genome.fa.s9585.2.7.7.80.10.50.1000.20.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  20  of  35  ( 4106 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)
4254677--4254709	4	8.0	4	93	6	57	75	0	0	24	0.80
4254601--4254687	27	3.2	27	74	9	88	59	1	11	27	1.39
4254954--4254981	14	2.0	14	100	0	56	42	0	7	50	1.30
4256126--4256162	19	2.0	18	89	5	56	45	0	0	54	1.00
4256133--4256169	16	2.2	17	90	4	58	43	0	2	54	1.14
4256783--4257652	433	2.0	434	95	0	1580	20	14	18	46	1.84
4259090--4259147	29	2.0	29	89	0	89	13	36	27	22	1.92
4259204--4259316	10	10.7	10	74	11	82	24	30	35	9	1.88
4259242--4259328	33	2.6	33	89	3	122	26	26	37	9	1.86
4259332--4259387	29	1.9	29	92	0	94	21	30	35	12	1.90
4259446--4259502	29	2.0	29	92	0	96	21	29	33	15	1.94
4260119--4260159	21	2.0	21	85	0	55	56	2	2	39	1.26
4265717--4265758	21	2.0	21	81	9	50	47	9	28	14	1.75
4267208--4267267	29	2.0	31	83	6	79	71	1	3	23	1.10
4268651--4268687	19	1.9	19	94	0	65	32	29	16	21	1.95
4268713--4268775	21	3.1	20	73	8	56	39	23	14	22	1.91
4268731--4268809	21	3.7	21	79	5	68	43	18	15	22	1.88
4269254--4269295	19	2.2	19	95	0	75	30	26	4	38	1.77
4269252--4269305	19	2.8	20	78	16	67	33	25	5	35	1.80
4269299--4269341	20	2.2	20	100	0	86	30	18	27	23	1.98
4273998--4274031	17	2.0	17	100	0	68	17	41	23	17	1.90
4274058--4274082	12	2.1	12	100	0	50	40	8	36	16	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4274111--4274195	29	2.9	28	89	3	125	12	34	30	22	1.92
4274217--4274275	23	2.6	23	88	0	82	11	33	27	27	1.92
4274263--4274328	34	1.9	34	96	0	123	13	28	34	22	1.92
4275091--4275127	5	7.4	5	87	0	56	75	0	5	18	0.99
4275089--4275127	10	3.9	10	96	0	69	71	0	7	20	1.10
4279001--4279335	168	2.0	167	98	1	645	20	20	21	37	1.95
4283988--4284035	25	1.9	25	83	8	62	54	2	4	39	1.32
4285542--4285593	17	2.8	18	77	14	52	53	1	0	44	1.11
4285542--4285617	36	2.1	37	85	2	100	57	2	0	39	1.12
4286999--4287045	24	1.9	24	82	4	58	51	4	2	42	1.33
4292306--4292380	38	2.0	38	97	2	143	37	18	5	38	1.74
4294193--4294235	2	22.5	2	90	9	72	46	0	0	53	1.00
4294193--4294235	21	2.0	21	100	0	86	46	0	0	53	1.00
4300778--4300870	21	4.6	20	78	4	96	38	18	24	18	1.92
4300775--4300870	41	2.3	41	98	0	183	39	17	23	18	1.92
4300778--4300870	20	4.6	20	78	4	96	38	18	24	18	1.92
4300859--4300952	20	4.7	20	74	7	64	35	24	15	24	1.95
4300856--4300933	41	1.9	41	81	5	95	41	21	14	23	1.89
4301527--4301616	19	4.7	19	93	2	153	11	20	22	46	1.81
4301527--4301616	39	2.3	38	94	1	153	11	20	22	46	1.81
4301599--4301683	33	2.5	33	88	1	125	14	22	24	38	1.91
4303746--4303812	21	3.2	21	66	6	55	23	35	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303690--4303812	42	2.9	42	80	4	106	22	36	17	23	1.94
4305169--4305204	14	2.6	14	95	0	63	30	0	25	44	1.54
4305352--4305394	19	2.2	20	83	4	52	25	20	25	27	1.99
4307667--4307691	12	2.1	12	100	0	50	0	28	0	72	0.86
4307866--4307919	24	2.2	24	90	0	81	38	20	16	24	1.92
4308979--4309076	20	4.9	20	94	0	169	36	22	23	17	1.94
4309114--4309181	19	3.6	19	100	0	136	14	20	16	48	1.81
4309095--4309210	33	3.4	33	82	11	142	14	21	19	43	1.87
4311153--4311219	19	3.5	19	79	4	80	37	22	23	16	1.94
4311208--4311265	14	3.9	14	79	16	71	48	25	17	8	1.75
4311192--4311270	32	2.4	33	95	2	142	46	24	18	10	1.80
4311277--4311372	19	5.7	16	69	22	56	11	17	22	47	1.80
4311299--4311356	14	3.9	14	79	16	71	8	15	25	50	1.73
4311282--4311372	32	2.8	32	89	3	137	10	16	23	49	1.77
4311358--4311400	20	2.2	20	87	4	61	18	23	20	37	1.94
