genome.fa.s9605.2.7.7.80.10.50.1000.25.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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  25  of  35  ( 4090 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)
5984316--5984347	14	2.4	14	94	5	57	37	0	0	62	0.95
5986602--5987638	182	5.7	181	91	1	1617	42	14	17	26	1.87
5992224--5993776	201	7.8	201	87	3	2038	36	15	15	32	1.89
5992224--5993776	401	3.9	401	87	4	2056	36	15	15	32	1.89
5992224--5993776	602	2.6	593	86	4	2103	36	15	15	32	1.89
5994090--5994118	15	1.9	15	100	0	58	20	44	6	27	1.77
5995275--5995318	3	14.7	3	80	0	52	40	2	31	25	1.68
5995275--5995318	12	3.7	12	90	0	61	40	2	31	25	1.68
5996611--5996663	24	2.2	24	82	0	61	33	3	15	47	1.63
5997866--5998853	199	5.0	199	90	1	1438	36	15	16	31	1.90
5997888--5998853	395	2.4	391	88	2	1443	36	14	16	32	1.89
6000456--6000503	19	2.5	19	93	0	78	29	6	12	52	1.63
6002979--6003662	200	3.4	198	86	3	912	38	15	15	30	1.89
6005397--6005443	23	2.0	24	84	12	62	74	0	2	23	0.93
6007550--6007595	2	23.5	2	95	4	85	52	0	0	47	1.00
6007578--6007862	38	7.7	38	72	19	201	45	2	7	43	1.46
6007646--6007704	27	2.2	27	93	0	100	47	0	6	45	1.29
6007517--6007792	102	2.6	108	83	10	306	46	2	6	44	1.44
6007681--6007777	43	2.3	43	83	5	108	44	3	7	45	1.47
6007880--6007917	20	1.9	20	84	10	51	15	2	2	78	0.97
6010159--6010203	18	2.5	18	92	0	72	42	15	8	33	1.78
6013164--6013257	45	2.1	45	100	0	188	41	6	32	19	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6018584--6018635	17	3.1	16	71	13	50	75	5	17	1	1.10
6018598--6018642	22	2.1	21	83	4	54	73	8	17	0	1.08
6019526--6019573	21	2.3	21	100	0	96	39	31	8	20	1.82
6023419--6023445	2	13.5	2	100	0	54	51	0	0	48	1.00
6023427--6023698	39	6.7	39	79	14	259	46	4	6	42	1.51
6023386--6023656	88	3.2	86	83	7	311	45	4	7	42	1.52
6023425--6023686	88	3.1	81	78	14	266	46	4	6	42	1.51
6023722--6023778	7	8.0	7	74	18	55	14	5	1	78	0.99
6024222--6024257	17	2.1	18	89	5	56	55	33	11	0	1.35
6025055--6025095	18	2.3	18	83	12	57	17	7	0	75	1.02
6025076--6025122	23	1.9	26	83	12	64	19	10	2	68	1.30
6025074--6025128	23	2.2	26	75	9	62	16	9	1	72	1.18
6026409--6026778	184	2.0	183	88	1	553	45	8	2	42	1.48
6026730--6026775	22	2.1	21	84	4	56	41	4	0	54	1.20
6026859--6026917	29	2.0	29	83	6	75	40	8	18	32	1.81
6028006--6028049	13	3.6	12	82	8	54	59	2	2	36	1.23
6028930--6029065	73	1.9	73	95	3	247	27	13	5	52	1.63
6029294--6029340	15	2.9	17	78	12	55	40	0	0	59	0.97
6031232--6031270	19	2.1	19	90	0	60	25	7	35	30	1.84
6031183--6031287	37	2.9	36	76	11	106	28	7	32	31	1.85
6031184--6031317	18	7.4	17	72	9	88	31	7	29	32	1.85
6031388--6031428	21	2.0	20	85	4	55	29	4	39	26	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6035765--6035803	16	2.4	16	91	0	60	46	17	12	23	1.83
6035983--6036021	16	2.4	16	91	0	60	46	17	12	23	1.83
6035701--6036081	113	3.5	112	93	6	688	43	16	11	28	1.83
6036335--6036376	19	2.2	20	91	4	68	26	30	21	21	1.98
6037039--6037089	20	2.5	20	84	6	59	25	7	21	45	1.79
6038964--6039032	19	3.5	19	81	11	68	36	11	15	36	1.84
6045148--6045184	11	3.5	11	82	14	51	43	0	13	43	1.44
6045908--6045973	24	2.7	23	76	17	71	33	19	18	28	1.95
6046083--6046152	15	4.6	15	73	3	59	35	27	10	27	1.88
6046632--6046683	20	2.6	20	78	6	61	26	25	13	34	1.93
6050278--6050636	179	2.0	180	99	0	711	27	26	15	30	1.96
6053018--6053066	24	2.0	24	84	0	62	30	20	22	26	1.98
6053169--6053238	15	4.6	15	73	3	68	38	27	8	25	1.85
6054714--6054767	20	2.7	20	85	0	72	40	18	5	35	1.74
6055476--6055610	66	2.1	63	85	9	186	45	17	4	32	1.69
