genome.fa.s8356.2.7.7.80.10.50.1000.41.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   56   

This is table  41  of  56  ( 6656 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)
9574089--9574124	17	2.1	17	90	10	56	41	0	16	41	1.48
9575207--9575469	140	1.9	140	82	9	340	47	6	6	38	1.56
9575499--9575533	4	8.2	4	96	3	52	77	0	0	22	0.78
9576562--9576695	3	45.7	3	86	7	195	65	0	1	32	1.07
9576935--9576994	17	3.4	17	68	17	50	18	23	8	50	1.74
9577056--9577478	121	3.6	121	86	5	530	26	18	14	39	1.90
9577192--9577236	22	2.0	22	83	12	56	15	28	6	48	1.70
9577350--9577593	73	3.3	73	65	7	211	28	20	13	37	1.91
9577423--9577518	38	2.5	39	93	3	158	19	23	8	47	1.76
9577309--9577635	151	2.2	151	97	1	611	26	21	12	39	1.88
9577463--9577666	112	1.8	110	87	5	302	26	20	13	39	1.90
9578206--9578251	20	2.3	20	92	0	74	26	19	17	36	1.94
9578511--9578547	18	2.1	18	94	0	65	56	8	5	29	1.51
9585619--9585650	15	2.1	15	100	0	64	50	6	18	25	1.70
9589483--9589518	2	18.0	2	100	0	72	50	0	0	50	1.00
9589492--9589748	141	1.8	143	84	6	362	46	6	7	40	1.57
9589775--9589803	14	2.0	15	93	6	51	55	0	0	44	0.99
9591222--9591304	3	28.7	3	78	11	93	66	2	1	30	1.12
9592712--9592765	2	27.0	2	100	0	108	50	0	0	50	1.00
9593598--9593757	73	2.2	73	97	0	302	30	13	21	34	1.92
9598998--9599037	21	1.9	21	89	0	62	32	27	20	20	1.97
9601764--9601797	18	1.9	17	88	5	50	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9603265--9603308	23	1.9	23	85	0	61	43	2	0	54	1.12
9607895--9607954	30	2.0	30	86	0	84	46	3	13	36	1.60
9610788--9610975	84	2.2	84	88	0	268	21	20	27	30	1.98
9610963--9611090	33	3.9	33	89	5	188	31	9	20	39	1.84
9610963--9611086	67	1.9	65	88	6	187	29	8	20	40	1.83
9611139--9611245	36	3.0	36	92	0	178	40	14	21	24	1.90
9611626--9613140	106	14.3	106	92	1	2496	22	18	24	34	1.96
9611626--9613140	319	4.8	319	95	0	2705	22	18	24	34	1.96
9611626--9613140	637	2.4	637	96	0	2737	22	18	24	34	1.96
9618184--9618236	2	27.5	2	92	7	92	49	0	0	50	1.00
9619387--9619459	21	3.5	21	98	0	128	45	0	23	31	1.53
9620384--9620439	22	2.7	20	81	10	67	28	16	28	26	1.97
9620314--9620510	95	2.1	94	86	6	274	32	16	24	26	1.96
9620859--9620963	54	1.9	54	87	11	153	30	22	20	26	1.98
9635624--9635759	44	3.2	43	81	13	163	33	13	22	30	1.93
9639829--9640040	110	1.9	109	83	6	277	31	18	18	30	1.96
9639877--9640042	55	3.0	54	83	3	199	33	19	17	29	1.95
9640466--9640522	22	2.8	20	82	10	69	24	31	15	28	1.96
9640408--9640594	95	2.0	96	87	4	272	27	24	17	31	1.97
9640559--9640611	21	2.6	19	80	13	61	28	18	16	35	1.93
9643866--9643916	23	2.2	23	82	0	57	35	23	21	19	1.96
9656229--9656274	20	2.3	20	96	0	83	13	6	4	76	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9663909--9663948	16	2.6	15	80	7	53	62	5	20	12	1.48
9668873--9668925	24	2.2	24	96	0	97	28	11	32	28	1.91
9672102--9673020	306	3.0	306	94	0	1547	29	16	25	28	1.97
9674090--9674150	31	2.0	31	83	6	79	40	1	3	54	1.27
9674120--9674169	19	2.5	20	81	9	59	38	4	0	58	1.17
9674894--9674979	31	2.8	29	77	11	91	52	3	2	41	1.31
9675817--9675865	19	2.7	18	78	6	53	16	12	2	69	1.28
9676607--9676662	24	2.3	24	100	0	112	28	17	16	37	1.91
9676905--9676942	11	3.6	11	86	13	62	5	28	28	36	1.79
9676901--9676951	20	2.5	19	90	6	75	3	27	25	43	1.72
9677371--9677396	3	8.7	3	100	0	52	34	0	0	65	0.93
9687668--9687720	21	2.6	21	82	8	65	33	13	16	35	1.88
9687785--9687829	22	2.0	23	86	4	65	31	13	31	24	1.93
9687709--9687894	95	1.9	96	87	5	270	32	16	24	26	1.96
9687713--9687918	95	2.2	96	83	4	247	33	16	25	25	1.96