4311883--4311927	18	2.5	18	85	0	63	15	15	42	26	1.87
4313247--4313284	20	1.9	20	88	0	58	50	21	15	13	1.78
4313548--4313591	22	2.0	22	95	0	79	18	15	45	20	1.85
4313779--4313872	20	4.7	20	80	2	89	23	18	24	34	1.96
4313759--4313873	20	5.7	20	78	5	88	23	17	23	35	1.95
4313801--4313935	41	3.3	41	80	4	121	20	21	20	37	1.94
4313862--4313954	20	4.6	20	75	4	87	19	24	17	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313862--4313957	41	2.3	41	96	0	174	19	23	16	39	1.92
4314447--4314491	18	2.6	18	86	6	58	73	0	0	26	0.84
4319850--4319879	3	10.3	3	92	7	53	36	0	0	63	0.95
4319910--4319951	20	2.2	20	86	4	59	59	23	2	14	1.47
4325351--4325375	12	2.1	12	100	0	50	32	44	8	16	1.76
4327695--4327729	3	11.7	3	100	0	70	68	0	0	31	0.90
4330370--4330414	23	2.0	23	100	0	90	20	17	13	48	1.80
4338818--4338982	60	2.8	59	84	7	192	41	4	21	32	1.74
4338824--4339005	60	3.0	60	81	6	174	42	4	20	32	1.72
4345837--4345978	54	2.6	54	89	0	221	23	25	23	28	2.00
4347123--4347209	45	1.9	45	86	4	122	43	14	9	32	1.77
4349349--4349386	18	2.1	18	100	0	76	44	10	15	28	1.80
4354459--4354502	2	22.5	2	95	4	81	50	0	0	50	1.00
4354557--4354843	84	3.5	83	85	8	369	30	18	20	30	1.96
4355932--4355964	15	2.3	15	89	5	50	69	9	0	21	1.15
4356481--4356571	17	5.2	17	81	5	85	45	10	10	32	1.75
4365275--4365337	22	2.9	22	68	15	58	55	20	9	14	1.67
4395026--4395097	31	2.3	31	85	0	99	27	18	18	36	1.94
4400358--4400403	22	2.1	22	88	4	67	47	0	4	47	1.21
4401728--4401814	40	2.1	43	80	8	108	35	10	17	36	1.84
4401729--4401891	41	4.0	40	75	13	127	30	14	18	37	1.90
4401873--4402008	42	3.2	42	81	2	157	24	20	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4403351--4403388	20	1.9	20	100	0	76	36	10	28	23	1.88
4409219--4409262	21	2.1	21	87	4	63	38	2	0	59	1.10
4409995--4410455	111	4.1	111	91	1	708	44	12	15	27	1.82
4409995--4410455	223	2.1	223	91	1	746	44	12	15	27	1.82
4410215--4410887	294	2.3	294	89	0	999	43	12	15	27	1.83
4410508--4410749	112	2.2	112	93	0	412	43	14	15	26	1.85
4411529--4411572	22	2.0	22	82	8	54	43	15	6	34	1.74
4415677--4415955	118	2.4	118	90	2	429	33	30	15	20	1.94
4422279--4422324	21	2.2	21	92	0	74	34	10	17	36	1.85
4422475--4422517	17	2.6	17	85	10	54	37	0	4	58	1.19
4423634--4423690	14	4.0	14	75	4	60	43	3	19	33	1.68
4423633--4423691	29	2.0	29	90	0	91	42	6	18	32	1.77
4423693--4423732	14	2.9	14	88	0	53	30	15	17	37	1.90
4424072--4424127	28	2.0	29	82	10	71	46	1	1	50	1.22
4424178--4424238	27	2.4	25	73	13	61	54	0	1	44	1.10
4428049--4428119	36	1.9	36	86	8	99	47	1	2	47	1.25
4431722--4431792	25	2.9	25	87	4	92	47	0	5	46	1.26
4431723--4431797	23	3.2	22	84	7	87	46	0	5	48	1.25
4431925--4431959	18	1.9	18	100	0	70	45	20	0	34	1.51
4435359--4435402	22	2.0	22	86	4	61	36	0	6	56	1.26
4435613--4435649	16	2.5	15	91	8	58	54	0	0	45	1.00
4436387--4436443	24	2.4	24	93	0	96	21	8	10	59	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4436711--4436750	20	2.0	20	85	0	53	10	12	20	57	1.63
4438171--4438902	365	2.0	365	97	0	1394	29	18	21	29	1.97
4445844--4446071	42	5.3	43	74	17	181	26	19	7	46	1.77
4445875--4446071	86	2.3	86	81	8	233	26	18	8	45	1.78
4445785--4446067	128	2.2	122	80	13	324	25	19	8	46	1.78
4468558--4468605	15	3.2	15	90	0	78	8	16	66	8	1.42
4475817--4475842	12	2.2	12	100	0	52	15	11	15	57	1.65
4478742--4478774	18	1.9	18	88	11	52	33	12	12	42	1.79
4481294--4481503	75	2.8	77	85	5	284	20	22	32	23	1.98
4482097--4482138	17	2.7	15	82	13	57	57	28	0	14	1.38

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