genome.fa.s1.2.7.7.80.10.50.1000.8.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   

This is table  8  of  32  ( 3821 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)
3987874--3987946	6	11.7	6	84	8	74	52	0	47	0	1.00
3989501--3989555	14	4.1	14	75	13	53	67	0	3	29	1.08
3989607--3990245	30	23.0	26	66	24	151	64	0	2	33	1.10
3989600--3990262	38	17.9	38	65	15	156	64	0	2	33	1.10
3989604--3989688	33	2.6	32	84	3	107	70	0	1	28	0.95
3989698--3990206	48	10.3	48	65	23	156	63	0	2	33	1.11
3989667--3989886	60	3.7	62	73	22	206	63	0	2	33	1.13
3989643--3990316	112	6.0	112	94	3	1182	63	0	2	33	1.11
3989833--3990239	22	19.5	21	65	27	101	64	0	1	33	1.09
3989858--3990309	68	6.8	65	69	21	217	63	0	2	33	1.10
3989954--3990021	26	2.8	24	76	22	70	69	0	0	30	0.89
3990071--3990132	5	11.8	5	74	16	54	70	0	0	29	0.87
3989944--3990040	21	4.2	23	78	15	94	67	0	1	31	0.98
3990166--3990247	23	3.5	23	80	18	82	68	0	0	31	0.90
3989643--3990316	222	3.0	223	95	3	1205	63	0	2	33	1.11
3990466--3990519	15	3.6	15	92	0	81	33	25	7	33	1.84
3998810--3998838	2	14.5	2	100	0	58	48	0	0	51	1.00
3999416--3999441	7	3.7	7	100	0	52	53	0	0	46	1.00
4000820--4000853	12	2.8	12	90	0	50	55	44	0	0	0.99
4005630--4005657	3	9.3	3	100	0	56	67	0	0	32	0.91
4012283--4012314	3	10.7	3	93	0	55	28	0	3	68	1.04
4014812--4014844	14	2.4	14	94	0	57	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4020546--4020599	21	2.6	21	87	0	72	37	3	3	55	1.35
4020837--4020881	13	3.4	14	84	6	58	60	2	0	37	1.09
4026573--4026609	8	4.5	8	89	3	56	48	2	0	48	1.15
4056763--4056870	51	2.1	51	98	0	207	49	14	7	28	1.71
4067409--4067458	21	2.4	21	89	0	82	30	34	12	24	1.91
4071675--4071776	50	2.1	49	92	5	170	34	25	10	29	1.90
4078986--4079051	30	2.1	30	86	10	89	48	1	0	50	1.10
4080079--4080128	15	3.3	15	81	13	59	40	0	4	56	1.18
4087900--4087931	2	16.0	2	100	0	64	50	0	0	50	1.00
4092875--4092908	16	2.1	17	88	5	52	20	17	0	61	1.34
4106468--4106506	2	20.0	2	94	5	71	0	51	0	48	1.00
4106466--4106506	21	2.0	21	100	0	82	0	51	0	48	1.00
4115393--4115427	15	2.3	15	90	0	52	37	0	0	62	0.95
4126329--4126357	2	15.0	2	92	7	51	51	0	0	48	1.00
4146100--4146265	81	2.0	83	89	2	255	49	12	17	21	1.78
4152654--4152703	1	50.0	1	91	0	82	4	0	96	0	0.24
4156228--4156259	15	2.1	15	94	0	55	68	0	0	31	0.90
4156227--4156356	54	2.5	50	83	12	140	68	1	2	27	1.11
4156326--4156402	14	5.7	13	71	17	50	67	0	2	29	1.04
4156282--4156357	33	2.2	33	78	17	84	69	1	1	27	1.04
4156324--4156403	41	2.0	40	90	2	124	67	0	2	30	1.04
4156338--4156403	29	2.3	29	75	17	75	65	0	3	31	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4172329--4172358	2	15.0	2	92	0	51	53	0	46	0	1.00
4175190--4175220	16	1.9	16	93	0	53	48	3	6	41	1.45
4175537--4175570	16	2.1	16	94	0	59	50	0	29	20	1.49
4178902--4178948	23	2.0	23	87	0	67	38	2	14	44	1.58
4180614--4180660	24	2.0	23	91	4	76	48	6	0	44	1.28
4184333--4184362	2	15.0	2	100	0	60	50	0	0	50	1.00
4190789--4190841	16	3.3	16	81	0	61	37	3	5	52	1.43
4190941--4191341	141	2.8	143	87	1	592	35	11	9	44	1.73
4203188--4203212	2	12.5	2	100	0	50	52	0	0	48	1.00
4206758--4206821	30	2.1	30	88	0	92	31	6	4	57	1.44
4207636--4207673	17	2.2	17	90	9	60	0	47	2	50	1.15
4207909--4207982	39	1.9	38	83	2	94	37	5	25	31	1.79
4209592--4209638	26	1.9	25	87	12	71	34	34	4	27	1.77
4219599--4219644	12	3.8	12	77	16	51	13	10	13	63	1.53
4226503--4226557	28	1.9	29	92	3	94	34	0	0	65	0.93
