genome.fa.s12.2.7.7.80.10.50.1000.12.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: NW_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

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

This is table  12  of  18  ( 2130 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)
5013967--5014240	136	2.0	138	81	7	326	40	3	2	53	1.32
5016317--5016350	4	8.5	4	93	0	59	26	2	23	47	1.66
5019187--5019248	28	2.4	27	84	15	78	40	4	0	54	1.22
5019810--5019834	2	12.5	2	100	0	50	52	0	0	48	1.00
5022685--5022742	27	2.1	27	80	0	62	34	8	29	27	1.87
5028538--5028569	16	2.0	16	93	0	55	25	6	46	21	1.74
5028531--5028590	23	2.6	23	83	2	75	31	5	45	18	1.71
5029384--5029429	24	1.9	24	95	0	83	32	4	0	63	1.14
5030850--5030893	6	7.2	6	82	5	52	63	13	0	22	1.29
5033068--5033155	29	3.0	29	80	3	106	38	9	11	40	1.73
5033060--5033176	59	2.1	54	81	12	130	37	9	11	41	1.75
5033226--5033274	21	2.3	21	92	0	80	36	20	16	26	1.93
5038124--5038436	158	2.0	159	89	0	475	31	15	22	30	1.94
5042081--5042156	27	2.8	27	83	0	89	23	21	32	22	1.98
5042292--5042318	2	13.5	2	100	0	54	48	0	0	51	1.00
5046074--5046214	60	2.3	60	92	0	228	45	19	7	28	1.76
5046332--5046361	15	2.0	15	93	0	51	50	20	6	23	1.71
5048652--5048708	30	1.9	30	92	0	96	28	12	12	47	1.77
5051165--5051189	8	3.1	8	100	0	50	64	24	0	12	1.27
5070841--5070882	21	2.0	22	85	4	59	40	16	9	33	1.81
5073086--5073120	2	17.5	2	100	0	70	48	0	0	51	1.00
5073995--5074107	45	2.5	44	71	2	100	44	15	4	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5074013--5074119	44	2.4	44	76	3	117	42	12	4	41	1.63
5076336--5076416	29	2.7	31	84	9	105	62	0	0	37	0.95
5076336--5076432	30	3.2	30	82	10	99	61	0	1	37	1.03
5081542--5081605	33	1.9	33	90	0	101	34	12	7	45	1.71
5083139--5083163	2	12.5	2	100	0	50	52	0	0	48	1.00
5085253--5085296	21	2.0	22	86	4	63	61	9	0	29	1.27
5089030--5089065	12	2.9	13	84	16	58	0	41	16	41	1.48
5089708--5089751	21	2.0	22	86	4	63	61	9	0	29	1.27
5095457--5095481	2	12.5	2	100	0	50	52	0	0	48	1.00
5095893--5095923	2	15.5	2	100	0	62	51	0	0	48	1.00
5096442--5096505	21	2.9	22	75	13	60	48	7	1	42	1.41
5096436--5096541	22	4.8	22	71	11	81	48	4	2	44	1.38
5096422--5096541	43	2.7	43	80	3	132	47	5	2	44	1.40
5096624--5096686	10	6.4	10	73	15	60	52	0	3	44	1.17
5096623--5096680	20	3.1	18	78	11	71	50	0	3	46	1.18
5098557--5098599	3	14.3	3	85	0	59	58	0	6	34	1.25
5098557--5098599	18	2.4	18	96	0	77	58	0	6	34	1.25
5109455--5109507	17	3.2	16	77	17	54	3	50	0	45	1.19
5124697--5124729	3	11.0	3	100	0	66	33	33	0	33	1.58
5132402--5132570	84	2.0	84	91	2	277	33	15	16	34	1.90
5134200--5134243	21	2.0	22	91	4	72	61	6	0	31	1.22
5144063--5144125	30	2.2	30	82	5	76	36	11	6	46	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5144191--5144267	33	2.3	33	81	0	91	44	9	10	36	1.71
5148543--5148588	21	2.2	21	88	7	67	34	0	8	56	1.30
5150057--5150084	12	2.3	12	100	0	56	32	17	32	17	1.94
5151503--5151558	22	2.5	22	94	0	94	12	41	25	21	1.88
5154746--5154787	3	14.0	3	100	0	84	33	0	0	66	0.92
5159420--5159468	21	2.3	20	86	10	71	53	18	0	28	1.45
5161718--5161766	16	3.1	16	80	11	55	34	12	18	34	1.88
5162595--5162653	30	2.0	30	86	6	84	66	8	11	13	1.45
5162697--5162725	15	2.0	15	93	6	51	62	6	13	17	1.52
5164406--5164603	97	2.0	99	94	2	346	44	17	13	25	1.84
5174292--5174317	2	13.0	2	100	0	52	0	50	0	50	1.00
5175538--5175602	28	2.3	27	79	10	69	56	0	0	43	0.99
5175822--5175847	3	8.7	3	100	0	52	69	0	0	30	0.89
5186605--5186673	26	2.5	26	81	6	75	50	0	1	47	1.09
