genome.fa.s761.2.7.7.80.10.50.1000.22.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

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  22  of  23  ( 2686 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)
5238444--5238487	23	1.9	23	85	0	61	43	0	29	27	1.55
5238747--5238786	20	2.0	20	100	0	80	45	0	20	35	1.51
5243493--5243855	36	10.4	36	76	12	326	26	21	13	38	1.91
5243493--5243680	102	1.8	102	90	2	306	26	22	13	37	1.92
5243493--5243920	36	12.4	35	72	15	277	25	21	13	39	1.90
5243493--5243855	138	2.6	138	82	5	428	26	21	13	38	1.91
5243797--5243925	66	1.9	67	84	7	174	24	21	13	40	1.89
5247372--5247444	3	23.0	3	81	15	85	39	0	0	60	0.97
5247370--5247442	14	5.1	14	88	11	105	41	0	0	58	0.98
5250778--5250860	32	2.5	33	80	11	98	12	9	34	43	1.75
5250855--5250909	28	2.0	27	85	3	74	36	10	27	25	1.89
5250918--5251027	33	3.4	33	83	3	125	14	10	33	40	1.81
5252537--5252583	24	2.0	24	88	8	71	29	14	4	51	1.62
5252623--5252679	29	1.9	30	85	3	80	19	15	7	57	1.60
5256952--5257031	3	26.7	3	87	0	106	58	0	3	37	1.16
5256952--5257040	18	5.1	18	80	15	89	57	0	3	39	1.15
5257342--5257565	112	2.0	113	90	2	353	28	18	13	40	1.88
5257519--5257617	48	2.1	48	100	0	198	29	18	15	37	1.91
5257407--5257729	160	2.0	159	89	3	488	26	18	15	39	1.91
5257567--5258186	112	5.5	112	97	0	1177	26	18	16	38	1.92
5258907--5259367	83	5.6	83	96	0	814	37	21	12	27	1.90
5260526--5260575	10	5.2	10	80	4	59	0	16	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5260520--5260573	27	2.0	28	92	3	92	0	16	0	83	0.65
5271173--5271210	15	2.8	13	88	11	51	68	2	5	23	1.23
5273342--5273421	3	26.7	3	87	0	115	60	0	3	36	1.15
5273368--5273430	18	3.3	18	81	12	81	58	0	1	39	1.07
5273333--5273417	15	5.5	15	82	10	100	57	0	3	38	1.16
5284718--5284750	11	2.9	12	86	13	52	69	6	0	24	1.10
5284773--5284812	3	13.3	3	100	0	80	67	0	0	32	0.91
5285883--5285942	26	2.3	26	100	0	120	5	23	10	61	1.47
5285892--5285948	26	2.5	22	83	16	64	3	19	12	64	1.40
5286096--5286202	25	4.4	24	78	8	92	45	1	16	35	1.59
5289613--5289643	15	2.0	16	93	6	55	41	6	25	25	1.79
5294761--5294860	3	33.3	3	93	0	146	60	0	1	39	1.04
5296145--5296182	15	2.8	13	88	11	51	23	5	2	68	1.23
5306763--5306841	23	3.3	23	75	15	79	82	0	13	3	0.81
5306778--5306841	11	5.7	11	83	3	83	84	0	10	4	0.76
5306773--5306843	23	3.1	22	80	6	88	81	0	14	4	0.83
5306766--5306843	16	4.8	16	75	9	77	82	0	14	3	0.81
5307997--5308705	83	8.5	83	96	0	1283	27	12	21	37	1.90
5309433--5310311	112	7.9	111	92	3	1299	38	15	19	26	1.91
5310653--5310745	3	31.0	3	88	0	123	39	1	0	59	1.05
5310674--5310754	21	3.9	21	86	3	101	41	1	0	56	1.07
5314561--5314613	24	2.1	27	82	10	67	69	7	13	9	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5319820--5319860	8	5.2	8	82	5	57	34	0	29	36	1.58
5319931--5320302	128	2.9	128	93	2	615	23	23	20	32	1.98
5320517--5320546	14	2.1	14	93	0	51	30	0	10	60	1.30
5320653--5320756	28	3.5	28	75	15	93	40	1	4	52	1.33
5320662--5320731	34	2.1	34	91	0	113	38	1	2	57	1.23
5321260--5321329	21	3.3	20	90	5	95	18	27	35	18	1.94
5321333--5321380	21	2.3	21	85	0	60	22	12	39	25	1.89
5323105--5323189	32	2.6	32	79	5	89	58	2	0	38	1.11
5323105--5323180	35	2.3	34	81	6	93	60	1	0	38	1.05
5323133--5323210	34	2.3	34	80	10	88	64	5	0	30	1.15
5324268--5324412	59	2.4	59	81	5	150	36	13	15	34	1.87
5328015--5328051	11	3.5	11	82	17	51	43	0	0	56	0.99
5331988--5332071	35	2.4	35	93	0	150	44	14	14	27	1.83
5332059--5332110	22	2.5	22	87	6	72	34	15	25	25	1.95
5332427--5332887	59	7.8	59	92	1	746	34	10	18	36	1.85