4233313--4233344	2	16.0	2	100	0	64	50	0	0	50	1.00
4233728--4233770	20	2.2	19	84	12	52	9	11	2	76	1.10
4244226--4244250	13	1.9	13	100	0	50	84	0	0	16	0.63
4251525--4251608	22	3.4	25	79	14	95	44	2	1	52	1.21
4251511--4251809	106	2.8	104	82	6	348	40	2	3	54	1.28
4251627--4251685	27	2.1	28	87	3	84	44	1	1	52	1.21
4251733--4251791	27	2.1	27	84	3	73	42	3	3	50	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265462--4265772	27	10.9	27	66	18	98	52	3	2	41	1.32
4265539--4265901	147	2.4	156	84	7	467	51	4	3	41	1.36
4265708--4266150	127	3.6	121	78	13	394	53	2	2	40	1.28
4265536--4265946	160	2.6	156	79	8	412	52	3	2	40	1.35
4266049--4266102	22	2.4	22	84	6	63	48	1	0	50	1.11
4269064--4269105	21	2.0	21	100	0	84	33	23	9	33	1.87
4269109--4269135	2	13.5	2	100	0	54	48	0	0	51	1.00
4283380--4283409	2	15.0	2	100	0	60	50	0	0	50	1.00
4295756--4295794	18	2.1	18	85	9	51	46	0	10	43	1.37
4297430--4297458	2	14.5	2	100	0	58	51	0	0	48	1.00
4302874--4302899	12	2.2	12	100	0	52	38	0	0	61	0.96
4302944--4302992	22	2.2	21	82	10	53	55	0	0	44	0.99
4303128--4303216	45	2.0	45	95	0	160	40	14	10	34	1.80
4304997--4305039	15	2.6	17	79	20	56	51	0	2	46	1.13
4310657--4310724	29	2.4	28	83	11	93	35	1	0	63	1.04
4310657--4310725	30	2.4	28	81	15	88	36	1	0	62	1.04
4312533--4312577	2	22.5	2	90	0	72	46	2	2	48	1.26
4318380--4318411	14	2.4	14	94	5	57	9	37	0	53	1.34
4319808--4319888	31	2.6	31	92	1	137	41	23	6	28	1.78
4324317--4324351	2	18.0	2	94	5	63	51	0	0	48	1.00
4324351--4324380	2	15.0	2	100	0	60	50	0	50	0	1.00
4329396--4329423	12	2.3	12	100	0	56	25	7	0	67	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4336547--4336602	28	2.0	28	89	0	85	30	28	19	21	1.98
4342726--4342773	21	2.3	21	78	7	53	35	2	2	60	1.20
4344437--4345553	562	2.0	562	99	0	2198	35	12	18	33	1.89
4352213--4352267	26	2.1	26	83	6	67	60	1	0	38	1.08
4353382--4353421	19	2.2	18	86	4	53	50	7	0	42	1.30
4356087--4356111	3	8.3	3	100	0	50	0	36	0	64	0.94
4368023--4368060	19	2.0	19	100	0	76	10	10	21	57	1.61
4375127--4375228	49	2.1	49	100	0	204	49	10	5	34	1.62
4375544--4375591	26	1.9	24	83	8	60	47	2	4	45	1.33
4378794--4378848	3	18.3	3	77	7	58	40	29	30	0	1.57
4393058--4393083	7	3.7	7	100	0	52	30	53	0	15	1.42
4393056--4393090	14	2.5	14	85	0	52	34	48	0	17	1.47
4414509--4414538	15	2.0	15	93	0	51	53	3	0	43	1.17
4426829--4426918	26	3.4	26	65	20	69	34	11	6	47	1.65
4426930--4427132	110	1.8	110	87	1	298	42	4	6	46	1.51
4426930--4427136	58	3.8	55	82	10	239	41	4	6	47	1.50
4429198--4429222	2	12.5	2	100	0	50	0	52	0	48	1.00
4444850--4444893	16	2.6	17	82	10	54	61	0	0	38	0.96
4452343--4452375	2	16.5	2	93	0	57	54	0	45	0	0.99
4469669--4469713	12	3.8	12	82	5	56	60	8	2	28	1.39
4485649--4485697	2	24.5	2	91	0	80	44	0	4	51	1.20
4487818--4487843	12	2.2	12	100	0	52	38	0	11	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4489188--4489212	2	12.5	2	100	0	50	52	0	0	48	1.00
4489620--4489645	3	8.7	3	100	0	52	69	0	0	30	0.89
4491076--4491131	27	2.1	27	86	0	76	25	5	21	48	1.71
4495391--4495416	2	13.0	2	100	0	52	50	0	0	50	1.00
4502249--4502497	124	2.0	125	96	0	464	38	16	13	30	1.87
4508944--4508973	3	10.0	3	92	0	51	0	36	0	63	0.95
4508979--4509013	3	11.7	3	93	0	61	2	34	34	28	1.72
4510870--4510906	17	2.1	18	90	5	58	62	0	0	37	0.96
4524924--4525108	66	2.8	64	80	7	203	28	19	10	42	1.84
4547742--4547841	45	2.2	45	87	0	137	25	17	35	23	1.95

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