6059438--6059477	21	1.9	21	90	10	64	37	15	17	30	1.90
6059529--6059577	20	2.5	20	100	0	98	24	18	22	34	1.96
6060675--6060734	31	1.9	31	89	0	93	58	3	25	13	1.50
6065638--6065717	2	40.5	2	97	2	153	51	0	0	48	1.00
6072703--6072873	46	3.8	46	92	2	267	39	7	22	30	1.82
6076290--6076507	47	4.8	47	92	3	322	34	19	6	39	1.77
6076623--6076738	61	1.9	61	82	7	146	35	27	15	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6080361--6080394	2	17.0	2	100	0	68	50	0	0	50	1.00
6080404--6080491	5	17.4	5	71	19	51	5	14	1	78	0.99
6080407--6080488	27	3.1	26	83	13	105	6	14	1	78	1.01
6080414--6080488	19	4.1	18	76	13	55	6	14	1	77	1.04
6080405--6080482	29	2.9	27	85	11	99	5	14	1	79	0.96
6083272--6083428	47	3.4	47	90	5	243	34	17	8	39	1.80
6084333--6084440	14	7.7	14	100	0	216	22	21	21	35	1.96
6085471--6085543	30	2.4	30	78	13	78	32	19	9	38	1.84
6086595--6086626	14	2.3	14	100	0	64	18	37	12	31	1.88
6087099--6087152	22	2.5	22	93	3	92	31	27	16	24	1.96
6087670--6087711	14	2.9	14	77	16	50	61	0	28	9	1.27
6089548--6089630	41	2.0	41	86	4	114	27	25	26	20	1.99
6089573--6089630	21	2.8	20	84	2	80	29	24	27	18	1.98
6089696--6089749	21	2.6	21	90	0	90	27	18	33	20	1.96
6089829--6089886	30	2.0	29	90	10	91	44	17	5	32	1.70
6089829--6089888	29	2.0	30	93	6	104	43	16	6	33	1.74
6093223--6093279	22	2.8	19	78	17	69	21	21	33	24	1.97
6093237--6093279	22	1.9	23	90	4	70	20	20	32	25	1.97
6093348--6093410	30	2.1	29	85	11	83	49	12	6	31	1.66
6093359--6093419	29	2.0	30	90	6	97	42	14	6	36	1.72
6093936--6094316	58	6.8	57	74	12	299	43	14	7	35	1.72
6094283--6094392	39	2.9	39	84	8	129	42	12	5	39	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6094400--6094484	43	2.0	43	88	0	125	45	11	3	38	1.58
6094605--6094756	58	2.6	59	85	5	191	41	11	9	37	1.74
6094578--6094765	58	3.2	58	80	5	189	39	13	7	38	1.75
6094878--6095130	45	5.6	45	77	10	221	41	15	8	34	1.77
6094878--6095130	89	2.8	90	76	6	253	41	15	8	34	1.77
6097140--6097298	3	53.0	3	79	0	129	43	0	54	1	1.11
6097125--6097262	27	5.3	27	79	9	133	44	0	53	2	1.12
6097144--6097277	39	3.4	39	92	3	196	44	0	53	1	1.09
6097144--6097309	42	4.0	42	85	5	180	45	0	52	1	1.11
6097732--6097774	22	2.0	21	82	17	52	48	6	4	39	1.51
6100774--6100948	54	3.2	54	90	0	260	32	17	20	29	1.96
6101519--6101582	23	2.9	22	75	11	60	23	25	20	31	1.98
6107672--6107864	55	3.5	55	88	0	271	31	18	20	29	1.96
6108959--6109009	2	25.5	2	100	0	102	50	0	0	49	1.00
6109169--6109220	24	2.2	24	82	0	59	50	17	11	21	1.77
6109192--6109310	48	2.5	48	84	2	150	41	17	15	26	1.89
6109192--6109307	24	4.8	24	81	6	128	41	17	15	25	1.89
6110502--6110536	18	1.9	18	88	0	52	28	17	0	54	1.43
6111847--6111892	13	3.5	13	75	0	56	21	19	41	17	1.90
6113987--6114038	24	2.2	24	82	0	59	50	17	11	21	1.77
6114010--6114149	24	5.8	24	89	5	169	38	19	17	24	1.93
6114010--6114167	48	3.3	47	80	8	158	39	18	17	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6115345--6115379	18	1.9	18	88	0	52	28	17	0	54	1.43
6116699--6116737	18	2.2	18	95	0	69	12	23	48	15	1.79
6116693--6116757	31	2.1	31	91	0	103	18	20	43	18	1.89
6116693--6116722	13	2.3	13	94	0	51	16	23	43	16	1.87
6117583--6117672	23	4.2	22	75	18	82	23	24	24	27	2.00
6119663--6119711	22	2.2	22	82	13	57	14	6	6	73	1.22
6119698--6119758	25	2.4	25	77	2	68	18	4	1	75	1.06
6126735--6126772	19	2.2	18	86	13	53	34	0	0	65	0.93
6131611--6131923	156	2.0	156	98	1	601	32	21	19	27	1.97
6133586--6133658	20	3.7	20	94	1	121	19	19	28	32	1.96

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