9688574--9688897	68	4.8	68	90	0	468	30	15	23	31	1.95
9688848--9689089	81	3.0	80	88	5	337	41	11	19	27	1.86
9690663--9690750	45	1.9	46	90	2	142	28	18	25	28	1.98
9693415--9693458	23	1.9	23	81	9	54	25	20	29	25	1.99
9699773--9699798	13	2.0	13	100	0	52	69	0	15	15	1.20
9700108--9700556	62	7.3	60	83	10	427	37	26	19	16	1.93
9700107--9700564	104	4.5	104	91	3	723	38	25	19	16	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9700107--9700564	42	11.1	41	84	9	419	38	25	19	16	1.92
9700660--9700692	6	5.5	6	100	0	66	33	51	15	0	1.43
9701189--9701248	6	10.5	6	98	1	99	0	16	53	30	1.44
9701344--9701553	20	10.2	20	73	15	153	16	18	24	40	1.91
9701344--9701553	42	5.1	40	76	9	135	16	18	24	40	1.91
9701344--9701470	62	2.0	62	95	0	227	18	18	25	38	1.92
9702588--9702834	116	2.1	115	80	8	262	29	10	4	55	1.53
9703300--9703331	2	16.5	2	93	6	57	46	0	0	53	1.00
9707027--9707056	15	2.0	15	93	0	51	13	23	46	16	1.82
9713461--9713708	101	2.4	105	79	6	254	33	12	13	39	1.83
9731822--9732256	6	72.2	6	97	0	690	15	3	34	46	1.62
9732662--9732688	2	13.5	2	100	0	54	48	0	0	51	1.00
9735660--9735743	29	2.9	29	96	0	150	35	5	10	47	1.63
9735675--9735875	85	2.3	87	77	9	200	32	10	8	47	1.69
9735668--9735871	29	7.1	27	76	10	124	34	10	8	46	1.69
9735878--9735911	15	2.2	16	89	5	52	35	0	0	64	0.94
9741737--9741848	29	3.9	29	81	0	98	51	11	1	34	1.49
9741796--9741863	29	2.3	29	87	5	93	52	14	0	32	1.42
9741728--9741863	58	2.4	58	78	1	148	50	11	1	37	1.47
9742118--9742255	21	6.7	20	75	11	111	23	18	23	34	1.96
9742118--9742255	61	2.2	62	94	2	242	23	18	23	34	1.96
9742345--9742369	6	4.2	6	100	0	50	36	48	16	0	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9743144--9743402	21	12.4	21	74	14	241	35	26	18	19	1.95
9743119--9743267	42	3.5	42	89	1	226	36	24	19	19	1.95
9743228--9743404	82	2.1	82	93	2	300	34	27	19	19	1.95
9743419--9743469	21	2.4	21	80	3	57	23	15	27	33	1.95
9745751--9745809	3	19.7	3	100	0	118	33	0	0	66	0.92
9745861--9745911	9	5.4	9	78	15	50	58	0	0	41	0.98
9746129--9746163	16	2.1	17	89	5	54	31	0	0	68	0.90
9746347--9746400	21	2.7	21	83	11	69	40	0	3	55	1.17
9754228--9754268	21	2.0	21	85	0	55	39	21	36	2	1.67
9754235--9754290	21	2.6	22	75	8	62	39	23	35	1	1.65
9754759--9755131	43	8.8	41	76	7	245	34	21	14	29	1.94
9754750--9755131	86	4.5	86	79	4	373	34	22	14	28	1.94
9754792--9755122	127	2.6	129	82	5	397	32	22	14	30	1.94
9766476--9766551	29	2.6	30	80	2	100	30	19	5	44	1.73
9768630--9768739	55	2.0	55	96	0	202	34	7	16	41	1.76
9770430--9770518	43	2.1	43	97	0	169	37	4	14	43	1.66
9772545--9772587	16	2.7	16	100	0	86	37	6	18	37	1.78
9772780--9772834	12	4.6	12	83	0	74	12	16	47	23	1.81
9772832--9772873	2	21.5	2	80	4	50	54	0	0	45	0.99
9772938--9772986	13	3.8	13	94	2	82	12	16	55	16	1.70
9772938--9772986	25	1.9	25	91	4	80	12	16	55	16	1.70
9774671--9774731	29	2.1	29	93	0	104	49	9	11	29	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9776377--9776402	7	3.7	7	100	0	52	26	15	0	57	1.38
9777155--9777199	16	2.5	19	79	13	51	42	0	4	53	1.21
9777267--9777336	34	2.1	34	89	5	106	34	1	5	58	1.31
9777678--9777711	17	2.0	17	100	0	68	47	17	0	35	1.48
9781823--9781861	20	2.0	20	90	10	62	48	15	15	20	1.81
9785867--9785895	12	2.4	12	100	0	58	62	6	6	24	1.45
9790233--9790265	18	1.9	18	88	11	52	15	15	3	66	1.37
9793302--9793340	5	7.8	5	91	0	51	82	0	7	10	0.86
9793302--9793356	10	5.4	10	80	4	56	80	1	9	9	0.99
9793296--9793356	31	2.0	31	84	12	81	80	1	9	8	0.98

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   56