2	29.0	2	100	0	116	50	0	0	50	1.00
3848972--3849083	56	2.0	57	91	1	181	26	17	8	47	1.76
3850440--3850571	54	2.4	54	91	3	203	40	15	12	31	1.85
3856730--3856967	107	2.2	108	89	3	372	39	15	11	33	1.84
3856675--3856967	54	5.4	54	86	2	374	37	16	13	31	1.88
3859735--3859786	25	2.1	25	85	0	68	42	19	11	26	1.85
3871462--3871519	3	19.7	3	79	10	66	31	1	0	67	1.01
3874961--3874997	15	2.4	16	86	9	58	48	10	32	8	1.67
3889381--3889423	22	1.9	23	85	4	61	44	11	25	18	1.84
3889531--3889572	16	2.6	16	88	0	57	54	23	0	21	1.44
3889922--3890044	36	3.4	36	84	5	142	30	19	13	36	1.90
3890177--3890288	37	3.2	33	72	19	86	35	17	9	36	1.83
3890440--3890626	40	4.4	42	68	18	118	25	34	16	24	1.95
3890292--3890724	131	3.3	131	83	4	505	25	31	17	25	1.97
3890929--3890985	3	18.7	3	75	10	53	29	1	1	66	1.12
3893652--3893749	44	2.2	44	80	8	110	38	12	17	31	1.86
3893828--3893913	23	3.9	22	86	7	120	16	23	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3894717--3894747	14	2.2	14	100	0	62	35	9	41	12	1.76
3897952--3898004	21	2.5	22	90	9	83	13	24	30	32	1.93
3901695--3901741	23	2.0	23	100	0	94	34	8	12	44	1.73
3909072--3909110	19	2.1	19	85	0	51	38	0	5	56	1.22
3909265--3909373	39	2.8	39	78	13	134	44	1	20	33	1.62
3911714--3911816	20	5.1	20	85	1	143	14	28	36	20	1.92
3911714--3911816	40	2.5	41	87	3	163	14	28	36	20	1.92
3915007--3915063	16	3.5	16	76	7	53	15	12	7	64	1.47
3920160--3920220	20	3.1	20	83	2	79	14	26	40	18	1.89
3922348--3922397	26	1.9	26	87	0	73	30	22	26	22	1.99
3922770--3922881	32	3.8	30	77	17	128	40	0	2	57	1.13
3922766--3922894	8	18.4	7	70	21	69	41	0	2	55	1.12
3922762--3922893	29	4.4	32	75	19	158	42	0	2	55	1.12
3926659--3927487	75	11.2	75	71	8	387	30	26	16	27	1.97
3926673--3926817	69	2.1	69	83	2	175	31	22	18	26	1.97
3926659--3927041	149	2.6	143	78	9	371	30	26	15	27	1.96
3927418--3927605	68	2.8	68	85	4	245	34	28	14	22	1.94
3934615--3935054	55	8.1	54	81	7	369	28	24	18	28	1.98
3934641--3935064	106	4.0	105	79	9	378	28	24	17	29	1.97
3934615--3935052	161	2.7	159	85	6	533	28	24	18	28	1.98
3935063--3935136	37	2.0	38	94	2	132	25	21	17	35	1.95
3936408--3936513	17	6.2	17	81	11	110	7	16	0	76	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3936401--3936455	10	6.0	10	76	21	50	7	9	0	83	0.81
3936409--3936513	33	3.1	32	80	14	104	7	16	0	76	1.01
3942988--3943131	45	3.1	45	94	3	243	39	20	10	29	1.86
3947386--3947555	31	5.5	31	99	0	331	18	20	21	39	1.93
3951749--3951920	31	5.5	31	99	0	335	18	19	22	38	1.93
3955409--3955470	32	2.0	32	87	3	90	53	6	16	24	1.66
3958890--3958966	29	2.6	29	87	2	109	55	11	6	25	1.59
3959126--3959160	18	2.0	18	88	5	54	42	17	2	37	1.64
3960479--3960746	4	67.0	4	97	0	509	48	25	1	25	1.58
3978217--3978301	24	3.5	24	91	0	143	25	11	20	42	1.86
3981646--3981714	27	2.6	27	97	0	129	37	5	17	39	1.74
3984503--3984531	15	1.9	15	100	0	58	34	6	10	48	1.64
3986340--3986583	124	2.0	124	85	4	332	50	8	5	34	1.57
3987202--3987272	3	23.0	3	91	5	115	63	0	0	36	0.95
3987204--3987272	22	3.2	22	93	2	122	63	0	0	36	0.94
3987473--3987904	39	11.1	39	86	1	526	22	23	12	41	1.87
3988035--3988156	37	3.3	36	75	6	120	40	12	15	31	1.84
3988007--3988192	36	5.1	35	71	10	142	41	11	16	30	1.84
3987946--3988205	73	3.6	73	92	2	425	40	11	15	32	1.83
3988916--3988997	22	3.7	22	88	9	123	37	13	12	36	1.82
3989348--3989453	55	1.9	55	86	0	149	28	24	11	35	1.90
3996236--3996292	23	2.5	24	77	13	66	77	0	5	17	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3996251--3996290	6	6.7	6	85	8	55	85	0	2	12	0.71
3996251--3996290	11	3.3	13	76	16	50	85	0	2	12	0.71
3997593--3997837	125	2.0	124	87	5	361	51	8	4	35	1.55
3999104--3999176	3	23.0	3	86	8	76	64	1	0	34	1.02
3999093--3999176	23	3.6	23	75	17	75	63	1	0	35	1.03
4003588--4003649	32	2.0	31	84	9	81	27	0	9	62	1.26
4004273--4004321	19	2.6	18	81	9	62	20	4	2	73	1.10
4016154--4016207	2	27.0	2	100	0	108	50	0	0	50	1.00
4019764--4020072	43	7.1	43	77	7	313	25	24	18	32	1.97
4019764--4020072	87	3.6	85	82	7	381	25	24	18	32	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23