5332427--5332887	178	2.6	177	90	1	746	34	10	18	36	1.85
5336101--5336132	2	16.0	2	100	0	64	50	0	0	50	1.00
5337268--5337336	23	3.0	23	82	4	86	28	26	26	18	1.98
5344263--5344322	23	2.6	23	94	0	102	26	25	30	18	1.98
5348811--5348901	42	2.2	41	86	3	128	47	15	19	17	1.83
5350714--5350780	2	34.0	2	74	14	50	46	0	2	50	1.16
5350732--5350798	28	2.4	28	82	2	80	46	0	4	49	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5350742--5350808	28	2.5	27	83	7	82	44	1	5	47	1.36
5350742--5350808	26	2.5	28	83	11	79	44	1	5	47	1.36
5361567--5361607	19	2.2	19	95	0	73	26	14	12	46	1.80
5363350--5363884	55	9.7	55	91	0	811	34	18	11	35	1.86
5364318--5364369	20	2.6	21	87	6	72	17	30	17	34	1.93
5369573--5369680	54	2.0	54	90	0	171	35	25	10	28	1.89
5370211--5370276	25	2.6	25	81	13	82	66	4	6	22	1.32
5370234--5370295	24	2.6	25	80	15	76	62	6	6	24	1.43
5370389--5370434	23	2.0	23	100	0	92	34	8	4	52	1.52
5374716--5374758	20	2.1	21	87	8	63	69	4	13	11	1.33
5374721--5374771	20	2.4	21	75	15	52	64	1	19	13	1.37
5375046--5375081	19	1.9	19	88	5	56	55	11	0	33	1.35
5381008--5381045	15	2.5	15	95	0	67	26	10	13	50	1.73
5387716--5387741	2	13.0	2	100	0	52	50	0	0	50	1.00
5390442--5390790	123	2.8	124	91	3	562	26	19	26	28	1.99
5392258--5392337	42	1.9	42	87	5	117	3	15	6	75	1.15
5393565--5393609	13	3.4	13	77	17	56	48	15	22	13	1.79
5395855--5395885	2	15.5	2	93	0	53	48	0	3	48	1.17
5399265--5399321	22	2.5	23	91	5	98	15	24	15	43	1.86
5402459--5402501	3	14.7	3	81	13	54	62	0	0	37	0.95
5402550--5402645	28	3.4	28	72	2	77	37	18	11	32	1.87
5403760--5403792	9	3.8	9	88	4	50	30	0	0	69	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5404142--5404201	23	2.6	23	97	0	111	16	25	15	43	1.86
5416920--5417004	44	1.9	44	85	4	118	28	11	17	42	1.84
5419812--5419879	20	3.4	20	75	15	68	42	17	13	26	1.86
5429548--5429589	20	2.0	22	86	9	61	33	4	26	35	1.77
5430725--5431165	65	6.8	65	88	0	603	29	15	22	32	1.95
5431197--5431276	25	3.2	25	98	0	151	33	17	17	31	1.93
5434151--5434202	12	4.4	12	79	13	54	69	9	11	9	1.38
5434130--5434200	35	2.0	35	81	10	83	63	12	12	11	1.53
5434780--5434836	17	3.2	17	79	18	55	22	1	0	75	0.90
5434896--5434940	19	2.2	21	88	7	67	13	11	0	75	1.05
5434904--5434964	21	2.9	21	80	4	61	16	8	0	75	1.03
5434902--5434964	22	3.0	21	79	11	65	15	9	0	74	1.06
5441875--5441923	21	2.3	21	96	0	89	44	14	32	8	1.74
5444453--5444504	5	10.0	5	86	12	70	57	1	0	40	1.10
5444451--5444504	22	2.6	20	83	16	74	57	1	0	40	1.09
5445958--5445985	9	3.1	9	100	0	56	35	0	0	64	0.94
5446095--5446137	20	2.2	20	83	8	52	48	25	0	25	1.51
5446609--5446638	12	2.5	12	94	0	51	16	10	26	46	1.78
5468427--5468519	30	3.1	30	84	1	116	36	37	4	21	1.73
5468561--5468592	16	2.1	15	94	5	55	34	0	0	65	0.93
5474379--5474445	20	3.6	20	71	24	74	71	4	0	23	1.04
5474731--5474838	51	2.1	51	82	3	128	22	33	25	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5487966--5488055	30	3.0	30	83	4	101	60	6	13	20	1.55
5489144--5489179	12	3.0	12	88	12	56	16	8	33	41	1.78
5489229--5489305	3	25.7	3	84	10	104	63	1	0	35	1.03
5489611--5489847	129	1.8	129	86	1	341	23	18	32	24	1.97
5489889--5490028	64	2.2	64	80	5	158	41	15	18	25	1.89
5497992--5498049	30	1.9	30	89	0	89	56	15	12	15	1.67
5497992--5498062	30	2.3	30	83	7	72	53	16	14	15	1.73
5499504--5499560	12	4.5	12	75	18	53	14	12	33	40	1.83
5499588--5499642	3	17.7	3	85	7	74	61	1	1	34	1.17
5499588--5499654	13	5.3	12	77	10	55	62	1	1	34	1.13

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