5190539--5190635	30	3.3	30	81	5	101	60	3	1	35	1.19
5197087--5197121	17	2.0	18	88	5	54	65	0	2	31	1.07
5201883--5202120	117	2.0	119	87	3	347	23	13	18	43	1.87
5206583--5206657	33	2.3	32	81	9	89	60	2	2	34	1.25
5207144--5207182	1	39.0	1	100	0	78	0	100	0	0	0.00
5208609--5208675	23	3.0	22	71	20	57	44	1	0	53	1.09
5212599--5212629	2	15.5	2	100	0	62	48	0	0	51	1.00
5214194--5214250	28	2.0	28	89	0	87	26	7	12	54	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5220134--5220187	23	2.3	23	78	9	56	72	5	0	22	1.05
5232925--5232963	20	2.0	20	89	0	60	38	7	17	35	1.79
5254134--5254208	34	2.2	34	85	2	98	32	14	21	32	1.93
5256183--5256250	32	2.1	32	83	0	82	19	25	19	36	1.94
5257074--5257114	3	13.3	3	94	5	73	31	0	0	68	0.90
5258276--5258495	109	2.0	109	100	0	440	45	4	23	25	1.72
5259230--5259277	18	2.5	20	86	6	73	47	0	0	52	1.00
5259250--5259324	32	2.4	31	88	6	114	52	0	5	42	1.24
5271256--5271285	14	2.1	14	93	0	51	0	3	13	83	0.77
5271411--5271451	17	2.4	17	100	0	82	24	24	21	29	1.99
5272382--5272415	16	2.1	16	88	0	50	26	0	0	73	0.83
5273297--5273402	52	2.0	53	85	8	146	26	15	5	52	1.64
5281874--5281927	27	2.0	26	86	10	74	53	9	9	27	1.63
5289804--5289837	16	2.1	16	94	0	59	23	14	0	61	1.33
5291218--5291265	4	12.2	4	79	20	57	75	0	2	22	0.91
5291218--5291265	22	2.2	23	89	10	75	75	0	2	22	0.91
5291213--5291265	23	2.5	20	82	14	70	71	0	3	24	1.02
5294967--5295026	18	3.4	18	90	2	95	21	25	13	40	1.89
5295267--5295510	81	3.1	79	86	5	298	39	9	9	41	1.70
5296475--5296508	2	17.0	2	100	0	68	50	0	0	50	1.00
5296893--5297041	40	3.9	38	76	10	151	23	17	20	38	1.93
5296873--5297077	36	5.6	36	73	9	153	21	18	21	38	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5296871--5297085	76	2.9	75	88	2	317	23	18	20	37	1.94
5298525--5298597	31	2.4	31	86	2	94	30	13	6	49	1.68
5302985--5303027	15	2.8	15	85	3	50	67	4	2	25	1.22
5313829--5313857	13	2.1	14	93	6	51	75	0	17	6	1.01
5315309--5315359	22	2.4	21	84	12	68	37	25	5	31	1.80
5315322--5315370	21	2.3	22	86	10	66	34	22	6	36	1.79
5315219--5315640	167	2.5	166	79	4	452	34	18	10	36	1.86
5315489--5315537	21	2.3	22	86	10	66	30	18	8	42	1.79
5315908--5315948	16	2.5	17	80	15	50	24	2	2	70	1.11
5317244--5317339	35	2.9	34	75	14	85	55	1	7	36	1.35
5317329--5317374	23	2.1	21	84	8	56	54	2	15	28	1.53
5317358--5317920	280	2.0	281	83	5	719	33	17	19	30	1.95
5320626--5320653	2	14.0	2	100	0	56	50	0	0	50	1.00
5324378--5324422	18	2.5	17	83	16	56	42	0	11	46	1.39
5331631--5331778	76	1.9	76	87	5	219	44	8	10	37	1.68
5331639--5331827	76	2.6	76	80	9	205	46	8	8	37	1.65
5341405--5341432	2	14.0	2	100	0	56	50	0	0	50	1.00
5347300--5347398	31	3.2	31	66	32	86	34	14	23	28	1.93
5347275--5347417	61	2.3	61	98	0	277	32	15	20	30	1.94
5347728--5347793	28	2.7	23	77	22	80	37	6	3	53	1.41
5347730--5347788	28	2.1	28	100	0	118	38	6	3	50	1.45
5355858--5355917	20	3.0	20	75	2	57	71	6	0	21	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5358429--5358494	23	2.8	23	90	2	105	30	19	34	15	1.93
5369284--5369329	20	2.3	21	88	7	69	23	0	10	65	1.24
5379616--5379653	20	1.9	20	84	10	51	71	0	0	28	0.87
5380367--5380397	16	1.9	16	93	0	53	38	3	0	58	1.15
5381805--5381844	2	20.5	2	84	5	55	50	2	0	47	1.14
5381802--5381844	21	2.0	21	90	0	68	48	2	0	48	1.14
5384706--5384780	10	7.4	10	74	18	57	50	1	1	46	1.18
5384661--5384754	45	2.1	45	92	4	154	46	4	1	47	1.28
5384646--5384758	45	2.6	41	82	13	145	46	3	0	49	1.25
5384656--5384780	9	11.8	11	70	19	61	48	3	0	48	1.23

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